LOCUS 002_TFC7A_auf_Barbe 4036113 bp DNA circular CON 12-JAN-2021 DEFINITION Bacillus subtilis subsp. subtilis str. 168 complete genome. ACCESSION NC_000964 DBLINK BioProject: PRJNA76 BioSample: SAMEA3138188 KEYWORDS RefSeq; complete genome. SOURCE Bacillus subtilis subsp. subtilis str. 168 ORGANISM Bacillus subtilis subsp. subtilis str. 168 Bacteria; Firmicutes; Bacilli; Bacillales; Bacillaceae; Bacillus. REFERENCE 1 AUTHORS Borriss,R., Danchin,A., Harwood,C.R., Medigue,C., Rocha,E.P.C., Sekowska,A. and Vallenet,D. TITLE Bacillus subtilis, the model Gram-positive bacterium: 20 years of annotation refinement JOURNAL Microb Biotechnol 11 (1), 3-17 (2018) PUBMED 29280348 REFERENCE 2 (bases 1 to 4215606) AUTHORS Belda,E., Sekowska,A., Le, Fevre,F., Morgat,A., Mornico,D., Ouzounis,C., Vallenet,D., Medigue,C. and Danchin,A. TITLE An updated metabolic view of the Bacillus subtilis 168 genome JOURNAL Microbiology (Reading, Engl.) 159 (Pt 4), 757-770 (2013) PUBMED 23429746 REFERENCE 3 (bases 1 to 4215606) AUTHORS Barbe,V., Cruveiller,S., Kunst,F., Lenoble,P., Meurice,G., Sekowska,A., Vallenet,D., Wang,T., Moszer,I., Medigue,C. and Danchin,A. TITLE From a consortium sequence to a unified sequence: the Bacillus subtilis 168 reference genome a decade later JOURNAL Microbiology (Reading, Engl.) 155 (Pt 6), 1758-1775 (2009) PUBMED 19383706 REFERENCE 4 (bases 1 to 4215606) AUTHORS Kunst,F., Ogasawara,N., Moszer,I., Albertini,A.M., Alloni,G., Azevedo,V., Bertero,M.G., Bessieres,P., Bolotin,A., Borchert,S., Borriss,R., Boursier,L., Brans,A., Braun,M., Brignell,S.C., Bron,S., Brouillet,S., Bruschi,C.V., Caldwell,B., Capuano,V., Carter,N.M., Choi,S.K., Cordani,J.J., Connerton,I.F., Cummings,N.J., Daniel,R.A., Denziot,F., Devine,K.M., Dusterhoft,A., Ehrlich,S.D., Emmerson,P.T., Entian,K.D., Errington,J., Fabret,C., Ferrari,E., Foulger,D., Fritz,C., Fujita,M., Fujita,Y., Fuma,S., Galizzi,A., Galleron,N., Ghim,S.Y., Glaser,P., Goffeau,A., Golightly,E.J., Grandi,G., Guiseppi,G., Guy,B.J., Haga,K., Haiech,J., Harwood,C.R., Henaut,A., Hilbert,H., Holsappel,S., Hosono,S., Hullo,M.F., Itaya,M., Jones,L., Joris,B., Karamata,D., Kasahara,Y., Klaerr-Blanchard,M., Klein,C., Kobayashi,Y., Koetter,P., Koningstein,G., Krogh,S., Kumano,M., Kurita,K., Lapidus,A., Lardinois,S., Lauber,J., Lazarevic,V., Lee,S.M., Levine,A., Liu,H., Masuda,S., Mauel,C., Medigue,C., Medina,N., Mellado,R.P., Mizuno,M., Moestl,D., Nakai,S., Noback,M., Noone,D., O'Reilly,M., Ogawa,K., Ogiwara,A., Oudega,B., Park,S.H., Parro,V., Pohl,T.M., Portelle,D., Porwollik,S., Prescott,A.M., Presecan,E., Pujic,P., Purnelle,B., Rapoport,G., Rey,M., Reynolds,S., Rieger,M., Rivolta,C., Rocha,E., Roche,B., Rose,M., Sadaie,Y., Sato,T., Scanlan,E., Schleich,S., Schroeter,R., Scoffone,F., Sekiguchi,J., Sekowska,A., Seror,S.J., Serror,P., Shin,B.S., Soldo,B., Sorokin,A., Tacconi,E., Takagi,T., Takahashi,H., Takemaru,K., Takeuchi,M., Tamakoshi,A., Tanaka,T., Terpstra,P., Togoni,A., Tosato,V., Uchiyama,S., Vandebol,M., Vannier,F., Vassarotti,A., Viari,A., Wambutt,R., Wedler,H., Weitzenegger,T., Winters,P., Wipat,A., Yamamoto,H., Yamane,K., Yasumoto,K., Yata,K., Yoshida,K., Yoshikawa,H.F., Zumstein,E., Yoshikawa,H. and Danchin,A. TITLE The complete genome sequence of the gram-positive bacterium Bacillus subtilis JOURNAL Nature 390 (6657), 249-256 (1997) PUBMED 9384377 REFERENCE 5 (bases 1 to 4215606) CONSRTM NCBI Genome Project TITLE Direct Submission JOURNAL Submitted (17-SEP-2018) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA REFERENCE 6 (bases 1 to 4215606) AUTHORS Genoscope and -,C.E.A. CONSRTM AMAbiotics and Genoscope TITLE Direct Submission JOURNAL Submitted (24-JAN-2013) A. Danchin, AMAbiotics, Bldg G1, 2, rue Gaston Cremieux, 91000 EVRY antoine.danchin@normalesup.org Bldg G1 Genoscope / CEA (Commissariat a l'energie atomique et aux energies alternatives): BP 191 91006 EVRY cedex - FRANCE (E-mail: seqref@genoscope.cns.fr - Web: www.genoscope.cns.fr) REFERENCE 7 (bases 1 to 4215606) AUTHORS Genoscope and -,C.E.A. CONSRTM Institut Pasteur and Genoscope TITLE Direct Submission JOURNAL Submitted (29-JAN-2009) Genoscope - Centre National de Sequencage : BP 191 91006 EVRY cedex - FRANCE (E-mail : seqref@genoscope.cns.fr - Web : www.genoscope.cns.fr) REFERENCE 8 (bases 1 to 4215606) AUTHORS Kunst,F., Ogasawara,N., Yoshikawa,H. and Danchin,A. TITLE Direct Submission JOURNAL Submitted (18-NOV-1997) I. Moszer, A. Danchin, Genetique des Genomes Bacteriens, Institut Pasteur, 28 rue du Docteur Roux, 75724 Paris Cedex 15, FRANCE. E-mail: moszer@pasteur.fr, antoine.danchin@normalesup.org Phone: +33 (0)1 45 68 84 41, Fax: +33 (0)1 45 68 89 48 COMMENT ##gff-version-START## gff-version :: 3 ##gff-version-END## FEATURES Location/Qualifiers S_feature 1..148 /Source="Nicolas_S_feature" /locus_tag="new_1_148" /HighExp="T0.30H, C30, T1.0H, T1.30H, T-0.40H, T0.0H, T2.0H, S2, T-1.10H, T2.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S1" S_feature complement(24..297) /Source="Nicolas_S_feature" /locus_tag="new_24_297_c" /HighExp="S8, C30, Etha, S3, S7, S4, Cold, BT, S5, LoTm" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.178448" /TUshortSig="SigK, SigEF" /TUshortPSig="0.621, 0.992" /TUlongSig="NA" /TUlongPSig="NA" /label="S2" promotor_-35 120..124 /Source="Nicolas_upshift_promotors" /id="U1" /multdbtbs="SigA" /comp="M16" /sig="SigA" /pcomp="0.843156843156843" /psig=1 /xcortree=2521 /SigmaFactorBS="tgtccgctttgtggataagattgtgacaacCATTGcaagctc tcgtttatTTTGGTATTATATTTGTGTTttaactcttgattactaatcctacctttcc t" /listShort="S3, dnaA, S5, dnaN, yaaA, recF" /listLong="yaaB, gyrB, S6, gyrA" /label="promotor_-35" promotor_-10 140..159 /Source="Nicolas_upshift_promotors" /id="U1" /multdbtbs="SigA" /comp="M16" /sig="SigA" /pcomp="0.843156843156843" /psig=1 /xcortree=2521 /SigmaFactorBS="tgtccgctttgtggataagattgtgacaacCATTGcaagctc tcgtttatTTTGGTATTATATTTGTGTTttaactcttgattactaatcctacctttcc t" /listShort="S3, dnaA, S5, dnaN, yaaA, recF" /listLong="yaaB, gyrB, S6, gyrA" /label="promotor_-10" S_feature 150..409 /Source="Nicolas_S_feature" /locus_tag="new_150_409" /HighExp="Heat, G180, LPhT, G150, dia15, Oxctl, S1, G135, LBGstat, HPh" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S3" upshifts 150 /Source="Nicolas_upshifts" /id="U1" /multdbtbs="SigA" /comp="M16" /sig="SigA" /pcomp="0.843156843156843" /psig=1 /xcortree=2521 /SigmaFactorBS="tgtccgctttgtggataagattgtgacaacCATTGcaagctc tcgtttatTTTGGTATTATATTTGTGTTttaactcttgattactaatcctacctttcc t" /listShort="S3, dnaA, S5, dnaN, yaaA, recF" /listLong="yaaB, gyrB, S6, gyrA" promotor_-10 complement(285..304) /Source="Nicolas_upshift_promotors" /id="U2" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.621378621378621" /psig="0.621378621378621" /xcortree=272 /SigmaFactorBS="aacacaaaaaaagagcaaatggcgcttaccaTTCGTACACat taaatgttgaaAACATATAATATAGTAGATAaatagcttttcgacaaatttcacaact t" /listShort="S2" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(297) /Source="Nicolas_upshifts" /id="U2" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.621378621378621" /psig="0.621378621378621" /xcortree=272 /SigmaFactorBS="aacacaaaaaaagagcaaatggcgcttaccaTTCGTACACat taaatgttgaaAACATATAATATAGTAGATAaatagcttttcgacaaatttcacaact t" /listShort="S2" /GFF_Attribute="listLong" S_feature complement(299..1067) /Source="Nicolas_S_feature" /locus_tag="new_299_1067_c" /HighExp="S4, LoTm, S3, C30, S5, S7, S6, T5.0H, S8, M9-stat" /AntisenseName="dnaA" /AntisenseCor="-0.57810076860528403" /AntisenseRegPval="-24.7" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig="0.992" /TUlongSig="NA" /TUlongPSig="NA" /label="S4" promotor_-35 complement(318..326) /Source="Nicolas_upshift_promotors" /id="U2" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.621378621378621" /psig="0.621378621378621" /xcortree=272 /SigmaFactorBS="aacacaaaaaaagagcaaatggcgcttaccaTTCGTACACat taaatgttgaaAACATATAATATAGTAGATAaatagcttttcgacaaatttcacaact t" /listShort="S2" /GFF_Attribute="listLong" /label="promotor_-35" CDS 410..1750 /gene="dnaA" /locus_tag="BSU_00010" /old_locus_tag="BSU00010" /function="16.9: Replicate" /experiment="publication(s) with functional evidences, PMID:2167836, 2846289, 12682299, 16120674, 1779750, 28166228" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 2167836, 2846289, 12682299, 16120674, 1779750, 28166228; Product type f : factor" /codon_start=1 /transl_table=11 /product="chromosomal replication initiator informational ATPase" /protein_id="NP_387882.1" /db_xref="EnsemblGenomes-Gn:BSU00010" /db_xref="EnsemblGenomes-Tr:CAB11777" /db_xref="GOA:P05648" /db_xref="InterPro:IPR001957" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR010921" /db_xref="InterPro:IPR013159" /db_xref="InterPro:IPR013317" /db_xref="InterPro:IPR018312" /db_xref="InterPro:IPR020591" /db_xref="InterPro:IPR024633" /db_xref="InterPro:IPR027417" /db_xref="PDB:4TPS" /db_xref="SubtiList:BG10065" /db_xref="UniProtKB/Swiss-Prot:P05648" /translation="MENILDLWNQALAQIEKKLSKPSFETWMKSTKAHSLQGDTLTIT APNEFARDWLESRYLHLIADTIYELTGEELSIKFVIPQNQDVEDFMPKPQVKKAVKED TSDFPQNMLNPKYTFDTFVIGSGNRFAHAASLAVAEAPAKAYNPLFIYGGVGLGKTHL MHAIGHYVIDHNPSAKVVYLSSEKFTNEFINSIRDNKAVDFRNRYRNVDVLLIDDIQF LAGKEQTQEEFFHTFNTLHEESKQIVISSDRPPKEIPTLEDRLRSRFEWGLITDITPP DLETRIAILRKKAKAEGLDIPNEVMLYIANQIDSNIRELEGALIRVVAYSSLINKDIN ADLAAEALKDIIPSSKPKVITIKEIQRVVGQQFNIKLEDFKAKKRTKSVAFPRQIAMY LSREMTDSSLPKIGEEFGGRDHTTVIHAHEKISKLLADDEQLQQHVKEIKEQLK*" gene 410..1750 /gene="dnaA" /locus_tag="BSU_00010" /old_locus_tag="BSU00010" promotor_-10 complement(1040..1058) /Source="Nicolas_upshift_promotors" /id="U3" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.992007992007992" /psig="0.992007992007992" /xcortree=1004 /SigmaFactorBS="ttcttcgtgtaatgtgttaaatgtatggaaaaattcttcctg ggtttGTTCTTtccccgctaaaaattGAATATCATCTATCAAAAGcacatcaacattt c" /listShort="S4, S2" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1066) /Source="Nicolas_upshifts" /id="U3" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.992007992007992" /psig="0.992007992007992" /xcortree=1004 /SigmaFactorBS="ttcttcgtgtaatgtgttaaatgtatggaaaaattcttcctg ggtttGTTCTTtccccgctaaaaattGAATATCATCTATCAAAAGcacatcaacattt c" /listShort="S4, S2" /GFF_Attribute="listLong" promotor_-35 complement(1074..1079) /Source="Nicolas_upshift_promotors" /id="U3" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.992007992007992" /psig="0.992007992007992" /xcortree=1004 /SigmaFactorBS="ttcttcgtgtaatgtgttaaatgtatggaaaaattcttcctg ggtttGTTCTTtccccgctaaaaattGAATATCATCTATCAAAAGcacatcaacattt c" /listShort="S4, S2" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 1751..1938 /Source="Nicolas_S_feature" /locus_tag="new_1751_1938" /HighExp="G150, Heat, G180, G135, Paraq, Oxctl, dia0, LBGstat, S1, Lbexp" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S5" CDS 1939..3075 /gene="dnaN" /locus_tag="BSU_00020" /old_locus_tag="BSU00020" /EC_number="2.7.7.7" /function="16.9: Replicate" /experiment="publication(s) with functional evidences, PMID:2846289, 11395445, 12682299, 20453097, 23228104, 28878042" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 2846289, 11395445, 12682299, 20453097, 23228104, 28878042; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="DNA polymerase III (beta subunit)" /protein_id="NP_387883.1" /db_xref="EnsemblGenomes-Gn:BSU00020" /db_xref="EnsemblGenomes-Tr:CAB11778" /db_xref="GOA:P05649" /db_xref="InterPro:IPR001001" /db_xref="InterPro:IPR022634" /db_xref="InterPro:IPR022635" /db_xref="InterPro:IPR022637" /db_xref="PDB:4TR6" /db_xref="SubtiList:BG10066" /db_xref="UniProtKB/Swiss-Prot:P05649" /translation="MKFTIQKDRLVESVQDVLKAVSSRTTIPILTGIKIVASDDGVSF TGSDSDISIESFIPKEEGDKEIVTIEQPGSIVLQARFFSEIVKKLPMATVEIEVQNQY LTIIRSGKAEFNLNGLDADEYPHLPQIEEHHAIQIPTDLLKNLIRQTVFAVSTSETRP ILTGVNWKVEQSELLCTATDSHRLALRKAKLDIPEDRSYNVVIPGKSLTELSKILDDN QELVDIVITETQVLFKAKNVLFFSRLLDGNYPDTTSLIPQDSKTEIIVNTKEFLQAID RASLLAREGRNNVVKLSAKPAESIEISSNSPEIGKVVEAIVADQIEGEELNISFSPKY MLDALKVLEGAEIRVSFTGAMRPFLIRTPNDETIVQLILPVRTY*" gene 1939..3075 /gene="dnaN" /locus_tag="BSU_00020" /old_locus_tag="BSU00020" downshifts 3059 /Source="Nicolas_upshifts" /id="D1" /incds=0 /nref=29 /ntot=161 /MaxReadThrough="5.22584" /MaxDrop="4.17087" /score="21.887269" /energy="-14.2" /TU="U1" /idTUdmin="U1" /TUdmin="-572" /isTUend="FALSE" promotor_-35 3140..3144 /Source="Nicolas_upshift_promotors" /id="U4" /multdbtbs="SigA" /comp="M16" /sig="SigA" /pcomp="0.826173826173826" /psig="0.999000999001" /xcortree=2587 /SigmaFactorBS="ttctattcggtatctgctccgacaagttttcCCTTTccctaa ttcgttttttTTTAGTACAATTAGATATTAgtgatatttgaaagaggtcgatataatg g" /listShort="yaaA, recF, yaaB, gyrB, S6, gyrA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 3161..3180 /Source="Nicolas_upshift_promotors" /id="U4" /multdbtbs="SigA" /comp="M16" /sig="SigA" /pcomp="0.826173826173826" /psig="0.999000999001" /xcortree=2587 /SigmaFactorBS="ttctattcggtatctgctccgacaagttttcCCTTTccctaa ttcgttttttTTTAGTACAATTAGATATTAgtgatatttgaaagaggtcgatataatg g" /listShort="yaaA, recF, yaaB, gyrB, S6, gyrA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 3169 /Source="Nicolas_upshifts" /id="U4" /multdbtbs="SigA" /comp="M16" /sig="SigA" /pcomp="0.826173826173826" /psig="0.999000999001" /xcortree=2587 /SigmaFactorBS="ttctattcggtatctgctccgacaagttttcCCTTTccctaa ttcgttttttTTTAGTACAATTAGATATTAgtgatatttgaaagaggtcgatataatg g" /listShort="yaaA, recF, yaaB, gyrB, S6, gyrA" /GFF_Attribute="listLong" CDS 3206..3421 /gene="rlbA" /locus_tag="BSU_00030" /old_locus_tag="BSU00030" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:24637032, 24939895" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 24637032, 24939895; Product type f: factor" /codon_start=1 /transl_table=11 /product="RNA binding protein involved in ribosome maturation" /protein_id="NP_387884.1" /db_xref="EnsemblGenomes-Gn:BSU00030" /db_xref="EnsemblGenomes-Tr:CAB11779" /db_xref="GOA:P05650" /db_xref="InterPro:IPR002942" /db_xref="InterPro:IPR014330" /db_xref="InterPro:IPR036986" /db_xref="SubtiList:BG10067" /db_xref="UniProtKB/Swiss-Prot:P05650" /translation="MANPISIDTEMITLGQFLKLADVIQSGGMAKWFLSEHEVLVNDE PDNRRGRKLYVGDVVEIEGFGSFQVVN*" gene 3206..3421 /gene="rlbA" /locus_tag="BSU_00030" /old_locus_tag="BSU00030" CDS 3437..4549 /gene="recF" /locus_tag="BSU_00040" /old_locus_tag="BSU00040" /function="16.6: Maintain" /function="16.9: Replicate" /experiment="publication(s) with functional evidences, PMID:15186413, 16061691, 16385024, 22342069" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15186413, 16061691, 16385024, 22342069; Product type f: factor" /codon_start=1 /transl_table=11 /product="RecA filament-DNA complex stabilisation, ssDNA and dsDNA binding, ATP binding" /protein_id="NP_387885.1" /db_xref="EnsemblGenomes-Gn:BSU00040" /db_xref="EnsemblGenomes-Tr:CAB11780" /db_xref="GOA:P05651" /db_xref="InterPro:IPR001238" /db_xref="InterPro:IPR003395" /db_xref="InterPro:IPR018078" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG10068" /db_xref="UniProtKB/Swiss-Prot:P05651" /translation="MYIQNLELTSYRNYDHAELQFENKVNVIIGENAQGKTNLMEAIY VLSMAKSHRTSNDKELIRWDKDYAKIEGRVMKQNGAIPMQLVISKKGKKGKVNHIEQQ KLSQYVGALNTIMFAPEDLNLVKGSPQVRRRFLDMEIGQVSPVYLHDLSLYQKILSQR NHFLKQLQTRKQTDRTMLDVLTDQLVEVAAKVVVKRLQFTAQLEKWAQPIHAGISRGL EELTLKYHTALDVSDPLDLSKIGDSYQEAFSKLREKEIERGVTLSGPHRDDVLFYVNG RDVQTYGSQGQQRTTALSLKLAEIDLIHEEIGEYPILLLDDVLSELDDYRQSHLLHTI QGRVQTFVTTTSVDGIDHETLRQAGMFRVQNGALVK*" gene 3437..4549 /gene="recF" /locus_tag="BSU_00040" /old_locus_tag="BSU00040" misc_feature 3635..3654 /Source="Nicolas_upshift_promotors" /id="U5" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.992007992007992" /psig=1 /xcortree=2750 /SigmaFactorBS="cggacatcaaatgacaaagaacttatacggtgggacaaagac TATGCTAAAATAGAGGGAAGagtgatgaagcaaaacggggcgatcccgatgcagctcg t" /listShort="yaaB, gyrB, S6, gyrA" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 3653 /Source="Nicolas_upshifts" /id="U5" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.992007992007992" /psig=1 /xcortree=2750 /SigmaFactorBS="cggacatcaaatgacaaagaacttatacggtgggacaaagac TATGCTAAAATAGAGGGAAGagtgatgaagcaaaacggggcgatcccgatgcagctcg t" /listShort="yaaB, gyrB, S6, gyrA" /GFF_Attribute="listLong" CDS 4567..4812 /gene="remB" /locus_tag="BSU_00050" /old_locus_tag="BSU00050" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:19363116" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 19363116; Product type r: regulator" /codon_start=1 /transl_table=11 /product="regulator of extracellular matrix formation" /protein_id="NP_387886.2" /db_xref="EnsemblGenomes-Gn:BSU00050" /db_xref="EnsemblGenomes-Tr:CAB11781" /db_xref="InterPro:IPR007169" /db_xref="SubtiList:BG10069" /db_xref="UniProtKB/Swiss-Prot:P37525" /translation="MYIHLGDDFVVSTRDIVGIFDFKANMSPIVEEFLKKQKHKVVPS VNGTPKSIVVTVQNIYYSPLSSSTLKKRAQFMFEIDS*" gene 4567..4812 /gene="remB" /locus_tag="BSU_00050" /old_locus_tag="BSU00050" CDS 4867..6783 /gene="gyrB" /locus_tag="BSU_00060" /old_locus_tag="BSU00060" /EC_number="5.99.1.3" /function="16.2: Construct biomass (Anabolism)" /function="16.9: Replicate" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:12682299, 12767818, 17320901" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 12767818, 17320901; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="DNA gyrase (subunit B)" /protein_id="NP_387887.1" /db_xref="EnsemblGenomes-Gn:BSU00060" /db_xref="EnsemblGenomes-Tr:CAB11782" /db_xref="GOA:P05652" /db_xref="InterPro:IPR001241" /db_xref="InterPro:IPR002288" /db_xref="InterPro:IPR003594" /db_xref="InterPro:IPR006171" /db_xref="InterPro:IPR011557" /db_xref="InterPro:IPR013506" /db_xref="InterPro:IPR013759" /db_xref="InterPro:IPR013760" /db_xref="InterPro:IPR014721" /db_xref="InterPro:IPR018522" /db_xref="InterPro:IPR020568" /db_xref="InterPro:IPR034160" /db_xref="InterPro:IPR036890" /db_xref="SubtiList:BG10070" /db_xref="UniProtKB/Swiss-Prot:P05652" /translation="MEQQQNSYDENQIQVLEGLEAVRKRPGMYIGSTNSKGLHHLVWE IVDNSIDEALAGYCTDINIQIEKDNSITVVDNGRGIPVGIHEKMGRPAVEVIMTVLHA GGKFDGSGYKVSGGLHGVGASVVNALSTELDVTVHRDGKIHRQTYKRGVPVTDLEIIG ETDHTGTTTHFVPDPEIFSETTEYDYDLLANRVRELAFLTKGVNITIEDKREGQERKN EYHYEGGIKSYVEYLNRSKEVVHEEPIYIEGEKDGITVEVALQYNDSYTSNIYSFTNN INTYEGGTHEAGFKTGLTRVINDYARKKGLIKENDPNLSGDDVREGLTAIISIKHPDP QFEGQTKTKLGNSEARTITDTLFSTAMETFMLENPDAAKKIVDKGLMAARARMAAKKA RELTRRKSALEISNLPGKLADCSSKDPSISELYIVEGDSAGGSAKQGRDRHFQAILPL RGKILNVEKARLDKILSNNEVRSMITALGTGIGEDFNLEKARYHKVVIMTDADVDGAH IRTLLLTFFYRYMRQIIENGYVYIAQPPLYKVQQGKRVEYAYNDKELEELLKTLPQTP KPGLQRYKGLGEMNATQLWETTMDPSSRTLLQVTLEDAMDADETFEMLMGDKVEPRRN FIEANARYVKNLDI*" gene 4867..6783 /gene="gyrB" /locus_tag="BSU_00060" /old_locus_tag="BSU00060" promotor_-10 complement(6412..6430) /Source="Nicolas_upshift_promotors" /id="U6" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1200 /SigmaFactorBS="cggcggctgcgcaatgtacacgtAGCCATtttcgataatttg gcGCATATATCTGTAAAAGAAcgttaacagcagtgttctgatgtgcgcgccgtcaaca t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(6414) /Source="Nicolas_upshifts" /id="U6" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1200 /SigmaFactorBS="cggcggctgcgcaatgtacacgtAGCCATtttcgataatttg gcGCATATATCTGTAAAAGAAcgttaacagcagtgttctgatgtgcgcgccgtcaaca t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(6446..6451) /Source="Nicolas_upshift_promotors" /id="U6" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1200 /SigmaFactorBS="cggcggctgcgcaatgtacacgtAGCCATtttcgataatttg gcGCATATATCTGTAAAAGAAcgttaacagcagtgttctgatgtgcgcgccgtcaaca t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 6784..6993 /Source="Nicolas_S_feature" /locus_tag="new_6784_6993" /HighExp="Cold, H2O2, G180, Oxctl, G135, G150, Sw, dia15, LBGexp, Paraq" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="1, 0.999" /TUlongSig="SigA" /TUlongPSig=1 /label="S6" CDS 6994..9459 /gene="gyrA" /locus_tag="BSU_00070" /old_locus_tag="BSU00070" /EC_number="5.99.1.3" /function="16.3: Control" /function="16.2: Construct biomass (Anabolism)" /function="16.9: Replicate" /experiment="publication(s) with functional evidences, PMID:12682299, 12767818, 17320901, 27557712" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 12767818, 17320901, 27557712; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="DNA gyrase (subunit A)" /protein_id="NP_387888.1" /db_xref="EnsemblGenomes-Gn:BSU00070" /db_xref="EnsemblGenomes-Tr:CAB11783" /db_xref="GOA:P05653" /db_xref="InterPro:IPR002205" /db_xref="InterPro:IPR005743" /db_xref="InterPro:IPR006691" /db_xref="InterPro:IPR013757" /db_xref="InterPro:IPR013758" /db_xref="InterPro:IPR013760" /db_xref="InterPro:IPR024946" /db_xref="InterPro:IPR035516" /db_xref="PDB:4DDQ" /db_xref="SubtiList:BG10071" /db_xref="UniProtKB/Swiss-Prot:P05653" /translation="MSEQNTPQVREINISQEMRTSFLDYAMSVIVSRALPDVRDGLKP VHRRILYAMNDLGMTSDKPYKKSARIVGEVIGKYHPHGDSAVYESMVRMAQDFNYRYM LVDGHGNFGSVDGDSAAAMRYTEARMSKISMEILRDITKDTIDYQDNYDGSEREPVVM PSRFPNLLVNGAAGIAVGMATNIPPHQLGEIIDGVLAVSENPDITIPELMEVIPGPDF PTAGQILGRSGIRKAYESGRGSITIRAKAEIEQTSSGKERIIVTELPYQVNKAKLIEK IADLVRDKKIEGITDLRDESDRTGMRIVIEIRRDANANVILNNLYKQTALQTSFGINL LALVDGQPKVLTLKQCLEHYLDHQKVVIRRRTAYELRKAEARAHILEGLRVALDHLDA VISLIRNSQTAEIARTGLIEQFSLTEKQAQAILDMRLQRLTGLEREKIEEEYQSLVKL IAELKDILANEYKVLEIIREELTEIKERFNDERRTEIVTSGLETIEDEDLIERENIVV TLTHNGYVKRLPASTYRSQKRGGKGVQGMGTNEDDFVEHLISTSTHDTILFFSNKGKV YRAKGYEIPEYGRTAKGIPIINLLEVEKGEWINAIIPVTEFNAELYLFFTTKHGVSKR TSLSQFANIRNNGLIALSLREDDELMGVRLTDGTKQIIIGTKNGLLIRFPETDVREMG RTAAGVKGITLTDDDVVVGMEILEEESHVLIVTEKGYGKRTPAEEYRTQSRGGKGLKT AKITENNGQLVAVKATKGEEDLMIITASGVLIRMDINDISITGRVTQGVRLIRMAEEE HVATVALVEKNEEDENEEEQEEV*" gene 6994..9459 /gene="gyrA" /locus_tag="BSU_00070" /old_locus_tag="BSU00070" promotor_-35 9373..9376 /Source="Nicolas_upshift_promotors" /id="U7" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.418581418581419" /psig="0.9000999000999" /xcortree=2642 /SigmaFactorBS="tggacatcaatgatatctccatcaccggacgtgtcactcaag gtgtgcgtctcatcagaATGGcagaagaagagcatgtTGCTACAGTAGCTTTAGTtga g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 9374 /Source="Nicolas_upshifts" /id="U7" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.418581418581419" /psig="0.9000999000999" /xcortree=2642 /SigmaFactorBS="tggacatcaatgatatctccatcaccggacgtgtcactcaag gtgtgcgtctcatcagaATGGcagaagaagagcatgtTGCTACAGTAGCTTTAGTtga g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 9393..9410 /Source="Nicolas_upshift_promotors" /id="U7" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.418581418581419" /psig="0.9000999000999" /xcortree=2642 /SigmaFactorBS="tggacatcaatgatatctccatcaccggacgtgtcactcaag gtgtgcgtctcatcagaATGGcagaagaagagcatgtTGCTACAGTAGCTTTAGTtga g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" downshifts 9440 /Source="Nicolas_upshifts" /id="D2" /incds=0 /nref=251 /ntot=261 /MaxReadThrough="3.73971" /MaxDrop="8.1288" /score="33.5021066" /energy="-14.1" /TU="NA" /idTUdmin="U4" /TUdmin=0 /isTUend="TRUE" promotor_-35 9504..9510 /Source="Nicolas_upshift_promotors" /id="U8" /multdbtbs="SigA" /comp="M17" /sig="SigA" /pcomp="0.798201798201798" /psig=1 /xcortree=2622 /SigmaFactorBS="cagctgaaatagctgcgcttttttgtgtcataaccCTTTACA gtcataaaaattaTGGTATAATCATTTCTGTTGtctttttaaagacacaagcatgacc a" /listShort="S7, rrnO-16S" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 9524..9543 /Source="Nicolas_upshift_promotors" /id="U8" /multdbtbs="SigA" /comp="M17" /sig="SigA" /pcomp="0.798201798201798" /psig=1 /xcortree=2622 /SigmaFactorBS="cagctgaaatagctgcgcttttttgtgtcataaccCTTTACA gtcataaaaattaTGGTATAATCATTTCTGTTGtctttttaaagacacaagcatgacc a" /listShort="S7, rrnO-16S" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 9529..9614 /Source="Nicolas_S_feature" /locus_tag="new_9529_9614" /HighExp="LBGstat, H2O2, Paraq, Oxctl, UNK1, LBGexp, LPhT, MG-0.2, MG 25, G180" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S7" upshifts 9529 /Source="Nicolas_upshifts" /id="U8" /multdbtbs="SigA" /comp="M17" /sig="SigA" /pcomp="0.798201798201798" /psig=1 /xcortree=2622 /SigmaFactorBS="cagctgaaatagctgcgcttttttgtgtcataaccCTTTACA gtcataaaaattaTGGTATAATCATTTCTGTTGtctttttaaagacacaagcatgacc a" /listShort="S7, rrnO-16S" /GFF_Attribute="listLong" promotor_-35 9600..9607 /Source="Nicolas_upshift_promotors" /id="U9" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.889110889110889" /psig=1 /xcortree=2634 /SigmaFactorBS="cacaagcatgaccattatgactagtaaaaactttttcaaaaa agTATTGACCtagttaactaaaaaTGTTACTATTAAGTAGTCGCtttgagagaagcac a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 9616 /Source="Nicolas_upshifts" /id="U9" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.889110889110889" /psig=1 /xcortree=2634 /SigmaFactorBS="cacaagcatgaccattatgactagtaaaaactttttcaaaaa agTATTGACCtagttaactaaaaaTGTTACTATTAAGTAGTCGCtttgagagaagcac a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 9622..9641 /Source="Nicolas_upshift_promotors" /id="U9" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.889110889110889" /psig=1 /xcortree=2634 /SigmaFactorBS="cacaagcatgaccattatgactagtaaaaactttttcaaaaa agTATTGACCtagttaactaaaaaTGTTACTATTAAGTAGTCGCtttgagagaagcac a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" rRNA 9810..11364 /gene="rrnO-16S" /locus_tag="BSU_rRNA_1" /product="ribosomal RNA-16S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 9810..11364 /gene="rrnO-16S" /locus_tag="BSU_rRNA_1" tRNA 11464..11540 /gene="trnO-Ile" /locus_tag="BSU_tRNA_5" /product="tRNA-Ile" /inference="profile:tRNAscan:1.23" /note="Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 11464..11540 /gene="trnO-Ile" /locus_tag="BSU_tRNA_5" tRNA 11552..11627 /gene="trnO-Ala" /locus_tag="BSU_tRNA_6" /product="tRNA-Ala" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Ala(UGC); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 11552..11627 /gene="trnO-Ala" /locus_tag="BSU_tRNA_6" rRNA 11709..14636 /gene="rrnO-23S" /locus_tag="BSU_rRNA_2" /product="ribosomal RNA-23S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 11709..14636 /gene="rrnO-23S" /locus_tag="BSU_rRNA_2" rRNA 14692..14810 /gene="rrnO-5S" /locus_tag="BSU_rRNA_3" /product="ribosomal RNA-5S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 14692..14810 /gene="rrnO-5S" /locus_tag="BSU_rRNA_3" S_feature 14811..15868 /Source="Nicolas_S_feature" /locus_tag="new_14811_15868" /HighExp="G180, T0.0H, T0.30H, G135, T-0.40H, LBGstat, Cold, Paraq, C30, Oxctl" /AntisenseName="yaaC" /AntisenseCor="-4.5985764709218099E-2" /AntisenseRegPval="-0.3" /CDS_PredictionProba="NA" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S8" CDS complement(14847..15794) /gene="yaaC" /locus_tag="BSU_00080" /old_locus_tag="BSU00080" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 22333191" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_387889.1" /db_xref="EnsemblGenomes-Gn:BSU00080" /db_xref="EnsemblGenomes-Tr:CAB11784" /db_xref="InterPro:IPR026988" /db_xref="SubtiList:BG10072" /db_xref="UniProtKB/Swiss-Prot:P37526" /translation="MTYHEWKDLALFYSVESTQKFLEKVYILNGINDAKKNSFKNSER FIYFLKHAESFYKQAAYSPLEIKPILLFYGMAQLIKACLITRDPHYPSHTSVLAHGVT TRKRKKQNYCFSDDEVKIQRNGLCVHFMKHLFGQSDIVDERYTMKKLLMAIPELSDIF YFQQKERFMTKVEKDKNEIFVPEEVVINYKMSDSRFAEYMSHHYQWSFTKKNEHGLLF EISPQDKEPWTSTSLLFDMEKNQYYIPSQREQFLRLPEMTIHYLILYNVGMIARYETE WWYELLTQHISDDYVLIQQFLLVSEKKFPKYASQFLLHF*" gene complement(14847..15794) /gene="yaaC" /locus_tag="BSU_00080" /old_locus_tag="BSU00080" promotor_-35 15847..15854 /Source="Nicolas_upshift_promotors" /id="U10" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.721278721278721" /psig=1 /xcortree=2668 /SigmaFactorBS="ctttccgttatctaaatatttcaactctttcccgcttCCTTG ACAtgctcttggctagtTGATAATCTACATATAATATtttgccgaaaagagggggatt t" /listShort="guaB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 15869..15888 /Source="Nicolas_upshift_promotors" /id="U10" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.721278721278721" /psig=1 /xcortree=2668 /SigmaFactorBS="ctttccgttatctaaatatttcaactctttcccgcttCCTTG ACAtgctcttggctagtTGATAATCTACATATAATATtttgccgaaaagagggggatt t" /listShort="guaB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 15870 /Source="Nicolas_upshifts" /id="U10" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.721278721278721" /psig=1 /xcortree=2668 /SigmaFactorBS="ctttccgttatctaaatatttcaactctttcccgcttCCTTG ACAtgctcttggctagtTGATAATCTACATATAATATtttgccgaaaagagggggatt t" /listShort="guaB" /GFF_Attribute="listLong" upshifts complement(15875) /Source="Nicolas_upshifts" /id="U11" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.89010989010989" /psig="0.89010989010989" /xcortree=947 /SigmaFactorBS="tgaaaatttactttcccacaTTAGTAAatccccctcttttCG GCAAAATATTatatgtagattatcaactagccaagagcatgtcaaggaagcgggaaag a" /listShort="yaaC" /GFF_Attribute="listLong" promotor_-10 complement(15884..15895) /Source="Nicolas_upshift_promotors" /id="U11" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.89010989010989" /psig="0.89010989010989" /xcortree=947 /SigmaFactorBS="tgaaaatttactttcccacaTTAGTAAatccccctcttttCG GCAAAATATTatatgtagattatcaactagccaagagcatgtcaaggaagcgggaaag a" /listShort="yaaC" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(15909..15915) /Source="Nicolas_upshift_promotors" /id="U11" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.89010989010989" /psig="0.89010989010989" /xcortree=947 /SigmaFactorBS="tgaaaatttactttcccacaTTAGTAAatccccctcttttCG GCAAAATATTatatgtagattatcaactagccaagagcatgtcaaggaagcgggaaag a" /listShort="yaaC" /GFF_Attribute="listLong" /label="promotor_-35" CDS 15915..17381 /gene="guaB" /locus_tag="BSU_00090" /old_locus_tag="BSU00090" /EC_number="1.1.1.205" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12682299, 1722815, 17611193, 1979163, 3125411, 8917437" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 1722815, 17611193, 1979163, 3125411, 8917437; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="inosine-monophosphate dehydrogenase" /protein_id="NP_387890.1" /db_xref="EnsemblGenomes-Gn:BSU00090" /db_xref="EnsemblGenomes-Tr:CAB11785" /db_xref="GOA:P21879" /db_xref="InterPro:IPR000644" /db_xref="InterPro:IPR001093" /db_xref="InterPro:IPR005990" /db_xref="InterPro:IPR013785" /db_xref="InterPro:IPR015875" /db_xref="SubtiList:BG10073" /db_xref="UniProtKB/Swiss-Prot:P21879" /translation="MWESKFSKEGLTFDDVLLVPAKSEVLPRDVDLSVELTKTLKLNI PVISAGMDTVTESAMAIAMARQGGLGIIHKNMSIEQQAEQVDKVKRSERGVITNPFFL TPDHQVFDAEHLMGKYRISGVPIVNNEEDQKLVGIITNRDLRFISDYSMKISDVMTKE ELVTASVGTTLDEAEKILQKHKIEKLPLVDDQNKLKGLITIKDIEKVIEFPNSSKDIH GRLIVGAAVGVTGDTMTRVKKLVEANVDVIVIDTAHGHSQGVLNTVTKIRETYPELNI IAGNVATAEATRALIEAGADVVKVGIGPGSICTTRVVAGVGVPQITAIYDCATEARKH GKTIIADGGIKFSGDITKALAAGGHAVMLGSLLAGTSESPGETEIYQGRRFKVYRGMG SVAAMEKGSKDRYFQEENKKFVPEGIEGRTPYKGPVEETVYQLVGGLRSGMGYCGSKD LRALREEAQFIRMTGAGLRESHPHDVQITKESPNYTIS*" gene 15915..17381 /gene="guaB" /locus_tag="BSU_00090" /old_locus_tag="BSU00090" downshifts complement(15919) /Source="Nicolas_upshifts" /id="D3" /incds=0 /nref=33 /ntot=102 /MaxReadThrough="1.81989" /MaxDrop="4.44626" /score="-6.76739893" /energy="-12.2" /TU="NA" /idTUdmin="U12" /TUdmin=0 /isTUend="TRUE" promotor_no_box complement(15945..16045) /Source="Nicolas_upshift_promotors" /id="U12" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.922077922077922" /psig="0.016983016983017" /xcortree=82 /SigmaFactorBS="atatttagctttaacgtttttgtaagttctacagataaatcc acatcacgcggaagtacctcagactttgctggtacaagcagcacatcgtcgaacgtta a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts complement(15985) /Source="Nicolas_upshifts" /id="U12" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.922077922077922" /psig="0.016983016983017" /xcortree=82 /SigmaFactorBS="atatttagctttaacgtttttgtaagttctacagataaatcc acatcacgcggaagtacctcagactttgctggtacaagcagcacatcgtcgaacgtta a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" S_feature complement(17238..17833) /Source="Nicolas_S_feature" /locus_tag="new_17238_17833_c" /HighExp="Etha, Gly, C30, Salt, S8, S6, HiTm, S7, Sw, C90" /AntisenseName="dacA" /AntisenseCor="-0.39306815699287101" /AntisenseRegPval="-10.6" /CDS_PredictionProba="NA" /TUshortSig="SigB" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S9" downshifts 17369 /Source="Nicolas_upshifts" /id="D4" /incds=0 /nref=243 /ntot=277 /MaxReadThrough="3.34899" /MaxDrop="7.78161" /score="26.7620012" /energy="-10.6" /TU="NA" /idTUdmin="U10" /TUdmin="-14" /isTUend="TRUE" promotor_-35 17427..17431 /Source="Nicolas_upshift_promotors" /id="U13" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.948051948051948" /psig=1 /xcortree=2602 /SigmaFactorBS="aaattaaaaacatttgacagggtctctgactctgTCTATttt ttttatactgatTATGATAAAATTTATACTGTtgtgcattgaaaatgtccttaacggc t" /listShort="S10, dacA, S11, S12, pdxS, pdxT, NA, serS" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 17447..17466 /Source="Nicolas_upshift_promotors" /id="U13" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.948051948051948" /psig=1 /xcortree=2602 /SigmaFactorBS="aaattaaaaacatttgacagggtctctgactctgTCTATttt ttttatactgatTATGATAAAATTTATACTGTtgtgcattgaaaatgtccttaacggc t" /listShort="S10, dacA, S11, S12, pdxS, pdxT, NA, serS" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 17453..17533 /Source="Nicolas_S_feature" /locus_tag="new_17453_17533" /HighExp="C30, LBGstat, G180, G150, LBGexp, G135, Lbexp, Oxctl, dia0, MG 25" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S10" upshifts 17453 /Source="Nicolas_upshifts" /id="U13" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.948051948051948" /psig=1 /xcortree=2602 /SigmaFactorBS="aaattaaaaacatttgacagggtctctgactctgTCTATttt ttttatactgatTATGATAAAATTTATACTGTtgtgcattgaaaatgtccttaacggc t" /listShort="S10, dacA, S11, S12, pdxS, pdxT, NA, serS" /GFF_Attribute="listLong" CDS 17534..18865 /gene="dacA" /locus_tag="BSU_00100" /old_locus_tag="BSU00100" /EC_number="3.4.16.4" /experiment="publication(s) with functional evidences, PMID:8370539, 9864321, 10383963, 21378199" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8370539, 9864321, 10383963, 21378199; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 5)" /protein_id="NP_387891.1" /db_xref="EnsemblGenomes-Gn:BSU00100" /db_xref="EnsemblGenomes-Tr:CAB11786" /db_xref="GOA:P08750" /db_xref="InterPro:IPR001967" /db_xref="InterPro:IPR012338" /db_xref="InterPro:IPR012907" /db_xref="InterPro:IPR015956" /db_xref="InterPro:IPR018044" /db_xref="InterPro:IPR037167" /db_xref="SubtiList:BG10074" /db_xref="UniProtKB/Swiss-Prot:P08750" /translation="MNIKKCKQLLMSLVVLTLAVTCLAPMSKAKAASDPIDINASAAI MIEASSGKILYSKNADKRLPIASMTKMMTEYLLLEAIDQGKVKWDQTYTPDDYVYEIS QDNSLSNVPLRKDGKYTVKELYQATAIYSANAAAIAIAEIVAGSETKFVEKMNAKAKE LGLTDYKFVNATGLENKDLHGHQPEGTSVNEESEVSAKDMAVLADHLITDYPEILETS SIAKTKFREGTDDEMDMPNWNFMLKGLVSEYKKATVDGLKTGSTDSAGSCFTGTAERN GMRVITVVLNAKGNLHTGRFDETKKMFDYAFDNFSMKEIYAEGDQVKGHKTISVDKGK EKEVGIVTNKAFSLPVKNGEEKNYKAKVTLNKDNLTAPVKKGTKVGKLTAEYTGDEKD YGFLNSDLAGVDLVTKENVEKANWFVLTMRSIGGFFAGIWGSIVDTVTGWF*" gene 17534..18865 /gene="dacA" /locus_tag="BSU_00100" /old_locus_tag="BSU00100" promotor_-10 complement(17822..17840) /Source="Nicolas_upshift_promotors" /id="U14" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=212 /SigmaFactorBS="tactgtgtatttcccgtctttccgaagaggaaCGTTTGAtaa gctgttatcttGGGAAATTTCATACACATAgtcatcaggcgtataggtttggtcccat t" /listShort="S9" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(17833) /Source="Nicolas_upshifts" /id="U14" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=212 /SigmaFactorBS="tactgtgtatttcccgtctttccgaagaggaaCGTTTGAtaa gctgttatcttGGGAAATTTCATACACATAgtcatcaggcgtataggtttggtcccat t" /listShort="S9" /GFF_Attribute="listLong" promotor_-35 complement(17855..17861) /Source="Nicolas_upshift_promotors" /id="U14" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=212 /SigmaFactorBS="tactgtgtatttcccgtctttccgaagaggaaCGTTTGAtaa gctgttatcttGGGAAATTTCATACACATAgtcatcaggcgtataggtttggtcccat t" /listShort="S9" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 18747 /Source="Nicolas_upshifts" /id="D5" /incds=1 /nref=1 /ntot=20 /MaxReadThrough="6.76335" /MaxDrop="2.1925" /score="26.7620012" /energy="-10.6" /TU="U13" /idTUdmin="U10" /TUdmin=1364 /isTUend="FALSE" S_feature 18866..18974 /Source="Nicolas_S_feature" /locus_tag="new_18866_18974" /HighExp="C30, MG 15, MG 10, MG-0.1, MG 25, BMM, ferm, Cold, MG 60, MG-0.2" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S11" promotor_-35 18944..18947 /Source="Nicolas_upshift_promotors" /id="U15" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.61038961038961" /psig="0.998001998001998" /xcortree=2311 /SigmaFactorBS="gaaaaaacccaatttttaataaaaaatgATTTtcaaagcgct aaaaACCGAATAAAATAGTATATAtgcatatgaattattggatttctaggatacaata a" /listShort="S12, pdxS, pdxT, NA, serS" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 18962..18981 /Source="Nicolas_upshift_promotors" /id="U15" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.61038961038961" /psig="0.998001998001998" /xcortree=2311 /SigmaFactorBS="gaaaaaacccaatttttaataaaaaatgATTTtcaaagcgct aaaaACCGAATAAAATAGTATATAtgcatatgaattattggatttctaggatacaata a" /listShort="S12, pdxS, pdxT, NA, serS" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 18976..19061 /Source="Nicolas_S_feature" /locus_tag="new_18976_19061" /HighExp="BMM, MG 25, SMM, MG 15, UNK1, MG 10, GM 150, MG-0.1, MG 150, MG 90" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.998, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S12" upshifts 18976 /Source="Nicolas_upshifts" /id="U15" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.61038961038961" /psig="0.998001998001998" /xcortree=2311 /SigmaFactorBS="gaaaaaacccaatttttaataaaaaatgATTTtcaaagcgct aaaaACCGAATAAAATAGTATATAtgcatatgaattattggatttctaggatacaata a" /listShort="S12, pdxS, pdxT, NA, serS" /GFF_Attribute="listLong" CDS 19062..19946 /gene="pdxS" /locus_tag="BSU_00110" /old_locus_tag="BSU00110" /EC_number="4.3.3.6" /EC_number="4.-.-.-" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:14762015, 15771487, 15911615, 16157873, 17144654" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14762015, 15771487, 15911615, 16157873, 17144654; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="glutamine amidotransferase for pyridoxal phosphate synthesis; pyridoxal 5'-phosphate synthase complex, synthase subunit" /protein_id="NP_387892.1" /db_xref="EnsemblGenomes-Gn:BSU00110" /db_xref="EnsemblGenomes-Tr:CAB11787" /db_xref="GOA:P37527" /db_xref="InterPro:IPR001852" /db_xref="InterPro:IPR011060" /db_xref="InterPro:IPR013785" /db_xref="InterPro:IPR033755" /db_xref="PDB:2NV1" /db_xref="PDB:2NV2" /db_xref="SubtiList:BG10075" /db_xref="UniProtKB/Swiss-Prot:P37527" /translation="MAQTGTERVKRGMAEMQKGGVIMDVINAEQAKIAEEAGAVAVMA LERVPADIRAAGGVARMADPTIVEEVMNAVSIPVMAKARIGHIVEARVLEAMGVDYID ESEVLTPADEEFHLNKNEYTVPFVCGCRDLGEATRRIAEGASMLRTKGEPGTGNIVEA VRHMRKVNAQVRKVVAMSEDELMTEAKNLGAPYELLLQIKKDGKLPVVNFAAGGVATP ADAALMMQLGADGVFVGSGIFKSDNPAKFAKAIVEATTHFTDYKLIAELSKELGTAMK GIEISNLLPEQRMQERGW*" gene 19062..19946 /gene="pdxS" /locus_tag="BSU_00110" /old_locus_tag="BSU00110" S_feature complement(19194..19923) /Source="Nicolas_S_feature" /locus_tag="new_19194_19923_c" /HighExp="S6, S8, S7, S5, S4, C30, S3, BT, C90, Gly" /AntisenseName="pdxS" /AntisenseCor="-0.65390240445415004" /AntisenseRegPval="-33.5" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig="0.996" /TUlongSig="NA" /TUlongPSig="NA" /label="S13" promotor_-10 complement(19911..19929) /Source="Nicolas_upshift_promotors" /id="U16" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=1195 /SigmaFactorBS="cacctattgttaacatgtcagcagcgctcctatGTTCTTacc agccgcgttcttGCATACGCTGTTCTGGAAGtaagtttgagatttcaatccctttcat t" /listShort="S13" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(19923) /Source="Nicolas_upshifts" /id="U16" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=1195 /SigmaFactorBS="cacctattgttaacatgtcagcagcgctcctatGTTCTTacc agccgcgttcttGCATACGCTGTTCTGGAAGtaagtttgagatttcaatccctttcat t" /listShort="S13" /GFF_Attribute="listLong" promotor_-35 complement(19945..19950) /Source="Nicolas_upshift_promotors" /id="U16" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=1195 /SigmaFactorBS="cacctattgttaacatgtcagcagcgctcctatGTTCTTacc agccgcgttcttGCATACGCTGTTCTGGAAGtaagtttgagatttcaatccctttcat t" /listShort="S13" /GFF_Attribute="listLong" /label="promotor_-35" CDS 19968..20558 /gene="pdxT" /locus_tag="BSU_00120" /old_locus_tag="BSU00120" /EC_number="3.5.1.2" /EC_number="4.3.3.6" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:14585832, 14762015, 15771487, 17144654, 18271580, 26735940" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14585832, 14762015, 15771487, 17144654, 18271580, 26735940; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="glutamine amidotransferase for pyridoxal phosphate synthesis; pyridoxal 5'-phosphate synthase complex, glutamine amidotransferase subunit PdxT" /protein_id="NP_387893.1" /db_xref="EnsemblGenomes-Gn:BSU00120" /db_xref="EnsemblGenomes-Tr:CAB11788" /db_xref="GOA:P37528" /db_xref="InterPro:IPR002161" /db_xref="InterPro:IPR021196" /db_xref="InterPro:IPR029062" /db_xref="PDB:1R9G" /db_xref="PDB:2NV0" /db_xref="PDB:2NV2" /db_xref="SubtiList:BG10076" /db_xref="UniProtKB/Swiss-Prot:P37528" /translation="MLTIGVLGLQGAVREHIHAIEACGAAGLVVKRPEQLNEVDGLIL PGGESTTMRRLIDTYQFMEPLREFAAQGKPMFGTCAGLIILAKEIAGSDNPHLGLLNV VVERNSFGRQVDSFEADLTIKGLDEPFTGVFIRAPHILEAGENVEVLSEHNGRIVAAK QGQFLGCSFHPELTEDHRVTQLFVEMVEEYKQKALV*" gene 19968..20558 /gene="pdxT" /locus_tag="BSU_00120" /old_locus_tag="BSU00120" misc_RNA 20611..20823 /gene="tboS" /locus_tag="BSU_misc_RNA_1" /product="T-box riboswitch specific of serine tRNA ligase" /experiment="publication(s) with functional evidences, PMID:1317842, 9098041, 12165569, 12547201" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1317842, 9098041, 12165569, 12547201; Product type n: RNA" /function="16.3: Control" gene 20611..20823 /gene="tboS" /locus_tag="BSU_misc_RNA_1" downshifts 20788 /Source="Nicolas_upshifts" /id="D6" /incds=0 /nref=9 /ntot=80 /MaxReadThrough="7.14793" /MaxDrop="4.37654" /score="41.1243331" /energy="-23.3" /TU="U13,U15" /idTUdmin="U13" /TUdmin="-1347" /isTUend="FALSE" CDS 20880..22157 /gene="serS" /locus_tag="BSU_00130" /old_locus_tag="BSU00130" /EC_number="6.1.1.11" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:10546897, 12682299, 14732487" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10546897, 12682299, 14732487; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="seryl-tRNA synthetase" /protein_id="NP_387894.1" /db_xref="EnsemblGenomes-Gn:BSU00130" /db_xref="EnsemblGenomes-Tr:CAB11789" /db_xref="GOA:P37464" /db_xref="InterPro:IPR002314" /db_xref="InterPro:IPR002317" /db_xref="InterPro:IPR006195" /db_xref="InterPro:IPR010978" /db_xref="InterPro:IPR015866" /db_xref="InterPro:IPR033729" /db_xref="SubtiList:BG10077" /db_xref="UniProtKB/Swiss-Prot:P37464" /translation="MLDTKMLRANFQEIKAKLVHKGEDLTDFDKFEALDDRRRELIGK VEELKGKRNEVSQQVAVLKREKKDADHIIKEMREVGEEIKKLDEELRTVEAELDTILL SIPNIPHESVPVGETEDDNVEVRKWGEKPSFAYEPKPHWDIADELGILDFERAAKVTG SRFVFYKGLGARLERALYNFMLDLHVDEYNYTEVIPPYMVNRASMTGTGQLPKFEEDA FKIREEDYFLIPTAEVPITNMHRDEILSGDSLPINYAAFSACFRSEAGSAGRDTRGLI RQHQFNKVELVKFVKPEDSYEELEKLTNQAERVLQLLELPYRVMSMCTGDLGFTAAKK YDIEVWIPSQDTYREISSCSNFEAFQARRANIRFRREAKGKPEHVHTLNGSGLAVGRT VAAILENYQQEDGSVVIPKVLRPYMGNREVMKP*" gene 20880..22157 /gene="serS" /locus_tag="BSU_00130" /old_locus_tag="BSU00130" downshifts 22135 /Source="Nicolas_upshifts" /id="D7" /incds=0 /nref=234 /ntot=255 /MaxReadThrough="0.83411" /MaxDrop="7.38039" /score="17.6549558" /energy="-13.3" /TU="NA" /idTUdmin="U13" /TUdmin=0 /isTUend="TRUE" promotor_-35 22246..22253 /Source="Nicolas_upshift_promotors" /id="U17" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.861138861138861" /psig=1 /xcortree=2413 /SigmaFactorBS="cggcattttcataaaaacaaaaaaagtttttaaaaatgCTTG ACCAcacgagaacatacgTGATATAGTTAGTCTTGTCGatacggaggaatacccaagt c" /listShort="trnSL-Ser1, S14, S15" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 22268..22287 /Source="Nicolas_upshift_promotors" /id="U17" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.861138861138861" /psig=1 /xcortree=2413 /SigmaFactorBS="cggcattttcataaaaacaaaaaaagtttttaaaaatgCTTG ACCAcacgagaacatacgTGATATAGTTAGTCTTGTCGatacggaggaatacccaagt c" /listShort="trnSL-Ser1, S14, S15" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 22268 /Source="Nicolas_upshifts" /id="U17" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.861138861138861" /psig=1 /xcortree=2413 /SigmaFactorBS="cggcattttcataaaaacaaaaaaagtttttaaaaatgCTTG ACCAcacgagaacatacgTGATATAGTTAGTCTTGTCGatacggaggaatacccaagt c" /listShort="trnSL-Ser1, S14, S15" /GFF_Attribute="listLong" tRNA 22292..22384 /gene="trnSL-Ser1" /locus_tag="BSU_tRNA_7" /product="tRNA-Ser" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Ser(UGA); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 22292..22384 /gene="trnSL-Ser1" /locus_tag="BSU_tRNA_7" downshifts 22407 /Source="Nicolas_upshifts" /id="D8" /incds=0 /nref=168 /ntot=196 /MaxReadThrough="5.02201" /MaxDrop="8.36635" /score="29.7083093" /energy="-12.4" /TU="U17" /idTUdmin="U13" /TUdmin=272 /isTUend="FALSE" S_feature 22452..22529 /Source="Nicolas_S_feature" /locus_tag="new_22452_22529" /HighExp="Cold, H2O2, G180, Paraq, Oxctl, C30, G150, G135, BMM, Heat" /AntisenseName="dck" /AntisenseCor="0.61769771609764101" /AntisenseRegPval="-29" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S14" CDS complement(22496..23149) /gene="dck" /locus_tag="BSU_00140" /old_locus_tag="BSU00140" /EC_number="2.7.1.76" /EC_number="2.7.1.74" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:6251049, 11078735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 6251049, 11078735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="deoxyadenosine/deoxycytidine kinase" /protein_id="NP_387895.1" /db_xref="EnsemblGenomes-Gn:BSU00140" /db_xref="EnsemblGenomes-Tr:CAB11790" /db_xref="GOA:P37529" /db_xref="InterPro:IPR002624" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR031314" /db_xref="SubtiList:BG10078" /db_xref="UniProtKB/Swiss-Prot:P37529" /translation="MKEHHIPKNSIITVAGTVGVGKSTLTKTLAKRLGFKTSLEEVDH NPYLEKFYHDFERWSFHLQIYFLAERFKEQKTIFEAGGGFVQDRSIYEDTGIFAKMHA DKGTMSKVDYKTYTSLFEAMVMTPYFPHPDVLIYLEGDLENILNRIEQRGREMELQTS RSYWEEMHTRYENWISGFNACPVLKLRIEDYDLLNDENSIENIVDQIASVIHDNQKK* " gene complement(22496..23149) /gene="dck" /locus_tag="BSU_00140" /old_locus_tag="BSU00140" promotor_-35 22515..22521 /Source="Nicolas_upshift_promotors" /id="U18" /multdbtbs="-" /comp="M8" /sig="Sig-" /pcomp="0.474525474525474" /psig="0.474525474525474" /xcortree=1189 /SigmaFactorBS="agaaaaagtgaatctcgactgagattcactttttttgattat caTGAATAActgaagcaatttgATCTACAATATTttcaatcgagttttcgtcgttcag a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" downshifts complement(22520) /Source="Nicolas_upshifts" /id="D9" /incds=0 /nref=88 /ntot=213 /MaxReadThrough="1.96668" /MaxDrop="4.49235" /score="14.5948578" /energy="-11" /TU="NA" /idTUdmin="U19" /TUdmin="-1" /isTUend="TRUE" S_feature 22531..23167 /Source="Nicolas_S_feature" /locus_tag="new_22531_23167" /HighExp="G180, G135, Cold, C30, Paraq, H2O2, Oxctl, G150, S5, S6" /AntisenseName="dck" /AntisenseCor="0.15155468296621499" /AntisenseRegPval="-1.9" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S15" upshifts 22531 /Source="Nicolas_upshifts" /id="U18" /multdbtbs="-" /comp="M8" /sig="Sig-" /pcomp="0.474525474525474" /psig="0.474525474525474" /xcortree=1189 /SigmaFactorBS="agaaaaagtgaatctcgactgagattcactttttttgattat caTGAATAActgaagcaatttgATCTACAATATTttcaatcgagttttcgtcgttcag a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 22535..22546 /Source="Nicolas_upshift_promotors" /id="U18" /multdbtbs="-" /comp="M8" /sig="Sig-" /pcomp="0.474525474525474" /psig="0.474525474525474" /xcortree=1189 /SigmaFactorBS="agaaaaagtgaatctcgactgagattcactttttttgattat caTGAATAActgaagcaatttgATCTACAATATTttcaatcgagttttcgtcgttcag a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" CDS complement(23146..23769) /gene="dgk" /locus_tag="BSU_00150" /old_locus_tag="BSU00150" /EC_number="2.7.1.113" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:11078735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11078735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="deoxyguanosine kinase" /protein_id="NP_387896.1" /db_xref="EnsemblGenomes-Gn:BSU00150" /db_xref="EnsemblGenomes-Tr:CAB11791" /db_xref="GOA:P37530" /db_xref="InterPro:IPR002624" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR031314" /db_xref="SubtiList:BG10079" /db_xref="UniProtKB/Swiss-Prot:P37530" /translation="MNTAPFIAIEGPIGAGKTTLATMLSQKFGFPMINEIVEDNPYLD KFYDNIKEWSFQLEMFFLCHRYKQLEDTSDHFLKKGQPVIADYHIYKNVIFAERTLSP HQLEKYKKIYHLLTDDLPKPNFIIYIKASLPTLLHRIEKRGRPFEKKIETSYLEQLIS DYEVAIKQLQEADPELTVLTVDGDSKDFVLNKSDFERIAAHVKELIV*" gene complement(23146..23769) /gene="dgk" /locus_tag="BSU_00150" /old_locus_tag="BSU00150" promotor_-10 complement(23810..23829) /Source="Nicolas_upshift_promotors" /id="U19" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.948051948051948" /psig=1 /xcortree=2605 /SigmaFactorBS="gtcaaaaagacgtttcgataatttggaaacgtcttttttTCA TGggggcacccaagggtTGTGATACAATATGAAGGTCggtaactgacgcacgtttttc a" /listShort="dgk, dck" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(23828) /Source="Nicolas_upshifts" /id="U19" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.948051948051948" /psig=1 /xcortree=2605 /SigmaFactorBS="gtcaaaaagacgtttcgataatttggaaacgtcttttttTCA TGggggcacccaagggtTGTGATACAATATGAAGGTCggtaactgacgcacgtttttc a" /listShort="dgk, dck" /GFF_Attribute="listLong" promotor_-35 complement(23845..23849) /Source="Nicolas_upshift_promotors" /id="U19" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.948051948051948" /psig=1 /xcortree=2605 /SigmaFactorBS="gtcaaaaagacgtttcgataatttggaaacgtcttttttTCA TGggggcacccaagggtTGTGATACAATATGAAGGTCggtaactgacgcacgtttttc a" /listShort="dgk, dck" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(23868..25151) /gene="sleL" /locus_tag="BSU_00160" /old_locus_tag="BSU00160" /EC_number="3.2.1.-" /function="16.8: Protect" /function="16.13: Shape" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 11011148, 11737650, 12177332, 10419957, 18456807, 18835992, 19933362, 28333204; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="spore peptidoglycan N-acetylglucosaminidase" /protein_id="NP_387897.1" /db_xref="EnsemblGenomes-Gn:BSU00160" /db_xref="EnsemblGenomes-Tr:CAB11792" /db_xref="GOA:P37531" /db_xref="InterPro:IPR001223" /db_xref="InterPro:IPR011583" /db_xref="InterPro:IPR017853" /db_xref="InterPro:IPR018392" /db_xref="InterPro:IPR036779" /db_xref="SubtiList:BG10080" /db_xref="UniProtKB/Swiss-Prot:P37531" /translation="MVKQGDTLSAIASQYRTTTNDITETNEIPNPDSLVVGQTIVIPI AGQFYDVKRGDTLTSIARQFNTTAAELARVNRIQLNTVLQIGFRLYIPPAPKRDIESN AYLEPRGNQVSENLQQAAREASPYLTYLGAFSFQAQRNGTLVAPPLTNLRSITESQNT TLMMIITNLENQAFSDELGRILLNDETVKRRLLNEIVENARRYGFRDIHFDFEYLRPQ DREAYNQFLREARDLFHREGLEISTALAPKTSATQQGRWYEAHDYRAHGEIVDFVVLM TYEWGYSGGPPQAVSPIGPVRDVIEYALTEMPANKIVMGQNLYGYDWTLPYTAGGTPA RAVSPQQAIVIADQNNASIQYDQTAQAPFFRYTDAENRRHEVWFEDARSIQAKFNLIK ELNLRGISYWKLGLSFPQNWLLLSDQFNVVKKTFR*" gene complement(23868..25151) /gene="sleL" /locus_tag="BSU_00160" /old_locus_tag="BSU00160" downshifts complement(23905) /Source="Nicolas_upshifts" /id="D10" /incds=0 /nref=40 /ntot=61 /MaxReadThrough="1.17442" /MaxDrop="6.30997" /score="3.66560192" /energy="-8.4" /TU="NA" /idTUdmin="U20" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(25182..25200) /Source="Nicolas_upshift_promotors" /id="U20" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1152 /SigmaFactorBS="tttcgcagaaattacgacggaagaacaaattatagaaaaata AACATGatcagcgcttttcttTCATACATTGATAGCGATAtgaaaggaggcgtttttc a" /listShort="yaaH" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(25203) /Source="Nicolas_upshifts" /id="U20" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1152 /SigmaFactorBS="tttcgcagaaattacgacggaagaacaaattatagaaaaata AACATGatcagcgcttttcttTCATACATTGATAGCGATAtgaaaggaggcgtttttc a" /listShort="yaaH" /GFF_Attribute="listLong" promotor_-35 complement(25216..25221) /Source="Nicolas_upshift_promotors" /id="U20" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1152 /SigmaFactorBS="tttcgcagaaattacgacggaagaacaaattatagaaaaata AACATGatcagcgcttttcttTCATACATTGATAGCGATAtgaaaggaggcgtttttc a" /listShort="yaaH" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(25221..25766) /gene="yaaI" /locus_tag="BSU_00170" /old_locus_tag="BSU00170" /EC_number="3.-.-.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 2521622; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative amidase (isochorismatase family)" /protein_id="NP_387898.1" /db_xref="EnsemblGenomes-Gn:BSU00170" /db_xref="EnsemblGenomes-Tr:CAB11793" /db_xref="GOA:P37532" /db_xref="InterPro:IPR000868" /db_xref="InterPro:IPR036380" /db_xref="SubtiList:BG10081" /db_xref="UniProtKB/Swiss-Prot:P37532" /translation="MSKADKALLIVDMINNFEFDMGETLAKKTEKIVPHILSLKEHAR QNEWPIIYINDHYGLWQADIKNIQQECTNERSKDIITKIAPVDADYFLIKPKHSAFYE TALHTLLTELQVRHIIITGIAGNICVLFTANDAYMREYSITIPKDCIASNSDEDNEFA LTMMENVLFAEITTEEQIIEK*" gene complement(25221..25766) /gene="yaaI" /locus_tag="BSU_00170" /old_locus_tag="BSU00170" promotor_-35 25632..25636 /Source="Nicolas_upshift_promotors" /id="U21" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.78921078921079" /psig="0.99000999000999" /xcortree=1810 /SigmaFactorBS="taatgatcattgatgtaaataatcggccattcattTTGTCtc gcgtgctcctttAATGATAAAATATGAGGAACgattttttctgtttttttagcgaggg t" /listShort="S16, tadA, S17, scr, S18" /listLong="dnaX, yaaK, recR, yaaL, bofA, S19, rrnA-16S" /label="promotor_-35" promotor_-10 25651..25670 /Source="Nicolas_upshift_promotors" /id="U21" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.78921078921079" /psig="0.99000999000999" /xcortree=1810 /SigmaFactorBS="taatgatcattgatgtaaataatcggccattcattTTGTCtc gcgtgctcctttAATGATAAAATATGAGGAACgattttttctgtttttttagcgaggg t" /listShort="S16, tadA, S17, scr, S18" /listLong="dnaX, yaaK, recR, yaaL, bofA, S19, rrnA-16S" /label="promotor_-10" S_feature 25655..25851 /Source="Nicolas_S_feature" /locus_tag="new_25655_25851" /HighExp="Diami, dia5, H2O2, dia15, T0.30H, T-0.40H, HiOs, T-1.10H, Salt, T0.0H" /AntisenseName="yaaI" /AntisenseCor="9.6546810160837798E-2" /AntisenseRegPval="-0.9" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.99" /TUlongSig="NA" /TUlongPSig="NA" /label="S16" upshifts 25657 /Source="Nicolas_upshifts" /id="U21" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.78921078921079" /psig="0.99000999000999" /xcortree=1810 /SigmaFactorBS="taatgatcattgatgtaaataatcggccattcattTTGTCtc gcgtgctcctttAATGATAAAATATGAGGAACgattttttctgtttttttagcgaggg t" /listShort="S16, tadA, S17, scr, S18" /listLong="dnaX, yaaK, recR, yaaL, bofA, S19, rrnA-16S" promotor_-10 complement(25791..25809) /Source="Nicolas_upshift_promotors" /id="U22" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=248 /SigmaFactorBS="aaagttcatcttgtgtcataaggataagctctcttttcaaAG TTTTTtcattgcctaaaaaGGCTACATATTAACTATAActgaaacggaaaggagactg t" /listShort="yaaI, yaaH" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(25810) /Source="Nicolas_upshifts" /id="U22" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=248 /SigmaFactorBS="aaagttcatcttgtgtcataaggataagctctcttttcaaAG TTTTTtcattgcctaaaaaGGCTACATATTAACTATAActgaaacggaaaggagactg t" /listShort="yaaI, yaaH" /GFF_Attribute="listLong" promotor_-35 complement(25824..25830) /Source="Nicolas_upshift_promotors" /id="U22" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=248 /SigmaFactorBS="aaagttcatcttgtgtcataaggataagctctcttttcaaAG TTTTTtcattgcctaaaaaGGCTACATATTAACTATAActgaaacggaaaggagactg t" /listShort="yaaI, yaaH" /GFF_Attribute="listLong" /label="promotor_-35" CDS 25852..26337 /gene="tadA" /locus_tag="BSU_00180" /old_locus_tag="BSU00180" /EC_number="3.5.4.33" /function="10.3: tRNA and rRNA base modification" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 15677468, 16014871, 16415880, 16700551, 23658230; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="tRNA specific adenosine A34 deaminase" /protein_id="NP_387899.1" /db_xref="EnsemblGenomes-Gn:BSU00180" /db_xref="EnsemblGenomes-Tr:CAB11794" /db_xref="GOA:P21335" /db_xref="InterPro:IPR002125" /db_xref="InterPro:IPR016192" /db_xref="InterPro:IPR016193" /db_xref="InterPro:IPR028883" /db_xref="SubtiList:BG10082" /db_xref="UniProtKB/Swiss-Prot:P21335" /translation="MTQDELYMKEAIKEAKKAEEKGEVPIGAVLVINGEIIARAHNLR ETEQRSIAHAEMLVIDEACKALGTWRLEGATLYVTLEPCPMCAGAVVLSRVEKVVFGA FDPKGGCSGTLMNLLQEERFNHQAEVVSGVLEEECGGMLSAFFRELRKKKKAARKNLS E*" gene 25852..26337 /gene="tadA" /locus_tag="BSU_00180" /old_locus_tag="BSU00180" promotor_-35 26341..26347 /Source="Nicolas_upshift_promotors" /id="U23" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.403596403596404" /psig="0.899100899100899" /xcortree=1436 /SigmaFactorBS="aacttgtctgaatagtacGGTTGCAatttttaggggaaACAG ATATACTTAAGTGTGCatcgtaatagatgcaacataaaatttgatatttattttgccg t" /listShort="S17, scr, S18" /listLong="dnaX, yaaK, recR, yaaL, bofA, S19, rrnA-16S" /label="promotor_-35" promotor_-10 26361..26380 /Source="Nicolas_upshift_promotors" /id="U23" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.403596403596404" /psig="0.899100899100899" /xcortree=1436 /SigmaFactorBS="aacttgtctgaatagtacGGTTGCAatttttaggggaaACAG ATATACTTAAGTGTGCatcgtaatagatgcaacataaaatttgatatttattttgccg t" /listShort="S17, scr, S18" /listLong="dnaX, yaaK, recR, yaaL, bofA, S19, rrnA-16S" /label="promotor_-10" misc_RNA 26379..26732 /gene="scr" /locus_tag="BSU_misc_RNA_2" /product="small cytoplasmic RNA (scRNA, 4.5S RNA), signal recognition particle-like (SRP) component" /experiment="publication(s) with functional evidences, PMID:1372600, 1689715" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1372600, 1689715" gene 26379..26732 /gene="scr" /locus_tag="BSU_misc_RNA_2" S_feature 26383..26532 /Source="Nicolas_S_feature" /locus_tag="new_26383_26532" /HighExp="T1.0H, T5.0H, T1.30H, T3.30H, T3.0H, T2.30H, T4.0H, S8, T-1.10H, Sw" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.899, 0.99" /TUlongSig="NA" /TUlongPSig="NA" /label="S17" upshifts 26383 /Source="Nicolas_upshifts" /id="U23" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.403596403596404" /psig="0.899100899100899" /xcortree=1436 /SigmaFactorBS="aacttgtctgaatagtacGGTTGCAatttttaggggaaACAG ATATACTTAAGTGTGCatcgtaatagatgcaacataaaatttgatatttattttgccg t" /listShort="S17, scr, S18" /listLong="dnaX, yaaK, recR, yaaL, bofA, S19, rrnA-16S" S_feature 26636..26731 /Source="Nicolas_S_feature" /locus_tag="new_26636_26731" /HighExp="S8, Sw, B60, B36, T2.30H, T3.30H, T1.0H, BC, T4.0H, T3.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.899, 0.99" /TUlongSig="NA" /TUlongPSig="NA" /label="S18" downshifts 26688 /Source="Nicolas_upshifts" /id="D11" /incds=0 /nref=273 /ntot=278 /MaxReadThrough="4.46774" /MaxDrop="8.31255" /score="23.257527" /energy="-10.3" /TU="U21,U23" /idTUdmin="U21" /TUdmin="-89" /isTUend="FALSE" promotor_-35 26752..26755 /Source="Nicolas_upshift_promotors" /id="U24" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.863136863136863" /psig=1 /xcortree=2612 /SigmaFactorBS="attaggtgagttttttgttatgtaaaaagagctTTTGgaatc gaaacaaggTTCATGTATAATGGGAATGAtgaataacggaggagggcaaacccgtgag t" /listShort="dnaX, yaaK, recR, yaaL, bofA" /listLong="S19, rrnA-16S" /label="promotor_-35" promotor_-10 26770..26789 /Source="Nicolas_upshift_promotors" /id="U24" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.863136863136863" /psig=1 /xcortree=2612 /SigmaFactorBS="attaggtgagttttttgttatgtaaaaagagctTTTGgaatc gaaacaaggTTCATGTATAATGGGAATGAtgaataacggaggagggcaaacccgtgag t" /listShort="dnaX, yaaK, recR, yaaL, bofA" /listLong="S19, rrnA-16S" /label="promotor_-10" upshifts 26779 /Source="Nicolas_upshifts" /id="U24" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.863136863136863" /psig=1 /xcortree=2612 /SigmaFactorBS="attaggtgagttttttgttatgtaaaaagagctTTTGgaatc gaaacaaggTTCATGTATAATGGGAATGAtgaataacggaggagggcaaacccgtgag t" /listShort="dnaX, yaaK, recR, yaaL, bofA" /listLong="S19, rrnA-16S" CDS 26814..28505 /gene="dnaX" /locus_tag="BSU_00190" /old_locus_tag="BSU00190" /EC_number="2.7.7.7" /function="16.9: Replicate" /experiment="publication(s) with functional evidences, PMID:9341154, 10844689, 12466528, 12974630, 14757052, 15927750, 25850333, 26786318" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9341154, 10844689, 12466528, 12974630, 14757052, 15927750, 25850333, 26786318; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="DNA polymerase III subunit tau subunit" /protein_id="NP_387900.2" /db_xref="EnsemblGenomes-Gn:BSU00190" /db_xref="EnsemblGenomes-Tr:CAB11795" /db_xref="GOA:P09122" /db_xref="InterPro:IPR001270" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR008921" /db_xref="InterPro:IPR012763" /db_xref="InterPro:IPR022754" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG10083" /db_xref="UniProtKB/Swiss-Prot:P09122" /translation="MSYQALYRVFRPQRFEDVVGQEHITKTLQNALLQKKFSHAYLFS GPRGTGKTSAAKIFAKAVNCEHAPVDEPCNECAACKGITNGSISDVIEIDAASNNGVD EIRDIRDKVKFAPSAVTYKVYIIDEVHMLSIGAFNALLKTLEEPPEHCIFILATTEPH KIPLTIISRCQRFDFKRITSQAIVGRMNKIVDAEQLQVEEGSLEIIASAADGGMRDAL SLLDQAISFSGDILKVEDALLITGAVSQLYIGKLAKSLHDKNVSDALETLNELLQQGK DPAKLIEDMIFYFRDMLLYKTAPGLEGVLEKVKVDETFRELSEQIPAQALYEMIDILN KSHQEMKWTNHPRIFFEVAVVKICQTSHQSAADLPEVDMLMKKIQQLEQEVERLKTTG IKAAAESPKKEAPRVPKGGKSNYKAPVGRIHEILKEATRPDLDLLRNSWGKLLAHLKQ QNKVSHAALLNDSEPVAAGSAAFVLKFKYEIHCKMVAEDNNGVRTNLEQILESMLGKR MDLIGVPEAQWGKIREEFLEDHQQENEGSNEPAEEDPLIAEAKKLVGADLIEIKD*" gene 26814..28505 /gene="dnaX" /locus_tag="BSU_00190" /old_locus_tag="BSU00190" promotor_-35 28346..28353 /Source="Nicolas_upshift_promotors" /id="U25" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.761238761238761" /psig="0.999000999001" /xcortree=1923 /SigmaFactorBS="atgctcggaaaaagaatggatttGATTGGCGttccagaagca caaTGGGGTAAAATAAGAGAAGAatttttagaagatcatcagcaggaaaatgaaggat c" /listShort="yaaK, recR, yaaL, bofA" /listLong="S19, rrnA-16S" /label="promotor_-35" promotor_-10 28368..28387 /Source="Nicolas_upshift_promotors" /id="U25" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.761238761238761" /psig="0.999000999001" /xcortree=1923 /SigmaFactorBS="atgctcggaaaaagaatggatttGATTGGCGttccagaagca caaTGGGGTAAAATAAGAGAAGAatttttagaagatcatcagcaggaaaatgaaggat c" /listShort="yaaK, recR, yaaL, bofA" /listLong="S19, rrnA-16S" /label="promotor_-10" upshifts 28383 /Source="Nicolas_upshifts" /id="U25" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.761238761238761" /psig="0.999000999001" /xcortree=1923 /SigmaFactorBS="atgctcggaaaaagaatggatttGATTGGCGttccagaagca caaTGGGGTAAAATAAGAGAAGAatttttagaagatcatcagcaggaaaatgaaggat c" /listShort="yaaK, recR, yaaL, bofA" /listLong="S19, rrnA-16S" CDS 28529..28852 /gene="ebfC" /locus_tag="BSU_00200" /old_locus_tag="BSU00200" /function="16.9: Replicate" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 16740939, 19208644, 19594923, 20639362, 22333191, 22544270; Product type f : factor" /codon_start=1 /transl_table=11 /product="nucleoid associated protein" /protein_id="NP_387901.1" /db_xref="EnsemblGenomes-Gn:BSU00200" /db_xref="EnsemblGenomes-Tr:CAB11796" /db_xref="GOA:P24281" /db_xref="InterPro:IPR004401" /db_xref="InterPro:IPR036894" /db_xref="SubtiList:BG10084" /db_xref="UniProtKB/Swiss-Prot:P24281" /translation="MRGGMGNMQKMMKQMQKMQKDMAKAQEELAEKVVEGTAGGGMVT VKANGQKEILDVIIKEEVVDPEDIDMLQDLVLAATNEALKKVDEITNETMGQFTKGMN MPGLF*" gene 28529..28852 /gene="ebfC" /locus_tag="BSU_00200" /old_locus_tag="BSU00200" CDS 28867..29463 /gene="recR" /locus_tag="BSU_00210" /old_locus_tag="BSU00210" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:12065426, 24285298, 24891441" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12065426, 24285298, 24891441; Product type f: factor" /codon_start=1 /transl_table=11 /product="recA filament-DNA complex stabilisation factor" /protein_id="NP_387902.1" /db_xref="EnsemblGenomes-Gn:BSU00210" /db_xref="EnsemblGenomes-Tr:CAB11797" /db_xref="GOA:P24277" /db_xref="InterPro:IPR000093" /db_xref="InterPro:IPR006171" /db_xref="InterPro:IPR015967" /db_xref="InterPro:IPR023170" /db_xref="InterPro:IPR023627" /db_xref="InterPro:IPR023628" /db_xref="InterPro:IPR034137" /db_xref="SubtiList:BG10085" /db_xref="UniProtKB/Swiss-Prot:P24277" /translation="MQYPEPISKLIDSFMKLPGIGPKTAVRLAFFVLGMKEDVVLDFA KALVNAKRNLTYCSVCGHITDQDPCYICEDTRRDKSVICVVQDPKDVIAMEKMKEYNG QYHVLHGAISPMDGIGPEDIKIPELLKRLQDDQVTEVILATNPNIEGEATAMYISRLL KPSGIKLSRIAHGLPVGGDLEYADEVTLSKALEGRREL*" gene 28867..29463 /gene="recR" /locus_tag="BSU_00210" /old_locus_tag="BSU00210" CDS 29481..29705 /gene="yaaL" /locus_tag="BSU_00220" /old_locus_tag="BSU00220" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_387903.1" /db_xref="EnsemblGenomes-Gn:BSU00220" /db_xref="EnsemblGenomes-Tr:CAB11798" /db_xref="InterPro:IPR019644" /db_xref="SubtiList:BG10086" /db_xref="UniProtKB/Swiss-Prot:P37533" /translation="MGFLRKKTLRREFDEKLTEQLFKQKEEWNRQKKLVEKSLEPSAE VLYELKVAEAKYFFYLREAKQRNLKISRWK*" gene 29481..29705 /gene="yaaL" /locus_tag="BSU_00220" /old_locus_tag="BSU00220" promotor_-35 29708..29713 /Source="Nicolas_upshift_promotors" /id="U26" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1161 /SigmaFactorBS="aagcgaagcagcgaaatttaaaaatcagccggtggaagtaag tGGTCTAaactcctggatcttcTCATAAGCTTGTACTAGAAcaagcgaaggagatgag a" /listShort="bofA, S19" /listLong="rrnA-16S" /label="promotor_-35" upshifts 29725 /Source="Nicolas_upshifts" /id="U26" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1161 /SigmaFactorBS="aagcgaagcagcgaaatttaaaaatcagccggtggaagtaag tGGTCTAaactcctggatcttcTCATAAGCTTGTACTAGAAcaagcgaaggagatgag a" /listShort="bofA, S19" /listLong="rrnA-16S" promotor_-10 29729..29747 /Source="Nicolas_upshift_promotors" /id="U26" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1161 /SigmaFactorBS="aagcgaagcagcgaaatttaaaaatcagccggtggaagtaag tGGTCTAaactcctggatcttcTCATAAGCTTGTACTAGAAcaagcgaaggagatgag a" /listShort="bofA, S19" /listLong="rrnA-16S" /label="promotor_-10" CDS 29772..30035 /gene="bofA" /locus_tag="BSU_00230" /old_locus_tag="BSU00230" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:15087499, 17557826" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15087499, 17557826; Product type r: regulator" /codon_start=1 /transl_table=11 /product="inhibitor of the pro-sigma(K) processing machinery" /protein_id="NP_387904.2" /db_xref="EnsemblGenomes-Gn:BSU00230" /db_xref="EnsemblGenomes-Tr:CAB11799" /db_xref="GOA:P24282" /db_xref="InterPro:IPR010001" /db_xref="SubtiList:BG10087" /db_xref="UniProtKB/Swiss-Prot:P24282" /translation="MEPIFIIGIILGLVILLFLSGSAAKPLKWIGITAVKFVAGALLL VCVNMFGGSLGIHVPINLVTTAISGILGIPGIAALVVIKQFII*" gene 29772..30035 /gene="bofA" /locus_tag="BSU_00230" /old_locus_tag="BSU00230" promotor_-35 30048..30055 /Source="Nicolas_upshift_promotors" /id="U27" /multdbtbs="SigA" /comp="M17" /sig="SigA" /pcomp="0.999000999001" /psig=1 /xcortree=2620 /SigmaFactorBS="ttaagcaatttatcatttaattgatattatgtATTGACTTag acaactgaaggTGTTATTCTAATATACGTCGctgatgacgaacagcttttttgaaaag a" /listShort="S19, rrnA-16S" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 30069..30088 /Source="Nicolas_upshift_promotors" /id="U27" /multdbtbs="SigA" /comp="M17" /sig="SigA" /pcomp="0.999000999001" /psig=1 /xcortree=2620 /SigmaFactorBS="ttaagcaatttatcatttaattgatattatgtATTGACTTag acaactgaaggTGTTATTCTAATATACGTCGctgatgacgaacagcttttttgaaaag a" /listShort="S19, rrnA-16S" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 30076..30278 /Source="Nicolas_S_feature" /locus_tag="new_30076_30278" /HighExp="LBGstat, Diami, C30, H2O2, Oxctl, HPh, BMM, GM 120, Paraq, T0.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigEF" /TUshortPSig="1, 1" /TUlongSig="SigA, SigA, SigA, SigA" /TUlongPSig="0.999, 1, 0.899, 0.99" /label="S19" upshifts 30076 /Source="Nicolas_upshifts" /id="U27" /multdbtbs="SigA" /comp="M17" /sig="SigA" /pcomp="0.999000999001" /psig=1 /xcortree=2620 /SigmaFactorBS="ttaagcaatttatcatttaattgatattatgtATTGACTTag acaactgaaggTGTTATTCTAATATACGTCGctgatgacgaacagcttttttgaaaag a" /listShort="S19, rrnA-16S" /GFF_Attribute="listLong" rRNA 30279..31832 /gene="rrnA-16S" /locus_tag="BSU_rRNA_4" /product="ribosomal RNA-16S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 30279..31832 /gene="rrnA-16S" /locus_tag="BSU_rRNA_4" tRNA 31932..32008 /gene="trnA-Ile" /locus_tag="BSU_tRNA_8" /product="tRNA-Ile" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Ile(GAU); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 31932..32008 /gene="trnA-Ile" /locus_tag="BSU_tRNA_8" tRNA 32020..32095 /gene="trnA-Ala" /locus_tag="BSU_tRNA_9" /product="tRNA-Ala" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Ala(UGC); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 32020..32095 /gene="trnA-Ala" /locus_tag="BSU_tRNA_9" rRNA 32177..35103 /gene="rrnA-23S" /locus_tag="BSU_rRNA_5" /product="ribosomal RNA-23S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 32177..35103 /gene="rrnA-23S" /locus_tag="BSU_rRNA_5" S_feature 35104..35236 /Source="Nicolas_S_feature" /locus_tag="new_35104_35236" /HighExp="LBGstat, G135, Oxctl, C30, HPh, Paraq, G180, LPh, T0.30H, H2O2" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S20" rRNA 35237..35355 /gene="rrnA-5S" /locus_tag="BSU_rRNA_26" /product="ribosomal RNA-5S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 35237..35355 /gene="rrnA-5S" /locus_tag="BSU_rRNA_26" S_feature 35356..35458 /Source="Nicolas_S_feature" /locus_tag="new_35356_35458" /HighExp="Oxctl, Paraq, H2O2, LBGstat, C30, G180, Cold, G135, Heat, BMM" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S21" promotor_-35 35419..35427 /Source="Nicolas_upshift_promotors" /id="U28" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.715284715284715" /psig="0.715284715284715" /xcortree=1057 /SigmaFactorBS="cgagaaaatcaaacaaataCAAACACCGagggcttatatagC CCATATACTGATTTAAAGTttcaaaaaggtctaaatagtgtatacaatatccgtttta a" /listShort="csfB, xpaC, yaaN, S22, yaaO, tmk" /listLong="yaaQ, yaaR, holB, yaaT" /label="promotor_-35" promotor_-10 35441..35460 /Source="Nicolas_upshift_promotors" /id="U28" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.715284715284715" /psig="0.715284715284715" /xcortree=1057 /SigmaFactorBS="cgagaaaatcaaacaaataCAAACACCGagggcttatatagC CCATATACTGATTTAAAGTttcaaaaaggtctaaatagtgtatacaatatccgtttta a" /listShort="csfB, xpaC, yaaN, S22, yaaO, tmk" /listLong="yaaQ, yaaR, holB, yaaT" /label="promotor_-10" upshifts 35460 /Source="Nicolas_upshifts" /id="U28" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.715284715284715" /psig="0.715284715284715" /xcortree=1057 /SigmaFactorBS="cgagaaaatcaaacaaataCAAACACCGagggcttatatagC CCATATACTGATTTAAAGTttcaaaaaggtctaaatagtgtatacaatatccgtttta a" /listShort="csfB, xpaC, yaaN, S22, yaaO, tmk" /listLong="yaaQ, yaaR, holB, yaaT" CDS 35531..35725 /gene="csfB" /locus_tag="BSU_00240" /old_locus_tag="BSU00240" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:8759874, 15044948, 21935351, 26929302" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8759874, 15044948, 21935351, 26929302; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="forespore-specific anti-sigma factor" /protein_id="NP_387905.1" /db_xref="EnsemblGenomes-Gn:BSU00240" /db_xref="EnsemblGenomes-Tr:CAB11800" /db_xref="GOA:P37534" /db_xref="InterPro:IPR019700" /db_xref="SubtiList:BG10088" /db_xref="UniProtKB/Swiss-Prot:P37534" /translation="MDETVKLNHTCVICDQEKNRGIHLYTKFICLDCERKVISTSTSD PDYAFYVKKLKSIHTPPLYS*" gene 35531..35725 /gene="csfB" /locus_tag="BSU_00240" /old_locus_tag="BSU00240" downshifts 35709 /Source="Nicolas_upshifts" /id="D12" /incds=0 /nref=79 /ntot=215 /MaxReadThrough="5.37774" /MaxDrop="4.42494" /score="22.3916007" /energy="-6.7" /TU="U28" /idTUdmin="U27" /TUdmin=3938 /isTUend="FALSE" promotor_-35 35770..35779 /Source="Nicolas_upshift_promotors" /id="U29" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp="0.984015984015984" /psig="0.984015984015984" /xcortree=1675 /SigmaFactorBS="tctttttttgtactcttaataataaaaagaagaTGAAACTTG TttaaggattgaACGTAGTAGATAATAAtattaaaactgagtatagacacaggagtcg a" /listShort="xpaC, yaaN, S22, yaaO, tmk, yaaQ, yaaR, holB, yaaT, yabA, yabB, yazA, yabC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 35791..35806 /Source="Nicolas_upshift_promotors" /id="U29" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp="0.984015984015984" /psig="0.984015984015984" /xcortree=1675 /SigmaFactorBS="tctttttttgtactcttaataataaaaagaagaTGAAACTTG TttaaggattgaACGTAGTAGATAATAAtattaaaactgagtatagacacaggagtcg a" /listShort="xpaC, yaaN, S22, yaaO, tmk, yaaQ, yaaR, holB, yaaT, yabA, yabB, yazA, yabC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 35797 /Source="Nicolas_upshifts" /id="U29" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp="0.984015984015984" /psig="0.984015984015984" /xcortree=1675 /SigmaFactorBS="tctttttttgtactcttaataataaaaagaagaTGAAACTTG TttaaggattgaACGTAGTAGATAATAAtattaaaactgagtatagacacaggagtcg a" /listShort="xpaC, yaaN, S22, yaaO, tmk, yaaQ, yaaR, holB, yaaT, yabA, yabB, yazA, yabC" /GFF_Attribute="listLong" CDS 35845..36459 /gene="xpaC" /locus_tag="BSU_00250" /old_locus_tag="BSU00250" /function="16.11: Scavenge (Catabolism)" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 23155385; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative phosphatase" /protein_id="NP_387906.1" /db_xref="EnsemblGenomes-Gn:BSU00250" /db_xref="EnsemblGenomes-Tr:CAB11801" /db_xref="GOA:P37467" /db_xref="InterPro:IPR018770" /db_xref="SubtiList:BG10089" /db_xref="UniProtKB/Swiss-Prot:P37467" /translation="MQRFFHFLVWSLTSSATFVFIGILSFFGLNQSIFLSIVYGLASG AAVYIAGIWNARRLFLKKHELTGREYAYIKKNLEEARQKMVRLRKALFQAKSIQMFKQ NAEMLRIVRRIYLLTKKEPKRFYQAERFFYQTLDSVVELTEKYAFLSSHPKKSKELSM SLSETRITLTELTKRLEEDLTQAMGDEIDELQFELDAAKHSLKK*" gene 35845..36459 /gene="xpaC" /locus_tag="BSU_00250" /old_locus_tag="BSU00250" CDS 36478..37638 /gene="yaaN" /locus_tag="BSU_00260" /old_locus_tag="BSU00260" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 12533473, 20713661" /codon_start=1 /transl_table=11 /product="putative toxic compound resistance protein" /protein_id="NP_387907.1" /db_xref="EnsemblGenomes-Gn:BSU00260" /db_xref="EnsemblGenomes-Tr:CAB11802" /db_xref="InterPro:IPR008863" /db_xref="SubtiList:BG10090" /db_xref="UniProtKB/Swiss-Prot:P37535" /translation="MNRDQSDLHIDELLADPFGGNIEIPGSEAVKAEKEQVRLVDVLP EENKEKAIQLAGQIDHKNMQSIVLYGSQAQSKLLNFSHDMINHVQKKDVGEIGEILGE LMKKLEQVNPDDLQSKKKGFLARMFGRVSSSLQEVLSKYQKTSVQIDRISLKLEHSKN ALISDNKLLEQLYEKNKEYFAALNVYIAAGELKLEELKTKTIPELKQQAESSDHNQMA VQEVNDLIQFADRLDKRVHDLLLSRQITIQSAPQIRLIQNTNQALAEKIQSSIVTAIP LWKNQVAIALTLLRQRNAVDAQQKVSDTTNELLLKNAELLKTNTIETARANERGLVDI DTLKKVQESLISTLEETLTIQEEGRIKRRQAEEELMMMEGDLKQKLITIKER*" gene 36478..37638 /gene="yaaN" /locus_tag="BSU_00260" /old_locus_tag="BSU00260" S_feature 37639..37719 /Source="Nicolas_S_feature" /locus_tag="new_37639_37719" /HighExp="T0.0H, T-0.40H, T0.30H, T-1.10H, T-1.40H, Salt, T1.0H, G150, Diami, G135" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigWXY, SigK" /TUshortPSig="0.984, 0.715" /TUlongSig="NA" /TUlongPSig="NA" /label="S22" CDS 37720..39162 /gene="yaaO" /locus_tag="BSU_00270" /old_locus_tag="BSU00270" /EC_number="4.1.1.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 9723923, 20876533, 24529384; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative decarboxylase" /protein_id="NP_387908.1" /db_xref="EnsemblGenomes-Gn:BSU00270" /db_xref="EnsemblGenomes-Tr:CAB11803" /db_xref="GOA:P37536" /db_xref="InterPro:IPR000310" /db_xref="InterPro:IPR008286" /db_xref="InterPro:IPR015421" /db_xref="InterPro:IPR015422" /db_xref="InterPro:IPR015424" /db_xref="InterPro:IPR036633" /db_xref="SubtiList:BG10091" /db_xref="UniProtKB/Swiss-Prot:P37536" /translation="MNTPLYKALIQHARRNSHSFHVPGHHNGDVFFDDAKSIFDPLLT IDVTELAGLDDLHHPSGVIKEAQELASQLYGSAESFFLVNGTTVGNLAMILSVCEPGD TILVQRNCHKSVFHAVDLSGAEPVYLAPDVDSAMHVPTHVPLGTIKEALEAYPDAKGL VLTNPTYYGHSADLTEIITEAHHYGIPVLVDEAHGAHFILGEPFPVSALKMGADIVVQ SAHKTLPAMTMGSYLHLNSSCRINRDRVAEYLNRLQSSSPSYPIMASLDIARAYVQHI IEEQKLSDILQRIETLKQTFDSLTNAEAVNPANPLIITDPLKLTIRSKRGHSGYTLQS ILERANIFTELADENQVLLVLPLGGKRRINAEIIRSIDEEIEKTPPDQTFVSAEWGVQ PVTVLPYPKKVLHSFKKEYVSFEEAAGRLNAEDIIPYPPGIPMIMAGERITKESVQKL SRLISMKTHVQGNMKIKEKQLLVYIEEEKS*" gene 37720..39162 /gene="yaaO" /locus_tag="BSU_00270" /old_locus_tag="BSU00270" promotor_-35 39082..39088 /Source="Nicolas_upshift_promotors" /id="U30" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.513486513486514" /psig="0.513486513486514" /xcortree=105 /SigmaFactorBS="gaaagtgtgcaaaagctcagccgcttgatcAGCATGAaaacg catgttcaaGGGAATATGAAAATCAAAGagaaacaactacttgtttatatagaagagg a" /listShort="tmk" /listLong="yaaQ, yaaR, holB, yaaT, yabA, yabB, yazA, yabC" /label="promotor_-35" promotor_-10 39103..39121 /Source="Nicolas_upshift_promotors" /id="U30" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.513486513486514" /psig="0.513486513486514" /xcortree=105 /SigmaFactorBS="gaaagtgtgcaaaagctcagccgcttgatcAGCATGAaaacg catgttcaaGGGAATATGAAAATCAAAGagaaacaactacttgtttatatagaagagg a" /listShort="tmk" /listLong="yaaQ, yaaR, holB, yaaT, yabA, yabB, yazA, yabC" /label="promotor_-10" upshifts 39112 /Source="Nicolas_upshifts" /id="U30" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.513486513486514" /psig="0.513486513486514" /xcortree=105 /SigmaFactorBS="gaaagtgtgcaaaagctcagccgcttgatcAGCATGAaaacg catgttcaaGGGAATATGAAAATCAAAGagaaacaactacttgtttatatagaagagg a" /listShort="tmk" /listLong="yaaQ, yaaR, holB, yaaT, yabA, yabB, yazA, yabC" CDS 39159..39797 /gene="tmk" /locus_tag="BSU_00280" /old_locus_tag="BSU00280" /EC_number="2.7.4.9" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:9696781, 12682299, 18523102" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9696781, 12682299, 18523102; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="thymidylate kinase" /protein_id="NP_387909.2" /db_xref="EnsemblGenomes-Gn:BSU00280" /db_xref="EnsemblGenomes-Tr:CAB11804" /db_xref="GOA:P37537" /db_xref="InterPro:IPR018094" /db_xref="InterPro:IPR018095" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG10092" /db_xref="UniProtKB/Swiss-Prot:P37537" /translation="MSGLFITFEGPEGAGKTTVLQEIKNILTAEGLQVMATREPGGID IAEQIREVILNENNILMDPKTEALLYAAARRQHLVEKVKPALEQGFIVLCDRFIDSSL AYQGYARGLGIDEVLSINEFAIGDMMPHVTVYFSIDPEEGLKRIYANGSREKNRLDLE KLDFHTKVQEGYQELMKRFPERFHSVDAGQSKDLVVQDVLKVIDEALKKIQL*" gene 39159..39797 /gene="tmk" /locus_tag="BSU_00280" /old_locus_tag="BSU00280" promotor_-35 39792..39799 /Source="Nicolas_upshift_promotors" /id="U31" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.478521478521479" /psig="0.964035964035964" /xcortree=91 /SigmaFactorBS="tgatcgatgaagcgttgaaaaaaattcaaTTGTGACCtgttt cccaataGTTGATATAATAATGTAAACgagatcacgttgtttccaatctaaaggaggc c" /listShort="yaaQ, yaaR, holB, yaaT, yabA, yabB, yazA, yabC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 39812..39831 /Source="Nicolas_upshift_promotors" /id="U31" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.478521478521479" /psig="0.964035964035964" /xcortree=91 /SigmaFactorBS="tgatcgatgaagcgttgaaaaaaattcaaTTGTGACCtgttt cccaataGTTGATATAATAATGTAAACgagatcacgttgtttccaatctaaaggaggc c" /listShort="yaaQ, yaaR, holB, yaaT, yabA, yabB, yazA, yabC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 39823 /Source="Nicolas_upshifts" /id="U31" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.478521478521479" /psig="0.964035964035964" /xcortree=91 /SigmaFactorBS="tgatcgatgaagcgttgaaaaaaattcaaTTGTGACCtgttt cccaataGTTGATATAATAATGTAAACgagatcacgttgtttccaatctaaaggaggc c" /listShort="yaaQ, yaaR, holB, yaaT, yabA, yabB, yazA, yabC" /GFF_Attribute="listLong" CDS 39871..40200 /gene="darA" /locus_tag="BSU_00290" /old_locus_tag="BSU00290" /experiment="publication(s) with functional evidences, PMID:10913081, 25433025" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10913081, 25433025; Product type rc: receptor" /codon_start=1 /transl_table=11 /product="signal transduction receptor, cyclic di-AMP binding" /protein_id="NP_387910.1" /db_xref="EnsemblGenomes-Gn:BSU00290" /db_xref="EnsemblGenomes-Tr:CAB11805" /db_xref="InterPro:IPR010375" /db_xref="InterPro:IPR011322" /db_xref="InterPro:IPR015867" /db_xref="PDB:4RLE" /db_xref="SubtiList:BG10093" /db_xref="UniProtKB/Swiss-Prot:P37538" /translation="MKLIVAVVQDQDSNRLLKTLTDHNFRVTKLATTGGFLKSGNTTF MIGVEDIRVNKALSLIKENGQKRDQMIAPVSPMGGNADSYVPYPVEVEVGGATVFVLP VDEFHQF*" gene 39871..40200 /gene="darA" /locus_tag="BSU_00290" /old_locus_tag="BSU00290" CDS 40213..40653 /gene="yaaR" /locus_tag="BSU_00300" /old_locus_tag="BSU00300" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 22333191, 22720735" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_387911.1" /db_xref="EnsemblGenomes-Gn:BSU00300" /db_xref="EnsemblGenomes-Tr:CAB11806" /db_xref="InterPro:IPR005585" /db_xref="InterPro:IPR024042" /db_xref="SubtiList:BG10094" /db_xref="UniProtKB/Swiss-Prot:P37539" /translation="MKINKDIRTFIDNKQIPSVKTSEITASFKTSMENQSSKMKLDQL TRLLSDIEAFGKRLTKSRNFKDLARFKGLVKRFVKEAVDSGLSHETSKSFDLYGNSRT LGLVKEIDDKLIQLTEEMMDQEKPAIDLLERIGEIKGLLINLYT*" gene 40213..40653 /gene="yaaR" /locus_tag="BSU_00300" /old_locus_tag="BSU00300" CDS 40665..41654 /gene="holB" /locus_tag="BSU_00310" /old_locus_tag="BSU00310" /EC_number="2.7.7.7" /function="16.9: Replicate" /experiment="publication(s) with functional evidences, PMID:8509334, 12060778, 12682299, 22333191, 23525462" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8509334, 12060778, 12682299, 22333191, 23525462; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="DNA polymerase III clamp loader delta' subunit" /protein_id="NP_387912.1" /db_xref="EnsemblGenomes-Gn:BSU00310" /db_xref="EnsemblGenomes-Tr:CAB11807" /db_xref="GOA:P37540" /db_xref="InterPro:IPR004622" /db_xref="InterPro:IPR015199" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG10095" /db_xref="UniProtKB/Swiss-Prot:P37540" /translation="MAISWKEMNELQPRVMKLLYNSIEKDRLSHAYLFEGKKGTGKLD AALLLAKSFFCLEGGAEPCESCRNCKRIESGNHPDLHLVQPDGLSIKKAQIQALQEEF SKTGLESHKKLYIISHADQMTANAANSLLKFLEEPNKDTMAVLITEQPQRLLDTIISR CQTLPFQPLQPKAIEDRLIEQDVSPHMARLLANMTNNVAEAVELSRNDEFAESRAKVI KLYEVLHQRKGHAFFFIQDQWMPFFKEKTHQEMGLDMLLLIYRDVLSIQIGNEDKLIY QDLFQSIKQHALQSTQQSVTNQILAVLEAKKRLHSNVNVQGLMEHLVLMLQEG*" gene 40665..41654 /gene="holB" /locus_tag="BSU_00310" /old_locus_tag="BSU00310" CDS 41657..42484 /gene="ricT" /locus_tag="BSU_00320" /old_locus_tag="BSU00320" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:12270811, 23490197, 26434553, 27501195, 28295778" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12270811, 23490197, 26434553, 27501195, 28295778; Product type r: regulator" /codon_start=1 /transl_table=11 /product="subunit of a sporulation, competence and biofilmformation regulatory complex of RNaseY (RicAFT complex /FAD / two [4Fe-4S]2+)" /protein_id="NP_387913.1" /db_xref="EnsemblGenomes-Gn:BSU00320" /db_xref="EnsemblGenomes-Tr:CAB11808" /db_xref="GOA:P37541" /db_xref="InterPro:IPR007557" /db_xref="SubtiList:BG10096" /db_xref="UniProtKB/Swiss-Prot:P37541" /translation="MYNVIGVRFKKAGKIYYFDPNGFHIEHDSCVIVETVRGVEYGQV VIANKQVDEHDVVLPLRKVIRVADDRDLLIVEENKQEALSAFDICQKKVIEHGLDMKL VDVEFTFDRNKVIFYFTADGRVDFRELVKDLASIFKTRIELRQIGVRDEAKMLGGIGP CGRMLCCSTFLGDFEPVSIKMAKDQNLSLNPTKISGLCGRLMCCLKYENDEYETAKEQ LPDIGEMITTANGPAKVVGLNILERVLQVELINREKVIEYTWEELLEEGVVSAQTTD* " gene 41657..42484 /gene="ricT" /locus_tag="BSU_00320" /old_locus_tag="BSU00320" CDS 42499..42858 /gene="dnaH" /locus_tag="BSU_00330" /old_locus_tag="BSU00330" /function="16.9: Replicate" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:15927750, 16461910, 19737352, 21895792, 23909787, 28166228" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15927750, 16461910, 19737352, 21895792, 23909787, 28166228; Product type f : factor" /codon_start=1 /transl_table=11 /product="subunit of the DNA replication complex" /protein_id="NP_387914.1" /db_xref="EnsemblGenomes-Gn:BSU00330" /db_xref="EnsemblGenomes-Tr:CAB11809" /db_xref="GOA:P37542" /db_xref="InterPro:IPR010377" /db_xref="PDB:5DOL" /db_xref="SubtiList:BG10097" /db_xref="UniProtKB/Swiss-Prot:P37542" /translation="MDKKELFDTVINLEEQIGSLYRQLGDLKQHIGEMIEENHHLQLE NKHLRKRLDDTTQQIEKFKADKKESKTQKTEQTDIGEGYDNLARLYQEGFHICNVHYG SVRKEDCLFCLSFLNKK*" gene 42499..42858 /gene="dnaH" /locus_tag="BSU_00330" /old_locus_tag="BSU00330" CDS 42917..43660 /gene="trmNF" /locus_tag="BSU_00340" /old_locus_tag="BSU00340" /EC_number="2.1.1.223" /function="10.3: tRNA and rRNA base modification" /function="16.3: Control" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 22905870, 24809820; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="tRNA1(Val) (adenine(37)-N6)-methyltransferase" /protein_id="NP_387915.1" /db_xref="EnsemblGenomes-Gn:BSU00340" /db_xref="EnsemblGenomes-Tr:CAB11810" /db_xref="GOA:P37543" /db_xref="InterPro:IPR007848" /db_xref="InterPro:IPR029063" /db_xref="SubtiList:BG10098" /db_xref="UniProtKB/Swiss-Prot:P37543" /translation="MVSLHDDERLDYLLAEDMKIIQSPTVFAFSLDAVLLSKFAYVPI QKGKIVDLCTGNGIVPLLLSTRSKADILGVEIQERLHDMAVRSVEYNKLDDQIQIIHD DLKNMPEKLGHNRYDVVTCNPPYFKTPKQTEQNMNEHLRIARHEIHCTLEDVISVSSK LLKQGGKAALVHRPGRLLEIFELMKAYQIEPKRVQFVYPKQGKEANTILVEGIKGGRP DLKILPPLFVYDEQNEYTKEIRTILYGDK*" gene 42917..43660 /gene="trmNF" /locus_tag="BSU_00340" /old_locus_tag="BSU00340" CDS 43647..43946 /gene="yazA" /locus_tag="BSU_00350" /old_locus_tag="BSU00350" /function="16.6: Maintain" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 11483577; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative UvrC-Intron-type (URI) endonuclease" /protein_id="NP_387916.1" /db_xref="EnsemblGenomes-Gn:BSU00350" /db_xref="EnsemblGenomes-Tr:CAB11811" /db_xref="InterPro:IPR000305" /db_xref="InterPro:IPR035901" /db_xref="SubtiList:BG12700" /db_xref="UniProtKB/Swiss-Prot:O31414" /translation="METNNHFFYVVKCKDNSWYAGYTNDLHKRVKTHNDGKGAKYTKV RRPVELIFAESFSTKREAMQAEYYFKKLTRKKKELYIEEKRNSKEAVYVKAPNEL*" gene 43647..43946 /gene="yazA" /locus_tag="BSU_00350" /old_locus_tag="BSU00350" CDS 43921..44799 /gene="rsmI" /locus_tag="BSU_00360" /old_locus_tag="BSU00360" /EC_number="2.1.1.198" /function="16.8: Protect" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 16014871, 19965768, 25893373; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="16S rRNA 2'-O-ribose C1402 methyltransferase" /protein_id="NP_387917.1" /db_xref="EnsemblGenomes-Gn:BSU00360" /db_xref="EnsemblGenomes-Tr:CAB11812" /db_xref="GOA:P37544" /db_xref="InterPro:IPR000878" /db_xref="InterPro:IPR008189" /db_xref="InterPro:IPR014776" /db_xref="InterPro:IPR014777" /db_xref="InterPro:IPR018063" /db_xref="InterPro:IPR035996" /db_xref="SubtiList:BG10099" /db_xref="UniProtKB/Swiss-Prot:P37544" /translation="MLRRQMSFNGKSDMGILYLVPTPIGNLEDMTFRAIDTLKSVDAI AAEDTRQTKKLCHVYEIETPLVSYHEHNKESSGHKIIEWLKSGKNIALVSDAGLPTIS DPGAEIVKDFTDIGGYVVPLPGANAALTALIASGIVPQPFFFYGFLNRQKKEKKKELE ALKKRQETIIFYEAPHRLKETLSAMAEILGDREIAVTRELTKKYEEFIRGTISEVIGW ANEDQIRGEFCLVVEGSNNEEVDEEEQWWETLTAKEHVEHYISKGATSKEAIKKAAVD RNVPKREVYDAYHIKQ*" gene 43921..44799 /gene="rsmI" /locus_tag="BSU_00360" /old_locus_tag="BSU00360" downshifts 44772 /Source="Nicolas_upshifts" /id="D13" /incds=0 /nref=23 /ntot=177 /MaxReadThrough="3.33195" /MaxDrop="3.72723" /score="5.97354542" /energy="-10.2" /TU="U29,U31" /idTUdmin="U29" /TUdmin="-23" /isTUend="FALSE" CDS complement(44848..45138) /gene="abrB" /locus_tag="BSU_00370" /old_locus_tag="BSU00370" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:10754235, 10809710, 11101881, 11101897, 16159768, 16223496, 16702211, 25308864, 25381239, 18676675, 22183144, 23196984, 24832089, 24847778, 25288929" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10754235, 10809710, 11101881, 11101897, 16159768, 16223496, 16702211, 25308864, 25381239, 18676675, 22183144, 23196984, 24832089, 24847778, 25288929; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator for transition state genes (AbrB-SurF)" /protein_id="NP_387918.1" /db_xref="EnsemblGenomes-Gn:BSU00370" /db_xref="EnsemblGenomes-Tr:CAB11813" /db_xref="GOA:P08874" /db_xref="InterPro:IPR007159" /db_xref="PDB:1YFB" /db_xref="PDB:1YSF" /db_xref="PDB:1Z0R" /db_xref="PDB:2K1N" /db_xref="PDB:2MJG" /db_xref="PDB:2RO4" /db_xref="SubtiList:BG10100" /db_xref="UniProtKB/Swiss-Prot:P08874" /translation="MFMKSTGIVRKVDELGRVVIPIELRRTLGIAEKDALEIYVDDEK IILKKYKPNMTCQVTGEVSDDNLKLAGGKLVLSKEGAEQIISEIQNQLQNLK*" gene complement(44848..45138) /gene="abrB" /locus_tag="BSU_00370" /old_locus_tag="BSU00370" downshifts complement(44850) /Source="Nicolas_upshifts" /id="D14" /incds=0 /nref=216 /ntot=263 /MaxReadThrough="2.17237" /MaxDrop="7.75729" /score="20.9582436" /energy="-10.2" /TU="U32" /idTUdmin="U32" /TUdmin="-23" /isTUend="FALSE" downshifts 45169 /Source="Nicolas_upshifts" /id="D15" /incds=0 /nref=1 /ntot=15 /MaxReadThrough="2.53543" /MaxDrop="4.31699" /score="13.7153159" /energy="-14.4" /TU="NA" /idTUdmin="U29" /TUdmin=374 /isTUend="FALSE" promotor_-10 complement(45205..45224) /Source="Nicolas_upshift_promotors" /id="U32" /multdbtbs="SigA,SigA" /comp="M19" /sig="SigA" /pcomp="0.608391608391608" /psig=1 /xcortree=2122 /SigmaFactorBS="tataagaactaattcttacaatcaatagtaaacaaaaTGATT GACgattattggaaacCTTGTTATGCTATGAAGGTAaggattttgtcgaataatgacg a" /listShort="abrB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(45222) /Source="Nicolas_upshifts" /id="U32" /multdbtbs="SigA,SigA" /comp="M19" /sig="SigA" /pcomp="0.608391608391608" /psig=1 /xcortree=2122 /SigmaFactorBS="tataagaactaattcttacaatcaatagtaaacaaaaTGATT GACgattattggaaacCTTGTTATGCTATGAAGGTAaggattttgtcgaataatgacg a" /listShort="abrB" /GFF_Attribute="listLong" S_feature complement(45224..45399) /Source="Nicolas_S_feature" /locus_tag="new_45224_45399_c" /HighExp="C30, H2O2, G180, Etha, S0, GM 25, Gly, G135, MG 25, MG-0.2" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.993" /TUlongSig="NA" /TUlongPSig="NA" /label="S23" promotor_-35 complement(45238..45245) /Source="Nicolas_upshift_promotors" /id="U32" /multdbtbs="SigA,SigA" /comp="M19" /sig="SigA" /pcomp="0.608391608391608" /psig=1 /xcortree=2122 /SigmaFactorBS="tataagaactaattcttacaatcaatagtaaacaaaaTGATT GACgattattggaaacCTTGTTATGCTATGAAGGTAaggattttgtcgaataatgacg a" /listShort="abrB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(45395..45414) /Source="Nicolas_upshift_promotors" /id="U33" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.603396603396603" /psig="0.993006993006993" /xcortree=2123 /SigmaFactorBS="aaatctttaatgaaaataaaaaaaGTCTGTTCgtgtcgaatt ttgTCGTATATAATCAAATGAAAtaaaaaactttggttcgaaagtcttgatttaaaag g" /listShort="S23" /listLong="abrB" /label="promotor_-10" upshifts complement(45399) /Source="Nicolas_upshifts" /id="U33" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.603396603396603" /psig="0.993006993006993" /xcortree=2123 /SigmaFactorBS="aaatctttaatgaaaataaaaaaaGTCTGTTCgtgtcgaatt ttgTCGTATATAATCAAATGAAAtaaaaaactttggttcgaaagtcttgatttaaaag g" /listShort="S23" /listLong="abrB" promotor_-35 complement(45428..45435) /Source="Nicolas_upshift_promotors" /id="U33" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.603396603396603" /psig="0.993006993006993" /xcortree=2123 /SigmaFactorBS="aaatctttaatgaaaataaaaaaaGTCTGTTCgtgtcgaatt ttgTCGTATATAATCAAATGAAAtaaaaaactttggttcgaaagtcttgatttaaaag g" /listShort="S23" /listLong="abrB" /label="promotor_-35" promotor_-35 45499..45503 /Source="Nicolas_upshift_promotors" /id="U34" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.803196803196803" /psig="0.999000999001" /xcortree=2569 /SigmaFactorBS="ttttaattattctttttcagggcgtatgtatatatTCTTGat cttaaaggctaaGATGGTATCATAGATAAAGGataaatataaataatattcatatatg a" /listShort="S24, metS, yabD, S26, yabE" /listLong="S27, rnmV, ksgA" /label="promotor_-35" promotor_-10 45518..45537 /Source="Nicolas_upshift_promotors" /id="U34" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.803196803196803" /psig="0.999000999001" /xcortree=2569 /SigmaFactorBS="ttttaattattctttttcagggcgtatgtatatatTCTTGat cttaaaggctaaGATGGTATCATAGATAAAGGataaatataaataatattcatatatg a" /listShort="S24, metS, yabD, S26, yabE" /listLong="S27, rnmV, ksgA" /label="promotor_-10" S_feature 45524..45632 /Source="Nicolas_S_feature" /locus_tag="new_45524_45632" /HighExp="LBGtran, Heat, dia5, dia15, LBGexp, Lbexp, dia0, H2O2, Diami, BMM" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S24" upshifts 45524 /Source="Nicolas_upshifts" /id="U34" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.803196803196803" /psig="0.999000999001" /xcortree=2569 /SigmaFactorBS="ttttaattattctttttcagggcgtatgtatatatTCTTGat cttaaaggctaaGATGGTATCATAGATAAAGGataaatataaataatattcatatatg a" /listShort="S24, metS, yabD, S26, yabE" /listLong="S27, rnmV, ksgA" CDS 45633..47627 /gene="metS" /locus_tag="BSU_00380" /old_locus_tag="BSU00380" /EC_number="6.1.1.10" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 11233169, 12682299, 12792655; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="methionyl-tRNA synthetase" /protein_id="NP_387919.1" /db_xref="EnsemblGenomes-Gn:BSU00380" /db_xref="EnsemblGenomes-Tr:CAB11814" /db_xref="GOA:P37465" /db_xref="InterPro:IPR001412" /db_xref="InterPro:IPR002547" /db_xref="InterPro:IPR004495" /db_xref="InterPro:IPR009080" /db_xref="InterPro:IPR012340" /db_xref="InterPro:IPR013155" /db_xref="InterPro:IPR014729" /db_xref="InterPro:IPR014758" /db_xref="InterPro:IPR015413" /db_xref="InterPro:IPR023457" /db_xref="InterPro:IPR033911" /db_xref="SubtiList:BG10101" /db_xref="UniProtKB/Swiss-Prot:P37465" /translation="MPQENNTFYITTPIYYPSGKLHIGHAYTTVAGDAMARYKRLKGF DVRYLTGTDEHGQKIQQKAEQENITPQEYVDRAAADIQKLWKQLEISNDDFIRTTEKR HKVVIEKVFQKLLDNGDIYLDEYEGWYSIPDETFYTETQLVDIERNEKGEVIGGKSPD SGHPVELIKEESYFFRMGKYADRLLKYYEENPTFIQPESRKNEMINNFIKPGLEDLAV SRTTFDWGVKVPENPKHVVYVWIDALFNYLTALGYDTENDELYQKYWPADVHLVGKEI VRFHTIYWPIMLMALDLPLPKQVFAHGWLLMKDGKMSKSKGNVVDPVTLIERYGLDEL RYYLLREVPFGSDGVFTPEGFVERINYDLANDLGNLLNRTVAMINKYFDGQIGSYKGA VTEFDHTLTSVAEETVKAYEKAMENMEFSVALSTLWQLISRTNKYIDETAPWVLAKDP AKEEELRSVMYHLAESLRISAVLLQPFLTKTPEKMFEQLGITDESLKAWDSITAFGQL KDTKVQKGEPLFPRLEAEEEIAYIKGKMQGSAPAKEETKEEEPQEVDRLPEITIDQFM DVELRVAEVIEAEPVKKADRLLKLQLDLGFEKRQVVSGIAKHYTPEELVGKKLVCVTN LKPVKLRGELSQGMILAGEADGVLKVVSIDQSLPKGTRIK*" gene 45633..47627 /gene="metS" /locus_tag="BSU_00380" /old_locus_tag="BSU00380" promotor_-10 complement(46381..46400) /Source="Nicolas_upshift_promotors" /id="U35" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.938061938061938" /psig=1 /xcortree=1824 /SigmaFactorBS="cgactaaatgaacatcggcaggccaatatTTTTGataaagct catcattTTCTGTATCATAACCGAGTGccgttaaatagttaaatagtgcgtcaatcca a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(46389) /Source="Nicolas_upshifts" /id="U35" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.938061938061938" /psig=1 /xcortree=1824 /SigmaFactorBS="cgactaaatgaacatcggcaggccaatatTTTTGataaagct catcattTTCTGTATCATAACCGAGTGccgttaaatagttaaatagtgcgtcaatcca a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(46416..46420) /Source="Nicolas_upshift_promotors" /id="U35" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.938061938061938" /psig=1 /xcortree=1824 /SigmaFactorBS="cgactaaatgaacatcggcaggccaatatTTTTGataaagct catcattTTCTGTATCATAACCGAGTGccgttaaatagttaaatagtgcgtcaatcca a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 47611 /Source="Nicolas_upshifts" /id="D16" /incds=0 /nref=18 /ntot=206 /MaxReadThrough="4.8491" /MaxDrop="2.9167" /score="13.7153159" /energy="-14.4" /TU="U34" /idTUdmin="U34" /TUdmin="-2288" /isTUend="FALSE" S_feature complement(47673..50019) /Source="Nicolas_S_feature" /locus_tag="new_47673_50019_c" /HighExp="T0.30H, T1.0H, T1.30H, Salt, C30, T2.0H, T-0.40H, T0.0H, T2.30H, T-1.10H" /AntisenseName="yabE" /AntisenseCor="-0.28154713646185298" /AntisenseRegPval="-5.6" /CDS_PredictionProba="NA" /TUshortSig="SigWXY" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S25" CDS 47706..48473 /gene="dayD" /locus_tag="BSU_00390" /old_locus_tag="BSU00390" /EC_number="3.1.-.-" /function="16.11: Scavenge (Catabolism)" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 10747959, 16014871, 16461678, 19332551; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="D-amino acyl-tRNA deacylase" /protein_id="NP_387920.1" /db_xref="EnsemblGenomes-Gn:BSU00390" /db_xref="EnsemblGenomes-Tr:CAB11815" /db_xref="GOA:P37545" /db_xref="InterPro:IPR001130" /db_xref="InterPro:IPR015991" /db_xref="InterPro:IPR018228" /db_xref="InterPro:IPR032466" /db_xref="SubtiList:BG10102" /db_xref="UniProtKB/Swiss-Prot:P37545" /translation="MLFDTHAHLNAEQYDTDLEEVIERAKAEKVERIVVVGFDRPTIT RAMEMIEEYDFIYAAIGWHPVDAIDMTEEDLAWIKELSAHEKVVAIGEMGLDYHWDKS PKDIQKEVFRNQIALAKEVNLPIIIHNRDATEDVVTILKEEGAEAVGGIMHCFTGSAE VARECMKMNFYLSFGGPVTFKNAKKPKEVVKEIPNDRLLIETDCPFLTPHPFRGKRNE PSYVKYVAEQIAELKEMTFEEIASITTENAKRLFRIN*" gene 47706..48473 /gene="dayD" /locus_tag="BSU_00390" /old_locus_tag="BSU00390" S_feature 48474..48554 /Source="Nicolas_S_feature" /locus_tag="new_48474_48554" /HighExp="Heat, C30, LBGtran, LBGstat, C90, Etha, M40t45, LPhT, MG 15, Gly" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S26" promotor_-35 48531..48536 /Source="Nicolas_upshift_promotors" /id="U36" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.943056943056943" /psig="0.943056943056943" /xcortree=438 /SigmaFactorBS="taagagcttgtcccttacagcgtttttctataaaaGTTCTAc atgctttcttctccTCATAGGATAGGTTTGTCGacaagtctttcttccgtttctcagt g" /listShort="yabE, S27, rnmV, ksgA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 48552..48570 /Source="Nicolas_upshift_promotors" /id="U36" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.943056943056943" /psig="0.943056943056943" /xcortree=438 /SigmaFactorBS="taagagcttgtcccttacagcgtttttctataaaaGTTCTAc atgctttcttctccTCATAGGATAGGTTTGTCGacaagtctttcttccgtttctcagt g" /listShort="yabE, S27, rnmV, ksgA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 48556 /Source="Nicolas_upshifts" /id="U36" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.943056943056943" /psig="0.943056943056943" /xcortree=438 /SigmaFactorBS="taagagcttgtcccttacagcgtttttctataaaaGTTCTAc atgctttcttctccTCATAGGATAGGTTTGTCGacaagtctttcttccgtttctcagt g" /listShort="yabE, S27, rnmV, ksgA" /GFF_Attribute="listLong" promotor_-35 48581..48584 /Source="Nicolas_upshift_promotors" /id="U37" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.705294705294705" /psig="0.843156843156843" /xcortree=440 /SigmaFactorBS="aggataggtttgtcgacaagtctttCTTCcgtttctcagtgt aTTTCAGGATAATGAAGAGGAcactgagcttttgggagaaagagaagggagggttgac a" /listShort="yabE, S27" /listLong="rnmV, ksgA" /label="promotor_-35" promotor_-10 48599..48618 /Source="Nicolas_upshift_promotors" /id="U37" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.705294705294705" /psig="0.843156843156843" /xcortree=440 /SigmaFactorBS="aggataggtttgtcgacaagtctttCTTCcgtttctcagtgt aTTTCAGGATAATGAAGAGGAcactgagcttttgggagaaagagaagggagggttgac a" /listShort="yabE, S27" /listLong="rnmV, ksgA" /label="promotor_-10" upshifts 48616 /Source="Nicolas_upshifts" /id="U37" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.705294705294705" /psig="0.843156843156843" /xcortree=440 /SigmaFactorBS="aggataggtttgtcgacaagtctttCTTCcgtttctcagtgt aTTTCAGGATAATGAAGAGGAcactgagcttttgggagaaagagaagggagggttgac a" /listShort="yabE, S27" /listLong="rnmV, ksgA" CDS 48629..49942 /gene="yabE" /locus_tag="BSU_00400" /old_locus_tag="BSU00400" /function="16.13: Shape" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15774001, 19047346; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative cell wall shaping enzyme" /protein_id="NP_387921.1" /db_xref="EnsemblGenomes-Gn:BSU00400" /db_xref="EnsemblGenomes-Tr:CAB11816" /db_xref="GOA:P37546" /db_xref="InterPro:IPR007137" /db_xref="InterPro:IPR010611" /db_xref="InterPro:IPR011098" /db_xref="InterPro:IPR036908" /db_xref="SubtiList:BG10103" /db_xref="UniProtKB/Swiss-Prot:P37546" /translation="MGEREGRVDSLLDTLYNLSEEKEAFFITQKMKKLFSVKLSKSKV ILVAACLLLAGSGTAYAAHELTKQSVSVSINGKKKHIRTHANTVGDLLETLDIKTRDE DKITPAKQTKITADMDVVYEAAKPVKLTINGEEKTLWSTAKTVGALLDEQDVDVKEQD QIDPAIDTDISKDMKINIEPAFQVTVNDAGKQKKIWTTSTTVADFLKQQKMNIKDEDK IKPALDAKLTKGKADITITRIEKVTDVVEEKIAFDVKKQEDASLEKGKEKVVQKGKEG KLKKHFEVVKENGKEVSRELVKEETAEQSKDKVIAVGTKQSSPKFETVSASGDSKTVV SRSNESTGKVMTVSSTAYTASCSGCSGHTATGVNLKNNPNAKVIAVDPNVIPLGSKVH VEGYGYAIAADTGSAIKGNKIDVFFPEKSSAYRWGNKTVKIKILN*" gene 48629..49942 /gene="yabE" /locus_tag="BSU_00400" /old_locus_tag="BSU00400" promotor_-35 48649..48656 /Source="Nicolas_upshift_promotors" /id="U38" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.926073926073926" /psig=1 /xcortree=2420 /SigmaFactorBS="taatgaagaggacactgagcttttgggagaaagagaagggag GGTTGACAgccttttagatactCTATATAATCTCTCCGAGGAgaaggaggcgtttttc a" /listShort="yabE, S27, rnmV, ksgA" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 48667 /Source="Nicolas_upshifts" /id="U38" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.926073926073926" /psig=1 /xcortree=2420 /SigmaFactorBS="taatgaagaggacactgagcttttgggagaaagagaagggag GGTTGACAgccttttagatactCTATATAATCTCTCCGAGGAgaaggaggcgtttttc a" /listShort="yabE, S27, rnmV, ksgA" /GFF_Attribute="listLong" promotor_-10 48671..48690 /Source="Nicolas_upshift_promotors" /id="U38" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.926073926073926" /psig=1 /xcortree=2420 /SigmaFactorBS="taatgaagaggacactgagcttttgggagaaagagaagggag GGTTGACAgccttttagatactCTATATAATCTCTCCGAGGAgaaggaggcgtttttc a" /listShort="yabE, S27, rnmV, ksgA" /GFF_Attribute="listLong" /label="promotor_-10" downshifts 49903 /Source="Nicolas_upshifts" /id="D17" /incds=0 /nref=87 /ntot=220 /MaxReadThrough="5.02755" /MaxDrop="4.87493" /score="27.529638" /energy="-11.3" /TU="U36,U37,U38" /idTUdmin="U34" /TUdmin=4 /isTUend="TRUE" promotor_-35 49965..49969 /Source="Nicolas_upshift_promotors" /id="U39" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.928071928071928" /psig=1 /xcortree=2584 /SigmaFactorBS="taaaatcttaaattagtatatacttatgtattcagaggGTTT TgcgccctctgtttttTTCGTTATAATAGACAAAGTgcattttctgcttattagacgc t" /listShort="S27, rnmV, ksgA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 49985..50004 /Source="Nicolas_upshift_promotors" /id="U39" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.928071928071928" /psig=1 /xcortree=2584 /SigmaFactorBS="taaaatcttaaattagtatatacttatgtattcagaggGTTT TgcgccctctgtttttTTCGTTATAATAGACAAAGTgcattttctgcttattagacgc t" /listShort="S27, rnmV, ksgA" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 49987..50086 /Source="Nicolas_S_feature" /locus_tag="new_49987_50086" /HighExp="LoTm, H2O2, G180, G135, G150, Paraq, Oxctl, C30, dia15, BMM" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA, SigA, SigEF" /TUshortPSig="1, 1, 0.843, 0.943" /TUlongSig="SigA" /TUlongPSig="0.999" /label="S27" upshifts 49987 /Source="Nicolas_upshifts" /id="U39" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.928071928071928" /psig=1 /xcortree=2584 /SigmaFactorBS="taaaatcttaaattagtatatacttatgtattcagaggGTTT TgcgccctctgtttttTTCGTTATAATAGACAAAGTgcattttctgcttattagacgc t" /listShort="S27, rnmV, ksgA" /GFF_Attribute="listLong" promotor_-10 complement(50011..50026) /Source="Nicolas_upshift_promotors" /id="U40" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=2365 /SigmaFactorBS="ttatttcctccaagacaaaataaaaacttttgtatattcaTG AAACTTTTtcttatatcgaGCGTCTAATAAGCAGAaaatgcactttgtctattataac g" /listShort="S25" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(50027) /Source="Nicolas_upshifts" /id="U40" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=2365 /SigmaFactorBS="ttatttcctccaagacaaaataaaaacttttgtatattcaTG AAACTTTTtcttatatcgaGCGTCTAATAAGCAGAaaatgcactttgtctattataac g" /listShort="S25" /GFF_Attribute="listLong" promotor_-35 complement(50038..50047) /Source="Nicolas_upshift_promotors" /id="U40" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=2365 /SigmaFactorBS="ttatttcctccaagacaaaataaaaacttttgtatattcaTG AAACTTTTtcttatatcgaGCGTCTAATAAGCAGAaaatgcactttgtctattataac g" /listShort="S25" /GFF_Attribute="listLong" /label="promotor_-35" misc_feature 50083..50099 /Source="Nicolas_upshift_promotors" /id="U41" /multdbtbs="-" /comp="M11" /sig="Sig-" /pcomp="0.48051948051948" /psig="0.48051948051948" /xcortree=100 /SigmaFactorBS="aaaaagtttcatgaatatacaaaagtttttattttgtcttgg aggaAATAATGAAAATTAAAGagatcattgtggtcgaggggcgtgacgatacggcccg c" /listShort="rnmV, ksgA" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" CDS 50087..50647 /gene="rnmV" /locus_tag="BSU_00410" /old_locus_tag="BSU00410" /EC_number="3.1.26.8" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:11233981, 11976317, 12794188, 16077031" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11233981, 11976317, 12794188, 16077031; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="ribonuclease M5" /protein_id="NP_387922.1" /db_xref="EnsemblGenomes-Gn:BSU00410" /db_xref="EnsemblGenomes-Tr:CAB11817" /db_xref="GOA:P37547" /db_xref="InterPro:IPR004466" /db_xref="InterPro:IPR006171" /db_xref="InterPro:IPR025156" /db_xref="InterPro:IPR034141" /db_xref="SubtiList:BG10104" /db_xref="UniProtKB/Swiss-Prot:P37547" /translation="MKIKEIIVVEGRDDTARIKLAVDADTIETNGSAIDDHVIDQIRL AQKTRGVIILTDPDFPGEKIRKTISEAVPGCKHAFLPKHLAKPKNKRGIGVEHASVES IRACLENVHEEMEAQPSDISAEDLIHAGLIGGPAAKCRRERLGDLLKIGYTNGKQLQK RLQMFQIKKSDFMSALDTVMREEQNE*" gene 50087..50647 /gene="rnmV" /locus_tag="BSU_00410" /old_locus_tag="BSU00410" upshifts 50097 /Source="Nicolas_upshifts" /id="U41" /multdbtbs="-" /comp="M11" /sig="Sig-" /pcomp="0.48051948051948" /psig="0.48051948051948" /xcortree=100 /SigmaFactorBS="aaaaagtttcatgaatatacaaaagtttttattttgtcttgg aggaAATAATGAAAATTAAAGagatcattgtggtcgaggggcgtgacgatacggcccg c" /listShort="rnmV, ksgA" /GFF_Attribute="listLong" CDS 50640..51518 /gene="rsmA" /locus_tag="BSU_00420" /old_locus_tag="BSU00420" /EC_number="2.1.1.-" /function="16.6: Maintain" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 99430, 6801425, 11327780, 1690648, 22391551; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="dimethyladenosine 16S ribosomal RNA transferase" /protein_id="NP_387923.1" /db_xref="EnsemblGenomes-Gn:BSU00420" /db_xref="EnsemblGenomes-Tr:CAB11818" /db_xref="GOA:P37468" /db_xref="InterPro:IPR001737" /db_xref="InterPro:IPR011530" /db_xref="InterPro:IPR020596" /db_xref="InterPro:IPR020598" /db_xref="InterPro:IPR023165" /db_xref="InterPro:IPR029063" /db_xref="SubtiList:BG10105" /db_xref="UniProtKB/Swiss-Prot:P37468" /translation="MNKDIATPIRTKEILKKYGFSFKKSLGQNFLIDTNILNRIVDHA EVTEKTGVIEIGPGIGALTEQLAKRAKKVVAFEIDQRLLPILKDTLSPYENVTVIHQD VLKADVKSVIEEQFQDCDEIMVVANLPYYVTTPIIMKLLEEHLPLKGIVVMLQKEVAE RMAADPSSKEYGSLSIAVQFYTEAKTVMIVPKTVFVPQPNVDSAVIRLILRDGPAVDV ENESFFFQLIKASFAQRRKTLLNNLVNNLPEGKAQKSTIEQVLEETNIDGKRRGESLS IEEFAALSNGLYKALF*" gene 50640..51518 /gene="rsmA" /locus_tag="BSU_00420" /old_locus_tag="BSU00420" downshifts 51483 /Source="Nicolas_upshifts" /id="D18" /incds=0 /nref=152 /ntot=229 /MaxReadThrough="3.0815" /MaxDrop="4.58632" /score="20.4155562" /energy="-9.4" /TU="NA" /idTUdmin="U36" /TUdmin=0 /isTUend="TRUE" promotor_-35 51533..51542 /Source="Nicolas_upshift_promotors" /id="U42" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1303 /SigmaFactorBS="ttgtataaagcccttttctaaaagggctttttgttTTGCGCA CCAcatggactgccgcTACATAGGCTAGAGAAGGACctttcattcaatgataagaaaa a" /listShort="S28, yabG" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 51556..51575 /Source="Nicolas_upshift_promotors" /id="U42" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1303 /SigmaFactorBS="ttgtataaagcccttttctaaaagggctttttgttTTGCGCA CCAcatggactgccgcTACATAGGCTAGAGAAGGACctttcattcaatgataagaaaa a" /listShort="S28, yabG" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 51558..51679 /Source="Nicolas_S_feature" /locus_tag="new_51558_51679" /HighExp="S7, S6, S8, BT, S5, B36, G/S, Pyr, B60, Etha" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigK" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S28" upshifts 51558 /Source="Nicolas_upshifts" /id="U42" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1303 /SigmaFactorBS="ttgtataaagcccttttctaaaagggctttttgttTTGCGCA CCAcatggactgccgcTACATAGGCTAGAGAAGGACctttcattcaatgataagaaaa a" /listShort="S28, yabG" /GFF_Attribute="listLong" CDS 51680..52552 /gene="prtG" /locus_tag="BSU_00430" /old_locus_tag="BSU00430" /function="16.13: Shape" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:10714992, 11040425, 16751597, 19060142, 19833771" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10714992, 11040425, 16751597, 19060142, 19833771; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="sporulation-specific protease" /protein_id="NP_387924.1" /db_xref="EnsemblGenomes-Gn:BSU00430" /db_xref="EnsemblGenomes-Tr:CAB11819" /db_xref="GOA:P37548" /db_xref="InterPro:IPR008764" /db_xref="SubtiList:BG10106" /db_xref="UniProtKB/Swiss-Prot:P37548" /translation="MQFQIGDMVARKSYQMDVLFRIIGIEQTSKGNSIAILHGDEVRL IADSDFSDLVAVKKDEQMMRKKKDESRMNESLELLRQDYKLLREKQEYYATSQYQHQE HYFHMPGKVLHLDGDEAYLKKCLNVYKKIGVPVYGIHCHEKKMSASIEVLLDKYRPDI LVITGHDAYSKQKGGIDDLNAYRHSKHFVETVQTARKKIPHLDQLVIFAGACQSHFES LIRAGANFASSPSRVNIHALDPVYIVAKISFTPFMERINVWEVLRNTLTREKGLGGIE TRGVLRIGMPYKSN*" gene 51680..52552 /gene="prtG" /locus_tag="BSU_00430" /old_locus_tag="BSU00430" downshifts 52539 /Source="Nicolas_upshifts" /id="D19" /incds=0 /nref=15 /ntot=32 /MaxReadThrough="2.30424" /MaxDrop="7.1507" /score="26.6672651" /energy="-11.5" /TU="NA" /idTUdmin="U42" /TUdmin=0 /isTUend="TRUE" S_feature 52649..52719 /Source="Nicolas_S_feature" /locus_tag="new_52649_52719" /HighExp="S8, S5, S7, S6, S4, BT, LoTm, G/S, nit, T5.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S29" promotor_-35 52710..52717 /Source="Nicolas_upshift_promotors" /id="U43" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.93906093906094" /psig=1 /xcortree=3089 /SigmaFactorBS="aaataattttattgacaacgtcttattaacgttgatataatt taaatttTATTTGACaaaaatgggctcgTGTTGTACAATAAATGTAGTgaggtggatg c" /listShort="veg, S30, sspF" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 52721 /Source="Nicolas_upshifts" /id="U43" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.93906093906094" /psig=1 /xcortree=3089 /SigmaFactorBS="aaataattttattgacaacgtcttattaacgttgatataatt taaatttTATTTGACaaaaatgggctcgTGTTGTACAATAAATGTAGTgaggtggatg c" /listShort="veg, S30, sspF" /GFF_Attribute="listLong" promotor_-10 52731..52750 /Source="Nicolas_upshift_promotors" /id="U43" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.93906093906094" /psig=1 /xcortree=3089 /SigmaFactorBS="aaataattttattgacaacgtcttattaacgttgatataatt taaatttTATTTGACaaaaatgggctcgTGTTGTACAATAAATGTAGTgaggtggatg c" /listShort="veg, S30, sspF" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-10 complement(52740..52754) /Source="Nicolas_upshift_promotors" /id="U44" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.996003996003996" /psig="0.000999000999001" /xcortree=718 /SigmaFactorBS="attcccatcaagcgatcttttaatatcggacaacgtcttcGC CATtgcatccaCCTCACTACATTTATtgtacaacacgagcccatttttgtcaaataaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(52747) /Source="Nicolas_upshifts" /id="U44" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.996003996003996" /psig="0.000999000999001" /xcortree=718 /SigmaFactorBS="attcccatcaagcgatcttttaatatcggacaacgtcttcGC CATtgcatccaCCTCACTACATTTATtgtacaacacgagcccatttttgtcaaataaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(52763..52767) /Source="Nicolas_upshift_promotors" /id="U44" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.996003996003996" /psig="0.000999000999001" /xcortree=718 /SigmaFactorBS="attcccatcaagcgatcttttaatatcggacaacgtcttcGC CATtgcatccaCCTCACTACATTTATtgtacaacacgagcccatttttgtcaaataaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 52763..53023 /gene="veg" /locus_tag="BSU_00440" /old_locus_tag="BSU00440" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 12761295, 22720735, 23378512; Producttype ph: phenotype" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_387925.1" /db_xref="EnsemblGenomes-Gn:BSU00440" /db_xref="EnsemblGenomes-Tr:CAB11820" /db_xref="GOA:P37466" /db_xref="InterPro:IPR009366" /db_xref="SubtiList:BG10107" /db_xref="UniProtKB/Swiss-Prot:P37466" /translation="MAKTLSDIKRSLDGNLGKRLTLKANGGRRKTIERSGILAETYPS VFVIQLDQDENSFERVSYSYADILTETVELTFNDDAASSVAF*" gene 52763..53023 /gene="veg" /locus_tag="BSU_00440" /old_locus_tag="BSU00440" downshifts 52935 /Source="Nicolas_upshifts" /id="D20" /incds=1 /nref=4 /ntot=158 /MaxReadThrough="8.09861" /MaxDrop="2.7867" /score="12.4853319" /energy="-9.9" /TU="U43" /idTUdmin="U42" /TUdmin=396 /isTUend="FALSE" downshifts 53022 /Source="Nicolas_upshifts" /id="D21" /incds=0 /nref=191 /ntot=264 /MaxReadThrough="5.88511" /MaxDrop="6.03144" /score="12.4853319" /energy="-9.9" /TU="U43" /idTUdmin="U43" /TUdmin="-331" /isTUend="FALSE" promotor_-35 53088..53094 /Source="Nicolas_upshift_promotors" /id="U45" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.96003996003996" /psig="0.96003996003996" /xcortree=844 /SigmaFactorBS="ttttgttttgcccttttttggtttccaataattttaaCGAAA GTtccatctgatttaACAAAAGATAAAacagtcacatattatcgtgacgtgcacgaat g" /listShort="S30, sspF" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 53108..53119 /Source="Nicolas_upshift_promotors" /id="U45" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.96003996003996" /psig="0.96003996003996" /xcortree=844 /SigmaFactorBS="ttttgttttgcccttttttggtttccaataattttaaCGAAA GTtccatctgatttaACAAAAGATAAAacagtcacatattatcgtgacgtgcacgaat g" /listShort="S30, sspF" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 53111..53182 /Source="Nicolas_S_feature" /locus_tag="new_53111_53182" /HighExp="S8, Cold, S6, S7, ferm, S5, nit, Etha, G135, LoTm" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigGF, SigA" /TUshortPSig="0.96, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S30" upshifts 53111 /Source="Nicolas_upshifts" /id="U45" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.96003996003996" /psig="0.96003996003996" /xcortree=844 /SigmaFactorBS="ttttgttttgcccttttttggtttccaataattttaaCGAAA GTtccatctgatttaACAAAAGATAAAacagtcacatattatcgtgacgtgcacgaat g" /listShort="S30, sspF" /GFF_Attribute="listLong" CDS 53183..53368 /gene="sspF" /locus_tag="BSU_00450" /old_locus_tag="BSU00450" /function="16.5: Explore" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:7959056, 8982008, 11092849" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7959056, 8982008, 11092849; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="small acid-soluble spore protein (alpha/beta-type SASP)" /protein_id="NP_387926.1" /db_xref="EnsemblGenomes-Gn:BSU00450" /db_xref="EnsemblGenomes-Tr:CAB11821" /db_xref="GOA:P37549" /db_xref="InterPro:IPR001448" /db_xref="InterPro:IPR018126" /db_xref="SubtiList:BG10108" /db_xref="UniProtKB/Swiss-Prot:P37549" /translation="MGRRRGVMSDEFKYELAKDLGFYDTVKNGGWGEIRARDAGNMVK RAIEIAEQQMAQNQNNR*" gene 53183..53368 /gene="sspF" /locus_tag="BSU_00450" /old_locus_tag="BSU00450" downshifts 53353 /Source="Nicolas_upshifts" /id="D22" /incds=0 /nref=54 /ntot=153 /MaxReadThrough="2.67408" /MaxDrop="6.21058" /score="38.1065567" /energy="-12.6" /TU="NA" /idTUdmin="U43" /TUdmin=0 /isTUend="TRUE" S_feature complement(53363..55717) /Source="Nicolas_S_feature" /locus_tag="new_53363_55717_c" /HighExp="S5, S4, S6, T5.0H, S3, S8, S7, T4.0H, T3.30H, C30" /AntisenseName="ispE" /AntisenseCor="-0.66604185700913698" /AntisenseRegPval="-35.1" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S31" promotor_-35 53446..53450 /Source="Nicolas_upshift_promotors" /id="U46" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.745254745254745" /psig=1 /xcortree=2586 /SigmaFactorBS="ttttggatataaatacataatgggctgaatatggataTGTTC atcctgtacttcaaaTGTGATACAATGTTCATACTtatgtttagatggagaagtaggt g" /listShort="ispE, purR, yabJ, S32" /listLong="spoVG" /label="promotor_-35" promotor_-10 53466..53485 /Source="Nicolas_upshift_promotors" /id="U46" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.745254745254745" /psig=1 /xcortree=2586 /SigmaFactorBS="ttttggatataaatacataatgggctgaatatggataTGTTC atcctgtacttcaaaTGTGATACAATGTTCATACTtatgtttagatggagaagtaggt g" /listShort="ispE, purR, yabJ, S32" /listLong="spoVG" /label="promotor_-10" upshifts 53469 /Source="Nicolas_upshifts" /id="U46" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.745254745254745" /psig=1 /xcortree=2586 /SigmaFactorBS="ttttggatataaatacataatgggctgaatatggataTGTTC atcctgtacttcaaaTGTGATACAATGTTCATACTtatgtttagatggagaagtaggt g" /listShort="ispE, purR, yabJ, S32" /listLong="spoVG" CDS 53516..54385 /gene="ispE" /locus_tag="BSU_00460" /old_locus_tag="BSU00460" /EC_number="2.7.1.148" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 11361082, 12682299, 12771135, 17458547, 23840410; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase" /protein_id="NP_387927.1" /db_xref="EnsemblGenomes-Gn:BSU00460" /db_xref="EnsemblGenomes-Tr:CAB11822" /db_xref="GOA:P37550" /db_xref="InterPro:IPR004424" /db_xref="InterPro:IPR006204" /db_xref="InterPro:IPR013750" /db_xref="InterPro:IPR014721" /db_xref="InterPro:IPR020568" /db_xref="InterPro:IPR036554" /db_xref="SubtiList:BG10109" /db_xref="UniProtKB/Swiss-Prot:P37550" /translation="MRILEKAPAKINLSLDVTRKRPDGYHEVEMIMTTIDLADRIELT ELAEDEVRVSSHNRFVPDDQRNLAYQAAKLIKDRYNVKKGVSIMITKVIPVAAGLAGG SSDAAATLRGLNRLWNLNLSAETLAELGAEIGSDVSFCVYGGTALATGRGEKIKHIST PPHCWVILAKPTIGVSTAEVYRALKLDGIEHPDVQGMIEAIEEKSFQKMCSRLGNVLE SVTLDMHPEVAMIKNQMKRFGADAVLMSGSGPTVFGLVQYESKVQRIYNGLRGFCDQV YAVRMIGEQNALD*" gene 53516..54385 /gene="ispE" /locus_tag="BSU_00460" /old_locus_tag="BSU00460" CDS 54441..55298 /gene="purR" /locus_tag="BSU_00470" /old_locus_tag="BSU00470" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11591660, 12837783, 12837784, 15629952, 16163456, 27329548" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11591660, 12837783, 12837784, 15629952, 16163456, 27329548; Product type r : regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator of the purine biosynthesis operon (PurR-pRpp)" /protein_id="NP_387928.1" /db_xref="EnsemblGenomes-Gn:BSU00470" /db_xref="EnsemblGenomes-Tr:CAB11823" /db_xref="GOA:P37551" /db_xref="InterPro:IPR000836" /db_xref="InterPro:IPR010078" /db_xref="InterPro:IPR015265" /db_xref="InterPro:IPR029057" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="PDB:1O57" /db_xref="PDB:1P4A" /db_xref="SubtiList:BG10110" /db_xref="UniProtKB/Swiss-Prot:P37551" /translation="MKFRRSGRLVDLTNYLLTHPHELIPLTFFSERYESAKSSISEDL TIIKQTFEQQGIGTLLTVPGAAGGVKYIPKMKQAEAEEFVQTLGQSLANPERILPGGY VYLTDILGKPSVLSKVGKLFASVFAEREIDVVMTVATKGIPLAYAAASYLNVPVVIVR KDNKVTEGSTVSINYVSGSSNRIQTMSLAKRSMKTGSNVLIIDDFMKAGGTINGMINL LDEFNANVAGIGVLVEAEGVDERLVDEYMSLLTLSTINMKEKSIEIQNGNFLRFFKDN LLKNGETES*" gene 54441..55298 /gene="purR" /locus_tag="BSU_00470" /old_locus_tag="BSU00470" CDS 55295..55672 /gene="ridA" /locus_tag="BSU_00480" /old_locus_tag="BSU00480" /EC_number="3.5.99.10" /function="16.6: Maintain" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 2113912, 12515541, 14729707, 10557275, 10919400, 10368157, 20562306, 23815688; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="aminoacrylate/iminopropionate hydrolase/deaminase" /protein_id="NP_387929.1" /db_xref="EnsemblGenomes-Gn:BSU00480" /db_xref="EnsemblGenomes-Tr:CAB11824" /db_xref="GOA:P37552" /db_xref="InterPro:IPR006056" /db_xref="InterPro:IPR006175" /db_xref="InterPro:IPR019897" /db_xref="InterPro:IPR035959" /db_xref="PDB:1QD9" /db_xref="SubtiList:BG10111" /db_xref="UniProtKB/Swiss-Prot:P37552" /translation="MTKAVHTKHAPAAIGPYSQGIIVNNMFYSSGQIPLTPSGEMVNG DIKEQTHQVFSNLKAVLEEAGASFETVVKATVFIADMEQFAEVNEVYGQYFDTHKPAR SCVEVARLPKDALVEIEVIALVK*" gene 55295..55672 /gene="ridA" /locus_tag="BSU_00480" /old_locus_tag="BSU00480" downshifts 55662 /Source="Nicolas_upshifts" /id="D23" /incds=0 /nref=172 /ntot=226 /MaxReadThrough="3.8891" /MaxDrop="4.63425" /score="22.9159767" /energy="-12.3" /TU="U46" /idTUdmin="U46" /TUdmin="-155" /isTUend="FALSE" promotor_-10 complement(55706..55724) /Source="Nicolas_upshift_promotors" /id="U47" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1146 /SigmaFactorBS="ttttgaaaaaataggatatagttacacaattagGTCATAaag ctttcatttcggGCATAAGGTAAATAAAAAAgtgatcccggctctcccagaatcactt t" /listShort="S31" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 55707..55815 /Source="Nicolas_S_feature" /locus_tag="new_55707_55815" /HighExp="S8, S7, Etha, B36, LoTm, C30, Sw, B60, G135, G180" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S32" upshifts complement(55718) /Source="Nicolas_upshifts" /id="U47" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1146 /SigmaFactorBS="ttttgaaaaaataggatatagttacacaattagGTCATAaag ctttcatttcggGCATAAGGTAAATAAAAAAgtgatcccggctctcccagaatcactt t" /listShort="S31" /GFF_Attribute="listLong" promotor_-35 complement(55740..55745) /Source="Nicolas_upshift_promotors" /id="U47" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1146 /SigmaFactorBS="ttttgaaaaaataggatatagttacacaattagGTCATAaag ctttcatttcggGCATAAGGTAAATAAAAAAgtgatcccggctctcccagaatcactt t" /listShort="S31" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 55795..55803 /Source="Nicolas_upshift_promotors" /id="U48" /multdbtbs="SigH" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=524 /SigmaFactorBS="actatatcctattttttcaaaaaatattttaaaaacgaGCAG GATTTcagaaaaaatCGTGGAATTGATACACTAAtgcttttatatagggaaaaggtgg t" /listShort="spoVG, S33, gcaD, prs" /listLong="ctc, pth, yabK, S34, mfd, S35, spoVT" /label="promotor_-35" promotor_-10 55814..55832 /Source="Nicolas_upshift_promotors" /id="U48" /multdbtbs="SigH" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=524 /SigmaFactorBS="actatatcctattttttcaaaaaatattttaaaaacgaGCAG GATTTcagaaaaaatCGTGGAATTGATACACTAAtgcttttatatagggaaaaggtgg t" /listShort="spoVG, S33, gcaD, prs" /listLong="ctc, pth, yabK, S34, mfd, S35, spoVT" /label="promotor_-10" upshifts 55817 /Source="Nicolas_upshifts" /id="U48" /multdbtbs="SigH" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=524 /SigmaFactorBS="actatatcctattttttcaaaaaatattttaaaaacgaGCAG GATTTcagaaaaaatCGTGGAATTGATACACTAAtgcttttatatagggaaaaggtgg t" /listShort="spoVG, S33, gcaD, prs" /listLong="ctc, pth, yabK, S34, mfd, S35, spoVT" CDS 55866..56159 /gene="spoVG" /locus_tag="BSU_00490" /old_locus_tag="BSU00490" /function="16.3: Control" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:9733708, 10348850, 10648512, 16428420, 27048798" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9733708, 10348850, 10648512, 16428420, 27048798; Product type r: regulator" /codon_start=1 /transl_table=11 /product="regulator required for spore cortex synthesis (stage V sporulation)" /protein_id="NP_387930.1" /db_xref="EnsemblGenomes-Gn:BSU00490" /db_xref="EnsemblGenomes-Tr:CAB11825" /db_xref="GOA:P28015" /db_xref="InterPro:IPR007170" /db_xref="InterPro:IPR036751" /db_xref="PDB:2IA9" /db_xref="SubtiList:BG10112" /db_xref="UniProtKB/Swiss-Prot:P28015" /translation="MEVTDVRLRRVNTDGRMRAIASITLDHEFVVHDIRVIDGNNGLF VAMPSKRTPDGEFRDITHPINSSTRGKIQDAVLNEYHRLGDTEALEFEEAGAS*" gene 55866..56159 /gene="spoVG" /locus_tag="BSU_00490" /old_locus_tag="BSU00490" downshifts 56148 /Source="Nicolas_upshifts" /id="D24" /incds=0 /nref=263 /ntot=285 /MaxReadThrough="5.11673" /MaxDrop="7.2673" /score="19.392304" /energy="-22.3" /TU="U48" /idTUdmin="U46" /TUdmin=331 /isTUend="FALSE" S_feature 56193..56304 /Source="Nicolas_S_feature" /locus_tag="new_56193_56304" /HighExp="B60, B36, M9-stat, S2, BT, LoTm, Etha, Lbstat, T0.30H, T4.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigH" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S33" promotor_-35 56286..56290 /Source="Nicolas_upshift_promotors" /id="U49" /multdbtbs="SigA" /comp="M16" /sig="SigA" /pcomp="0.895104895104895" /psig="0.996003996003996" /xcortree=2611 /SigmaFactorBS="agttgcactcaatagaaaattcttgcacttcatgaagtctCC TTGaaatcagaagatattTAGGATATATTTTTCTATGGataaaagggatattggaggc c" /listShort="gcaD, prs, ctc, pth, yabK, S34, mfd, S35, spoVT" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 56306..56325 /Source="Nicolas_upshift_promotors" /id="U49" /multdbtbs="SigA" /comp="M16" /sig="SigA" /pcomp="0.895104895104895" /psig="0.996003996003996" /xcortree=2611 /SigmaFactorBS="agttgcactcaatagaaaattcttgcacttcatgaagtctCC TTGaaatcagaagatattTAGGATATATTTTTCTATGGataaaagggatattggaggc c" /listShort="gcaD, prs, ctc, pth, yabK, S34, mfd, S35, spoVT" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 56306 /Source="Nicolas_upshifts" /id="U49" /multdbtbs="SigA" /comp="M16" /sig="SigA" /pcomp="0.895104895104895" /psig="0.996003996003996" /xcortree=2611 /SigmaFactorBS="agttgcactcaatagaaaattcttgcacttcatgaagtctCC TTGaaatcagaagatattTAGGATATATTTTTCTATGGataaaagggatattggaggc c" /listShort="gcaD, prs, ctc, pth, yabK, S34, mfd, S35, spoVT" /GFF_Attribute="listLong" CDS 56352..57722 /gene="glmU" /locus_tag="BSU_00500" /old_locus_tag="BSU00500" /EC_number="2.3.1.157" /EC_number="2.7.7.23" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:1328164, 8522540, 9648743, 11124906, 20495944, 23485416, 24915076" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1328164, 8522540, 9648743, 11124906, 20495944, 23485416, 24915076; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="bifunctional glucosamine-1-phosphate N-acetyltransferase/UDP-N-acetylglucosamine pyrophosphorylase" /protein_id="NP_387931.1" /db_xref="EnsemblGenomes-Gn:BSU00500" /db_xref="EnsemblGenomes-Tr:CAB11826" /db_xref="GOA:P14192" /db_xref="InterPro:IPR001451" /db_xref="InterPro:IPR005835" /db_xref="InterPro:IPR005882" /db_xref="InterPro:IPR011004" /db_xref="InterPro:IPR018357" /db_xref="InterPro:IPR029044" /db_xref="SubtiList:BG10113" /db_xref="UniProtKB/Swiss-Prot:P14192" /translation="MDKRFAVVLAAGQGTRMKSKLYKVLHPVCGKPMVEHVVDEALKL SLSKLVTIVGHGAEEVKKQLGDKSEYALQAKQLGTAHAVKQAQPFLADEKGVTIVICG DTPLLTAETMEQMLKEHTQREAKATILTAVAEDPTGYGRIIRSENGAVQKIVEHKDAS EEERLVTEINTGTYCFDNEALFRAIDQVSNDNAQGEYYLPDVIEILKNEGETVAAYQT GNFQETLGVNDRVALSQAEQFMKERINKRHMQNGVTLIDPMNTYISPDAVIGSDTVIY PGTVIKGEVQIGEDTIIGPHTEIMNSAIGSRTVIKQSVVNHSKVGNDVNIGPFAHIRP DSVIGNEVKIGNFVEIKKTQFGDRSKASHLSYVGDAEVGTDVNLGCGSITVNYDGKNK YLTKIEDGAFIGCNSNLVAPVTVGEGAYVAAGSTVTEDVPGKALAIARARQVNKDDYV KNIHKK*" gene 56352..57722 /gene="glmU" /locus_tag="BSU_00500" /old_locus_tag="BSU00500" downshifts complement(57697) /Source="Nicolas_upshifts" /id="D25" /incds=0 /nref=5 /ntot=84 /MaxReadThrough="2.39379" /MaxDrop="3.65636" /score="-7.65702938" /energy="-13.8" /TU="NA" /idTUdmin="U47" /TUdmin="-4312" /isTUend="FALSE" CDS 57745..58698 /gene="prs" /locus_tag="BSU_00510" /old_locus_tag="BSU00510" /EC_number="2.7.6.1" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:2169413, 3038693, 8522540, 22083279, 25890046" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 2169413, 3038693, 8522540, 22083279, 25890046; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="phosphoribosylpyrophosphate synthetase" /protein_id="NP_387932.1" /db_xref="EnsemblGenomes-Gn:BSU00510" /db_xref="EnsemblGenomes-Tr:CAB11827" /db_xref="GOA:P14193" /db_xref="InterPro:IPR000836" /db_xref="InterPro:IPR000842" /db_xref="InterPro:IPR005946" /db_xref="InterPro:IPR029057" /db_xref="InterPro:IPR029099" /db_xref="PDB:1DKR" /db_xref="PDB:1DKU" /db_xref="PDB:1IBS" /db_xref="SubtiList:BG10114" /db_xref="UniProtKB/Swiss-Prot:P14193" /translation="MSNQYGDKNLKIFSLNSNPELAKEIADIVGVQLGKCSVTRFSDG EVQINIEESIRGCDCYIIQSTSDPVNEHIMELLIMVDALKRASAKTINIVIPYYGYAR QDRKARSREPITAKLFANLLETAGATRVIALDLHAPQIQGFFDIPIDHLMGVPILGEY FEGKNLEDIVIVSPDHGGVTRARKLADRLKAPIAIIDKRRPRPNVAEVMNIVGNIEGK TAILIDDIIDTAGTITLAANALVENGAKEVYACCTHPVLSGPAVERINNSTIKELVVT NSIKLPEEKKIERFKQLSVGPLLAEAIIRVHEQQSVSYLFS*" gene 57745..58698 /gene="prs" /locus_tag="BSU_00510" /old_locus_tag="BSU00510" promotor_-35 58711..58717 /Source="Nicolas_upshift_promotors" /id="U50" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=265 /SigmaFactorBS="agcaatcagtcagctatctgttcagctaaaccatttttcgaG GTTTAAatccttatcgttatGGGTATTGTTTGTAATAGGacaactaaaacgacaagag g" /listShort="ctc, pth, yabK, S34, mfd, S35, spoVT" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 58730 /Source="Nicolas_upshifts" /id="U50" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=265 /SigmaFactorBS="agcaatcagtcagctatctgttcagctaaaccatttttcgaG GTTTAAatccttatcgttatGGGTATTGTTTGTAATAGGacaactaaaacgacaagag g" /listShort="ctc, pth, yabK, S34, mfd, S35, spoVT" /GFF_Attribute="listLong" promotor_-10 58732..58750 /Source="Nicolas_upshift_promotors" /id="U50" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=265 /SigmaFactorBS="agcaatcagtcagctatctgttcagctaaaccatttttcgaG GTTTAAatccttatcgttatGGGTATTGTTTGTAATAGGacaactaaaacgacaagag g" /listShort="ctc, pth, yabK, S34, mfd, S35, spoVT" /GFF_Attribute="listLong" /label="promotor_-10" CDS 58783..59397 /gene="ctc" /locus_tag="BSU_00520" /old_locus_tag="BSU00520" /function="16.2: Construct biomass (Anabolism)" /function="16.6: Maintain" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:8522540, 9669336, 10369900, 12432960, 17198710" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8522540, 9669336, 10369900, 12432960, 17198710; Product type f: factor" /codon_start=1 /transl_table=11 /product="ribosomal protein BL25 (Ctc), binding 5S RNA" /protein_id="NP_387933.1" /db_xref="EnsemblGenomes-Gn:BSU00520" /db_xref="EnsemblGenomes-Tr:CAB11828" /db_xref="GOA:P14194" /db_xref="InterPro:IPR001021" /db_xref="InterPro:IPR011035" /db_xref="InterPro:IPR020056" /db_xref="InterPro:IPR020057" /db_xref="InterPro:IPR029751" /db_xref="InterPro:IPR037121" /db_xref="SubtiList:BG10115" /db_xref="UniProtKB/Swiss-Prot:P14194" /translation="MATLTAKERTDFTRSSLRNIRTSGHVPGIIYGKDTGNKPVSLDS VELIKTLRDEGKNAVITLEVSGEKHSVMVTDLQTDPLKNEITHADFQVVNMSEDIEVE VPIHLTGEAIGVKNGGVLQQPLYALTVKAKPKAIPQTIEADISSLDVNEVLTIADLPA GGDYSFNHESDEVVASILPPQQQEAAEVDEEESADAQPEGENEQ*" gene 58783..59397 /gene="ctc" /locus_tag="BSU_00520" /old_locus_tag="BSU00520" downshifts 59381 /Source="Nicolas_upshifts" /id="D26" /incds=0 /nref=120 /ntot=249 /MaxReadThrough="8.65206" /MaxDrop="5.4784" /score="1.94770319" /energy="-11.2" /TU="U49,U50" /idTUdmin="U48" /TUdmin=682 /isTUend="FALSE" CDS 59504..60070 /gene="pth" /locus_tag="BSU_00530" /old_locus_tag="BSU00530" /EC_number="3.1.1.29" /function="16.8: Protect" /function="16.11: Scavenge (Catabolism)" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:8635758, 12100553, 12682299" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8635758, 12100553, 12682299; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="peptidyl-tRNA hydrolase" /protein_id="NP_387934.1" /db_xref="EnsemblGenomes-Gn:BSU00530" /db_xref="EnsemblGenomes-Tr:CAB11829" /db_xref="GOA:P37470" /db_xref="InterPro:IPR001328" /db_xref="InterPro:IPR018171" /db_xref="InterPro:IPR036416" /db_xref="SubtiList:BG10116" /db_xref="UniProtKB/Swiss-Prot:P37470" /translation="MLVIAGLGNPGKNYENTRHNVGFMVIDQLAKEWNIELNQNKFNG LYGTGFVSGKKVLLVKPLTYMNLSGECLRPLMDYYDVDNEDLTVIYDDLDLPTGKIRL RTKGSAGGHNGIKSLIQHLGTSEFDRIRIGIGRPVNGMKVVDYVLGSFTKEEAPEIEE AVDKSVKACEASLSKPFLEVMNEFNAKV*" gene 59504..60070 /gene="pth" /locus_tag="BSU_00530" /old_locus_tag="BSU00530" misc_feature 59683..59686 /Source="Nicolas_upshift_promotors" /id="U51" /multdbtbs="-" /comp="M11" /sig="Sig-" /pcomp="0.210789210789211" /psig="0.210789210789211" /xcortree=737 /SigmaFactorBS="taacggattatacggaaccggatttgtttccggcaaaaaggt tctacttgttaaACCGcttacatatatgaatttatcaggagaatgtttgcggccttta a" /listShort="yabK, S34, mfd, S35, spoVT" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 59689 /Source="Nicolas_upshifts" /id="U51" /multdbtbs="-" /comp="M11" /sig="Sig-" /pcomp="0.210789210789211" /psig="0.210789210789211" /xcortree=737 /SigmaFactorBS="taacggattatacggaaccggatttgtttccggcaaaaaggt tctacttgttaaACCGcttacatatatgaatttatcaggagaatgtttgcggccttta a" /listShort="yabK, S34, mfd, S35, spoVT" /GFF_Attribute="listLong" CDS 60130..60360 /gene="fin" /locus_tag="BSU_00540" /old_locus_tag="BSU00540" /experiment="publication(s) with functional evidences, PMID:21037003, 28598017" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 21037003, 28598017; Product type f: factor" /codon_start=1 /transl_table=11 /product="protein required for the switch from F to G during sporulation (anti sigma F)" /protein_id="NP_387935.1" /db_xref="EnsemblGenomes-Gn:BSU00540" /db_xref="EnsemblGenomes-Tr:CAB11830" /db_xref="GOA:P37553" /db_xref="InterPro:IPR020115" /db_xref="PDB:5MSL" /db_xref="SubtiList:BG10117" /db_xref="UniProtKB/Swiss-Prot:P37553" /translation="MALHYYCRHCGVKVGSLESSMVSTDSLGFQHLTNEERNDMISYK ENGDVHVLTICEDCQEALDRNPHYHEYHTFIQ*" gene 60130..60360 /gene="fin" /locus_tag="BSU_00540" /old_locus_tag="BSU00540" S_feature 60361..60429 /Source="Nicolas_S_feature" /locus_tag="new_60361_60429" /HighExp="Etha, S5, S4, S7, S8, S6, S3, H2O2, Diami, G180" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="Sig-, SigB, SigA" /TUshortPSig="0.211, 1, 0.996" /TUlongSig="SigH" /TUlongPSig=1 /label="S34" CDS 60430..63963 /gene="mfd" /locus_tag="BSU_00550" /old_locus_tag="BSU00550" /function="16.6: Maintain" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:8594198, 9535092, 11065368, 16950921, 22248542, 25713353, 27399782, 27435260" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8594198, 9535092, 11065368, 16950921, 22248542, 25713353, 27399782, 27435260; Product type f: factor" /codon_start=1 /transl_table=11 /product="transcription-repair coupling factor" /protein_id="NP_387936.1" /db_xref="EnsemblGenomes-Gn:BSU00550" /db_xref="EnsemblGenomes-Tr:CAB11831" /db_xref="GOA:P37474" /db_xref="InterPro:IPR001650" /db_xref="InterPro:IPR003711" /db_xref="InterPro:IPR004576" /db_xref="InterPro:IPR005118" /db_xref="InterPro:IPR011545" /db_xref="InterPro:IPR014001" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR036101" /db_xref="SubtiList:BG10118" /db_xref="UniProtKB/Swiss-Prot:P37474" /translation="MDNIQTFIKESDDFKSIINGLHEGLKEQLLAGLSGSARSVFTSA LANETNKPIFLITHNLYQAQKVTDDLTSLLEDRSVLLYPVNELISSEIAVASPELRAQ RLDVINRLTNGEAPIVVAPVAAIRRMLPPVEVWKSSQMLIQVGHDIEPDQLASRLVEV GYERSDMVSAPGEFSIRGGIIDIYPLTSENPVRIELFDTEVDSIRSFNSDDQRSIETL TSINIGPAKELIIRPEEKARAMEKIDSGLAASLKKLKADKQKEILHANISHDKERLSE GQTDQELVKYLSYFYEKPASLLDYTPDNTLLILDEVSRIHEMEEQLQKEEAEFITNLL EEGKILHDIRLSFSFQKIVAEQKRPLLYYSLFLRHVHHTSPQNIVNVSGRQMQSFHGQ MNVLAGEMERFKKSNFTVVFLGANKERTQKLSSVLADYDIEAAMTDSKKALVQGQVYI MEGELQSGFELPLMKLAVITEEELFKNRVKKKPRKQKLTNAERIKSYSELQIGDYVVH INHGIGKYLGIETLEINGIHKDYLNIHYQGSDKLYVPVEQIDQVQKYVGSEGKEPKLY KLGGSEWKRVKKKVETSVQDIADDLIKLYAEREASKGYAFSPDHEMQREFESAFPYQE TEDQLRSIHEIKKDMERERPMDRLLCGDVGYGKTEVAIRAAFKAIGDGKQVALLVPTT ILAQQHYETIKERFQDYPINIGLLSRFRTRKEANETIKGLKNGTVDIVIGTHRLLSKD VVYKDLGLLIIDEEQRFGVTHKEKIKQIKANVDVLTLTATPIPRTLHMSMLGVRDLSV IETPPENRFPVQTYVVEYNGALVREAIERELARGGQVYFLYNRVEDIERKADEISMLV PDAKVAYAHGKMTENELETVMLSFLEGESDVLVSTTIIETGVDIPNVNTLIVFDADKM GLSQLYQLRGRVGRSNRVAYAYFTYRRDKVLTEVAEKRLQAIKEFTELGSGFKIAMRD LTIRGAGNLLGAQQHGFIDSVGFDLYSQMLKEAIEERKGDTAKTEQFETEIDVELDAY IPETYIQDGKQKIDMYKRFRSVATIEEKNELQDEMIDRFGNYPKEVEYLFTVAEMKVY ARQERVELIKQDKDAVRLTISEEASAEIDGQKLFELGNQYGRQIGLGMEGKKLKISIQ TKGRSADEWLDTVLGMLKGLKDVKKQTISST*" gene 60430..63963 /gene="mfd" /locus_tag="BSU_00550" /old_locus_tag="BSU00550" promotor_-35 63981..63987 /Source="Nicolas_upshift_promotors" /id="U52" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=914 /SigmaFactorBS="agcaaaccatttcatcaacgtaaattttgttactctctggTG TATATtacatttgatgtgACGGATACTAATttcaagcgaggcggaaggtacataaagt a" /listShort="S35, spoVT" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 64001..64098 /Source="Nicolas_S_feature" /locus_tag="new_64001_64098" /HighExp="S5, S7, S8, S6, S4, Etha, S3, H2O2, G135, G180" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigGF, Sig-, SigB, SigA" /TUshortPSig="1, 0.211, 1, 0.996" /TUlongSig="SigH" /TUlongPSig=1 /label="S35" promotor_-10 64001..64012 /Source="Nicolas_upshift_promotors" /id="U52" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=914 /SigmaFactorBS="agcaaaccatttcatcaacgtaaattttgttactctctggTG TATATtacatttgatgtgACGGATACTAATttcaagcgaggcggaaggtacataaagt a" /listShort="S35, spoVT" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 64001 /Source="Nicolas_upshifts" /id="U52" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=914 /SigmaFactorBS="agcaaaccatttcatcaacgtaaattttgttactctctggTG TATATtacatttgatgtgACGGATACTAATttcaagcgaggcggaaggtacataaagt a" /listShort="S35, spoVT" /GFF_Attribute="listLong" CDS 64099..64635 /gene="spoVT" /locus_tag="BSU_00560" /old_locus_tag="BSU00560" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:8755877, 15063493, 15939023, 16159768, 18996130, 22522895, 27790204" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8755877, 15063493, 15939023, 16159768, 18996130, 22522895, 27790204; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator of sporulation / germination" /protein_id="NP_387937.1" /db_xref="EnsemblGenomes-Gn:BSU00560" /db_xref="EnsemblGenomes-Tr:CAB11832" /db_xref="GOA:P37554" /db_xref="InterPro:IPR007159" /db_xref="InterPro:IPR014213" /db_xref="PDB:2RO5" /db_xref="PDB:2W1R" /db_xref="PDB:2W1T" /db_xref="SubtiList:BG10119" /db_xref="UniProtKB/Swiss-Prot:P37554" /translation="MKATGIVRRIDDLGRVVIPKEIRRTLRIREGDPLEIFVDRDGEV ILKKYSPISELGDFAKEYADALYDSLGHSVLICDRDVYIAVSGSSKKDYLNKSISEML ERTMDQRSSVLESDAKSVQLVNGIDEDMNSYTVGPIVANGDPIGAVVIFSKDQTMGEV EHKAVETAAGFLARQMEQ*" gene 64099..64635 /gene="spoVT" /locus_tag="BSU_00560" /old_locus_tag="BSU00560" downshifts 64639 /Source="Nicolas_upshifts" /id="D27" /incds=0 /nref=236 /ntot=260 /MaxReadThrough="1.92082" /MaxDrop="6.20706" /score="-2.69593259" /energy="-11.6" /TU="NA" /idTUdmin="U49" /TUdmin=0 /isTUend="TRUE" misc_feature 64735..64754 /Source="Nicolas_upshift_promotors" /id="U53" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.946053946053946" /psig=1 /xcortree=1839 /SigmaFactorBS="gacgctgttctttttcatgcgtgccgaaaaaggaatccaagg gttgggaTGTGGTATAATAACCTCGTTtttatttgtgccgcggtaatacgtgaaccgt a" /listShort="yabM, yabN, yabO, yabP, yabQ, divIC, yabR" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 64746 /Source="Nicolas_upshifts" /id="U53" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.946053946053946" /psig=1 /xcortree=1839 /SigmaFactorBS="gacgctgttctttttcatgcgtgccgaaaaaggaatccaagg gttgggaTGTGGTATAATAACCTCGTTtttatttgtgccgcggtaatacgtgaaccgt a" /listShort="yabM, yabN, yabO, yabP, yabQ, divIC, yabR" /GFF_Attribute="listLong" CDS 64817..66415 /gene="yabM" /locus_tag="BSU_00570" /old_locus_tag="BSU00570" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative exporter" /protein_id="NP_387938.1" /db_xref="EnsemblGenomes-Gn:BSU00570" /db_xref="EnsemblGenomes-Tr:CAB11833" /db_xref="GOA:P37555" /db_xref="InterPro:IPR002797" /db_xref="InterPro:IPR024923" /db_xref="InterPro:IPR029303" /db_xref="SubtiList:BG10120" /db_xref="UniProtKB/Swiss-Prot:P37555" /translation="MDDSIGVKRHWIWQGAFVLILAGVITKILSAVYRVPFQNIVGDV GFYIYQQVYPFLGIAVMLSTSGFPVIISKLMNDYSEKNHHTILKISALFLSLIGILLF LCLYLGAVPIALFMGDSHLAVLIQVAAYAFLLFPFVALLRGGFQGRHEMLPSALSQMT EQFLRVAVLLGLSFWLVKKGASLYTAGAAAASGSLAGSLVALIILGFFWFKTKRDNQT DRQNENVITTKELTKKLLLYSVTICVSSLLLLFIQLVDALNLYALLSGGEASEEAKCL KGIYDRGQPLLQLGSVFAVSIATSLVPYISMAVKNKELKIMKEKITSSLKLCLVLGTG ASAGLICILKPVNIMLFQNGEGTGALQVFSCSILFASLAVTAAAVLQGAGYTVFPAIA VGAGVAVKWVLNTLLVPRYGIEGASLATAASFAAVAGLNLYQLRQKEWLDKLRGVLIP IIGSALLMSAVLLAYTRLWTFLFPATGRGAAVIESLSAVAIGGAVFIYCMMRLGIFTD EELNSVPFGSKLSKFMRRREQNGG*" gene 64817..66415 /gene="yabM" /locus_tag="BSU_00570" /old_locus_tag="BSU00570" promotor_-35 66286..66293 /Source="Nicolas_upshift_promotors" /id="U54" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.739260739260739" /psig="0.798201798201798" /xcortree=108 /SigmaFactorBS="gattgagagtctttctgctgttgcCATTGGTGgcgcggtgtt tattTATTGTATGATGAGATTGGGaatatttacagatgaagagctgaacagtgtgcca t" /listShort="yabN, yabO, yabP, yabQ" /listLong="divIC, yabR" /label="promotor_-35" promotor_-10 66308..66327 /Source="Nicolas_upshift_promotors" /id="U54" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.739260739260739" /psig="0.798201798201798" /xcortree=108 /SigmaFactorBS="gattgagagtctttctgctgttgcCATTGGTGgcgcggtgtt tattTATTGTATGATGAGATTGGGaatatttacagatgaagagctgaacagtgtgcca t" /listShort="yabN, yabO, yabP, yabQ" /listLong="divIC, yabR" /label="promotor_-10" upshifts 66322 /Source="Nicolas_upshifts" /id="U54" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.739260739260739" /psig="0.798201798201798" /xcortree=108 /SigmaFactorBS="gattgagagtctttctgctgttgcCATTGGTGgcgcggtgtt tattTATTGTATGATGAGATTGGGaatatttacagatgaagagctgaacagtgtgcca t" /listShort="yabN, yabO, yabP, yabQ" /listLong="divIC, yabR" CDS 66405..67874 /gene="yabN" /locus_tag="BSU_00580" /old_locus_tag="BSU00580" /function="16.6: Maintain" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 11178267; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative fusion methylase and nucleotide pyrophosphohydrolase" /protein_id="NP_387939.1" /db_xref="EnsemblGenomes-Gn:BSU00580" /db_xref="EnsemblGenomes-Tr:CAB11834" /db_xref="GOA:P37556" /db_xref="InterPro:IPR000878" /db_xref="InterPro:IPR004518" /db_xref="InterPro:IPR011551" /db_xref="InterPro:IPR014777" /db_xref="InterPro:IPR024180" /db_xref="InterPro:IPR035013" /db_xref="InterPro:IPR035996" /db_xref="SubtiList:BG10121" /db_xref="UniProtKB/Swiss-Prot:P37556" /translation="MAGKITVVGLGAGDMDQLTIGIHKLLTKADTLYVRTKDHPLIEE LEKETKNIRFFDDIYEKHDQFEAVYEEIADILFEAARREDVVYAVPGHPFVAEKTVQL LTERQEKENVQVKVAGGQSFLDATFNVLQIDPIEGFQFVDAGTLSADELELRHHLIIC QVYDQMTASEVKLTLMEKLPDDYEVVIVTAAGSRGEEIRTVPLFELDRNVALNNLTSV YIPPIKEEKLLYHEFSTFRSIIRELRGPNGCPWDKKQTHQSLKQYMIEECYELLEAID EEDTDHMIEELGDVLLQVLLHAQIGEDEGYFTIDDVIKGISEKMVRRHPHVFKDVKVQ DENDVLANWEDIKKAEKNTSESSLLDSVPKTLPALSKAAKLQKKAAKVGFDWEDVSDI WEKVSEEMKEFSSEVSEAPHEHNLKAEFGDILFALVNVARFYKIEPEEALTMTNDKFR RRFSYIEETAKEEGVELADMSLEDMDKLWNEAKETERRS*" gene 66405..67874 /gene="yabN" /locus_tag="BSU_00580" /old_locus_tag="BSU00580" promotor_-35 67046..67053 /Source="Nicolas_upshift_promotors" /id="U55" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2822 /SigmaFactorBS="tggaccgcaatgtcgctttgaacaaCTTAACAAgtgtgtata ttccGCCGATTAAAGAAGAGAAGctgctttatcacgaattctccacgttccgaagcat c" /listShort="yabO, yabP, yabQ, divIC, yabR" /listLong="trnSL-Met1" /label="promotor_-35" promotor_-10 67067..67085 /Source="Nicolas_upshift_promotors" /id="U55" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2822 /SigmaFactorBS="tggaccgcaatgtcgctttgaacaaCTTAACAAgtgtgtata ttccGCCGATTAAAGAAGAGAAGctgctttatcacgaattctccacgttccgaagcat c" /listShort="yabO, yabP, yabQ, divIC, yabR" /listLong="trnSL-Met1" /label="promotor_-10" upshifts 67081 /Source="Nicolas_upshifts" /id="U55" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2822 /SigmaFactorBS="tggaccgcaatgtcgctttgaacaaCTTAACAAgtgtgtata ttccGCCGATTAAAGAAGAGAAGctgctttatcacgaattctccacgttccgaagcat c" /listShort="yabO, yabP, yabQ, divIC, yabR" /listLong="trnSL-Met1" promotor_no_box complement(67469..67569) /Source="Nicolas_upshift_promotors" /id="U56" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.984015984015984" /psig="0.001998001998002" /xcortree=37 /SigmaFactorBS="cgtcttcccagtcaaaaccgaccttcgctgcttttttctgca atttagctgctttcgaaagagctggaagggttttcggtacgctgtctagtaatgatga t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts complement(67509) /Source="Nicolas_upshifts" /id="U56" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.984015984015984" /psig="0.001998001998002" /xcortree=37 /SigmaFactorBS="cgtcttcccagtcaaaaccgaccttcgctgcttttttctgca atttagctgctttcgaaagagctggaagggttttcggtacgctgtctagtaatgatga t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS 67877..68137 /gene="hslR" /locus_tag="BSU_00590" /old_locus_tag="BSU00590" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 10675343, 10675344, 19013177; Product type f: factor" /codon_start=1 /transl_table=11 /product="ribosomal RNA binding protein involved in 50S recycling; heat shock protein" /protein_id="NP_387940.1" /db_xref="EnsemblGenomes-Gn:BSU00590" /db_xref="EnsemblGenomes-Tr:CAB11835" /db_xref="GOA:P37557" /db_xref="InterPro:IPR002942" /db_xref="InterPro:IPR025490" /db_xref="InterPro:IPR036986" /db_xref="SubtiList:BG10122" /db_xref="UniProtKB/Swiss-Prot:P37557" /translation="MRLDKFLKVSRLIKRRTLAKEVADQGRISINGNQAKASSDVKPG DELTVRFGQKLVTVQVNELKDTTKKEEAANMYTILKEEKLGE*" gene 67877..68137 /gene="hslR" /locus_tag="BSU_00590" /old_locus_tag="BSU00590" promotor_-35 68142..68147 /Source="Nicolas_upshift_promotors" /id="U57" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.983016983016983" /psig="0.983016983016983" /xcortree=1397 /SigmaFactorBS="aaaaactcggcgaataggcttGTTCTAaaaaaaccccccacc TCATACAATGCAGTAATAAtgctaaaagtatcgaggatatgggggctgaatagatgaa t" /listShort="yabP, yabQ, divIC, yabR" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 68163..68181 /Source="Nicolas_upshift_promotors" /id="U57" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.983016983016983" /psig="0.983016983016983" /xcortree=1397 /SigmaFactorBS="aaaaactcggcgaataggcttGTTCTAaaaaaaccccccacc TCATACAATGCAGTAATAAtgctaaaagtatcgaggatatgggggctgaatagatgaa t" /listShort="yabP, yabQ, divIC, yabR" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 68181 /Source="Nicolas_upshifts" /id="U57" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.983016983016983" /psig="0.983016983016983" /xcortree=1397 /SigmaFactorBS="aaaaactcggcgaataggcttGTTCTAaaaaaaccccccacc TCATACAATGCAGTAATAAtgctaaaagtatcgaggatatgggggctgaatagatgaa t" /listShort="yabP, yabQ, divIC, yabR" /GFF_Attribute="listLong" downshifts complement(68213) /Source="Nicolas_upshifts" /id="D28" /incds=0 /nref=3 /ntot=19 /MaxReadThrough="1.93659" /MaxDrop="3.17193" /score="-0.425236437" /energy="-13.9" /TU="NA" /idTUdmin="U62" /TUdmin=3014 /isTUend="FALSE" CDS 68216..68518 /gene="spcP" /locus_tag="BSU_00600" /old_locus_tag="BSU00600" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:10869437, 11283287, 15231775, 21904870, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10869437, 11283287, 15231775, 21904870, 22720735; Product type f: factor" /codon_start=1 /transl_table=11 /product="spore protein involved in the shaping of the spore coat" /protein_id="NP_387941.1" /db_xref="EnsemblGenomes-Gn:BSU00600" /db_xref="EnsemblGenomes-Tr:CAB11836" /db_xref="GOA:P37558" /db_xref="InterPro:IPR012504" /db_xref="InterPro:IPR022476" /db_xref="SubtiList:BG10123" /db_xref="UniProtKB/Swiss-Prot:P37558" /translation="MNSYYDQKGSSSVPEQHDVTMKGRKHLDISGVKHVESFDNEEFL LETVMGMLSVRGQNLQMKNLDVEKGIVSIKGRVFDLVYLDEQQGDKAKGFFSKLFK*" gene 68216..68518 /gene="spcP" /locus_tag="BSU_00600" /old_locus_tag="BSU00600" CDS 68515..69150 /gene="spcQ" /locus_tag="BSU_00610" /old_locus_tag="BSU00610" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:10869437, 11283287, 15849754, 16850406" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10869437, 11283287, 15849754, 16850406; Product type f: factor" /codon_start=1 /transl_table=11 /product="membrane protein of the forespore" /protein_id="NP_387942.1" /db_xref="EnsemblGenomes-Gn:BSU00610" /db_xref="EnsemblGenomes-Tr:CAB11837" /db_xref="GOA:P37559" /db_xref="InterPro:IPR014242" /db_xref="InterPro:IPR019074" /db_xref="SubtiList:BG10124" /db_xref="UniProtKB/Swiss-Prot:P37559" /translation="MTLTTQFYTMLAMSGMGLWLGASLDTYRLFVIRAKTARWLLFIH DILFWIMQGLLFFYVLLHVNEGEFRIYIFLAVLLGVATYQSLCKRIYIKILKFVIYLV VSVYQFFKKLIQHVLFRPIVWTCGAIIWLAAFLFKKTYSLIGFLLLCLYKIVMVLCFP IRFIAKQCLKLLPVKMRLTFRRYFEKGAGFLKKKKKLLITIRTTITRFLKR*" gene 68515..69150 /gene="spcQ" /locus_tag="BSU_00610" /old_locus_tag="BSU00610" promotor_-35 69020..69029 /Source="Nicolas_upshift_promotors" /id="U58" /multdbtbs="SigW,SigX" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1706 /SigmaFactorBS="tgtgttttccgatccgttttatcgcgaaacaatgttTGAAAC TTCTtcctgtgaaaatGCGTCTAACTTTTAGAcgttattttgaaaaaggtgcaggatt t" /listShort="divIC, yabR, trnSL-Met1, trnSL-Glu1, S36" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 69042..69057 /Source="Nicolas_upshift_promotors" /id="U58" /multdbtbs="SigW,SigX" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1706 /SigmaFactorBS="tgtgttttccgatccgttttatcgcgaaacaatgttTGAAAC TTCTtcctgtgaaaatGCGTCTAACTTTTAGAcgttattttgaaaaaggtgcaggatt t" /listShort="divIC, yabR, trnSL-Met1, trnSL-Glu1, S36" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 69044 /Source="Nicolas_upshifts" /id="U58" /multdbtbs="SigW,SigX" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1706 /SigmaFactorBS="tgtgttttccgatccgttttatcgcgaaacaatgttTGAAAC TTCTtcctgtgaaaatGCGTCTAACTTTTAGAcgttattttgaaaaaggtgcaggatt t" /listShort="divIC, yabR, trnSL-Met1, trnSL-Glu1, S36" /GFF_Attribute="listLong" promotor_-35 69076..69084 /Source="Nicolas_upshift_promotors" /id="U59" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=532 /SigmaFactorBS="tctaacttttagacgttattttgaaaaaggtGCAGGATTTct caaaaagaAGAAGAAACTATTGATAACcataagaacgaccatcacacggtttttgaag a" /listShort="divIC, yabR" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 69095..69113 /Source="Nicolas_upshift_promotors" /id="U59" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=532 /SigmaFactorBS="tctaacttttagacgttattttgaaaaaggtGCAGGATTTct caaaaagaAGAAGAAACTATTGATAACcataagaacgaccatcacacggtttttgaag a" /listShort="divIC, yabR" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 69105 /Source="Nicolas_upshifts" /id="U59" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=532 /SigmaFactorBS="tctaacttttagacgttattttgaaaaaggtGCAGGATTTct caaaaagaAGAAGAAACTATTGATAACcataagaacgaccatcacacggtttttgaag a" /listShort="divIC, yabR" /GFF_Attribute="listLong" CDS 69168..69545 /gene="divIC" /locus_tag="BSU_00620" /old_locus_tag="BSU00620" /function="16.13: Shape" /function="16.9: Replicate" /experiment="publication(s) with functional evidences, PMID:10844672, 11283287, 11994149, 12682299, 16936019, 20870765, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10844672, 11283287, 11994149, 12682299, 16936019, 20870765, 22720735; Product type f: factor" /codon_start=1 /transl_table=11 /product="cell-division initiation protein" /protein_id="NP_387943.1" /db_xref="EnsemblGenomes-Gn:BSU00620" /db_xref="EnsemblGenomes-Tr:CAB11838" /db_xref="GOA:P37471" /db_xref="InterPro:IPR007060" /db_xref="SubtiList:BG10125" /db_xref="UniProtKB/Swiss-Prot:P37471" /translation="MNFSRERTITEIQNDYKEQVERQNQLKKRRRKGLYRRLTVFGAL VFLTAIVLASSVWSQTSSLSAKEEKKEQLEKELKSLKTKQTDLKEEISKLKDEDYVTE LARRDLFMSGDGEIIFNVEKKSK*" gene 69168..69545 /gene="divIC" /locus_tag="BSU_00620" /old_locus_tag="BSU00620" CDS 69626..70012 /gene="yabR" /locus_tag="BSU_00630" /old_locus_tag="BSU00630" /EC_number="2.7.-.-" /function="16.11: Scavenge (Catabolism)" /function="16.6: Maintain" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 9862121, 15066026, 16014871, 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative RNA degradation protein; polyribonucleotide nucleotidyltransferase or phosphorylase" /protein_id="NP_387944.1" /db_xref="EnsemblGenomes-Gn:BSU00630" /db_xref="EnsemblGenomes-Tr:CAB11839" /db_xref="GOA:P37560" /db_xref="InterPro:IPR003029" /db_xref="InterPro:IPR012340" /db_xref="InterPro:IPR022967" /db_xref="SubtiList:BG10126" /db_xref="UniProtKB/Swiss-Prot:P37560" /translation="MSIEVGSKLQGKITGITNFGAFVELPGGSTGLVHISEVADNYVK DINDHLKVGDQVEVKVINVEKDGKIGLSIKKAKDRPQARPRNDFRPKESFEQKMNKFL KDSEDRLSSLKRNTESKRGGRGARRG*" gene 69626..70012 /gene="yabR" /locus_tag="BSU_00630" /old_locus_tag="BSU00630" downshifts 70006 /Source="Nicolas_upshifts" /id="D29" /incds=0 /nref=247 /ntot=274 /MaxReadThrough="3.67278" /MaxDrop="8.3221" /score="23.2738869" /energy="-12.5" /TU="U58" /idTUdmin="U53" /TUdmin="-1" /isTUend="TRUE" promotor_-35 70120..70127 /Source="Nicolas_upshift_promotors" /id="U60" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.85914085914086" /psig=1 /xcortree=2412 /SigmaFactorBS="gaaaattacaacattaaagtttctGTTGACGAaagagacaaa cctTTGTATTATATAACTTGTGCttagaagcacaaaacaatatggcggtgtagctcag c" /listShort="trnSL-Met1, trnSL-Glu1, S36, spoIIE, yabS, yabT" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 70141..70160 /Source="Nicolas_upshift_promotors" /id="U60" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.85914085914086" /psig=1 /xcortree=2412 /SigmaFactorBS="gaaaattacaacattaaagtttctGTTGACGAaagagacaaa cctTTGTATTATATAACTTGTGCttagaagcacaaaacaatatggcggtgtagctcag c" /listShort="trnSL-Met1, trnSL-Glu1, S36, spoIIE, yabS, yabT" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 70156 /Source="Nicolas_upshifts" /id="U60" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.85914085914086" /psig=1 /xcortree=2412 /SigmaFactorBS="gaaaattacaacattaaagtttctGTTGACGAaagagacaaa cctTTGTATTATATAACTTGTGCttagaagcacaaaacaatatggcggtgtagctcag c" /listShort="trnSL-Met1, trnSL-Glu1, S36, spoIIE, yabS, yabT" /GFF_Attribute="listLong" tRNA 70181..70257 /gene="trnSL-Met1" /locus_tag="BSU_tRNA_10" /product="tRNA-Met" /inference="profile:tRNAscan:1.23" /note="methionine transfer RNA (CAU); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 70181..70257 /gene="trnSL-Met1" /locus_tag="BSU_tRNA_10" tRNA 70267..70338 /gene="trnSL-Glu1" /locus_tag="BSU_tRNA_11" /product="tRNA-Glu" /inference="profile:tRNAscan:1.23" /note="glutamate transfer RNA (UUC); Evidence 2a: Functionfrom experimental evidences in other organisms; Producttype n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 70267..70338 /gene="trnSL-Glu1" /locus_tag="BSU_tRNA_11" downshifts 70337 /Source="Nicolas_upshifts" /id="D30" /incds=0 /nref=2 /ntot=58 /MaxReadThrough="4.83761" /MaxDrop="5.55326" /score="25.2769629" /energy="-10.8" /TU="U58,U60" /idTUdmin="U58" /TUdmin="-198" /isTUend="FALSE" S_feature 70382..70493 /Source="Nicolas_S_feature" /locus_tag="new_70382_70493" /HighExp="Cold, G180, C30, G135, G150, Oxctl, Paraq, H2O2, Heat, BMM" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigWXY" /TUshortPSig="1, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S36" misc_feature 70489..70508 /Source="Nicolas_upshift_promotors" /id="U61" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.632367632367632" /psig="0.99000999000999" /xcortree=442 /SigmaFactorBS="cgtcgaagatttctttggtattgttaccttcttttgacaaaa tcctatctgtgcTTTCGCTATAATGACAGGCAacgaatataacaggtgggagatgaga g" /listShort="spoIIE, yabS, yabT, tilS" /listLong="hprT, S38, ftsH" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 70495 /Source="Nicolas_upshifts" /id="U61" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.632367632367632" /psig="0.99000999000999" /xcortree=442 /SigmaFactorBS="cgtcgaagatttctttggtattgttaccttcttttgacaaaa tcctatctgtgcTTTCGCTATAATGACAGGCAacgaatataacaggtgggagatgaga g" /listShort="spoIIE, yabS, yabT, tilS" /listLong="hprT, S38, ftsH" CDS 70538..73021 /gene="spoIIE" /locus_tag="BSU_00640" /old_locus_tag="BSU00640" /EC_number="3.1.3.16" /function="16.3: Control" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:10747015, 12180929, 15126482, 15866939, 15978076, 28358838" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10747015, 12180929, 15126482, 15866939, 15978076, 28358838; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="SpoIIAA-phosphate serine phosphatase" /protein_id="NP_387945.1" /db_xref="EnsemblGenomes-Gn:BSU00640" /db_xref="EnsemblGenomes-Tr:CAB11840" /db_xref="GOA:P37475" /db_xref="InterPro:IPR001932" /db_xref="InterPro:IPR014221" /db_xref="InterPro:IPR036457" /db_xref="PDB:3T91" /db_xref="PDB:3T9Q" /db_xref="PDB:5UCG" /db_xref="SubtiList:BG10127" /db_xref="UniProtKB/Swiss-Prot:P37475" /translation="MEKAERRVNGPMAGQALEKLQSFFNRGTKLVTHHLHSLFFYKGF IYVVIGFLLGRAFILSEVLPFALPFFGAMLLIRRDKAFYAVLAVLAGALTISPKHSLL ILAALLAFFVFSKVAAFITDDRVKALPIVVFFSMAAARAGFVYAQNGVFTTYDYVMAI VEAGLSFILTLIFLQSLPIFTVKKVKQSLKIEEIICFMILIASVLTGLAGLSYQGMQA EHILARYVVLSFSFIGGASIGCTVGVVTGLILGLANIGNLYQMSLLAFSGLLGGLLKE GKKAGAAIGLIVGSLLISLYGEGSAGLMTTLYESLIAVCLFLLTPQSITRKVARYIPG TVEHLQEQQQYARKIRDVTAQKVDQFSNVFHALSESFATFYQASDEQTDDSEVDLFLS KITEHSCQTCYKKNRCWVQNFDKTYDLMKQVMLETEEKEYASNRRLKKEFQQYCSKSK QVEELIEDELAHHHAHLTLKKKVQDSRRLVAEQLLGVSEVMADFSREIKREREQHFLQ EEQIIEALQHFGIEIQHVEIYSLEQGNIDIEMTIPFSGHGESEKIIAPMLSDILEEQI LVKAEQHSPHPNGYSHVAFGSTKSYRVSTGAAHAAKGGGLVSGDSYSMMELGARKYAA AISDGMGNGARAHFESNETIKLLEKILESGIDEKIAIKTINSILSLRTTDEIYSTLDL SIIDLQDASCKFLKVGSTPSFIKRGDQVMKVQASNLPIGIINEFDVEVVSEQLKAGDL LIMMSDGIFEGPKHVENHDLWMKRKMKGLKTNDPQEIADLLMEEVIRTRSGQIEDDMT VVVVRIDHNTPKWASIPVPAIFQNKQEIS*" gene 70538..73021 /gene="spoIIE" /locus_tag="BSU_00640" /old_locus_tag="BSU00640" downshifts 70579 /Source="Nicolas_upshifts" /id="D31" /incds=0 /nref=1 /ntot=20 /MaxReadThrough="5.5737" /MaxDrop="3.93473" /score="25.2769629" /energy="-10.8" /TU="U60,U61" /idTUdmin="U58" /TUdmin=44 /isTUend="FALSE" S_feature complement(71190..71799) /Source="Nicolas_S_feature" /locus_tag="new_71190_71799_c" /HighExp="S8, S6, S4, S5, S3, S7, M9-stat, T5.0H, LoTm, Pyr" /AntisenseName="spoIIE" /AntisenseCor="0.685558251745638" /AntisenseRegPval="-38" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S37" downshifts complement(71216) /Source="Nicolas_upshifts" /id="D32" /incds=1 /nref=2 /ntot=11 /MaxReadThrough="2.2425" /MaxDrop="4.29972" /score="-0.425236437" /energy="-13.9" /TU="NA" /idTUdmin="U62" /TUdmin=11 /isTUend="TRUE" promotor_-10 complement(71772..71790) /Source="Nicolas_upshift_promotors" /id="U62" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1071 /SigmaFactorBS="cttttttcagccttcggtttgatgcatattctttttcctctg tttcaAGCATAacttgtttcattaagTCATATGTTTTATCAAAGTtctgtacccagca c" /listShort="S37" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(71798) /Source="Nicolas_upshifts" /id="U62" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1071 /SigmaFactorBS="cttttttcagccttcggtttgatgcatattctttttcctctg tttcaAGCATAacttgtttcattaagTCATATGTTTTATCAAAGTtctgtacccagca c" /listShort="S37" /GFF_Attribute="listLong" promotor_-35 complement(71806..71811) /Source="Nicolas_upshift_promotors" /id="U62" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1071 /SigmaFactorBS="cttttttcagccttcggtttgatgcatattctttttcctctg tttcaAGCATAacttgtttcattaagTCATATGTTTTATCAAAGTtctgtacccagca c" /listShort="S37" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 72003..72009 /Source="Nicolas_upshift_promotors" /id="U63" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=158 /SigmaFactorBS="ccttgttgctgaacagcttttaggcgtttctgAGGTTATggc cgacttttctcGGGAAATAAAAAGAGAGCGagaacaacactttctgcaggaagagcaa a" /listShort="yabS" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 72024..72042 /Source="Nicolas_upshift_promotors" /id="U63" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=158 /SigmaFactorBS="ccttgttgctgaacagcttttaggcgtttctgAGGTTATggc cgacttttctcGGGAAATAAAAAGAGAGCGagaacaacactttctgcaggaagagcaa a" /listShort="yabS" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 72031 /Source="Nicolas_upshifts" /id="U63" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=158 /SigmaFactorBS="ccttgttgctgaacagcttttaggcgtttctgAGGTTATggc cgacttttctcGGGAAATAAAAAGAGAGCGagaacaacactttctgcaggaagagcaa a" /listShort="yabS" /GFF_Attribute="listLong" promotor_-35 73041..73044 /Source="Nicolas_upshift_promotors" /id="U64" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.842157842157842" /psig="0.842157842157842" /xcortree=1198 /SigmaFactorBS="aacaagaaatttcataacgcttccgtataaatcaaaTTTCtt ctggcgaagatgggaATATATGAATCTGAGAATcctcgtattctccaggaggaatgaa t" /listShort="yabS, yabT, tilS, hprT, S38, ftsH" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 73062..73079 /Source="Nicolas_upshift_promotors" /id="U64" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.842157842157842" /psig="0.842157842157842" /xcortree=1198 /SigmaFactorBS="aacaagaaatttcataacgcttccgtataaatcaaaTTTCtt ctggcgaagatgggaATATATGAATCTGAGAATcctcgtattctccaggaggaatgaa t" /listShort="yabS, yabT, tilS, hprT, S38, ftsH" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 73065 /Source="Nicolas_upshifts" /id="U64" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.842157842157842" /psig="0.842157842157842" /xcortree=1198 /SigmaFactorBS="aacaagaaatttcataacgcttccgtataaatcaaaTTTCtt ctggcgaagatgggaATATATGAATCTGAGAATcctcgtattctccaggaggaatgaa t" /listShort="yabS, yabT, tilS, hprT, S38, ftsH" /GFF_Attribute="listLong" CDS 73106..73843 /gene="yabS" /locus_tag="BSU_00650" /old_locus_tag="BSU00650" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_387946.1" /db_xref="EnsemblGenomes-Gn:BSU00650" /db_xref="EnsemblGenomes-Tr:CAB11841" /db_xref="InterPro:IPR002035" /db_xref="InterPro:IPR036465" /db_xref="SubtiList:BG10128" /db_xref="UniProtKB/Swiss-Prot:P37561" /translation="MNNGHLNQILLITDGCSNHGEDPLAMAAFAKEQGITVNVIGIME ENQIDPEAMKEVEGIALAGGGVHQVVYASQLSQTVQMVTKKAMTQTLQGVVNQELKQI LGKNVEMEELSPEKRGEVMEVVDELGETVHLQVLVLVDTSASMAPKLPTVKEALIDLS VSLNSRIGNNEFAMCIFPGKKQEVELVLNWTPKLQSLSTLFAKLSTGGITPTGPAIRE ATLQFEKIRSRRGMLADDERRFDEFGM*" gene 73106..73843 /gene="yabS" /locus_tag="BSU_00650" /old_locus_tag="BSU00650" CDS 73809..74825 /gene="prkT" /locus_tag="BSU_00660" /old_locus_tag="BSU00660" /EC_number="2.7.11.1" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:23634894, 24731262, 25278935" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 23634894, 24731262, 25278935; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="serine/threonine-protein kinase" /protein_id="NP_387947.2" /db_xref="EnsemblGenomes-Gn:BSU00660" /db_xref="EnsemblGenomes-Tr:CAB11842" /db_xref="GOA:P37562" /db_xref="InterPro:IPR000719" /db_xref="InterPro:IPR011009" /db_xref="InterPro:IPR017441" /db_xref="SubtiList:BG10129" /db_xref="UniProtKB/Swiss-Prot:P37562" /translation="MMNDALTSLACSLKPGTTIKGKWNGNTYTLRKQLGKGANGIVYL AETSDGHVALKVSDDSLSITSEVNVLKSFSKAQSVTMGPSFFDTDDAYIPSANTKVSF YAMEYIKGPLLLKYVSDKGAEWIPVLMIQLLSSLSVLHQQGWIFGDLKPDNLIVTGPP ARIRCIDVGGTTKEGRAIKEYTEFYDRGYWGYGTRKAEPSYDLFAVAMIMINSVHKKE FKKTNQPKEQLRSLIEGNPLLQKYKKALFSALNGDYQSADEMKKDMLDAGQKAAQRKQ PIKASPQPATRQRQQKPRQGKITKTRYTPKQKPAKSGGLFETTLIVISVLALYFAYII FFLI*" gene 73809..74825 /gene="prkT" /locus_tag="BSU_00660" /old_locus_tag="BSU00660" promotor_-35 74357..74363 /Source="Nicolas_upshift_promotors" /id="U65" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=159 /SigmaFactorBS="aaggaaggccgggcgataaaagagtatacggaGTTTTATgac agaggctattggGGGTATGGAACAAGAAAGGcagagccatcctatgatctgttcgcag t" /GFF_Attribute="listShort" /listLong="tilS, hprT, S38, ftsH" /label="promotor_-35" promotor_-10 74379..74397 /Source="Nicolas_upshift_promotors" /id="U65" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=159 /SigmaFactorBS="aaggaaggccgggcgataaaagagtatacggaGTTTTATgac agaggctattggGGGTATGGAACAAGAAAGGcagagccatcctatgatctgttcgcag t" /GFF_Attribute="listShort" /listLong="tilS, hprT, S38, ftsH" /label="promotor_-10" upshifts 74385 /Source="Nicolas_upshifts" /id="U65" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=159 /SigmaFactorBS="aaggaaggccgggcgataaaagagtatacggaGTTTTATgac agaggctattggGGGTATGGAACAAGAAAGGcagagccatcctatgatctgttcgcag t" /GFF_Attribute="listShort" /listLong="tilS, hprT, S38, ftsH" promotor_-35 74855..74862 /Source="Nicolas_upshift_promotors" /id="U66" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.723276723276723" /psig=1 /xcortree=1948 /SigmaFactorBS="atggtgcaaactgcagagcctatgcttctTCTTTGCTtggag gggttgaaAGTGTTAGGATATGAATATCtttaaaatacctgctcattgtgaggaggac a" /listShort="tilS, hprT, S38, ftsH, S39, S40, coaX, hslO, yacD" /listLong="cysK, pabB, pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS, S43, rrnJ-16S" /label="promotor_-35" promotor_-10 74876..74895 /Source="Nicolas_upshift_promotors" /id="U66" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.723276723276723" /psig=1 /xcortree=1948 /SigmaFactorBS="atggtgcaaactgcagagcctatgcttctTCTTTGCTtggag gggttgaaAGTGTTAGGATATGAATATCtttaaaatacctgctcattgtgaggaggac a" /listShort="tilS, hprT, S38, ftsH, S39, S40, coaX, hslO, yacD" /listLong="cysK, pabB, pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS, S43, rrnJ-16S" /label="promotor_-10" upshifts 74886 /Source="Nicolas_upshifts" /id="U66" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.723276723276723" /psig=1 /xcortree=1948 /SigmaFactorBS="atggtgcaaactgcagagcctatgcttctTCTTTGCTtggag gggttgaaAGTGTTAGGATATGAATATCtttaaaatacctgctcattgtgaggaggac a" /listShort="tilS, hprT, S38, ftsH, S39, S40, coaX, hslO, yacD" /listLong="cysK, pabB, pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS, S43, rrnJ-16S" CDS 74929..76347 /gene="tilS" /locus_tag="BSU_00670" /old_locus_tag="BSU00670" /EC_number="6.3.4.19" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12682299, 14527414, 16039592, 17005971, 22720735, 24001521" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 14527414, 16039592, 17005971, 22720735, 24001521; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="tRNA(ile2) lysidine synthetase" /protein_id="NP_387948.1" /db_xref="EnsemblGenomes-Gn:BSU00670" /db_xref="EnsemblGenomes-Tr:CAB11843" /db_xref="GOA:P37563" /db_xref="InterPro:IPR011063" /db_xref="InterPro:IPR012094" /db_xref="InterPro:IPR012795" /db_xref="InterPro:IPR012796" /db_xref="InterPro:IPR014729" /db_xref="InterPro:IPR015262" /db_xref="InterPro:IPR020825" /db_xref="SubtiList:BG10130" /db_xref="UniProtKB/Swiss-Prot:P37563" /translation="MKSVKDFLNKHNLTLKGATIIVGVSGGPDSMALLHALHTLCGRS ANVIAAHVDHRFRGAESEEDMRFVQAYCKAEQLVCETAQINVTAYAQEKGLNKQAAAR DCRYQFFEEIMSKHQADYLALAHHGDDQVETMLMKLAKGTLGTGLAGMQPVRRFGTGR IIRPFLTITKEEILHYCHENGLSYRTDESNAKDDYTRNRFRKTVLPFLKQESPDVHKR FQKVSEALTEDEQFLQSLTKDEMNKVITSQSNTSVEINSSQLLALPMPLQRRGVQLIL NYLYENVPSSFSAHHIQQFLDWAENGGPSGVLDFPKGLKVVKSYQTCLFTFEQWQCKN VPFEYQISGAADETAVLPNGYLIEARHYADSPEEHGNAVFITSEKKVRFPLTIRTRKA GDRIKLKGMNGSKKVKDIFIDKKLPLQERDNWPIVTDASGEIIWIPGLKKSIFEDLVI PNSDRIVLQYRQHEKCRGQAKS*" gene 74929..76347 /gene="tilS" /locus_tag="BSU_00670" /old_locus_tag="BSU00670" promotor_-35 75724..75731 /Source="Nicolas_upshift_promotors" /id="U67" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.721278721278721" /psig="0.999000999001" /xcortree=1885 /SigmaFactorBS="aaatcaattcctctcaattgcttgccctcccgatgCCTTTAC AaagaagaggagttcAACTAATATTAAACTATCTTtatgaaaacgttccatcatcctt t" /listShort="hprT, S38, ftsH, S39, S40, coaX, hslO, yacD" /listLong="cysK, pabB, pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS, S43, rrnJ-16S" /label="promotor_-35" promotor_-10 75746..75765 /Source="Nicolas_upshift_promotors" /id="U67" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.721278721278721" /psig="0.999000999001" /xcortree=1885 /SigmaFactorBS="aaatcaattcctctcaattgcttgccctcccgatgCCTTTAC AaagaagaggagttcAACTAATATTAAACTATCTTtatgaaaacgttccatcatcctt t" /listShort="hprT, S38, ftsH, S39, S40, coaX, hslO, yacD" /listLong="cysK, pabB, pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS, S43, rrnJ-16S" /label="promotor_-10" upshifts 75749 /Source="Nicolas_upshifts" /id="U67" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.721278721278721" /psig="0.999000999001" /xcortree=1885 /SigmaFactorBS="aaatcaattcctctcaattgcttgccctcccgatgCCTTTAC AaagaagaggagttcAACTAATATTAAACTATCTTtatgaaaacgttccatcatcctt t" /listShort="hprT, S38, ftsH, S39, S40, coaX, hslO, yacD" /listLong="cysK, pabB, pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS, S43, rrnJ-16S" downshifts complement(76342) /Source="Nicolas_upshifts" /id="D33" /incds=0 /nref=2 /ntot=142 /MaxReadThrough="2.51342" /MaxDrop="2.96272" /score="12.3455896" /energy="-9.1" /TU="NA" /idTUdmin="U68" /TUdmin="-11" /isTUend="TRUE" CDS 76344..76886 /gene="hprT" /locus_tag="BSU_00680" /old_locus_tag="BSU00680" /EC_number="2.4.2.8" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:3110131, 6408059, 24001521" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 3110131, 6408059, 24001521; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="hypoxanthine-guanine phosphoribosyltransferase" /protein_id="NP_387949.1" /db_xref="EnsemblGenomes-Gn:BSU00680" /db_xref="EnsemblGenomes-Tr:CAB11844" /db_xref="GOA:P37472" /db_xref="InterPro:IPR000836" /db_xref="InterPro:IPR005904" /db_xref="InterPro:IPR029057" /db_xref="SubtiList:BG10131" /db_xref="UniProtKB/Swiss-Prot:P37472" /translation="MMKHDIEKVLISEEEIQKKVKELGAELTSEYQDTFPLAIGVLKG ALPFMADLIKHIDTYLEMDFMDVSSYGNSTVSSGEVKIIKDLDTSVEGRDILIIEDII DSGLTLSYLVELFRYRKAKSIKIVTLLDKPSGRKADIKADFVGFEVPDAFVVGYGLDY AERYRNLPYIGVLKPAVYES*" gene 76344..76886 /gene="hprT" /locus_tag="BSU_00680" /old_locus_tag="BSU00680" upshifts complement(76749) /Source="Nicolas_upshifts" /id="U68" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.988011988011988" /psig="0.002997002997003" /xcortree=41 /SigmaFactorBS="aacccactacaaacgcgtcaggaacttcaaaacCGACaaagt ctgctttgatgtCCGCTtttcttccgctcggtttatccaaaagggtaacaatcttaat t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 complement(76751..76755) /Source="Nicolas_upshift_promotors" /id="U68" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.988011988011988" /psig="0.002997002997003" /xcortree=41 /SigmaFactorBS="aacccactacaaacgcgtcaggaacttcaaaacCGACaaagt ctgctttgatgtCCGCTtttcttccgctcggtttatccaaaagggtaacaatcttaat t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(76773..76776) /Source="Nicolas_upshift_promotors" /id="U68" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.988011988011988" /psig="0.002997002997003" /xcortree=41 /SigmaFactorBS="aacccactacaaacgcgtcaggaacttcaaaacCGACaaagt ctgctttgatgtCCGCTtttcttccgctcggtttatccaaaagggtaacaatcttaat t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 76887..76983 /Source="Nicolas_S_feature" /locus_tag="new_76887_76983" /HighExp="Diami, H2O2, dia5, G135, dia15, G150, Paraq, C90, G180, Salt" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA, SigEF" /TUshortPSig="0.999, 1, 0.842" /TUlongSig="SigB, SigA" /TUlongPSig="1, 0.99" /label="S38" CDS 76984..78897 /gene="ftsH" /locus_tag="BSU_00690" /old_locus_tag="BSU00690" /EC_number="3.4.24.-" /function="16.9: Replicate" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:9076729, 9084181, 9287010, 9352926, 10851010, 10913836, 12533473, 24001521, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9076729, 9084181, 9287010, 9352926, 10851010, 10913836, 12533473, 24001521, 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="ATP-dependent cytoplasmic membrane protease" /protein_id="NP_387950.1" /db_xref="EnsemblGenomes-Gn:BSU00690" /db_xref="EnsemblGenomes-Tr:CAB11845" /db_xref="GOA:P37476" /db_xref="InterPro:IPR000642" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR003959" /db_xref="InterPro:IPR003960" /db_xref="InterPro:IPR005936" /db_xref="InterPro:IPR011546" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR037219" /db_xref="SubtiList:BG10132" /db_xref="UniProtKB/Swiss-Prot:P37476" /translation="MNRVFRNTIFYLLILLVVIGVVSYFQTSNPKTENMSYSTFIKNL DDGKVDSVSVQPVRGVYEVKGQLKNYDKDQYFLTHVPEGKGADQIFNALKKTDVKVEP AQETSGWVTFLTTIIPFVIIFILFFFLLNQAQGGGSRVMNFGKSKAKLYTEEKKRVKF KDVAGADEEKQELVEVVEFLKDPRKFAELGARIPKGVLLVGPPGTGKTLLAKACAGEA GVPFFSISGSDFVEMFVGVGASRVRDLFENAKKNAPCLIFIDEIDAVGRQRGAGLGGG HDEREQTLNQLLVEMDGFSANEGIIIIAATNRADILDPALLRPGRFDRQITVDRPDVI GREAVLKVHARNKPLDETVNLKSIAMRTPGFSGADLENLLNEAALVAARQNKKKIDAR DIDEATDRVIAGPAKKSRVISKKERNIVAYHEGGHTVIGLVLDEADMVHKVTIVPRGQ AGGYAVMLPREDRYFQTKPELLDKIVGLLGGRVAEEIIFGEVSTGAHNDFQRATNIAR RMVTEFGMSEKLGPLQFGQSQGGQVFLGRDFNNEQNYSDQIAYEIDQEIQRIIKECYE RAKQILTENRDKLELIAQTLLKVETLDAEQIKHLIDHGTLPERNFSDDEKNDDVKVNI LTKTEEKKDDTKE*" gene 76984..78897 /gene="ftsH" /locus_tag="BSU_00690" /old_locus_tag="BSU00690" downshifts 78895 /Source="Nicolas_upshifts" /id="D34" /incds=0 /nref=187 /ntot=269 /MaxReadThrough="5.00908" /MaxDrop="8.91482" /score="38.4132386" /energy="-12.9" /TU="U66,U67" /idTUdmin="U64" /TUdmin=0 /isTUend="TRUE" misc_feature complement(78934..78938) /Source="Nicolas_upshift_promotors" /id="U69" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.955044955044955" /psig="0.000999000999001" /xcortree=66 /SigmaFactorBS="aaatcgataccagaattggatgattgtaaaagccgcagctga gccaatcatttacataaaaaaaCTGCCagcgtcagccggcagtttttttagaaagaaa g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" S_feature 78940..79025 /Source="Nicolas_S_feature" /locus_tag="new_78940_79025" /HighExp="H2O2, G180, G135, dia15, Paraq, G150, Oxctl, Diami, Cold, LBGexp" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.999, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S39" upshifts complement(78942) /Source="Nicolas_upshifts" /id="U69" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.955044955044955" /psig="0.000999000999001" /xcortree=66 /SigmaFactorBS="aaatcgataccagaattggatgattgtaaaagccgcagctga gccaatcatttacataaaaaaaCTGCCagcgtcagccggcagtttttttagaaagaaa g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 79002..79009 /Source="Nicolas_upshift_promotors" /id="U70" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.531468531468531" /psig=1 /xcortree=1864 /SigmaFactorBS="gcggcttttacaatcatccaattctggtatcgattTGTTTAC AaatgagccgctgaTCGTGTATGGTATTGTAGAAtgtttgtaaaaagtaaagtagaga a" /listShort="S40, coaX, hslO, yacD, cysK" /listLong="pabB, pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS, S43, rrnJ-16S" /label="promotor_-35" promotor_-10 79023..79042 /Source="Nicolas_upshift_promotors" /id="U70" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.531468531468531" /psig=1 /xcortree=1864 /SigmaFactorBS="gcggcttttacaatcatccaattctggtatcgattTGTTTAC AaatgagccgctgaTCGTGTATGGTATTGTAGAAtgtttgtaaaaagtaaagtagaga a" /listShort="S40, coaX, hslO, yacD, cysK" /listLong="pabB, pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS, S43, rrnJ-16S" /label="promotor_-10" S_feature 79027..79091 /Source="Nicolas_S_feature" /locus_tag="new_79027_79091" /HighExp="dia5, H2O2, dia15, Paraq, Diami, G180, LBGexp, Oxctl, G135, G150" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA, SigA" /TUshortPSig="1, 0.999, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S40" upshifts 79027 /Source="Nicolas_upshifts" /id="U70" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.531468531468531" /psig=1 /xcortree=1864 /SigmaFactorBS="gcggcttttacaatcatccaattctggtatcgattTGTTTAC AaatgagccgctgaTCGTGTATGGTATTGTAGAAtgtttgtaaaaagtaaagtagaga a" /listShort="S40, coaX, hslO, yacD, cysK" /listLong="pabB, pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS, S43, rrnJ-16S" CDS 79092..79868 /gene="coaX" /locus_tag="BSU_00700" /old_locus_tag="BSU00700" /EC_number="2.7.1.33" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:15795230, 16905099, 24784177" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15795230, 16905099, 24784177; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="pantothenate kinase type III" /protein_id="NP_387951.2" /db_xref="EnsemblGenomes-Gn:BSU00700" /db_xref="EnsemblGenomes-Tr:CAB11846" /db_xref="GOA:P37564" /db_xref="InterPro:IPR004619" /db_xref="SubtiList:BG10133" /db_xref="UniProtKB/Swiss-Prot:P37564" /translation="MLLVIDVGNTNTVLGVYHDGKLEYHWRIETSRHKTEDEFGMILR SLFDHSGLMFEQIDGIIISSVVPPIMFALERMCTKYFHIEPQIVGPGMKTGLNIKYDN PKEVGADRIVNAVAAIHLYGNPLIVVDFGTATTYCYIDENKQYMGGAIAPGITISTEA LYSRAAKLPRIEITRPDNIIGKNTVSAMQSGILFGYVGQVEGIVKRMKWQAKQEPKVI ATGGLAPLIANESDCIDIVDPFLTLKGLELIYERNRVGSV*" gene 79092..79868 /gene="coaX" /locus_tag="BSU_00700" /old_locus_tag="BSU00700" CDS 79880..80755 /gene="hslO" /locus_tag="BSU_00710" /old_locus_tag="BSU00710" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 11323724, 15023991; Product type f: factor" /codon_start=1 /transl_table=11 /product="disulfide bond chaperone (heat shock protein HSP33)" /protein_id="NP_387952.1" /db_xref="EnsemblGenomes-Gn:BSU00710" /db_xref="EnsemblGenomes-Tr:CAB11847" /db_xref="GOA:P37565" /db_xref="InterPro:IPR000397" /db_xref="InterPro:IPR016153" /db_xref="InterPro:IPR016154" /db_xref="PDB:1VZY" /db_xref="SubtiList:BG10134" /db_xref="UniProtKB/Swiss-Prot:P37565" /translation="MDYLVKALAYDGKVRAYAARTTDMVNEGQRRHGTWPTASAALGR TMTASLMLGAMLKGDDKLTVKIEGGGPIGAIVADANAKGEVRAYVSNPQVHFDLNEQG KLDVRRAVGTNGTLSVVKDLGLREFFTGQVEIVSGELGDDFTYYLVSSEQVPSSVGVG VLVNPDNTILAAGGFIIQLMPGTDDETITKIEQRLSQVEPISKLIQKGLTPEEILEEV LGEKPEILETMPVRFHCPCSKERFETAILGLGKKEIQDMIEEDGQAEAVCHFCNEKYL FTKEELEGLRDQTTR*" gene 79880..80755 /gene="hslO" /locus_tag="BSU_00710" /old_locus_tag="BSU00710" CDS 80802..81695 /gene="yacD" /locus_tag="BSU_00720" /old_locus_tag="BSU00720" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15187182, 15856219; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative protein chaperone accessory lipoproteinfactor" /protein_id="NP_387953.1" /db_xref="EnsemblGenomes-Gn:BSU00720" /db_xref="EnsemblGenomes-Tr:CAB11848" /db_xref="GOA:P37566" /db_xref="InterPro:IPR000297" /db_xref="InterPro:IPR023058" /db_xref="InterPro:IPR027304" /db_xref="SubtiList:BG10135" /db_xref="UniProtKB/Swiss-Prot:P37566" /translation="MKSRTIWTIILGALLVCCIAVAYTLTKSQAGASSSGESIATIGG KSVTREEWLKEMEDQYGKSTLEDMINVRVVEQLAKKNKLKISKSEVDREFLLIKAVNN SFYEDEHTTEKEWKDQIRYNILLEDLLTRDIDISNKELESFYNKNKELYQFDDSYRIR HIVVKDEEEAREVLKELKGGSSFEAVAAERSTDRYTSPYGGDLGFVTEASDNIPSAYI EEAKTLKEDEWSQEPIKVSNGYAIIQLKEKLKARTFSFDEVKDQIRRQIAMDQLGDKA TVKTLWKEADVSWFYGEKSTK*" gene 80802..81695 /gene="yacD" /locus_tag="BSU_00720" /old_locus_tag="BSU00720" promotor_-35 81425..81430 /Source="Nicolas_upshift_promotors" /id="U71" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.995004995004995" /psig="0.995004995004995" /xcortree=1220 /SigmaFactorBS="catcaccatacggcggagatttaggttttgtcacagaGGCAT CagacaacattccatcaGCATACATTGAAGAGGCGAaaacactcaaagaggatgaatg g" /listShort="cysK" /listLong="pabB, pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS" /label="promotor_-35" promotor_-10 81447..81465 /Source="Nicolas_upshift_promotors" /id="U71" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.995004995004995" /psig="0.995004995004995" /xcortree=1220 /SigmaFactorBS="catcaccatacggcggagatttaggttttgtcacagaGGCAT CagacaacattccatcaGCATACATTGAAGAGGCGAaaacactcaaagaggatgaatg g" /listShort="cysK" /listLong="pabB, pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS" /label="promotor_-10" upshifts 81448 /Source="Nicolas_upshifts" /id="U71" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.995004995004995" /psig="0.995004995004995" /xcortree=1220 /SigmaFactorBS="catcaccatacggcggagatttaggttttgtcacagaGGCAT CagacaacattccatcaGCATACATTGAAGAGGCGAaaacactcaaagaggatgaatg g" /listShort="cysK" /listLong="pabB, pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS" promotor_-35 81694..81701 /Source="Nicolas_upshift_promotors" /id="U72" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.844155844155844" /psig=1 /xcortree=1740 /SigmaFactorBS="tcttggttttatggggaaaaaagtactaagtGATTGACAaaa aattttgaaatTGATAGATTATATACATAATaccaatacaaatagtcggaaattgagg t" /listShort="cysK, pabB, pabA, pabC, sul" /listLong="folB, folK, yazB, dusB, S42, lysS, S43, rrnJ-16S" /label="promotor_-35" promotor_-10 81716..81735 /Source="Nicolas_upshift_promotors" /id="U72" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.844155844155844" /psig=1 /xcortree=1740 /SigmaFactorBS="tcttggttttatggggaaaaaagtactaagtGATTGACAaaa aattttgaaatTGATAGATTATATACATAATaccaatacaaatagtcggaaattgagg t" /listShort="cysK, pabB, pabA, pabC, sul" /listLong="folB, folK, yazB, dusB, S42, lysS, S43, rrnJ-16S" /label="promotor_-10" upshifts 81723 /Source="Nicolas_upshifts" /id="U72" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.844155844155844" /psig=1 /xcortree=1740 /SigmaFactorBS="tcttggttttatggggaaaaaagtactaagtGATTGACAaaa aattttgaaatTGATAGATTATATACATAATaccaatacaaatagtcggaaattgagg t" /listShort="cysK, pabB, pabA, pabC, sul" /listLong="folB, folK, yazB, dusB, S42, lysS, S43, rrnJ-16S" CDS 81771..82697 /gene="cysK" /locus_tag="BSU_00730" /old_locus_tag="BSU00730" /EC_number="2.5.1.47" /EC_number="4.4.1.1" /function="16.3: Control" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:11390694, 15760717, 16267287, 16513748, 17056751, 18974048" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11390694, 15760717, 16267287, 16513748, 17056751, 18974048; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="cysteine synthase" /protein_id="NP_387954.1" /db_xref="EnsemblGenomes-Gn:BSU00730" /db_xref="EnsemblGenomes-Tr:CAB11849" /db_xref="GOA:P37887" /db_xref="InterPro:IPR001216" /db_xref="InterPro:IPR001926" /db_xref="InterPro:IPR005856" /db_xref="InterPro:IPR005859" /db_xref="InterPro:IPR036052" /db_xref="SubtiList:BG10136" /db_xref="UniProtKB/Swiss-Prot:P37887" /translation="MVRVANSITELIGNTPIVKLNRLADENSADVYLKLEYMNPGSSV KDRIGLAMIEAAEKEGKLKAGNTIIEPTSGNTGIGLAMVAAAKGLKAILVMPDTMSME RRNLLRAYGAELVLTPGAEGMKGAIKKAEELAEKHGYFVPQQFNNPSNPEIHRQTTGK EIVEQFGDDQLDAFVAGIGTGGTITGAGEVLKEAYPSIKIYAVEPSDSPVLSGGKPGP HKIQGIGAGFVPDILNTEVYDEIFPVKNEEAFEYARRAAREEGILGGISSGAAIYAAL QVAKKLGKGKKVLAIIPSNGERYLSTPLYQFD*" gene 81771..82697 /gene="cysK" /locus_tag="BSU_00730" /old_locus_tag="BSU00730" downshifts 82690 /Source="Nicolas_upshifts" /id="D35" /incds=0 /nref=156 /ntot=259 /MaxReadThrough="5.90023" /MaxDrop="5.38596" /score="41.7897705" /energy="-11.4" /TU="U72" /idTUdmin="U70" /TUdmin=10 /isTUend="TRUE" promotor_-35 82744..82752 /Source="Nicolas_upshift_promotors" /id="U73" /multdbtbs="-" /comp="M2" /sig="SigI" /pcomp="0.787212787212787" /psig="0.787212787212787" /xcortree=1723 /SigmaFactorBS="aactcccggttcgccgggagtttttttatatttcgtGCATCA AATatgccatgtctgcGACGAATGTtattcttggaagagaaattcacttttttcacta a" /listShort="pabB" /listLong="pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS" /label="promotor_-35" promotor_-10 82766..82774 /Source="Nicolas_upshift_promotors" /id="U73" /multdbtbs="-" /comp="M2" /sig="SigI" /pcomp="0.787212787212787" /psig="0.787212787212787" /xcortree=1723 /SigmaFactorBS="aactcccggttcgccgggagtttttttatatttcgtGCATCA AATatgccatgtctgcGACGAATGTtattcttggaagagaaattcacttttttcacta a" /listShort="pabB" /listLong="pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS" /label="promotor_-10" upshifts 82768 /Source="Nicolas_upshifts" /id="U73" /multdbtbs="-" /comp="M2" /sig="SigI" /pcomp="0.787212787212787" /psig="0.787212787212787" /xcortree=1723 /SigmaFactorBS="aactcccggttcgccgggagtttttttatatttcgtGCATCA AATatgccatgtctgcGACGAATGTtattcttggaagagaaattcacttttttcacta a" /listShort="pabB" /listLong="pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS" promotor_-35 82796..82799 /Source="Nicolas_upshift_promotors" /id="U74" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.7992007992008" /psig="0.998001998001998" /xcortree=2267 /SigmaFactorBS="gcgacgaatgttattcttggaagagaaattcaCTTTtttcac taacaacaTTGCTTTACAATTAAAAACAagtaaaaaagaaaatagaggaatgatacaa a" /listShort="pabB, pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS" /listLong="S43, rrnJ-16S" /label="promotor_-35" promotor_-10 82814..82833 /Source="Nicolas_upshift_promotors" /id="U74" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.7992007992008" /psig="0.998001998001998" /xcortree=2267 /SigmaFactorBS="gcgacgaatgttattcttggaagagaaattcaCTTTtttcac taacaacaTTGCTTTACAATTAAAAACAagtaaaaaagaaaatagaggaatgatacaa a" /listShort="pabB, pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS" /listLong="S43, rrnJ-16S" /label="promotor_-10" upshifts 82824 /Source="Nicolas_upshifts" /id="U74" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.7992007992008" /psig="0.998001998001998" /xcortree=2267 /SigmaFactorBS="gcgacgaatgttattcttggaagagaaattcaCTTTtttcac taacaacaTTGCTTTACAATTAAAAACAagtaaaaaagaaaatagaggaatgatacaa a" /listShort="pabB, pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS" /listLong="S43, rrnJ-16S" CDS 82864..84276 /gene="pabB" /locus_tag="BSU_00740" /old_locus_tag="BSU00740" /EC_number="2.6.1.85" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 2123867, 9084182, 16605270, 17114263, 25288929; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="4-amino-4-deoxychorismate synthase (para-aminobenzoate synthase)" /protein_id="NP_387955.1" /db_xref="EnsemblGenomes-Gn:BSU00740" /db_xref="EnsemblGenomes-Tr:CAB11850" /db_xref="GOA:P28820" /db_xref="InterPro:IPR005801" /db_xref="InterPro:IPR006805" /db_xref="InterPro:IPR015890" /db_xref="InterPro:IPR019999" /db_xref="SubtiList:BG10137" /db_xref="UniProtKB/Swiss-Prot:P28820" /translation="MAQRRPAGKKIPFQKDSFLQQFEKLAQSRKHHVLLESARGGRYS IAGLDPIATVKGKDGITTIKHGDEMLFKEGDPLRAFHSWFKTLETETNHEFPDFQGGA IGFLSYDYARYIENFKMLSLDDLETPDIYFLVFDDIAVYDHQEESLWLITHVNGSDQE TADVKLSELEQMWLTELPAVTSREMKPETAGSFAAPFTEDGFSQAVEKIKQYIASGDV FQVNLSIRQSQSLSVHPYQIYKTLREVNPSPYMAYLETPDFQIICGSPELLVSKKGKL LETRPIAGTRSRGKTNEEDEALANELIHNEKERAEHVMLVDLERNDLGRVSRYGSVRV NEFMAIEKYSHVMHIVSNVQGELQDGYDAVDIIHAVFPGGTITGAPKVRTMEIIEELE PTRRGLYTGSIGWFGYNHDLQFNIVIRTIYATGGQAFMQSGAGVVIDSVPKHEYKESF KKAFAMQRALELSEEETKIR*" gene 82864..84276 /gene="pabB" /locus_tag="BSU_00740" /old_locus_tag="BSU00740" promotor_-35 83666..83668 /Source="Nicolas_upshift_promotors" /id="U75" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.416583416583417" /psig="0.621378621378621" /xcortree=608 /SigmaFactorBS="cctgatttccaaatcatttgcggatcgcctgaacTGCttgtc agcaaaaagggcAAGCTATTAGAGACGAGACcgattgcgggcacccgttccagaggga a" /GFF_Attribute="listShort" /listLong="pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS" /label="promotor_-35" promotor_-10 83686..83704 /Source="Nicolas_upshift_promotors" /id="U75" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.416583416583417" /psig="0.621378621378621" /xcortree=608 /SigmaFactorBS="cctgatttccaaatcatttgcggatcgcctgaacTGCttgtc agcaaaaagggcAAGCTATTAGAGACGAGACcgattgcgggcacccgttccagaggga a" /GFF_Attribute="listShort" /listLong="pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS" /label="promotor_-10" upshifts 83692 /Source="Nicolas_upshifts" /id="U75" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.416583416583417" /psig="0.621378621378621" /xcortree=608 /SigmaFactorBS="cctgatttccaaatcatttgcggatcgcctgaacTGCttgtc agcaaaaagggcAAGCTATTAGAGACGAGACcgattgcgggcacccgttccagaggga a" /GFF_Attribute="listShort" /listLong="pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS" promotor_-35 84033..84040 /Source="Nicolas_upshift_promotors" /id="U76" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.57942057942058" /psig="0.998001998001998" /xcortree=2212 /SigmaFactorBS="agtaagaacgatggaaattatagaagaACTTGAGCcgacacg ccgagGGCTTTATACTGGATCTATAggatggtttggatataatcacgatctgcagttt a" /listShort="pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS" /listLong="S43, rrnJ-16S" /label="promotor_-35" promotor_-10 84053..84072 /Source="Nicolas_upshift_promotors" /id="U76" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.57942057942058" /psig="0.998001998001998" /xcortree=2212 /SigmaFactorBS="agtaagaacgatggaaattatagaagaACTTGAGCcgacacg ccgagGGCTTTATACTGGATCTATAggatggtttggatataatcacgatctgcagttt a" /listShort="pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS" /listLong="S43, rrnJ-16S" /label="promotor_-10" upshifts 84066 /Source="Nicolas_upshifts" /id="U76" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.57942057942058" /psig="0.998001998001998" /xcortree=2212 /SigmaFactorBS="agtaagaacgatggaaattatagaagaACTTGAGCcgacacg ccgagGGCTTTATACTGGATCTATAggatggtttggatataatcacgatctgcagttt a" /listShort="pabA, pabC, sul, folB, folK, yazB, dusB, S42, lysS" /listLong="S43, rrnJ-16S" CDS 84290..84874 /gene="pabA" /locus_tag="BSU_00750" /old_locus_tag="BSU00750" /EC_number="2.6.1.85" /EC_number="4.1.3.27" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 9098056, 16605270, 17114263, 24847778; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="4-amino-4-deoxychorismate synthase; anthranilatesynthase (subunit II)" /protein_id="NP_387956.1" /db_xref="EnsemblGenomes-Gn:BSU00750" /db_xref="EnsemblGenomes-Tr:CAB11851" /db_xref="GOA:P28819" /db_xref="InterPro:IPR006221" /db_xref="InterPro:IPR017926" /db_xref="InterPro:IPR029062" /db_xref="SubtiList:BG10138" /db_xref="UniProtKB/Swiss-Prot:P28819" /translation="MILMIDNYDSFTYNLVQYLGELGEELVVKRNDSITIDEIEELSP DFLMISPGPCSPDEAGISLEAIKHFAGKIPIFGVCLGHQSIAQVFGGDVVRAERLMHG KTSDIEHDGKTIFEGLKNPLVATRYHSLIVKPETLPSCFTVTAQTKEGEIMAIRHNDL PIEGVQFHPESIMTSFGKEMLRNFIETYRKEVIA*" gene 84290..84874 /gene="pabA" /locus_tag="BSU_00750" /old_locus_tag="BSU00750" CDS 84874..85755 /gene="pabC" /locus_tag="BSU_00760" /old_locus_tag="BSU00760" /EC_number="4.1.3.38" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 10876155, 1644759, 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="4-amino-4-deoxychorismate pyruvate-lyase" /protein_id="NP_387957.1" /db_xref="EnsemblGenomes-Gn:BSU00760" /db_xref="EnsemblGenomes-Tr:CAB11852" /db_xref="GOA:P28821" /db_xref="InterPro:IPR001544" /db_xref="InterPro:IPR017824" /db_xref="InterPro:IPR018300" /db_xref="InterPro:IPR036038" /db_xref="SubtiList:BG10139" /db_xref="UniProtKB/Swiss-Prot:P28821" /translation="MIYVNGRYMEEKDAVLSPFDHGFLYGIGVFETFRLYEGCPFLLD WHIERLERALKDLQIEYTVSKHEILEMLDKLLKLNDIKDGNARVRLNISAGISDKGFV AQTYDKPTVLCFVNQLKPESLPLQKEGKVLSIRRNTPEGSFRLKSHHYLNNMYAKREI GNDPRVEGIFLTEDGAVAEGIISNVFWRKGRCIYTPSLDTGILDGVTRRFIIENAKDI GLELKTGRYELEALLTADEAWMTNSVLEIIPFTKIEEVNYGSQSGEATSALQLLYKKE IKNMIHEKGGRAWRSTQ*" gene 84874..85755 /gene="pabC" /locus_tag="BSU_00760" /old_locus_tag="BSU00760" CDS 85737..86594 /gene="folP" /locus_tag="BSU_00770" /old_locus_tag="BSU00770" /EC_number="2.5.1.15" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 2123867, 11007651; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="dihydropteroate synthase" /protein_id="NP_387958.1" /db_xref="EnsemblGenomes-Gn:BSU00770" /db_xref="EnsemblGenomes-Tr:CAB11853" /db_xref="GOA:P28822" /db_xref="InterPro:IPR000489" /db_xref="InterPro:IPR006390" /db_xref="InterPro:IPR011005" /db_xref="SubtiList:BG10140" /db_xref="UniProtKB/Swiss-Prot:P28822" /translation="MAQHTIDQTQVIHTKPSALSYKEKTLVMGILNVTPDSFSDGGKY DSLDKALLHAKEMIDDGAHIIDIGGESTRPGAECVSEDEEMSRVIPVIERITKELGVP ISVDTYKASVADEAVKAGASIINDIWGAKHDPKMASVAAEHNVPIVLMHNRPERNYND LLPDMLSDLMESVKIAVEAGVDEKNIILDPGIGFAKTYHDNLAVMNKLEIFSGLGYPV LLATSRKRFIGRVLDLPPEERAEGTGATVCLGIQKGCDIVRVHDVKQIARMAKMMDAM LNKGGVHHG*" gene 85737..86594 /gene="folP" /locus_tag="BSU_00770" /old_locus_tag="BSU00770" CDS 86587..86949 /gene="folB" /locus_tag="BSU_00780" /old_locus_tag="BSU00780" /EC_number="4.1.2.25" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 16188473, 17176045, 17388809; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="dihydroneopterin aldolase" /protein_id="NP_387959.1" /db_xref="EnsemblGenomes-Gn:BSU00780" /db_xref="EnsemblGenomes-Tr:CAB11854" /db_xref="GOA:P28823" /db_xref="InterPro:IPR006156" /db_xref="InterPro:IPR006157" /db_xref="SubtiList:BG10141" /db_xref="UniProtKB/Swiss-Prot:P28823" /translation="MDKVYVEGMEFYGYHGVFTEENKLGQRFKVDLTAELDLSKAGQT DDLEQTINYAELYHVCKDIVEGEPVKLVETLAERIAGTVLGKFQPVQQCTVKVIKPDP PIPGHYKSVAIEITRKKS*" gene 86587..86949 /gene="folB" /locus_tag="BSU_00780" /old_locus_tag="BSU00780" CDS 86946..87449 /gene="folK" /locus_tag="BSU_00790" /old_locus_tag="BSU00790" /EC_number="2.7.6.3" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 17029412; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="7,8-dihydro-6-hydroxymethylpterin pyrophosphokinase" /protein_id="NP_387960.1" /db_xref="EnsemblGenomes-Gn:BSU00790" /db_xref="EnsemblGenomes-Tr:CAB11855" /db_xref="GOA:P29252" /db_xref="InterPro:IPR000550" /db_xref="InterPro:IPR035907" /db_xref="SubtiList:BG10142" /db_xref="UniProtKB/Swiss-Prot:P29252" /translation="MNNIAYIALGSNIGDRETYLRQAVALLHQHAAVTVTKVSSIYET DPVGYEDQAQFLNMAVEIKTSLNPFELLELTQQIENELGRTREVRWGPRTADLDILLF NRENIETEQLIVPHPRMYERLFVLAPLAEICQQVEKEATSAETDQEGVRVWKQKSGVD EFVHSES*" gene 86946..87449 /gene="folK" /locus_tag="BSU_00790" /old_locus_tag="BSU00790" CDS 87401..87610 /gene="yazB" /locus_tag="BSU_00800" /old_locus_tag="BSU00800" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator" /protein_id="NP_387961.1" /db_xref="EnsemblGenomes-Gn:BSU00800" /db_xref="EnsemblGenomes-Tr:CAB11856" /db_xref="GOA:O31417" /db_xref="InterPro:IPR001387" /db_xref="InterPro:IPR010982" /db_xref="SubtiList:BG12701" /db_xref="UniProtKB/Swiss-Prot:O31417" /translation="MEAEIWGRRIRAFRKLKGYTQEGFAKALGISVSILGEIERGNRL PSAAIIQDAADVLNISADELAPPEK*" gene 87401..87610 /gene="yazB" /locus_tag="BSU_00800" /old_locus_tag="BSU00800" CDS 87634..88635 /gene="dusB" /locus_tag="BSU_00810" /old_locus_tag="BSU00810" /EC_number="1.-.-.-" /function="16.6: Maintain" /function="16.2: Construct biomass (Anabolism)" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 11983710, 15698474, 26112661; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="tRNA-dihydrouridine synthase B" /protein_id="NP_387962.1" /db_xref="EnsemblGenomes-Gn:BSU00810" /db_xref="EnsemblGenomes-Tr:CAB11857" /db_xref="GOA:P37567" /db_xref="InterPro:IPR001269" /db_xref="InterPro:IPR004652" /db_xref="InterPro:IPR013785" /db_xref="InterPro:IPR018517" /db_xref="InterPro:IPR024036" /db_xref="InterPro:IPR035587" /db_xref="SubtiList:BG10143" /db_xref="UniProtKB/Swiss-Prot:P37567" /translation="MFKIGDIQLKNRVVLAPMAGVCNSAFRLTVKEFGAGLVCAEMVS DKAILYNNARTMGMLYIDEREKPLSLQIFGGKKETLVEAAKFVDQNTTADIIDINMGC PVPKITKCDAGAKWLLDPDKIYEMVSAVVDAVNKPVTVKMRMGWDEDHIFAVKNAQAV ERAGGKAVALHGRTRVQMYEGTANWDIIKEVKQSVSIPVIGNGDVKTPQDAKRMLDET GVDGVMIGRAALGNPWMIYRTVQYLETGKLKEEPQVREKMAVCKLHLDRLIDLKGENV AVREMRKHAAWYLKGVKGNANVRNEINHCETREEFVQLLDAFTVEVEAKELQNAKVG* " gene 87634..88635 /gene="dusB" /locus_tag="BSU_00810" /old_locus_tag="BSU00810" S_feature complement(88050..89566) /Source="Nicolas_S_feature" /locus_tag="new_88050_89566_c" /HighExp="LoTm, C30, S6, S8, S5, S7, S3, S4, C90, G135" /AntisenseName="dusB" /AntisenseCor="-0.60218706634778196" /AntisenseRegPval="-27.2" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S41" S_feature 88636..88726 /Source="Nicolas_S_feature" /locus_tag="new_88636_88726" /HighExp="H2O2, G180, G150, Paraq, G135, Oxctl, Diami, C30, LBGexp, C90" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.998, 0.998" /TUlongSig="SigA, SigI, SigA, SigEF, SigA, SigA, SigA" /TUlongPSig="0.621, 0.787, 1, 0.995, 1, 0.999, 1" /label="S42" CDS 88727..90226 /gene="lysS" /locus_tag="BSU_00820" /old_locus_tag="BSU00820" /EC_number="6.1.1.6" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12682299, 14623972, 20649968" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 14623972, 20649968; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="lysyl-tRNA synthetase" /protein_id="NP_387963.1" /db_xref="EnsemblGenomes-Gn:BSU00820" /db_xref="EnsemblGenomes-Tr:CAB11858" /db_xref="GOA:P37477" /db_xref="InterPro:IPR002313" /db_xref="InterPro:IPR004364" /db_xref="InterPro:IPR004365" /db_xref="InterPro:IPR006195" /db_xref="InterPro:IPR012340" /db_xref="InterPro:IPR018149" /db_xref="InterPro:IPR034762" /db_xref="SubtiList:BG10144" /db_xref="UniProtKB/Swiss-Prot:P37477" /translation="MSQEEHNHEELNDQLQVRRDKMNQLRDNGIDPFGARFERTHQSQ EVISAYQDLTKEELEEKAIEVTIAGRMMTKRGKGKAGFAHLQDLEGQIQIYVRKDSVG DDQYEIFKSSDLGDLIGVTGKVFKTNVGELSVKATSFELLTKALRPLPDKYHGLKDVE QRYRQRYLDLIVNPDSKHTFITRSKIIQAMRRYLDDHGYLEVETPTMHSIPGGASARP FITHHNALDIPLYMRIAIELHLKRLIVGGLEKVYEIGRVFRNEGVSTRHNPEFTMIEL YEAYADYKDIMSLTENLVAHIAQEVLGTTTIQYGEEQIDLKPEWKRIHMVDAVKEATG VDFWEEVTVEQAREYAKEHEVEIKDSMTVGHIINEFFEQKIEETLIQPTFIYGHPVEI SPLAKKNPEDPRFTDRFELFIVGREHANAFTELNDPIDQRERFEAQLKEREAGNDEAH LMDEDFVEALEYGMPPTGGLGIGIDRLVMLLTNAPSIRDVLLFPQMRQR*" gene 88727..90226 /gene="lysS" /locus_tag="BSU_00820" /old_locus_tag="BSU00820" promotor_-10 complement(89550..89568) /Source="Nicolas_upshift_promotors" /id="U77" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1081 /SigmaFactorBS="ttcttgggcgatatgagcgacaaggttttcagttaagCTCAT GatatctttatagtccGCATATGCTTCATATAACTcaatcattgtaaattcagggtta t" /listShort="S41" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(89566) /Source="Nicolas_upshifts" /id="U77" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1081 /SigmaFactorBS="ttcttgggcgatatgagcgacaaggttttcagttaagCTCAT GatatctttatagtccGCATATGCTTCATATAACTcaatcattgtaaattcagggtta t" /listShort="S41" /GFF_Attribute="listLong" promotor_-35 complement(89584..89589) /Source="Nicolas_upshift_promotors" /id="U77" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1081 /SigmaFactorBS="ttcttgggcgatatgagcgacaaggttttcagttaagCTCAT GatatctttatagtccGCATATGCTTCATATAACTcaatcattgtaaattcagggtta t" /listShort="S41" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 90207 /Source="Nicolas_upshifts" /id="D36" /incds=0 /nref=104 /ntot=219 /MaxReadThrough="4.49559" /MaxDrop="4.89484" /score="4.33485487" /energy="-18.1" /TU="U76" /idTUdmin="U74" /TUdmin=3 /isTUend="TRUE" promotor_-35 90302..90309 /Source="Nicolas_upshift_promotors" /id="U78" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.999000999001" /psig=1 /xcortree=2623 /SigmaFactorBS="gatgccgctctttttaaatcccttagtatttcttcaaaaaaa ctATTGCACTattatttactaggTGGTATATTATTATTCGTTGccgctaaacaaggcg a" /listShort="S43, rrnJ-16S, rrnJ-23S, rrnJ-5S, trnJ-Val, trnJ-Thr, trnJ-Lys, trnJ-Leu1, trnJ-Gly, trnJ-Leu2, trnJ-Arg, trnJ-Pro" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 90318..90535 /Source="Nicolas_S_feature" /locus_tag="new_90318_90535" /HighExp="LBGstat, H2O2, Oxctl, Diami, dia15, Paraq, MG 25, Heat, MG 15, UNK1" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="SigA, SigA, SigA, SigA, SigA, SigA" /TUlongPSig="0.998, 0.998, 1, 1, 0.999, 1" /label="S43" upshifts 90318 /Source="Nicolas_upshifts" /id="U78" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.999000999001" /psig=1 /xcortree=2623 /SigmaFactorBS="gatgccgctctttttaaatcccttagtatttcttcaaaaaaa ctATTGCACTattatttactaggTGGTATATTATTATTCGTTGccgctaaacaaggcg a" /listShort="S43, rrnJ-16S, rrnJ-23S, rrnJ-5S, trnJ-Val, trnJ-Thr, trnJ-Lys, trnJ-Leu1, trnJ-Gly, trnJ-Leu2, trnJ-Arg, trnJ-Pro" /GFF_Attribute="listLong" promotor_-10 90323..90342 /Source="Nicolas_upshift_promotors" /id="U78" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.999000999001" /psig=1 /xcortree=2623 /SigmaFactorBS="gatgccgctctttttaaatcccttagtatttcttcaaaaaaa ctATTGCACTattatttactaggTGGTATATTATTATTCGTTGccgctaaacaaggcg a" /listShort="S43, rrnJ-16S, rrnJ-23S, rrnJ-5S, trnJ-Val, trnJ-Thr, trnJ-Lys, trnJ-Leu1, trnJ-Gly, trnJ-Leu2, trnJ-Arg, trnJ-Pro" /GFF_Attribute="listLong" /label="promotor_-10" downshifts complement(90368) /Source="Nicolas_upshifts" /id="D37" /incds=0 /nref=3 /ntot=51 /MaxReadThrough="3.16217" /MaxDrop="5.0092" /score="18.6635354" /energy="-16.9" /TU="NA" /idTUdmin="U77" /TUdmin="-2288" /isTUend="FALSE" rRNA 90536..92089 /gene="rrnJ-16S" /locus_tag="BSU_rRNA_6" /product="ribosomal RNA-16S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 90536..92089 /gene="rrnJ-16S" /locus_tag="BSU_rRNA_6" rRNA 92254..95181 /gene="rrnJ-23S" /locus_tag="BSU_rRNA_7" /product="ribosomal RNA-23S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 92254..95181 /gene="rrnJ-23S" /locus_tag="BSU_rRNA_7" rRNA 95237..95354 /gene="rrnJ-5S" /locus_tag="BSU_rRNA_8" /product="ribosomal RNA-5S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 95237..95354 /gene="rrnJ-5S" /locus_tag="BSU_rRNA_8" tRNA 95375..95450 /gene="trnJ-Val" /locus_tag="BSU_tRNA_12" /product="tRNA-Val" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Val(UAC); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 95375..95450 /gene="trnJ-Val" /locus_tag="BSU_tRNA_12" tRNA 95455..95530 /gene="trnJ-Thr" /locus_tag="BSU_tRNA_13" /product="tRNA-Thr" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Thr(UGU); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 95455..95530 /gene="trnJ-Thr" /locus_tag="BSU_tRNA_13" tRNA 95567..95642 /gene="trnJ-Lys" /locus_tag="BSU_tRNA_14" /product="tRNA-Lys" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Lys(UUU); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 95567..95642 /gene="trnJ-Lys" /locus_tag="BSU_tRNA_14" tRNA 95649..95731 /gene="trnJ-Leu1" /locus_tag="BSU_tRNA_15" /product="tRNA-Leu" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Leu(UAG); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 95649..95731 /gene="trnJ-Leu1" /locus_tag="BSU_tRNA_15" tRNA 95772..95846 /gene="trnJ-Gly" /locus_tag="BSU_tRNA_16" /product="tRNA-Gly" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Gly(GCC); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 95772..95846 /gene="trnJ-Gly" /locus_tag="BSU_tRNA_16" tRNA 95861..95946 /gene="trnJ-Leu2" /locus_tag="BSU_tRNA_17" /product="tRNA-Leu" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Leu(UAA); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 95861..95946 /gene="trnJ-Leu2" /locus_tag="BSU_tRNA_17" tRNA 95956..96032 /gene="trnJ-Arg" /locus_tag="BSU_tRNA_18" /product="tRNA-Arg" /inference="profile:tRNAscan:1.23" /note="arginine transfer RNA(ACG); Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 27749819; Product type n : RNA" /function="16.2: Construct biomass (Anabolism)" gene 95956..96032 /gene="trnJ-Arg" /locus_tag="BSU_tRNA_18" tRNA 96060..96136 /gene="trnJ-Pro" /locus_tag="BSU_tRNA_19" /product="tRNA-Pro" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Pro(UGG); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 96060..96136 /gene="trnJ-Pro" /locus_tag="BSU_tRNA_19" tRNA 96146..96221 /gene="trnJ-Ala" /locus_tag="BSU_tRNA_20" /product="tRNA-Ala" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Ala(UGC); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 96146..96221 /gene="trnJ-Ala" /locus_tag="BSU_tRNA_20" rRNA 96392..97945 /gene="rrnW-16S" /locus_tag="BSU_rRNA_9" /product="ribosomal RNA-16S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 96392..97945 /gene="rrnW-16S" /locus_tag="BSU_rRNA_9" rRNA 98110..101037 /gene="rrnW-23S" /locus_tag="BSU_rRNA_10" /product="ribosomal RNA-23S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 98110..101037 /gene="rrnW-23S" /locus_tag="BSU_rRNA_10" rRNA 101093..101211 /gene="rrnW-5S" /locus_tag="BSU_rRNA_11" /product="ribosomal RNA-5S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 101093..101211 /gene="rrnW-5S" /locus_tag="BSU_rRNA_11" S_feature 101212..101289 /Source="Nicolas_S_feature" /locus_tag="new_101212_101289" /HighExp="G135, G180, G150, Cold, Paraq, Oxctl, H2O2, C30, BMM, Lbexp" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S44" promotor_-35 101259..101262 /Source="Nicolas_upshift_promotors" /id="U79" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.37962037962038" /psig="0.947052947052947" /xcortree=1441 /SigmaFactorBS="gctgggttttttgtattttggtttattgGTATcataaaattc cacttAACTGTATAATATAATAACTttataccgaattttaaatcagcaatcaggtttt g" /listShort="ctsR, mcsA, mcsB, clpC" /listLong="radA, disA, S45, yacL, ispD, ispF, gltX, S46, cysE, cysS, mrnC, rlmB, yacP, sigH, S47, rpmGB, secE, S48, nusG, S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC, S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" /label="promotor_-35" promotor_-10 101278..101297 /Source="Nicolas_upshift_promotors" /id="U79" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.37962037962038" /psig="0.947052947052947" /xcortree=1441 /SigmaFactorBS="gctgggttttttgtattttggtttattgGTATcataaaattc cacttAACTGTATAATATAATAACTttataccgaattttaaatcagcaatcaggtttt g" /listShort="ctsR, mcsA, mcsB, clpC" /listLong="radA, disA, S45, yacL, ispD, ispF, gltX, S46, cysE, cysS, mrnC, rlmB, yacP, sigH, S47, rpmGB, secE, S48, nusG, S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC, S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" /label="promotor_-10" upshifts 101291 /Source="Nicolas_upshifts" /id="U79" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.37962037962038" /psig="0.947052947052947" /xcortree=1441 /SigmaFactorBS="gctgggttttttgtattttggtttattgGTATcataaaattc cacttAACTGTATAATATAATAACTttataccgaattttaaatcagcaatcaggtttt g" /listShort="ctsR, mcsA, mcsB, clpC" /listLong="radA, disA, S45, yacL, ispD, ispF, gltX, S46, cysE, cysS, mrnC, rlmB, yacP, sigH, S47, rpmGB, secE, S48, nusG, S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC, S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" promotor_-35 101325..101331 /Source="Nicolas_upshift_promotors" /id="U80" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=150 /SigmaFactorBS="ctttataccgaattttaaatcagcaatcaGGTTTTGtggacc gggaaaaTGGAAATAATGAAGGATAGAgcgagaaagttgaaaattctcgagaaacggc t" /listShort="ctsR, mcsA, mcsB, clpC, radA, disA, S45, yacL, ispD, ispF" /listLong="gltX, S46, cysE, cysS, mrnC, rlmB, yacP, sigH, S47, rpmGB, secE, S48, nusG, S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC" /label="promotor_-35" promotor_-10 101345..101364 /Source="Nicolas_upshift_promotors" /id="U80" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=150 /SigmaFactorBS="ctttataccgaattttaaatcagcaatcaGGTTTTGtggacc gggaaaaTGGAAATAATGAAGGATAGAgcgagaaagttgaaaattctcgagaaacggc t" /listShort="ctsR, mcsA, mcsB, clpC, radA, disA, S45, yacL, ispD, ispF" /listLong="gltX, S46, cysE, cysS, mrnC, rlmB, yacP, sigH, S47, rpmGB, secE, S48, nusG, S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC" /label="promotor_-10" upshifts 101356 /Source="Nicolas_upshifts" /id="U80" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=150 /SigmaFactorBS="ctttataccgaattttaaatcagcaatcaGGTTTTGtggacc gggaaaaTGGAAATAATGAAGGATAGAgcgagaaagttgaaaattctcgagaaacggc t" /listShort="ctsR, mcsA, mcsB, clpC, radA, disA, S45, yacL, ispD, ispF" /listLong="gltX, S46, cysE, cysS, mrnC, rlmB, yacP, sigH, S47, rpmGB, secE, S48, nusG, S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC" promotor_-35 101371..101378 /Source="Nicolas_upshift_promotors" /id="U81" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.736263736263736" /psig=1 /xcortree=2024 /SigmaFactorBS="atggaaataatgaaggatagagcgagaAAGTTGAAaattctc gagaaaCGGCTTATAGTAAGATTAAAgtcaaatatagtcaaagtcagtaaaggagggg g" /listShort="ctsR, mcsA, mcsB, clpC, radA, disA, S45, yacL, ispD, ispF" /listLong="gltX, S46, cysE, cysS, mrnC, rlmB, yacP, sigH, S47, rpmGB, secE, S48, nusG, S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC, S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" /label="promotor_-35" promotor_-10 101392..101411 /Source="Nicolas_upshift_promotors" /id="U81" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.736263736263736" /psig=1 /xcortree=2024 /SigmaFactorBS="atggaaataatgaaggatagagcgagaAAGTTGAAaattctc gagaaaCGGCTTATAGTAAGATTAAAgtcaaatatagtcaaagtcagtaaaggagggg g" /listShort="ctsR, mcsA, mcsB, clpC, radA, disA, S45, yacL, ispD, ispF" /listLong="gltX, S46, cysE, cysS, mrnC, rlmB, yacP, sigH, S47, rpmGB, secE, S48, nusG, S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC, S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" /label="promotor_-10" upshifts 101404 /Source="Nicolas_upshifts" /id="U81" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.736263736263736" /psig=1 /xcortree=2024 /SigmaFactorBS="atggaaataatgaaggatagagcgagaAAGTTGAAaattctc gagaaaCGGCTTATAGTAAGATTAAAgtcaaatatagtcaaagtcagtaaaggagggg g" /listShort="ctsR, mcsA, mcsB, clpC, radA, disA, S45, yacL, ispD, ispF" /listLong="gltX, S46, cysE, cysS, mrnC, rlmB, yacP, sigH, S47, rpmGB, secE, S48, nusG, S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC, S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" CDS 101449..101913 /gene="ctsR" /locus_tag="BSU_00830" /old_locus_tag="BSU00830" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:2120829, 9852015, 11069659, 12618461, 16163393, 20852588, 24465625, 27388279" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 2120829, 9852015, 11069659, 12618461, 16163393, 20852588, 24465625, 27388279; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator of class III stress genes" /protein_id="NP_387964.1" /db_xref="EnsemblGenomes-Gn:BSU00830" /db_xref="EnsemblGenomes-Tr:CAB11859" /db_xref="GOA:P37568" /db_xref="InterPro:IPR008463" /db_xref="SubtiList:BG10145" /db_xref="UniProtKB/Swiss-Prot:P37568" /translation="MGHNISDIIEQYLKRVLDQNGKEILEIKRSEIADKFQCVPSQIN YVINTRFTSERGYIVESKRGGGGYIRIIKIKMNNEVVLINNIISQINTHLSQAASDDI ILRLLEDKVISEREAKMMVSVMDRSVLHIDLPERDELRARMMKAMLTSLKLK*" gene 101449..101913 /gene="ctsR" /locus_tag="BSU_00830" /old_locus_tag="BSU00830" misc_feature complement(101560..101564) /Source="Nicolas_upshift_promotors" /id="U82" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.811188811188811" /psig="0.0769230769230769" /xcortree=50 /SigmaFactorBS="caacaatatatcctctttcgcttgtaaatctggtgttgatga cataatttatttgggaaggaACGCAttgaaatttatctgcaatttcacttcgtttaat c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(101566) /Source="Nicolas_upshifts" /id="U82" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.811188811188811" /psig="0.0769230769230769" /xcortree=50 /SigmaFactorBS="caacaatatatcctctttcgcttgtaaatctggtgttgatga cataatttatttgggaaggaACGCAttgaaatttatctgcaatttcacttcgtttaat c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS 101927..102484 /gene="mcsA" /locus_tag="BSU_00840" /old_locus_tag="BSU00840" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:16163393, 19189946, 24947607" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16163393, 19189946, 24947607; Product type f: factor" /codon_start=1 /transl_table=11 /product="activator of protein kinase McsB" /protein_id="NP_387965.1" /db_xref="EnsemblGenomes-Gn:BSU00840" /db_xref="EnsemblGenomes-Tr:CAB11860" /db_xref="GOA:P37569" /db_xref="InterPro:IPR001943" /db_xref="InterPro:IPR025542" /db_xref="InterPro:IPR029037" /db_xref="InterPro:IPR036876" /db_xref="SubtiList:BG10146" /db_xref="UniProtKB/Swiss-Prot:P37569" /translation="MICQECHERPATFHFTKVVNGEKIEVHICEQCAKENSDSYGISA NQGFSIHNLLSGLLNMDSSFQNAGTQMFSHSEQISACPKCGMTFQQFRKIGRFGCSEC YKTFHSNITPILRKVHSGNTVHAGKIPKRIGGNLHVRRQIDMLKKELESLIHQEEFEN AAHVRDQIRLLEQSLKSTDSEEEQE*" gene 101927..102484 /gene="mcsA" /locus_tag="BSU_00840" /old_locus_tag="BSU00840" CDS 102484..103575 /gene="mcsB" /locus_tag="BSU_00850" /old_locus_tag="BSU00850" /EC_number="2.7.3.3" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:16163393, 17380125, 19189946, 21622759, 25610436, 27749819" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16163393, 17380125, 19189946, 21622759, 25610436, 27749819; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="protein arginine kinase" /protein_id="NP_387966.1" /db_xref="EnsemblGenomes-Gn:BSU00850" /db_xref="EnsemblGenomes-Tr:CAB11861" /db_xref="GOA:P37570" /db_xref="InterPro:IPR000749" /db_xref="InterPro:IPR014746" /db_xref="InterPro:IPR022414" /db_xref="InterPro:IPR022415" /db_xref="InterPro:IPR023660" /db_xref="SubtiList:BG10147" /db_xref="UniProtKB/Swiss-Prot:P37570" /translation="MSLKHFIQDALSSWMKQKGPESDIVLSSRIRLARNFEHIRFPTR YSNEEASSIIQQFEDQFSEQEIPGIGKFVLIRMNDAQPLEKRVLVEKHLISPNLTESP FGGCLLSENEEVSVMLNEEDHIRIQCLFPGFQLLEAMKAANQVDDWIEEKVDYAFNEQ RGYLTSCPTNVGTGLRASVMMHLPALVLTRQINRIIPAINQLGLVVRGIYGEGSEAVG NIFQISNQITLGKSEQDIVEDLNSVAAQLIEQERSAREAIYQTSKIELEDRVYRSYGV LSNCRMIESKETAKCLSDVRLGIDLGIIKGLSSNILNELMILTQPGFLQQYSGGALRP NERDIRRAALIRERLHLEMNGKRQEDESI*" gene 102484..103575 /gene="mcsB" /locus_tag="BSU_00850" /old_locus_tag="BSU00850" CDS 103572..106004 /gene="clpC" /locus_tag="BSU_00860" /old_locus_tag="BSU00860" /function="16.6: Maintain" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:12354604, 15529410, 16525504, 26735940, 27749819" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12354604, 15529410, 16525504, 26735940, 27749819; Product type f: factor" /codon_start=1 /transl_table=11 /product="class III stress response-related ATPase, AAA+ superfamily" /protein_id="NP_387967.1" /db_xref="EnsemblGenomes-Gn:BSU00860" /db_xref="EnsemblGenomes-Tr:CAB11862" /db_xref="GOA:P37571" /db_xref="InterPro:IPR001270" /db_xref="InterPro:IPR001943" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR003959" /db_xref="InterPro:IPR004176" /db_xref="InterPro:IPR018368" /db_xref="InterPro:IPR019489" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR028299" /db_xref="InterPro:IPR036628" /db_xref="PDB:2K77" /db_xref="PDB:2Y1Q" /db_xref="PDB:2Y1R" /db_xref="PDB:3J3R" /db_xref="PDB:3J3S" /db_xref="PDB:3J3T" /db_xref="PDB:3J3U" /db_xref="PDB:3PXG" /db_xref="PDB:3PXI" /db_xref="PDB:5HBN" /db_xref="SubtiList:BG10148" /db_xref="UniProtKB/Swiss-Prot:P37571" /translation="MMFGRFTERAQKVLALAQEEALRLGHNNIGTEHILLGLVREGEG IAAKALQALGLGSEKIQKEVESLIGRGQEMSQTIHYTPRAKKVIELSMDEARKLGHSY VGTEHILLGLIREGEGVAARVLNNLGVSLNKARQQVLQLLGSNETGSSAAGTNSNANT PTLDSLARDLTAIAKEDSLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIA EGLAQQIINNEVPEILRDKRVMTLDMGTVVAGTKYRGEFEDRLKKVMDEIRQAGNIIL FIDELHTLIGAGGAEGAIDASNILKPSLARGELQCIGATTLDEYRKYIEKDAALERRF QPIQVDQPSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAI DLIDEAGSKVRLRSFTTPPNLKELEQKLDEVRKEKDAAVQSQEFEKAASLRDTEQRLR EQVEDTKKSWKEKQGQENSEVTVDDIAMVVSSWTGVPVSKIAQTETDKLLNMENILHS RVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDE ESMIRIDMSEYMEKHSTSRLVGSPPGYVGYDEGGQLTEKVRRKPYSVVLLDEIEKAHP DVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNVGASELKRNKYVGFNVQDETQNH KDMKDKVMGELKRAFRPEFINRIDEIIVFHSLEKKHLTEIVSLMSDQLTKRLKEQDLS IELTDAAKAKVAEEGVDLEYGARPLRRAIQKHVEDRLSEELLRGNIHKGQHIVLDVED GEFVVKTTAKTN*" gene 103572..106004 /gene="clpC" /locus_tag="BSU_00860" /old_locus_tag="BSU00860" downshifts 105999 /Source="Nicolas_upshifts" /id="D38" /incds=0 /nref=57 /ntot=245 /MaxReadThrough="6.69446" /MaxDrop="4.4703" /score="-8.32149463" /energy="-11.7" /TU="U80,U81" /idTUdmin="U79" /TUdmin="-1" /isTUend="TRUE" CDS 106096..107472 /gene="radA" /locus_tag="BSU_00870" /old_locus_tag="BSU00870" /EC_number="2.1.1.63" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); PubMedId: 10931349, 11810266, 15317759, 25616256; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="DNA repair protein; 6-O-methylguanine-DNA methyltransferase" /protein_id="NP_387968.1" /db_xref="EnsemblGenomes-Gn:BSU00870" /db_xref="EnsemblGenomes-Tr:CAB11863" /db_xref="GOA:P37572" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR004504" /db_xref="InterPro:IPR014721" /db_xref="InterPro:IPR020568" /db_xref="InterPro:IPR020588" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG10149" /db_xref="UniProtKB/Swiss-Prot:P37572" /translation="MAKTKSKFICQSCGYESPKWMGKCPGCGAWNTMVEEMIKKAPAN RRAAFSHSVQTVQKPSPITSIETSEEPRVKTQLGEFNRVLGGGVVKGSLVLIGGDPGI GKSTLLLQVSAQLSGSSNSVLYISGEESVKQTKLRADRLGINNPSLHVLSETDMEYIS SAIQEMNPSFVVVDSIQTVYQSDITSAPGSVSQVRECTAELMKIAKTKGIPIFIVGHV TKEGSIAGPRLLEHMVDTVLYFEGERHHTFRILRAVKNRFGSTNEMGIFEMREEGLTE VLNPSEIFLEERSAGSAGSSITASMEGTRPILVEIQALISPTSFGNPRRMATGIDHNR VSLLMAVLEKRVGLLLQNQDAYLKVAGGVKLDEPAIDLAIVISIASSFRDTPPNPADC FIGEVGLTGEVRRVSRIEQRVKEAAKLGFKRMIIPAANLDGWTKPKGIEVIGVANVAE ALRTSLGG*" gene 106096..107472 /gene="radA" /locus_tag="BSU_00870" /old_locus_tag="BSU00870" promotor_-35 106551..106560 /Source="Nicolas_upshift_promotors" /id="U83" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1648 /SigmaFactorBS="ctcggcattaataatccgtcactgcatgttttatcTGAAACC GATatggagtatattTCGTCTGCTATACAAGagatgaatccatcgtttgtcgttgttg a" /listShort="disA, S45, yacL, ispD, ispF, gltX, S46, cysE, cysS, mrnC, rlmB, yacP" /listLong="sigH, S47, rpmGB, secE, S48, nusG, S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC, S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" /label="promotor_-35" promotor_-10 106573..106588 /Source="Nicolas_upshift_promotors" /id="U83" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1648 /SigmaFactorBS="ctcggcattaataatccgtcactgcatgttttatcTGAAACC GATatggagtatattTCGTCTGCTATACAAGagatgaatccatcgtttgtcgttgttg a" /listShort="disA, S45, yacL, ispD, ispF, gltX, S46, cysE, cysS, mrnC, rlmB, yacP" /listLong="sigH, S47, rpmGB, secE, S48, nusG, S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC, S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" /label="promotor_-10" upshifts 106576 /Source="Nicolas_upshifts" /id="U83" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1648 /SigmaFactorBS="ctcggcattaataatccgtcactgcatgttttatcTGAAACC GATatggagtatattTCGTCTGCTATACAAGagatgaatccatcgtttgtcgttgttg a" /listShort="disA, S45, yacL, ispD, ispF, gltX, S46, cysE, cysS, mrnC, rlmB, yacP" /listLong="sigH, S47, rpmGB, secE, S48, nusG, S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC, S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" CDS 107476..108558 /gene="disA" /locus_tag="BSU_00880" /old_locus_tag="BSU00880" /function="16.3: Control" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:16713562, 21566650, 24939848, 25616256, 27074767, 27150552, 28511132, 28961460" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16713562, 21566650, 24939848, 25616256, 27074767, 27150552, 28511132, 28961460; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="diadenylate cyclase; DNA integrity scanning protein; cell cycle checkpoint DNA scanning protein" /protein_id="NP_387969.1" /db_xref="EnsemblGenomes-Gn:BSU00880" /db_xref="EnsemblGenomes-Tr:CAB11864" /db_xref="GOA:P37573" /db_xref="InterPro:IPR003390" /db_xref="InterPro:IPR010994" /db_xref="InterPro:IPR018906" /db_xref="InterPro:IPR023763" /db_xref="InterPro:IPR036888" /db_xref="SubtiList:BG10150" /db_xref="UniProtKB/Swiss-Prot:P37573" /translation="MEKEKKGAKHELDLSSILQFVAPGTPLRAGMENVLRANTGGLIV VGYNDKVKEVVDGGFHINTAFSPAHLYELAKMDGAIILSDSGQKILYANTQLMPDATI SSSETGMRHRTAERVAKQTGCLVIAISERRNVITLYQENMKYTLKDIGFILTKANQAI QTLEKYKTILDKTINALNALEFEELVTFSDVLSVMHRYEMVLRIKNEINMYIKELGTE GHLIKLQVIELITDMEEEAALFIKDYVKEKIKDPFVLLKELQDMSSYDLLDDSIVYKL LGYPASTNLDDYVLPRGYRLLNKIPRLPMPIVENVVEAFGVLPRIIEASAEELDEVEG IGEVRAQKIKKGLKRLQEKHYLDRQL*" gene 107476..108558 /gene="disA" /locus_tag="BSU_00880" /old_locus_tag="BSU00880" S_feature 108559..108673 /Source="Nicolas_S_feature" /locus_tag="new_108559_108673" /HighExp="Etha, Salt, Heat, dia15, Diami, M9-stat, B60, T-0.40H, T-1.10H, HiTm" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigWXY, SigA, SigB" /TUshortPSig="1, 1, 1" /TUlongSig="SigA" /TUlongPSig="0.947" /label="S45" CDS 108674..109774 /gene="yacL" /locus_tag="BSU_00890" /old_locus_tag="BSU00890" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 26999498; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative membrane protein possibly involved in RNA binding" /protein_id="NP_387970.1" /db_xref="EnsemblGenomes-Gn:BSU00890" /db_xref="EnsemblGenomes-Tr:CAB11865" /db_xref="GOA:Q06754" /db_xref="InterPro:IPR002716" /db_xref="InterPro:IPR002792" /db_xref="InterPro:IPR029060" /db_xref="SubtiList:BG10151" /db_xref="UniProtKB/Swiss-Prot:Q06754" /translation="MLKRIVQAFFIIFGGVVGIFLIPELFVLLNIQDIPLITNAYTSA AIGAIIFFLISIWGTEYVVNWVKWIEDSLLKAPVPDLLFGSLGLVFGLIIAYLIVNVI PLDNIPYRIFSTIIPVFLAFFLGYLGFQVGFKKKDELISLFSISARMQKKKGTADEEH EVQDKKLKILDTSVIIDGRIADICQTGFLEGVIVIPQFVLEELQHIADSSDVLKRNRG RRGLDILNRIQKELDIEVEIYEGDFEDIQEVDSKLVKLAKLTSGVVVTNDFNLNKVCE LQKVAVLNINDLANAVKPVVLPGEEMNVQVIKDGKEHNQGVAYLDDGTMIVVEEGRNY IGKHIDVLVTSVLQTAAGRMIFAKPKLLEKAL*" gene 108674..109774 /gene="yacL" /locus_tag="BSU_00890" /old_locus_tag="BSU00890" downshifts complement(109596) /Source="Nicolas_upshifts" /id="D39" /incds=1 /nref=1 /ntot=103 /MaxReadThrough="0.39171" /MaxDrop="2.87304" /score="-9.71423487" /energy="-11.8" /TU="NA" /idTUdmin="U82" /TUdmin="-8228" /isTUend="FALSE" CDS 109789..110487 /gene="ispD" /locus_tag="BSU_00900" /old_locus_tag="BSU00900" /EC_number="2.7.7.60" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12682299, 15044829, 15379557, 16533036, 17081012, 17458547, 23840410, 27821871" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 15044829, 15379557, 16533036, 17081012, 17458547, 23840410, 27821871; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase, nonmevalonate isoprenoid pathway" /protein_id="NP_387971.1" /db_xref="EnsemblGenomes-Gn:BSU00900" /db_xref="EnsemblGenomes-Tr:CAB11866" /db_xref="GOA:Q06755" /db_xref="InterPro:IPR001228" /db_xref="InterPro:IPR018294" /db_xref="InterPro:IPR029044" /db_xref="InterPro:IPR034683" /db_xref="PDB:5DDT" /db_xref="PDB:5DDV" /db_xref="PDB:5HS2" /db_xref="SubtiList:BG10152" /db_xref="UniProtKB/Swiss-Prot:Q06755" /translation="MSYDVVIPAAGQGKRMKAGRNKLFIELKGDPVIIHTLRVFDSHR QCDKIILVINEQEREHFQQLLSDYPFQTSIELVAGGDERQHSVYKGLKAVKQEKIVLV HDGARPFIKHEQIDELIAEAEQTGAAILAVPVKDTIKRVQDLQVSETIERSSLWAVQT PQAFRLSLLMKAHAEAERKGFLGTDDASLVEQMEGGSVRVVEGSYTNIKLTTPDDLTS AEAIMESESGNKHV*" gene 109789..110487 /gene="ispD" /locus_tag="BSU_00900" /old_locus_tag="BSU00900" CDS 110480..110956 /gene="ispF" /locus_tag="BSU_00910" /old_locus_tag="BSU00910" /EC_number="4.6.1.12" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:9622350, 11997478, 12270818, 12682299, 17458547, 23840410" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9622350, 11997478, 12270818, 12682299, 17458547, 23840410; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase" /protein_id="NP_387972.1" /db_xref="EnsemblGenomes-Gn:BSU00910" /db_xref="EnsemblGenomes-Tr:CAB11867" /db_xref="GOA:Q06756" /db_xref="InterPro:IPR003526" /db_xref="InterPro:IPR020555" /db_xref="InterPro:IPR036571" /db_xref="PDB:5IWX" /db_xref="PDB:5IWY" /db_xref="SubtiList:BG10153" /db_xref="UniProtKB/Swiss-Prot:Q06756" /translation="MFRIGQGFDVHQLVEGRPLIIGGIEIPYEKGLLGHSDADVLLHT VADACLGAVGEGDIGKHFPDTDPEFKDADSFKLLQHVWGIVKQKGYVLGNIDCTIIAQ KPKMLPYIEDMRKRIAEGLEADVSQVNVKATTTEKLGFTGRAEGIAAQATVLIQKG*" gene 110480..110956 /gene="ispF" /locus_tag="BSU_00910" /old_locus_tag="BSU00910" promotor_-35 110960..110967 /Source="Nicolas_upshift_promotors" /id="U84" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.606393606393606" /psig="0.999000999001" /xcortree=2679 /SigmaFactorBS="cagtactgatacaaaaaggctaacttGTTTTGATgccgggtc tatttGGTGGTAGAATAGATTCATAcatttttgcctgaggccatacatgacatgaaag g" /listShort="gltX, S46, cysE, cysS, mrnC, rlmB, yacP, sigH, S47, rpmGB, secE, S48, nusG" /listLong="S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC, S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" /label="promotor_-35" promotor_-10 110981..111000 /Source="Nicolas_upshift_promotors" /id="U84" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.606393606393606" /psig="0.999000999001" /xcortree=2679 /SigmaFactorBS="cagtactgatacaaaaaggctaacttGTTTTGATgccgggtc tatttGGTGGTAGAATAGATTCATAcatttttgcctgaggccatacatgacatgaaag g" /listShort="gltX, S46, cysE, cysS, mrnC, rlmB, yacP, sigH, S47, rpmGB, secE, S48, nusG" /listLong="S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC, S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" /label="promotor_-10" upshifts 110994 /Source="Nicolas_upshifts" /id="U84" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.606393606393606" /psig="0.999000999001" /xcortree=2679 /SigmaFactorBS="cagtactgatacaaaaaggctaacttGTTTTGATgccgggtc tatttGGTGGTAGAATAGATTCATAcatttttgcctgaggccatacatgacatgaaag g" /listShort="gltX, S46, cysE, cysS, mrnC, rlmB, yacP, sigH, S47, rpmGB, secE, S48, nusG" /listLong="S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC, S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" CDS 111047..112498 /gene="gltX" /locus_tag="BSU_00920" /old_locus_tag="BSU00920" /EC_number="6.1.1.24" /EC_number="6.1.1.17" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:2120226, 3079749, 9342321, 10024179, 10546897, 12682299, 14741355" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 2120226, 3079749, 9342321, 10024179, 10546897, 12682299, 14741355; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="glutamyl-tRNA synthetase" /protein_id="NP_387973.1" /db_xref="EnsemblGenomes-Gn:BSU00920" /db_xref="EnsemblGenomes-Tr:CAB11868" /db_xref="GOA:P22250" /db_xref="InterPro:IPR000924" /db_xref="InterPro:IPR001412" /db_xref="InterPro:IPR004527" /db_xref="InterPro:IPR008925" /db_xref="InterPro:IPR014729" /db_xref="InterPro:IPR020058" /db_xref="InterPro:IPR020061" /db_xref="InterPro:IPR020751" /db_xref="InterPro:IPR020752" /db_xref="InterPro:IPR033910" /db_xref="SubtiList:BG10154" /db_xref="UniProtKB/Swiss-Prot:P22250" /translation="MGNEVRVRYAPSPTGHLHIGNARTALFNYLFARNQGGKFIIRVE DTDKKRNIEGGEQSQLNYLKWLGIDWDESVDVGGEYGPYRQSERNDIYKVYYEELLEK GLAYKCYCTEEELEKEREEQIARGEMPRYSGKHRDLTQEEQEKFIAEGRKPSIRFRVP EGKVIAFNDIVKGEISFESDGIGDFVIVKKDGTPTYNFAVAIDDYLMKMTHVLRGEDH ISNTPKQIMIYQAFGWDIPQFGHMTLIVNESRKKLSKRDESIIQFIEQYKELGYLPEA LFNFIGLLGWSPVGEEELFTKEQFIEIFDVNRLSKSPALFDMHKLKWVNNQYVKKLDL DQVVELTLPHLQKAGKVGTELSAEEQEWVRKLISLYHEQLSYGAEIVELTDLFFTDEI EYNQEAKAVLEEEQVPEVLSTFAAKLEELEEFTPDNIKASIKAVQKETGHKGKKLFMP IRVAVTGQTHGPELPQSIELIGKETAIQRLKNI*" gene 111047..112498 /gene="gltX" /locus_tag="BSU_00920" /old_locus_tag="BSU00920" promotor_-35 111976..111985 /Source="Nicolas_upshift_promotors" /id="U85" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1307 /SigmaFactorBS="agcagtttattgaaatttttgatgtaaatcgtttatcTAAAT CACCAgctttgtttgataTGCATAAGCTAAAATGGGTTaacaaccaatatgtgaagaa g" /listShort="S46, cysE, cysS, mrnC, rlmB, yacP" /listLong="sigH, S47, rpmGB, secE, S48, nusG, S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA" /label="promotor_-35" promotor_-10 111999..112018 /Source="Nicolas_upshift_promotors" /id="U85" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1307 /SigmaFactorBS="agcagtttattgaaatttttgatgtaaatcgtttatcTAAAT CACCAgctttgtttgataTGCATAAGCTAAAATGGGTTaacaaccaatatgtgaagaa g" /listShort="S46, cysE, cysS, mrnC, rlmB, yacP" /listLong="sigH, S47, rpmGB, secE, S48, nusG, S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA" /label="promotor_-10" upshifts 111999 /Source="Nicolas_upshifts" /id="U85" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1307 /SigmaFactorBS="agcagtttattgaaatttttgatgtaaatcgtttatcTAAAT CACCAgctttgtttgataTGCATAAGCTAAAATGGGTTaacaaccaatatgtgaagaa g" /listShort="S46, cysE, cysS, mrnC, rlmB, yacP" /listLong="sigH, S47, rpmGB, secE, S48, nusG, S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA" S_feature 112499..112799 /Source="Nicolas_S_feature" /locus_tag="new_112499_112799" /HighExp="S6, S8, S7, Diami, C90, LBGexp, G135, H2O2, dia5, HiTm" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.17844199999999999" /TUshortSig="SigK, SigA, SigWXY" /TUshortPSig="1, 0.999, 1" /TUlongSig="SigA, SigB, SigA" /TUlongPSig="1, 1, 0.947" /label="S46" CDS 112800..113453 /gene="cysE" /locus_tag="BSU_00930" /old_locus_tag="BSU00930" /EC_number="2.3.1.30" /function="16.2: Construct biomass (Anabolism)" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:7510287, 10737181, 10939241, 17056751, 18974048, 25731080" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7510287, 10737181, 10939241, 17056751, 18974048, 25731080; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="serine O-acetyltransferase" /protein_id="NP_387974.1" /db_xref="EnsemblGenomes-Gn:BSU00930" /db_xref="EnsemblGenomes-Tr:CAB11869" /db_xref="GOA:Q06750" /db_xref="InterPro:IPR001451" /db_xref="InterPro:IPR005881" /db_xref="InterPro:IPR010493" /db_xref="InterPro:IPR011004" /db_xref="InterPro:IPR018357" /db_xref="SubtiList:BG10155" /db_xref="UniProtKB/Swiss-Prot:Q06750" /translation="MFFRMLKEDIDTVFDQDPAARSYFEVILTYSGLHAIWAHRIAHA LYKRKFYFLARLISQVSRFFTGIEIHPGATIGRRFFIDHGMGVVIGETCEIGNNVTVF QGVTLGGTGKEKGKRHPTIKDDALIATGAKVLGSITVGEGSKIGAGSVVLHDVPDFST VVGIPGRVVVQNGKKVRRDLNHQDLPDPVADRFKSLEQQILELKAELEDRKERINQK* " gene 112800..113453 /gene="cysE" /locus_tag="BSU_00930" /old_locus_tag="BSU00930" CDS 113450..114850 /gene="cysS" /locus_tag="BSU_00940" /old_locus_tag="BSU00940" /EC_number="6.1.1.16" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:10024179, 10546897, 10931887, 12682299, 29079736" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10024179, 10546897, 10931887, 12682299, 29079736; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="dual cysteinyl-tRNA synthetase; cysteine persulfide synthase" /protein_id="NP_387975.1" /db_xref="EnsemblGenomes-Gn:BSU00940" /db_xref="EnsemblGenomes-Tr:CAB11870" /db_xref="GOA:Q06752" /db_xref="InterPro:IPR009080" /db_xref="InterPro:IPR014729" /db_xref="InterPro:IPR015273" /db_xref="InterPro:IPR015803" /db_xref="InterPro:IPR024909" /db_xref="InterPro:IPR032678" /db_xref="SubtiList:BG10156" /db_xref="UniProtKB/Swiss-Prot:Q06752" /translation="MTITLYNTLTRQKETFVPLEEGKVKMYVCGPTVYNYIHIGNARP AIVYDTVRNYLEYKGYDVQYVSNFTDVDDKLIKAANELGEDVPTISERFIKAYFEDVG ALGCRKADLHPRVMENMDAIIEFVDQLVKKGYAYESEGDVYFKTRAFEGYGKLSQQSI DELRSGARIRVGEKKEDALDFALWKAAKEGEISWDSPWGKGRPGWHIECSAMVKKYLG DQIDIHAGGQDLTFPHHENEIAQSEALTGKTFAKYWLHNGYINIDNEKMSKSLGNFVL VHDIIKQHDPQLLRFFMLSVHYRHPINYSEELLENTKSAFSRLKTAYSNLQHRLNSST NLTEDDDQWLEKVEEHRKAFEEEMDDDFNTANAISVLFDLAKHANYYLQKDHTADHVI TAFIEMFDRIVSVLGFSLGEQELLDQEIEDLIEKRNEARRNRDFALSDQIRDQLKSMN IILEDTAQGTRWKRGE*" gene 113450..114850 /gene="cysS" /locus_tag="BSU_00940" /old_locus_tag="BSU00940" CDS 114854..115285 /gene="mrnC" /locus_tag="BSU_00950" /old_locus_tag="BSU00950" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:16014871, 25634891, 27924926" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16014871, 25634891, 27924926; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="ribonuclease for 23S RNA maturation, mini-RNase III" /protein_id="NP_387976.1" /db_xref="EnsemblGenomes-Gn:BSU00950" /db_xref="EnsemblGenomes-Tr:CAB11871" /db_xref="GOA:O31418" /db_xref="InterPro:IPR000999" /db_xref="InterPro:IPR008226" /db_xref="InterPro:IPR036389" /db_xref="PDB:4OUN" /db_xref="SubtiList:BG12702" /db_xref="UniProtKB/Swiss-Prot:O31418" /translation="MLEFDTIKDSKQLNGLALAYIGDAIFEVYVRHHLLKQGFTKPND LHKKSSRIVSAKSQAEILFFLQNQSFFTEEEEAVLKRGRNAKSGTTPKNTDVQTYRYS TAFEALLGYLFLEKKEERLSQLVAEAIQFGTSGRKTNESAT*" gene 114854..115285 /gene="mrnC" /locus_tag="BSU_00950" /old_locus_tag="BSU00950" CDS 115269..116018 /gene="rlmB" /locus_tag="BSU_00960" /old_locus_tag="BSU00960" /EC_number="2.1.1.185" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 11698387, 12377117, 16014871; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="23S rRNA (Gm2251)-methyltransferase" /protein_id="NP_387977.1" /db_xref="EnsemblGenomes-Gn:BSU00960" /db_xref="EnsemblGenomes-Tr:CAB11872" /db_xref="GOA:Q06753" /db_xref="InterPro:IPR001537" /db_xref="InterPro:IPR004441" /db_xref="InterPro:IPR013123" /db_xref="InterPro:IPR029026" /db_xref="InterPro:IPR029028" /db_xref="InterPro:IPR029064" /db_xref="SubtiList:BG10157" /db_xref="UniProtKB/Swiss-Prot:Q06753" /translation="MSQQHDYVIGKNAVIETLKSDRKLYKLWMAENTVKGQAQQVIEL AKKQGITIQYVPRKKLDQMVTGQHQGVVAQVAAYEYAELDDLYKAAEEKNEQPFFLIL DELEDPHNLGSIMRTADAVGAHGIVIPKRRAVGLTTTVAKASTGAIEHIPVARVTNLA RTLEEMKERGIWVVGTDASAREDFRNMDGNMPLALVIGSEGKGMGRLVKEKCDFLIKL PMAGKVTSLNASVAAGLLMYEVYRKRNPVGE*" gene 115269..116018 /gene="rlmB" /locus_tag="BSU_00960" /old_locus_tag="BSU00960" CDS 116025..116537 /gene="raeA" /locus_tag="BSU_00970" /old_locus_tag="BSU00970" /function="16.11: Scavenge (Catabolism)" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:17114934, 23355615, 28363943" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 17114934, 23355615, 28363943; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="ribosome-dependent mRNA endonuclease" /protein_id="NP_387978.1" /db_xref="EnsemblGenomes-Gn:BSU00970" /db_xref="EnsemblGenomes-Tr:CAB11873" /db_xref="InterPro:IPR010298" /db_xref="PDB:5MQ8" /db_xref="PDB:5MQ9" /db_xref="SubtiList:BG10158" /db_xref="UniProtKB/Swiss-Prot:P37574" /translation="MDILLVDGYNMIGAWPQLKDLKANSFEEARDVLIQKMAEYQSYT GNRVIVVFDAHLVKGLEKKQTNHRVEVIFTKENETADERIEKLAQALNNIATQIHVAT SDYTEQWAIFGQGALRKSARELLREVETIERRIERRVRKITSEKPAGKIALSEEVLKT FEKWRRGDLD*" gene 116025..116537 /gene="raeA" /locus_tag="BSU_00970" /old_locus_tag="BSU00970" promotor_-35 116536..116543 /Source="Nicolas_upshift_promotors" /id="U86" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.71028971028971" /psig=1 /xcortree=3212 /SigmaFactorBS="aaacgtttgaaaagtggaggcggggagacttagattAAGTTG ACgcttttttgcccaaTACTGTATAATATTTCTATCtacgtgcgccggggggatcgga g" /listShort="sigH, S47, rpmGB, secE, S48, nusG" /listLong="S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC, S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" /label="promotor_-35" promotor_-10 116558..116577 /Source="Nicolas_upshift_promotors" /id="U86" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.71028971028971" /psig=1 /xcortree=3212 /SigmaFactorBS="aaacgtttgaaaagtggaggcggggagacttagattAAGTTG ACgcttttttgcccaaTACTGTATAATATTTCTATCtacgtgcgccggggggatcgga g" /listShort="sigH, S47, rpmGB, secE, S48, nusG" /listLong="S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC, S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" /label="promotor_-10" upshifts 116560 /Source="Nicolas_upshifts" /id="U86" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.71028971028971" /psig=1 /xcortree=3212 /SigmaFactorBS="aaacgtttgaaaagtggaggcggggagacttagattAAGTTG ACgcttttttgcccaaTACTGTATAATATTTCTATCtacgtgcgccggggggatcgga g" /listShort="sigH, S47, rpmGB, secE, S48, nusG" /listLong="S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC, S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" CDS 116600..117256 /gene="sigH" /locus_tag="BSU_00980" /old_locus_tag="BSU00980" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:12169614, 16339734, 25288929, 26712348" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12169614, 16339734, 25288929, 26712348; Product type f: factor" /codon_start=1 /transl_table=11 /product="RNA polymerase sigma-30 factor (sigma(H))" /protein_id="NP_387979.1" /db_xref="EnsemblGenomes-Gn:BSU00980" /db_xref="EnsemblGenomes-Tr:CAB11874" /db_xref="GOA:P17869" /db_xref="InterPro:IPR000792" /db_xref="InterPro:IPR000943" /db_xref="InterPro:IPR007627" /db_xref="InterPro:IPR013249" /db_xref="InterPro:IPR013324" /db_xref="InterPro:IPR013325" /db_xref="InterPro:IPR014218" /db_xref="InterPro:IPR014284" /db_xref="InterPro:IPR016371" /db_xref="InterPro:IPR036388" /db_xref="SubtiList:BG10159" /db_xref="UniProtKB/Swiss-Prot:P17869" /translation="MNLQNNKGKFNKEQFCQLEDEQVIEKVHVGDSDALDYLITKYRN FVRAKARSYFLIGADREDIVQEGMIGLYKSIRDFKEDKLTSFKAFAELCITRQIITAI KTATRQKHIPLNSYASLDKPIFDEESDRTLLDVISGAKTLNPEEMIINQEEFDDIEMK MGELLSDLERKVLVLYLDGRSYQEISDELNRHVKSIDNALQRVKRKLEKYLEIREISL *" gene 116600..117256 /gene="sigH" /locus_tag="BSU_00980" /old_locus_tag="BSU00980" downshifts complement(117054) /Source="Nicolas_upshifts" /id="D40" /incds=1 /nref=1 /ntot=107 /MaxReadThrough="2.38622" /MaxDrop="2.50464" /score="-2.56993398" /energy="-10.3" /TU="NA" /idTUdmin="U87" /TUdmin=836 /isTUend="FALSE" S_feature 117257..117348 /Source="Nicolas_S_feature" /locus_tag="new_117257_117348" /HighExp="T4.0H, T3.30H, T3.0H, T2.30H, S1, S2, T5.0H, HiOs, T2.0H, T1.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="1, 0.999" /TUlongSig="SigK, SigWXY, SigA, SigB, SigA" /TUlongPSig="1, 1, 1, 1, 0.947" /label="S47" CDS 117349..117498 /gene="rpmGB" /locus_tag="BSU_00990" /old_locus_tag="BSU00990" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12682299, 14586115, 19648245, 23002217, 27561249" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 14586115, 19648245, 23002217, 27561249; Product type f: factor" /codon_start=1 /transl_table=11 /product="ribosomal protein L33" /protein_id="NP_387980.1" /db_xref="EnsemblGenomes-Gn:BSU00990" /db_xref="EnsemblGenomes-Tr:CAB11875" /db_xref="GOA:Q06798" /db_xref="InterPro:IPR001705" /db_xref="InterPro:IPR011332" /db_xref="InterPro:IPR018264" /db_xref="SubtiList:BG10160" /db_xref="UniProtKB/Swiss-Prot:Q06798" /translation="MRKKITLACKTCGNRNYTTMKSSASAAERLEVKKYCSTCNSHTA HLETK*" gene 117349..117498 /gene="rpmGB" /locus_tag="BSU_00990" /old_locus_tag="BSU00990" CDS 117532..117711 /gene="secE" /locus_tag="BSU_01000" /old_locus_tag="BSU01000" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:11976315, 12682299, 16242710, 22304380, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11976315, 12682299, 16242710, 22304380, 22720735; Product type t : transporter" /codon_start=1 /transl_table=11 /product="preprotein translocase subunit" /protein_id="NP_387981.1" /db_xref="EnsemblGenomes-Gn:BSU01000" /db_xref="EnsemblGenomes-Tr:CAB11876" /db_xref="GOA:Q06799" /db_xref="InterPro:IPR001901" /db_xref="InterPro:IPR005807" /db_xref="InterPro:IPR022943" /db_xref="SubtiList:BG10161" /db_xref="UniProtKB/Swiss-Prot:Q06799" /translation="MRIMKFFKDVGKEMKKVSWPKGKELTRYTITVISTVIFFVIFFA LLDTGISQLIRLIVE*" gene 117532..117711 /gene="secE" /locus_tag="BSU_01000" /old_locus_tag="BSU01000" S_feature 117712..117889 /Source="Nicolas_S_feature" /locus_tag="new_117712_117889" /HighExp="Cold, G180, G150, H2O2, LoTm, Oxctl, G135, Paraq, LBGexp, Lbexp" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="1, 0.999" /TUlongSig="SigK, SigWXY, SigA, SigB, SigA" /TUlongPSig="1, 1, 1, 1, 0.947" /label="S48" downshifts complement(117883) /Source="Nicolas_upshifts" /id="D41" /incds=0 /nref=37 /ntot=175 /MaxReadThrough="1.57397" /MaxDrop="4.03552" /score="-2.56993398" /energy="-10.3" /TU="NA" /idTUdmin="U87" /TUdmin=7 /isTUend="TRUE" CDS 117890..118423 /gene="nusG" /locus_tag="BSU_01010" /old_locus_tag="BSU01010" /function="16.3: Control" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:11101662, 16014871, 16707701, 18852477, 26742846, 28507243" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11101662, 16014871, 16707701, 18852477, 26742846, 28507243; Product type f : factor" /codon_start=1 /transl_table=11 /product="RNA polymerase elongation pause factor" /protein_id="NP_387982.1" /db_xref="EnsemblGenomes-Gn:BSU01010" /db_xref="EnsemblGenomes-Tr:CAB11877" /db_xref="GOA:Q06795" /db_xref="InterPro:IPR001062" /db_xref="InterPro:IPR005824" /db_xref="InterPro:IPR006645" /db_xref="InterPro:IPR008991" /db_xref="InterPro:IPR014722" /db_xref="InterPro:IPR015869" /db_xref="InterPro:IPR036735" /db_xref="SubtiList:BG10162" /db_xref="UniProtKB/Swiss-Prot:Q06795" /translation="MEKNWYVVHTYSGYENKVKANLEKRVESMGMQDKIFRVVVPEEE ETDIKNGKKKVVKKKVFPGYVLVEIVMTDDSWYVVRNTPGVTGFVGSAGSGSKPTPLL PGEAETILKRMGMDERKTDIDFELKETVKVIDGPFANFTGSIEEIDYDKSKVKVFVNM FGRETPVELEFTQIDKL*" gene 117890..118423 /gene="nusG" /locus_tag="BSU_01010" /old_locus_tag="BSU01010" upshifts complement(117978) /Source="Nicolas_upshifts" /id="U87" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.98001998001998" /psig="0.002997002997003" /xcortree=29 /SigmaFactorBS="tttttgatatccgtttcttcttcttcgggtacgACTACAcgg aaaattttatcCTGCAtccccattgattcaacacgcttttccaagttggcttttactt t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 complement(117981..117985) /Source="Nicolas_upshift_promotors" /id="U87" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.98001998001998" /psig="0.002997002997003" /xcortree=29 /SigmaFactorBS="tttttgatatccgtttcttcttcttcgggtacgACTACAcgg aaaattttatcCTGCAtccccattgattcaacacgcttttccaagttggcttttactt t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(118000..118005) /Source="Nicolas_upshift_promotors" /id="U87" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.98001998001998" /psig="0.002997002997003" /xcortree=29 /SigmaFactorBS="tttttgatatccgtttcttcttcttcgggtacgACTACAcgg aaaattttatcCTGCAtccccattgattcaacacgcttttccaagttggcttttactt t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 118434..118441 /Source="Nicolas_upshift_promotors" /id="U88" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.787212787212787" /psig=1 /xcortree=2652 /SigmaFactorBS="agctggaatttacccaaatcgataaattgtaatgtgaaaaaa CTTGAAATtgctatatataaaTGATAATATAGCAAAGGTACgtcttggacttatccaa g" /listShort="S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC" /listLong="S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" /label="promotor_-35" S_feature 118452..118590 /Source="Nicolas_S_feature" /locus_tag="new_118452_118590" /HighExp="T-1.40H, ferm, T-3.40H, T-5.40H, BI, B36, LoTm, SMM, T-2.40H, nit" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="SigA, SigK, SigA, SigWXY, SigA, SigB, SigA" /TUlongPSig="1, 1, 0.999, 1, 1, 1, 0.947" /label="S49" upshifts 118452 /Source="Nicolas_upshifts" /id="U88" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.787212787212787" /psig=1 /xcortree=2652 /SigmaFactorBS="agctggaatttacccaaatcgataaattgtaatgtgaaaaaa CTTGAAATtgctatatataaaTGATAATATAGCAAAGGTACgtcttggacttatccaa g" /listShort="S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC" /listLong="S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" promotor_-10 118455..118474 /Source="Nicolas_upshift_promotors" /id="U88" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.787212787212787" /psig=1 /xcortree=2652 /SigmaFactorBS="agctggaatttacccaaatcgataaattgtaatgtgaaaaaa CTTGAAATtgctatatataaaTGATAATATAGCAAAGGTACgtcttggacttatccaa g" /listShort="S49, rplK, S50, rplA, NA, rplJ, rplL, ybxB, S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC" /listLong="S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" /label="promotor_-10" CDS 118591..119016 /gene="rplK" /locus_tag="BSU_01020" /old_locus_tag="BSU01020" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:11244072, 19653700, 20441189" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11244072, 19653700, 20441189; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein L11 (BL11)" /protein_id="NP_387983.2" /db_xref="EnsemblGenomes-Gn:BSU01020" /db_xref="EnsemblGenomes-Tr:CAB11878" /db_xref="GOA:Q06796" /db_xref="InterPro:IPR000911" /db_xref="InterPro:IPR006519" /db_xref="InterPro:IPR020783" /db_xref="InterPro:IPR020784" /db_xref="InterPro:IPR020785" /db_xref="InterPro:IPR036769" /db_xref="InterPro:IPR036796" /db_xref="PDB:3J3V" /db_xref="PDB:3J3W" /db_xref="PDB:3J9W" /db_xref="SubtiList:BG10163" /db_xref="UniProtKB/Swiss-Prot:Q06796" /translation="MAKKVVKVVKLQIPAGKANPAPPVGPALGQAGVNIMGFCKEFNA RTADQAGLIIPVEISVYEDRSFTFITKTPPAAVLLKKAAGIESGSGEPNRNKVATVKR DKVREIAETKMPDLNAADVEAAMRMVEGTARSMGIVIED*" gene 118591..119016 /gene="rplK" /locus_tag="BSU_01020" /old_locus_tag="BSU01020" S_feature 119017..119110 /Source="Nicolas_S_feature" /locus_tag="new_119017_119110" /HighExp="HPh, LPh, Lbexp, G180, LBGexp, G150, Heat, Cold, Fru, Oxctl" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="SigA, SigK, SigA, SigWXY, SigA, SigB, SigA" /TUlongPSig="1, 1, 0.999, 1, 1, 1, 0.947" /label="S50" CDS 119111..119809 /gene="rplA" /locus_tag="BSU_01030" /old_locus_tag="BSU01030" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12682299, 16352840, 17981968, 22720735; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein L1 (BL1)" /protein_id="NP_387984.2" /db_xref="EnsemblGenomes-Gn:BSU01030" /db_xref="EnsemblGenomes-Tr:CAB11879" /db_xref="GOA:Q06797" /db_xref="InterPro:IPR002143" /db_xref="InterPro:IPR005878" /db_xref="InterPro:IPR016095" /db_xref="InterPro:IPR023673" /db_xref="InterPro:IPR023674" /db_xref="InterPro:IPR028364" /db_xref="PDB:3J3V" /db_xref="PDB:3J3W" /db_xref="SubtiList:BG10164" /db_xref="UniProtKB/Swiss-Prot:Q06797" /translation="MAKKGKKYVEAAKLVDRSKAYDVSEAVALVKKTNTAKFDATVEV AFRLGVDPRKNDQQIRGAVVLPNGTGKTQRVLVFAKGEKAKEAEAAGADFVGDTDYIN KIQQGWFDFDVIVATPDMMGEVGKIGRVLGPKGLMPNPKTGTVTFEVEKAIGEIKAGK VEYRVDKAGNIHVPIGKVSFEDEKLVENFTTMYDTILKAKPAAAKGVYVKNVAVTSTM GPGVKVDSSTFNVK*" gene 119111..119809 /gene="rplA" /locus_tag="BSU_01030" /old_locus_tag="BSU01030" downshifts complement(119783) /Source="Nicolas_upshifts" /id="D42" /incds=0 /nref=3 /ntot=95 /MaxReadThrough="3.54108" /MaxDrop="3.36566" /score="-2.56993398" /energy="-10.3" /TU="NA" /idTUdmin="U89" /TUdmin=0 /isTUend="TRUE" misc_RNA 119855..119995 /gene="ldlJ" /locus_tag="BSU_misc_RNA_3" /product="L10_leader" /experiment="publication(s) with functional evidences, PMID:26101249" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 26101249; Product type n: RNA" gene 119855..119995 /gene="ldlJ" /locus_tag="BSU_misc_RNA_3" upshifts complement(119871) /Source="Nicolas_upshifts" /id="U89" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.603396603396603" /psig="0.248751248751249" /xcortree=60 /SigmaFactorBS="gctgtgataatatacacctcggtaggataattaagcggttag gcccctactgtCTACGgtataaatgatattctattttacaacattttgaataatatca g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" misc_feature complement(119874..119878) /Source="Nicolas_upshift_promotors" /id="U89" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.603396603396603" /psig="0.248751248751249" /xcortree=60 /SigmaFactorBS="gctgtgataatatacacctcggtaggataattaagcggttag gcccctactgtCTACGgtataaatgatattctattttacaacattttgaataatatca g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" downshifts 119927 /Source="Nicolas_upshifts" /id="D43" /incds=1 /nref=1 /ntot=19 /MaxReadThrough="9.14839" /MaxDrop="2.9211" /score="20.0562348" /energy="-13.2" /TU="U88" /idTUdmin="U84" /TUdmin=1497 /isTUend="FALSE" CDS 120061..120561 /gene="rplJ" /locus_tag="BSU_01040" /old_locus_tag="BSU01040" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:9810686, 11341315, 12682299, 18247578, 26101249, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9810686, 11341315, 12682299, 18247578, 26101249, 22720735; Product type s : structure" /codon_start=1 /transl_table=11 /product="ribosomal protein L10 (BL5)" /protein_id="NP_387985.2" /db_xref="EnsemblGenomes-Gn:BSU01040" /db_xref="EnsemblGenomes-Tr:CAB11880" /db_xref="GOA:P42923" /db_xref="InterPro:IPR001790" /db_xref="InterPro:IPR002363" /db_xref="InterPro:IPR022973" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG11220" /db_xref="UniProtKB/Swiss-Prot:P42923" /translation="MSSAIETKKVVVEEIASKLKESKSTIIVDYRGLNVSEVTELRKQ LREANVEFKVYKNTMTRRAVEQAELNGLNDFLTGPNAIAFSTEDVVAPAKVLNDFAKN HEALEIKAGVIEGKVSTVEEVKALAELPSREGLLSMLLSVLQAPVRNLALAAKAVAEQ KEEQGA*" gene 120061..120561 /gene="rplJ" /locus_tag="BSU_01040" /old_locus_tag="BSU01040" CDS 120607..120978 /gene="rplL" /locus_tag="BSU_01050" /old_locus_tag="BSU01050" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12682299, 6771249, 8755892, 26101249" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 6771249, 8755892, 26101249; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein L12 (BL9)" /protein_id="NP_387986.1" /db_xref="EnsemblGenomes-Gn:BSU01050" /db_xref="EnsemblGenomes-Tr:CAB11881" /db_xref="GOA:P02394" /db_xref="InterPro:IPR000206" /db_xref="InterPro:IPR008932" /db_xref="InterPro:IPR013823" /db_xref="InterPro:IPR014719" /db_xref="InterPro:IPR036235" /db_xref="SubtiList:BG10726" /db_xref="UniProtKB/Swiss-Prot:P02394" /translation="MALNIEEIIASVKEATVLELNDLVKAIEEEFGVTAAAPVAVAGG AAAGGAAEEQSEFDLILAGAGSQKIKVIKVVREITGLGLKEAKELVDNTPKPLKEGIA KEEAEELKAKLEEVGASVEVK*" gene 120607..120978 /gene="rplL" /locus_tag="BSU_01050" /old_locus_tag="BSU01050" downshifts 120894 /Source="Nicolas_upshifts" /id="D44" /incds=1 /nref=5 /ntot=149 /MaxReadThrough="8.89506" /MaxDrop="4.0945" /score="20.6066659" /energy="-11.7" /TU="U88" /idTUdmin="U84" /TUdmin=2464 /isTUend="FALSE" downshifts 120967 /Source="Nicolas_upshifts" /id="D45" /incds=0 /nref=25 /ntot=157 /MaxReadThrough="7.44654" /MaxDrop="4.0033" /score="20.6066659" /energy="-11.7" /TU="U88" /idTUdmin="U84" /TUdmin=2537 /isTUend="FALSE" CDS 121068..121673 /gene="rlmG" /locus_tag="BSU_01060" /old_locus_tag="BSU01060" /EC_number="2.1.1.174" /function="16.6: Maintain" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 17010380; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="23S rRNA m2G1835 methyltransferase" /protein_id="NP_387987.1" /db_xref="EnsemblGenomes-Gn:BSU01060" /db_xref="EnsemblGenomes-Tr:CAB11882" /db_xref="GOA:P37872" /db_xref="InterPro:IPR007848" /db_xref="InterPro:IPR029063" /db_xref="SubtiList:BG10727" /db_xref="UniProtKB/Swiss-Prot:P37872" /translation="MSEHYYSEKPSVKSNKQTWSFRLRNKDFTFTSDSGVFSKKEVDF GSRLLIDSFEEPEVEGGILDVGCGYGPIGLSLASDFKDRTIHMIDVNERAVELSNENA EQNGITNVKIYQSDLFSNVDSAQTFASILTNPPIRAGKKVVHAIFEKSAEHLKASGEL WIVIQKKQGAPSAIEKLEELFDEVSVVQKKKGYYIIKAKKV*" gene 121068..121673 /gene="rlmG" /locus_tag="BSU_01060" /old_locus_tag="BSU01060" promotor_-35 121668..121672 /Source="Nicolas_upshift_promotors" /id="U90" /multdbtbs="SigA" /comp="M16" /sig="SigA" /pcomp="0.586413586413586" /psig="0.997002997002997" /xcortree=2493 /SigmaFactorBS="gttcaaaaaaagaaaggctattatatcataaaagcaaaaaaa GTTTGactcggtattttaacTATGTTAATATTGTAAAATGccaatgtatatattttgc t" /listShort="S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC" /listLong="S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" /label="promotor_-35" S_feature 121686..121918 /Source="Nicolas_S_feature" /locus_tag="new_121686_121918" /HighExp="G180, G150, H2O2, G135, Cold, T-5.40H, LoTm, T-3.40H, Oxctl, Salt" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.997, 1" /TUlongSig="SigA, SigK, SigA, SigWXY, SigA, SigB, SigA" /TUlongPSig="1, 1, 0.999, 1, 1, 1, 0.947" /label="S51" upshifts 121686 /Source="Nicolas_upshifts" /id="U90" /multdbtbs="SigA" /comp="M16" /sig="SigA" /pcomp="0.586413586413586" /psig="0.997002997002997" /xcortree=2493 /SigmaFactorBS="gttcaaaaaaagaaaggctattatatcataaaagcaaaaaaa GTTTGactcggtattttaacTATGTTAATATTGTAAAATGccaatgtatatattttgc t" /listShort="S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC" /listLong="S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" promotor_-10 121688..121707 /Source="Nicolas_upshift_promotors" /id="U90" /multdbtbs="SigA" /comp="M16" /sig="SigA" /pcomp="0.586413586413586" /psig="0.997002997002997" /xcortree=2493 /SigmaFactorBS="gttcaaaaaaagaaaggctattatatcataaaagcaaaaaaa GTTTGactcggtattttaacTATGTTAATATTGTAAAATGccaatgtatatattttgc t" /listShort="S51, rpoB, rpoC, S52, rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC" /listLong="S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" /label="promotor_-10" CDS 121919..125500 /gene="rpoB" /locus_tag="BSU_01070" /old_locus_tag="BSU01070" /EC_number="2.7.7.6" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:10049799, 10744988, 12455702, 12682299, 15060052, 28163698" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10049799, 10744988, 12455702, 12682299, 15060052, 28163698; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="RNA polymerase (beta subunit)" /protein_id="NP_387988.2" /db_xref="EnsemblGenomes-Gn:BSU01070" /db_xref="EnsemblGenomes-Tr:CAB11883" /db_xref="GOA:P37870" /db_xref="InterPro:IPR007120" /db_xref="InterPro:IPR007121" /db_xref="InterPro:IPR007641" /db_xref="InterPro:IPR007642" /db_xref="InterPro:IPR007644" /db_xref="InterPro:IPR007645" /db_xref="InterPro:IPR010243" /db_xref="InterPro:IPR015712" /db_xref="InterPro:IPR019462" /db_xref="PDB:2LY7" /db_xref="SubtiList:BG10728" /db_xref="UniProtKB/Swiss-Prot:P37870" /translation="MTGQLVQYGRHRQRRSYARISEVLELPNLIEIQTSSYQWFLDEG LREMFQDISPIEDFTGNLSLEFIDYSLGEPKYPVEESKERDVTYSAPLRVKVRLINKE TGEVKDQDVFMGDFPIMTDTGTFIINGAERVIVSQLVRSPSVYFSGKVDKNGKKGFTA TVIPNRGAWLEYETDAKDVVYVRIDRTRKLPVTVLLRALGFGSDQEILDLIGENEYLR NTLDKDNTENSDKALLEIYERLRPGEPPTVENAKSLLDSRFFDPKRYDLANVGRYKIN KKLHIKNRLFNQRLAETLVDPETGEILAEKGQILDRRTLDKVLPYLENGIGFRKLYPN GGVVEDEVTLQSIKIFAPTDQEGEQVINVIGNAYIEEEIKNITPADIISSISYFFNLL HGVGDTDDIDHLGNRRLRSVGELLQNQFRIGLSRMERVVRERMSIQDTNTITPQQLIN IRPVIASIKEFFGSSQLSQFMDQTNPLAELTHKRRLSALGPGGLTRERAGMEVRDVHY SHYGRMCPIETPEGPNIGLINSLSSYAKVNRFGFIETPYRRVDPETGKVTGRIDYLTA DEEDNYVVAQANARLDDEGAFIDDSIVARFRGENTVVSRNRVDYMDVSPKQVVSAATA CIPFLENDDSNRALMGANMQRQAVPLMQPEAPFVGTGMEYVSGKDSGAAVICKHPGIV ERVEAKNVWVRRYEEVDGQKVKGNLDKYSLLKFVRSNQGTCYNQRPIVSVGDEVVKGE ILADGPSMELGELALGRNVMVGFMTWDGYNYEDAIIMSERLVKDDVYTSIHIEEYESE ARDTKLGPEEITRDIPNVGEDALRNLDDRGIIRIGAEVKDGDLLVGKVTPKGVTELTA EERLLHAIFGEKAREVRDTSLRVPHGGGGIIHDVKVFNREDGDELPPGVNQLVRVYIV QKRKISEGDKMAGRHGNKGVISKILPEEDMPYLPDGTPIDIMLNPLGVPSRMNIGQVL ELHMGMAARYLGIHIASPVFDGAREEDVWETLEEAGMSRDAKTVLYDGRTGEPFDNRV SVGIMYMIKLAHMVDDKLHARSTGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGA AYTLQEILTVKSDDVVGRVKTYEAIVKGDNVPEPGVPESFKVLIKELQSLGMDVKILS GDEEEIEMRDLEDEEDAKQADGLALSGDEEPEETASADVERDVVTKE*" gene 121919..125500 /gene="rpoB" /locus_tag="BSU_01070" /old_locus_tag="BSU01070" promotor_-10 complement(123504..123523) /Source="Nicolas_upshift_promotors" /id="U91" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=1252 /SigmaFactorBS="acgcggcgatatggcgtttcaATAAAGCCAAaacggtttact ttTGCATAAGATGATAGTGAGTtgatcaaaccgatgttcgggccctcaggcgtttcaa t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(123507) /Source="Nicolas_upshifts" /id="U91" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=1252 /SigmaFactorBS="acgcggcgatatggcgtttcaATAAAGCCAAaacggtttact ttTGCATAAGATGATAGTGAGTtgatcaaaccgatgttcgggccctcaggcgtttcaa t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(123537..123546) /Source="Nicolas_upshift_promotors" /id="U91" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=1252 /SigmaFactorBS="acgcggcgatatggcgtttcaATAAAGCCAAaacggtttact ttTGCATAAGATGATAGTGAGTtgatcaaaccgatgttcgggccctcaggcgtttcaa t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(124375..124379) /Source="Nicolas_upshift_promotors" /id="U92" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.96103896103896" /psig=0 /xcortree=63 /SigmaFactorBS="agatctccgtcttttacttctgccccaatacggatgattcCG CGGTCatcaagattgcgaaGCGCAtcttcaccgacgtttggaatatcgcgagtgattt c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(124380) /Source="Nicolas_upshifts" /id="U92" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.96103896103896" /psig=0 /xcortree=63 /SigmaFactorBS="agatctccgtcttttacttctgccccaatacggatgattcCG CGGTCatcaagattgcgaaGCGCAtcttcaccgacgtttggaatatcgcgagtgattt c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(124394..124400) /Source="Nicolas_upshift_promotors" /id="U92" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.96103896103896" /psig=0 /xcortree=63 /SigmaFactorBS="agatctccgtcttttacttctgccccaatacggatgattcCG CGGTCatcaagattgcgaaGCGCAtcttcaccgacgtttggaatatcgcgagtgattt c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 125562..129161 /gene="rpoC" /locus_tag="BSU_01080" /old_locus_tag="BSU01080" /EC_number="2.7.7.6" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:10672039, 10675340, 10910724, 11029421, 9795209, 10438769, 23070162, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10672039, 10675340, 10910724, 11029421, 9795209, 10438769, 23070162, 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="RNA polymerase (beta' subunit)" /protein_id="NP_387989.2" /db_xref="EnsemblGenomes-Gn:BSU01080" /db_xref="EnsemblGenomes-Tr:CAB11884" /db_xref="GOA:P37871" /db_xref="InterPro:IPR000722" /db_xref="InterPro:IPR006592" /db_xref="InterPro:IPR007066" /db_xref="InterPro:IPR007080" /db_xref="InterPro:IPR007081" /db_xref="InterPro:IPR007083" /db_xref="InterPro:IPR012754" /db_xref="SubtiList:BG10729" /db_xref="UniProtKB/Swiss-Prot:P37871" /translation="MLDVNNFEYMNIGLASPDKIRSWSFGEVKKPETINYRTLKPEKD GLFCERIFGPTKDWECHCGKYKRVRYKGVVCDRCGVEVTRAKVRRERMGHIELAAPVS HIWYFKGIPSRMGLVLDMSPRALEEVIYFASYVVTDPANTPLEKKQLLSEKEYRAYLD KYGNKFQASMGAEAIHKLLQDIDLVKEVDMLKEELKTSQGQRRTRAIKRLEVLEAFRN SGNKPSWMILDVLPVIPPELRPMVQLDGGRFATSDLNDLYRRVINRNNRLKRLLDLGA PSIIVQNEKRMLQEAVDALIDNGRRGRPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGK RVDYSGRSVIVVGPHLKMYQCGLPKEMALELFKPFVMKELVEKGLAHNIKSAKRKIER VQPEVWDVLESVIKEHPVLLNRAPTLHRLGIQAFEPTLVEGRAIRLHPLVCTAYNADF DGDQMAVHVPLSAEAQAEARILMLAAQNILNPKDGKPVVTPSQDMVLGNYYLTLERAG AVGEGMVFKNTDEALLAYQNGYVHLHTRVAVAANSLKNVTFTEEQRSKLLITTVGKLV FNEILPESFPYMNEPTKSNIEEKTPDRFFLEKGADVKAVIAQQPINAPFKKGILGKII AEIFKRFHITETSKMLDRMKNLGFKYSTKAGITVGVSDIVVLDDKQEILEEAQSKVDN VMKQFRRGLITEEERYERVISIWSAAKDVIQGKLMKSLDELNPIYMMSDSGARGNASN FTQLAGMRGLMANPAGRIIELPIKSSFREGLTVLEYFISTHGARKGLADTALKTADSG YLTRRLVDVAQDVIIRETDCGTDRGILAKPLKEGTETIERLEERLIGRFARKQVKHPE TGEVLVNENELIDEDKALEIVEAGIEEVWIRSAFTCNTPHGVCKRCYGRNLATGSDVE VGEAVGIIAAQSIGEPGTQLTMRTFHTGGVAGDDITQGLPRIQELFEARNPKGQATIT EIDGTVVEINEVRDKQQEIVVQGAVETRSYTAPYNSRLKVAEGDKITRGQVLTEGSID PKELLKVTDLTTVQEYLLHEVQKVYRMQGVEIGDKHVEVMVRQMLRKVRVIDAGDTDV LPGTLLDIHQFTEANKKVLLEGNRPATGRPVLLGITKASLETDSFLSAASFQETTRVL TDAAIKGKRDELLGLKENVIIGKLVPAGTGMMKYRKVKPVSNVQPTDDMVPVE*" gene 125562..129161 /gene="rpoC" /locus_tag="BSU_01080" /old_locus_tag="BSU01080" downshifts complement(128626) /Source="Nicolas_upshifts" /id="D46" /incds=1 /nref=1 /ntot=76 /MaxReadThrough="3.40002" /MaxDrop="2.38911" /score="-2.05539956" /energy="-7.5" /TU="U93" /idTUdmin="U93" /TUdmin="-132" /isTUend="FALSE" upshifts complement(128780) /Source="Nicolas_upshifts" /id="U93" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.952047952047952" /psig="0.000999000999001" /xcortree=64 /SigmaFactorBS="caatgtacctggaagcacatcagtgtcaccggcatcaatcaC Gcgtactttgcgaagcatctggcgaaccattacttctacgtgtttatcaccgatttca a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" misc_feature complement(128798..128799) /Source="Nicolas_upshift_promotors" /id="U93" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.952047952047952" /psig="0.000999000999001" /xcortree=64 /SigmaFactorBS="caatgtacctggaagcacatcagtgtcaccggcatcaatcaC Gcgtactttgcgaagcatctggcgaaccattacttctacgtgtttatcaccgatttca a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" downshifts complement(129110) /Source="Nicolas_upshifts" /id="D47" /incds=0 /nref=98 /ntot=210 /MaxReadThrough="1.61828" /MaxDrop="4.90549" /score="-2.05539956" /energy="-7.5" /TU="NA" /idTUdmin="U95" /TUdmin=0 /isTUend="TRUE" S_feature 129162..129283 /Source="Nicolas_S_feature" /locus_tag="new_129162_129283" /HighExp="LoTm, HiOs, S3, SMMPr, Heat, S1, BC, Glu, S4, MG 45" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.997, 1" /TUlongSig="SigA, SigK, SigA, SigWXY, SigA, SigB, SigA" /TUlongPSig="1, 1, 0.999, 1, 1, 1, 0.947" /label="S52" promotor_-35 129265..129272 /Source="Nicolas_upshift_promotors" /id="U94" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.781218781218781" /psig=1 /xcortree=2650 /SigmaFactorBS="cactctatgagaagaacgaatctaaaaaatgtcataccttGT TGACATtcgtctcctagaaTGATAATATAACCAAGGTGCtcgaaataaacctgttact t" /listShort="rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC" /listLong="S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" /label="promotor_-35" upshifts 129285 /Source="Nicolas_upshifts" /id="U94" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.781218781218781" /psig=1 /xcortree=2650 /SigmaFactorBS="cactctatgagaagaacgaatctaaaaaatgtcataccttGT TGACATtcgtctcctagaaTGATAATATAACCAAGGTGCtcgaaataaacctgttact t" /listShort="rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC" /listLong="S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" promotor_-10 129286..129305 /Source="Nicolas_upshift_promotors" /id="U94" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.781218781218781" /psig=1 /xcortree=2650 /SigmaFactorBS="cactctatgagaagaacgaatctaaaaaatgtcataccttGT TGACATtcgtctcctagaaTGATAATATAACCAAGGTGCtcgaaataaacctgttact t" /listShort="rplGB, S53, rpsL, rpsG, fusA, S54, tufA, ybaC" /listLong="S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" /label="promotor_-10" misc_feature complement(129303..129307) /Source="Nicolas_upshift_promotors" /id="U95" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.909090909090909" /psig="0.023976023976024" /xcortree=67 /SigmaFactorBS="ggcctgtgatactttatcataagacataaacatatcctccaa agtaacaggtttatttcGAGCAccttggttatattatcattctaggagacgaatgtca a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(129306) /Source="Nicolas_upshifts" /id="U95" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.909090909090909" /psig="0.023976023976024" /xcortree=67 /SigmaFactorBS="ggcctgtgatactttatcataagacataaacatatcctccaa agtaacaggtttatttcGAGCAccttggttatattatcattctaggagacgaatgtca a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS 129340..129588 /gene="rulS" /locus_tag="BSU_01090" /old_locus_tag="BSU01090" /function="16.8: Protect" /function="16.13: Shape" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:11574053, 11948165, 17468242, 7657605, 22355167, 23249744, 24204571, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11574053, 11948165, 17468242, 7657605, 22355167, 23249744, 24204571, 22720735; Product type s: structure" /codon_start=1 /transl_table=11 /product="K-turn RNA binding protein; alternative ribosomal protein L7A" /protein_id="NP_387990.1" /db_xref="EnsemblGenomes-Gn:BSU01090" /db_xref="EnsemblGenomes-Tr:CAB11885" /db_xref="GOA:P46350" /db_xref="InterPro:IPR000948" /db_xref="InterPro:IPR004038" /db_xref="InterPro:IPR023460" /db_xref="InterPro:IPR029064" /db_xref="PDB:3V7E" /db_xref="PDB:4LCK" /db_xref="PDB:4TZP" /db_xref="PDB:4TZV" /db_xref="PDB:4TZW" /db_xref="PDB:4TZZ" /db_xref="SubtiList:BG11365" /db_xref="UniProtKB/Swiss-Prot:P46350" /translation="MSYDKVSQAKSIIIGTKQTVKALKRGSVKEVVVAKDADPILTSS VVSLAEDQGISVSMVESMKKLGKACGIEVGAAAVAIIL*" gene 129340..129588 /gene="rulS" /locus_tag="BSU_01090" /old_locus_tag="BSU01090" S_feature 129589..129701 /Source="Nicolas_S_feature" /locus_tag="new_129589_129701" /HighExp="T-3.40H, M/G, T-1.40H, T-5.40H, Salt, Mal, T-0.40H, G/S, M9-exp, Diami" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA, SigA" /TUshortPSig="1, 0.997, 1" /TUlongSig="SigA, SigK, SigA, SigWXY, SigA, SigB, SigA" /TUlongPSig="1, 1, 0.999, 1, 1, 1, 0.947" /label="S53" CDS 129702..130118 /gene="rpsL" /locus_tag="BSU_01100" /old_locus_tag="BSU01100" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:11489846, 12682299, 16484214, 18252828, 19383706, 20007320" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11489846, 12682299, 16484214, 18252828, 19383706, 20007320; Product type s : structure" /codon_start=1 /transl_table=11 /product="ribosomal protein S12 (BS12)" /protein_id="NP_387991.2" /db_xref="EnsemblGenomes-Gn:BSU01100" /db_xref="EnsemblGenomes-Tr:CAB11886" /db_xref="GOA:P21472" /db_xref="InterPro:IPR005679" /db_xref="InterPro:IPR006032" /db_xref="InterPro:IPR012340" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG19009" /db_xref="UniProtKB/Swiss-Prot:P21472" /translation="MPTINQLIRKGRVSKVENSKSPALNKGYNSFKKEHTNVSSPQKR GVCTRVGTMTPKKPNSALRKYARVRLTNGIEVTAYIPGIGHNLQEHSVVLIRGGRVKD LPGVRYHIVRGALDTAGVENRAQGRSKYGTKKPKAK*" gene 129702..130118 /gene="rpsL" /locus_tag="BSU_01100" /old_locus_tag="BSU01100" CDS 130160..130630 /gene="rpsG" /locus_tag="BSU_01110" /old_locus_tag="BSU01110" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:8722036, 12682299, 19653700" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8722036, 12682299, 19653700; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein S7 (BS7)" /protein_id="NP_387992.2" /db_xref="EnsemblGenomes-Gn:BSU01110" /db_xref="EnsemblGenomes-Tr:CAB11887" /db_xref="GOA:P21469" /db_xref="InterPro:IPR000235" /db_xref="InterPro:IPR005717" /db_xref="InterPro:IPR020606" /db_xref="InterPro:IPR023798" /db_xref="InterPro:IPR036823" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG19006" /db_xref="UniProtKB/Swiss-Prot:P21469" /translation="MPRKGPVAKRDVLPDPIYNSKLVSRLINKMMIDGKKGKSQTILY KSFDIIKERTGNDAMEVFEQALKNIMPVLEVKARRVGGANYQVPVEVRPERRTTLGLR WLVNYARLRGEKTMEERLANEILDAANNTGAAVKKREDTHKMAEANKAFAHYRW*" gene 130160..130630 /gene="rpsG" /locus_tag="BSU_01110" /old_locus_tag="BSU01110" CDS 130684..132762 /gene="fusA" /locus_tag="BSU_01120" /old_locus_tag="BSU01120" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:815236, 815243, 1556067, 4629789, 19366171, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 815236, 815243, 1556067, 4629789, 19366171, 22720735; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="elongation factor G" /protein_id="NP_387993.2" /db_xref="EnsemblGenomes-Gn:BSU01120" /db_xref="EnsemblGenomes-Tr:CAB11888" /db_xref="GOA:P80868" /db_xref="InterPro:IPR000640" /db_xref="InterPro:IPR000795" /db_xref="InterPro:IPR004161" /db_xref="InterPro:IPR004540" /db_xref="InterPro:IPR005225" /db_xref="InterPro:IPR005517" /db_xref="InterPro:IPR009000" /db_xref="InterPro:IPR009022" /db_xref="InterPro:IPR014721" /db_xref="InterPro:IPR020568" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR031157" /db_xref="InterPro:IPR035647" /db_xref="InterPro:IPR035649" /db_xref="PDB:5VH6" /db_xref="SubtiList:BG11939" /db_xref="UniProtKB/Swiss-Prot:P80868" /translation="MAREFSLEKTRNIGIMAHIDAGKTTTTERILFYTGRIHKIGETH EGASQMDWMEQEQERGITITSAATTAQWKGYRVNIIDTPGHVDFTVEVERSLRVLDGA VAVLDAQSGVEPQTETVWRQATTYGVPRIVFVNKMDKIGADFLYSVGTLRDRLQANAH AIQLPIGAEDNFEGIIDLVENVAYFYEDDLGTRSDAKEIPEEYKEQAEELRNSLIEAV CELDEELMDKYLEGEEITIDELKAGIRKGTLNVEFYPVLVGSAFKNKGVQLVLDAVLD YLPAPTDVAAIKGTRPDTNEEIERHSSDEEPFSALAFKVMTDPYVGKLTFFRVYSGTL DSGSYVKNSTKGKRERVGRILQMHANSREEISTVYAGDIAAAVGLKDTTTGDTLCDEK DLVILESMEFPEPVIDVAIEPKSKADQDKMGIALAKLAEEDPTFRTQTNPETGQTIIS GMGELHLDIIVDRMKREFKVEANVGAPQVAYRETFRTGAKVEGKFVRQSGGRGQFGHV WIEFEPNEEGAGFEFENAIVGGVVPREYIPAVQAGLEDALENGVLAGFPLIDIKAKLF DGSYHDVDSNEMAFKVAASMALKNAVSKCNPVLLEPIMKVEVVIPEEYMGDIMGDITS RRGRVEGMEARGNAQVVRAMVPLAEMFGYATALRSNTQGRGTFTMHMDHYEEVPKSVA EEIIKKNKGE*" gene 130684..132762 /gene="fusA" /locus_tag="BSU_01120" /old_locus_tag="BSU01120" S_feature 132763..132881 /Source="Nicolas_S_feature" /locus_tag="new_132763_132881" /HighExp="T-5.40H, T-4.40H, UNK1, SMM, HiTm, T-3.40H, T-2.40H, SMMPr, MG 90, MG 15" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA, SigA" /TUshortPSig="1, 0.997, 1" /TUlongSig="SigA, SigK, SigA, SigWXY, SigA, SigB, SigA" /TUlongPSig="1, 1, 0.999, 1, 1, 1, 0.947" /label="S54" CDS 132882..134072 /gene="tufA" /locus_tag="BSU_01130" /old_locus_tag="BSU01130" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:10774755, 12682299, 7706132, 20133608, 22938038, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10774755, 12682299, 7706132, 20133608, 22938038, 22720735; Product type f : factor" /codon_start=1 /transl_table=11 /product="elongation factor Tu" /protein_id="NP_387994.1" /db_xref="EnsemblGenomes-Gn:BSU01130" /db_xref="EnsemblGenomes-Tr:CAB11889" /db_xref="GOA:P33166" /db_xref="InterPro:IPR000795" /db_xref="InterPro:IPR004160" /db_xref="InterPro:IPR004161" /db_xref="InterPro:IPR004541" /db_xref="InterPro:IPR005225" /db_xref="InterPro:IPR009000" /db_xref="InterPro:IPR009001" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR031157" /db_xref="InterPro:IPR033720" /db_xref="SubtiList:BG11056" /db_xref="UniProtKB/Swiss-Prot:P33166" /translation="MAKEKFDRSKSHANIGTIGHVDHGKTTLTAAITTVLHKKSGKGT AMAYDQIDGAPEERERGITISTAHVEYETETRHYAHVDCPGHADYVKNMITGAAQMDG AILVVSAADGPMPQTREHILLSKNVGVPYIVVFLNKCDMVDDEELLELVEMEVRDLLS EYDFPGDDVPVVKGSALKALEGDAEWEAKIFELMDAVDEYIPTPERDTEKPFMMPVED VFSITGRGTVATGRVERGQVKVGDEVEIIGLQEENKKTTVTGVEMFRKLLDYAEAGDN IGALLRGVSREEIQRGQVLAKPGTITPHSKFKAEVYVLSKEEGGRHTPFFSNYRPQFY FRTTDVTGIIHLPEGVEMVMPGDNTEMNVELISTIAIEEGTRFSIREGGRTVGSGVVS TITE*" gene 132882..134072 /gene="tufA" /locus_tag="BSU_01130" /old_locus_tag="BSU01130" downshifts 134067 /Source="Nicolas_upshifts" /id="D48" /incds=0 /nref=258 /ntot=269 /MaxReadThrough="4.84568" /MaxDrop="8.56168" /score="39.3984056" /energy="-12.9" /TU="U88,U90,U94" /idTUdmin="U88" /TUdmin="-1081" /isTUend="FALSE" misc_feature complement(134098..134101) /Source="Nicolas_upshift_promotors" /id="U96" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.917082917082917" /psig="0.001998001998002" /xcortree=68 /SigmaFactorBS="acccctcgaatatgatagatcctattatacaagaaaaagata agcaaacaaaaaacgagacCCACaggggtctcgtttaaaaccatactattactcagtg a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(134102) /Source="Nicolas_upshifts" /id="U96" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.917082917082917" /psig="0.001998001998002" /xcortree=68 /SigmaFactorBS="acccctcgaatatgatagatcctattatacaagaaaaagata agcaaacaaaaaacgagacCCACaggggtctcgtttaaaaccatactattactcagtg a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" misc_feature 134128..134147 /Source="Nicolas_upshift_promotors" /id="U97" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.846153846153846" /psig=1 /xcortree=1878 /SigmaFactorBS="tatggttttaaacgagacccctgtgggtctcgttttttgttt gcttatctttTTCTTGTATAATAGGATCTAtcatattcgaggggttaatatttatgat t" /listShort="ybaC" /listLong="S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 134136 /Source="Nicolas_upshifts" /id="U97" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.846153846153846" /psig=1 /xcortree=1878 /SigmaFactorBS="tatggttttaaacgagacccctgtgggtctcgttttttgttt gcttatctttTTCTTGTATAATAGGATCTAtcatattcgaggggttaatatttatgat t" /listShort="ybaC" /listLong="S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" CDS 134171..135127 /gene="ybaC" /locus_tag="BSU_01140" /old_locus_tag="BSU01140" /EC_number="3.4.11.5" /function="16.11: Scavenge (Catabolism)" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative proline iminopeptidase" /protein_id="NP_387995.2" /db_xref="EnsemblGenomes-Gn:BSU01140" /db_xref="EnsemblGenomes-Tr:CAB11890" /db_xref="GOA:P70981" /db_xref="InterPro:IPR002410" /db_xref="InterPro:IPR022742" /db_xref="InterPro:IPR029058" /db_xref="SubtiList:BG11988" /db_xref="UniProtKB/Swiss-Prot:P70981" /translation="MIPEKKSIAIMKELSIGNTKQMLMINGVDVKNPLLLFLHGGPGT PQIGYVRHYQKELEQYFTVVHWDQRGSGLSYSKRISHHSMTINHFIKDTIQVTQWLLA HFSKSKLYLAGHSWGSILALHVLQQRPDLFYTYYGISQVVNPQDEESTAYQHIREISE SKKASILSFLTRFIGAPPWKQDIQHLIYRFCVELTRGGFTHRHRQSLAVLFQMLTGNE YGVRNMHSFLNGLRFSKKHLTDELYRFNAFTSVPSIKVPCVFISGKHDLIVPAEISKQ YYQELEAPEKRWFQFENSAHTPHIEEPSLFANTLSRHARHHL*" gene 134171..135127 /gene="ybaC" /locus_tag="BSU_01140" /old_locus_tag="BSU01140" promotor_-35 135134..135141 /Source="Nicolas_upshift_promotors" /id="U98" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.633366633366633" /psig=1 /xcortree=2656 /SigmaFactorBS="gcacgacaccatttatgatagatcCTTGATAAataagaaaaa cccCTGTATAATAAAAAAAGTGTgcaaatcatgcatattttaaataagtcttgcaaca t" /listShort="S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 135155..135174 /Source="Nicolas_upshift_promotors" /id="U98" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.633366633366633" /psig=1 /xcortree=2656 /SigmaFactorBS="gcacgacaccatttatgatagatcCTTGATAAataagaaaaa cccCTGTATAATAAAAAAAGTGTgcaaatcatgcatattttaaataagtcttgcaaca t" /listShort="S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 135170..135363 /Source="Nicolas_S_feature" /locus_tag="new_135170_135363" /HighExp="T-1.40H, T-2.40H, T-1.10H, SMM, T-3.40H, T-4.40H, BI, BMM, H2O2, nit" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="SigA, SigA, SigA, SigA, SigA, SigA, SigWXY, SigA, SigA" /TUlongPSig="1, 1, 0.997, 1, 1, 0.999, 1, 1, 0.947" /label="S55" upshifts 135170 /Source="Nicolas_upshifts" /id="U98" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.633366633366633" /psig=1 /xcortree=2656 /SigmaFactorBS="gcacgacaccatttatgatagatcCTTGATAAataagaaaaa cccCTGTATAATAAAAAAAGTGTgcaaatcatgcatattttaaataagtcttgcaaca t" /listShort="S55, rpsJ, rplC, rplD, rplW, rplB, rpsS, rplV, rpsC, rplP, rpmC, rpsQ, rplNA, rplX, rplE, rpsNA, rpsH, rplF, rplR, rpsE, rpmD, rplO, secY, adk, mapA, ybzG, infA, rpmJ, rpsM, rpsK, S56, rpoA, rplQ, S57, ybxA, ybaE, ybaF, truA, NA, rplM, rpsI, S59, ybaJ" /GFF_Attribute="listLong" CDS 135364..135672 /gene="rpsJ" /locus_tag="BSU_01150" /old_locus_tag="BSU01150" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12682299, 27964882" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 27964882; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein S10 (BS13); transcription antitermination factor" /protein_id="NP_387996.1" /db_xref="EnsemblGenomes-Gn:BSU01150" /db_xref="EnsemblGenomes-Tr:CAB11891" /db_xref="GOA:P21471" /db_xref="InterPro:IPR001848" /db_xref="InterPro:IPR018268" /db_xref="InterPro:IPR027486" /db_xref="InterPro:IPR036838" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG19008" /db_xref="UniProtKB/Swiss-Prot:P21471" /translation="MAKQKIRIRLKAYDHRILDQSAEKIVETAKRSGASVSGPIPLPT EKSVYTILRAVHKYKDSREQFEMRTHKRLIDIVNPTPQTVDALMRLDLPSGVDIEIKL *" gene 135364..135672 /gene="rpsJ" /locus_tag="BSU_01150" /old_locus_tag="BSU01150" CDS 135712..136341 /gene="rplC" /locus_tag="BSU_01160" /old_locus_tag="BSU01160" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12682299, 17981968, 19154332, 23759864" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 17981968, 19154332, 23759864; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein L3 (BL3)" /protein_id="NP_387997.1" /db_xref="EnsemblGenomes-Gn:BSU01160" /db_xref="EnsemblGenomes-Tr:CAB11892" /db_xref="GOA:P42920" /db_xref="InterPro:IPR000597" /db_xref="InterPro:IPR009000" /db_xref="InterPro:IPR019926" /db_xref="InterPro:IPR019927" /db_xref="PDB:3J3V" /db_xref="PDB:3J3W" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG11218" /db_xref="UniProtKB/Swiss-Prot:P42920" /translation="MTKGILGRKIGMTQVFAENGDLIPVTVIEAAPNVVLQKKTAEND GYEAIQLGFDDKREKLSNKPEKGHVAKAETAPKRFVKELRGVEMDAYEVGQEVKVEIF SAGEIVDVTGVSKGKGFQGAIKRHGQSRGPMSHGSRYHRRPGSMGPVDPNRVFKGKLL PGRMGGEQITVQNLEIVKVDAERNLLLIKGNVPGAKKSLITVKSAVKSK*" gene 135712..136341 /gene="rplC" /locus_tag="BSU_01160" /old_locus_tag="BSU01160" CDS 136369..136992 /gene="rplD" /locus_tag="BSU_01170" /old_locus_tag="BSU01170" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 10898684, 12682299, 22720735; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein L4" /protein_id="NP_387998.1" /db_xref="EnsemblGenomes-Gn:BSU01170" /db_xref="EnsemblGenomes-Tr:CAB11893" /db_xref="GOA:P42921" /db_xref="InterPro:IPR002136" /db_xref="InterPro:IPR013005" /db_xref="InterPro:IPR023574" /db_xref="PDB:3J3V" /db_xref="PDB:3J3W" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG11219" /db_xref="UniProtKB/Swiss-Prot:P42921" /translation="MPKVALYNQNGSTAGDIELNASVFGIEPNESVVFDAILMQRASL RQGTHKVKNRSEVRGGGRKPWRQKGTGRARQGSIRSPQWRGGGVVFGPTPRSYSYKLP KKVRRLAIKSVLSSKVIDNNIIVLEDLTLDTAKTKEMAAILKGLSVEKKALIVTADAN EAVALSARNIPGVTVVEANGINVLDVVNHEKLLITKAAVEKVEEVLA*" gene 136369..136992 /gene="rplD" /locus_tag="BSU_01170" /old_locus_tag="BSU01170" CDS 136992..137279 /gene="rplW" /locus_tag="BSU_01180" /old_locus_tag="BSU01180" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12682299, 17981968, 23002217" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 17981968, 23002217; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein L23" /protein_id="NP_387999.2" /db_xref="EnsemblGenomes-Gn:BSU01180" /db_xref="EnsemblGenomes-Tr:CAB11894" /db_xref="GOA:P42924" /db_xref="InterPro:IPR001014" /db_xref="InterPro:IPR012678" /db_xref="InterPro:IPR013025" /db_xref="PDB:3J3V" /db_xref="PDB:3J3W" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG11221" /db_xref="UniProtKB/Swiss-Prot:P42924" /translation="MKDPRDVLKRPVITERSADLMTEKKYTFEVDVRANKTEVKDAVE SIFGVKVDKVNIMNYKGKSKRVGRYTGMTSRRRKAIVKLTADSKEIEIFEA*" gene 136992..137279 /gene="rplW" /locus_tag="BSU_01180" /old_locus_tag="BSU01180" CDS 137311..138144 /gene="rplB" /locus_tag="BSU_01190" /old_locus_tag="BSU01190" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12682299, 23249812, 24637032" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 23249812, 24637032; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein L2 (BL2)" /protein_id="NP_388000.2" /db_xref="EnsemblGenomes-Gn:BSU01190" /db_xref="EnsemblGenomes-Tr:CAB11895" /db_xref="GOA:P42919" /db_xref="InterPro:IPR002171" /db_xref="InterPro:IPR005880" /db_xref="InterPro:IPR008991" /db_xref="InterPro:IPR012340" /db_xref="InterPro:IPR014722" /db_xref="InterPro:IPR014726" /db_xref="InterPro:IPR022666" /db_xref="InterPro:IPR022669" /db_xref="InterPro:IPR022671" /db_xref="PDB:3J3V" /db_xref="PDB:3J3W" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG11217" /db_xref="UniProtKB/Swiss-Prot:P42919" /translation="MAIKKYKPTSNGRRGMTTSDFAEITTDKPEKSLLAPLHKKGGRN NQGKLTVRHQGGGHKRQYRVIDFKRDKDGIPGRVATVEYDPNRSANIALINYADGEKR YILAPKGIQVGTEIMSGPEADIKVGNALPLINIPVGTVVHNIELKPGKGGQLVRSAGT SAQVLGKEGKYVLVRLNSGEVRMILSACRASIGQVGNEQHELINIGKAGRSRWKGIRP TVRGSVMNPNDHPHGGGEGRAPIGRKSPMSPWGKPTLGFKTRKKKNKSDKFIVRRRKN K*" gene 137311..138144 /gene="rplB" /locus_tag="BSU_01190" /old_locus_tag="BSU01190" downshifts complement(137447) /Source="Nicolas_upshifts" /id="D49" /incds=1 /nref=1 /ntot=47 /MaxReadThrough="3.39972" /MaxDrop="4.09052" /score="-4.16840603" /energy="-12.8" /TU="NA" /idTUdmin="U99" /TUdmin=1342 /isTUend="FALSE" CDS 138202..138480 /gene="rpsS" /locus_tag="BSU_01200" /old_locus_tag="BSU01200" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12682299; Product type s : structure" /codon_start=1 /transl_table=11 /product="ribosomal protein S19 (BS19)" /protein_id="NP_388001.1" /db_xref="EnsemblGenomes-Gn:BSU01200" /db_xref="EnsemblGenomes-Tr:CAB11896" /db_xref="GOA:P21476" /db_xref="InterPro:IPR002222" /db_xref="InterPro:IPR005732" /db_xref="InterPro:IPR020934" /db_xref="InterPro:IPR023575" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG19011" /db_xref="UniProtKB/Swiss-Prot:P21476" /translation="MARSLKKGPFVDGHLMTKIEKLNETDKKQVVKTWSRRSTIFPQF IGHTIAVYDGRKHVPVFISEDMVGHKLGEFAPTRTYKGHASDDKKTRR*" gene 138202..138480 /gene="rpsS" /locus_tag="BSU_01200" /old_locus_tag="BSU01200" CDS 138497..138838 /gene="rplV" /locus_tag="BSU_01210" /old_locus_tag="BSU01210" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:7928988, 12682299, 23002217" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7928988, 12682299, 23002217; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein L22 (BL17)" /protein_id="NP_388002.1" /db_xref="EnsemblGenomes-Gn:BSU01210" /db_xref="EnsemblGenomes-Tr:CAB11897" /db_xref="GOA:P42060" /db_xref="InterPro:IPR001063" /db_xref="InterPro:IPR005727" /db_xref="InterPro:IPR018260" /db_xref="InterPro:IPR036394" /db_xref="PDB:3J3V" /db_xref="PDB:3J3W" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG11078" /db_xref="UniProtKB/Swiss-Prot:P42060" /translation="MQAKAVARTVRIAPRKARLVMDLIRGKQVGEAVSILNLTPRAAS PIIEKVLKSAIANAEHNYEMDANNLVISQAFVDEGPTLKRFRPRAMGRASQINKRTSH ITIVVSEKKEG*" gene 138497..138838 /gene="rplV" /locus_tag="BSU_01210" /old_locus_tag="BSU01210" CDS 138842..139498 /gene="rpsC" /locus_tag="BSU_01220" /old_locus_tag="BSU01220" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12682299" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein S3 (BS3)" /protein_id="NP_388003.2" /db_xref="EnsemblGenomes-Gn:BSU01220" /db_xref="EnsemblGenomes-Tr:CAB11898" /db_xref="GOA:P21465" /db_xref="InterPro:IPR001351" /db_xref="InterPro:IPR004044" /db_xref="InterPro:IPR004087" /db_xref="InterPro:IPR005704" /db_xref="InterPro:IPR009019" /db_xref="InterPro:IPR015946" /db_xref="InterPro:IPR018280" /db_xref="InterPro:IPR036419" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG19005" /db_xref="UniProtKB/Swiss-Prot:P21465" /translation="MGQKVNPVGLRIGVIRDWESKWYAGKDYADFLHEDLKIREYISK RLSDASVSKVEIERAANRVNITIHTAKPGMVIGKGGSEVEALRKALNSLTGKRVHINI LEIKRADLDAQLVADNIARQLENRVSFRRAQKQQIQRTMRAGAQGVKTMVSGRLGGAD IARSEYYSEGTVPLHTLRADIDYATSEADTTYGKLGVKVWIYRGEVLPTKKKNEEGGK *" gene 138842..139498 /gene="rpsC" /locus_tag="BSU_01220" /old_locus_tag="BSU01220" downshifts complement(138855) /Source="Nicolas_upshifts" /id="D50" /incds=0 /nref=1 /ntot=62 /MaxReadThrough="3.68388" /MaxDrop="2.1922" /score="-4.16840603" /energy="-12.8" /TU="U99" /idTUdmin="U99" /TUdmin="-66" /isTUend="FALSE" promotor_-10 complement(138936..138940) /Source="Nicolas_upshift_promotors" /id="U99" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.972027972027972" /psig="0.00999000999001" /xcortree=77 /SigmaFactorBS="tactttagaaacagaagcgtcagaaaggcgtttgctaatgta ttCACgaatttttaaatcttcGTGCAggaagtcagcgtaatctttaccagcgtaccac t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(138943) /Source="Nicolas_upshifts" /id="U99" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.972027972027972" /psig="0.00999000999001" /xcortree=77 /SigmaFactorBS="tactttagaaacagaagcgtcagaaaggcgtttgctaatgta ttCACgaatttttaaatcttcGTGCAggaagtcagcgtaatctttaccagcgtaccac t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(138957..138959) /Source="Nicolas_upshift_promotors" /id="U99" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.972027972027972" /psig="0.00999000999001" /xcortree=77 /SigmaFactorBS="tactttagaaacagaagcgtcagaaaggcgtttgctaatgta ttCACgaatttttaaatcttcGTGCAggaagtcagcgtaatctttaccagcgtaccac t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 139500..139934 /gene="rplP" /locus_tag="BSU_01230" /old_locus_tag="BSU01230" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12682299, 16390447, 24335279" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 16390447, 24335279; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein L16" /protein_id="NP_388004.1" /db_xref="EnsemblGenomes-Gn:BSU01230" /db_xref="EnsemblGenomes-Tr:CAB11899" /db_xref="GOA:P14577" /db_xref="InterPro:IPR000114" /db_xref="InterPro:IPR016180" /db_xref="InterPro:IPR020798" /db_xref="InterPro:IPR036920" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG10755" /db_xref="UniProtKB/Swiss-Prot:P14577" /translation="MLLPKRVKYRREHRGKMRGRAKGGTEVHFGEFGIQALEASWITN RQIEAARIAMTRYMKRGGKVWIKIFPSKPYTAKPLEVRMGSGKGAPEGWVAVVKPGKV LFEISGVSEEVAREALRLASHKLPIKTKFVKREEIGGESNES*" gene 139500..139934 /gene="rplP" /locus_tag="BSU_01230" /old_locus_tag="BSU01230" CDS 139924..140124 /gene="rpmC" /locus_tag="BSU_01240" /old_locus_tag="BSU01240" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12682299, 23002217" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 23002217; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein L29" /protein_id="NP_388005.1" /db_xref="EnsemblGenomes-Gn:BSU01240" /db_xref="EnsemblGenomes-Tr:CAB11900" /db_xref="GOA:P12873" /db_xref="InterPro:IPR001854" /db_xref="InterPro:IPR018254" /db_xref="InterPro:IPR036049" /db_xref="PDB:3J3V" /db_xref="PDB:3J3W" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG10756" /db_xref="UniProtKB/Swiss-Prot:P12873" /translation="MKANEIRDLTTAEIEQKVKSLKEELFNLRFQLATGQLENTARIR EVRKAIARMKTVIREREIAANK*" gene 139924..140124 /gene="rpmC" /locus_tag="BSU_01240" /old_locus_tag="BSU01240" CDS 140147..140410 /gene="rpsQ" /locus_tag="BSU_01250" /old_locus_tag="BSU01250" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12682299" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein S17 (BS16)" /protein_id="NP_388006.1" /db_xref="EnsemblGenomes-Gn:BSU01250" /db_xref="EnsemblGenomes-Tr:CAB11901" /db_xref="GOA:P12874" /db_xref="InterPro:IPR000266" /db_xref="InterPro:IPR012340" /db_xref="InterPro:IPR019979" /db_xref="InterPro:IPR019984" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG10757" /db_xref="UniProtKB/Swiss-Prot:P12874" /translation="MSERNQRKVYQGRVVSDKMDKTITVVVETYKKHTLYGKRVKYSK KFKAHDENNQAKIGDIVKIMETRPLSATKRFRLVEVVEEAVII*" gene 140147..140410 /gene="rpsQ" /locus_tag="BSU_01250" /old_locus_tag="BSU01250" CDS 140451..140819 /gene="rplNA" /locus_tag="BSU_01260" /old_locus_tag="BSU01260" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:8722036, 8805509, 12682299, 22829778" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8722036, 8805509, 12682299, 22829778; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein L14" /protein_id="NP_388007.1" /db_xref="EnsemblGenomes-Gn:BSU01260" /db_xref="EnsemblGenomes-Tr:CAB11902" /db_xref="GOA:P12875" /db_xref="InterPro:IPR000218" /db_xref="InterPro:IPR005745" /db_xref="InterPro:IPR019972" /db_xref="InterPro:IPR036853" /db_xref="PDB:3J3V" /db_xref="PDB:3J3W" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG10758" /db_xref="UniProtKB/Swiss-Prot:P12875" /translation="MIQQETRLKVADNSGAREVLTIKVLGGSGRKTANIGDVIVCTVK QATPGGVVKKGEVVKAVIVRTKSGARRSDGSYISFDENACVIIRDDKSPRGTRIFGPV ARELRENNFMKIVSLAPEVI*" gene 140451..140819 /gene="rplNA" /locus_tag="BSU_01260" /old_locus_tag="BSU01260" CDS 140857..141168 /gene="rplX" /locus_tag="BSU_01270" /old_locus_tag="BSU01270" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:11278078, 12682299" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11278078, 12682299; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein L24 (BL23)" /protein_id="NP_388008.1" /db_xref="EnsemblGenomes-Gn:BSU01270" /db_xref="EnsemblGenomes-Tr:CAB11903" /db_xref="GOA:P0CI78" /db_xref="InterPro:IPR003256" /db_xref="InterPro:IPR005824" /db_xref="InterPro:IPR005825" /db_xref="InterPro:IPR008991" /db_xref="InterPro:IPR014722" /db_xref="PDB:3J3V" /db_xref="PDB:3J3W" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG10759" /db_xref="UniProtKB/Swiss-Prot:P0CI78" /translation="MHVKKGDKVMVISGKDKGKQGTILAAFPKKDRVLVEGVNMVKKH SKPTQANPQGGISNQEAPIHVSNVMPLDPKTGEVTRVGYKVEDGKKVRVAKKSGQVLD K*" gene 140857..141168 /gene="rplX" /locus_tag="BSU_01270" /old_locus_tag="BSU01270" CDS 141195..141734 /gene="rplE" /locus_tag="BSU_01280" /old_locus_tag="BSU01280" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12682299; Product type s : structure" /codon_start=1 /transl_table=11 /product="ribosomal protein L5 (BL6)" /protein_id="NP_388009.1" /db_xref="EnsemblGenomes-Gn:BSU01280" /db_xref="EnsemblGenomes-Tr:CAB11904" /db_xref="GOA:P12877" /db_xref="InterPro:IPR002132" /db_xref="InterPro:IPR020929" /db_xref="InterPro:IPR020930" /db_xref="InterPro:IPR022803" /db_xref="InterPro:IPR031309" /db_xref="InterPro:IPR031310" /db_xref="PDB:3J3V" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG10760" /db_xref="UniProtKB/Swiss-Prot:P12877" /translation="MNRLKEKYNKEIAPALMTKFNYDSVMQVPKIEKIVINMGVGDAV QNAKAIDSAVEELTFIAGQKPVVTRAKKSIAGFRLREGMPIGAKVTLRGERMYDFLDK LISVSLPRVRDFRGVSKKSFDGRGNYTLGIKEQLIFPEIDYDKVTKVRGMDIVIVTTA NTDEEARELLTQVGMPFQK*" gene 141195..141734 /gene="rplE" /locus_tag="BSU_01280" /old_locus_tag="BSU01280" CDS 141757..141942 /gene="rpsNA" /locus_tag="BSU_01290" /old_locus_tag="BSU01290" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12682299, 17163968, 19648245, 20208344, 27561249" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 17163968, 19648245, 20208344, 27561249; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein S14" /protein_id="NP_388010.1" /db_xref="EnsemblGenomes-Gn:BSU01290" /db_xref="EnsemblGenomes-Tr:CAB11905" /db_xref="GOA:P12878" /db_xref="InterPro:IPR001209" /db_xref="InterPro:IPR018271" /db_xref="InterPro:IPR023053" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG10761" /db_xref="UniProtKB/Swiss-Prot:P12878" /translation="MAKKSMIAKQQRTPKFKVQEYTRCERCGRPHSVIRKFKLCRICF RELAYKGQIPGVKKASW*" gene 141757..141942 /gene="rpsNA" /locus_tag="BSU_01290" /old_locus_tag="BSU01290" CDS 141974..142372 /gene="rpsH" /locus_tag="BSU_01300" /old_locus_tag="BSU01300" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12682299; Product type s : structure" /codon_start=1 /transl_table=11 /product="ribosomal protein S8 (BS8)" /protein_id="NP_388011.2" /db_xref="EnsemblGenomes-Gn:BSU01300" /db_xref="EnsemblGenomes-Tr:CAB11906" /db_xref="GOA:P12879" /db_xref="InterPro:IPR000630" /db_xref="InterPro:IPR035987" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG10762" /db_xref="UniProtKB/Swiss-Prot:P12879" /translation="MVMTDPIADMLTRIRNANMVRHEKLEIPASKLKREIAEILKREG FIRDVEFVEDSKQGIIRVFLKYGQNNERVITGLKRISKPGLRVYAKSNEVPRVLNGLG IAIISTSQGVLTDKEARAKQAGGEVLAYVW*" gene 141974..142372 /gene="rpsH" /locus_tag="BSU_01300" /old_locus_tag="BSU01300" downshifts complement(142375) /Source="Nicolas_upshifts" /id="D51" /incds=0 /nref=1 /ntot=74 /MaxReadThrough="2.68318" /MaxDrop="2.55712" /score="5.40276403" /energy="-15.9" /TU="NA" /idTUdmin="U99" /TUdmin="-3586" /isTUend="FALSE" CDS 142402..142941 /gene="rplF" /locus_tag="BSU_01310" /old_locus_tag="BSU01310" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12682299, 25330043; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein L6 (BL8)" /protein_id="NP_388012.1" /db_xref="EnsemblGenomes-Gn:BSU01310" /db_xref="EnsemblGenomes-Tr:CAB11907" /db_xref="GOA:P46898" /db_xref="InterPro:IPR000702" /db_xref="InterPro:IPR002358" /db_xref="InterPro:IPR019906" /db_xref="InterPro:IPR020040" /db_xref="InterPro:IPR036789" /db_xref="PDB:3J3V" /db_xref="PDB:3J3W" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG11408" /db_xref="UniProtKB/Swiss-Prot:P46898" /translation="MSRVGKKLLEIPSDVTVTLNDNNTVAVKGPKGELTRTFHPDMEI KVEDNVLTVARPSDQKEHRALHGTTRSLLGNMVEGVSKGFERGLELVGVGYRASKSGN KLVLNVGYSHPVEIVPEEGIEIEVPSQTKVVVKGTDKERVGAIAANIRAVRSPEPYKG KGIRYEGEVVRRKEGKSAK*" gene 142402..142941 /gene="rplF" /locus_tag="BSU_01310" /old_locus_tag="BSU01310" CDS 142974..143336 /gene="rplR" /locus_tag="BSU_01320" /old_locus_tag="BSU01320" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12682299; Product type s : structure" /codon_start=1 /transl_table=11 /product="ribosomal protein L18" /protein_id="NP_388013.2" /db_xref="EnsemblGenomes-Gn:BSU01320" /db_xref="EnsemblGenomes-Tr:CAB11908" /db_xref="GOA:P46899" /db_xref="InterPro:IPR004389" /db_xref="InterPro:IPR005484" /db_xref="PDB:3J3V" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG11409" /db_xref="UniProtKB/Swiss-Prot:P46899" /translation="MITKTSKNAARLKRHARVRAKLSGTAERPRLNVFRSNKHIYAQI IDDVNGVTLASASTLDKDLNVESTGDTSAATKVGELVAKRAAEKGISDVVFDRGGYLY HGRVKALADAAREAGLKF*" gene 142974..143336 /gene="rplR" /locus_tag="BSU_01320" /old_locus_tag="BSU01320" CDS 143361..143861 /gene="rpsE" /locus_tag="BSU_01330" /old_locus_tag="BSU01330" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:6211592, 12682299" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 6211592, 12682299; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein S5" /protein_id="NP_388014.1" /db_xref="EnsemblGenomes-Gn:BSU01330" /db_xref="EnsemblGenomes-Tr:CAB11909" /db_xref="GOA:P21467" /db_xref="InterPro:IPR000851" /db_xref="InterPro:IPR005324" /db_xref="InterPro:IPR005712" /db_xref="InterPro:IPR013810" /db_xref="InterPro:IPR014721" /db_xref="InterPro:IPR018192" /db_xref="InterPro:IPR020568" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG10442" /db_xref="UniProtKB/Swiss-Prot:P21467" /translation="MRRIDPSKLELEERLVTVNRVAKVVKGGRRFRFAALVVVGDKNG HVGFGTGKAQEVPEAIRKAVEDAKKNLIEVPMVGTTIPHEIIGRFGAGNILLKPASEG TGVIAGGPVRAVLELAGVADILSKSLGSNTPINMIRATLQGLSELKRAEDVAKLRGKS VEELLG*" gene 143361..143861 /gene="rpsE" /locus_tag="BSU_01330" /old_locus_tag="BSU01330" CDS 143875..144054 /gene="rpmD" /locus_tag="BSU_01340" /old_locus_tag="BSU01340" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12682299; Product type s : structure" /codon_start=1 /transl_table=11 /product="ribosomal protein L30 (BL27)" /protein_id="NP_388015.1" /db_xref="EnsemblGenomes-Gn:BSU01340" /db_xref="EnsemblGenomes-Tr:CAB11910" /db_xref="GOA:P19947" /db_xref="InterPro:IPR005996" /db_xref="InterPro:IPR016082" /db_xref="InterPro:IPR018038" /db_xref="InterPro:IPR036919" /db_xref="PDB:3J3V" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG10443" /db_xref="UniProtKB/Swiss-Prot:P19947" /translation="MAKLEITLKRSVIGRPEDQRVTVRTLGLKKTNQTVVHEDNAAIR GMINKVSHLVSVKEQ*" gene 143875..144054 /gene="rpmD" /locus_tag="BSU_01340" /old_locus_tag="BSU01340" CDS 144085..144525 /gene="rplO" /locus_tag="BSU_01350" /old_locus_tag="BSU01350" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12682299, 15855514, 23002217" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 15855514, 23002217; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein L15" /protein_id="NP_388016.1" /db_xref="EnsemblGenomes-Gn:BSU01350" /db_xref="EnsemblGenomes-Tr:CAB11911" /db_xref="GOA:P19946" /db_xref="InterPro:IPR001196" /db_xref="InterPro:IPR005749" /db_xref="InterPro:IPR021131" /db_xref="InterPro:IPR030878" /db_xref="InterPro:IPR036227" /db_xref="PDB:3J3V" /db_xref="PDB:3J3W" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG10444" /db_xref="UniProtKB/Swiss-Prot:P19946" /translation="MKLHELKPSEGSRKTRNRVGRGIGSGNGKTAGKGHKGQNARSGG GVRPGFEGGQMPLFQRLPKRGFTNINRKEYAVVNLDKLNGFAEGTEVTPELLLETGVI SKLNAGVKILGNGKLEKKLTVKANKFSASAKEAVEAAGGTAEVI*" gene 144085..144525 /gene="rplO" /locus_tag="BSU_01350" /old_locus_tag="BSU01350" CDS 144527..145822 /gene="secY" /locus_tag="BSU_01360" /old_locus_tag="BSU01360" /function="16.1: Circulate" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:9917412, 15341641, 15849754, 16850406, 23852076, 22720735, 27336478" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9917412, 15341641, 15849754, 16850406, 23852076, 22720735, 27336478; Product type t: transporter" /codon_start=1 /transl_table=11 /product="preprotein translocase subunit" /protein_id="NP_388017.1" /db_xref="EnsemblGenomes-Gn:BSU01360" /db_xref="EnsemblGenomes-Tr:CAB11912" /db_xref="GOA:P16336" /db_xref="InterPro:IPR002208" /db_xref="InterPro:IPR023201" /db_xref="InterPro:IPR026593" /db_xref="InterPro:IPR030659" /db_xref="SubtiList:BG10445" /db_xref="UniProtKB/Swiss-Prot:P16336" /translation="MFKTISNFMRVSDIRNKIIFTLLMLIVFRIGAFIPVPYVNAEAL QAQSQMGVFDLLNTFGGGALYQFSIFAMGITPYITASIIIQLLQMDVVPKFTEWSKQG EVGRRKLAQFTRYFTIVLGFIQALGMSYGFNNLANGMLIEKSGVSTYLIIALVLTGGT AFLMWLGEQITSHGVGNGISIIIFAGIVSSIPKTIGQIYETQFVGSNDQLFIHIVKVA LLVIAILAVIVGVIFIQQAVRKIAIQYAKGTGRSPAGGGQSTHLPLKVNPAGVIPVIF AVAFLITPRTIASFFGTNDVTKWIQNNFDNTHPVGMAIYVALIIAFTYFYAFVQVNPE QMADNLKKQGGYIPGVRPGKMTQDRITSILYRLTFVGSIFLAVISILPIFFIQFAGLP QSAQIGGTSLLIVVGVALETMKQLESQLVKRNYRGFMKN*" gene 144527..145822 /gene="secY" /locus_tag="BSU_01360" /old_locus_tag="BSU01360" CDS 145877..146530 /gene="adk" /locus_tag="BSU_01370" /old_locus_tag="BSU01370" /EC_number="2.7.4.3" /function="16.2: Construct biomass (Anabolism)" /function="16.7: Manage energy" /experiment="publication(s) with functional evidences, PMID:8061005, 8288548, 9056261, 9715904, 11106368, 16452168" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8061005, 8288548, 9056261, 9715904, 11106368, 16452168; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="adenylate kinase" /protein_id="NP_388018.1" /db_xref="EnsemblGenomes-Gn:BSU01370" /db_xref="EnsemblGenomes-Tr:CAB11913" /db_xref="GOA:P16304" /db_xref="InterPro:IPR000850" /db_xref="InterPro:IPR006259" /db_xref="InterPro:IPR007862" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR033690" /db_xref="PDB:1P3J" /db_xref="PDB:2EU8" /db_xref="PDB:2OO7" /db_xref="PDB:2ORI" /db_xref="PDB:2OSB" /db_xref="PDB:2P3S" /db_xref="PDB:2QAJ" /db_xref="PDB:3DKV" /db_xref="PDB:3DL0" /db_xref="PDB:4MKF" /db_xref="PDB:4MKG" /db_xref="PDB:4MKH" /db_xref="PDB:4QBF" /db_xref="PDB:4QBG" /db_xref="PDB:4TYP" /db_xref="PDB:4TYQ" /db_xref="SubtiList:BG10446" /db_xref="UniProtKB/Swiss-Prot:P16304" /translation="MNLVLMGLPGAGKGTQGERIVEDYGIPHISTGDMFRAAMKEETP LGLEAKSYIDKGELVPDEVTIGIVKERLGKDDCERGFLLDGFPRTVAQAEALEEILEE YGKPIDYVINIEVDKDVLMERLTGRRICSVCGTTYHLVFNPPKTPGICDKDGGELYQR ADDNEETVSKRLEVNMKQTQPLLDFYSEKGYLANVNGQQDIQDVYADVKDLLGGLKK* " gene 145877..146530 /gene="adk" /locus_tag="BSU_01370" /old_locus_tag="BSU01370" CDS 146527..147273 /gene="mapA" /locus_tag="BSU_01380" /old_locus_tag="BSU01380" /EC_number="3.4.11.18" /function="16.11: Scavenge (Catabolism)" /function="16.6: Maintain" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:16207374, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16207374, 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="methionine aminopeptidase" /protein_id="NP_388019.1" /db_xref="EnsemblGenomes-Gn:BSU01380" /db_xref="EnsemblGenomes-Tr:CAB11914" /db_xref="GOA:P19994" /db_xref="InterPro:IPR000994" /db_xref="InterPro:IPR001714" /db_xref="InterPro:IPR002467" /db_xref="InterPro:IPR036005" /db_xref="SubtiList:BG10447" /db_xref="UniProtKB/Swiss-Prot:P19994" /translation="MIICKTPRELGIMREAGRIVALTHEELKKHIKPGISTKELDQIA ERFIKKQGAIPSFKGYNGFRGSICVSVNEELVHGIPGSRVLKDGDIISIDIGAKLNGY HGDSAWTYPVGNISDDDKKLLEVTEESLYKGLQEAKPGERLSNISHAIQTYVENEQFS VVREYVGHGVGQDLHEDPQIPHYGPPNKGPRLKPGMVLAIEPMVNAGSRYVKTLADNW TVVTVDGKKCAHFEHTIAITETGFDILTRV*" gene 146527..147273 /gene="mapA" /locus_tag="BSU_01380" /old_locus_tag="BSU01380" CDS 147312..147536 /gene="ybzG" /locus_tag="BSU_01389" /old_locus_tag="BSU01389" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 17157877; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative ribosome binding protein" /protein_id="YP_003097669.1" /db_xref="EnsemblGenomes-Gn:BSU01389" /db_xref="EnsemblGenomes-Tr:CAX52539" /db_xref="UniProtKB/Swiss-Prot:C0H3S8" /translation="MIGQKAWVNIGKTEFILLLVVGILTIINVLTADGEKRTFHSPKK KNINHLTLYDCVSPEVQNSINETGRVTNFF*" gene 147312..147536 /gene="ybzG" /locus_tag="BSU_01389" /old_locus_tag="BSU01389" CDS 147585..147803 /gene="infA" /locus_tag="BSU_01390" /old_locus_tag="BSU01390" /function="16.3: Control" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 9868784, 20477873, 22720735; Product type f: factor" /codon_start=1 /transl_table=11 /product="initiation factor IF-I" /protein_id="NP_388020.1" /db_xref="EnsemblGenomes-Gn:BSU01390" /db_xref="EnsemblGenomes-Tr:CAB11915" /db_xref="GOA:P20458" /db_xref="InterPro:IPR004368" /db_xref="InterPro:IPR006196" /db_xref="InterPro:IPR012340" /db_xref="InterPro:IPR022967" /db_xref="SubtiList:BG11043" /db_xref="UniProtKB/Swiss-Prot:P20458" /translation="MAKDDVIEVEGTIVETLPNAMFKVELENGHTVLAHVSGKIRMHF IRILPGDKVTVELSPYDLTRGRITYRYK*" gene 147585..147803 /gene="infA" /locus_tag="BSU_01390" /old_locus_tag="BSU01390" CDS 147837..147950 /gene="rpmJ" /locus_tag="BSU_01400" /old_locus_tag="BSU01400" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:1783905, 23002217, 24335279" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1783905, 23002217, 24335279; Product type f: factor" /codon_start=1 /transl_table=11 /product="ribosomal protein L36 (ribosomal protein B)" /protein_id="NP_388021.1" /db_xref="EnsemblGenomes-Gn:BSU01400" /db_xref="EnsemblGenomes-Tr:CAB11916" /db_xref="GOA:P20278" /db_xref="InterPro:IPR000473" /db_xref="InterPro:IPR035977" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG11042" /db_xref="UniProtKB/Swiss-Prot:P20278" /translation="MKVRPSVKPICEKCKVIRRKGKVMVICENPKHKQKQG*" gene 147837..147950 /gene="rpmJ" /locus_tag="BSU_01400" /old_locus_tag="BSU01400" CDS 147973..148338 /gene="rpsM" /locus_tag="BSU_01410" /old_locus_tag="BSU01410" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12682299, 22720735; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein S13" /protein_id="NP_388022.2" /db_xref="EnsemblGenomes-Gn:BSU01410" /db_xref="EnsemblGenomes-Tr:CAB11917" /db_xref="GOA:P20282" /db_xref="InterPro:IPR001892" /db_xref="InterPro:IPR010979" /db_xref="InterPro:IPR018269" /db_xref="InterPro:IPR019980" /db_xref="InterPro:IPR027437" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG10730" /db_xref="UniProtKB/Swiss-Prot:P20282" /translation="MARIAGVDIPRDKRVVISLTYIFGIGRTTAQQVLKEAGVSEDTR VRDLTEEELGKIRDIIDKLKVEGDLRREVSLNIKRLIEIGSYRGIRHRRGLPVRGQNS KNNARTRKGPRRTVANKKK*" gene 147973..148338 /gene="rpsM" /locus_tag="BSU_01410" /old_locus_tag="BSU01410" CDS 148359..148754 /gene="rpsK" /locus_tag="BSU_01420" /old_locus_tag="BSU01420" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:10217780, 12682299, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10217780, 12682299, 22720735; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein S11 (BS11)" /protein_id="NP_388023.1" /db_xref="EnsemblGenomes-Gn:BSU01420" /db_xref="EnsemblGenomes-Tr:CAB11918" /db_xref="GOA:P04969" /db_xref="InterPro:IPR001971" /db_xref="InterPro:IPR018102" /db_xref="InterPro:IPR019981" /db_xref="InterPro:IPR036967" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG10731" /db_xref="UniProtKB/Swiss-Prot:P04969" /translation="MAAARKSNTRKRRVKKNIESGIAHIRSTFNNTIVTITDTHGNAI SWSSAGALGFRGSRKSTPFAAQMAAETAAKGSIEHGLKTLEVTVKGPGSGREAAIRAL QAAGLEVTAIRDVTPVPHNGCRPPKRRRV*" gene 148359..148754 /gene="rpsK" /locus_tag="BSU_01420" /old_locus_tag="BSU01420" S_feature 148755..148930 /Source="Nicolas_S_feature" /locus_tag="new_148755_148930" /HighExp="G135, dia5, Lbexp, S0, aero, dia0, T-4.40H, G150, Paraq, C30" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="SigA, SigA, SigA, SigA, SigA, SigA, SigWXY, SigA, SigA" /TUlongPSig="1, 1, 0.997, 1, 1, 0.999, 1, 1, 0.947" /label="S56" CDS 148931..149875 /gene="rpoA" /locus_tag="BSU_01430" /old_locus_tag="BSU01430" /EC_number="2.7.7.6" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:1484484, 6811591, 9594570, 10972808, 12682299, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1484484, 6811591, 9594570, 10972808, 12682299, 22720735; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="RNA polymerase (alpha subunit)" /protein_id="NP_388024.1" /db_xref="EnsemblGenomes-Gn:BSU01430" /db_xref="EnsemblGenomes-Tr:CAB11919" /db_xref="GOA:P20429" /db_xref="InterPro:IPR011260" /db_xref="InterPro:IPR011262" /db_xref="InterPro:IPR011263" /db_xref="InterPro:IPR011773" /db_xref="InterPro:IPR036603" /db_xref="InterPro:IPR036643" /db_xref="PDB:1Z3E" /db_xref="PDB:3GFK" /db_xref="PDB:3IHQ" /db_xref="SubtiList:BG10732" /db_xref="UniProtKB/Swiss-Prot:P20429" /translation="MIEIEKPKIETVEISDDAKFGKFVVEPLERGYGTTLGNSLRRIL LSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTTIILHIKKLALKIYSDEEKTLEIDVQ GEGTVTAADITHDSDVEILNPDLHIATLGENASFRVRLTAQRGRGYTPADANKRDDQP IGVIPIDSIYTPVSRVSYQVENTRVGQVANYDKLTLDVWTDGSTGPKEAIALGSKILT EHLNIFVGLTDEAQHAEIMVEKEEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQE LANKTEEDMMKVRNLGRKSLEEVKAKLEELGLGLRKDD*" gene 148931..149875 /gene="rpoA" /locus_tag="BSU_01430" /old_locus_tag="BSU01430" CDS 149953..150315 /gene="rplQ" /locus_tag="BSU_01440" /old_locus_tag="BSU01440" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:6801428, 10717392, 12682299" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 6801428, 10717392, 12682299; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein L17 (BL15)" /protein_id="NP_388025.1" /db_xref="EnsemblGenomes-Gn:BSU01440" /db_xref="EnsemblGenomes-Tr:CAB11920" /db_xref="GOA:P20277" /db_xref="InterPro:IPR000456" /db_xref="InterPro:IPR036373" /db_xref="PDB:3J3V" /db_xref="PDB:3J3W" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG11041" /db_xref="UniProtKB/Swiss-Prot:P20277" /translation="MSYRKLGRTSAQRKAMLRDLTTDLIINERIETTETRAKELRSVV EKMITLGKRGDLHARRQAAAYIRNEVANEENNQDALQKLFSDIATRYEERQGGYTRIM KLGPRRGDGAPMAIIELV*" gene 149953..150315 /gene="rplQ" /locus_tag="BSU_01440" /old_locus_tag="BSU01440" downshifts 150317 /Source="Nicolas_upshifts" /id="D52" /incds=0 /nref=171 /ntot=259 /MaxReadThrough="7.50771" /MaxDrop="5.4374" /score="2.32634618" /energy="-10.5" /TU="U98" /idTUdmin="U98" /TUdmin="-5577" /isTUend="FALSE" S_feature 150362..150442 /Source="Nicolas_S_feature" /locus_tag="new_150362_150442" /HighExp="Cold, G180, G135, G150, H2O2, S0, C30, Oxctl, Paraq, Lbexp" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="SigA, SigA, SigA, SigA, SigA, SigA, SigWXY, SigA, SigA" /TUlongPSig="1, 1, 0.997, 1, 1, 0.999, 1, 1, 0.947" /label="S57" CDS 150443..151288 /gene="ecfA" /locus_tag="BSU_01450" /old_locus_tag="BSU01450" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12110480, 21135102, 26052893; Product type t: transporter" /codon_start=1 /transl_table=11 /product="energizing coupling factor of ABC influx transporter (ATP-binding protein)" /protein_id="NP_388026.2" /db_xref="EnsemblGenomes-Gn:BSU01450" /db_xref="EnsemblGenomes-Tr:CAB11921" /db_xref="GOA:P40735" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR015856" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR030947" /db_xref="SubtiList:BG11067" /db_xref="UniProtKB/Swiss-Prot:P40735" /translation="MNQNQLISVEDIVFRYRKDAERRALDGVSLQVYEGEWLAIVGHN GSGKSTLARALNGLILPESGDIEVAGIQLTEESVWEVRKKIGMVFQNPDNQFVGTTVR DDVAFGLENNGVPREEMIERVDWAVKQVNMQDFLDQEPHHLSGGQKQRVAIAGVIAAR PDIIILDEATSMLDPIGREEVLETVRHLKEQGMATVISITHDLNEAAKADRIIVMNGG KKYAEGPPEEIFKLNKELVRIGLDLPFSFQLSQLLRENGLALEENHLTQEGLVKELWT LQSKM*" gene 150443..151288 /gene="ecfA" /locus_tag="BSU_01450" /old_locus_tag="BSU01450" CDS 151303..152133 /gene="ecfAB" /locus_tag="BSU_01460" /old_locus_tag="BSU01460" /function="16.1: Circulate" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:12110480, 21135102, 26052893" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12110480, 21135102, 26052893; Product type t: transporter" /codon_start=1 /transl_table=11 /product="energizing coupling factor of ABC influx transporter (ATP-binding protein)" /protein_id="NP_388027.1" /db_xref="EnsemblGenomes-Gn:BSU01460" /db_xref="EnsemblGenomes-Tr:CAB11922" /db_xref="GOA:P70970" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR015856" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR030946" /db_xref="SubtiList:BG11989" /db_xref="UniProtKB/Swiss-Prot:P70970" /translation="MKTPFERLALYDINASIKEGSYVAVIGHTGSGKSTLLQHLNGLL KPTKGQISLGSTVIQAGKKNKDLKKLRKKVGIVFQFPEHQLFEETVLKDISFGPMNFG VKKEDAEQKAREMLQLVGLSEELLDRSPFELSGGQMRRVAIAGVLAMDPEVLVLDEPT AGLDPRGRKEIMDMFYELHQRGNLTTILVTHSMEDAAAYADEMIVMHKGTIQASGSPR DLFLKGEEMAGWGLDLPETIKFQRHLEAALGVRFNEPMLTIEDAAAEIRALFQGEKTL *" gene 151303..152133 /gene="ecfAB" /locus_tag="BSU_01460" /old_locus_tag="BSU01460" CDS 152130..152927 /gene="ecfT" /locus_tag="BSU_01470" /old_locus_tag="BSU01470" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 15849754, 16850406, 18931129, 21135102, 26052893; Product type t : transporter" /codon_start=1 /transl_table=11 /product="component of the influx ECF transporters" /protein_id="NP_388028.2" /db_xref="EnsemblGenomes-Gn:BSU01470" /db_xref="EnsemblGenomes-Tr:CAB11923" /db_xref="GOA:P70972" /db_xref="InterPro:IPR003339" /db_xref="InterPro:IPR024919" /db_xref="SubtiList:BG11990" /db_xref="UniProtKB/Swiss-Prot:P70972" /translation="MMDSMIIGKYVPGTSLVHRLDPRTKLITIFLFVCIVFLANNVQT YALLGLFTIGVVSLTRVPFSFLMKGLKPIIWIVLFTFLLHILMTHEGPIIFQIGFFKV YEGGLVQGIFISLRFVYLILITTLLTLTTTPIEITDGMEQLLNPLKKLKLPVHELALM MSISLRFIPTLMEETDKIMKAQMARGVDFTSGPVKERVKAIVPLLVPLFVSAFKRAEE LAVAMEARGYQGGEGRTKYRKLVWTGKDTSVIVSLIVLAALLFFLRA*" gene 152130..152927 /gene="ecfT" /locus_tag="BSU_01470" /old_locus_tag="BSU01470" CDS 152937..153680 /gene="truA" /locus_tag="BSU_01480" /old_locus_tag="BSU01480" /EC_number="5.4.99.12" /function="16.6: Maintain" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 10529181, 15353568, 17114947, 17466622; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="tRNA pseudouridine (38-40) synthase" /protein_id="NP_388029.2" /db_xref="EnsemblGenomes-Gn:BSU01480" /db_xref="EnsemblGenomes-Tr:CAB11924" /db_xref="GOA:P70973" /db_xref="InterPro:IPR001406" /db_xref="InterPro:IPR020095" /db_xref="InterPro:IPR020097" /db_xref="InterPro:IPR020103" /db_xref="SubtiList:BG11992" /db_xref="UniProtKB/Swiss-Prot:P70973" /translation="MRLKCTISYDGHLFNGYQVQPGKRTVQDELEKALAVLHKSKDRI PVVSSGRTDSGVHAAGQVIHFDTPLSIPAERWPYALNALLPDDIAVKQAEIADDGFHA RFSAVKKEYRYFVYTEKHPDVFKRHYAYHFSYRLNVQDMREAAKHLIGTHDFTSFCAA KTEVQDKVRTIYELDWTETADGLQMRITGSGFLYNMVRIIAGTLLDAGIGKISPDEVK SMLEAKDREAAGRTAPGHGLYLWNVYYDN*" gene 152937..153680 /gene="truA" /locus_tag="BSU_01480" /old_locus_tag="BSU01480" S_feature complement(153039..153507) /Source="Nicolas_S_feature" /locus_tag="new_153039_153507_c" /HighExp="S6, S8, S7, C30, G135, BT, S5, C90, M/G, Pyr" /AntisenseName="truA" /AntisenseCor="-0.30232258010971202" /AntisenseRegPval="-6.4" /CDS_PredictionProba="NA" /TUshortSig="SigK" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S58" promotor_-35 153172..153177 /Source="Nicolas_upshift_promotors" /id="U100" /multdbtbs="-" /comp="M10" /sig="Sig-" /pcomp="0.478521478521479" /psig="0.478521478521479" /xcortree=2469 /SigmaFactorBS="cggctgagagatggccatatgCCTTAAatgcactgcttccgG ACGATATCGCAGTCAAAcaggcagaaattgcggatgatgggttccatgcacgatttag c" /listShort="NA, rplM, rpsI, S59, ybaJ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 153192..153209 /Source="Nicolas_upshift_promotors" /id="U100" /multdbtbs="-" /comp="M10" /sig="Sig-" /pcomp="0.478521478521479" /psig="0.478521478521479" /xcortree=2469 /SigmaFactorBS="cggctgagagatggccatatgCCTTAAatgcactgcttccgG ACGATATCGCAGTCAAAcaggcagaaattgcggatgatgggttccatgcacgatttag c" /listShort="NA, rplM, rpsI, S59, ybaJ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 153211 /Source="Nicolas_upshifts" /id="U100" /multdbtbs="-" /comp="M10" /sig="Sig-" /pcomp="0.478521478521479" /psig="0.478521478521479" /xcortree=2469 /SigmaFactorBS="cggctgagagatggccatatgCCTTAAatgcactgcttccgG ACGATATCGCAGTCAAAcaggcagaaattgcggatgatgggttccatgcacgatttag c" /listShort="NA, rplM, rpsI, S59, ybaJ" /GFF_Attribute="listLong" promotor_-10 complement(153507..153526) /Source="Nicolas_upshift_promotors" /id="U101" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1250 /SigmaFactorBS="ttcacctcatcgggagaaatttttccaatacctgcatcaagC AAAGTACCCgcaataattctgACCATATTATATAAGAAACCgctgcctgtgatccgca t" /listShort="S58" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(153529) /Source="Nicolas_upshifts" /id="U101" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1250 /SigmaFactorBS="ttcacctcatcgggagaaatttttccaatacctgcatcaagC AAAGTACCCgcaataattctgACCATATTATATAAGAAACCgctgcctgtgatccgca t" /listShort="S58" /GFF_Attribute="listLong" promotor_-35 complement(153539..153548) /Source="Nicolas_upshift_promotors" /id="U101" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1250 /SigmaFactorBS="ttcacctcatcgggagaaatttttccaatacctgcatcaagC AAAGTACCCgcaataattctgACCATATTATATAAGAAACCgctgcctgtgatccgca t" /listShort="S58" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 153700..153706 /Source="Nicolas_upshift_promotors" /id="U102" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.754245754245754" /psig=1 /xcortree=2644 /SigmaFactorBS="ttactatgacaactaaaccaggtgtataatattttCTTGACA gagtctgcataaagTTATAAGATATCATATGGTAtgtatttcaaccccacgataagcc c" /listShort="NA, rplM, rpsI, S59, ybaJ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 153721..153740 /Source="Nicolas_upshift_promotors" /id="U102" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.754245754245754" /psig=1 /xcortree=2644 /SigmaFactorBS="ttactatgacaactaaaccaggtgtataatattttCTTGACA gagtctgcataaagTTATAAGATATCATATGGTAtgtatttcaaccccacgataagcc c" /listShort="NA, rplM, rpsI, S59, ybaJ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 153725 /Source="Nicolas_upshifts" /id="U102" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.754245754245754" /psig=1 /xcortree=2644 /SigmaFactorBS="ttactatgacaactaaaccaggtgtataatattttCTTGACA gagtctgcataaagTTATAAGATATCATATGGTAtgtatttcaaccccacgataagcc c" /listShort="NA, rplM, rpsI, S59, ybaJ" /GFF_Attribute="listLong" misc_RNA 153737..153793 /gene="ldlM" /locus_tag="BSU_misc_RNA_4" /product="putative L13_leader" /note="Evidence 3: Putative function from multiple computational evidences; Product type n: RNA" gene 153737..153793 /gene="ldlM" /locus_tag="BSU_misc_RNA_4" CDS 153842..154279 /gene="rplM" /locus_tag="BSU_01490" /old_locus_tag="BSU01490" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:10781545, 12682299, 23504016, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10781545, 12682299, 23504016, 22720735; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein L13" /protein_id="NP_388030.2" /db_xref="EnsemblGenomes-Gn:BSU01490" /db_xref="EnsemblGenomes-Tr:CAB11925" /db_xref="GOA:P70974" /db_xref="InterPro:IPR005822" /db_xref="InterPro:IPR005823" /db_xref="InterPro:IPR023563" /db_xref="InterPro:IPR036899" /db_xref="PDB:3J3V" /db_xref="PDB:3J3W" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG11970" /db_xref="UniProtKB/Swiss-Prot:P70974" /translation="MRTTPMANASTIERKWLVVDAAGKTLGRLSSEVAAILRGKHKPT YTPHVDTGDHVIIINAEKIELTGKKLTDKIYYRHTQHPGGLKSRTALEMRTNYPEKML ELAIKGMLPKGSLGRQMFKKLNVYRGSEHPHEAQKPEVYELRG*" gene 153842..154279 /gene="rplM" /locus_tag="BSU_01490" /old_locus_tag="BSU01490" CDS 154300..154692 /gene="rpsI" /locus_tag="BSU_01500" /old_locus_tag="BSU01500" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12682299, 19653700, 22720735; Product type s: structure" /codon_start=1 /transl_table=11 /product="ribosomal protein S9" /protein_id="NP_388031.1" /db_xref="EnsemblGenomes-Gn:BSU01500" /db_xref="EnsemblGenomes-Tr:CAB11926" /db_xref="GOA:P21470" /db_xref="InterPro:IPR000754" /db_xref="InterPro:IPR014721" /db_xref="InterPro:IPR020568" /db_xref="InterPro:IPR020574" /db_xref="InterPro:IPR023035" /db_xref="PDB:3J9W" /db_xref="PDB:5NJT" /db_xref="SubtiList:BG19007" /db_xref="UniProtKB/Swiss-Prot:P21470" /translation="MAQVQYYGTGRRKSSVARVRLVPGEGRIVVNNREISEHIPSAAL IEDIKQPLTLTETAGTYDVLVNVHGGGLSGQAGAIRHGIARALLEADPEYRTTLKRAG LLTRDARMKERKKYGLKGARRAPQFSKR*" gene 154300..154692 /gene="rpsI" /locus_tag="BSU_01500" /old_locus_tag="BSU01500" downshifts 154667 /Source="Nicolas_upshifts" /id="D53" /incds=0 /nref=262 /ntot=282 /MaxReadThrough="4.65387" /MaxDrop="8.11906" /score="30.5093496" /energy="-13.3" /TU="U98,U100,U102" /idTUdmin="U98" /TUdmin="-1227" /isTUend="FALSE" promotor_-35 154809..154816 /Source="Nicolas_upshift_promotors" /id="U103" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.97002997002997" /psig="0.999000999001" /xcortree=2051 /SigmaFactorBS="ctgaatggacgcttgacggggttaagcaaatTGTTTGTTtat aaacggtctcTTTGTAATAATCATGGTAGAtttcattcttattcaattggaagttcgg t" /listShort="S59, ybaJ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 154830..154849 /Source="Nicolas_upshift_promotors" /id="U103" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.97002997002997" /psig="0.999000999001" /xcortree=2051 /SigmaFactorBS="ctgaatggacgcttgacggggttaagcaaatTGTTTGTTtat aaacggtctcTTTGTAATAATCATGGTAGAtttcattcttattcaattggaagttcgg t" /listShort="S59, ybaJ" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 154838..155119 /Source="Nicolas_S_feature" /locus_tag="new_154838_155119" /HighExp="H2O2, G180, G135, Paraq, Diami, dia15, Oxctl, Cold, Heat, G150" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA, Sig-, SigA" /TUshortPSig="0.999, 1, 0.479, 1" /TUlongSig="SigA, SigA, SigA, SigA, SigA, SigA, SigWXY, SigA, SigA" /TUlongPSig="1, 1, 0.997, 1, 1, 0.999, 1, 1, 0.947" /label="S59" upshifts 154838 /Source="Nicolas_upshifts" /id="U103" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.97002997002997" /psig="0.999000999001" /xcortree=2051 /SigmaFactorBS="ctgaatggacgcttgacggggttaagcaaatTGTTTGTTtat aaacggtctcTTTGTAATAATCATGGTAGAtttcattcttattcaattggaagttcgg t" /listShort="S59, ybaJ" /GFF_Attribute="listLong" misc_feature 155118..155137 /Source="Nicolas_upshift_promotors" /id="U104" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.625374625374625" /psig="0.804195804195804" /xcortree=3216 /SigmaFactorBS="gtttttatgaacttttttctaaatatgcaaagggaaagcgat atcaatctagaaataTTTGTTATACTCTATACATTaaagtaaggagaagattcatgaa t" /listShort="ybaJ" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 155121 /Source="Nicolas_upshifts" /id="U104" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.625374625374625" /psig="0.804195804195804" /xcortree=3216 /SigmaFactorBS="gtttttatgaacttttttctaaatatgcaaagggaaagcgat atcaatctagaaataTTTGTTATACTCTATACATTaaagtaaggagaagattcatgaa t" /listShort="ybaJ" /GFF_Attribute="listLong" CDS 155156..155923 /gene="ybaJ" /locus_tag="BSU_01510" /old_locus_tag="BSU01510" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 26582911; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative methyltransferase" /protein_id="NP_388032.2" /db_xref="EnsemblGenomes-Gn:BSU01510" /db_xref="EnsemblGenomes-Tr:CAB11927" /db_xref="GOA:P70976" /db_xref="InterPro:IPR013216" /db_xref="InterPro:IPR029063" /db_xref="SubtiList:BG11994" /db_xref="UniProtKB/Swiss-Prot:P70976" /translation="MNALVAHNSKAWDKKVETGNEWTVAVEQQVIEQAKKGNWDIRVT PMKDVPKDWFPPIKGLKVLCLASGGGQQGPVLAAAGADVTVLDNSEKQLNQDRMIAER DGLTIHTVKGSMDDLSVFNDESFDVIVHPVANVFVENVLPVWKEAYRVLKRNGILISG FVNPVVFLFDTELEQQGVLKVKHSIPYADPEDLPKHKVKKLIENNEALEFGHSLEDQI KGQIDAGFIVTGFYEDKGGFVLDQYIHTYSATRSVKV*" gene 155156..155923 /gene="ybaJ" /locus_tag="BSU_01510" /old_locus_tag="BSU01510" downshifts 155914 /Source="Nicolas_upshifts" /id="D54" /incds=0 /nref=215 /ntot=251 /MaxReadThrough="2.69346" /MaxDrop="6.09641" /score="4.42269359" /energy="-10.3" /TU="NA" /idTUdmin="U100" /TUdmin="-2" /isTUend="TRUE" promotor_-35 156053..156059 /Source="Nicolas_upshift_promotors" /id="U105" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=864 /SigmaFactorBS="ccttcatttgggcgaatttccaaccgaattcgGGCATTGttt catcatccaaaCCTCAAAATAATcggtaaaaggagagtgaatttatatggcagaagta c" /listShort="ybaK, cwlD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 156074..156085 /Source="Nicolas_upshift_promotors" /id="U105" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=864 /SigmaFactorBS="ccttcatttgggcgaatttccaaccgaattcgGGCATTGttt catcatccaaaCCTCAAAATAATcggtaaaaggagagtgaatttatatggcagaagta c" /listShort="ybaK, cwlD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 156081 /Source="Nicolas_upshifts" /id="U105" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=864 /SigmaFactorBS="ccttcatttgggcgaatttccaaccgaattcgGGCATTGttt catcatccaaaCCTCAAAATAATcggtaaaaggagagtgaatttatatggcagaagta c" /listShort="ybaK, cwlD" /GFF_Attribute="listLong" CDS 156109..156552 /gene="ybaK" /locus_tag="BSU_01520" /old_locus_tag="BSU01520" /function="16.8: Protect" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 14679227, 16267290" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388033.1" /db_xref="EnsemblGenomes-Gn:BSU01520" /db_xref="EnsemblGenomes-Tr:CAB11928" /db_xref="GOA:P50862" /db_xref="InterPro:IPR019667" /db_xref="SubtiList:BG11503" /db_xref="UniProtKB/Swiss-Prot:P50862" /translation="MAEVLSFMDVKRQKDFELEKNLLKELSLRQIIQSVKDCLEPLFP FLHDERDIITEGCIDFAIEAYLLGGRFGIFGYYGESMQSISARSAREEEELRMEFFDY LYNWIHEQYATFDKNTVYEAARKFIKDWWTAGFVQREKQCKLRMR*" gene 156109..156552 /gene="ybaK" /locus_tag="BSU_01520" /old_locus_tag="BSU01520" promotor_-35 156552..156557 /Source="Nicolas_upshift_promotors" /id="U106" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=973 /SigmaFactorBS="gttcaaagagaaaaacagtgtaagcttcgcatgcggtaATCA TAtttcccgaccctgtcCCATAGTTATGTAATAACGgacaagcgggaggggaagggat g" /listShort="cwlD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 156573..156591 /Source="Nicolas_upshift_promotors" /id="U106" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=973 /SigmaFactorBS="gttcaaagagaaaaacagtgtaagcttcgcatgcggtaATCA TAtttcccgaccctgtcCCATAGTTATGTAATAACGgacaagcgggaggggaagggat g" /listShort="cwlD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 156574 /Source="Nicolas_upshifts" /id="U106" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=973 /SigmaFactorBS="gttcaaagagaaaaacagtgtaagcttcgcatgcggtaATCA TAtttcccgaccctgtcCCATAGTTATGTAATAACGgacaagcgggaggggaagggat g" /listShort="cwlD" /GFF_Attribute="listLong" CDS 156612..157325 /gene="cwlD" /locus_tag="BSU_01530" /old_locus_tag="BSU01530" /EC_number="3.5.1.28" /function="16.13: Shape" /function="16.8: Protect" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:14679227, 16267290" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14679227, 16267290; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="N-acetylmuramoyl-L-alanine amidase" /protein_id="NP_388034.1" /db_xref="EnsemblGenomes-Gn:BSU01530" /db_xref="EnsemblGenomes-Tr:CAB11929" /db_xref="GOA:P50864" /db_xref="InterPro:IPR002508" /db_xref="InterPro:IPR014234" /db_xref="SubtiList:BG11514" /db_xref="UniProtKB/Swiss-Prot:P50864" /translation="MRKKLKWLSFLLGFIILLFLFKYQFSNNDSWKPWSLPLSGKIIY LDPGHGGPDGGAVGGKLLEKDVTLEVAFRVRDYLQEQGALVIMTRESDTDLAPEGTKG YSRRKAEDLRQRVKLINHSEAELYISIHLNAIPSQKWSGAQSFYYGKYAENEKVAKYI QDELRRNLENTTRKAKRIHGIYLMQNVTKPGALIEVGFLSNPSEATLLGKPKYQDKVA SSIYKGILRYFTEKGDPPE*" gene 156612..157325 /gene="cwlD" /locus_tag="BSU_01530" /old_locus_tag="BSU01530" upshifts 157370 /Source="Nicolas_upshifts" /id="U107" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.965034965034965" /psig="0.998001998001998" /xcortree=3187 /SigmaFactorBS="agaccctccggagtaatggagggttttcttgtggttctaagc ataagacacccgccatttatgTATGATATAATAATAATTGTaaacgaatacacaaaag g" /listShort="salA, S61, kbaA, S63, S64, rrnI-16S" /GFF_Attribute="listLong" misc_feature 157373..157392 /Source="Nicolas_upshift_promotors" /id="U107" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.965034965034965" /psig="0.998001998001998" /xcortree=3187 /SigmaFactorBS="agaccctccggagtaatggagggttttcttgtggttctaagc ataagacacccgccatttatgTATGATATAATAATAATTGTaaacgaatacacaaaag g" /listShort="salA, S61, kbaA, S63, S64, rrnI-16S" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" CDS 157421..158479 /gene="salA" /locus_tag="BSU_01540" /old_locus_tag="BSU01540" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:11790741, 15126467, 26094643" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11790741, 15126467, 26094643; Product type r: regulator" /codon_start=1 /transl_table=11 /product="phosphorylation-dependent (Y327) transcriptionalregulator" /protein_id="NP_388035.1" /db_xref="EnsemblGenomes-Gn:BSU01540" /db_xref="EnsemblGenomes-Tr:CAB11930" /db_xref="GOA:P50863" /db_xref="InterPro:IPR000808" /db_xref="InterPro:IPR019591" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR033756" /db_xref="InterPro:IPR034904" /db_xref="SubtiList:BG11494" /db_xref="UniProtKB/Swiss-Prot:P50863" /translation="MIREDEVRKLVGEMREPFLQRPLGELDAVKEIKIKPEKRHISVK VALAKTGTAEQMQIQQEIVNVLKGAGAETVGLRFEELPEETVAKFRAPSAEKKTLLNM DNPPVFLAVASGKGGVGKSTVSVNLAISLARLGKKVGLIDADIYGFSVPDMMGITVRP TIEGEKLLPVERFGVKVMSMGFFVEENAPVVWRGPMLGKMLNNFFHEVEWGEVDYIVL DLPPGTGDVALDVHTMLPSCKEIIVSTPHPTAAFVAARAGSMAIKTDHEVVGVIENMA YYESAKTGEREYVFGKGGGDKLAEELNVPLLGRIPLKQPDWDKDQFAPSVYDENHPIG EIYQDIAKKIDAKMSVQV*" gene 157421..158479 /gene="salA" /locus_tag="BSU_01540" /old_locus_tag="BSU01540" S_feature complement(158050..158514) /Source="Nicolas_S_feature" /locus_tag="new_158050_158514_c" /HighExp="S8, S7, S6, S5, C30, S4, C90, nit, ferm, Gly" /AntisenseName="salA" /AntisenseCor="-0.104183954485248" /AntisenseRegPval="-1.1000000000000001" /CDS_PredictionProba="NA" /TUshortSig="SigGF" /TUshortPSig="0.996" /TUlongSig="NA" /TUlongPSig="NA" /label="S60" downshifts 158465 /Source="Nicolas_upshifts" /id="D55" /incds=0 /nref=29 /ntot=155 /MaxReadThrough="5.44939" /MaxDrop="4.18382" /score="-4.46878413" /energy="-9.1" /TU="U107" /idTUdmin="U106" /TUdmin=1185 /isTUend="FALSE" S_feature 158510..159181 /Source="Nicolas_S_feature" /locus_tag="new_158510_159181" /HighExp="Lbtran, H2O2, Cold, Lbstat, dia5, M40t45, M0t90, M40t90, T0.30H, S1" /AntisenseName="gerD" /AntisenseCor="-0.24235509346425901" /AntisenseRegPval="-4.2" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S61" CDS complement(158515..159072) /gene="gerD" /locus_tag="BSU_01550" /old_locus_tag="BSU01550" /function="16.13: Shape" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:17122337, 10618233, 10376819, 24530795" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 17122337, 10618233, 10376819, 24530795; Product type f: factor" /codon_start=1 /transl_table=11 /product="lipoprotein factor mediating clustering of germination proteins" /protein_id="NP_388036.1" /db_xref="EnsemblGenomes-Gn:BSU01550" /db_xref="EnsemblGenomes-Tr:CAB11931" /db_xref="GOA:P16450" /db_xref="SubtiList:BG10644" /db_xref="UniProtKB/Swiss-Prot:P16450" /translation="MSKAKTLLMSCFLLLSVTACAPKDQAADMDYDQTKKMVVDILKT DDGKKAIKELLNDDAMNEALVIDQDAIKGTIEKTLTSKKGEEFWKNIFEDTDFAEGFA KTLQTEHEKVIKKLMKDPDYQKMLMSVMQDPGMDKKYSQLAKSQEFRSYLEEVINETL SSPLYKKQFEDELKKAAKDTAKESE*" gene complement(158515..159072) /gene="gerD" /locus_tag="BSU_01550" /old_locus_tag="BSU01550" promotor_-10 complement(159104..159115) /Source="Nicolas_upshift_promotors" /id="U108" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=925 /SigmaFactorBS="tattcatcccctcaaaaatcgcgaacagcgatattttgttaT GTATAAttccaaacagatgAATCATATTAAAggtaagacaagtatgtgaaaggagctt a" /listShort="gerD, S60" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(159116) /Source="Nicolas_upshifts" /id="U108" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=925 /SigmaFactorBS="tattcatcccctcaaaaatcgcgaacagcgatattttgttaT GTATAAttccaaacagatgAATCATATTAAAggtaagacaagtatgtgaaaggagctt a" /listShort="gerD, S60" /GFF_Attribute="listLong" promotor_-35 complement(159129..159135) /Source="Nicolas_upshift_promotors" /id="U108" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=925 /SigmaFactorBS="tattcatcccctcaaaaatcgcgaacagcgatattttgttaT GTATAAttccaaacagatgAATCATATTAAAggtaagacaagtatgtgaaaggagctt a" /listShort="gerD, S60" /GFF_Attribute="listLong" /label="promotor_-35" S_feature complement(159149..159778) /Source="Nicolas_S_feature" /locus_tag="new_159149_159778_c" /HighExp="S3, T5.0H, S4, S8, M9-stat, T4.0H, T3.30H, S7, T3.0H, S6" /AntisenseName="kbaA" /AntisenseCor="7.9344921760152495E-2" /AntisenseRegPval="-0.7" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S62" CDS 159182..159778 /gene="kbaA" /locus_tag="BSU_01560" /old_locus_tag="BSU01560" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:8576055, 15849754, 16850406" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8576055, 15849754, 16850406; Product type r: regulator" /codon_start=1 /transl_table=11 /product="inner membrane protein involved in activation ofthe KinB signaling pathway to sporulation" /protein_id="NP_388037.1" /db_xref="EnsemblGenomes-Gn:BSU01560" /db_xref="EnsemblGenomes-Tr:CAB11932" /db_xref="GOA:P16449" /db_xref="InterPro:IPR024164" /db_xref="SubtiList:BG10643" /db_xref="UniProtKB/Swiss-Prot:P16449" /translation="MKSRGLVRFFFSILAVGALITSIVGFALKWGEYRGLFLTFEAGQ IFSVLFWFIGVGMIFSVISQMGFFVFLTVHRFALEILRSSSLWNLLQLFFILFVAFDL MYVRFLFFGESGESLAGYAWLPVFLLIFGVITAYIKQKQSSKKTFVSSLFLMVVITAL EWFPALRVNDEDWLYLMLFPLMACNAFQLLMLPKFAAK*" gene 159182..159778 /gene="kbaA" /locus_tag="BSU_01560" /old_locus_tag="BSU01560" S_feature 159779..160673 /Source="Nicolas_S_feature" /locus_tag="new_159779_160673" /HighExp="Lbstat, Lbtran, M0t90, M40t90, H2O2, BC, Glucon, S7, M40t45, S1" /AntisenseName="ybaN" /AntisenseCor="-2.6735901031407501E-2" /AntisenseRegPval="-0.2" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S63" CDS complement(159779..160543) /gene="pdaB" /locus_tag="BSU_01570" /old_locus_tag="BSU01570" /function="16.8: Protect" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:12662922, 15547282, 15598884" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12662922, 15547282, 15598884; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="polysaccharide deacetylase involved in sporulation" /protein_id="NP_388038.1" /db_xref="EnsemblGenomes-Gn:BSU01570" /db_xref="EnsemblGenomes-Tr:CAB11933" /db_xref="GOA:P50865" /db_xref="InterPro:IPR002509" /db_xref="InterPro:IPR011330" /db_xref="InterPro:IPR014132" /db_xref="SubtiList:BG11416" /db_xref="UniProtKB/Swiss-Prot:P50865" /translation="MNHFYVWHIKRVKQLIIILIAAFAAASFFYIQRAVPLPVFSTDT GPKAIYKGETDSKDISLTFDISWGDERAEPILNTLKANGIKNATFFLSASWAERHPDT VARIVKDGHQIGSMGYAYKNYANLESSEIKKDMNRAQTAFEKLGVKDIQLLRPPTGQF NKNVLKVAKQYNYTVVHYSVNSQDWTNPGVEKIIDNVTKQVSGGDIILLHASDSAKQT EEALPDIIHQLKEKGLKNVTVGDLIANSDAKSAEVK*" gene complement(159779..160543) /gene="pdaB" /locus_tag="BSU_01570" /old_locus_tag="BSU01570" promotor_-10 complement(160574..160592) /Source="Nicolas_upshift_promotors" /id="U109" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=979 /SigmaFactorBS="caacacccaatttaggctgtatgtgaagagacattttatcgG TTATAttcaattgtccatgcTCATAAGATGTAAAACAAGaatgatggacaagataagg a" /listShort="ybaN, S62" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(160594) /Source="Nicolas_upshifts" /id="U109" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=979 /SigmaFactorBS="caacacccaatttaggctgtatgtgaagagacattttatcgG TTATAttcaattgtccatgcTCATAAGATGTAAAACAAGaatgatggacaagataagg a" /listShort="ybaN, S62" /GFF_Attribute="listLong" promotor_-35 complement(160608..160613) /Source="Nicolas_upshift_promotors" /id="U109" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=979 /SigmaFactorBS="caacacccaatttaggctgtatgtgaagagacattttatcgG TTATAttcaattgtccatgcTCATAAGATGTAAAACAAGaatgatggacaagataagg a" /listShort="ybaN, S62" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 160651..160658 /Source="Nicolas_upshift_promotors" /id="U110" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp=1 /psig=1 /xcortree=2624 /SigmaFactorBS="gataaaatgtctcttcacatacagcctaaattgggtGTTGAC CTtttgataatatccgTGATATATTATTATTCGTCGctgataaacagctgacatcaac t" /listShort="S64, rrnI-16S, rrnI-23S, rrnI-5S, trnI-Asn, trnI-Thr, trnI-Gly, trnI-Arg, trnI-Pro, trnI-Ala, rrnH-16S, rrnH-23S, rrnH-5S, rrnG-16S" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 160673..160692 /Source="Nicolas_upshift_promotors" /id="U110" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp=1 /psig=1 /xcortree=2624 /SigmaFactorBS="gataaaatgtctcttcacatacagcctaaattgggtGTTGAC CTtttgataatatccgTGATATATTATTATTCGTCGctgataaacagctgacatcaac t" /listShort="S64, rrnI-16S, rrnI-23S, rrnI-5S, trnI-Asn, trnI-Thr, trnI-Gly, trnI-Arg, trnI-Pro, trnI-Ala, rrnH-16S, rrnH-23S, rrnH-5S, rrnG-16S" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 160675..160892 /Source="Nicolas_S_feature" /locus_tag="new_160675_160892" /HighExp="Diami, LBGstat, UNK1, H2O2, MG 15, Oxctl, MG-0.1, BMM, T-1.10H, Paraq" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="1, 0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S64" upshifts 160675 /Source="Nicolas_upshifts" /id="U110" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp=1 /psig=1 /xcortree=2624 /SigmaFactorBS="gataaaatgtctcttcacatacagcctaaattgggtGTTGAC CTtttgataatatccgTGATATATTATTATTCGTCGctgataaacagctgacatcaac t" /listShort="S64, rrnI-16S, rrnI-23S, rrnI-5S, trnI-Asn, trnI-Thr, trnI-Gly, trnI-Arg, trnI-Pro, trnI-Ala, rrnH-16S, rrnH-23S, rrnH-5S, rrnG-16S" /GFF_Attribute="listLong" rRNA 160893..162445 /gene="rrnI-16S" /locus_tag="BSU_rRNA_23" /product="ribosomal RNA-16S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 160893..162445 /gene="rrnI-16S" /locus_tag="BSU_rRNA_23" rRNA 162610..165535 /gene="rrnI-23S" /locus_tag="BSU_rRNA_14" /product="ribosomal RNA-23S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 162610..165535 /gene="rrnI-23S" /locus_tag="BSU_rRNA_14" rRNA 165591..165707 /gene="rrnI-5S" /locus_tag="BSU_rRNA_15" /product="ribosomal RNA-5S" /note="Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 165591..165707 /gene="rrnI-5S" /locus_tag="BSU_rRNA_15" tRNA 165754..165825 /gene="trnI-Asn" /locus_tag="BSU_tRNA_23" /product="tRNA-Asn" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Asn(GUU); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 165754..165825 /gene="trnI-Asn" /locus_tag="BSU_tRNA_23" tRNA 165830..165902 /gene="trnI-Thr" /locus_tag="BSU_tRNA_24" /product="tRNA-Thr" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Thr(GGU); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 165830..165902 /gene="trnI-Thr" /locus_tag="BSU_tRNA_24" tRNA 165959..166033 /gene="trnI-Gly" /locus_tag="BSU_tRNA_25" /product="tRNA-Gly" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Gly(GCC); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 165959..166033 /gene="trnI-Gly" /locus_tag="BSU_tRNA_25" tRNA 166064..166140 /gene="trnI-Arg" /locus_tag="BSU_tRNA_26" /product="tRNA-Arg" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Arg(AGC); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 166064..166140 /gene="trnI-Arg" /locus_tag="BSU_tRNA_26" tRNA 166168..166244 /gene="trnI-Pro" /locus_tag="BSU_tRNA_27" /product="tRNA-Pro" /inference="profile:tRNAscan:1.23" /note="Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 166168..166244 /gene="trnI-Pro" /locus_tag="BSU_tRNA_27" tRNA 166253..166328 /gene="trnI-Ala" /locus_tag="BSU_tRNA_28" /product="tRNA-Ala" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Ala(UGC); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 166253..166328 /gene="trnI-Ala" /locus_tag="BSU_tRNA_28" rRNA 166500..168053 /gene="rrnH-16S" /locus_tag="BSU_rRNA_16" /product="ribosomal RNA-16S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 166500..168053 /gene="rrnH-16S" /locus_tag="BSU_rRNA_16" rRNA 168218..171141 /gene="rrnH-23S" /locus_tag="BSU_rRNA_29" /product="ribosomal RNA-23S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 168218..171141 /gene="rrnH-23S" /locus_tag="BSU_rRNA_29" rRNA 171197..171314 /gene="rrnH-5S" /locus_tag="BSU_rRNA_24" /product="ribosomal RNA-5S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 171197..171314 /gene="rrnH-5S" /locus_tag="BSU_rRNA_24" rRNA 171498..173049 /gene="rrnG-16S" /locus_tag="BSU_rRNA_25" /product="ribosomal RNA-16S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 171498..173049 /gene="rrnG-16S" /locus_tag="BSU_rRNA_25" rRNA 173214..176141 /gene="rrnG-23S" /locus_tag="BSU_rRNA_27" /product="ribosomal RNA-23S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 173214..176141 /gene="rrnG-23S" /locus_tag="BSU_rRNA_27" rRNA 176197..176315 /gene="rrnG-5S" /locus_tag="BSU_rRNA_28" /product="ribosomal RNA-5S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 176197..176315 /gene="rrnG-5S" /locus_tag="BSU_rRNA_28" S_feature 176316..176924 /Source="Nicolas_S_feature" /locus_tag="new_176316_176924" /HighExp="G180, G135, C30, Oxctl, Paraq, Cold, G150, H2O2, Heat, LBGstat" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S65" promotor_-35 176892..176896 /Source="Nicolas_upshift_promotors" /id="U111" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.95104895104895" /psig=1 /xcortree=2510 /SigmaFactorBS="tgagccatttttttcttcagcaatcaTCTTGcgtaattgata aaaaTTTATTATGATACTCTTTGTatgacaactccttgcctcaatacaatatactcaa c" /listShort="S66, ybaR" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 176912..176931 /Source="Nicolas_upshift_promotors" /id="U111" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.95104895104895" /psig=1 /xcortree=2510 /SigmaFactorBS="tgagccatttttttcttcagcaatcaTCTTGcgtaattgata aaaaTTTATTATGATACTCTTTGTatgacaactccttgcctcaatacaatatactcaa c" /listShort="S66, ybaR" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 176926..177082 /Source="Nicolas_S_feature" /locus_tag="new_176926_177082" /HighExp="LBGstat, G180, G135, dia15, C30, Oxctl, LPhT, G150, Heat, H2O2" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S66" upshifts 176926 /Source="Nicolas_upshifts" /id="U111" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.95104895104895" /psig=1 /xcortree=2510 /SigmaFactorBS="tgagccatttttttcttcagcaatcaTCTTGcgtaattgata aaaaTTTATTATGATACTCTTTGTatgacaactccttgcctcaatacaatatactcaa c" /listShort="S66, ybaR" /GFF_Attribute="listLong" CDS 177083..178519 /gene="ybaR" /locus_tag="BSU_01580" /old_locus_tag="BSU01580" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative permease" /protein_id="NP_388039.1" /db_xref="EnsemblGenomes-Gn:BSU01580" /db_xref="EnsemblGenomes-Tr:CAB11934" /db_xref="GOA:P55189" /db_xref="InterPro:IPR001902" /db_xref="InterPro:IPR002645" /db_xref="InterPro:IPR011547" /db_xref="InterPro:IPR018045" /db_xref="InterPro:IPR036513" /db_xref="SubtiList:BG11562" /db_xref="UniProtKB/Swiss-Prot:P55189" /translation="MNNSFTLKQQWFGNIRKDILAGILVALALIPEAIGFSIIAGVDP MVGLYASFCIAIIISIFGGRPGMISAATGSMAVVMVSLVADHGLQYLFAATILTGIIQ VILGISKIARLMKFIPRSVMIGFVNALAILIFSAQLPQFEGASWSMYAMLAGSLVIIY VLPRFTTAVPSPLVAIIVMTIIAVTFHVDVRTVGDMGNISSSLPHFLIPDVPFTFETL QIIFPYSIALAFVGLLESLLTAQIIDEMTDTDSDKNKESRGQGIANIVTGFFGGMAGC AMIGQSVINTKAGGRGRLSAFVAGAFLMFLIAVLSHVVVKIPMAALVAVMVMVSVGTF DWSSLKGLKKAPLTDSIVMVVTVVTVVVTDDLSKGVFVGVLLSAVFFVAKISKLKIVS HAEDQKLRTYQVKGQIFFASVTDLTNAFIYQEDIERVVIDLTEAHVWDDSGAAALDKI VAKFKEQGIEAELKGLNKASKSLMKQMA*" gene 177083..178519 /gene="ybaR" /locus_tag="BSU_01580" /old_locus_tag="BSU01580" downshifts 178508 /Source="Nicolas_upshifts" /id="D56" /incds=0 /nref=144 /ntot=228 /MaxReadThrough="2.81758" /MaxDrop="4.71162" /score="18.4600501" /energy="-12" /TU="NA" /idTUdmin="U111" /TUdmin="-2" /isTUend="TRUE" promotor_-35 178562..178567 /Source="Nicolas_upshift_promotors" /id="U112" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.653346653346653" /psig="0.707292707292707" /xcortree=1448 /SigmaFactorBS="aatgagatctgggcttttttatatAACATAcacttaagcagc ATTGATATAATAGAGAGAAGagaaattttaaataggggacttgcatatgatgcttcag a" /listShort="ybaS" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 178580..178599 /Source="Nicolas_upshift_promotors" /id="U112" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.653346653346653" /psig="0.707292707292707" /xcortree=1448 /SigmaFactorBS="aatgagatctgggcttttttatatAACATAcacttaagcagc ATTGATATAATAGAGAGAAGagaaattttaaataggggacttgcatatgatgcttcag a" /listShort="ybaS" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 178598 /Source="Nicolas_upshifts" /id="U112" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.653346653346653" /psig="0.707292707292707" /xcortree=1448 /SigmaFactorBS="aatgagatctgggcttttttatatAACATAcacttaagcagc ATTGATATAATAGAGAGAAGagaaattttaaataggggacttgcatatgatgcttcag a" /listShort="ybaS" /GFF_Attribute="listLong" CDS 178665..179585 /gene="ybaS" /locus_tag="BSU_01590" /old_locus_tag="BSU01590" /function="7: Transport and binding proteins" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative sodium dependent transporter" /protein_id="NP_388040.2" /db_xref="EnsemblGenomes-Gn:BSU01590" /db_xref="EnsemblGenomes-Tr:CAB11935" /db_xref="GOA:P55190" /db_xref="InterPro:IPR002657" /db_xref="InterPro:IPR004710" /db_xref="SubtiList:BG11563" /db_xref="UniProtKB/Swiss-Prot:P55190" /translation="MPLLTPTSVVLGVLLSQFLNGYEWAVPWIFAFITFAGSLSANFQ SLRHALSHPLPMILALFVLHIFMPLFAWGSGHLIFKGDPLTITGLTLAVVIPTGITSL IWAAMYKGNVGLTLSIILVDTVLSPLIVPLSLSLLAGAQVHMDVWGMMKGLIVMVVIP SFLGMLFNQMSSPERTAFVSSALSPFSKLCLMAVIAINSSAIAPYFKSIDLRFAGIAV TVFFIALTGYAAAWLIGKMMKRRQEEIVSLIFTGGMRNISAGAVLAVTFFPSQVAVPV VIGMLFQQILAALFGYMLNRFELKPMLQKA*" gene 178665..179585 /gene="ybaS" /locus_tag="BSU_01590" /old_locus_tag="BSU01590" downshifts 179566 /Source="Nicolas_upshifts" /id="D57" /incds=0 /nref=33 /ntot=224 /MaxReadThrough="1.3063" /MaxDrop="3.58628" /score="13.3102824" /energy="-10.5" /TU="NA" /idTUdmin="U112" /TUdmin=0 /isTUend="TRUE" CDS complement(179595..180347) /gene="eesA" /locus_tag="BSU_01600" /old_locus_tag="BSU01600" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:12354229, 2974033, 17725565, 22210890, 28283524" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12354229, 2974033, 17725565, 22210890, 28283524; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="iron-chelator (enterobactin family) esterase" /protein_id="NP_388041.2" /db_xref="EnsemblGenomes-Gn:BSU01600" /db_xref="EnsemblGenomes-Tr:CAB11936" /db_xref="GOA:P55192" /db_xref="InterPro:IPR000801" /db_xref="InterPro:IPR029058" /db_xref="SubtiList:BG11565" /db_xref="UniProtKB/Swiss-Prot:P55192" /translation="MKGSLSEHKAGNRRFTLYLPPSYSTDSGGFPAVYVQDGSSLFQN QIELLESAFQQQRLPELVLIGIEPENRLDEYTPWPAASLSDRFTDFGGMGYHYLSDIT NQFIPLIEENWNVTREPQSRGMIGASLGGLISMFAILKYPSMFGKIGSISGSYWYENA AETIHISSLKPGTARVFMSIGSEEGREKQSIQRHMLKKTKQVHQSLKEKGFTEDQLCL SIEKGAVHHHKYFCKQFINALEWLYGKNRSTL*" gene complement(179595..180347) /gene="eesA" /locus_tag="BSU_01600" /old_locus_tag="BSU01600" downshifts complement(179619) /Source="Nicolas_upshifts" /id="D58" /incds=0 /nref=15 /ntot=115 /MaxReadThrough="0.3819" /MaxDrop="4.57603" /score="25.9728338" /energy="-10.5" /TU="NA" /idTUdmin="U114" /TUdmin=1 /isTUend="TRUE" CDS complement(180344..181354) /gene="feuC" /locus_tag="BSU_01610" /old_locus_tag="BSU01610" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 2651410, 15849754, 16850406, 27375568; Product type t: transporter" /codon_start=1 /transl_table=11 /product="iron-uptake protein" /protein_id="NP_388042.2" /db_xref="EnsemblGenomes-Gn:BSU01610" /db_xref="EnsemblGenomes-Tr:CAB11937" /db_xref="GOA:P40411" /db_xref="InterPro:IPR000522" /db_xref="InterPro:IPR035568" /db_xref="SubtiList:BG10837" /db_xref="UniProtKB/Swiss-Prot:P40411" /translation="MAKKYALFIALILVVSYFSLTSGSFSVRPAELLSTLFQIDPNPQ YEILLFDLRLPRVVMAAIIGLGLGIAGAVIQAITRNGLADPGILGINAGAGAGIVAFM LLFQGQKEVTSIAAAMGMPLFGLIGGLIAAILIYIFAWHRGNLDSGRIILVGIAINSG FSALSLFLSLKMDPQDYQMAMVWKNGSIWSANWTYITAVLPWMLLFIPILIGKSRLLD TIRFDEDTVRSLGISSNKEKTILLVACVAIISACVSVAGSMAFVGLIAPHISRRLAGV EHRYILPLSGLIGMLLVISADFAGKLFFQPAEVPAGIILAILGVPYFLYLLFKQKKGE NA*" gene complement(180344..181354) /gene="feuC" /locus_tag="BSU_01610" /old_locus_tag="BSU01610" CDS complement(181347..182351) /gene="feuB" /locus_tag="BSU_01620" /old_locus_tag="BSU01620" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 2651410, 15849754, 16850406, 17725565; Product type t: transporter" /codon_start=1 /transl_table=11 /product="ferri-bacillibactin permease" /protein_id="NP_388043.1" /db_xref="EnsemblGenomes-Gn:BSU01620" /db_xref="EnsemblGenomes-Tr:CAB11938" /db_xref="GOA:P40410" /db_xref="InterPro:IPR000522" /db_xref="InterPro:IPR035568" /db_xref="SubtiList:BG10836" /db_xref="UniProtKB/Swiss-Prot:P40410" /translation="MYSKQWTRIILITSPFAIALSLLLSILYGAKHLSTDIVFTSLIH FDPGNTDHQIIWHSRIPRAAGALLIGAALAVSGALMQGITRNYLASPSIMGVSDGSAF IITLCMVLLPQSSSIEMMIYSFIGSALGAVLVFGLAAMMPNGFTPVQLAIIGTVTSML LSSLSAAMSIYFQISQDLSFWYSARLHQMSPDFLKLAAPFFLIGIIMAISLSKKVTAV SLGDDISKSLGQKKKTIKIMAMLSVIILTGSAVALAGKIAFVGLVVPHITRFLVGSDY SRLIPCSCILGGIFLTLCDLASRFINYPFETPIEVVTSIIGVPFFLYLIKRKGGEQNG *" gene complement(181347..182351) /gene="feuB" /locus_tag="BSU_01620" /old_locus_tag="BSU01620" CDS complement(182370..183323) /gene="feuA" /locus_tag="BSU_01630" /old_locus_tag="BSU01630" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:8388528, 16889643, 17725565, 21802011, 22303020, 25355936" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8388528, 16889643, 17725565, 21802011, 22303020, 25355936; Product type lp : lipoprotein" /codon_start=1 /transl_table=11 /product="ferri-bacillibactin-binding lipoprotein" /protein_id="NP_388044.1" /db_xref="EnsemblGenomes-Gn:BSU01630" /db_xref="EnsemblGenomes-Tr:CAB11939" /db_xref="GOA:P40409" /db_xref="InterPro:IPR002491" /db_xref="PDB:2PHZ" /db_xref="PDB:2WHY" /db_xref="PDB:2WI8" /db_xref="PDB:2XUZ" /db_xref="PDB:2XV1" /db_xref="SubtiList:BG10835" /db_xref="UniProtKB/Swiss-Prot:P40409" /translation="MKKISLTLLILLLALTAAACGSKNESTASKASGTASEKKKIEYL DKTYEVTVPTDKIAITGSVESMEDAKLLDVHPQGAISFSGKFPDMFKDITDKAEPTGE KMEPNIEKILEMKPDVILASTKFPEKTLQKISTAGTTIPVSHISSNWKENMMLLAQLT GKEKKAKKIIADYEQDLKEIKTKINDKAKDSKALVIRIRQGNIYIYPEQVYFNSTLYG DLGLKAPNEVKAAKAQELSSLEKLSEMNPDHIFVQFSDDENADKPDALKDLEKNPIWK SLKAVKEDHVYVNSVDPLAQGGTAWSKVRFLKAAAEKLTQN*" gene complement(182370..183323) /gene="feuA" /locus_tag="BSU_01630" /old_locus_tag="BSU01630" promotor_-35 182683..182689 /Source="Nicolas_upshift_promotors" /id="U113" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=157 /SigmaFactorBS="gccttaaggcctaaatcaccgtatagtgtgGAGTTGAaatac acctgttcaGGGTAAATGTAAATGTTGCcttgtctgattctgatgacaagcgcttttg a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 182704..182722 /Source="Nicolas_upshift_promotors" /id="U113" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=157 /SigmaFactorBS="gccttaaggcctaaatcaccgtatagtgtgGAGTTGAaatac acctgttcaGGGTAAATGTAAATGTTGCcttgtctgattctgatgacaagcgcttttg a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 182713 /Source="Nicolas_upshifts" /id="U113" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=157 /SigmaFactorBS="gccttaaggcctaaatcaccgtatagtgtgGAGTTGAaatac acctgttcaGGGTAAATGTAAATGTTGCcttgtctgattctgatgacaagcgcttttg a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" misc_feature complement(183354..183373) /Source="Nicolas_upshift_promotors" /id="U114" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.52947052947053" /psig="0.984015984015984" /xcortree=2097 /SigmaFactorBS="gtccatgataaatcaggaatttgtccatggtgttatatctgt tcattcTCTATAATTCCAATTGATAAtagttatcaattgaacaggaggctctatagat g" /listShort="feuA, feuB, feuC, ybbA" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(183361) /Source="Nicolas_upshifts" /id="U114" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.52947052947053" /psig="0.984015984015984" /xcortree=2097 /SigmaFactorBS="gtccatgataaatcaggaatttgtccatggtgttatatctgt tcattcTCTATAATTCCAATTGATAAtagttatcaattgaacaggaggctctatagat g" /listShort="feuA, feuB, feuC, ybbA" /GFF_Attribute="listLong" CDS complement(183414..185003) /gene="btr" /locus_tag="BSU_01640" /old_locus_tag="BSU01640" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:16889643, 17725565, 17962296, 22210890" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16889643, 17725565, 17962296, 22210890; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional activator (AraC/XylS family) of synthesis and uptake of the siderophore bacillibactin" /protein_id="NP_388045.1" /db_xref="EnsemblGenomes-Gn:BSU01640" /db_xref="EnsemblGenomes-Tr:CAB11940" /db_xref="GOA:P40408" /db_xref="InterPro:IPR002491" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR018060" /db_xref="InterPro:IPR018062" /db_xref="InterPro:IPR020449" /db_xref="SubtiList:BG10834" /db_xref="UniProtKB/Swiss-Prot:P40408" /translation="MQNAVIYQPVQIEYLKKTSDLFSEQQLADSFVLIFHLKGNGYIS IGTNTNPLQKKTLYVCPPNETFGFTPAADGHIDACIIRLLSYIKETGQDIFTPCTESE LAKLKLMNVSHIENLAVRLQELAALWNESSQLSQLKCVIEVQSLIYDLFTASLSDQTD THSAIEKTKHYIETHADTKITLAQLSQMAGISAKHYSESFKKWTGQSVTEFITKTRIT KAKRLMAKSNCKLKEIAHQTGYQDEFYFSRIFKKYTGCSPTSYMKKRRKKIAAYGRGT MGHLIPLHHIPFAAALHPKWTSYYYQHYSTDIPVQLSAYRFNEKWEENLYTLSQAEPD VIVSMDSISPEEQDRLNRIAEVMYLPSEESWRTHFLQTASFLKEESEAEKWLADYDQQ TTAAKKTLQHVQGLRFLFLRLHKQNFYLAHNRSVREVFFGDLGFSSATTADTPSEQAI SLENIANYQADCMMLFLFKEPETIAYYQQLQQTEAWQNLSAVRDNRVYLLSLDPWNEY SACGHERIVQQTVSLLSGDCP*" gene complement(183414..185003) /gene="btr" /locus_tag="BSU_01640" /old_locus_tag="BSU01640" promotor_-10 complement(185044..185063) /Source="Nicolas_upshift_promotors" /id="U115" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.506493506493506" /psig=1 /xcortree=2112 /SigmaFactorBS="tttttttcatgctaaaaacccacccgctttaTATAGGAAaac tttcatttattTGGTACAATTTTTATTGAAAatgattatcaattgaaagcttctgaaa a" /listShort="ybbB, feuA, feuB, feuC, ybbA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(185056) /Source="Nicolas_upshifts" /id="U115" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.506493506493506" /psig=1 /xcortree=2112 /SigmaFactorBS="tttttttcatgctaaaaacccacccgctttaTATAGGAAaac tttcatttattTGGTACAATTTTTATTGAAAatgattatcaattgaaagcttctgaaa a" /listShort="ybbB, feuA, feuB, feuC, ybbA" /GFF_Attribute="listLong" promotor_-35 complement(185078..185085) /Source="Nicolas_upshift_promotors" /id="U115" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.506493506493506" /psig=1 /xcortree=2112 /SigmaFactorBS="tttttttcatgctaaaaacccacccgctttaTATAGGAAaac tttcatttattTGGTACAATTTTTATTGAAAatgattatcaattgaaagcttctgaaa a" /listShort="ybbB, feuA, feuB, feuC, ybbA" /GFF_Attribute="listLong" /label="promotor_-35" downshifts complement(185165) /Source="Nicolas_upshifts" /id="D59" /incds=0 /nref=19 /ntot=58 /MaxReadThrough="1.28464" /MaxDrop="7.13916" /score="9.64466628" /energy="-10.1" /TU="NA" /idTUdmin="U116" /TUdmin=0 /isTUend="TRUE" CDS complement(185194..186438) /gene="ybbC" /locus_tag="BSU_01650" /old_locus_tag="BSU01650" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388046.1" /db_xref="EnsemblGenomes-Gn:BSU01650" /db_xref="EnsemblGenomes-Tr:CAB11941" /db_xref="InterPro:IPR008302" /db_xref="SubtiList:BG10833" /db_xref="UniProtKB/Swiss-Prot:P40407" /translation="MRKTIFAFLTGLMMFGTITAASASPDSKNQTAKKPKVQTGIDTL LPDYKKQLKGKRIGLITNPAGVNTSLKSSVDILYENPDIKLTALFGPEHGVRGDAQAG DEVGSYIDEKTGVPVYSLYGKTKKPTPEMLKNVDILMFDIQDVGTRFYTYIYTMAYAM EAAKENGIPFMVLDRPNPQGGNHIEGPILEPEYASFVGLYPIPLKHGMTIGELASLFN KEFSIDADLTVVKMKHWKRKMDFDDTRLPFVLPSPNMPTVESTFVYPATGLIEGTNIS EGRGTTKPFELIGAPFIKSTELEETLNSLHLPGVTFRAASFTPTFSKHQGTLCHGVQL YVTDRDKFEAVKTGLSVIKTIHDLYPEDFEFLSTGSFDKLAGNGWIRTKIENGTSVEN IINSYEKTLQQFSKTRKKYLIY*" gene complement(185194..186438) /gene="ybbC" /locus_tag="BSU_01650" /old_locus_tag="BSU01650" downshifts complement(185215) /Source="Nicolas_upshifts" /id="D60" /incds=0 /nref=11 /ntot=122 /MaxReadThrough="7.66074" /MaxDrop="4.10379" /score="9.64466628" /energy="-10.1" /TU="U116" /idTUdmin="U116" /TUdmin="-50" /isTUend="FALSE" CDS complement(186452..188380) /gene="nagZ" /locus_tag="BSU_01660" /old_locus_tag="BSU01660" /EC_number="3.2.1.52" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:8063094, 20400549, 20826810, 23177201, 26963691" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8063094, 20400549, 20826810, 23177201, 26963691; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="N-acetylglucosaminidase lipoprotein" /protein_id="NP_388047.1" /db_xref="EnsemblGenomes-Gn:BSU01660" /db_xref="EnsemblGenomes-Tr:CAB11942" /db_xref="GOA:P40406" /db_xref="InterPro:IPR001764" /db_xref="InterPro:IPR002772" /db_xref="InterPro:IPR017853" /db_xref="InterPro:IPR019800" /db_xref="InterPro:IPR036881" /db_xref="InterPro:IPR036962" /db_xref="PDB:3BMX" /db_xref="PDB:3LK6" /db_xref="PDB:3NVD" /db_xref="PDB:4GYJ" /db_xref="PDB:4GYK" /db_xref="SubtiList:BG10832" /db_xref="UniProtKB/Swiss-Prot:P40406" /translation="MRPVFPLILSAVLFLSCFFGARQTEASASKRAIDANQIVNRMSL DEKLGQMLMPDFRNWQKEGESSPQALTKMNDEVASLVKKYQFGGIILFAENVKTTKQT VQLTDDYQKASPKIPLMLSIDQEGGIVTRLGEGTNFPGNMALGAARSRINAYQTGSII GKELSALGINTDFSPVVDINNNPDNPVIGVRSFSSNRELTSRLGLYTMKGLQRQDIAS ALKHFPGHGDTDVDSHYGLPLVSHGQERLREVELYPFQKAIDAGADMVMTAHVQFPAF DDTTYKSKLDGSDILVPATLSKKVMTGLLRQEMGFNGVIVTDALNMKAIADHFGQEEA VVMAVKAGVDIALMPASVTSLKEEQKFARVIQALKEAVKNGDIPEQQINNSVERIISL KIKRGMYPARNSDSTKEKIAKAKKIVGSKQHLKAEKKLAEKAVTVLKNEQHTLPFKPK KGSRILIVAPYEEQTASIEQTIHDLIKRKKIKPVSLSKMNFASQVFKTEHEKQVKEAD YIITGSYVVKNDPVVNDGVIDDTISDSSKWATVFPRAVMKAALQHNKPFVLMSLRNPY DAANFEEAKALIAVYGFKGYANGRYLQPNIPAGVMAIFGQAKPKGTLPVDIPSVTKPG NTLYPLGYGLNIKTGRPL*" gene complement(186452..188380) /gene="nagZ" /locus_tag="BSU_01660" /old_locus_tag="BSU01660" CDS complement(188408..189733) /gene="amiE" /locus_tag="BSU_01670" /old_locus_tag="BSU01670" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:16452451, 20400549" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16452451, 20400549; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="amidase hydrolyzing N-acetylmuramyl-L-Ala bond of MurNAc peptides" /protein_id="NP_388048.2" /db_xref="EnsemblGenomes-Gn:BSU01670" /db_xref="EnsemblGenomes-Tr:CAB11943" /db_xref="InterPro:IPR001466" /db_xref="InterPro:IPR012338" /db_xref="InterPro:IPR022849" /db_xref="SubtiList:BG11566" /db_xref="UniProtKB/Swiss-Prot:O05213" /translation="MKTKTLFIFSAILTLSIFAPNETFAQTAGNLIEPKIINAETAQF STKKLRKVDQMIERDIAAGFPGAVLVVVKDGRIIKKAAYGYSKKYEGSELLRRPAKMK TRTMFDLASNTKMYATNFALQRLVSQGKLDVYEKVSAYLPGFKDQPGDLIKGKDKIRV IDVLQHQSGLPSSFYFYTPEKAGKYYSQERDKTIEYLTKIPLDYQTGTKHVYSDIGYM LLGCIVEKLTGKPLDVYTEQELYKPLRLKHTLYNPLQKGFKPKQFAATERMGNTRDGV IQFPNIRTNTLQGEVHDEKAFYSMDGVSGHAGLFSNADDMAILLQVMLNKGSYRNISL FDQKTADLFTAPSATDPTFALGWRRNGSKSMEWMFGPHASENAYGHTGWTGTVTIIDP AYNLGIALLTNKKHTPVIDPEENPNVFEGDQFPTGSYGSVITAIYEAME*" gene complement(188408..189733) /gene="amiE" /locus_tag="BSU_01670" /old_locus_tag="BSU01670" CDS complement(189790..191157) /gene="murP" /locus_tag="BSU_01680" /old_locus_tag="BSU01680" /EC_number="2.7.1.192" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 15060041, 15849754, 16850406, 10627040, 20400549, 22960854; Product type t : transporter" /codon_start=1 /transl_table=11 /product="N-acetylmuramic acid PTS permease-MurP subunit" /protein_id="NP_388049.3" /db_xref="EnsemblGenomes-Gn:BSU01680" /db_xref="EnsemblGenomes-Tr:CAB11944" /db_xref="GOA:Q797S1" /db_xref="InterPro:IPR001996" /db_xref="InterPro:IPR003352" /db_xref="InterPro:IPR013013" /db_xref="InterPro:IPR018113" /db_xref="InterPro:IPR036878" /db_xref="SubtiList:BG11567" /db_xref="UniProtKB/Swiss-Prot:Q797S1" /translation="MSKENNYHHLAQKILELCGGKSNISSYTHCMTRLRITPYDESKA DAQALRKLDGVLGVVEAETLQIILGTGVVNHVTAAFSKLVSAEEGADVKEAAAKKKAD INRKNATPFKLFLRKIASIFIPLIPALVASGLITGITKAIIQAGWLSADSQIAIILTV IGSGLFTYLGILVGINASKEFGGTPALGALAGILIINPEIAKISLFGEELLPGRGGLI GVLFAAIFIAYTEQFIRRFIPQSLDIIVTPTVSLLITGIVTYVVFMPLGGFISDAITS GLLSILDIGGIAAGFILGATFLPLVVTGLHQGLTPVHMELINSIGNDPLLPILAMGGA GQVGAAFAVFVKTKKTTLRKAIAGGLPSGLLGIGEPLIFGVTLPLGRPFLTACLGAGI GGAFQAYFQVATIAIGVSGLPLSFLVLPSQIILYIVGLFISYAAGFLLTYAFGYKDEM ASQFD*" gene complement(189790..191157) /gene="murP" /locus_tag="BSU_01680" /old_locus_tag="BSU01680" CDS complement(191183..192034) /gene="murR" /locus_tag="BSU_01690" /old_locus_tag="BSU01690" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 20400549; Product type r : regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator MurR-N-acetylmuramic acid" /protein_id="NP_388050.1" /db_xref="EnsemblGenomes-Gn:BSU01690" /db_xref="EnsemblGenomes-Tr:CAB11945" /db_xref="GOA:Q45581" /db_xref="InterPro:IPR000281" /db_xref="InterPro:IPR001347" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR035472" /db_xref="InterPro:IPR036388" /db_xref="PDB:2O3F" /db_xref="SubtiList:BG11569" /db_xref="UniProtKB/Swiss-Prot:Q45581" /translation="MATGGLAIIQSMKHKLPPSERKLADYILAHPHKAIESTVNEISA LANSSDAAVIRLCKSLGLKGFQDLKMRVAGDLAKPTFQGYRDIVPHEPLPSISEKTAG NAIQAIQDTSDLMDYKELERAVSLLLKAHTVHFIGLGASGIVAKDAQQKWLRIHKQAT AFTDTHLVASLIANADKDDIVFAISFSGETQEIVELFAMAKEKGITTISLTQFSQTSV SALADVPLYTAHSNEALIRSAATSSRLAQLFIIDVLFLGMAAEQYETTTGYIDKTRAA IQSMRIK*" gene complement(191183..192034) /gene="murR" /locus_tag="BSU_01690" /old_locus_tag="BSU01690" CDS complement(192051..192965) /gene="murQ" /locus_tag="BSU_01700" /old_locus_tag="BSU01700" /EC_number="4.2.1.126" /function="16.13: Shape" /function="16.11: Scavenge (Catabolism)" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 15983044, 20400549, 16452451; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="D-lactyl ether N-acetylmuramic-6-phosphate acid etherase" /protein_id="NP_388051.1" /db_xref="EnsemblGenomes-Gn:BSU01700" /db_xref="EnsemblGenomes-Tr:CAB11946" /db_xref="GOA:Q45582" /db_xref="InterPro:IPR001347" /db_xref="InterPro:IPR005486" /db_xref="InterPro:IPR005488" /db_xref="SubtiList:BG11570" /db_xref="UniProtKB/Swiss-Prot:Q45582" /translation="MSEPLNLHRLTTESRNSQTVEIHKANTLGILKMINNEDMKVAAA VQEVLPDIKTAVDCAYESFQNGGRLIYTGAGTSGRLGVMDAVECPPTYSVSPDQVIGI MAGGPEAFLQAAEGIEDSEEAGAEDLRNIQLTSNDTVIAIAASGRTPYAAGALRYARK VGAHTIALTCNENSAISKDADHSIEVVVGPEAITGSTRMKAATAHKMILNMISTAVMV KIGKVYENLMVDVNVSNKKLKERAISIIQSLTNASYDTARYTLEQADHHVKTAIVMLK TSTDQKQAQTLLDEANGFIDKAIEHYHP*" gene complement(192051..192965) /gene="murQ" /locus_tag="BSU_01700" /old_locus_tag="BSU01700" promotor_-10 complement(192996..193014) /Source="Nicolas_upshift_promotors" /id="U116" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.25974025974026" /psig="0.681318681318681" /xcortree=765 /SigmaFactorBS="agtgaaataaaatttcaaaaatttaaaaacatAGTTGAAAta tcataacagaaatGAATATACTGAATATTGAGatatatcattttaaaacagggggcat c" /listShort="murQ, ybbH, ybbF, ybbE, ybbD, ybbC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(193009) /Source="Nicolas_upshifts" /id="U116" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.25974025974026" /psig="0.681318681318681" /xcortree=765 /SigmaFactorBS="agtgaaataaaatttcaaaaatttaaaaacatAGTTGAAAta tcataacagaaatGAATATACTGAATATTGAGatatatcattttaaaacagggggcat c" /listShort="murQ, ybbH, ybbF, ybbE, ybbD, ybbC" /GFF_Attribute="listLong" promotor_-35 complement(193030..193037) /Source="Nicolas_upshift_promotors" /id="U116" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.25974025974026" /psig="0.681318681318681" /xcortree=765 /SigmaFactorBS="agtgaaataaaatttcaaaaatttaaaaacatAGTTGAAAta tcataacagaaatGAATATACTGAATATTGAGatatatcattttaaaacagggggcat c" /listShort="murQ, ybbH, ybbF, ybbE, ybbD, ybbC" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(193075..193557) /gene="ybbJ" /locus_tag="BSU_01710" /old_locus_tag="BSU01710" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative acyltransferase" /protein_id="NP_388052.2" /db_xref="EnsemblGenomes-Gn:BSU01710" /db_xref="EnsemblGenomes-Tr:CAB11947" /db_xref="GOA:Q45583" /db_xref="InterPro:IPR000182" /db_xref="InterPro:IPR016181" /db_xref="SubtiList:BG11571" /db_xref="UniProtKB/Swiss-Prot:Q45583" /translation="MTQDISLSFYKPEHLPELQSFTLTNDDKRFTSLPKEVLSQALGI QDRYPVVILKDDLPVGFFILHASKETLASYSNNPFALLLSSLSLTAVHHGKGYAKKAM LLLPAFVSGYFPWCDEIILAVNHLNIRAKHLYMKSGFLDKGRRRIGPLGEQLILHHFL *" gene complement(193075..193557) /gene="ybbJ" /locus_tag="BSU_01710" /old_locus_tag="BSU01710" CDS complement(193570..194025) /gene="ybbK" /locus_tag="BSU_01720" /old_locus_tag="BSU01720" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388053.2" /db_xref="EnsemblGenomes-Gn:BSU01720" /db_xref="EnsemblGenomes-Tr:CAB11948" /db_xref="InterPro:IPR007553" /db_xref="SubtiList:BG11572" /db_xref="UniProtKB/Swiss-Prot:Q45584" /translation="MILVSSCLGGIECRYNGSHAASEKIRKLVDEKKAVMACPELLGG FSTPREPAEIIGGTGEDVLNGTAKIVTASGEDVTELYMEGAAKTLAYAKEINASAVIL KENSPSCGSGFIYNGTFSGKKITGSGVTAALLKQAGYRVISENELNDIL*" gene complement(193570..194025) /gene="ybbK" /locus_tag="BSU_01720" /old_locus_tag="BSU01720" promotor_-10 complement(194051..194070) /Source="Nicolas_upshift_promotors" /id="U117" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.7002997002997" /psig="0.992007992007992" /xcortree=3038 /SigmaFactorBS="ttttttattttcaaactttttaactccttttttaactgaaaa agccTCccaactaaagccatTTATTTTATGATAGAGACAAgcaaagcaagagaggaga a" /listShort="ybbK, ybbJ, murQ, ybbH, ybbF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(194072) /Source="Nicolas_upshifts" /id="U117" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.7002997002997" /psig="0.992007992007992" /xcortree=3038 /SigmaFactorBS="ttttttattttcaaactttttaactccttttttaactgaaaa agccTCccaactaaagccatTTATTTTATGATAGAGACAAgcaaagcaagagaggaga a" /listShort="ybbK, ybbJ, murQ, ybbH, ybbF" /GFF_Attribute="listLong" promotor_-35 complement(194085..194086) /Source="Nicolas_upshift_promotors" /id="U117" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.7002997002997" /psig="0.992007992007992" /xcortree=3038 /SigmaFactorBS="ttttttattttcaaactttttaactccttttttaactgaaaa agccTCccaactaaagccatTTATTTTATGATAGAGACAAgcaaagcaagagaggaga a" /listShort="ybbK, ybbJ, murQ, ybbH, ybbF" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 194145..194152 /Source="Nicolas_upshift_promotors" /id="U118" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.853146853146853" /psig=1 /xcortree=2416 /SigmaFactorBS="tttgaaaataaaaaatttaattttcctCTTTACAAacagggg gtgacctGTATATAATAACTTTTGTCAgctcgacgagaacacaacggcccgttggtca a" /listShort="trnSL-Glu2, trnSL-Val1, trnSL-Thr1, trnSL-Tyr1, trnSL-Gln2, S67" /listLong="sigW, rsiW, S68, ybbP, ybbR, glmM, NA, S69, glmS" /label="promotor_-35" promotor_-10 194167..194186 /Source="Nicolas_upshift_promotors" /id="U118" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.853146853146853" /psig=1 /xcortree=2416 /SigmaFactorBS="tttgaaaataaaaaatttaattttcctCTTTACAAacagggg gtgacctGTATATAATAACTTTTGTCAgctcgacgagaacacaacggcccgttggtca a" /listShort="trnSL-Glu2, trnSL-Val1, trnSL-Thr1, trnSL-Tyr1, trnSL-Gln2, S67" /listLong="sigW, rsiW, S68, ybbP, ybbR, glmM, NA, S69, glmS" /label="promotor_-10" upshifts 194178 /Source="Nicolas_upshifts" /id="U118" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.853146853146853" /psig=1 /xcortree=2416 /SigmaFactorBS="tttgaaaataaaaaatttaattttcctCTTTACAAacagggg gtgacctGTATATAATAACTTTTGTCAgctcgacgagaacacaacggcccgttggtca a" /listShort="trnSL-Glu2, trnSL-Val1, trnSL-Thr1, trnSL-Tyr1, trnSL-Gln2, S67" /listLong="sigW, rsiW, S68, ybbP, ybbR, glmM, NA, S69, glmS" tRNA 194205..194279 /gene="trnSL-Glu2" /locus_tag="BSU_tRNA_75" /product="tRNA-Glu" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Glu(UUC); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 194205..194279 /gene="trnSL-Glu2" /locus_tag="BSU_tRNA_75" tRNA 194283..194358 /gene="trnSL-Val1" /locus_tag="BSU_tRNA_78" /product="tRNA-Val" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Val(UAC); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 194283..194358 /gene="trnSL-Val1" /locus_tag="BSU_tRNA_78" tRNA 194363..194435 /gene="trnSL-Thr1" /locus_tag="BSU_tRNA_76" /product="tRNA-Thr" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Thr(UGU); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 194363..194435 /gene="trnSL-Thr1" /locus_tag="BSU_tRNA_76" tRNA 194458..194542 /gene="trnSL-Tyr1" /locus_tag="BSU_tRNA_77" /product="tRNA-Tyr" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Tyr(GAU); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 194458..194542 /gene="trnSL-Tyr1" /locus_tag="BSU_tRNA_77" tRNA 194547..194621 /gene="trnSL-Gln2" /locus_tag="BSU_tRNA_74" /product="tRNA-Gln" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Gln(UUG); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 194547..194621 /gene="trnSL-Gln2" /locus_tag="BSU_tRNA_74" downshifts 194624 /Source="Nicolas_upshifts" /id="D61" /incds=0 /nref=10 /ntot=91 /MaxReadThrough="4.25215" /MaxDrop="3.84626" /score="25.5087424" /energy="-11.4" /TU="U118" /idTUdmin="U118" /TUdmin="-176" /isTUend="FALSE" S_feature 194669..194786 /Source="Nicolas_S_feature" /locus_tag="new_194669_194786" /HighExp="Paraq, BMM, H2O2, Heat, G180, G135, Oxctl, G150, C30, Lbexp" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S67" promotor_-35 194787..194796 /Source="Nicolas_upshift_promotors" /id="U119" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1680 /SigmaFactorBS="ttcacgaattaccatctacaccctgccaaaaatttgataaac ttattttataaaaaaatTGAAACCTTTtgaaacgaagcTCGTATACATACAGACcggt g" /listShort="sigW, rsiW" /listLong="S68, ybbP, ybbR, glmM, NA, S69, glmS" /label="promotor_-35" upshifts 194788 /Source="Nicolas_upshifts" /id="U119" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1680 /SigmaFactorBS="ttcacgaattaccatctacaccctgccaaaaatttgataaac ttattttataaaaaaatTGAAACCTTTtgaaacgaagcTCGTATACATACAGACcggt g" /listShort="sigW, rsiW" /listLong="S68, ybbP, ybbR, glmM, NA, S69, glmS" promotor_-10 194808..194823 /Source="Nicolas_upshift_promotors" /id="U119" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1680 /SigmaFactorBS="ttcacgaattaccatctacaccctgccaaaaatttgataaac ttattttataaaaaaatTGAAACCTTTtgaaacgaagcTCGTATACATACAGACcggt g" /listShort="sigW, rsiW" /listLong="S68, ybbP, ybbR, glmM, NA, S69, glmS" /label="promotor_-10" CDS 194849..195412 /gene="sigW" /locus_tag="BSU_01730" /old_locus_tag="BSU01730" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11866510, 15130127, 16629676, 21542858, 28319136, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11866510, 15130127, 16629676, 21542858, 28319136, 22720735; Product type r : regulator" /codon_start=1 /transl_table=11 /product="RNA polymerase ECF(extracytoplasmic function)-type sigma factor W" /protein_id="NP_388054.1" /db_xref="EnsemblGenomes-Gn:BSU01730" /db_xref="EnsemblGenomes-Tr:CAB11949" /db_xref="GOA:Q45585" /db_xref="InterPro:IPR000838" /db_xref="InterPro:IPR007627" /db_xref="InterPro:IPR013249" /db_xref="InterPro:IPR013324" /db_xref="InterPro:IPR013325" /db_xref="InterPro:IPR014284" /db_xref="InterPro:IPR014294" /db_xref="InterPro:IPR036388" /db_xref="PDB:5WUQ" /db_xref="PDB:5WUR" /db_xref="SubtiList:BG11573" /db_xref="UniProtKB/Swiss-Prot:Q45585" /translation="MEMMIKKRIKQVKKGDQDAFADIVDIYKDKIYQLCYRMLGNVHE AEDIAQEAFIRAYVNIDSFDINRKFSTWLYRIATNLTIDRIRKKKPDYYLDAEVAGTE GLTMYSQIVADGVLPEDAVVSLELSNTIQQKILKLPDKYRTVIVLKYIDELSLIEIGE ILNIPVGTVKTRIHRGREALRKQLRDL*" gene 194849..195412 /gene="sigW" /locus_tag="BSU_01730" /old_locus_tag="BSU01730" CDS 195426..196052 /gene="rsiW" /locus_tag="BSU_01740" /old_locus_tag="BSU01740" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:15130127, 28319136, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15130127, 28319136, 22720735; Product type r: regulator" /codon_start=1 /transl_table=11 /product="anti-sigma(W) factor" /protein_id="NP_388055.1" /db_xref="EnsemblGenomes-Gn:BSU01740" /db_xref="EnsemblGenomes-Tr:CAB11950" /db_xref="GOA:Q45588" /db_xref="InterPro:IPR027383" /db_xref="PDB:5WUQ" /db_xref="PDB:5WUR" /db_xref="SubtiList:BG11574" /db_xref="UniProtKB/Swiss-Prot:Q45588" /translation="MSCPEQIVQLMHMHLDGDILPKDEHVLNEHLETCEKCRKHFYEM EKSIALVRSTSHVEAPADFTANVMAKLPKEKKRASVKRWFRTHPVIAAAAVFIILMGG GFFNSWHNDHNFSVSKQPNLVVHNHTVTVPEGETVKGDVTVKNGKLIIKGKIDGDVTV VNGEKYMASAGQVTGQIEEINQLFDWTWYKMKSAGKSVLDAFNPNGEE*" gene 195426..196052 /gene="rsiW" /locus_tag="BSU_01740" /old_locus_tag="BSU01740" downshifts complement(195844) /Source="Nicolas_upshifts" /id="D62" /incds=1 /nref=2 /ntot=181 /MaxReadThrough="1.52124" /MaxDrop="3.24828" /score="0.305471631" /energy="-6.9" /TU="NA" /idTUdmin="U120" /TUdmin=0 /isTUend="TRUE" promotor_no_box complement(196002..196102) /Source="Nicolas_upshift_promotors" /id="U120" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.95904095904096" /psig="0.002997002997003" /xcortree=56 /SigmaFactorBS="tgtgccagccctctcagcccgcaaaaaaagagcaaagcggct aacgcgctttactcttctccgttcggattgaatgcatcgagtacacttttccccgcag a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" downshifts 196032 /Source="Nicolas_upshifts" /id="D63" /incds=0 /nref=251 /ntot=269 /MaxReadThrough="4.26924" /MaxDrop="8.34597" /score="7.39786279" /energy="-10.8" /TU="U119" /idTUdmin="U119" /TUdmin="-88" /isTUend="FALSE" upshifts complement(196042) /Source="Nicolas_upshifts" /id="U120" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.95904095904096" /psig="0.002997002997003" /xcortree=56 /SigmaFactorBS="tgtgccagccctctcagcccgcaaaaaaagagcaaagcggct aacgcgctttactcttctccgttcggattgaatgcatcgagtacacttttccccgcag a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 196101..196108 /Source="Nicolas_upshift_promotors" /id="U121" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.73026973026973" /psig=1 /xcortree=1886 /SigmaFactorBS="tctttttttgcgggctgagagggctggcaCATTTCACttgct aaatcgaaaTGTGGTATAATGGGCTCGCTatgtaaagtacatatgcgtaacacgtaaa a" /listShort="S68, ybbP, ybbR, glmM" /listLong="NA, S69, glmS" /label="promotor_-35" promotor_-10 196123..196142 /Source="Nicolas_upshift_promotors" /id="U121" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.73026973026973" /psig=1 /xcortree=1886 /SigmaFactorBS="tctttttttgcgggctgagagggctggcaCATTTCACttgct aaatcgaaaTGTGGTATAATGGGCTCGCTatgtaaagtacatatgcgtaacacgtaaa a" /listShort="S68, ybbP, ybbR, glmM" /listLong="NA, S69, glmS" /label="promotor_-10" S_feature 196132..196212 /Source="Nicolas_S_feature" /locus_tag="new_196132_196212" /HighExp="dia5, Diami, H2O2, dia15, G135, Cold, G180, Paraq, G150, Oxctl" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="SigWXY, SigA" /TUlongPSig="1, 1" /label="S68" upshifts 196132 /Source="Nicolas_upshifts" /id="U121" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.73026973026973" /psig=1 /xcortree=1886 /SigmaFactorBS="tctttttttgcgggctgagagggctggcaCATTTCACttgct aaatcgaaaTGTGGTATAATGGGCTCGCTatgtaaagtacatatgcgtaacacgtaaa a" /listShort="S68, ybbP, ybbR, glmM" /listLong="NA, S69, glmS" CDS 196213..197034 /gene="cdaA" /locus_tag="BSU_01750" /old_locus_tag="BSU01750" /EC_number="2.7.7.85" /function="16.13: Shape" /function="16.3: Control" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:19901023, 21566650, 23192352, 25605729, 25616256, 26240071, 28420751" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 19901023, 21566650, 23192352, 25605729, 25616256, 26240071, 28420751; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="diadenylate cyclase" /protein_id="NP_388056.2" /db_xref="EnsemblGenomes-Gn:BSU01750" /db_xref="EnsemblGenomes-Tr:CAB11951" /db_xref="GOA:Q45589" /db_xref="InterPro:IPR003390" /db_xref="InterPro:IPR014046" /db_xref="InterPro:IPR034701" /db_xref="InterPro:IPR036888" /db_xref="SubtiList:BG11577" /db_xref="UniProtKB/Swiss-Prot:Q45589" /translation="MAFEDIPFLQYLGNAVDILLVWYVIYKLIMVIRGTKAVQLLKGI VVIVLVRMASQYLGLSTLQWLMDQAITWGFLAIIIIFQPELRRALEQLGRGRFFSRSG TPVEEAQQKTIEAITKAINYMAKRRIGALLTIERDTGMGDYIETGIPLNAKVSSELLI NIFIPNTPLHDGAVIMKNNEIAAAACYLPLSESPFISKELGTRHRAAVGISEVTDSLT IIVSEETGGVSVAKNGDLHRELTEEALKEMLEAEFKKNTRDTSSNRWYWRGKKNG*" gene 196213..197034 /gene="cdaA" /locus_tag="BSU_01750" /old_locus_tag="BSU01750" CDS 197027..198478 /gene="cdaR" /locus_tag="BSU_01760" /old_locus_tag="BSU01760" /experiment="publication(s) with functional evidences, PMID:16236721, 17406245, 20094656, 21154411, 22720735, 23192352, 27074767" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16236721, 17406245, 20094656, 21154411, 22720735, 23192352, 27074767; Product type r: regulator" /codon_start=1 /transl_table=11 /product="regulator of diadenylate cyclase activity" /protein_id="NP_388057.2" /db_xref="EnsemblGenomes-Gn:BSU01760" /db_xref="EnsemblGenomes-Tr:CAB11952" /db_xref="GOA:O34659" /db_xref="InterPro:IPR012505" /db_xref="InterPro:IPR015943" /db_xref="SubtiList:BG12703" /db_xref="UniProtKB/Swiss-Prot:O34659" /translation="MDKFLNNRWAVKIIALLFALLLYVAVNSNQAPTPKKPGESFFPT STTDEATLTDIPVKAYYDDENYVVTGVPQTVNVTIKGSTSAVKKARQTKNFEIYADME HLKTGTHKVELKAKNVSDGLTISINPSVTTVTIQERTTKSFPVEVEYYNKSKMKKGYS PEQPIVSPKNVQITGSKNVIDNISLVKASVNLENADETIEKEAKVTVYDKDGNALPVD VEPSVIKITVPVTSPSKKVPFKIERTGSLPDGVSIANIESSPSEVTVYGSQDVLDSLE FIDGVSLDLSKINKDSDIEADIPLPDGVKKISPSKVTLHIEVDSEADQKFENVPIKTV GLSSSQNIEFLDPESQAIDVTAKGSPTNINKLKKSDIELYVNVSDLEDGEHSVKLEVN GPQNVTWSLGRKNAKIKLTSKKSNTSTNDNSSNTSGNQDTDKQTNDQKNNQQEDTKNT DKNNNDQNQDGNKDQNQDQDEDESTANSQSSSE*" gene 197027..198478 /gene="cdaR" /locus_tag="BSU_01760" /old_locus_tag="BSU01760" CDS 198497..199843 /gene="glmM" /locus_tag="BSU_01770" /old_locus_tag="BSU01770" /EC_number="5.4.2.10" /function="16.13: Shape" /function="16.2: Construct biomass (Anabolism)" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:10671448, 10913078, 12089032, 21154411, 26240071, 27074767" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10671448, 10913078, 12089032, 21154411, 26240071, 27074767; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="phosphoglucosamine mutase" /protein_id="NP_388058.1" /db_xref="EnsemblGenomes-Gn:BSU01770" /db_xref="EnsemblGenomes-Tr:CAB11953" /db_xref="GOA:O34824" /db_xref="InterPro:IPR005841" /db_xref="InterPro:IPR005843" /db_xref="InterPro:IPR005844" /db_xref="InterPro:IPR005845" /db_xref="InterPro:IPR005846" /db_xref="InterPro:IPR006352" /db_xref="InterPro:IPR016055" /db_xref="InterPro:IPR016066" /db_xref="InterPro:IPR036900" /db_xref="SubtiList:BG12704" /db_xref="UniProtKB/Swiss-Prot:O34824" /translation="MGKYFGTDGVRGVANSELTPELAFKVGRFGGYVLTKDKQRPKVL IGRDTRISGHMLEGALVAGLLSIGAEVMRLGVISTPGVSYLTKAMDAEAGVMISASHN PVQDNGIKFFGGDGFKLSDEQEAEIERLMDEPEDKLPRPVGADLGLVNDYFEGGQKYL QFLKQTADEDFTGIHVALDCANGATSSLATHLFADLDADVSTMGTSPNGLNINDGVGS THPEALSAFVKEKNADLGLAFDGDGDRLIAVDEKGNIVDGDQIMYICSKHLKSEGRLK DDTVVSTVMSNLGFYKALEKEGIKSVQTAVGDRYVVEAMKKDGYNVGGEQSGHLIFLD YNTTGDGLLSAIMLMNTLKATGKPLSELAAEMQKFPQLLVNVRVTDKYKVEENEKVKA VISEVEKEMNGDGRILVRPSGTEPLVRVMAEAKTKELCDEYVNRIVEVVRSEMGLE*" gene 198497..199843 /gene="glmM" /locus_tag="BSU_01770" /old_locus_tag="BSU01770" downshifts 199838 /Source="Nicolas_upshifts" /id="D64" /incds=0 /nref=126 /ntot=216 /MaxReadThrough="5.32721" /MaxDrop="5.02497" /score="13.5044076" /energy="-17.5" /TU="U121" /idTUdmin="U121" /TUdmin="-110" /isTUend="FALSE" promotor_-35 199862..199870 /Source="Nicolas_upshift_promotors" /id="U122" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.754245754245754" /psig="0.754245754245754" /xcortree=649 /SigmaFactorBS="tccggtcagaaatgggattagagtaacgaagtctattatcag agAGTGAACAAgacaagcgaggttTACATAAGATAATTGTGAGAcatacggcaaagtt g" /listShort="NA, S69, glmS" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 199878 /Source="Nicolas_upshifts" /id="U122" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.754245754245754" /psig="0.754245754245754" /xcortree=649 /SigmaFactorBS="tccggtcagaaatgggattagagtaacgaagtctattatcag agAGTGAACAAgacaagcgaggttTACATAAGATAATTGTGAGAcatacggcaaagtt g" /listShort="NA, S69, glmS" /GFF_Attribute="listLong" promotor_-10 199884..199903 /Source="Nicolas_upshift_promotors" /id="U122" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.754245754245754" /psig="0.754245754245754" /xcortree=649 /SigmaFactorBS="tccggtcagaaatgggattagagtaacgaagtctattatcag agAGTGAACAAgacaagcgaggttTACATAAGATAATTGTGAGAcatacggcaaagtt g" /listShort="NA, S69, glmS" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 199930..199935 /Source="Nicolas_upshift_promotors" /id="U123" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.623376623376623" /psig="0.999000999001" /xcortree=1722 /SigmaFactorBS="tgtgagacatacggcaaagttgcttaaaaaacaATTGACcgt ttatgccacatgTTGTAAAATCAAGCTTGTCTtgttcttattttctcaataggaaaag a" /listShort="NA, S69, glmS" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 199951..199970 /Source="Nicolas_upshift_promotors" /id="U123" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.623376623376623" /psig="0.999000999001" /xcortree=1722 /SigmaFactorBS="tgtgagacatacggcaaagttgcttaaaaaacaATTGACcgt ttatgccacatgTTGTAAAATCAAGCTTGTCTtgttcttattttctcaataggaaaag a" /listShort="NA, S69, glmS" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 199957 /Source="Nicolas_upshifts" /id="U123" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.623376623376623" /psig="0.999000999001" /xcortree=1722 /SigmaFactorBS="tgtgagacatacggcaaagttgcttaaaaaacaATTGACcgt ttatgccacatgTTGTAAAATCAAGCTTGTCTtgttcttattttctcaataggaaaag a" /listShort="NA, S69, glmS" /GFF_Attribute="listLong" misc_feature 200001..200017 /Source="Nicolas_upshift_promotors" /id="U124" /multdbtbs="-" /comp="M18" /sig="Sig-" /pcomp="0.497502497502497" /psig="0.497502497502497" /xcortree=336 /SigmaFactorBS="taaaatcaagcttgtcttgttcttattttctcaataggaaaa gaagaCGGGATTATTGCTTTACctataattatagcgcccgaactaagcgcccggaaaa a" /listShort="NA, S69, glmS" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 200014 /Source="Nicolas_upshifts" /id="U124" /multdbtbs="-" /comp="M18" /sig="Sig-" /pcomp="0.497502497502497" /psig="0.497502497502497" /xcortree=336 /SigmaFactorBS="taaaatcaagcttgtcttgttcttattttctcaataggaaaa gaagaCGGGATTATTGCTTTACctataattatagcgcccgaactaagcgcccggaaaa a" /listShort="NA, S69, glmS" /GFF_Attribute="listLong" misc_RNA 200017..200187 /gene="glmSA" /locus_tag="BSU_misc_RNA_5" /product="riboswitch and ribozyme (GlmS-glucosamine-6-P)" /experiment="publication(s) with functional evidences, PMID:16298301, 16484375, 16990543, 17114942, 17283212, 18079181, 19228039, 21317896, 21395279, 21936556, 25038539, 26240071, 28012261" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16298301, 16484375, 16990543, 17114942, 17283212, 18079181, 19228039, 21317896, 21395279, 21936556, 25038539, 26240071, 28012261; Product type n: RNA" gene 200017..200187 /gene="glmSA" /locus_tag="BSU_misc_RNA_5" S_feature 200188..200276 /Source="Nicolas_S_feature" /locus_tag="new_200188_200276" /HighExp="M40t90, M0t90, M9-stat, Lbstat, T2.30H, T2.0H, T3.0H, T1.30H, T1.0H, T3.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="Sig-, SigA, SigK" /TUshortPSig="0.498, 0.999, 0.754" /TUlongSig="SigA, SigWXY, SigA" /TUlongPSig="1, 1, 1" /label="S69" CDS 200277..202079 /gene="glmS" /locus_tag="BSU_01780" /old_locus_tag="BSU01780" /EC_number="2.6.1.16" /function="16.13: Shape" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12682299, 15029187, 17114942, 17283212, 17322533, 23874669; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="L-glutamine-D-fructose-6-phosphate amidotransferase" /protein_id="NP_388059.1" /db_xref="EnsemblGenomes-Gn:BSU01780" /db_xref="EnsemblGenomes-Tr:CAB11954" /db_xref="GOA:P0CI73" /db_xref="InterPro:IPR001347" /db_xref="InterPro:IPR005855" /db_xref="InterPro:IPR017932" /db_xref="InterPro:IPR029055" /db_xref="InterPro:IPR035466" /db_xref="InterPro:IPR035490" /db_xref="SubtiList:BG10948" /db_xref="UniProtKB/Swiss-Prot:P0CI73" /translation="MCGIVGYIGQLDAKEILLKGLEKLEYRGYDSAGIAVANEQGIHV FKEKGRIADLREVVDANVEAKAGIGHTRWATHGEPSYLNAHPHQSALGRFTLVHNGVI ENYVQLKQEYLQDVELKSDTDTEVVVQVIEQFVNGGLETEEAFRKTLTLLKGSYAIAL FDNDNRETIFVAKNKSPLLVGLGDTFNVVASDAMAMLQVTNEYVELMDKEMVIVTDDQ VVIKNLDGDVITRASYIAELDASDIEKGTYPHYMLKETDEQPVVMRKIIQTYQDENGK LSVPGDIAAAVAEADRIYIIGCGTSYHAGLVGKQYIEMWANVPVEVHVASEFSYNMPL LSKKPLFIFLSQSGETADSRAVLVQVKALGHKALTITNVPGSTLSREADYTLLLHAGP EIAVASTKAYTAQIAVLAVLASVAADKNGINIGFDLVKELGIAANAMEALCDQKDEME MIAREYLTVSRNAFFIGRGLDYFVCVEGALKLKEISYIQAEGFAGGELKHGTIALIEQ GTPVFALATQEHVNLSIRGNVKEVAARGANTCIISLKGLDDADDRFVLPEVNPALAPL VSVVPLQLIAYYAALHRGCDVDKPRNLAKSVTVE*" gene 200277..202079 /gene="glmS" /locus_tag="BSU_01780" /old_locus_tag="BSU01780" S_feature complement(201802..202546) /Source="Nicolas_S_feature" /locus_tag="new_201802_202546_c" /HighExp="S8, S7, S6, S5, S4, BC, S3, Sw, C30, LoTm" /AntisenseName="glmS" /AntisenseCor="4.5056549205256403E-2" /AntisenseRegPval="-0.3" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.963" /TUlongSig="NA" /TUlongPSig="NA" /label="S70" downshifts 202065 /Source="Nicolas_upshifts" /id="D65" /incds=0 /nref=260 /ntot=277 /MaxReadThrough="3.18134" /MaxDrop="7.61794" /score="13.5044076" /energy="-17.5" /TU="NA" /idTUdmin="U122" /TUdmin=2 /isTUend="TRUE" CDS 202126..202266 /gene="ybbU" /locus_tag="BSU_01790" /old_locus_tag="BSU01790" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_009513939.1" /translation="MSKSERTSTVEKWIKEVDGTGPDYRSTMAIDLRCFLIRSVNQVK RH*" gene 202126..202266 /gene="ybbU" /locus_tag="BSU_01790" /old_locus_tag="BSU01790" CDS complement(202547..203458) /gene="alkA" /locus_tag="BSU_01800" /old_locus_tag="BSU01800" /EC_number="3.2.2.21" /function="16.8: Protect" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:7565865, 8376346, 16468998" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7565865, 8376346, 16468998; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="DNA-3-methyladenine glycosylase; prophage 1 region" /protein_id="NP_388061.1" /db_xref="EnsemblGenomes-Gn:BSU01800" /db_xref="EnsemblGenomes-Tr:CAB11956" /db_xref="GOA:P37878" /db_xref="InterPro:IPR000035" /db_xref="InterPro:IPR003265" /db_xref="InterPro:IPR011257" /db_xref="InterPro:IPR012904" /db_xref="InterPro:IPR023170" /db_xref="InterPro:IPR037046" /db_xref="SubtiList:BG10165" /db_xref="UniProtKB/Swiss-Prot:P37878" /translation="MTWHEVNDVIVITLPEIFDMNANLGYLTREKNECMYEIENNIIT KVIAIGEIRSLVQVSVINNKQMIVQFLNDSRPVEQWKREEIVKYIHEWFDLDNDLTPF YEMAKADPLLKMPARKFYGLRVIGIPDLFEALCWGVLGQQINLAFAYSLKKQFVEAFG DSIEWNGKKYWVFPPYERIARLTPTDLADIKMTVKKSEYIIGIARLMASGELSREKLM KMNFKDAEKNLIKIRGIGPWTANYVLMRCLRFPTAFPIDDVGLIHSIKILRNMNRKPT KDEILEISVPWKEWQSYATFYLWRVLY*" gene complement(202547..203458) /gene="alkA" /locus_tag="BSU_01800" /old_locus_tag="BSU01800" misc_feature complement(203505..203524) /Source="Nicolas_upshift_promotors" /id="U125" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.947052947052947" /psig="0.963036963036963" /xcortree=772 /SigmaFactorBS="aaaaaataaggtggttagaatgtaatagcaagataacaaaat gagtaaagatgattaTGTGATAAACTAATTTCAACcagcgtgagttttcttataatta t" /listShort="alkA, S70" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(203521) /Source="Nicolas_upshifts" /id="U125" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.947052947052947" /psig="0.963036963036963" /xcortree=772 /SigmaFactorBS="aaaaaataaggtggttagaatgtaatagcaagataacaaaat gagtaaagatgattaTGTGATAAACTAATTTCAACcagcgtgagttttcttataatta t" /listShort="alkA, S70" /GFF_Attribute="listLong" promotor_-35 203570..203576 /Source="Nicolas_upshift_promotors" /id="U126" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.515484515484515" /psig="0.994005994005994" /xcortree=376 /SigmaFactorBS="ttgttatcttgctattacattctaaccACCTTATttttttct atttatGAGGTTATAGTGTAGTTATCaagaatgctaaacgggagtagataaaaatggc c" /listShort="adaA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 203591..203610 /Source="Nicolas_upshift_promotors" /id="U126" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.515484515484515" /psig="0.994005994005994" /xcortree=376 /SigmaFactorBS="ttgttatcttgctattacattctaaccACCTTATttttttct atttatGAGGTTATAGTGTAGTTATCaagaatgctaaacgggagtagataaaaatggc c" /listShort="adaA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 203603 /Source="Nicolas_upshifts" /id="U126" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.515484515484515" /psig="0.994005994005994" /xcortree=376 /SigmaFactorBS="ttgttatcttgctattacattctaaccACCTTATttttttct atttatGAGGTTATAGTGTAGTTATCaagaatgctaaacgggagtagataaaaatggc c" /listShort="adaA" /GFF_Attribute="listLong" CDS 203729..204364 /gene="adaA" /locus_tag="BSU_01810" /old_locus_tag="BSU01810" /EC_number="2.1.1.63" /function="16.3: Control" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:1744039, 2120677, 7565865, 8376346" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1744039, 2120677, 7565865, 8376346; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="methylphosphotriester-DNA alkyltransferase and transcriptional regulator (AraC/XylS family)" /protein_id="NP_388062.1" /db_xref="EnsemblGenomes-Gn:BSU01810" /db_xref="EnsemblGenomes-Tr:CAB11957" /db_xref="GOA:P19219" /db_xref="InterPro:IPR004026" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR016220" /db_xref="InterPro:IPR018060" /db_xref="InterPro:IPR018062" /db_xref="InterPro:IPR035451" /db_xref="SubtiList:BG10166" /db_xref="UniProtKB/Swiss-Prot:P19219" /translation="MPDSINNGHKESHDHRISNDAEMITDEKWQAIINNDAAYNNQFF YAVKSTGIFCKPSCKSRVPKKENVCIFPNTEQALRANFRPCKRCKPTNEKMPDSEWVD LITEYIDKNFTEKLTLESLADICHGSPYHMHRTFKKIKGITLVEYIQQVRVHAAKKYL IQTNKAIGDIAICVGIANAPYFITLFKKKTGQTPARFRQMSKMEETYNGNK*" gene 203729..204364 /gene="adaA" /locus_tag="BSU_01810" /old_locus_tag="BSU01810" CDS 204351..204890 /gene="adaB" /locus_tag="BSU_01820" /old_locus_tag="BSU01820" /EC_number="2.1.1.63" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:1744039, 2120677, 7565865, 8376346" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1744039, 2120677, 7565865, 8376346; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="O6-methylguanine-DNA methyltransferase; prophage1 region" /protein_id="NP_388063.1" /db_xref="EnsemblGenomes-Gn:BSU01820" /db_xref="EnsemblGenomes-Tr:CAB11958" /db_xref="GOA:P19220" /db_xref="InterPro:IPR001497" /db_xref="InterPro:IPR008332" /db_xref="InterPro:IPR014048" /db_xref="InterPro:IPR036217" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036631" /db_xref="SubtiList:BG10167" /db_xref="UniProtKB/Swiss-Prot:P19220" /translation="METNKPTLYWSLLMFKDWNFYIASTLKGLVFVGSQNKPIEELFE WARKRFPGSLLVEDDDKLEPYAVEITQYLEGKRKNFTVPVEYAGTQFQLAVWNALCEI PYGQTKSYSDIANDINKPAAVRAVGAAIGANPVLITVPCHRVIGKNGSLTGYRGGFEM KTLLLDLEKRASSEMDVPH*" gene 204351..204890 /gene="adaB" /locus_tag="BSU_01820" /old_locus_tag="BSU01820" S_feature 204891..204975 /Source="Nicolas_S_feature" /locus_tag="new_204891_204975" /HighExp="Sw, BC, S8, S6, S7, S3, G135, S4, G180, LPhT" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.77593299999999998" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S71" promotor_-35 204954..204961 /Source="Nicolas_upshift_promotors" /id="U127" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.886113886113886" /psig="0.976023976023976" /xcortree=2989 /SigmaFactorBS="ttcttttagaggaaagtaaagaccagtttactgataaACTTG ACAacttttaaaatttaGCATATCTTATACGTAACTTaataatcgatgcagatgttta t" /listShort="S72, S73, ndhF, ybcC, S74, ybcF, ybcH, ybcI, S75, ybzH" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 204976..204995 /Source="Nicolas_upshift_promotors" /id="U127" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.886113886113886" /psig="0.976023976023976" /xcortree=2989 /SigmaFactorBS="ttcttttagaggaaagtaaagaccagtttactgataaACTTG ACAacttttaaaatttaGCATATCTTATACGTAACTTaataatcgatgcagatgttta t" /listShort="S72, S73, ndhF, ybcC, S74, ybcF, ybcH, ybcI, S75, ybzH" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 204977..205210 /Source="Nicolas_S_feature" /locus_tag="new_204977_205210" /HighExp="HiOs, Heat, HiTm, MG 150, dia15, MG-0.2, Lbtran, GM-0.2, M9-stat, dia5" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.976" /TUlongSig="NA" /TUlongPSig="NA" /label="S72" upshifts 204977 /Source="Nicolas_upshifts" /id="U127" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.886113886113886" /psig="0.976023976023976" /xcortree=2989 /SigmaFactorBS="ttcttttagaggaaagtaaagaccagtttactgataaACTTG ACAacttttaaaatttaGCATATCTTATACGTAACTTaataatcgatgcagatgttta t" /listShort="S72, S73, ndhF, ybcC, S74, ybcF, ybcH, ybcI, S75, ybzH" /GFF_Attribute="listLong" downshifts 205167 /Source="Nicolas_upshifts" /id="D66" /incds=0 /nref=60 /ntot=223 /MaxReadThrough="6.74927" /MaxDrop="5.18296" /score="13.5044076" /energy="-17.5" /TU="U127" /idTUdmin="U126" /TUdmin=1344 /isTUend="FALSE" S_feature 205212..205408 /Source="Nicolas_S_feature" /locus_tag="new_205212_205408" /HighExp="Heat, G135, G180, UNK1, S8, C30, Gly, GM-0.2, G150, S7" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.976" /TUlongSig="NA" /TUlongPSig="NA" /label="S73" CDS 205409..206926 /gene="ndhF" /locus_tag="BSU_01830" /old_locus_tag="BSU01830" /EC_number="1.6.-.-" /function="16.10: Respire" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10658656, 15849754, 16850406, 17015645, 6816592, 7565865; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="putative NADH dehydrogenase; prophage 1 region" /protein_id="NP_388064.1" /db_xref="EnsemblGenomes-Gn:BSU01830" /db_xref="EnsemblGenomes-Tr:CAB11959" /db_xref="GOA:P39755" /db_xref="InterPro:IPR001516" /db_xref="InterPro:IPR001750" /db_xref="SubtiList:BG10949" /db_xref="UniProtKB/Swiss-Prot:P39755" /translation="MLVSLSLSSLLTLFFIMLMASGISGLLFLHPRVPLSFVRIHIGI LALPLLVSLLILANSGVSGNVGPWHLDSLACLMTFFVLAIGFIIQRFSVRYLMGDRSY RKYFTLFTFTTGAASMTWLSGDLRLMVLFWGATLVGLTLLIRLNSAWQVASEAAKISG RLFLLSWFSLFFAMMWLFHATGQWQLSLVVTNESLAGLGEWERTGIQLLIVLAVIIPA AQWPFQRWLVESIVAPTPVSAIMHAGLVNAGGIILTRFSPLFHGGIASIILLLLASIS VLIGTGISLVQVDYKRQLVGSTIGQMGFMLIQCALGAYIAAIIHLILHGLFKATLFLQ AGSAVGRHEVSTRTNERTSYLWVMAGRILSLVIGVAFWLTAPGDGYHLISALILGWSL SVSWDQLVAFGEGRIGRIAGLTVLGGAALVYFIIHHLFYKWLHTTIFQSVQPPMSAVM IVVCLLLFGSALGTWVARHRSSVFFAVLYLWLVRLGEAKPKSVESHPDYLKQYIS*" gene 205409..206926 /gene="ndhF" /locus_tag="BSU_01830" /old_locus_tag="BSU01830" CDS 206941..209556 /gene="ybcC" /locus_tag="BSU_01845" /old_locus_tag="BSU01845" /function="18: Unknown function" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type f: factor" /codon_start=1 /transl_table=11 /product="conserved transmembrane protein coupled to NADH-ubiquinone oxidoreductase chain 5 homolog; prophage 1 region" /protein_id="NP_388065.2" /db_xref="EnsemblGenomes-Gn:BSU01845" /db_xref="EnsemblGenomes-Tr:CAB11960" /db_xref="InterPro:IPR018752" /db_xref="SubtiList:BG12706" /db_xref="UniProtKB/Swiss-Prot:O34688" /translation="MGITSVLTKDNVKKIDTDIDVQERDLNVFITSASRVIAPLWPIS TFAARNPWMGLENQPFDQVASWLKNTRDVDIYPSASMIRSAKNKGEIDEDFVEMGLQR WLDSHSYHIPRDVAERFCHAALKLDPLPSDLLSSHELEKLVSECSGLDHIENVFMQPL SSYIENQDGERLVNILDHHVIKWSKLYLDDSQAGWTMPNREEGFYRAWQHLIQYDPAL SKKQRERVKGWPKEAHLALQEALFALEIPESEIQTYLEGHLLSLPGWAGMMLWRSQQS SHEHALLTEYLAVRISMEWALIKPYLPLTNERSKKTISIAPLIAAWIHWGGLTLEEWS QMTASEQNEYLSFAYSFDEKLRKKLWLEAWEQTYTDRLSQKIISKQRETGREKSALAQ LAFCIDVRSEPFRRQLEKEGPFETIGIAGFFGVPIATCELGSKHSHASLPIIQKPQNK IKEFADEDVFKKYNQRKQAIHSLSHTFKTMKQNALSSLLLPELSGPWLTLQMAARSFV PRKAGRFIRNLREAWLRKPDTKLSLHHDATEAEIPVGFTDEEKVNYARQALKMMGLTE NIAPLVVICGHGSQSTNNPYSAALDCGACGGAAGGFNARVLAALCNLSEVREALLAEG IKIPEDTVFAAAEHNTTVDELHWLYVPELSEAAQEAFEQIEAVMPKVRHHVNAERLAQ LPNFQSKLKNPKAEANRFAEDWSEIRPEWGLARNAAFIIGKRELTQDCDLEGRAFLHN YDWKQDESGELLANIIVGPGTVAQWINLQYYASTVAPHYYGSGNKATQTVTAGLGVMQ GNASDLLAGLPWQSVMESDHEAYHSPLRLLILIQAPREYVERLLNHDSAFLQKVQNGW VRLASLDPEGCWESW*" gene 206941..209556 /gene="ybcC" /locus_tag="BSU_01845" /old_locus_tag="BSU01845" S_feature 209557..209632 /Source="Nicolas_S_feature" /locus_tag="new_209557_209632" /HighExp="Heat, G180, G135, C30, GM-0.2, UNK1, GM-0.1, BMM, G150, GM 5" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.976" /TUlongSig="NA" /TUlongPSig="NA" /label="S74" CDS 209633..210160 /gene="ybcF" /locus_tag="BSU_01860" /old_locus_tag="BSU01860" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative enzyme; prophage 1 region" /protein_id="NP_388067.1" /db_xref="EnsemblGenomes-Gn:BSU01860" /db_xref="EnsemblGenomes-Tr:CAB11962" /db_xref="GOA:O34823" /db_xref="InterPro:IPR036874" /db_xref="SubtiList:BG12708" /db_xref="UniProtKB/Swiss-Prot:O34823" /translation="MNVNQNKKVLFLTDIENGLEPILQEATNTSAENMLTIQSYGASI SHPYGEIMRSVIFAIYQEDVEEIFVVGTKDKKTSAGNGLTQLETMKDKIQTLDYLFQN CKPEFLGGTVDEWLNENSSDTIEKSVDMIRHHPLVPSYVKVRGLFVNHKGGKPSIAEV PDVKTGQAMPDHCLS*" gene 209633..210160 /gene="ybcF" /locus_tag="BSU_01860" /old_locus_tag="BSU01860" CDS 210224..210514 /gene="ybcH" /locus_tag="BSU_01870" /old_locus_tag="BSU01870" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function; prophage 1 region" /protein_id="NP_388068.1" /db_xref="EnsemblGenomes-Gn:BSU01870" /db_xref="EnsemblGenomes-Tr:CAB11963" /db_xref="SubtiList:BG12709" /db_xref="UniProtKB/Swiss-Prot:O34795" /translation="MSANLTDFVTKTIEEMNSFDRENMECIKKLIRKAIDFYHLKSYE EVEETHSGNVRFLHVHSMMEENMLSKMIVVTRNGKTDLDIEGVYEGYVVREY*" gene 210224..210514 /gene="ybcH" /locus_tag="BSU_01870" /old_locus_tag="BSU01870" CDS 210572..210946 /gene="ybcI" /locus_tag="BSU_01880" /old_locus_tag="BSU01880" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein; prophage 1 region" /protein_id="NP_388069.1" /db_xref="EnsemblGenomes-Gn:BSU01880" /db_xref="EnsemblGenomes-Tr:CAB11964" /db_xref="InterPro:IPR018745" /db_xref="SubtiList:BG12710" /db_xref="UniProtKB/Swiss-Prot:O34380" /translation="MKKSKGSIESEISKSITQWEKDYLGRGSVSVKTDILRDMIIVNL KGILTPAEYVVCGSKEGMLSIKQTRSELVESGIEGLKDIILKITGEKVKSFHTDLSSR TGERVMVFKLCNDLEKNLEKIL*" gene 210572..210946 /gene="ybcI" /locus_tag="BSU_01880" /old_locus_tag="BSU01880" S_feature 210947..211412 /Source="Nicolas_S_feature" /locus_tag="new_210947_211412" /HighExp="Heat, G135, G180, C30, S8, Etha, S7, GM-0.1, GM-0.2, BMM" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.976" /TUlongSig="NA" /TUlongPSig="NA" /label="S75" promotor_-10 complement(211327..211345) /Source="Nicolas_upshift_promotors" /id="U128" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=214 /SigmaFactorBS="aatccgttttttggatatatttaattaaaGGTTTATctctga ctaattccGTGAAATGAAACTGAAGACagcatatcaattttgttcaccgcttaaattt a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(211335) /Source="Nicolas_upshifts" /id="U128" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=214 /SigmaFactorBS="aatccgttttttggatatatttaattaaaGGTTTATctctga ctaattccGTGAAATGAAACTGAAGACagcatatcaattttgttcaccgcttaaattt a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(211360..211366) /Source="Nicolas_upshift_promotors" /id="U128" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=214 /SigmaFactorBS="aatccgttttttggatatatttaattaaaGGTTTATctctga ctaattccGTGAAATGAAACTGAAGACagcatatcaattttgttcaccgcttaaattt a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 211393..211400 /Source="Nicolas_upshift_promotors" /id="U129" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.531468531468531" /psig=1 /xcortree=2370 /SigmaFactorBS="tcagagataaacctttaattaaatatatccaaaaaacggATT GACATatcgaaatataaCGATATAATAATCGATATGGaaccaattgaagtattcaaag c" /listShort="ybzH, S76, ybcL" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 211413..211432 /Source="Nicolas_upshift_promotors" /id="U129" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.531468531468531" /psig=1 /xcortree=2370 /SigmaFactorBS="tcagagataaacctttaattaaatatatccaaaaaacggATT GACATatcgaaatataaCGATATAATAATCGATATGGaaccaattgaagtattcaaag c" /listShort="ybzH, S76, ybcL" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 211414 /Source="Nicolas_upshifts" /id="U129" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.531468531468531" /psig=1 /xcortree=2370 /SigmaFactorBS="tcagagataaacctttaattaaatatatccaaaaaacggATT GACATatcgaaatataaCGATATAATAATCGATATGGaaccaattgaagtattcaaag c" /listShort="ybzH, S76, ybcL" /GFF_Attribute="listLong" CDS 211429..211731 /gene="ybzH" /locus_tag="BSU_01889" /old_locus_tag="BSU01889" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (ArsR family); prophage 1 region" /protein_id="YP_003097670.1" /db_xref="EnsemblGenomes-Gn:BSU01889" /db_xref="EnsemblGenomes-Tr:CAX52540" /db_xref="GOA:C0H3S9" /db_xref="InterPro:IPR001845" /db_xref="InterPro:IPR011991" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="UniProtKB/Swiss-Prot:C0H3S9" /translation="MEPIEVFKALSNESRLQILQWLKEPDRHFAPHEGIDMNTIGVCV SQITDKLKMTQSTASQYLTILLRAGLIKAERIGKYTYYKRDEEAIGKLADFLKTEI*" gene 211429..211731 /gene="ybzH" /locus_tag="BSU_01889" /old_locus_tag="BSU01889" downshifts 211724 /Source="Nicolas_upshifts" /id="D67" /incds=0 /nref=175 /ntot=256 /MaxReadThrough="5.31372" /MaxDrop="5.98354" /score="13.6598797" /energy="-10.8" /TU="U129" /idTUdmin="U127" /TUdmin=25 /isTUend="FALSE" S_feature 211769..211858 /Source="Nicolas_S_feature" /locus_tag="new_211769_211858" /HighExp="dia5, Diami, C30, Heat, dia15, T2.0H, S8, S1, Cold, S7" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S76" CDS 211859..213031 /gene="ybcL" /locus_tag="BSU_01890" /old_locus_tag="BSU01890" /function="16.1: Circulate" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15812018, 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative efflux transporter; prophage 1 region" /protein_id="NP_388070.1" /db_xref="EnsemblGenomes-Gn:BSU01890" /db_xref="EnsemblGenomes-Tr:CAB11965" /db_xref="GOA:O34663" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12711" /db_xref="UniProtKB/Swiss-Prot:O34663" /translation="MSNTWKIYILAIVSFLVGTSEYIISGILDQIAHTLGITLAAAGQ LITIFSLVYALSTPVLMALTASMDRRKLMMYALGLFVFGNVLAFVLPGYGWFIAARII MAMGAGVVVVTALTIAAKIASEGKQGSAIATVVMGFTASLIIGVPLGRMIAVALGWKS VFGAIALLGLIAMVVIFFTLPYTEGDKPVPLLQQLALFKKRKVAMGLSITFFWLGGYS VAYTYLSPYLLNISGINGKLLSGVLLIFGIASLVGSKFGGYSTDKWGVPFTLVGGMTL HIVTLILLSLVTHSYIGVLVILILWSFAAWSTGPTQQFHLATIEPEMSGVLLSMNQSM MQFAMAVGAGIGGVFVENVSLASITWVGALGVMIAIIASLLIFNSQPKQALKDINQ*" gene 211859..213031 /gene="ybcL" /locus_tag="BSU_01890" /old_locus_tag="BSU01890" promotor_-35 212376..212383 /Source="Nicolas_upshift_promotors" /id="U130" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.541458541458541" /psig="0.978021978021978" /xcortree=2180 /SigmaFactorBS="atttggagccattgctttgttgggattgatcgcaaTGGTCGT TattttctttactcTTCCGTATACTGAAGGGGATaagcctgtgcctttgcttcaacag c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 212397..212416 /Source="Nicolas_upshift_promotors" /id="U130" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.541458541458541" /psig="0.978021978021978" /xcortree=2180 /SigmaFactorBS="atttggagccattgctttgttgggattgatcgcaaTGGTCGT TattttctttactcTTCCGTATACTGAAGGGGATaagcctgtgcctttgcttcaacag c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 212401 /Source="Nicolas_upshifts" /id="U130" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.541458541458541" /psig="0.978021978021978" /xcortree=2180 /SigmaFactorBS="atttggagccattgctttgttgggattgatcgcaaTGGTCGT TattttctttactcTTCCGTATACTGAAGGGGATaagcctgtgcctttgcttcaacag c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" downshifts 213016 /Source="Nicolas_upshifts" /id="D68" /incds=0 /nref=8 /ntot=59 /MaxReadThrough="0.16425" /MaxDrop="4.4712" /score="19.9212489" /energy="-11" /TU="NA" /idTUdmin="U129" /TUdmin="-3" /isTUend="TRUE" CDS 213155..213469 /gene="ybcM" /locus_tag="BSU_01900" /old_locus_tag="BSU01900" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative enzyme" /protein_id="NP_388071.1" /db_xref="EnsemblGenomes-Gn:BSU01900" /db_xref="EnsemblGenomes-Tr:CAB11983" /db_xref="GOA:O31421" /db_xref="SubtiList:BG12712" /db_xref="UniProtKB/Swiss-Prot:O31421" /translation="MRFLKALPRRAEVQYDCLDRTLETQENVNLNIRVNVKEVATWGV NTCIISLKGLDNADDRFVLPEVNTALALFPLSIAADCLLMLPCISVVMSISSVMKSVT VE*" gene 213155..213469 /gene="ybcM" /locus_tag="BSU_01900" /old_locus_tag="BSU01900" misc_feature 213273..213274 /Source="Nicolas_upshift_promotors" /id="U131" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.908091908091908" /psig="0.014985014985015" /xcortree=18 /SigmaFactorBS="aacacaagagaacgtaaacctgaacatccgcgtaaacgtcaa ggaagttgCCacttggggagtaaacacttgcatcatctcgctgaaaggcctagacaat g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 213283 /Source="Nicolas_upshifts" /id="U131" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.908091908091908" /psig="0.014985014985015" /xcortree=18 /SigmaFactorBS="aacacaagagaacgtaaacctgaacatccgcgtaaacgtcaa ggaagttgCCacttggggagtaaacacttgcatcatctcgctgaaaggcctagacaat g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" downshifts 213349 /Source="Nicolas_upshifts" /id="D69" /incds=1 /nref=5 /ntot=15 /MaxReadThrough="0.469730000000001" /MaxDrop="5.4933" /score="-8.96893905" /energy="-9.8" /TU="NA" /idTUdmin="U131" /TUdmin=0 /isTUend="TRUE" promotor_-35 213850..213857 /Source="Nicolas_upshift_promotors" /id="U132" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.574425574425574" /psig="0.984015984015984" /xcortree=479 /SigmaFactorBS="atactaattaatgtaatttttaggataatatacaaaatccCC CTTACTtcgacaattgcaaTCTGGTATTATCGTATCGCAtgggagctatgtcaataga c" /listShort="S77, skfA, skfB, skfC, skfE, skfF, skfG, skfH, S78, S79, ybdG, ybdJ, ybdK, ybzI" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 213870 /Source="Nicolas_upshifts" /id="U132" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.574425574425574" /psig="0.984015984015984" /xcortree=479 /SigmaFactorBS="atactaattaatgtaatttttaggataatatacaaaatccCC CTTACTtcgacaattgcaaTCTGGTATTATCGTATCGCAtgggagctatgtcaataga c" /listShort="S77, skfA, skfB, skfC, skfE, skfF, skfG, skfH, S78, S79, ybdG, ybdJ, ybdK, ybzI" /GFF_Attribute="listLong" promotor_-10 213871..213890 /Source="Nicolas_upshift_promotors" /id="U132" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.574425574425574" /psig="0.984015984015984" /xcortree=479 /SigmaFactorBS="atactaattaatgtaatttttaggataatatacaaaatccCC CTTACTtcgacaattgcaaTCTGGTATTATCGTATCGCAtgggagctatgtcaataga c" /listShort="S77, skfA, skfB, skfC, skfE, skfF, skfG, skfH, S78, S79, ybdG, ybdJ, ybdK, ybzI" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 213878..213940 /Source="Nicolas_S_feature" /locus_tag="new_213878_213940" /HighExp="M9-stat, T5.0H, T3.0H, T2.30H, T4.0H, T3.30H, T1.30H, T1.0H, T0.0H, T0.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.984" /TUlongSig="NA" /TUlongPSig="NA" /label="S77" CDS 213941..214108 /gene="skfA" /locus_tag="BSU_01910" /old_locus_tag="BSU01910" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:15812018, 16816204, 17069462, 17184776, 26284661" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15812018, 16816204, 17069462, 17184776, 26284661; Product type f: factor" /codon_start=1 /transl_table=11 /product="sporulation killing factor A" /protein_id="NP_388072.1" /db_xref="EnsemblGenomes-Gn:BSU01910" /db_xref="EnsemblGenomes-Tr:CAB11984" /db_xref="GOA:O31422" /db_xref="InterPro:IPR030919" /db_xref="SubtiList:BG12713" /db_xref="UniProtKB/Swiss-Prot:O31422" /translation="MKRNQKEWESVSKKGLMKPGGTSIVKAAGCMGCWASKSIAMTRV CALPHPAMRAI*" gene 213941..214108 /gene="skfA" /locus_tag="BSU_01910" /old_locus_tag="BSU01910" downshifts complement(213954) /Source="Nicolas_upshifts" /id="D70" /incds=0 /nref=1 /ntot=70 /MaxReadThrough="0.99059" /MaxDrop="3.89647" /score="2.42246888" /energy="-3.5" /TU="NA" /idTUdmin="U134" /TUdmin=2289 /isTUend="FALSE" downshifts 214098 /Source="Nicolas_upshifts" /id="D71" /incds=0 /nref=24 /ntot=172 /MaxReadThrough="8.08284" /MaxDrop="7.24265" /score="-7.12226565" /energy="-13" /TU="U132" /idTUdmin="U131" /TUdmin=749 /isTUend="FALSE" CDS 214175..215407 /gene="skfB" /locus_tag="BSU_01920" /old_locus_tag="BSU01920" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:15812018, 16816204, 17069462, 17184776, 18307109, 23282011, 26284661" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15812018, 16816204, 17069462, 17184776, 18307109, 23282011, 26284661; Product type f: factor" /codon_start=1 /transl_table=11 /product="synthesis of sporulation killing factor A" /protein_id="NP_388073.2" /db_xref="EnsemblGenomes-Gn:BSU01920" /db_xref="EnsemblGenomes-Tr:CAB11985" /db_xref="GOA:O31423" /db_xref="InterPro:IPR000385" /db_xref="InterPro:IPR006638" /db_xref="InterPro:IPR007197" /db_xref="InterPro:IPR013785" /db_xref="InterPro:IPR023885" /db_xref="InterPro:IPR030915" /db_xref="InterPro:IPR034395" /db_xref="InterPro:IPR034481" /db_xref="SubtiList:BG12714" /db_xref="UniProtKB/Swiss-Prot:O31423" /translation="MSYDRVKDFDLPELAVHLQPHGAVMIDRKSMFYFRLSGRGAQLA FLLSKNKNLHKTARIWEIMKKEEMSADQLKEELSAHPFTEAWTEGLLDQPLHVSGSLD SYLPISCTLQLTNACNLSCSFCYASSGKPYPEELSSEQWILVMQKLAAHGVADITLTG GEAKLIKGFKELVVVASSLFTNVNVFSNGLNWRDEEVELLSHLGNVSVQISIDGMDNT HDQLRGRKGGFKESMNTIKKLSEANIPVIVAMTINESNADEVSDVVEQCANAGAFIFR AGKTLSVGRATEGFKALDIDFEEMVQIQLREARHKWGDRLNIIDWEHEESSFTTDFCT PGYLAWYIRADGYVTPCQLEDLPLGHILEDSMADIGSPARLLQLKCEAKNCKCIGKIE LSEPDLPFQKEVKAGIQE*" gene 214175..215407 /gene="skfB" /locus_tag="BSU_01920" /old_locus_tag="BSU01920" CDS 215404..216894 /gene="skfC" /locus_tag="BSU_01935" /old_locus_tag="BSU01935" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:15812018, 15849754, 16816204, 16850406, 17069462, 17184776, 26284661" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15812018, 15849754, 16816204, 16850406, 17069462, 17184776, 26284661; Product type t: transporter" /codon_start=1 /transl_table=11 /product="sporulation killing factor biosynthesis and export" /protein_id="YP_003097671.1" /db_xref="EnsemblGenomes-Gn:BSU01935" /db_xref="EnsemblGenomes-Tr:CAX52541" /db_xref="GOA:O31425" /db_xref="InterPro:IPR003675" /db_xref="UniProtKB/Swiss-Prot:O31425" /translation="MNSLSLVFWSILAVVGLLLFIKFKPPTIASLLLSKDEAKEISIQ FIKEFVGIDVENWDFYSVYWYDHDTVNKLHHLGILKKNRKVLYDVGLVESWRVRFVHQ NQSFVVGVNANREITFFYADVPKKTLSGKFEQVSPETLKQRLMASPDGLWSRANMTGT GKKEEDFREVSTYWYIAEAGDIRLKVTVELQGGRISYIGTEQEILTDQMSKVIRDEQV ESTFGVSGMLGSALAMILAILILVFMDVQTSIIFSLVLGLLIIICQSLTLKEDIQLTI VNAYDARMSVKTVSLLGILSTLLTGLLTGFVVFICSLAGNALAGDFGWKTFEQPIVQI FYGIGAGLISLGVTSLLFNLLEKKQYLRISPELSNRTVFLSGFTFRQGLNMSIQSSIG EEVIYRLLMIPVIWWMSGNILISIIVSSFLWAVMHQVTGYDPRWIRWLHLFIFGCFLG VLFIKFGFICVLVAHFIHNLVLVCMPLWQFKLQKHMHHDQPKHTSL*" gene 215404..216894 /gene="skfC" /locus_tag="BSU_01935" /old_locus_tag="BSU01935" promotor_-35 216301..216309 /Source="Nicolas_upshift_promotors" /id="U133" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=434 /SigmaFactorBS="caaaacggtcagtttattaggtattttgtctacacttcttAC AGGATTAttaacaggattTGTAGTATTTATATGTTCAttggcaggaaatgcgcttgct g" /listShort="skfE, skfF, skfG, skfH" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(216318..216337) /Source="Nicolas_upshift_promotors" /id="U134" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=1365 /SigmaFactorBS="gttgttcaaacgttttccatccaaaatcaccaGCAAGCGCAT ttcctgccaatgAACATATAAATACTACAAATcctgttaataatcctgtaagaagtgt a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-10 216321..216339 /Source="Nicolas_upshift_promotors" /id="U133" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=434 /SigmaFactorBS="caaaacggtcagtttattaggtattttgtctacacttcttAC AGGATTAttaacaggattTGTAGTATTTATATGTTCAttggcaggaaatgcgcttgct g" /listShort="skfE, skfF, skfG, skfH" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 216321 /Source="Nicolas_upshifts" /id="U133" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=434 /SigmaFactorBS="caaaacggtcagtttattaggtattttgtctacacttcttAC AGGATTAttaacaggattTGTAGTATTTATATGTTCAttggcaggaaatgcgcttgct g" /listShort="skfE, skfF, skfG, skfH" /GFF_Attribute="listLong" upshifts complement(216331) /Source="Nicolas_upshifts" /id="U134" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=1365 /SigmaFactorBS="gttgttcaaacgttttccatccaaaatcaccaGCAAGCGCAT ttcctgccaatgAACATATAAATACTACAAATcctgttaataatcctgtaagaagtgt a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(216350..216359) /Source="Nicolas_upshift_promotors" /id="U134" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=1365 /SigmaFactorBS="gttgttcaaacgttttccatccaaaatcaccaGCAAGCGCAT ttcctgccaatgAACATATAAATACTACAAATcctgttaataatcctgtaagaagtgt a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 216913..217632 /gene="skfE" /locus_tag="BSU_01950" /old_locus_tag="BSU01950" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:26284661" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 26284661; Product type t: transporter" /codon_start=1 /transl_table=11 /product="sporulation killing factor biosynthesis and export; ABC transporter (binding protein)" /protein_id="NP_388077.1" /db_xref="EnsemblGenomes-Gn:BSU01950" /db_xref="EnsemblGenomes-Tr:CAB11989" /db_xref="GOA:O31427" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG12718" /db_xref="UniProtKB/Swiss-Prot:O31427" /translation="MQLMQVQNLSKCYRNGDGVEHLSFSIQRGEIVALLGPNGAGKTT TIRCLTGLYKPDKGDILIEGSPPGDINVQKKVALIPDQPYLYPALTAAEHIQFRARGY HPGKKDVKERVYHALKEVHLEEKANQLCGQLSRGQKQRVVLAGAIVQDALLYILDEPT VGLDIPSKQWLSNWLKTKTDQGCSAFVSTHSLEFVIETADRVILIRDGKLMQDLYVPQ FEEQAEWRKEVIRLLGEWSDE*" gene 216913..217632 /gene="skfE" /locus_tag="BSU_01950" /old_locus_tag="BSU01950" CDS 217697..219040 /gene="skfF" /locus_tag="BSU_01960" /old_locus_tag="BSU01960" /function="16.11: Scavenge (Catabolism)" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15812018, 15849754, 16816204, 16850406, 17069462, 17184776, 26284661" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15812018, 15849754, 16816204, 16850406, 17069462, 17184776, 26284661; Product type t: transporter" /codon_start=1 /transl_table=11 /product="sporulation killing factor biosynthesis and export; ABC transporter (permease)" /protein_id="NP_388078.2" /db_xref="EnsemblGenomes-Gn:BSU01960" /db_xref="EnsemblGenomes-Tr:CAB11990" /db_xref="GOA:O31428" /db_xref="InterPro:IPR030920" /db_xref="SubtiList:BG12719" /db_xref="UniProtKB/Swiss-Prot:O31428" /translation="MPFLIMLLFVGAIGFQVSFVSRSTTWDMSIAGWVLTGVFILYTA FGLFSNRLPSQMADIIWLYGTATSFSKVVYSVLFFSVTWKALLWIISAIFGDVLIVLL SGDHINLLGRSIIFVGLFFIAEVWLMSVSCARTVKKMKRVYVLVFLLMLGIYSICLYR FFFLQHSSGIWESIARFISGVGLVFDTLSPLYVVVFIGIITVSFMTIAFTSRQVEMKE SLVKEAEFWEEFQERQFGSGQIIQKPKTTWWGLQGLNGIWSFLWLELLLFKKYLFFHS IHTVMLSGVFYVVIFMYPEWFYLLFFLIVSAVMLSSYYSGIVRHSQSGTLHLFPGALW KKIIILELTNTVWLYILYCVSITFMAVGNLVYWYIYGLGIYIWFMTIRLFAFTHTNRN DIKLSLPQYYKSFFMALGLSGICLYVIHLLTADWYTLVVVVCIGSLSWCLFYRFR*" gene 217697..219040 /gene="skfF" /locus_tag="BSU_01960" /old_locus_tag="BSU01960" CDS 219087..219602 /gene="skfG" /locus_tag="BSU_01970" /old_locus_tag="BSU01970" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:15812018, 16816204, 17069462, 17184776, 26284661" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15812018, 16816204, 17069462, 17184776, 26284661; Product type ph : phenotype" /codon_start=1 /transl_table=11 /product="sporulation killing factor biosynthesis and export" /protein_id="NP_388079.2" /db_xref="EnsemblGenomes-Gn:BSU01970" /db_xref="EnsemblGenomes-Tr:CAB11991" /db_xref="GOA:O31429" /db_xref="InterPro:IPR016024" /db_xref="SubtiList:BG12720" /db_xref="UniProtKB/Swiss-Prot:O31429" /translation="MNSNGDKLSLSVQNLANTNEITIVQAIGELKKSGKDAIPVLVEA LKEEGSLCNIAAAVLGEFGEDASEAAEELSCLLKSHAEDTRMAAAISLMRIGKPSLPF VIKIAQESEGQSCFWASWCIAWIDPSCIEPKMYKCLKYEHEHPSGIVAPFAAEEALGK LIAFQLKDKED*" gene 219087..219602 /gene="skfG" /locus_tag="BSU_01970" /old_locus_tag="BSU01970" CDS 219607..220032 /gene="skfH" /locus_tag="BSU_01980" /old_locus_tag="BSU01980" /function="16.11: Scavenge (Catabolism)" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:15812018, 16816204, 17069462, 17184776, 26284661" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15812018, 16816204, 17069462, 17184776, 26284661; Product type ph : phenotype" /codon_start=1 /transl_table=11 /product="sibling killing effect; sporulation killing factor biosynthesis and export" /protein_id="NP_388080.2" /db_xref="EnsemblGenomes-Gn:BSU01980" /db_xref="EnsemblGenomes-Tr:CAB11992" /db_xref="GOA:O31430" /db_xref="InterPro:IPR012336" /db_xref="InterPro:IPR036249" /db_xref="SubtiList:BG12721" /db_xref="UniProtKB/Swiss-Prot:O31430" /translation="MKDEQMLTEWPSHLPWLNQSQNDFTFPSDTYLLLYFWSMSCPNC HQLTDKVLQDIKDMNVKVIGVHVPYIEEEKSMEVVLTYALDRGLAIPIVLDQNYEIVT TCHVQGIPSFCLLSQYGQIITKTMGDVGWDKMLKKIAGL*" gene 219607..220032 /gene="skfH" /locus_tag="BSU_01980" /old_locus_tag="BSU01980" S_feature 220033..220103 /Source="Nicolas_S_feature" /locus_tag="new_220033_220103" /HighExp="T4.0H, T5.0H, Pyr, T3.30H, S2, G/S, LoTm, T3.0H, M9-stat, T2.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.984" /TUlongSig="NA" /TUlongPSig="NA" /label="S78" downshifts 220060 /Source="Nicolas_upshifts" /id="D72" /incds=0 /nref=22 /ntot=127 /MaxReadThrough="4.07672" /MaxDrop="3.58139" /score="5.89945455" /energy="-8.8" /TU="U132" /idTUdmin="U133" /TUdmin=0 /isTUend="TRUE" S_feature 220105..220278 /Source="Nicolas_S_feature" /locus_tag="new_220105_220278" /HighExp="LoTm, T5.0H, T4.0H, T3.30H, Pyr, T-2.40H, T3.0H, T-5.40H, S2, LBGstat" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.984" /TUlongSig="NA" /TUlongPSig="NA" /label="S79" CDS 220279..221256 /gene="ybdG" /locus_tag="BSU_01990" /old_locus_tag="BSU01990" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative hydrolase/transferase" /protein_id="NP_388081.2" /db_xref="EnsemblGenomes-Gn:BSU01990" /db_xref="EnsemblGenomes-Tr:CAB11993" /db_xref="GOA:O31431" /db_xref="InterPro:IPR000073" /db_xref="InterPro:IPR029058" /db_xref="SubtiList:BG12722" /db_xref="UniProtKB/Swiss-Prot:O31431" /translation="MKTLWKVLKIVFVSLAALVLLVSVSVFIYHHFQLNKEAALLKGK GTVVDVDGKKMNVYQEGSGKDTFVFMSGSGIAAPAYEMKGLYSKFSKENKIAVVDRAG YGYSEVSHDDRDIDTVLEQTRKALMKSGNKPPYILMPHSISGIEAMYWAQKYPKEIKA IIAMDIGLPQQYVTYKLSGVDRLKVRGFHLLTSIGFHRFIPSAVYNPEVIRQSFLTDE EKEIYKAINFKQFFNADMEHELLQSYQNGSKSVNLPAPKETPVLILDAVSDQNRHSKY AIQNRKDYEAFAAQFNTADIKELRGTHSIYLYQPDQIYKLSMEFMRKVR*" gene 220279..221256 /gene="ybdG" /locus_tag="BSU_01990" /old_locus_tag="BSU01990" CDS 221258..221929 /gene="ybdJ" /locus_tag="BSU_02000" /old_locus_tag="BSU02000" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11717295, 20035725" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11717295, 20035725; Product type r: regulator" /codon_start=1 /transl_table=11 /product="two-component system response regulator [YbdK]" /protein_id="NP_388082.1" /db_xref="EnsemblGenomes-Gn:BSU02000" /db_xref="EnsemblGenomes-Tr:CAB11994" /db_xref="GOA:O31432" /db_xref="InterPro:IPR001789" /db_xref="InterPro:IPR001867" /db_xref="InterPro:IPR011006" /db_xref="InterPro:IPR016032" /db_xref="InterPro:IPR036388" /db_xref="SubtiList:BG12723" /db_xref="UniProtKB/Swiss-Prot:O31432" /translation="MKGYRILIVEDDVMIGDLLQKILQREGYRVIWKTDGADVLSVIQ KVDLVIMDVMLPGEDGYQMSAKIKKLGLGIPVIFLSARNDMDSKLQGLQIGEDYMVKP FDPRELLLRMRNMLEHHYGTFTQIKHLYIDAVTKKVFNESLHDEVLFTAIERKIFFYL YENRDSILTKEHFFEYLWQLEDRNPNIVNVHIKKIRAKINDQAGEMIENIYGEGYRLN TVVKK*" gene 221258..221929 /gene="ybdJ" /locus_tag="BSU_02000" /old_locus_tag="BSU02000" promotor_-35 221823..221829 /Source="Nicolas_upshift_promotors" /id="U135" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.532467532467532" /psig="0.929070929070929" /xcortree=2962 /SigmaFactorBS="gatagaaacccgaatattgtcaATGTGCAtattaaaaaaatt AGAGCTAAAATCAATGATCAagcgggtgagatgattgaaaatatatatggagaagggt a" /listShort="ybdK, ybzI" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 221843..221862 /Source="Nicolas_upshift_promotors" /id="U135" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.532467532467532" /psig="0.929070929070929" /xcortree=2962 /SigmaFactorBS="gatagaaacccgaatattgtcaATGTGCAtattaaaaaaatt AGAGCTAAAATCAATGATCAagcgggtgagatgattgaaaatatatatggagaagggt a" /listShort="ybdK, ybzI" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 221861 /Source="Nicolas_upshifts" /id="U135" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.532467532467532" /psig="0.929070929070929" /xcortree=2962 /SigmaFactorBS="gatagaaacccgaatattgtcaATGTGCAtattaaaaaaatt AGAGCTAAAATCAATGATCAagcgggtgagatgattgaaaatatatatggagaagggt a" /listShort="ybdK, ybzI" /GFF_Attribute="listLong" CDS 221950..222912 /gene="ybdK" /locus_tag="BSU_02010" /old_locus_tag="BSU02010" /function="16.12: Sense" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11717295, 20035725" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11717295, 20035725; Product type rc: receptor" /codon_start=1 /transl_table=11 /product="two-component system sensor histidine kinase [YbdJ]" /protein_id="NP_388083.1" /db_xref="EnsemblGenomes-Gn:BSU02010" /db_xref="EnsemblGenomes-Tr:CAB11995" /db_xref="GOA:O31433" /db_xref="InterPro:IPR003594" /db_xref="InterPro:IPR003660" /db_xref="InterPro:IPR003661" /db_xref="InterPro:IPR005467" /db_xref="InterPro:IPR036097" /db_xref="InterPro:IPR036890" /db_xref="SubtiList:BG12724" /db_xref="UniProtKB/Swiss-Prot:O31433" /translation="MLLFTAVISVPMLLLAVSVLMSVIYDSMFKPMNHGMPFHRSFAY PAMIVVFLISLLLLAFLFSKSIHSLLHKINLLNQTIRHLASDQRVPDKIEVKRADEIG ELIKSVNLLIERTTYRELELRQQEEIKKELLQKLRHDINTPLTALRLQLFYLEDQCHG QAVFESLYQQIEYISELTNEFNLYSAETLESSYIVNEEVRLNELLETAVKKWDYLYSM SGIELHYKPADQDVIWMSNTLWMERLFDNIFQNTLRHSKAKKMEVTIEHGDVFIRDDG IGFDRNESSEGLGLKIIEDTCRLLAITYELHTNDNGTGFLFSKE*" gene 221950..222912 /gene="ybdK" /locus_tag="BSU_02010" /old_locus_tag="BSU02010" promotor_-35 222924..222926 /Source="Nicolas_upshift_promotors" /id="U136" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.866133866133866" /psig="0.999000999001" /xcortree=2204 /SigmaFactorBS="aacggggttcttgttttcaaaagagtgaccccgctgatgTTT ttctttctcctataaAATTTATATAATAGGGAGAAagaaatggggtgaacatcatatg t" /listShort="ybzI" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 222942..222961 /Source="Nicolas_upshift_promotors" /id="U136" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.866133866133866" /psig="0.999000999001" /xcortree=2204 /SigmaFactorBS="aacggggttcttgttttcaaaagagtgaccccgctgatgTTT ttctttctcctataaAATTTATATAATAGGGAGAAagaaatggggtgaacatcatatg t" /listShort="ybzI" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 222945 /Source="Nicolas_upshifts" /id="U136" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.866133866133866" /psig="0.999000999001" /xcortree=2204 /SigmaFactorBS="aacggggttcttgttttcaaaagagtgaccccgctgatgTTT ttctttctcctataaAATTTATATAATAGGGAGAAagaaatggggtgaacatcatatg t" /listShort="ybzI" /GFF_Attribute="listLong" CDS 222971..223234 /gene="ybzI" /locus_tag="BSU_02019" /old_locus_tag="BSU02019" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="YP_003097672.1" /db_xref="EnsemblGenomes-Gn:BSU02019" /db_xref="EnsemblGenomes-Tr:CAX52542" /db_xref="UniProtKB/Swiss-Prot:C0H3T1" /translation="MNIICLKKSSKRLSTSQAVLVTDIADTGITAAAGADIIAATAAV RAKEDTTTVMAAVIVTNAGATAAVNPKKVLVPLLGQGFFYVTD*" gene 222971..223234 /gene="ybzI" /locus_tag="BSU_02019" /old_locus_tag="BSU02019" downshifts 223175 /Source="Nicolas_upshifts" /id="D73" /incds=0 /nref=120 /ntot=235 /MaxReadThrough="2.82444" /MaxDrop="4.652" /score="22.3698707" /energy="-12.1" /TU="U135" /idTUdmin="U136" /TUdmin="-6" /isTUend="TRUE" CDS complement(223219..223989) /gene="ybdM" /locus_tag="BSU_02030" /old_locus_tag="BSU02030" /EC_number="2.7.11.-" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 21304896; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative protein kinase" /protein_id="NP_388085.1" /db_xref="EnsemblGenomes-Gn:BSU02030" /db_xref="EnsemblGenomes-Tr:CAB11997" /db_xref="GOA:O31435" /db_xref="InterPro:IPR000719" /db_xref="InterPro:IPR011009" /db_xref="InterPro:IPR017441" /db_xref="SubtiList:BG12726" /db_xref="UniProtKB/Swiss-Prot:O31435" /translation="MALKLLKKLLFDRPLKNGVILNHQYKIEECLGMGGYGLVYLCTD ILAQTPYVLKQLRPTKAKKEKEKVRFQQEIKLLKNIHHPQIPGFIDEFIIDGQAYYVM QFIEGENIEELLFFRKQPFTELMALQLISQLLEIIEYLHDRLIFHSDIRTPNIIINDG RLCLIDFGLAKQLTPEEMEEIKVRKQDDFFDLGETLLFLLYSQYKGKKKKNGTWLEEL TLTKEVTLLLKRLLGIEEEYQHTASIREDLNRAIQSVT*" gene complement(223219..223989) /gene="ybdM" /locus_tag="BSU_02030" /old_locus_tag="BSU02030" CDS complement(224075..224932) /gene="ybdN" /locus_tag="BSU_02040" /old_locus_tag="BSU02040" /function="16.5: Explore" /function="16.13: Shape" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 16794953; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="putative phage protein; prophage region 1" /protein_id="NP_388086.1" /db_xref="EnsemblGenomes-Gn:BSU02040" /db_xref="EnsemblGenomes-Tr:CAB11998" /db_xref="SubtiList:BG12727" /db_xref="UniProtKB/Swiss-Prot:O31436" /translation="MVKKWLIQFAVMLSVLSTFTYSASAVGVTAITGNNSFDTAMPIG YWKYKNIDTTILEAGQDEAYFTFTANKGEKVYMRSTYQSAYTGMKIEIYDKNRIPVSQ GTEVINPNTFSSFIYANADAQNTTDTFYVKVSRGTYTGNMYFTLSIEDRIKSGSGTFQ FSGVAENKGNTSLSPSGSDSSVIKVDLTNQSGIPRDAIVTRVQTTATQTPSQGNTRHL IMTSENNEWSRALVNSSTSGSYDISLSDQLSVAKVWSFKYNTLATARSTMSNVKAKID YEYDVTKQF*" gene complement(224075..224932) /gene="ybdN" /locus_tag="BSU_02040" /old_locus_tag="BSU02040" downshifts complement(224097) /Source="Nicolas_upshifts" /id="D74" /incds=0 /nref=95 /ntot=184 /MaxReadThrough="1.56932" /MaxDrop="4.95806" /score="36.4950689" /energy="-11.9" /TU="NA" /idTUdmin="U137" /TUdmin="-4" /isTUend="TRUE" promotor_-10 complement(224146..224165) /Source="Nicolas_upshift_promotors" /id="U137" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.99000999000999" /psig="0.99000999000999" /xcortree=1343 /SigmaFactorBS="ttgtaaacagctcgacttcagggtcttatgatatctctttgt cggatcaactcAGTGTGGCAAaggtatggagtttTAAATATAATACATTAGCGAcagc c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(224179..224188) /Source="Nicolas_upshift_promotors" /id="U137" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.99000999000999" /psig="0.99000999000999" /xcortree=1343 /SigmaFactorBS="ttgtaaacagctcgacttcagggtcttatgatatctctttgt cggatcaactcAGTGTGGCAAaggtatggagtttTAAATATAATACATTAGCGAcagc c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" upshifts complement(224181) /Source="Nicolas_upshifts" /id="U137" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.99000999000999" /psig="0.99000999000999" /xcortree=1343 /SigmaFactorBS="ttgtaaacagctcgacttcagggtcttatgatatctctttgt cggatcaactcAGTGTGGCAAaggtatggagtttTAAATATAATACATTAGCGAcagc c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 complement(224945..224964) /Source="Nicolas_upshift_promotors" /id="U138" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.754245754245754" /psig=1 /xcortree=2923 /SigmaFactorBS="ttttatcggcgaatataatgtatatattaacctcaaaaaaca ttTATTTACAcctaaatcgttattATGTATGATGGAAATAAAAGgaggttgtttgcat g" /listShort="ybdN" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(224970) /Source="Nicolas_upshifts" /id="U138" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.754245754245754" /psig=1 /xcortree=2923 /SigmaFactorBS="ttttatcggcgaatataatgtatatattaacctcaaaaaaca ttTATTTACAcctaaatcgttattATGTATGATGGAAATAAAAGgaggttgtttgcat g" /listShort="ybdN" /GFF_Attribute="listLong" promotor_-35 complement(224979..224986) /Source="Nicolas_upshift_promotors" /id="U138" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.754245754245754" /psig=1 /xcortree=2923 /SigmaFactorBS="ttttatcggcgaatataatgtatatattaacctcaaaaaaca ttTATTTACAcctaaatcgttattATGTATGATGGAAATAAAAGgaggttgtttgcat g" /listShort="ybdN" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 225000..225007 /Source="Nicolas_upshift_promotors" /id="U139" /multdbtbs="SigD" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2834 /SigmaFactorBS="ataataacgatttaggtgtaaataaatgttttttgagGTTAA TATatacattatattcGCCGATAAAAAAGAATAAGagagaatactcgggagggaattc a" /listShort="ybdO" /listLong="S80, ybxG" /label="promotor_-35" promotor_-10 225021..225039 /Source="Nicolas_upshift_promotors" /id="U139" /multdbtbs="SigD" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2834 /SigmaFactorBS="ataataacgatttaggtgtaaataaatgttttttgagGTTAA TATatacattatattcGCCGATAAAAAAGAATAAGagagaatactcgggagggaattc a" /listShort="ybdO" /listLong="S80, ybxG" /label="promotor_-10" upshifts 225023 /Source="Nicolas_upshifts" /id="U139" /multdbtbs="SigD" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2834 /SigmaFactorBS="ataataacgatttaggtgtaaataaatgttttttgagGTTAA TATatacattatattcGCCGATAAAAAAGAATAAGagagaatactcgggagggaattc a" /listShort="ybdO" /listLong="S80, ybxG" CDS 225064..226248 /gene="ybdO" /locus_tag="BSU_02050" /old_locus_tag="BSU02050" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15033535; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="putative phage protein; prophage region 1" /protein_id="NP_388087.1" /db_xref="EnsemblGenomes-Gn:BSU02050" /db_xref="EnsemblGenomes-Tr:CAB11999" /db_xref="InterPro:IPR032617" /db_xref="SubtiList:BG12728" /db_xref="UniProtKB/Swiss-Prot:O31437" /translation="MRLNRQFIRTQLIAQNILSKNAPAKRENATENPAAVLEKAYSRL KSQSSTGGINQFNYSKTSVSGNSGTFSKVYQSANDRTVTDTGEETVIQSQNPYESESD IRIKILDEKYSRMNAINKTKSDPLGYIKDKYQNSKSPYFRSDLSAAERQAAYDNETEW LFKGKAQNYNLQDAVFRNVTFHGEVEAENEKVYQRGQVNQQLQVLLNRNHIHIPEGTE LTFTITPIDYQVRVSGTDDQDLIKQIEQVLQSGDNSKELFLHIMKSQSSDSAQFSEEA YKKYQAAREMYEVTGYHLKDLEVIDGRYVTPEGRDLMDVYKEELEKDPVQKQTASYAI SYYRSELSKIAEAGYNAIPDFILSIDYSNGSLRDVGQSKSYGTGDTGWLEALKRQTGV NY*" gene 225064..226248 /gene="ybdO" /locus_tag="BSU_02050" /old_locus_tag="BSU02050" downshifts 226234 /Source="Nicolas_upshifts" /id="D75" /incds=0 /nref=107 /ntot=207 /MaxReadThrough="2.98334" /MaxDrop="4.9582" /score="-3.87053033" /energy="-8.3" /TU="U139" /idTUdmin="U139" /TUdmin="-181" /isTUend="FALSE" promotor_-35 226402..226408 /Source="Nicolas_upshift_promotors" /id="U140" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.430569430569431" /psig="0.999000999001" /xcortree=2998 /SigmaFactorBS="aacaaaggtgtttacctgaaaaaaacAATTGTAttttccaga gaaaTTTATTATGATGAAATAAGTaatttaggagattatataacaattttaagtttga a" /listShort="S80, ybxG" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 226422..226441 /Source="Nicolas_upshift_promotors" /id="U140" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.430569430569431" /psig="0.999000999001" /xcortree=2998 /SigmaFactorBS="aacaaaggtgtttacctgaaaaaaacAATTGTAttttccaga gaaaTTTATTATGATGAAATAAGTaatttaggagattatataacaattttaagtttga a" /listShort="S80, ybxG" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 226436..226565 /Source="Nicolas_S_feature" /locus_tag="new_226436_226565" /HighExp="Glu, LoTm, M9-stat, G135, GM-0.2, T-0.40H, Fru, UNK1, MG 120, GM-0.1" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="SigD" /TUlongPSig=1 /label="S80" upshifts 226436 /Source="Nicolas_upshifts" /id="U140" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.430569430569431" /psig="0.999000999001" /xcortree=2998 /SigmaFactorBS="aacaaaggtgtttacctgaaaaaaacAATTGTAttttccaga gaaaTTTATTATGATGAAATAAGTaatttaggagattatataacaattttaagtttga a" /listShort="S80, ybxG" /GFF_Attribute="listLong" CDS 226566..227954 /gene="ybxG" /locus_tag="BSU_02060" /old_locus_tag="BSU02060" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative amino acid permease" /protein_id="NP_388088.1" /db_xref="EnsemblGenomes-Gn:BSU02060" /db_xref="EnsemblGenomes-Tr:CAB12000" /db_xref="GOA:P54425" /db_xref="InterPro:IPR002293" /db_xref="InterPro:IPR004840" /db_xref="InterPro:IPR004841" /db_xref="SubtiList:BG11505" /db_xref="UniProtKB/Swiss-Prot:P54425" /translation="MANKELKRGLGARHIQMIALGGTIGVGLFMGSASTISWTGPSVL LAYAICGIFIFFIMRAMGEMLYVEPSTGSFATFGHQYIHPMAGYITAWSNWFQWIIVG MSEIIAVGSYTKYWFPDLPAWIPGIVAMVILGAANLISVKSFGEFEFWFAMIKIVTII LMIIAGIGIIFFGFGNGGDAIGLSNLWSHGGFFAGGFSGFFFALSLVIAAYQGVELIG ITAGEAKDPQNTLRNAIQSIIWRILIFYIGAIFVIVTVYPWDELNSLGSPFVSTFSKI GITAAAGIINFVVITAAMSGCNSGIFSAGRMLYTLGVNGQAPKFFKKISRNGVPLYGT IAVLIGLAVGVVLNYIAPPKIFVYVYSASVLPGMIPWFIILISHIGFRKAKGAALDKH PFKMPFAPFTNYLTIAFLLMVLVGMWFNDDTRISLIVGVIFLALVVISYYVFGIGKRT QANLTKSEQAAE*" gene 226566..227954 /gene="ybxG" /locus_tag="BSU_02060" /old_locus_tag="BSU02060" downshifts 227962 /Source="Nicolas_upshifts" /id="D76" /incds=0 /nref=121 /ntot=219 /MaxReadThrough="2.32902" /MaxDrop="5.72049" /score="28.6554212" /energy="-8.5" /TU="NA" /idTUdmin="U140" /TUdmin="-15" /isTUend="TRUE" promotor_-35 228000..228006 /Source="Nicolas_upshift_promotors" /id="U141" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=938 /SigmaFactorBS="aaaagagacattcacggatgtctctttttttatttttcgCGT ATGGattttccctatttTAGCAAGCTATAgggtaaagatagcagaaggaaaggtgttc a" /listShort="csgA, ybxH" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 228020..228031 /Source="Nicolas_upshift_promotors" /id="U141" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=938 /SigmaFactorBS="aaaagagacattcacggatgtctctttttttatttttcgCGT ATGGattttccctatttTAGCAAGCTATAgggtaaagatagcagaaggaaaggtgttc a" /listShort="csgA, ybxH" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 228021 /Source="Nicolas_upshifts" /id="U141" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=938 /SigmaFactorBS="aaaagagacattcacggatgtctctttttttatttttcgCGT ATGGattttccctatttTAGCAAGCTATAgggtaaagatagcagaaggaaaggtgttc a" /listShort="csgA, ybxH" /GFF_Attribute="listLong" CDS 228066..228314 /gene="csgA" /locus_tag="BSU_02070" /old_locus_tag="BSU02070" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:9016963" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9016963; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="sporulation-specific SASP protein" /protein_id="NP_388089.1" /db_xref="EnsemblGenomes-Gn:BSU02070" /db_xref="EnsemblGenomes-Tr:CAB12001" /db_xref="GOA:P54379" /db_xref="InterPro:IPR020255" /db_xref="SubtiList:BG11504" /db_xref="UniProtKB/Swiss-Prot:P54379" /translation="MDVTLGYLRESLSNHLENEVCQRICKKMLAKRYANEEEFVKDLD DNEMSFLNHVLEKEIKYAQNEQDQKRAKELNEVYELLL*" gene 228066..228314 /gene="csgA" /locus_tag="BSU_02070" /old_locus_tag="BSU02070" CDS 228331..228522 /gene="ybxH" /locus_tag="BSU_02080" /old_locus_tag="BSU02080" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388090.1" /db_xref="EnsemblGenomes-Gn:BSU02080" /db_xref="EnsemblGenomes-Tr:CAB12002" /db_xref="InterPro:IPR035314" /db_xref="SubtiList:BG11506" /db_xref="UniProtKB/Swiss-Prot:P54426" /translation="MGAIERSGYTFQPEFSVVRQNGAIHVYHQGEFVEEIEFEFNGEY PDHDLIEELVNHYCFEHEI*" gene 228331..228522 /gene="ybxH" /locus_tag="BSU_02080" /old_locus_tag="BSU02080" downshifts 228504 /Source="Nicolas_upshifts" /id="D77" /incds=0 /nref=17 /ntot=40 /MaxReadThrough="0.194030000000001" /MaxDrop="4.779" /score="29.4617878" /energy="-15.6" /TU="NA" /idTUdmin="U141" /TUdmin="-1" /isTUend="TRUE" CDS complement(228549..229352) /gene="ybxI" /locus_tag="BSU_02090" /old_locus_tag="BSU02090" /EC_number="3.5.2.6" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:14742199" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14742199; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="exported beta-lactamase" /protein_id="NP_388091.1" /db_xref="EnsemblGenomes-Gn:BSU02090" /db_xref="EnsemblGenomes-Tr:CAB12003" /db_xref="GOA:P54427" /db_xref="InterPro:IPR001460" /db_xref="InterPro:IPR002137" /db_xref="InterPro:IPR012338" /db_xref="PDB:5E2F" /db_xref="SubtiList:BG11507" /db_xref="UniProtKB/Swiss-Prot:P54427" /translation="MKKWIYVVLVLSIAGIGGFSVHAASSAHEKHLNVSKMNVDDEFK DTDGTFILHDLQKDQTFVYNRKRANQRQTPQSTFKVVNALIGLQVKAVRDEYDVKRWD GVKREFESWNRDHTLGSAMRESAIWYYQALARDIGEERMKTWLHTLSYGNEDISGGID QFWLQSSLTISPLEQETFLEKLAKEELPFDKPVMKIVKRMMIQEEGDHYTLYGKTGTR LTDMGLGWFVGFIKTEHGSYVFVTNVDDSGTKAKNITVDILKKYGLITS*" gene complement(228549..229352) /gene="ybxI" /locus_tag="BSU_02090" /old_locus_tag="BSU02090" promotor_-10 complement(229374..229392) /Source="Nicolas_upshift_promotors" /id="U142" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=3196 /SigmaFactorBS="accaaatttaagcgctttttgattattttttAAAGGAAGAac aaacgaaaGAGAGAAAAGGTAGTTAATcaaaacgaaggggagaacaaaatgaaaaaat g" /listShort="ybxI" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(229382) /Source="Nicolas_upshifts" /id="U142" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=3196 /SigmaFactorBS="accaaatttaagcgctttttgattattttttAAAGGAAGAac aaacgaaaGAGAGAAAAGGTAGTTAATcaaaacgaaggggagaacaaaatgaaaaaat g" /listShort="ybxI" /GFF_Attribute="listLong" promotor_-35 complement(229403..229411) /Source="Nicolas_upshift_promotors" /id="U142" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=3196 /SigmaFactorBS="accaaatttaagcgctttttgattattttttAAAGGAAGAac aaacgaaaGAGAGAAAAGGTAGTTAATcaaaacgaaggggagaacaaaatgaaaaaat g" /listShort="ybxI" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 229466..229472 /Source="Nicolas_upshift_promotors" /id="U143" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=163 /SigmaFactorBS="taaatttggttttgcaaacaaatactgttactgGGTTTATag tcggaagataacGTGAAAATAGAGGGTAAAAaggaaggcagggtaagcggatgaatga g" /listShort="cypC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 229487..229505 /Source="Nicolas_upshift_promotors" /id="U143" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=163 /SigmaFactorBS="taaatttggttttgcaaacaaatactgttactgGGTTTATag tcggaagataacGTGAAAATAGAGGGTAAAAaggaaggcagggtaagcggatgaatga g" /listShort="cypC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 229493 /Source="Nicolas_upshifts" /id="U143" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=163 /SigmaFactorBS="taaatttggttttgcaaacaaatactgttactgGGTTTATag tcggaagataacGTGAAAATAGAGGGTAAAAaggaaggcagggtaagcggatgaatga g" /listShort="cypC" /GFF_Attribute="listLong" CDS 229525..230778 /gene="cypC" /locus_tag="BSU_02100" /old_locus_tag="BSU02100" /EC_number="1.11.2.4" /function="16.6: Maintain" /function="16.11: Scavenge (Catabolism)" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:10529095, 12519760, 21673922" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10529095, 12519760, 21673922; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="fatty acid beta-hydroxylating cytochrome P450" /protein_id="NP_388092.1" /db_xref="EnsemblGenomes-Gn:BSU02100" /db_xref="EnsemblGenomes-Tr:CAB12004" /db_xref="GOA:O31440" /db_xref="InterPro:IPR001128" /db_xref="InterPro:IPR002401" /db_xref="InterPro:IPR036396" /db_xref="PDB:1IZO" /db_xref="PDB:2ZQJ" /db_xref="PDB:2ZQX" /db_xref="SubtiList:BG12729" /db_xref="UniProtKB/Swiss-Prot:O31440" /translation="MNEQIPHDKSLDNSLTLLKEGYLFIKNRTERYNSDLFQARLLGK NFICMTGAEAAKVFYDTDRFQRQNALPKRVQKSLFGVNAIQGMDGSAHIHRKMLFLSL MTPPHQKRLAELMTEEWKAAVTRWEKADEVVLFEEAKEILCRVACYWAGVPLKETEVK ERADDFIDMVDAFGAVGPRHWKGRRARPRAEEWIEVMIEDARAGLLKTTSGTALHEMA FHTQEDGSQLDSRMAAIELINVLRPIVAISYFLVFSALALHEHPKYKEWLRSGNSRER EMFVQEVRRYYPFGPFLGALVKKDFVWNNCEFKKGTSVLLDLYGTNHDPRLWDHPDEF RPERFAEREENLFDMIPQGGGHAEKGHRCPGEGITIEVMKASLDFLVHQIEYDVPEQS LHYSLARMPSLPESGFVMSGIRRKS*" gene 229525..230778 /gene="cypC" /locus_tag="BSU_02100" /old_locus_tag="BSU02100" misc_feature 229837..229844 /Source="Nicolas_upshift_promotors" /id="U144" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.454545454545455" /psig="0.013986013986014" /xcortree=116 /SigmaFactorBS="atggcagcgcgcatatccatcggaagatgctttttctgtcat tgatgacaCCGCCGCAtcaaaaacgtttggctgagttgatgacagaggagtggaaagc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 229847 /Source="Nicolas_upshifts" /id="U144" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.454545454545455" /psig="0.013986013986014" /xcortree=116 /SigmaFactorBS="atggcagcgcgcatatccatcggaagatgctttttctgtcat tgatgacaCCGCCGCAtcaaaaacgtttggctgagttgatgacagaggagtggaaagc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" downshifts 230771 /Source="Nicolas_upshifts" /id="D78" /incds=0 /nref=5 /ntot=36 /MaxReadThrough="2.65245" /MaxDrop="6.12325" /score="-7.42298703" /energy="-14.7" /TU="NA" /idTUdmin="U143" /TUdmin=0 /isTUend="TRUE" CDS complement(230819..231079) /gene="ybyB" /locus_tag="BSU_02110" /old_locus_tag="BSU02110" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388093.1" /db_xref="EnsemblGenomes-Gn:BSU02110" /db_xref="EnsemblGenomes-Tr:CAB12005" /db_xref="SubtiList:BG12754" /db_xref="UniProtKB/Swiss-Prot:O31441" /translation="MKQKLLLSGLAVSTVGITSYLLKDPSNRQKAREFIHSMKMKITK QPDMETFPVDKAGHPDPQDIEDNKMVSEGSMYPVQYYDEKKK*" gene complement(230819..231079) /gene="ybyB" /locus_tag="BSU_02110" /old_locus_tag="BSU02110" downshifts complement(230838) /Source="Nicolas_upshifts" /id="D79" /incds=0 /nref=155 /ntot=247 /MaxReadThrough="3.63752" /MaxDrop="7.83539" /score="8.86703843" /energy="-12.4" /TU="U145" /idTUdmin="U145" /TUdmin="-387" /isTUend="FALSE" promotor_-10 complement(231109..231127) /Source="Nicolas_upshift_promotors" /id="U145" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=227 /SigmaFactorBS="tactgttaattccaatgataaaaacacaacaGGTTTAGcaat ttccaaaacGGGAATGATACAGGAAACActattcttaaaatagaaaggagtatcacca t" /listShort="ybyB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(231118) /Source="Nicolas_upshifts" /id="U145" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=227 /SigmaFactorBS="tactgttaattccaatgataaaaacacaacaGGTTTAGcaat ttccaaaacGGGAATGATACAGGAAACActattcttaaaatagaaaggagtatcacca t" /listShort="ybyB" /GFF_Attribute="listLong" promotor_-35 complement(231141..231147) /Source="Nicolas_upshift_promotors" /id="U145" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=227 /SigmaFactorBS="tactgttaattccaatgataaaaacacaacaGGTTTAGcaat ttccaaaacGGGAATGATACAGGAAACActattcttaaaatagaaaggagtatcacca t" /listShort="ybyB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 231271..231278 /Source="Nicolas_upshift_promotors" /id="U146" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=2207 /SigmaFactorBS="atatacattgacttattatagatttcagtcaaaattcgataa aTATTGACAaagtaaagtaatcagAATAATAATATAATTAGCAAgagaatgtcatcat a" /listShort="ybeC" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 231288 /Source="Nicolas_upshifts" /id="U146" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=2207 /SigmaFactorBS="atatacattgacttattatagatttcagtcaaaattcgataa aTATTGACAaagtaaagtaatcagAATAATAATATAATTAGCAAgagaatgtcatcat a" /listShort="ybeC" /GFF_Attribute="listLong" promotor_-10 231294..231313 /Source="Nicolas_upshift_promotors" /id="U146" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=2207 /SigmaFactorBS="atatacattgacttattatagatttcagtcaaaattcgataa aTATTGACAaagtaaagtaatcagAATAATAATATAATTAGCAAgagaatgtcatcat a" /listShort="ybeC" /GFF_Attribute="listLong" /label="promotor_-10" CDS 231348..232967 /gene="ybeC" /locus_tag="BSU_02120" /old_locus_tag="BSU02120" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative H+/amino acid transporter" /protein_id="NP_388094.2" /db_xref="EnsemblGenomes-Gn:BSU02120" /db_xref="EnsemblGenomes-Tr:CAB12006" /db_xref="GOA:Q45577" /db_xref="InterPro:IPR002293" /db_xref="SubtiList:BG12730" /db_xref="UniProtKB/Swiss-Prot:Q45577" /translation="MNQLHRRMGTFSLMMVGLGSMIGSGWLFGAWRAAQIAGPAAIIS WVIGMVVILFIALSYSELGSMFPEAGGMVKYTQYSHGSFIGFIAGWANWIAIVSVIPV EAVASVQYMSSWPWEWAKWTSGLVKNGTLTGEGLAFASVLLLIYFLLNYWTVNLFSKA NSLITIFKIIIPGLTIGALLFVGFHGENFTGGQSIAPNGWASVLTAVATSGIVFAFNG FQSPINMAGEAKNPGKSIPIAVVGSLFVATVIYVLLQIAFIGAVNPSDIAHGWSHLNF NSPFADLAIALNINWLVIVLYADAFVSPSGTGITYTATTSRMIYGMEKNKYMPSIFGK LHPIYGVPRQAMFFNLIVSFIFLFLFRGWGVLAEIISVATLISYITGPITVMTLRRTG KDLYRPLRLKGLNVIAPLGFIFASLVLYWARWPLTGQVLFIILIGLPIYFYYQAKAKW KGFGRNFKAGVWMVFYLLAMMVISYLGSDKFGGLNVIHYGWDMVLIAMVSLVFYVWAL KSGYQTEYLKDAKEINSQLLNGQSEAAAGKE*" gene 231348..232967 /gene="ybeC" /locus_tag="BSU_02120" /old_locus_tag="BSU02120" downshifts 232950 /Source="Nicolas_upshifts" /id="D80" /incds=0 /nref=183 /ntot=273 /MaxReadThrough="0.8051" /MaxDrop="6.79949" /score="24.7668372" /energy="-12.2" /TU="NA" /idTUdmin="U146" /TUdmin="-21" /isTUend="TRUE" CDS complement(233014..233895) /gene="glpQA" /locus_tag="BSU_02130" /old_locus_tag="BSU02130" /EC_number="3.1.4.46" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:10913081, 21966272" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10913081, 21966272; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="secreted glycerophosphoryl diester phosphodiesterase" /protein_id="NP_388095.1" /db_xref="EnsemblGenomes-Gn:BSU02130" /db_xref="EnsemblGenomes-Tr:CAB12007" /db_xref="GOA:P37965" /db_xref="InterPro:IPR004129" /db_xref="InterPro:IPR017946" /db_xref="InterPro:IPR030395" /db_xref="PDB:5T91" /db_xref="PDB:5T9B" /db_xref="PDB:5T9C" /db_xref="SubtiList:BG10646" /db_xref="UniProtKB/Swiss-Prot:P37965" /translation="MRKNRILALFVLSLGLLSFMVTPVSAASKGNLLSPDRILTVAHR GASGYVPEHTILSYETAQKMKADFIELDLQMTKDGKLIVMHDEKLDRTTNGMGWVKDH TLADIKKLDAGSWFNEAYPEKAKPQYVGLKVPTLEEVLDRFGKHANYYIETKSPDTYP GMEEKLIASLQKHKLLGKHSKPGQVIIQSFSKESLVKVHQLQPNLPTVQLLEAKQMAS MTDAALEEIKTYAVGAGPDYKALNQENVRMIRSHGLLLHPYTVNNEADMHRLLDWGVT GVFTNYPDLFHKVKKGY*" gene complement(233014..233895) /gene="glpQA" /locus_tag="BSU_02130" /old_locus_tag="BSU02130" downshifts complement(233025) /Source="Nicolas_upshifts" /id="D81" /incds=0 /nref=61 /ntot=107 /MaxReadThrough="2.31368" /MaxDrop="7.76277" /score="9.56390732" /energy="-11.4" /TU="NA" /idTUdmin="U147" /TUdmin=0 /isTUend="TRUE" upshifts complement(233938) /Source="Nicolas_upshifts" /id="U147" /multdbtbs="SigA" /comp="M6" /sig="Sig-" /pcomp="0.738261738261738" /psig="0.0999000999001" /xcortree=4 /SigmaFactorBS="tttaagaaagacacataaaaGATTAATagttttccAACACGC CGTTTACATCcgttttttattatgaaagacaggtagtgcttatctataaggaggagaa a" /listShort="glpQ" /GFF_Attribute="listLong" promotor_-10 complement(233947..233963) /Source="Nicolas_upshift_promotors" /id="U147" /multdbtbs="SigA" /comp="M6" /sig="Sig-" /pcomp="0.738261738261738" /psig="0.0999000999001" /xcortree=4 /SigmaFactorBS="tttaagaaagacacataaaaGATTAATagttttccAACACGC CGTTTACATCcgttttttattatgaaagacaggtagtgcttatctataaggaggagaa a" /listShort="glpQ" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(233972..233978) /Source="Nicolas_upshift_promotors" /id="U147" /multdbtbs="SigA" /comp="M6" /sig="Sig-" /pcomp="0.738261738261738" /psig="0.0999000999001" /xcortree=4 /SigmaFactorBS="tttaagaaagacacataaaaGATTAATagttttccAACACGC CGTTTACATCcgttttttattatgaaagacaggtagtgcttatctataaggaggagaa a" /listShort="glpQ" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(233994..235328) /gene="glpT" /locus_tag="BSU_02140" /old_locus_tag="BSU02140" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:8012593, 11929549, 15849754, 16850406" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8012593, 11929549, 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="sn-glycerol-3-phosphate permease" /protein_id="NP_388096.1" /db_xref="EnsemblGenomes-Gn:BSU02140" /db_xref="EnsemblGenomes-Tr:CAB12008" /db_xref="GOA:P37948" /db_xref="InterPro:IPR000849" /db_xref="InterPro:IPR005267" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR021159" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG10645" /db_xref="UniProtKB/Swiss-Prot:P37948" /translation="MLNIFKPAPHIERLDDSKMDAAYKRLRLQVFIGIFIGYAGYYLL RKNFAFAIPYLQEQGFSKTELGLVLAAVSIAYGFSKFIMGMVSDRCNPRYFLATGLFL SAIVNILFVSMPWVTSSVTIMFIFMFINGWFQGMGWPPCGRTMAHWFSISERGTKMSI WNVAHNIGGGILAPLVTLGIAMFVTWKSVFFFPAIIAIIISFLIVLLVRDTPQSCGLP PIEEYRNDYPKHAFKNQEKELTTKEILFQYVLNNKFLWYIAFANVFVYFVRYGVVDWA PTYLTEAKGFSPEDSRWSYFLYEYAGIPGTILCGWISDRFFKSRRAPAGVLFMAGVFI AVLVYWLNPAGNPLVDNIALISIGFLIYGPVMLIGLQAIDLAPKKAAGTAAGLTGFFG YIGGSAFANAIMGFVVDRFNWNGGFIMLISSCILAIVFLALTWNTGKRAEHV*" gene complement(233994..235328) /gene="glpT" /locus_tag="BSU_02140" /old_locus_tag="BSU02140" promotor_-35 234976..234985 /Source="Nicolas_upshift_promotors" /id="U148" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1339 /SigmaFactorBS="cgttgataaacataaaaataaacatgatggtgacgctcGAAG TCACCCaaggcattgaaaCGAATAGAATATTAACGATTgctgataaaaataggcctgt c" /listShort="S81, ybeF, ybfA" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 234998..235624 /Source="Nicolas_S_feature" /locus_tag="new_234998_235624" /HighExp="S6, S8, S7, S5, BT, B36, G/S, C30, Pyr, B60" /AntisenseName="glpT" /AntisenseCor="-5.0958691169636701E-2" /AntisenseRegPval="-0.4" /CDS_PredictionProba="NA" /TUshortSig="SigK" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S81" promotor_-10 234998..235017 /Source="Nicolas_upshift_promotors" /id="U148" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1339 /SigmaFactorBS="cgttgataaacataaaaataaacatgatggtgacgctcGAAG TCACCCaaggcattgaaaCGAATAGAATATTAACGATTgctgataaaaataggcctgt c" /listShort="S81, ybeF, ybfA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 234998 /Source="Nicolas_upshifts" /id="U148" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1339 /SigmaFactorBS="cgttgataaacataaaaataaacatgatggtgacgctcGAAG TCACCCaaggcattgaaaCGAATAGAATATTAACGATTgctgataaaaataggcctgt c" /listShort="S81, ybeF, ybfA" /GFF_Attribute="listLong" S_feature complement(235329..235401) /Source="Nicolas_S_feature" /locus_tag="new_235329_235401_c" /HighExp="G150, Oxctl, Paraq, S0, Diami, H2O2, Lbexp, dia5, dia0, T0.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="Sig-, SigA" /TUshortPSig="0.042, 0.935" /TUlongSig="NA" /TUlongPSig="NA" /label="S82" promotor_no_box complement(235361..235461) /Source="Nicolas_upshift_promotors" /id="U149" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.370629370629371" /psig="0.041958041958042" /xcortree=1566 /SigmaFactorBS="tagcttggatggagatgaggagagccaggaatccaacccctt ttgacaaggggtgttttctggctctttttgtttttcgggaaaggaggcacgccacaca t" /listShort="S82, glpT, glpQ" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts complement(235401) /Source="Nicolas_upshifts" /id="U149" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.370629370629371" /psig="0.041958041958042" /xcortree=1566 /SigmaFactorBS="tagcttggatggagatgaggagagccaggaatccaacccctt ttgacaaggggtgttttctggctctttttgtttttcgggaaaggaggcacgccacaca t" /listShort="S82, glpT, glpQ" /GFF_Attribute="listLong" S_feature complement(235403..235489) /Source="Nicolas_S_feature" /locus_tag="new_235403_235489_c" /HighExp="G150, Oxctl, S0, Diami, Lbexp, dia5, Paraq, dia0, T0.30H, H2O2" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.935" /TUlongSig="NA" /TUlongPSig="NA" /label="S83" promotor_-10 complement(235479..235498) /Source="Nicolas_upshift_promotors" /id="U150" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.396603396603397" /psig="0.935064935064935" /xcortree=1567 /SigmaFactorBS="tattcacttccctaaggcccaatttgaaaattaccCGTTTAC AttcgctccggacTATGATAATTTAAGAAAGCGctatcatgataagttaatagcttgg a" /listShort="S83, S82, glpT, glpQ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(235493) /Source="Nicolas_upshifts" /id="U150" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.396603396603397" /psig="0.935064935064935" /xcortree=1567 /SigmaFactorBS="tattcacttccctaaggcccaatttgaaaattaccCGTTTAC AttcgctccggacTATGATAATTTAAGAAAGCGctatcatgataagttaatagcttgg a" /listShort="S83, S82, glpT, glpQ" /GFF_Attribute="listLong" promotor_-35 complement(235511..235518) /Source="Nicolas_upshift_promotors" /id="U150" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.396603396603397" /psig="0.935064935064935" /xcortree=1567 /SigmaFactorBS="tattcacttccctaaggcccaatttgaaaattaccCGTTTAC AttcgctccggacTATGATAATTTAAGAAAGCGctatcatgataagttaatagcttgg a" /listShort="S83, S82, glpT, glpQ" /GFF_Attribute="listLong" /label="promotor_-35" CDS 235625..235873 /gene="ybeF" /locus_tag="BSU_02150" /old_locus_tag="BSU02150" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388097.1" /db_xref="EnsemblGenomes-Gn:BSU02150" /db_xref="EnsemblGenomes-Tr:CAB12009" /db_xref="GOA:O31442" /db_xref="InterPro:IPR020258" /db_xref="SubtiList:BG12731" /db_xref="UniProtKB/Swiss-Prot:O31442" /translation="MDELDIAFFILPLGIMLLSIVGTCICKNPYLMPMLSLVISLVLT FTIFNQSFLGWAVVYSLVSLALSYITLIVVRKRKESGN*" gene 235625..235873 /gene="ybeF" /locus_tag="BSU_02150" /old_locus_tag="BSU02150" promotor_-35 235897..235904 /Source="Nicolas_upshift_promotors" /id="U151" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.801198801198801" /psig="0.984015984015984" /xcortree=3080 /SigmaFactorBS="gtaaggaaaaggaaggaatcaggaaattaaaaagacctcact ttctaacatatCGTTGACTaaagcaactatatgtGATTATAATTGCTTTAGTCAacga t" /listShort="ybfA, ybfB" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 235904 /Source="Nicolas_upshifts" /id="U151" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.801198801198801" /psig="0.984015984015984" /xcortree=3080 /SigmaFactorBS="gtaaggaaaaggaaggaatcaggaaattaaaaagacctcact ttctaacatatCGTTGACTaaagcaactatatgtGATTATAATTGCTTTAGTCAacga t" /listShort="ybfA, ybfB" /GFF_Attribute="listLong" promotor_-10 235920..235939 /Source="Nicolas_upshift_promotors" /id="U151" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.801198801198801" /psig="0.984015984015984" /xcortree=3080 /SigmaFactorBS="gtaaggaaaaggaaggaatcaggaaattaaaaagacctcact ttctaacatatCGTTGACTaaagcaactatatgtGATTATAATTGCTTTAGTCAacga t" /listShort="ybfA, ybfB" /GFF_Attribute="listLong" /label="promotor_-10" CDS 235965..236882 /gene="ybfA" /locus_tag="BSU_02160" /old_locus_tag="BSU02160" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator with acetyltransferase domain" /protein_id="NP_388098.1" /db_xref="EnsemblGenomes-Gn:BSU02160" /db_xref="EnsemblGenomes-Tr:CAB12010" /db_xref="GOA:O31443" /db_xref="InterPro:IPR000182" /db_xref="InterPro:IPR000835" /db_xref="InterPro:IPR016181" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12732" /db_xref="UniProtKB/Swiss-Prot:O31443" /translation="MKTRESSVGLKFRKFNRFYTNVLGFLNEHIYDSPFSLTETRILF EIYNTPNCTAKALQDKLGLDRGYVSRIVKQFEKEDLIYKQRSKDDARHHYIFVTETGK TIYKKLEEKANEQVELMLKVINQKEQHKLAEAMAEIEAILSQSLSARASEISIRDYFL SEDLQLLIEKQRQFYAEAHGWDDTFLAYLQETFDADIEKIWIAESGGKFAGSVGLVKH DEKTVQLRWFLVDADFRGRGLGTQLLEHLVAYCQDMKFDRIFLWTVSTMAEARPLYKK FGFRISEVKQEAPLWGQQLTEERWDLELS*" gene 235965..236882 /gene="ybfA" /locus_tag="BSU_02160" /old_locus_tag="BSU02160" CDS 236879..238129 /gene="ybfB" /locus_tag="BSU_02170" /old_locus_tag="BSU02170" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative carboxylate transporter" /protein_id="NP_388099.1" /db_xref="EnsemblGenomes-Gn:BSU02170" /db_xref="EnsemblGenomes-Tr:CAB12011" /db_xref="GOA:O31444" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12733" /db_xref="UniProtKB/Swiss-Prot:O31444" /translation="MKRLHYAWIIVSVTFLILLAVQGVRLSFGAFVEPWERQFSIDRS TISLISTVSFIVYGISQPVIGRLVDKWGARAVLAWSALLTGVSIFLTYLVTSPWQLFL LYGLGVSLGVGGASNVAASVLVVNWFSKKRGLAFGIMEAGFGAGQMLLVPGSLMLIHW FSWKLTVVVLGLLLIVIVFPAALLMLRNNPSEKNTEPIGGLAASEKETAPKTTALSVA GMFRMRQFWFLIFPFLICGFTTVGLMDTHLIPFSHDHGFSTTVTSAAVSLLAGFNIAG ILLSGIVADRWSSRKILCILYAVRALSIVILIYSHEPYLLLAFAILFGLVDFATVAPT QMLATQYFQNYSIGLMIGWLSLAHQIGSALGAYVPGVIYTVTGEYTLAFYLSIGMLVL ASVMNVMLREPAAVTRDSAAVVDK*" gene 236879..238129 /gene="ybfB" /locus_tag="BSU_02170" /old_locus_tag="BSU02170" downshifts 238119 /Source="Nicolas_upshifts" /id="D82" /incds=0 /nref=57 /ntot=187 /MaxReadThrough="1.17226" /MaxDrop="5.55429" /score="12.1347284" /energy="-9.5" /TU="NA" /idTUdmin="U151" /TUdmin=0 /isTUend="TRUE" CDS complement(238164..238448) /gene="ybfEc" /locus_tag="BSU_02180" /old_locus_tag="BSU02180" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /pseudo /codon_start=1 /transl_table=11 /product="conserved protein of unknown function (C-terminal end)" /db_xref="EnsemblGenomes-Gn:BSU02180" /db_xref="EnsemblGenomes-Tr:CAB12012" /db_xref="GOA:O31445" /db_xref="PSEUDO:CAB12012.2" /db_xref="SubtiList:BG12734" /db_xref="UniProtKB/Swiss-Prot:O31445" /translation="MNHCLHSNTLAKIVCTVTLITLYFYFFSTRFNELIELAVQMFFA LIGLFWVFIVSPFSRKVQISERFKQKSENARIVGMIDFVLEQKYKKSISE*" gene complement(238164..238448) /gene="ybfEc" /locus_tag="BSU_02180" /old_locus_tag="BSU02180" /pseudo downshifts complement(238217) /Source="Nicolas_upshifts" /id="D83" /incds=0 /nref=4 /ntot=189 /MaxReadThrough="2.49989" /MaxDrop="3.7302" /score="13.7144473" /energy="-12.6" /TU="U153" /idTUdmin="U153" /TUdmin="-22" /isTUend="TRUE" CDS complement(238354..238476) /gene="ybfEn" /locus_tag="BSU_02181" /old_locus_tag="BSU02181" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /pseudo /codon_start=1 /transl_table=11 /product="conserved protein of unknown function YbfE (N-terminal fragment)" /db_xref="PSEUDO:SOX90538.1" /translation="MLNQLKVFFSEPLLTFKHTCQNRMYCDINNVILLFFQHSF*" gene complement(238354..238476) /gene="ybfEn" /locus_tag="BSU_02181" /old_locus_tag="BSU02181" /pseudo S_feature complement(238449..238569) /Source="Nicolas_S_feature" /locus_tag="new_238449_238569_c" /HighExp="Lbexp, dia0, LBGexp, G150, Mt0, H2O2, dia5, M0t45, G135, HPh" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigEF, Sig-" /TUshortPSig="0.899, 0" /TUlongSig="NA" /TUlongPSig="NA" /label="S84" promotor_-10 complement(238554..238572) /Source="Nicolas_upshift_promotors" /id="U152" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.899100899100899" /psig="0.899100899100899" /xcortree=1463 /SigmaFactorBS="tactaagaaatactcaatttttatactttaagagaTGTATAt attgaatgtagaccaCCATACATATAAAGAAACAgaaacagcaactttattttagaac a" /listShort="S84, ybfE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(238569) /Source="Nicolas_upshifts" /id="U152" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.899100899100899" /psig="0.899100899100899" /xcortree=1463 /SigmaFactorBS="tactaagaaatactcaatttttatactttaagagaTGTATAt attgaatgtagaccaCCATACATATAAAGAAACAgaaacagcaactttattttagaac a" /listShort="S84, ybfE" /GFF_Attribute="listLong" S_feature complement(238571..238643) /Source="Nicolas_S_feature" /locus_tag="new_238571_238643_c" /HighExp="Lbexp, dia0, LBGexp, HPh, G150, H2O2, dia5, Mt0, M0t45, G180" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="Sig-" /TUshortPSig=0 /TUlongSig="NA" /TUlongPSig="NA" /label="S85" promotor_-35 complement(238589..238594) /Source="Nicolas_upshift_promotors" /id="U152" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.899100899100899" /psig="0.899100899100899" /xcortree=1463 /SigmaFactorBS="tactaagaaatactcaatttttatactttaagagaTGTATAt attgaatgtagaccaCCATACATATAAAGAAACAgaaacagcaactttattttagaac a" /listShort="S84, ybfE" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(238644..239555) /gene="ybfF" /locus_tag="BSU_02190" /old_locus_tag="BSU02190" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388101.1" /db_xref="EnsemblGenomes-Gn:BSU02190" /db_xref="EnsemblGenomes-Tr:CAB12013" /db_xref="GOA:O31446" /db_xref="SubtiList:BG12735" /db_xref="UniProtKB/Swiss-Prot:O31446" /translation="MKNDQIVFEKTKNIAHDINQMQNQQEIIDYLFRQDSLTLNQLKH YYSEPSLPLQFLVKVAVLCMFISMTLASFLFIQAKEVFTNTILSDISPAVFSIFTVIC IFMTYTKIIKKGNKNKGKASLNQRSEFYEKNKLINTILYKKYKMDQQNIQANKHTASD NEDSMNFSAVLNHVLTISKNDKELLGYLDTRDNAMLSQLKAYFSTRPFSLPHYMSLMF CGSIIVVYATSLFSGQINYIDIPHIFIFLLLIIFLKILIDLIKLLNISRKGQLHTVLH FAQRAEYLRMRGVIDFILTERYNKKIM*" gene complement(238644..239555) /gene="ybfF" /locus_tag="BSU_02190" /old_locus_tag="BSU02190" S_feature complement(239556..239643) /Source="Nicolas_S_feature" /locus_tag="new_239556_239643_c" /HighExp="LBGexp, Lbexp, G150, dia5, dia0, G135, Oxctl, H2O2, Mt0, Salt" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="Sig-" /TUshortPSig=0 /TUlongSig="NA" /TUlongPSig="NA" /label="S86" CDS complement(239644..241842) /gene="ybfG" /locus_tag="BSU_02200" /old_locus_tag="BSU02200" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative pepdidoglycan binding protein" /protein_id="NP_388102.1" /db_xref="EnsemblGenomes-Gn:BSU02200" /db_xref="EnsemblGenomes-Tr:CAB12014" /db_xref="GOA:O31447" /db_xref="InterPro:IPR002477" /db_xref="InterPro:IPR015020" /db_xref="InterPro:IPR017853" /db_xref="InterPro:IPR036365" /db_xref="InterPro:IPR036366" /db_xref="SubtiList:BG12736" /db_xref="UniProtKB/Swiss-Prot:O31447" /translation="MVDEMVLITQQWLNDTYSGKHGYNPVEESGKTGWDTIYGLTRAL QIELGISEPADNFGPTTQRLFKPLKRQAPDSKPSNMNFILQGALWCKGFNPGGFTGVF YEKTENAVKEFQKAAGLTTQDGIVTTLIMKALLDMSAFKLVSGGDSRIRQIQQNLNRD YNDYIGLMPCDGLYGRDTNKALIYALQKEEGMSTSVANGFFGNGTTSLCPTLTPGDSR TGFVLIVQYALYCNGKSFDPGEFDGKYGVGVVSAVKAFQEFMCLPQTGYADMPTIKAL LSSSGDTTRTASACDTATIITAEKAQTLRNNGYKTVGRYLTGNVRTSSGLTSKALTSK ELAVILDAGLKVFPIYQDGGYESSYFVKDQGTRDAYSAASAARRLGFPSGTTIYFAVD FDAYDYEVTDKIIPYFQEIKSAFTKMQTFSTAPKYEIGVYGPRNICIRTSEAGLTKYS FVANMSTGFSGNLGYPMPNNWAFDQFYEGTIGSGSGSIGIDKDGYSGRDSGASNVNPP SDPVYDARLRTLTDILSTIPALENLTSLANAMFEFDTTETIFTSPELDIILSTSLLAT IPSEGSPNTITITNGKPGAYITGLLGDTQTSLTASQIDSYQNLLNSLSLSVRNGYLEV YVNPTAESLNIQIKIYTPDIPVGDNVTTGLTTTITFKIKTYKGVPVTSPESELALDWP SYDQYLFPVVGVAALLLIGNMGSDLTNNKGVKVATALSAMLLAIFAYYTS*" gene complement(239644..241842) /gene="ybfG" /locus_tag="BSU_02200" /old_locus_tag="BSU02200" misc_feature complement(241877..241895) /Source="Nicolas_upshift_promotors" /id="U153" /multdbtbs="-" /comp="M12" /sig="Sig-" /pcomp=1 /psig=0 /xcortree=1523 /SigmaFactorBS="ctgttggagaacggatgtaaaatggatgcttaacggcatcca tttttttattttGTCCTACGTTTGCCACCTAtaaatgaacgcaatctaacaaaggagg a" /listShort="ybfG, S86, ybfF, S85, S84, ybfE" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(241889) /Source="Nicolas_upshifts" /id="U153" /multdbtbs="-" /comp="M12" /sig="Sig-" /pcomp=1 /psig=0 /xcortree=1523 /SigmaFactorBS="ctgttggagaacggatgtaaaatggatgcttaacggcatcca tttttttattttGTCCTACGTTTGCCACCTAtaaatgaacgcaatctaacaaaggagg a" /listShort="ybfG, S86, ybfF, S85, S84, ybfE" /GFF_Attribute="listLong" CDS complement(241917..242837) /gene="ybfH" /locus_tag="BSU_02210" /old_locus_tag="BSU02210" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative permease" /protein_id="NP_388103.1" /db_xref="EnsemblGenomes-Gn:BSU02210" /db_xref="EnsemblGenomes-Tr:CAB12015" /db_xref="GOA:O31448" /db_xref="InterPro:IPR000620" /db_xref="SubtiList:BG12737" /db_xref="UniProtKB/Swiss-Prot:O31448" /translation="MNIQRETSGHIAAIVTILIWGTTFISTKVLLADFSPMEILFYRF LMGFIALILVRPNMIPFRNWRQELLFAGAGLFGVTLYFLLENIALTYTYASNVGMIVS IIPMITAVLAHFLLEGEKLRLTFLIGFISALIGLLLITFNGNVVLRLNPLGDIMAAGA ALVFGGYSIFMKKLSAYEYHIIELTQRVFLYGLLFMVPALFLFDFHFDLSRFSSASNI LNMLFLGIGASALCFATWNYSVGVLGAVKSSAYIYMVPVITIAASVLILHENMTWIAL LGGALTLLGLYISELKPKAKLLENGCKMDA*" gene complement(241917..242837) /gene="ybfH" /locus_tag="BSU_02210" /old_locus_tag="BSU02210" CDS complement(242834..243661) /gene="ybfI" /locus_tag="BSU_02220" /old_locus_tag="BSU02220" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (AraC/XylS family, cupin family)" /protein_id="NP_388104.1" /db_xref="EnsemblGenomes-Gn:BSU02220" /db_xref="EnsemblGenomes-Tr:CAB12016" /db_xref="GOA:O31449" /db_xref="InterPro:IPR003313" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR018060" /db_xref="SubtiList:BG12738" /db_xref="UniProtKB/Swiss-Prot:O31449" /translation="MQNETRTLQLDPHLHIEAYRFKGIMQKFPNHFHDYYVIGFIEKG QRYLACQDQEYIINPGDLLLFNPRDTHSCEQIDGRTLDYRCINVMPDIMEKAVKEITG SGHLPYFSQHVLFRHELTASLQELHILISEEKQALRKEELFLHLLEELIRHYSDVTFL SSVPEPSDEVKMVCEFLEEHYAENVTLNDLSELTGWSKYHLLRSFTKQKGITPNSYME TIRINQAKKLLEQGVRPIDAAFQTGFSDQSHMTKFFKRQVGLTPKQYMKIFEKELHR* " gene complement(242834..243661) /gene="ybfI" /locus_tag="BSU_02220" /old_locus_tag="BSU02220" misc_feature complement(243688..243707) /Source="Nicolas_upshift_promotors" /id="U154" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.992007992007992" /psig="0.999000999001" /xcortree=583 /SigmaFactorBS="ctttctctattcctaaacagcaacatcatacaagaaatcccc caaaatCATGCTACACTTAATCCAAGaccaccacaccgacaggaggcatcccatgcaa a" /listShort="ybfI" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(243695) /Source="Nicolas_upshifts" /id="U154" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.992007992007992" /psig="0.999000999001" /xcortree=583 /SigmaFactorBS="ctttctctattcctaaacagcaacatcatacaagaaatcccc caaaatCATGCTACACTTAATCCAAGaccaccacaccgacaggaggcatcccatgcaa a" /listShort="ybfI" /GFF_Attribute="listLong" promotor_-35 243835..243838 /Source="Nicolas_upshift_promotors" /id="U155" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.767232767232767" /psig="0.999000999001" /xcortree=2313 /SigmaFactorBS="tttaaccctcaataataattttatcttttttaataaaAATTt atttttcaaatatTTCAGTTATAATGGTTTGGAacagataggaggggcaaagatgtat c" /listShort="purT" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 243853..243872 /Source="Nicolas_upshift_promotors" /id="U155" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.767232767232767" /psig="0.999000999001" /xcortree=2313 /SigmaFactorBS="tttaaccctcaataataattttatcttttttaataaaAATTt atttttcaaatatTTCAGTTATAATGGTTTGGAacagataggaggggcaaagatgtat c" /listShort="purT" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 243858 /Source="Nicolas_upshifts" /id="U155" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.767232767232767" /psig="0.999000999001" /xcortree=2313 /SigmaFactorBS="tttaaccctcaataataattttatcttttttaataaaAATTt atttttcaaatatTTCAGTTATAATGGTTTGGAacagataggaggggcaaagatgtat c" /listShort="purT" /GFF_Attribute="listLong" CDS 243892..245046 /gene="purT" /locus_tag="BSU_02230" /old_locus_tag="BSU02230" /EC_number="2.1.2.-" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:7496533" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7496533; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="phosphoribosylglycinamide formyltransferase 2" /protein_id="NP_388105.1" /db_xref="EnsemblGenomes-Gn:BSU02230" /db_xref="EnsemblGenomes-Tr:CAB12017" /db_xref="GOA:P39771" /db_xref="InterPro:IPR003135" /db_xref="InterPro:IPR005862" /db_xref="InterPro:IPR011054" /db_xref="InterPro:IPR011761" /db_xref="InterPro:IPR013815" /db_xref="InterPro:IPR016185" /db_xref="SubtiList:BG10924" /db_xref="UniProtKB/Swiss-Prot:P39771" /translation="MYQSKKVLLLGSGELGKEVVIEAQRLGVQTVAVDSYEHAPAMQV AHNSYVVDMLDPEQIRTIIEKENPDLIVPEVEAIATDELLKLEEEGFHVIPNARAAKL TMDREGIRRLAAETLGLATAGYEFANTYDEFIQAAAQIGFPCVVKPLMSSSGKGQSVC RSEADLESCWETAMEGGRVKNGRVIVEEFIPFESEITLLTVRAVNGTAFCEPIGHVQK DGDYIESWQPHDMTEQQIEEAKHIAKTITDELGGYGLFGVELFLAKDRVYFSEVSPRP HDTGLVTLVTQNLSEFALHVRAILGFPITEITQLSPGASRPLKAPEELADYTVEGLEN ALAVPKTQVRVFGKPITKAGRRMAVALSAADSVETARENAKKALDQLILK*" gene 243892..245046 /gene="purT" /locus_tag="BSU_02230" /old_locus_tag="BSU02230" downshifts 245027 /Source="Nicolas_upshifts" /id="D84" /incds=0 /nref=100 /ntot=189 /MaxReadThrough="2.6996" /MaxDrop="5.22319" /score="39.2561117" /energy="-15.1" /TU="NA" /idTUdmin="U155" /TUdmin=0 /isTUend="TRUE" promotor_-35 245107..245112 /Source="Nicolas_upshift_promotors" /id="U156" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.973026973026973" /psig="0.973026973026973" /xcortree=1104 /SigmaFactorBS="ttgtcatgggacaaggcctgtttttttctttctccgtaaaag ttttATCATAagaatcagaaacctGATTATAATGTAAAAGTCTtccatcgatacgggt g" /listShort="mpr, ybfJ" /listLong="S87, ybfK, S88, pssA, ybfM, psd" /label="promotor_-35" upshifts 245121 /Source="Nicolas_upshifts" /id="U156" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.973026973026973" /psig="0.973026973026973" /xcortree=1104 /SigmaFactorBS="ttgtcatgggacaaggcctgtttttttctttctccgtaaaag ttttATCATAagaatcagaaacctGATTATAATGTAAAAGTCTtccatcgatacgggt g" /listShort="mpr, ybfJ" /listLong="S87, ybfK, S88, pssA, ybfM, psd" promotor_-10 245127..245145 /Source="Nicolas_upshift_promotors" /id="U156" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.973026973026973" /psig="0.973026973026973" /xcortree=1104 /SigmaFactorBS="ttgtcatgggacaaggcctgtttttttctttctccgtaaaag ttttATCATAagaatcagaaacctGATTATAATGTAAAAGTCTtccatcgatacgggt g" /listShort="mpr, ybfJ" /listLong="S87, ybfK, S88, pssA, ybfM, psd" /label="promotor_-10" promotor_-35 245161..245168 /Source="Nicolas_upshift_promotors" /id="U157" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.390609390609391" /psig=1 /xcortree=760 /SigmaFactorBS="acctgattataatgtaaaagtcttccatcgatacgggtGGTT GACActaaaggagggagaTGACAAAATGAAATTAGTTCcaagattcagaaaacaatgg t" /listShort="mpr, ybfJ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 245183..245202 /Source="Nicolas_upshift_promotors" /id="U157" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.390609390609391" /psig=1 /xcortree=760 /SigmaFactorBS="acctgattataatgtaaaagtcttccatcgatacgggtGGTT GACActaaaggagggagaTGACAAAATGAAATTAGTTCcaagattcagaaaacaatgg t" /listShort="mpr, ybfJ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 245183 /Source="Nicolas_upshifts" /id="U157" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.390609390609391" /psig=1 /xcortree=760 /SigmaFactorBS="acctgattataatgtaaaagtcttccatcgatacgggtGGTT GACActaaaggagggagaTGACAAAATGAAATTAGTTCcaagattcagaaaacaatgg t" /listShort="mpr, ybfJ" /GFF_Attribute="listLong" CDS 245190..246131 /gene="mpr" /locus_tag="BSU_02240" /old_locus_tag="BSU02240" /EC_number="3.4.21.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 15205417, 15375126, 21819557, 25666135; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="extracellular glutamyl-endopeptidase" /protein_id="NP_388106.1" /db_xref="EnsemblGenomes-Gn:BSU02240" /db_xref="EnsemblGenomes-Tr:CAB12018" /db_xref="GOA:P39790" /db_xref="InterPro:IPR000126" /db_xref="InterPro:IPR001254" /db_xref="InterPro:IPR008256" /db_xref="InterPro:IPR009003" /db_xref="InterPro:IPR018114" /db_xref="InterPro:IPR028301" /db_xref="SubtiList:BG10690" /db_xref="UniProtKB/Swiss-Prot:P39790" /translation="MKLVPRFRKQWFAYLTVLCLALAAAVSFGVPAKAAENPQTSVSN TGKEADATKNQTSKADQVSAPYEGTGKTSKSLYGGQTELEKNIQTLQPSSIIGTDERT RISSTTSFPYRATVQLSIKYPNTSSTYGCTGFLVNPNTVVTAGHCVYSQDHGWASTIT AAPGRNGSSYPYGTYSGTMFYSVKGWTESKDTNYDYGAIKLNGSPGNTVGWYGYRTTN SSSPVGLSSSVTGFPCDKTFGTMWSDTKPIRSAETYKLTYTTDTYGCQSGSPVYRNYS DTGQTAIAIHTNGGSSYNLGTRVTNDVFNNIQYWANQ*" gene 245190..246131 /gene="mpr" /locus_tag="BSU_02240" /old_locus_tag="BSU02240" CDS 246094..246492 /gene="ybfJ" /locus_tag="BSU_02250" /old_locus_tag="BSU02250" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type lp: lipoprotein" /codon_start=1 /transl_table=11 /product="putative lipoprotein" /protein_id="NP_388107.1" /db_xref="EnsemblGenomes-Gn:BSU02250" /db_xref="EnsemblGenomes-Tr:CAB12019" /db_xref="InterPro:IPR013783" /db_xref="InterPro:IPR019730" /db_xref="SubtiList:BG12739" /db_xref="UniProtKB/Swiss-Prot:O31451" /translation="MYSTIFNIGQINKYSKLAIFMSILFLCGCSSQTHSSQKETTIPV TLHVEDAKGLPVEGVQVTIVKAPSSDEEPSTEIGEILGKTDKNGDIKWDTGRKGDYSV ALTKGETSVTHHISLTEDKKDHAIPLVFKE*" gene 246094..246492 /gene="ybfJ" /locus_tag="BSU_02250" /old_locus_tag="BSU02250" promotor_-10 complement(246186..246200) /Source="Nicolas_upshift_promotors" /id="U158" /multdbtbs="-" /comp="M1" /sig="Sig-" /pcomp="0.418581418581419" /psig="0.418581418581419" /xcortree=776 /SigmaFactorBS="gcagccccttagcatcctccacatgaagagtgacaGGAATAg tcgtttctttttgaGAAGAATGCGTCTGCgaactgcacccgcataaaaacaaaataga c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(246196) /Source="Nicolas_upshifts" /id="U158" /multdbtbs="-" /comp="M1" /sig="Sig-" /pcomp="0.418581418581419" /psig="0.418581418581419" /xcortree=776 /SigmaFactorBS="gcagccccttagcatcctccacatgaagagtgacaGGAATAg tcgtttctttttgaGAAGAATGCGTCTGCgaactgcacccgcataaaaacaaaataga c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(246216..246221) /Source="Nicolas_upshift_promotors" /id="U158" /multdbtbs="-" /comp="M1" /sig="Sig-" /pcomp="0.418581418581419" /psig="0.418581418581419" /xcortree=776 /SigmaFactorBS="gcagccccttagcatcctccacatgaagagtgacaGGAATAg tcgtttctttttgaGAAGAATGCGTCTGCgaactgcacccgcataaaaacaaaataga c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 246479 /Source="Nicolas_upshifts" /id="D85" /incds=0 /nref=19 /ntot=51 /MaxReadThrough="3.50775" /MaxDrop="5.06025" /score="29.4582027" /energy="-15.4" /TU="U156" /idTUdmin="U157" /TUdmin=0 /isTUend="TRUE" promotor_-35 246548..246555 /Source="Nicolas_upshift_promotors" /id="U159" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.833166833166833" /psig=1 /xcortree=2185 /SigmaFactorBS="ttttatttattgcaggaaaccaaacTATATACTggaaattta ttatgTGAGATAATAAGAAATAGGTattttttcttacgagacaaaaggggcgttatcc t" /listShort="S87, ybfK, S88, pssA, ybfM, psd" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 246570..246589 /Source="Nicolas_upshift_promotors" /id="U159" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.833166833166833" /psig=1 /xcortree=2185 /SigmaFactorBS="ttttatttattgcaggaaaccaaacTATATACTggaaattta ttatgTGAGATAATAAGAAATAGGTattttttcttacgagacaaaaggggcgttatcc t" /listShort="S87, ybfK, S88, pssA, ybfM, psd" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 246583..246657 /Source="Nicolas_S_feature" /locus_tag="new_246583_246657" /HighExp="Cold, LoTm, S0, aero, ferm, T-4.40H, nit, T-5.40H, T-0.40H, Paraq" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="SigEF" /TUlongPSig="0.973" /label="S87" upshifts 246583 /Source="Nicolas_upshifts" /id="U159" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.833166833166833" /psig=1 /xcortree=2185 /SigmaFactorBS="ttttatttattgcaggaaaccaaacTATATACTggaaattta ttatgTGAGATAATAAGAAATAGGTattttttcttacgagacaaaaggggcgttatcc t" /listShort="S87, ybfK, S88, pssA, ybfM, psd" /GFF_Attribute="listLong" CDS 246658..247548 /gene="cesB" /locus_tag="BSU_02260" /old_locus_tag="BSU02260" /EC_number="3.1.1.1" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:11389736, 24418394" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11389736, 24418394; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="enantioselective carboxylesterase" /protein_id="NP_388108.1" /db_xref="EnsemblGenomes-Gn:BSU02260" /db_xref="EnsemblGenomes-Tr:CAB12020" /db_xref="GOA:O31452" /db_xref="InterPro:IPR000073" /db_xref="InterPro:IPR029058" /db_xref="PDB:4CCY" /db_xref="SubtiList:BG12740" /db_xref="UniProtKB/Swiss-Prot:O31452" /translation="MIQDSMQFAAVESGLRFYQAYDQSLSLWPIESEAFYVSTRFGKT HIIASGPKDAPSLILLHGGLFSSAMWYPNIAAWSSQFRTYAVDIIGDKNKSIPSAAME TRADFAEWMKDVFDSLGLETAHLAGLSLGGSHIVNFLLRAPERVERAVVISPAEAFIS FHPDVYKYAAELTGARGAESYIKWITGDSYDLHPLLQRQIVAGVEWQDEQRSLKPTEN GFPYVFTDQELKSIQVPVLLMFGEHEAMYHQQMAFERASVLVPGIQAEIVKNAGHLLS LEQPEYVNQRVLSFLCGGIK*" gene 246658..247548 /gene="cesB" /locus_tag="BSU_02260" /old_locus_tag="BSU02260" promotor_-35 246892..246899 /Source="Nicolas_upshift_promotors" /id="U160" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp="0.867132867132867" /psig="0.867132867132867" /xcortree=2736 /SigmaFactorBS="ttttcagctctgcgatgtggtatccgaatatcgcagcgtgga gcAGTCAATTtcgtacatatgcgGTCGATATAATAGGAGACAaaaataaaagtatacc a" /listShort="S88, pssA, ybfM, psd" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 246908 /Source="Nicolas_upshifts" /id="U160" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp="0.867132867132867" /psig="0.867132867132867" /xcortree=2736 /SigmaFactorBS="ttttcagctctgcgatgtggtatccgaatatcgcagcgtgga gcAGTCAATTtcgtacatatgcgGTCGATATAATAGGAGACAaaaataaaagtatacc a" /listShort="S88, pssA, ybfM, psd" /GFF_Attribute="listLong" promotor_-10 246913..246931 /Source="Nicolas_upshift_promotors" /id="U160" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp="0.867132867132867" /psig="0.867132867132867" /xcortree=2736 /SigmaFactorBS="ttttcagctctgcgatgtggtatccgaatatcgcagcgtgga gcAGTCAATTtcgtacatatgcgGTCGATATAATAGGAGACAaaaataaaagtatacc a" /listShort="S88, pssA, ybfM, psd" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 247549..247743 /Source="Nicolas_S_feature" /locus_tag="new_247549_247743" /HighExp="Cold, LBGstat, Paraq, Oxctl, H2O2, dia15, G135, Diami, Lbexp, LBGexp" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigD, SigA" /TUshortPSig="0.867, 1" /TUlongSig="SigEF" /TUlongPSig="0.973" /label="S88" CDS 247744..248277 /gene="pssA" /locus_tag="BSU_02270" /old_locus_tag="BSU02270" /EC_number="2.7.8.8" /function="16.13: Shape" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12682299, 14762009, 15743965, 15849754, 16850406" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 14762009, 15743965, 15849754, 16850406; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="phosphatidylserine synthase" /protein_id="NP_388109.1" /db_xref="EnsemblGenomes-Gn:BSU02270" /db_xref="EnsemblGenomes-Tr:CAB12021" /db_xref="GOA:P39823" /db_xref="InterPro:IPR000462" /db_xref="InterPro:IPR004533" /db_xref="SubtiList:BG11012" /db_xref="UniProtKB/Swiss-Prot:P39823" /translation="MNYIPCMITIGNFICGLLAIHSLLYHNIHSAVLFIFTGMFLDFF DGMAARKLNAVSDMGRELDSFADLVTFGVAPSMLAYSVALYTLPFIGILCALTYSICG MLRLSKFNIEQSKLPTFIGMPIPFAGMCLVILSFTYNPILLAIGTCGLSYLMVSKIKF PHFKKHAAENLESGRWN*" gene 247744..248277 /gene="pssA" /locus_tag="BSU_02270" /old_locus_tag="BSU02270" CDS 248268..248756 /gene="ybfM" /locus_tag="BSU_02280" /old_locus_tag="BSU02280" /function="16.8: Protect" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12682299, 14762009, 15849754, 16850406; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative membrane phosphatase" /protein_id="NP_388110.1" /db_xref="EnsemblGenomes-Gn:BSU02280" /db_xref="EnsemblGenomes-Tr:CAB12022" /db_xref="GOA:O31453" /db_xref="InterPro:IPR032816" /db_xref="SubtiList:BG12741" /db_xref="UniProtKB/Swiss-Prot:O31453" /translation="MELVQQLIADYGYLAIFLMLVLGIVGLPIPDEVMMTVVGYFTHT DVLNYELSILISFVGALLGMLISYMIGRKAGRPFIDKYGKWVGLKEKRMMKVEKWMKK YGPYSLILGYFIPGVRHVTCYFSGIGKMDLKTYVAFAAIGAFLWCFVFITIGRVIGII HV*" gene 248268..248756 /gene="ybfM" /locus_tag="BSU_02280" /old_locus_tag="BSU02280" CDS 248749..249540 /gene="psd" /locus_tag="BSU_02290" /old_locus_tag="BSU02290" /EC_number="4.1.1.65" /function="16.2: Construct biomass (Anabolism)" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:12682299, 14762009, 9422599" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 14762009, 9422599; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="phosphatidylserine decarboxylase; 32 kDa precursor processed into a 29 kDa protein" /protein_id="NP_388111.1" /db_xref="EnsemblGenomes-Gn:BSU02290" /db_xref="EnsemblGenomes-Tr:CAB12023" /db_xref="GOA:P39822" /db_xref="InterPro:IPR003817" /db_xref="InterPro:IPR033177" /db_xref="InterPro:IPR033178" /db_xref="SubtiList:BG11013" /db_xref="UniProtKB/Swiss-Prot:P39822" /translation="MFNTAVKILYRSLIELTNHRLSSYLIKGFCESKISKPVIPLFSK HFRLNWDDVDGTAADYGSLSELFIRQINLERRPVSKEAHAVVSPVDGVVQTVGIINPN QTFTVKGKDYSFAELTGCKSADHQYNGGYFVVLYLSPRHYHRFHSPISCRYQKLAELG NRSYPVNQLGLKYGKDVLSKNYRFVYELNSGSRNVLMIPVGAMNINSIVQTNTRTELE IGEELGYFSFGSTVILVFEKDAFQPSAHLAEGQEVQVGELIGYEE*" gene 248749..249540 /gene="psd" /locus_tag="BSU_02290" /old_locus_tag="BSU02290" downshifts 249515 /Source="Nicolas_upshifts" /id="D86" /incds=0 /nref=101 /ntot=236 /MaxReadThrough="3.18138" /MaxDrop="4.25536" /score="-2.98360164" /energy="-8" /TU="U159" /idTUdmin="U160" /TUdmin=0 /isTUend="TRUE" CDS 249595..249873 /gene="ybfN" /locus_tag="BSU_02300" /old_locus_tag="BSU02300" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388112.1" /db_xref="EnsemblGenomes-Gn:BSU02300" /db_xref="EnsemblGenomes-Tr:CAB12024" /db_xref="SubtiList:BG12742" /db_xref="UniProtKB/Swiss-Prot:O31454" /translation="MEKQIISWITDYQNTGDEAVLRQVREVCWPIVEAVLQEKVMDDE QANNLREKGIERFPFIISKYQADVQLPVETFLQNTYRFYFHQVMRESS*" gene 249595..249873 /gene="ybfN" /locus_tag="BSU_02300" /old_locus_tag="BSU02300" promotor_-35 249916..249925 /Source="Nicolas_upshift_promotors" /id="U161" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1688 /SigmaFactorBS="agcttctttcaacagagaagcttttttttgttggcaggaaaa GGAAACTTTTtctatatctatcTCGTAATGACTAGAGAacctagcagaaaaggagaga t" /listShort="ybfO, ybfP, S89, ybfQ" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 249934 /Source="Nicolas_upshifts" /id="U161" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1688 /SigmaFactorBS="agcttctttcaacagagaagcttttttttgttggcaggaaaa GGAAACTTTTtctatatctatcTCGTAATGACTAGAGAacctagcagaaaaggagaga t" /listShort="ybfO, ybfP, S89, ybfQ" /GFF_Attribute="listLong" promotor_-10 249938..249953 /Source="Nicolas_upshift_promotors" /id="U161" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1688 /SigmaFactorBS="agcttctttcaacagagaagcttttttttgttggcaggaaaa GGAAACTTTTtctatatctatcTCGTAATGACTAGAGAacctagcagaaaaggagaga t" /listShort="ybfO, ybfP, S89, ybfQ" /GFF_Attribute="listLong" /label="promotor_-10" CDS 249979..251319 /gene="ybfO" /locus_tag="BSU_02310" /old_locus_tag="BSU02310" /EC_number="3.-.-.-" /function="16.8: Protect" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative exported hydrolase" /protein_id="NP_388113.1" /db_xref="EnsemblGenomes-Gn:BSU02310" /db_xref="EnsemblGenomes-Tr:CAB12025" /db_xref="GOA:O31455" /db_xref="InterPro:IPR007815" /db_xref="SubtiList:BG12743" /db_xref="UniProtKB/Swiss-Prot:O31455" /translation="MKRMIVRMTLPLLIVCLAFSSFSASARAASEEKYWDHWIERHAQ PLDASNASNKDLRFLKKVLKGKRIVQLGETTHGAGEINATKVRMIKYLHEELGYDVLA FESGFPDTNASYLNMDQLTPKSTMKNSIYAVWHTEDVVELFDYMKEQKEKGDPLILTG FDIQSMKNSFNVAATQWVKAVDPEKAELLSQSENDFSTLVTDSNTFDEFSQKKEKLVK NYQKLIKFTKTHASELKENLPKEPKAYEMFMHSLQLRIDVMETYMLEEMKEKLEEYPE NIEDFSFFMRDRMMAEQFQWVADTLYPKKKIIVWGHNYHLRKQNTKMIKDWVQLNGPN MGDYLPERLKKQTYTIGIYAYSGASLDSSDNKTVKPVTSPPPSGSLEALLKAADRPAV FVDFLHTKNKKGTSWMYTPRTALYWGYMEEQMILKEQYDGVIWLEHITPSVIIK*" gene 249979..251319 /gene="ybfO" /locus_tag="BSU_02310" /old_locus_tag="BSU02310" downshifts 251319 /Source="Nicolas_upshifts" /id="D87" /incds=0 /nref=12 /ntot=60 /MaxReadThrough="3.64301" /MaxDrop="6.34998" /score="14.4442651" /energy="-13.3" /TU="U161" /idTUdmin="U162" /TUdmin="-1122" /isTUend="FALSE" upshifts 251385 /Source="Nicolas_upshifts" /id="U162" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.582417582417582" /psig="0.838161838161838" /xcortree=1579 /SigmaFactorBS="gtcccctgtggtaaacaggggatttttacatatcgcaaaaat aatcaaaacatataatccgtgATCCATTATTCTAAAACAGAaaggagattggagcgtg c" /listShort="ybfP, S89" /listLong="ybfQ" misc_feature 251388..251407 /Source="Nicolas_upshift_promotors" /id="U162" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.582417582417582" /psig="0.838161838161838" /xcortree=1579 /SigmaFactorBS="gtcccctgtggtaaacaggggatttttacatatcgcaaaaat aatcaaaacatataatccgtgATCCATTATTCTAAAACAGAaaggagattggagcgtg c" /listShort="ybfP, S89" /listLong="ybfQ" /label="promotor_single_box" /note="Geneious type: promotor_single_box" CDS 251427..252314 /gene="ybfP" /locus_tag="BSU_02320" /old_locus_tag="BSU02320" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (AraC/XylS family)" /protein_id="NP_388114.1" /db_xref="EnsemblGenomes-Gn:BSU02320" /db_xref="EnsemblGenomes-Tr:CAB12026" /db_xref="GOA:O31456" /db_xref="InterPro:IPR008979" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR018060" /db_xref="SubtiList:BG12744" /db_xref="UniProtKB/Swiss-Prot:O31456" /translation="MYYEKAVQKTINWIESHLHEQISNEDIVNVSSFSKFHFHRIFQK EVGMSVASYIRLRRLANAAAALLYTDHRIIDIALYYQFESQEAFTRTFKKMYHMPPGA YRTFMKRFTSKKEESYMEKKMKGWVLSGSHPFQFEMGIDRENVHQGKASGYLKSTMVQ DIGEFATMMQQFKADRYLGKRLRLSSFIKTKGVQHFASLWMRVDSAADDVLQFDNMSN RPITGTTNWNHYAIVLDVPENSAVISFGVQLSGPGQVWMDHVVFEEVDESVPSTNLEM PGELLDEPVNLSFEEELQK*" gene 251427..252314 /gene="ybfP" /locus_tag="BSU_02320" /old_locus_tag="BSU02320" S_feature 252315..252458 /Source="Nicolas_S_feature" /locus_tag="new_252315_252458" /HighExp="T0.30H, T-1.40H, T0.0H, T-1.10H, Salt, aero, ferm, T-0.40H, T-2.40H, B60" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigWXY" /TUshortPSig="0.838, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S89" promotor_-35 252430..252437 /Source="Nicolas_upshift_promotors" /id="U163" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.754245754245754" /psig=1 /xcortree=2069 /SigmaFactorBS="gcttggatatttttatcagtctgggcggatCTGTTCATcttt gcggcatttTCCTGTATGATATAGTAAGAgtgtgcatagcaactaactataattgaac a" /listShort="ybfQ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 252451..252470 /Source="Nicolas_upshift_promotors" /id="U163" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.754245754245754" /psig=1 /xcortree=2069 /SigmaFactorBS="gcttggatatttttatcagtctgggcggatCTGTTCATcttt gcggcatttTCCTGTATGATATAGTAAGAgtgtgcatagcaactaactataattgaac a" /listShort="ybfQ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 252460 /Source="Nicolas_upshifts" /id="U163" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.754245754245754" /psig=1 /xcortree=2069 /SigmaFactorBS="gcttggatatttttatcagtctgggcggatCTGTTCATcttt gcggcatttTCCTGTATGATATAGTAAGAgtgtgcatagcaactaactataattgaac a" /listShort="ybfQ" /GFF_Attribute="listLong" CDS 252514..253482 /gene="ybfQ" /locus_tag="BSU_02330" /old_locus_tag="BSU02330" /function="16.11: Scavenge (Catabolism)" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10939241, 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative enzyme with rhodanese domain" /protein_id="NP_388115.1" /db_xref="EnsemblGenomes-Gn:BSU02330" /db_xref="EnsemblGenomes-Tr:CAB12027" /db_xref="InterPro:IPR001763" /db_xref="InterPro:IPR020936" /db_xref="InterPro:IPR022111" /db_xref="InterPro:IPR036873" /db_xref="SubtiList:BG12745" /db_xref="UniProtKB/Swiss-Prot:O31457" /translation="MEKQYRVLLYYKYVPIEDPEAFREQHLAFCKELGLLGRILVSSE GINGTVSGTVEQTEKYMETMKADPRFADMVFKIDEAEGHAFKKIFVRHKKELVTLRLE DDVDPNETTGQHLKPAEFYEKMQDPNTIVIDARNDYEYDLGHFRGAVRPDIEAFRELP EWIEEHKDMLEGKKILTYCTGGVRCEKFSGWLVKQGFEDVAQLDGGIVTYGKDPEVQG KLWDGQCYVFDERISVPVNRVEHVIVGKDYFTGEPCERYVNCANPSCNKKMICTPENE YKYMRSCSHECRTNPRNLYVKEHNMTEEEVNARLAAIETEDHAAAE*" gene 252514..253482 /gene="ybfQ" /locus_tag="BSU_02330" /old_locus_tag="BSU02330" promotor_-10 complement(253336..253354) /Source="Nicolas_upshift_promotors" /id="U164" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.987012987012987" /psig="0.987012987012987" /xcortree=798 /SigmaFactorBS="attatgctctttcacatacaggtttcttgggttcgtgcGGCA TTcgtggctgcagctgcGCATATATTTATACTCATTttccggtgtgcatatcattttt t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(253353) /Source="Nicolas_upshifts" /id="U164" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.987012987012987" /psig="0.987012987012987" /xcortree=798 /SigmaFactorBS="attatgctctttcacatacaggtttcttgggttcgtgcGGCA TTcgtggctgcagctgcGCATATATTTATACTCATTttccggtgtgcatatcattttt t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(253370..253375) /Source="Nicolas_upshift_promotors" /id="U164" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.987012987012987" /psig="0.987012987012987" /xcortree=798 /SigmaFactorBS="attatgctctttcacatacaggtttcttgggttcgtgcGGCA TTcgtggctgcagctgcGCATATATTTATACTCATTttccggtgtgcatatcattttt t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 253479 /Source="Nicolas_upshifts" /id="D88" /incds=0 /nref=238 /ntot=271 /MaxReadThrough="2.06825" /MaxDrop="7.49655" /score="4.11635522" /energy="-7.8" /TU="U163" /idTUdmin="U161" /TUdmin=4 /isTUend="TRUE" downshifts complement(253518) /Source="Nicolas_upshifts" /id="D89" /incds=0 /nref=59 /ntot=147 /MaxReadThrough="0.54212" /MaxDrop="6.33244" /score="2.56774646" /energy="-7.5" /TU="NA" /idTUdmin="U165" /TUdmin=11 /isTUend="TRUE" CDS complement(253518..254762) /gene="gltP" /locus_tag="BSU_02340" /old_locus_tag="BSU02340" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:7751298, 15849754, 16850406" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7751298, 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="proton/glutamate symport protein" /protein_id="NP_388116.1" /db_xref="EnsemblGenomes-Gn:BSU02340" /db_xref="EnsemblGenomes-Tr:CAB12028" /db_xref="GOA:P39817" /db_xref="InterPro:IPR001991" /db_xref="InterPro:IPR018107" /db_xref="InterPro:IPR033380" /db_xref="InterPro:IPR036458" /db_xref="SubtiList:BG11015" /db_xref="UniProtKB/Swiss-Prot:P39817" /translation="MKKLIAFQILIALAVGAVIGHFFPDFGMALRPVGDGFIRLIKMI VVPIVFSTIVIGAAGSGSMKKMGSLGIKTIIWFEVITTLVLGLGLLLANVLKPGVGLD LSHLAKKDIHELSGYTDKVVDFKQMILDIIPTNIIDVMARNDLLAVIFFAILFGVAAA GIGKASEPVMKFFESTAQIMFKLTQIVMVTAPIGVLALMAASVGQYGIELLLPMFKLV GTVFLGLFLILFVLFPLVGLIFQIKYFEVLKMIWDLFLIAFSTTSTETILPQLMDRME KYGCPKRVVSFVVPSGLSLNCDGSSLYLSVSCIFLAQAFQVDMTLSQQLLMMLVLVMT SKGIAAVPSGSLVVLLATANAVGLPAEGVAIIAGVDRVMDMARTGVNVPGHAIACIVV SKWEKAFRQKEWVSANSQTESI*" gene complement(253518..254762) /gene="gltP" /locus_tag="BSU_02340" /old_locus_tag="BSU02340" promotor_-10 complement(254796..254814) /Source="Nicolas_upshift_promotors" /id="U165" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=525 /SigmaFactorBS="tgaaagcgctgtcaaaataaaataacttgaaaAAAGGTGTTt gcatttgaaTCACGAATGATATGAATATgcctacattctatcgttctaaagggggatt c" /listShort="gltP" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(254805) /Source="Nicolas_upshifts" /id="U165" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=525 /SigmaFactorBS="tgaaagcgctgtcaaaataaaataacttgaaaAAAGGTGTTt gcatttgaaTCACGAATGATATGAATATgcctacattctatcgttctaaagggggatt c" /listShort="gltP" /GFF_Attribute="listLong" promotor_-35 complement(254825..254833) /Source="Nicolas_upshift_promotors" /id="U165" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=525 /SigmaFactorBS="tgaaagcgctgtcaaaataaaataacttgaaaAAAGGTGTTt gcatttgaaTCACGAATGATATGAATATgcctacattctatcgttctaaagggggatt c" /listShort="gltP" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(254833..254851) /Source="Nicolas_upshift_promotors" /id="U166" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.949050949050949" /psig="0.949050949050949" /xcortree=797 /SigmaFactorBS="taaaaaagtcccccctgctgcgggggactttttcgccAACAT AatgaaagcgctgtcaAAATAAAATAACTTGAAAAaaggtgtttgcatttgaatcacg a" /listShort="gltP" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(254849) /Source="Nicolas_upshifts" /id="U166" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.949050949050949" /psig="0.949050949050949" /xcortree=797 /SigmaFactorBS="taaaaaagtcccccctgctgcgggggactttttcgccAACAT AatgaaagcgctgtcaAAATAAAATAACTTGAAAAaaggtgtttgcatttgaatcacg a" /listShort="gltP" /GFF_Attribute="listLong" promotor_-35 complement(254867..254872) /Source="Nicolas_upshift_promotors" /id="U166" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.949050949050949" /psig="0.949050949050949" /xcortree=797 /SigmaFactorBS="taaaaaagtcccccctgctgcgggggactttttcgccAACAT AatgaaagcgctgtcaAAATAAAATAACTTGAAAAaaggtgtttgcatttgaatcacg a" /listShort="gltP" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(254907..256802) /gene="gamP" /locus_tag="BSU_02350" /old_locus_tag="BSU02350" /EC_number="2.7.1.193" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 10627040, 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="phosphotransferase system (PTS) glucosamine-specific enzyme IICBA component" /protein_id="NP_388117.1" /db_xref="EnsemblGenomes-Gn:BSU02350" /db_xref="EnsemblGenomes-Tr:CAB12029" /db_xref="GOA:P39816" /db_xref="InterPro:IPR001127" /db_xref="InterPro:IPR001996" /db_xref="InterPro:IPR003352" /db_xref="InterPro:IPR011055" /db_xref="InterPro:IPR011299" /db_xref="InterPro:IPR013013" /db_xref="InterPro:IPR018113" /db_xref="InterPro:IPR036878" /db_xref="SubtiList:BG11014" /db_xref="UniProtKB/Swiss-Prot:P39816" /translation="MFKKAFQILQQLGRALMTPVAVLPAAGLLLRFGDKDLLNIPIIK DAGGVVFDNLPLIFAVGVAIGLAGGEGVAGLAAVIGYLILTVTLDNMGKLLGLQPPYE GAEHLIDMGVFGGIIIGLLAAYLYKRFSSIELHPVLGFFSGKRFVPIITSVSSLVIGV IFSFVWPLIQNGINAASSLIADSTVGLFFYATIYRLLIPFGLHHIFYTPFYFMMGEYT DPSTGNTVTGDLTRFFAGDPTAGRFMMGDFPYMIFCLPAVALAIIHTARPEKKKMISG VMISAALTSMLTGITEPVEFSFLFVAPVLYLINSILAGVIFVVCDLFHVRHGYTFSGG GIDYVLNYGLSTNGWVVIPVGIVFAFIYYYLFRFAILKWNLKTPGRETDEDGQNEEKA PVAKDQLAFHVLQALGGQQNIANLDACITRLRVTVHQPSQVCKDELKRLGAVGVLEVN NNFQAIFGTKSDALKDDIKTIMAGGVPATAAALDTVTDKPLKPDSDETFIYPIKGETV SLGDVPDQVFSEKMMGEGFAIIPSEGKVVAPADGEIVSIFPTKHAIGFMSAGGTEILI HVGIDTVKLNGEGFEAHVTSGQAVKQGELLLTFDLNYIKQHAASAITPVIFTNTSEED LKHIQMK*" gene complement(254907..256802) /gene="gamP" /locus_tag="BSU_02350" /old_locus_tag="BSU02350" downshifts complement(254923) /Source="Nicolas_upshifts" /id="D90" /incds=0 /nref=56 /ntot=192 /MaxReadThrough="1.9947" /MaxDrop="6.51864" /score="5.87664177" /energy="-12.1" /TU="NA" /idTUdmin="U168" /TUdmin="-8" /isTUend="TRUE" misc_feature 256668..256687 /Source="Nicolas_upshift_promotors" /id="U167" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.701298701298701" /psig="0.975024975024975" /xcortree=2747 /SigmaFactorBS="cggcgaaaatcagcggaaggttatcgaatacaacgccgcccg cATCCTTTATAATAGGGATGTtcagtaaatccttgtctccgaaacggagcaaaagacc t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 256685 /Source="Nicolas_upshifts" /id="U167" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.701298701298701" /psig="0.975024975024975" /xcortree=2747 /SigmaFactorBS="cggcgaaaatcagcggaaggttatcgaatacaacgccgcccg cATCCTTTATAATAGGGATGTtcagtaaatccttgtctccgaaacggagcaaaagacc t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS complement(256823..257572) /gene="gamA" /locus_tag="BSU_02360" /old_locus_tag="BSU02360" /EC_number="3.5.99.6" /function="16.11: Scavenge (Catabolism)" /function="16.13: Shape" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:23667565, 27002132" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 23667565, 27002132; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="glucosamine-6-phosphate deaminase" /protein_id="NP_388118.1" /db_xref="EnsemblGenomes-Gn:BSU02360" /db_xref="EnsemblGenomes-Tr:CAB12030" /db_xref="GOA:O31458" /db_xref="InterPro:IPR004547" /db_xref="InterPro:IPR006148" /db_xref="InterPro:IPR018321" /db_xref="SubtiList:BG12746" /db_xref="UniProtKB/Swiss-Prot:O31458" /translation="MKILIAEHYEELCKLSAAIIKEQIQAKKDAVLGLATGSTPVGLY KQLISDYQAGEIDFSKVTTFNLDEYAGLSPSHPQSYNHFMHEHLFQHINMQPDHIHIP QGDNPQLEAACKVYEDLIRQAGGIDVQILGIGANGHIGFNEPGSDFEDRTRVVKLSES TIQANARFFGGDPVLVPRLAISMGIKTIMEFSKHIVLLASGEEKADAIQKMAEGPVTT DVPASILQKHNHVTVIADYKAAQKLKSASFS*" gene complement(256823..257572) /gene="gamA" /locus_tag="BSU_02360" /old_locus_tag="BSU02360" S_feature 257545..257726 /Source="Nicolas_S_feature" /locus_tag="new_257545_257726" /HighExp="H2O2, T1.30H, G135, dia15, G150, G180, LBGstat, T2.0H, T0.30H, M9-stat" /AntisenseName="nagBB" /AntisenseCor="0.458837556034909" /AntisenseRegPval="-14.7" /CDS_PredictionProba="NA" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S90" S_feature complement(257573..257643) /Source="Nicolas_S_feature" /locus_tag="new_257573_257643_c" /HighExp="S1, Diami, MG 5, MG t5, dia5, MG 15, MG 10, LPhT, Paraq, G150" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S91" promotor_-10 complement(257632..257651) /Source="Nicolas_upshift_promotors" /id="U168" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.98901098901099" /psig=1 /xcortree=2202 /SigmaFactorBS="atccttcttttataacaaattttcagaaattaaTATTGACAg tttgataagggcggTGCTAAATTCGTAATGACAAgtatcataaattggtcataacaaa t" /listShort="S91, nagBB, nagP" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(257647) /Source="Nicolas_upshifts" /id="U168" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.98901098901099" /psig=1 /xcortree=2202 /SigmaFactorBS="atccttcttttataacaaattttcagaaattaaTATTGACAg tttgataagggcggTGCTAAATTCGTAATGACAAgtatcataaattggtcataacaaa t" /listShort="S91, nagBB, nagP" /GFF_Attribute="listLong" promotor_-35 complement(257667..257674) /Source="Nicolas_upshift_promotors" /id="U168" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.98901098901099" /psig=1 /xcortree=2202 /SigmaFactorBS="atccttcttttataacaaattttcagaaattaaTATTGACAg tttgataagggcggTGCTAAATTCGTAATGACAAgtatcataaattggtcataacaaa t" /listShort="S91, nagBB, nagP" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 257713..257720 /Source="Nicolas_upshift_promotors" /id="U169" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.662337662337662" /psig=1 /xcortree=1865 /SigmaFactorBS="gtcaatattaatttctgaaaatttgttataaaagaaggatac aaaTCTTTCATattgggagggcaAATGGTATTATGGTCTCAATgaaaaagaacggatt g" /listShort="ybgA, ybgB" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 257728 /Source="Nicolas_upshifts" /id="U169" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.662337662337662" /psig=1 /xcortree=1865 /SigmaFactorBS="gtcaatattaatttctgaaaatttgttataaaagaaggatac aaaTCTTTCATattgggagggcaAATGGTATTATGGTCTCAATgaaaaagaacggatt g" /listShort="ybgA, ybgB" /GFF_Attribute="listLong" promotor_-10 257733..257752 /Source="Nicolas_upshift_promotors" /id="U169" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.662337662337662" /psig=1 /xcortree=1865 /SigmaFactorBS="gtcaatattaatttctgaaaatttgttataaaagaaggatac aaaTCTTTCATattgggagggcaAATGGTATTATGGTCTCAATgaaaaagaacggatt g" /listShort="ybgA, ybgB" /GFF_Attribute="listLong" /label="promotor_-10" CDS 257791..258498 /gene="gamR" /locus_tag="BSU_02370" /old_locus_tag="BSU02370" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:23667565, 24673833" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 23667565, 24673833; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator-GlcN6P (GntR family)" /protein_id="NP_388119.1" /db_xref="EnsemblGenomes-Gn:BSU02370" /db_xref="EnsemblGenomes-Tr:CAB12031" /db_xref="GOA:O31459" /db_xref="InterPro:IPR000524" /db_xref="InterPro:IPR011663" /db_xref="InterPro:IPR028978" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12747" /db_xref="UniProtKB/Swiss-Prot:O31459" /translation="MTALYSVIKFKIIELIKSGKYQANDQLPTESEFCEQYDVSRTTV RLALQQLELEGYIKRIQGKGTFVSAAKIQTPIPHKITSFAEQMRGLRSESKVLELVVI PADHSIAELLKMKENEPVNKLVRVRYAEGEPLQYHTSYIPWKAAPGLAQEECTGSLFE LLRTKYNIEISRGTESIEPILTDETISGHLLTNVGAPAFLSESLTYDKNEEVVEYAQI ITRGDRTKFTVEQSYHS*" gene 257791..258498 /gene="gamR" /locus_tag="BSU_02370" /old_locus_tag="BSU02370" promotor_-35 258464..258465 /Source="Nicolas_upshift_promotors" /id="U170" /multdbtbs="SigY" /comp="M9" /sig="Sig-" /pcomp="0.41958041958042" /psig="0.41958041958042" /xcortree=1684 /SigmaFactorBS="aatatgcgcaaattattacacggggagaccgaaCGaaattca ccgtagaaCAGTCATATCATTCAtaaagcaatgtgttttaagaagggaatggtggttc t" /listShort="ybgB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 258481..258495 /Source="Nicolas_upshift_promotors" /id="U170" /multdbtbs="SigY" /comp="M9" /sig="Sig-" /pcomp="0.41958041958042" /psig="0.41958041958042" /xcortree=1684 /SigmaFactorBS="aatatgcgcaaattattacacggggagaccgaaCGaaattca ccgtagaaCAGTCATATCATTCAtaaagcaatgtgttttaagaagggaatggtggttc t" /listShort="ybgB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 258491 /Source="Nicolas_upshifts" /id="U170" /multdbtbs="SigY" /comp="M9" /sig="Sig-" /pcomp="0.41958041958042" /psig="0.41958041958042" /xcortree=1684 /SigmaFactorBS="aatatgcgcaaattattacacggggagaccgaaCGaaattca ccgtagaaCAGTCATATCATTCAtaaagcaatgtgttttaagaagggaatggtggttc t" /listShort="ybgB" /GFF_Attribute="listLong" CDS 258532..258807 /gene="ybgB" /locus_tag="BSU_02380" /old_locus_tag="BSU02380" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 12897008, 23667565" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function (B. subtilis-specific)" /protein_id="NP_388120.1" /db_xref="EnsemblGenomes-Gn:BSU02380" /db_xref="EnsemblGenomes-Tr:CAB12032" /db_xref="GOA:O31460" /db_xref="InterPro:IPR012867" /db_xref="SubtiList:BG12748" /db_xref="UniProtKB/Swiss-Prot:O31460" /translation="MFLFTNGKVLWGAVIAAFILSIVFYPFLPTQMPIHYDVANSPDL TVNKLAGTVMLPVLMVVFAWARKINWQFVFAVYILLICHIVVLCLAL*" gene 258532..258807 /gene="ybgB" /locus_tag="BSU_02380" /old_locus_tag="BSU02380" promotor_-10 complement(258590..258608) /Source="Nicolas_upshift_promotors" /id="U171" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.977022977022977" /psig="0.977022977022977" /xcortree=112 /SigmaFactorBS="ggactgttcgcaacatcataatgaatcGGCATCTgcgtcggc agaaaaGGGTAAAATACAATTGAAAggatgaatgcagcaatcactgctccccacagca c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(258596) /Source="Nicolas_upshifts" /id="U171" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.977022977022977" /psig="0.977022977022977" /xcortree=112 /SigmaFactorBS="ggactgttcgcaacatcataatgaatcGGCATCTgcgtcggc agaaaaGGGTAAAATACAATTGAAAggatgaatgcagcaatcactgctccccacagca c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(258623..258629) /Source="Nicolas_upshift_promotors" /id="U171" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.977022977022977" /psig="0.977022977022977" /xcortree=112 /SigmaFactorBS="ggactgttcgcaacatcataatgaatcGGCATCTgcgtcggc agaaaaGGGTAAAATACAATTGAAAggatgaatgcagcaatcactgctccccacagca c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 258799 /Source="Nicolas_upshifts" /id="D91" /incds=0 /nref=20 /ntot=130 /MaxReadThrough="2.42422" /MaxDrop="3.75723" /score="4.58454735" /energy="-9.4" /TU="NA" /idTUdmin="U169" /TUdmin=0 /isTUend="TRUE" promotor_-35 258850..258854 /Source="Nicolas_upshift_promotors" /id="U172" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.641358641358641" /psig="0.998001998001998" /xcortree=2879 /SigmaFactorBS="gccagaataaaactggctgttttctttaatttcaGCTTCatc tgacaatgaatgTGGTGTATAATAGCTGATGAtcctaaagaatattctgaaatttata g" /listShort="S92, ilvE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 258870..258889 /Source="Nicolas_upshift_promotors" /id="U172" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.641358641358641" /psig="0.998001998001998" /xcortree=2879 /SigmaFactorBS="gccagaataaaactggctgttttctttaatttcaGCTTCatc tgacaatgaatgTGGTGTATAATAGCTGATGAtcctaaagaatattctgaaatttata g" /listShort="S92, ilvE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 258876 /Source="Nicolas_upshifts" /id="U172" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.641358641358641" /psig="0.998001998001998" /xcortree=2879 /SigmaFactorBS="gccagaataaaactggctgttttctttaatttcaGCTTCatc tgacaatgaatgTGGTGTATAATAGCTGATGAtcctaaagaatattctgaaatttata g" /listShort="S92, ilvE" /GFF_Attribute="listLong" S_feature 258887..259015 /Source="Nicolas_S_feature" /locus_tag="new_258887_259015" /HighExp="T2.30H, S5, T2.0H, T1.30H, M9-stat, T3.0H, T3.30H, S4, T1.0H, T-0.40H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S92" CDS 259016..260086 /gene="ilvE" /locus_tag="BSU_02390" /old_locus_tag="BSU02390" /EC_number="2.6.1.42" /function="16.11: Scavenge (Catabolism)" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12670965, 15060025, 15102328, 20332210, 23429746" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12670965, 15060025, 15102328, 20332210, 23429746; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="isoleucine-valine aminotransferase / aromatic amino acid aminotransferase" /protein_id="NP_388121.1" /db_xref="EnsemblGenomes-Gn:BSU02390" /db_xref="EnsemblGenomes-Tr:CAB12033" /db_xref="GOA:O31461" /db_xref="InterPro:IPR001544" /db_xref="InterPro:IPR005786" /db_xref="InterPro:IPR018300" /db_xref="InterPro:IPR033939" /db_xref="InterPro:IPR036038" /db_xref="SubtiList:BG12749" /db_xref="UniProtKB/Swiss-Prot:O31461" /translation="MNKLIEREKTVYYKEKPDPSSLGFGQYFTDYMFVMDYEEGIGWH HPRIAPYAPLTLDPSSSVFHYGQAVFEGLKAYRTDDGRVLLFRPDQNIKRLNRSCERM SMPPLDEELVLEALTQLVELEKDWVPKEKGTSLYIRPFVIATEPSLGVKASRSYTFMI VLSPVGSYYGDDQLKPVRIYVEDEYVRAVNGGVGFAKTAGNYAASLQAQRKANELGYD QVLWLDAIEKKYVEEVGSMNIFFVINGEAVTPALSGSILSGVTRASAIELIRSWGIPV REERISIDEVYAASARGELTEVFGTGTAAVVTPVGELNIHGKTVIVGDGQIGDLSKKL YETITDIQLGKVKGPFNWTVEV*" gene 259016..260086 /gene="ilvE" /locus_tag="BSU_02390" /old_locus_tag="BSU02390" downshifts 260075 /Source="Nicolas_upshifts" /id="D92" /incds=0 /nref=124 /ntot=245 /MaxReadThrough="1.34575" /MaxDrop="6.88046" /score="13.1364544" /energy="-9.4" /TU="NA" /idTUdmin="U172" /TUdmin=0 /isTUend="TRUE" CDS complement(260123..261535) /gene="ybgF" /locus_tag="BSU_02400" /old_locus_tag="BSU02400" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 7704263, 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative aminoacid permease" /protein_id="NP_388122.1" /db_xref="EnsemblGenomes-Gn:BSU02400" /db_xref="EnsemblGenomes-Tr:CAB12034" /db_xref="GOA:O31462" /db_xref="InterPro:IPR002293" /db_xref="InterPro:IPR004840" /db_xref="InterPro:IPR004841" /db_xref="SubtiList:BG12750" /db_xref="UniProtKB/Swiss-Prot:O31462" /translation="MNSAHNKNETTFQRSMKSRHLFMLSLGGVIGTGLFLSSGYTIQQ AGPAGTILAYLVGAGIVYLVMLCLGELSVAMPVTGAFHTYAAKYIGPGTGFTVAWLYW LTWTVALGSEFTAAGLLMQRWFPHTSVWMWSAVFALFIFLLNAFSVKFFAESEFWFSS IKVLAIVLFILLGGSAMFGIIPIKGGEAAPMLSNFTAEGGLFPNGFVPILMTMLSVNF AFSGTELIGIAAGESVDPDKTIPKAIKTTVWRLSLFFVGTIFVLSGLIPIQDAGVIKS PFVAVFDRVGVPYAADIMNFVILTAILSAANSGLYASSRMLWSLSKEKTLHPTFAKLT SKGTPFNALVFSMIGGILSLLSSVFAPDTVYVVLVSISGFAVVVVWMGIAASQFMFRK RYIEAGNKVTDLKYRTPLYPFVPIAAFLLCLASVVGIAFDPNQRIALYCGVPFMAICY AIYYVKNRKSQPAADMTHSK*" gene complement(260123..261535) /gene="ybgF" /locus_tag="BSU_02400" /old_locus_tag="BSU02400" downshifts complement(260140) /Source="Nicolas_upshifts" /id="D93" /incds=0 /nref=43 /ntot=166 /MaxReadThrough="0.37503" /MaxDrop="5.92001" /score="6.94246417" /energy="-9.4" /TU="NA" /idTUdmin="U173" /TUdmin="-11" /isTUend="TRUE" S_feature complement(261536..261647) /Source="Nicolas_S_feature" /locus_tag="new_261536_261647_c" /HighExp="BMM, S1, MG 45, MG 60, UNK1, MG t5, MG 10, MG 90, MG-0.2, M9-exp" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="SigA" /TUlongPSig="0.999" /label="S93" promotor_-10 complement(261620..261639) /Source="Nicolas_upshift_promotors" /id="U173" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.943056943056943" /psig=1 /xcortree=3071 /SigmaFactorBS="cgaaaatattcaagaaattgcggcttgggcccgctctttaaa aacaACTTGACTtatcggaatagtttGTATATTCTAACTTAAAGCCggttcgccggag t" /listShort="S93, ybgF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(261647) /Source="Nicolas_upshifts" /id="U173" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.943056943056943" /psig=1 /xcortree=3071 /SigmaFactorBS="cgaaaatattcaagaaattgcggcttgggcccgctctttaaa aacaACTTGACTtatcggaatagtttGTATATTCTAACTTAAAGCCggttcgccggag t" /listShort="S93, ybgF" /GFF_Attribute="listLong" promotor_-35 complement(261654..261661) /Source="Nicolas_upshift_promotors" /id="U173" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.943056943056943" /psig=1 /xcortree=3071 /SigmaFactorBS="cgaaaatattcaagaaattgcggcttgggcccgctctttaaa aacaACTTGACTtatcggaatagtttGTATATTCTAACTTAAAGCCggttcgccggag t" /listShort="S93, ybgF" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(261656..262603) /gene="ybgG" /locus_tag="BSU_02410" /old_locus_tag="BSU02410" /EC_number="2.1.1.10" /function="16.6: Maintain" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 11267663, 15995196, 17264075; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="homocysteine methylase using (R,S)AdoMet" /protein_id="NP_388123.1" /db_xref="EnsemblGenomes-Gn:BSU02410" /db_xref="EnsemblGenomes-Tr:CAB12035" /db_xref="GOA:O31463" /db_xref="InterPro:IPR003726" /db_xref="InterPro:IPR017226" /db_xref="InterPro:IPR036589" /db_xref="SubtiList:BG12751" /db_xref="UniProtKB/Swiss-Prot:O31463" /translation="MNPIQHILDTYPLIVLDGAMATELERKGCNLNDSLWSAKILMEE PELIKQVHTDYFAAGADCAITASYQSTFEGFAARGLSEAEARRLIELSVSIAAEARDE FWSLEENRLNRPKPIIAASIGPYGAYLADGSEYRGNYAISEDELIEFHRPRMKALIEA GADVLACETIPCLTEAKAIVRLLKEFPETYAWISFSAKDGLHISDGTPAADCASWLDE HRQIAALGINCTPLQHIPSLIEELKKNTSKPIIVYPNSGEQYDPETKTWNGAACAESY GASARTWHEKGARLIGGCCRTKPENIQEIAAWARSLKTT*" gene complement(261656..262603) /gene="ybgG" /locus_tag="BSU_02410" /old_locus_tag="BSU02410" promotor_-10 complement(262641..262660) /Source="Nicolas_upshift_promotors" /id="U174" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.993006993006993" /psig="0.999000999001" /xcortree=3068 /SigmaFactorBS="agacatatgggctgaacacctttctctttttgcgttTATTGA CAaacacgtaagcctcCATTACGATTTTCATATCTTtttcaaaaaaatctgaaagaag g" /listShort="ybgG" /listLong="S93, ybgF" /label="promotor_-10" upshifts complement(262658) /Source="Nicolas_upshifts" /id="U174" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.993006993006993" /psig="0.999000999001" /xcortree=3068 /SigmaFactorBS="agacatatgggctgaacacctttctctttttgcgttTATTGA CAaacacgtaagcctcCATTACGATTTTCATATCTTtttcaaaaaaatctgaaagaag g" /listShort="ybgG" /listLong="S93, ybgF" promotor_-35 complement(262675..262682) /Source="Nicolas_upshift_promotors" /id="U174" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.993006993006993" /psig="0.999000999001" /xcortree=3068 /SigmaFactorBS="agacatatgggctgaacacctttctctttttgcgttTATTGA CAaacacgtaagcctcCATTACGATTTTCATATCTTtttcaaaaaaatctgaaagaag g" /listShort="ybgG" /listLong="S93, ybgF" /label="promotor_-35" CDS complement(262732..264168) /gene="glnT" /locus_tag="BSU_02420" /old_locus_tag="BSU02420" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); PubMedId: 15849754, 15995196, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="glutamine transporter" /protein_id="NP_388124.2" /db_xref="EnsemblGenomes-Gn:BSU02420" /db_xref="EnsemblGenomes-Tr:CAB12036" /db_xref="GOA:O31464" /db_xref="InterPro:IPR001463" /db_xref="SubtiList:BG12752" /db_xref="UniProtKB/Swiss-Prot:O31464" /translation="MQQILEHIVGIANDLLWSKLLIVLLLSFGIYFTFRLKFLQVRML KEMVRVLREGAASRSKNSISPFQAFCISMAARVGTGNITGIAIAIALGGPGAIFWMWI IAIIGSASSFVESTLAQIYKVKDVNGFRGGPAYYMEKGLNKRWMGALFAVLITLSFGI VFNSVQSNTVSLAFENAFGTNRLTLGLILIAVFGTIIFGGVKRIAKLAESIVVVLAVL YIGVAFFVIFSNITQLPGVLALIVKNAFGFDQAAGGALGAALMQGVRRGIFSNEAGMG SAPNAAATATTSHPVKQGLIQAFGVLTDTLVICTSTAFIILFSDAYHTPGLSGIALTQ ASLSSHVGSWASGFLAILILLFGFCALIGNYYYGETNIGFLNKSKKLIFVYRIGVLAM IVFGCVAKVQLVWDLADLFMGLMVIVNLIAIFLLSKVVFTALKDYTRQKKAGKDPVFY KDVLKNHNGIECWPVSDTKTDTHNKQIS*" gene complement(262732..264168) /gene="glnT" /locus_tag="BSU_02420" /old_locus_tag="BSU02420" downshifts complement(262747) /Source="Nicolas_upshifts" /id="D94" /incds=0 /nref=3 /ntot=3 /MaxReadThrough="0.598370000000001" /MaxDrop="4.3935" /score="-7.90227391" /energy="-11.4" /TU="NA" /idTUdmin="U174" /TUdmin="-1078" /isTUend="FALSE" CDS complement(264191..265174) /gene="glsA" /locus_tag="BSU_02430" /old_locus_tag="BSU02430" /EC_number="3.5.1.2" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:15995196, 18459799, 20050917" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15995196, 18459799, 20050917; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="glutaminase" /protein_id="NP_388125.1" /db_xref="EnsemblGenomes-Gn:BSU02430" /db_xref="EnsemblGenomes-Tr:CAB12037" /db_xref="GOA:O31465" /db_xref="InterPro:IPR012338" /db_xref="InterPro:IPR015868" /db_xref="PDB:1MKI" /db_xref="PDB:2OSU" /db_xref="PDB:3AGF" /db_xref="PDB:3BRM" /db_xref="SubtiList:BG12753" /db_xref="UniProtKB/Swiss-Prot:O31465" /translation="MKELIKEHQKDINPALQLHDWVEYYRPFAANGQSANYIPALGKV NDSQLGICVLEPDGTMIHAGDWNVSFTMQSISKVISFIAACMSRGIPYVLDRVDVEPT GDAFNSIIRLEINKPGKPFNPMINAGALTIASILPGESAYEKLEFLYSVMETLIGKRP RIHEEVFRSEWETAHRNRALAYYLKETNFLEAEVEETLEVYLKQCAMESTTEDIALIG LILAHDGYHPIRHEQVIPKDVAKLAKALMLTCGMYNASGKYAAFVGVPAKSGVSGGIM ALVPPSARREQPFQSGCGIGIYGPAIDEYGNSLTGGMLLKHMAQEWELSIF*" gene complement(264191..265174) /gene="glsA" /locus_tag="BSU_02430" /old_locus_tag="BSU02430" promotor_-10 complement(265268..265285) /Source="Nicolas_upshift_promotors" /id="U175" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.71028971028971" /psig="0.97002997002997" /xcortree=1548 /SigmaFactorBS="tgcttattttcaaaatgtttttgtcgtATTTTGTAtgattct gtagtctcCATTATACAGTAATTATAccttccgctattatgaaagcgtttaacgcccc c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" misc_feature 265273..265292 /Source="Nicolas_upshift_promotors" /id="U176" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.908091908091908" /psig=1 /xcortree=1812 /SigmaFactorBS="tcaaaacgaaggctaagggggcgttaaacgctttcataatag cggaaggtataaTTACTGTATAATGGAGACTAcagaatcatacaaaatacgacaaaaa c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(265275) /Source="Nicolas_upshifts" /id="U175" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.71028971028971" /psig="0.97002997002997" /xcortree=1548 /SigmaFactorBS="tgcttattttcaaaatgtttttgtcgtATTTTGTAtgattct gtagtctcCATTATACAGTAATTATAccttccgctattatgaaagcgtttaacgcccc c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" upshifts 265279 /Source="Nicolas_upshifts" /id="U176" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.908091908091908" /psig=1 /xcortree=1812 /SigmaFactorBS="tcaaaacgaaggctaagggggcgttaaacgctttcataatag cggaaggtataaTTACTGTATAATGGAGACTAcagaatcatacaaaatacgacaaaaa c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(265301..265308) /Source="Nicolas_upshift_promotors" /id="U175" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.71028971028971" /psig="0.97002997002997" /xcortree=1548 /SigmaFactorBS="tgcttattttcaaaatgtttttgtcgtATTTTGTAtgattct gtagtctcCATTATACAGTAATTATAccttccgctattatgaaagcgtttaacgcccc c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 265476..266708 /gene="glnJ" /locus_tag="BSU_02440" /old_locus_tag="BSU02440" /EC_number="2.7.13.3" /function="16.3: Control" /function="16.12: Sense" /experiment="publication(s) with functional evidences, PMID:11717295, 15995196, 17001076, 21435182, 23461034, 25691471" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11717295, 15995196, 17001076, 21435182, 23461034, 25691471; Product type rc : receptor" /codon_start=1 /transl_table=11 /product="two-component sensor histidine kinase [GlnL] forglutamine degradation" /protein_id="NP_388126.2" /db_xref="EnsemblGenomes-Gn:BSU02440" /db_xref="EnsemblGenomes-Tr:CAB12038" /db_xref="GOA:P40758" /db_xref="InterPro:IPR003594" /db_xref="InterPro:IPR004358" /db_xref="InterPro:IPR005467" /db_xref="InterPro:IPR036890" /db_xref="SubtiList:BG10871" /db_xref="UniProtKB/Swiss-Prot:P40758" /translation="MLITVPLAGELKFYPLNEEFRVSFGAPVFFFFLSLLRHVPAVLP GFLTGAAVFIFRVFLELWGGGHNGLTPILYDQASGFFFYMTYACLFSILKANRFRERP IMLGFIGFMIEVVSDCVELTVQFLIFHTVVTPEKITDIAVIAISHTFIVMSFYSVLKL YETQSREKQTRQQHEHMLMIVSNLYEETVHLKKTLKTTEKVTNDSYQLYREMKGKDVQ LSGRILRLAGEIHEVKKDNQRIFAGLSKLISNESLRDYMRASDLLQLVIRMNEKYAEA LGKQIDFYCSIEGEHDEYHVFIVLSIINNLTANAVEAMDEEGMVSLRLRKPNESMVEF QVEDNGPGISEKIGDIVFDPGFTSKYDEFGTPSTGIGLSYVKEIVTELEGDITFDNQQ RGVVFAIRLPVRHLIQKG*" gene 265476..266708 /gene="glnJ" /locus_tag="BSU_02440" /old_locus_tag="BSU02440" CDS 266719..267663 /gene="glnL" /locus_tag="BSU_02450" /old_locus_tag="BSU02450" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11717295, 15995196" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11717295, 15995196; Product type r: regulator" /codon_start=1 /transl_table=11 /product="two-component response regulator [GlnJ] for glutamine utilisation" /protein_id="NP_388127.1" /db_xref="EnsemblGenomes-Gn:BSU02450" /db_xref="EnsemblGenomes-Tr:CAB12039" /db_xref="GOA:P40759" /db_xref="InterPro:IPR001789" /db_xref="InterPro:IPR011006" /db_xref="InterPro:IPR013972" /db_xref="SubtiList:BG10872" /db_xref="UniProtKB/Swiss-Prot:P40759" /translation="MRFFIADDDRAVRSILRQIIEDEDLGEAAGEADDGSQVEGHMLQ FKQIDILLIDLLMPGRDGIETIRQIQNTYSGKIVMISQVEAKEMVGEAYSLGIEYFIH KPINRIEIVTVLQKVKERIELEHSIGAIQHSLSRLVNRTERKARPQQKSDSGLKEAGT FLLSELGMMGEGGAHDLMAVLQYLAEHEQSEPHEKQSPSLKQIFTQVAVRKLGTGASQ TEVNREMKASEQRIRRAIIHSLHHFASLGTTDFSNPKFETYASKFFDFPVVSQKMKEL QSKDAKPLAPARINMKKFIHVFFLEAKLLHETMKQRRI*" gene 266719..267663 /gene="glnL" /locus_tag="BSU_02450" /old_locus_tag="BSU02450" downshifts 267640 /Source="Nicolas_upshifts" /id="D95" /incds=0 /nref=45 /ntot=191 /MaxReadThrough="1.43757" /MaxDrop="3.64091" /score="2.73020459" /energy="-6.2" /TU="NA" /idTUdmin="U177" /TUdmin="-484" /isTUend="FALSE" promotor_-35 267760..267767 /Source="Nicolas_upshift_promotors" /id="U177" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.982017982017982" /psig="0.999000999001" /xcortree=370 /SigmaFactorBS="gccggacagtgatttaccgcttttttataaaatatcagaaaa taaagaTATTGACTtattgtttatttgTCTTACAATTAAACAAAAGGatatatgggaa g" /listShort="S94, ycbC" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 267772..267889 /Source="Nicolas_S_feature" /locus_tag="new_267772_267889" /HighExp="Sw, BC, M40t90, Etha, MG-0.2, HiTm, HiOs, G135, UNK1, MG-0.1" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S94" upshifts 267772 /Source="Nicolas_upshifts" /id="U177" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.982017982017982" /psig="0.999000999001" /xcortree=370 /SigmaFactorBS="gccggacagtgatttaccgcttttttataaaatatcagaaaa taaagaTATTGACTtattgtttatttgTCTTACAATTAAACAAAAGGatatatgggaa g" /listShort="S94, ycbC" /GFF_Attribute="listLong" promotor_-10 267781..267800 /Source="Nicolas_upshift_promotors" /id="U177" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.982017982017982" /psig="0.999000999001" /xcortree=370 /SigmaFactorBS="gccggacagtgatttaccgcttttttataaaatatcagaaaa taaagaTATTGACTtattgtttatttgTCTTACAATTAAACAAAAGGatatatgggaa g" /listShort="S94, ycbC" /GFF_Attribute="listLong" /label="promotor_-10" CDS 267890..268816 /gene="kdgD" /locus_tag="BSU_02460" /old_locus_tag="BSU02460" /EC_number="4.2.1.41" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12044674; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="5-dehydro-4-deoxyglucarate dehydratase" /protein_id="NP_388128.2" /db_xref="EnsemblGenomes-Gn:BSU02460" /db_xref="EnsemblGenomes-Tr:CAB12040" /db_xref="GOA:P42235" /db_xref="InterPro:IPR002220" /db_xref="InterPro:IPR013785" /db_xref="InterPro:IPR017655" /db_xref="SubtiList:BG11158" /db_xref="UniProtKB/Swiss-Prot:P42235" /translation="MSRIRKAPAGILGFPVAPFNTQGKLEEEALFQNIEFLLNEGLEA IFIACGSGEFQSLSQKEYEQMVEVAVSAAGGKVPVYTGVGGNLSTALDWAQLSEKKGA DGYLILPPYLVHGEQEGLYQYAKTIIESTDLNAILYQRDNAVLSVEQIKRLTECEQLV GVKDGVGNMDLNINLVYTIGDRLGWLNGMPMAEVTMPAYLPIGFHSYSSAISNYIPHI SRMFYDALKNGNDELVKELYRHVILPINDIRKQRKGYAVSLIKAGMEIMGLNVRNTAR PPVGPVEKDHYQQLEAILKQAADRFPKKAATV*" gene 267890..268816 /gene="kdgD" /locus_tag="BSU_02460" /old_locus_tag="BSU02460" CDS 268846..270312 /gene="gucD" /locus_tag="BSU_02470" /old_locus_tag="BSU02470" /EC_number="1.2.1.26" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12044674, 17202142; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="2,5-dioxovalerate dehydrogenase (alpha-ketoglutaric semialdehyde dehydrogenase)" /protein_id="NP_388129.1" /db_xref="EnsemblGenomes-Gn:BSU02470" /db_xref="EnsemblGenomes-Tr:CAB12041" /db_xref="GOA:P42236" /db_xref="InterPro:IPR015590" /db_xref="InterPro:IPR016160" /db_xref="InterPro:IPR016161" /db_xref="InterPro:IPR016162" /db_xref="InterPro:IPR029510" /db_xref="SubtiList:BG11159" /db_xref="UniProtKB/Swiss-Prot:P42236" /translation="MSVITEQNTYLNFINGEWVKSQSGDMVKVENPADVNDIVGYVQN STAEDVERAVTAANEAKTAWRKLTGAERGQYLYKTADIMEQRLEEIAACATREMGKTL PEAKGETARGIAILRYYAGEGMRKTGDVIPSTDKDALMFTTRVPLGVVGVISPWNFPV AIPIWKMAPALVYGNTVVIKPATETAVTCAKIIACFEEAGLPAGVINLVTGPGSVVGQ GLAEHDGVNAVTFTGSNQVGKIIGQAALARGAKYQLEMGGKNPVIVADDADLEAAAEA VITGAFRSTGQKCTATSRVIVQSGIYERFKEKLLQRTKDITIGDSLKEDVWMGPIASK NQLDNCLSYIEKGKQEGASLLIGGEKLENGKYQNGYYVQPAIFDNVTSEMTIAQEEIF GPVIALIKVDSIEEALNIANDVKFGLSASIFTENIGRMLSFIDEIDAGLVRINAESAG VELQAPFGGMKQSSSHSREQGEAAKDFFTAIKTVFVKP*" gene 268846..270312 /gene="gucD" /locus_tag="BSU_02470" /old_locus_tag="BSU02470" CDS 270396..271763 /gene="gudP" /locus_tag="BSU_02480" /old_locus_tag="BSU02480" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:12044674, 15849754, 16850406" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12044674, 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="glucarate transporter" /protein_id="NP_388130.2" /db_xref="EnsemblGenomes-Gn:BSU02480" /db_xref="EnsemblGenomes-Tr:CAB12042" /db_xref="GOA:P42237" /db_xref="InterPro:IPR000849" /db_xref="InterPro:IPR004744" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG11160" /db_xref="UniProtKB/Swiss-Prot:P42237" /translation="MKKDFASVTPAGKKTSVRWFIVFMLFLVTSINYADRATLSITGD SVQHDLGLDSVAMGYVFSAFGWAYVIGQLPGGWLLDRFGSKTIIALSIFFWSFFTLLQ GAIGFFSAGTAIILLFALRFLVGLSEAPSFPGNGRVVASWFPSSERGTASAFFNSAQY FAIVIFSPLMGWLTHSFGWHSVFVVMGIAGILLAVIWLKTVYEPKKHPKVNEAELAYI EQGGGLISMDDSKSKQETESKWPYIKQLLTNRMLIGVYIAQYCITTLTYFFLTWFPVY LVQARGMSILEAGFVASLPALCGFAGGVLGGIVSDILLKKGRSLTFARKVPIIAGMLL SCSMIVCNYTDSAWLVVVIMSLAFFGKGFGALGWAVVSDTSPKECAGLSGGLFNTFGN IASITTPIIIGYIVNATGSFNGALVFVGANAIAAILSYLLLVGPIKRVVLKKQEQDPD QSLPV*" gene 270396..271763 /gene="gudP" /locus_tag="BSU_02480" /old_locus_tag="BSU02480" CDS 271800..273167 /gene="gudD" /locus_tag="BSU_02490" /old_locus_tag="BSU02490" /EC_number="4.2.1.40" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 9772161, 12044674; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="glucarate dehydratase" /protein_id="NP_388131.2" /db_xref="EnsemblGenomes-Gn:BSU02490" /db_xref="EnsemblGenomes-Tr:CAB12043" /db_xref="GOA:P42238" /db_xref="InterPro:IPR013342" /db_xref="InterPro:IPR017653" /db_xref="InterPro:IPR029017" /db_xref="InterPro:IPR029065" /db_xref="InterPro:IPR034390" /db_xref="InterPro:IPR034598" /db_xref="InterPro:IPR036849" /db_xref="SubtiList:BG11161" /db_xref="UniProtKB/Swiss-Prot:P42238" /translation="MSSPIQEQVQKEKRSNIPSISEMKVIPVAGHDSMLLNLSGAHSP FFTRNIVILTDSSGNQGVGEVPGGEHIRRTLELSEPLVVGKSIGAYQAILQTVRKQFG DQDRGGRGNQTFDLRTTVHAVTALEAALLDLLGKFLQEPVAALLGEGKQRDEVKMLGY LFYIGDRNRTTLPYQSDEQSDCAWFRLRHEEALTPEAIVRLAESAQERYGFQDFKLKG GVLRGEEEIEAVTALSKRFPEARITLDPNGAWSLEEAIALCKGKQDVLAYAEDPCGDE NGYSAREVMAEFRRATGLPTATNMIATDWREMGHAIQLHAVDIPLADPHFWTMQGSVR VAQMCHDWGLTWGSHSNNHFDISLAMFTHVAAAAPGRITAIDTHWIWQDGQRLTKQPF EISSGCVKVPDKPGLGVDIDMEQVEKAHEIYRKMNLGARNDAIPMQFLISNWEFDRKR PCLVR*" gene 271800..273167 /gene="gudD" /locus_tag="BSU_02490" /old_locus_tag="BSU02490" promotor_-35 273181..273188 /Source="Nicolas_upshift_promotors" /id="U178" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.586413586413586" /psig="0.999000999001" /xcortree=2135 /SigmaFactorBS="gcgcccgtgtcttgtgcgataagtttgattgtaaaTATTGTC AtatccgctattttgTCTTACAATTGAACAACTgaagggagagttgttcgtgtacgaa g" /listShort="ycbG, garD" /listLong="S95, ycbJ, NA" /label="promotor_-35" promotor_-10 273203..273220 /Source="Nicolas_upshift_promotors" /id="U178" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.586413586413586" /psig="0.999000999001" /xcortree=2135 /SigmaFactorBS="gcgcccgtgtcttgtgcgataagtttgattgtaaaTATTGTC AtatccgctattttgTCTTACAATTGAACAACTgaagggagagttgttcgtgtacgaa g" /listShort="ycbG, garD" /listLong="S95, ycbJ, NA" /label="promotor_-10" upshifts 273206 /Source="Nicolas_upshifts" /id="U178" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.586413586413586" /psig="0.999000999001" /xcortree=2135 /SigmaFactorBS="gcgcccgtgtcttgtgcgataagtttgattgtaaaTATTGTC AtatccgctattttgTCTTACAATTGAACAACTgaagggagagttgttcgtgtacgaa g" /listShort="ycbG, garD" /listLong="S95, ycbJ, NA" CDS 273237..273938 /gene="garR" /locus_tag="BSU_02500" /old_locus_tag="BSU02500" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:12044674" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12044674; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator (GntR family)" /protein_id="NP_388132.2" /db_xref="EnsemblGenomes-Gn:BSU02500" /db_xref="EnsemblGenomes-Tr:CAB12044" /db_xref="GOA:P42239" /db_xref="InterPro:IPR000524" /db_xref="InterPro:IPR008920" /db_xref="InterPro:IPR011711" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG11162" /db_xref="UniProtKB/Swiss-Prot:P42239" /translation="MYEGLEDLKVDTVNRKTLAKQVIERIVHLLSSGQLRAGDKLPTE MELMDILHVSRPVLREALSSLETLGVITRKTRGGTYFNDKIGMQPFSVMLALATDNLP AIIEARMALELGLVTIAAEKINEEELQRLQKTIDDIANSTDNHYGEADKEFHRIIALS ANNPVVEGMIQSLLITHAKIDSQIPYRERDVTVEYHKKIYDALAKRDPYKAHYHMYEH LKFVRDKILKGMDEK*" gene 273237..273938 /gene="garR" /locus_tag="BSU_02500" /old_locus_tag="BSU02500" downshifts 273888 /Source="Nicolas_upshifts" /id="D96" /incds=0 /nref=1 /ntot=35 /MaxReadThrough="3.59234" /MaxDrop="2.3923" /score="4.10541728" /energy="-9.5" /TU="U178" /idTUdmin="U178" /TUdmin="-1694" /isTUend="FALSE" downshifts 273932 /Source="Nicolas_upshifts" /id="D97" /incds=0 /nref=1 /ntot=82 /MaxReadThrough="3.21794" /MaxDrop="2.49226" /score="4.10541728" /energy="-9.5" /TU="U178" /idTUdmin="U178" /TUdmin="-1650" /isTUend="FALSE" CDS 274029..275561 /gene="garD" /locus_tag="BSU_02510" /old_locus_tag="BSU02510" /EC_number="4.2.1.42" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 9772162; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="D-galactarate dehydratase" /protein_id="NP_388133.2" /db_xref="EnsemblGenomes-Gn:BSU02510" /db_xref="EnsemblGenomes-Tr:CAB12045" /db_xref="GOA:P42240" /db_xref="InterPro:IPR007392" /db_xref="InterPro:IPR013974" /db_xref="InterPro:IPR017654" /db_xref="SubtiList:BG11163" /db_xref="UniProtKB/Swiss-Prot:P42240" /translation="MAMNLRKNQAPLYIKVHEIDNTAIIVNDGGLPKGTVFSCGLVLE EDVPQGHKVALTDLNQGDEIVRYGEVIGFADETIKRGSWIREALVRMPAPPALDDLPL ANRVPQPRPPLEGYTFEGYRNADGSAGTKNILGITTSVQCVVGVLDYAVKRIKEELLP KYPNVDDVVPLHHQYGCGVAINAPDAVIPIRTIQNLAKHPNFGGEVMVIGLGCEKLLP ERIASENDDDILSLQDHRGFAAMIQSILEMAEERLIRLNSRTRVSCPVSDLVIGLQCG GSDAFSGVTANPAVGYAADLLVRAGATVLFSEVTEVRDAIHLLTPRAVSEEVGQSLIK EMKWYDSYLRRGDADRSANPSPGNKKGGLSNVVEKALGSVAKSGTSPISGVLGPGERA KQKGLLFAATPASDFVCGTLQLAAGMNLQVFTTGRGTPYGLAAAPVLKVSTRHSLSEH WADLIDINAGRIATGEASIEDVGWEIFRTILDVASGRKQTWADRWGLHNDLCLFNPAP VT*" gene 274029..275561 /gene="garD" /locus_tag="BSU_02510" /old_locus_tag="BSU02510" promotor_-35 275573..275576 /Source="Nicolas_upshift_promotors" /id="U179" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.927072927072927" /psig=1 /xcortree=422 /SigmaFactorBS="tcctgctccagtgacttgattcatgtttttATAGcggaaaga tggaatATGCTGTAAAATGAAAATCAgcgtataggaaacggaggggttacagcatggc a" /listShort="S95, ycbJ, NA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 275591..275610 /Source="Nicolas_upshift_promotors" /id="U179" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.927072927072927" /psig=1 /xcortree=422 /SigmaFactorBS="tcctgctccagtgacttgattcatgtttttATAGcggaaaga tggaatATGCTGTAAAATGAAAATCAgcgtataggaaacggaggggttacagcatggc a" /listShort="S95, ycbJ, NA" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 275603..275837 /Source="Nicolas_S_feature" /locus_tag="new_275603_275837" /HighExp="LoTm, Sw, BC, BI, B60, B36, T3.30H, T5.0H, T4.0H, T3.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.50265400000000005" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="SigA" /TUlongPSig="0.999" /label="S95" upshifts 275603 /Source="Nicolas_upshifts" /id="U179" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.927072927072927" /psig=1 /xcortree=422 /SigmaFactorBS="tcctgctccagtgacttgattcatgtttttATAGcggaaaga tggaatATGCTGTAAAATGAAAATCAgcgtataggaaacggaggggttacagcatggc a" /listShort="S95, ycbJ, NA" /GFF_Attribute="listLong" CDS 275838..276758 /gene="ycbJ" /locus_tag="BSU_02520" /old_locus_tag="BSU02520" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12044674; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative phosphotransferase" /protein_id="NP_388134.1" /db_xref="EnsemblGenomes-Gn:BSU02520" /db_xref="EnsemblGenomes-Tr:CAB12046" /db_xref="GOA:P42242" /db_xref="InterPro:IPR002575" /db_xref="InterPro:IPR011009" /db_xref="SubtiList:BG11165" /db_xref="UniProtKB/Swiss-Prot:P42242" /translation="MTNLNEKQLITEIVGLARSQGLTVHSENAQLNETGMDFQVVFAK DDTGMPWVLRKPRRSDVVERASAEGITLAFLRANLTADVPDWRIHTPELIAYPMLKGT PAAGIDLEQKQYVWNMDHQPPSDDFVRTLADILAELHGTDQISAGQSGIEVIRPEDFR QMTADSMVDVKNKLGVSTTLWERWQKWVDDDAYWPGFSSLIHGDLHPPHILIDQNGRV TGLLDWTEAKVADPAKDFVLYQTIFGEKETARLLEYYDQAGGRIWAKMQEHISEMQAA YPVEIAKLALQTQQEEHINMALEALGVTSD*" gene 275838..276758 /gene="ycbJ" /locus_tag="BSU_02520" /old_locus_tag="BSU02520" promotor_-35 276760..276767 /Source="Nicolas_upshift_promotors" /id="U180" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.869130869130869" /psig=1 /xcortree=572 /SigmaFactorBS="gaagcacttggtgtaacatcggattaagAATTGACTtcgttt catgaaccGAGTATTATAAACTCTACAAataatagaacggattaacaatcgtgaggaa g" /listShort="NA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 276782..276801 /Source="Nicolas_upshift_promotors" /id="U180" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.869130869130869" /psig=1 /xcortree=572 /SigmaFactorBS="gaagcacttggtgtaacatcggattaagAATTGACTtcgttt catgaaccGAGTATTATAAACTCTACAAataatagaacggattaacaatcgtgaggaa g" /listShort="NA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 276792 /Source="Nicolas_upshifts" /id="U180" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.869130869130869" /psig=1 /xcortree=572 /SigmaFactorBS="gaagcacttggtgtaacatcggattaagAATTGACTtcgttt catgaaccGAGTATTATAAACTCTACAAataatagaacggattaacaatcgtgaggaa g" /listShort="NA" /GFF_Attribute="listLong" misc_RNA 276815..277062 /gene="tboW" /locus_tag="BSU_misc_RNA_6" /product="T-box riboswitch specific of tryptophan tRNA ligase" /experiment="publication(s) with functional evidences, PMID:1317842, 9098041, 10706627, 12165569, 12547201" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1317842, 9098041, 10706627, 12165569, 12547201; Product type n: RNA" gene 276815..277062 /gene="tboW" /locus_tag="BSU_misc_RNA_6" downshifts 277031 /Source="Nicolas_upshifts" /id="D98" /incds=0 /nref=225 /ntot=264 /MaxReadThrough="2.36361" /MaxDrop="6.52913" /score="36.5571172" /energy="-16.6" /TU="NA" /idTUdmin="U179" /TUdmin="-3" /isTUend="TRUE" CDS 277160..277321 /gene="rtpA" /locus_tag="BSU_02530" /old_locus_tag="BSU02530" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:10706627, 11557884, 12855807, 15099736, 15213402, 15743934, 16306262" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10706627, 11557884, 12855807, 15099736, 15213402, 15743934, 16306262; Product type r: regulator" /codon_start=1 /transl_table=11 /product="anti-TRAP regulator" /protein_id="NP_388135.1" /db_xref="EnsemblGenomes-Gn:BSU02530" /db_xref="EnsemblGenomes-Tr:CAB12047" /db_xref="GOA:O31466" /db_xref="InterPro:IPR031538" /db_xref="InterPro:IPR036410" /db_xref="PDB:2BX9" /db_xref="PDB:2KO8" /db_xref="PDB:2ZP8" /db_xref="PDB:2ZP9" /db_xref="SubtiList:BG12776" /db_xref="UniProtKB/Swiss-Prot:O31466" /translation="MVIATDDLEVACPKCERAGEIEGTPCPACSGKGVILTAQGYTLL DFIQKHLNK*" gene 277160..277321 /gene="rtpA" /locus_tag="BSU_02530" /old_locus_tag="BSU02530" promotor_no_box 277238..277338 /Source="Nicolas_upshift_promotors" /id="U181" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.544455544455544" /psig="0.010989010989011" /xcortree=1479 /SigmaFactorBS="ccggcctgcagcggaaaaggtgttattctgactgctcaagga tatacgcttctcgattttatccaaaagcatttgaataagtaaaggagaaaagctgagc t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts 277298 /Source="Nicolas_upshifts" /id="U181" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.544455544455544" /psig="0.010989010989011" /xcortree=1479 /SigmaFactorBS="ccggcctgcagcggaaaaggtgttattctgactgctcaagga tatacgcttctcgattttatccaaaagcatttgaataagtaaaggagaaaagctgagc t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS 277342..278280 /gene="ycbK" /locus_tag="BSU_02540" /old_locus_tag="BSU02540" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10706627, 15063849, 15849754, 16850406, 16879415, 17114263; Product type t : transporter" /codon_start=1 /transl_table=11 /product="putative tryptophan or indole exporter" /protein_id="NP_388136.1" /db_xref="EnsemblGenomes-Gn:BSU02540" /db_xref="EnsemblGenomes-Tr:CAB12048" /db_xref="GOA:P42243" /db_xref="InterPro:IPR000620" /db_xref="SubtiList:BG11166" /db_xref="UniProtKB/Swiss-Prot:P42243" /translation="MRAEEQSKIREAAAGTIFLLIGTVCFASKSIWIKWAYQMGAEPD AVLLYRQLLAVPLFWLIFLIYRPPMPDGKKKGDLWKACGAGVFCFFLSPLLDFIGLNH VSAMVERILLMSYPLFVFGFTACRDRKMSSIQDLFAVLAVMFGLFLALGGWNAELFQA NMIGAVFILLSSAVYAGYLVLSGHLVHQIGGIRLNAYGMTAAGAAMMLYTGIKSAAGM NTPMAAYPLSMYGLFAVIAVVTTVIPFVLMLEGIKRIGAQRAAAISMAGPILTIFYGA LFLGERLGLIQVIGCGGVFFVITGMEYRKLKTGKKE*" gene 277342..278280 /gene="ycbK" /locus_tag="BSU_02540" /old_locus_tag="BSU02540" downshifts 277386 /Source="Nicolas_upshifts" /id="D99" /incds=0 /nref=1 /ntot=7 /MaxReadThrough="3.05417" /MaxDrop="3.72787" /score="0.773303272" /energy="-9" /TU="NA" /idTUdmin="U181" /TUdmin=0 /isTUend="TRUE" misc_feature 278303..278322 /Source="Nicolas_upshift_promotors" /id="U182" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.699300699300699" /psig="0.998001998001998" /xcortree=2265 /SigmaFactorBS="tacaggaagctgaaaacaggaaaaaaagaataatttttataa aacacacacgtttTTCAATTACAATAAGTGTAAttacgtgtgtgttttttgattttgt a" /listShort="S96, ycbL, ycbM" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" S_feature 278308..278376 /Source="Nicolas_S_feature" /locus_tag="new_278308_278376" /HighExp="C90, dia5, Lbtran, Lbexp, LBGexp, SMM, dia0, dia15, BMM, T-3.40H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S96" upshifts 278308 /Source="Nicolas_upshifts" /id="U182" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.699300699300699" /psig="0.998001998001998" /xcortree=2265 /SigmaFactorBS="tacaggaagctgaaaacaggaaaaaaagaataatttttataa aacacacacgtttTTCAATTACAATAAGTGTAAttacgtgtgtgttttttgattttgt a" /listShort="S96, ycbL, ycbM" /GFF_Attribute="listLong" CDS 278377..279057 /gene="ycbL" /locus_tag="BSU_02550" /old_locus_tag="BSU02550" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11717295" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11717295; Product type r: regulator" /codon_start=1 /transl_table=11 /product="two-component response regulator [YcbM]" /protein_id="NP_388137.2" /db_xref="EnsemblGenomes-Gn:BSU02550" /db_xref="EnsemblGenomes-Tr:CAB12049" /db_xref="GOA:P42244" /db_xref="InterPro:IPR001789" /db_xref="InterPro:IPR001867" /db_xref="InterPro:IPR011006" /db_xref="InterPro:IPR016032" /db_xref="InterPro:IPR036388" /db_xref="SubtiList:BG11167" /db_xref="UniProtKB/Swiss-Prot:P42244" /translation="MLVEDDHSISEMVDHYLTKEGFGIVHAFDGEEGIRLFQQGSYDL VLLDIMLPKLNGMDFLKIIREKSNIPVLMISAKDGDVDKALGLGFGADDYIAKPFSMI ELTARVKAAIRRATQYSAEEPAVNKVIRIHQLAIDIDNVSVLKNGEPLQLTSTEWQLL CLFASNPKKVFTKEQIYRSVWNEEYFDDQNIINVHMRRLREKIEDDPSSPQYIKTLWG IGYKLGEF*" gene 278377..279057 /gene="ycbL" /locus_tag="BSU_02550" /old_locus_tag="BSU02550" CDS 279059..279994 /gene="ycbM" /locus_tag="BSU_02560" /old_locus_tag="BSU02560" /function="16.3: Control" /function="16.12: Sense" /experiment="publication(s) with functional evidences, PMID:11717295" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11717295; Product type rc: receptor" /codon_start=1 /transl_table=11 /product="two-component sensor histidine kinase [YcbL]" /protein_id="NP_388138.2" /db_xref="EnsemblGenomes-Gn:BSU02560" /db_xref="EnsemblGenomes-Tr:CAB12050" /db_xref="GOA:P42245" /db_xref="InterPro:IPR003594" /db_xref="InterPro:IPR003661" /db_xref="InterPro:IPR004358" /db_xref="InterPro:IPR005467" /db_xref="InterPro:IPR036097" /db_xref="InterPro:IPR036890" /db_xref="SubtiList:BG11168" /db_xref="UniProtKB/Swiss-Prot:P42245" /translation="MTVLWVAAVIALACLNVIQFIMKKKRDGNLAYTADQLSYMLSRD SAGQILLPTDDHALKDLLVNINLIVENRQQISAQFAKTEQSMKRMLTNMSHDLKTPLT VILGYIEAIQSDPNMPDEERERLLGKLRQKTNELIQMINSFFDLAKLESEDKEIPITK VHMNDICKRNILHYYDAVQSKGFQAAIDIPDTPVYAQANEEALDRILQNLLSNAIQYG AAGKLIGLTLSYDERNIAITVWDRGKGISETDQQRVFERLYTLEESRNKAFQGSGLGL TITKRLTEKMGGIISVQSKPYERTAFTITLKRMTY*" gene 279059..279994 /gene="ycbM" /locus_tag="BSU_02560" /old_locus_tag="BSU02560" CDS 280086..281009 /gene="ycbN" /locus_tag="BSU_02570" /old_locus_tag="BSU02570" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12486040; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative ABC efflux transporter (ATP-binding protein)" /protein_id="NP_388139.2" /db_xref="EnsemblGenomes-Gn:BSU02570" /db_xref="EnsemblGenomes-Tr:CAB12051" /db_xref="GOA:P42246" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG11169" /db_xref="UniProtKB/Swiss-Prot:P42246" /translation="MTYIVQTNGLTKTYQGKEVVSNVSMHIKKGEIYGFLGPNGAGKT TIMKMLTSLVKPTSGEIIILGNKFTHTSYEVLGNIGSMIEYPIFYENLTAEENLDLHC EYMGYHNKKAIQEVLDMVNLKQIDKKPVKTFSLGMKQRLGIARAILTKPDLLILDEPV NGLDPLGIKKIRQLFQVLSKEYGMTLLISSHLLGEIEQIADTIGVIRDGRLLEEVSME DVRGQNTEYIELVTPNQTRACFVLEKELQLTNFKILNEKTIRIYEAEASQAAISKALI LNDVDIESMNKKYTSLEDYFIKLINGNSISA*" gene 280086..281009 /gene="ycbN" /locus_tag="BSU_02570" /old_locus_tag="BSU02570" S_feature complement(280556..281740) /Source="Nicolas_S_feature" /locus_tag="new_280556_281740_c" /HighExp="Etha, Sw, Gly, B36, LoTm, B60, GM 150, Salt, C30, ferm" /AntisenseName="ycbO" /AntisenseCor="-0.38911425676406203" /AntisenseRegPval="-10.4" /CDS_PredictionProba="NA" /TUshortSig="SigB" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S97" CDS 281028..281714 /gene="ycbO" /locus_tag="BSU_02580" /old_locus_tag="BSU02580" /function="16.1: Circulate" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative Na+-driven exporter" /protein_id="NP_388140.3" /db_xref="EnsemblGenomes-Gn:BSU02580" /db_xref="EnsemblGenomes-Tr:CAB12052" /db_xref="GOA:P42247" /db_xref="InterPro:IPR032688" /db_xref="SubtiList:BG11170" /db_xref="UniProtKB/Swiss-Prot:P42247" /translation="MNLIRIELRKMKMGWYIRGALIANVIIMGFMWLISYSEKADGGV SFQSTDEAFLIIGTFVRAVFIVFGAVLIVKLVISEYKNKTILVMFTYPISRKKLLTAK LMIAGGLTFITILLSNILIAAGFFWLNSICHFIPGELTSEIISQQAVKMAVFAFGAAG TSLVPIFFGMRRHSVPATIISSVVIVMLISSTSPGFSISSVVYIPLSLAAFGLFFSYM AIRNADKQDA*" gene 281028..281714 /gene="ycbO" /locus_tag="BSU_02580" /old_locus_tag="BSU02580" CDS complement(281675..281809) /locus_tag="BSU_02585" /old_locus_tag="BSU02585" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_009513940.1" /translation="MARSIILKQEQTHNGKAGADSIGLLYILGAFVYASCLSAFLIAM *" gene complement(281675..281809) /locus_tag="BSU_02585" /old_locus_tag="BSU02585" downshifts 281709 /Source="Nicolas_upshifts" /id="D100" /incds=0 /nref=8 /ntot=120 /MaxReadThrough="1.13131" /MaxDrop="3.44039" /score="18.1873505" /energy="-11.4" /TU="NA" /idTUdmin="U184" /TUdmin="-1166" /isTUend="FALSE" CDS complement(281769..282155) /gene="ycbP" /locus_tag="BSU_02590" /old_locus_tag="BSU02590" /function="16.13: Shape" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406, 22582280; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative inner integral membrane protein" /protein_id="NP_388141.1" /db_xref="EnsemblGenomes-Gn:BSU02590" /db_xref="EnsemblGenomes-Tr:CAB12053" /db_xref="GOA:P42248" /db_xref="InterPro:IPR019649" /db_xref="SubtiList:BG11171" /db_xref="UniProtKB/Swiss-Prot:P42248" /translation="MTHVKALAIKGIMTIIVLYLVLGLGFGFTFGDTLLMTIVLGVIS YLLGDLYVLPKWNNMIATLADFGLAFLVIWLMGMPLSMGMTGGEVALAALFGAIVMAI GEYCFHFYMMSKEIGKKHYLETRTDS*" gene complement(281769..282155) /gene="ycbP" /locus_tag="BSU_02590" /old_locus_tag="BSU02590" downshifts complement(281785) /Source="Nicolas_upshifts" /id="D101" /incds=0 /nref=148 /ntot=217 /MaxReadThrough="6.64196" /MaxDrop="7.40353" /score="13.8182557" /energy="-15.6" /TU="U183" /idTUdmin="U185" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(282181..282199) /Source="Nicolas_upshift_promotors" /id="U183" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=164 /SigmaFactorBS="ctctccccagcagatttgcacccgcctccgaaaagaaataaG GTTTAActttttacatttgAGGAATTATACATAACAAAtcaaatgacaaaaggaggaa t" /listShort="ycbP, S97" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(282200) /Source="Nicolas_upshifts" /id="U183" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=164 /SigmaFactorBS="ctctccccagcagatttgcacccgcctccgaaaagaaataaG GTTTAActttttacatttgAGGAATTATACATAACAAAtcaaatgacaaaaggaggaa t" /listShort="ycbP, S97" /GFF_Attribute="listLong" promotor_-35 complement(282213..282219) /Source="Nicolas_upshift_promotors" /id="U183" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=164 /SigmaFactorBS="ctctccccagcagatttgcacccgcctccgaaaagaaataaG GTTTAActttttacatttgAGGAATTATACATAACAAAtcaaatgacaaaaggaggaa t" /listShort="ycbP, S97" /GFF_Attribute="listLong" /label="promotor_-35" S_feature complement(282233..283231) /Source="Nicolas_S_feature" /locus_tag="new_282233_283231_c" /HighExp="GM 150, T0.30H, C30, T1.30H, T1.0H, T-0.40H, T-3.40H, T2.0H, T2.30H, T-4.40H" /AntisenseName="cwlJ" /AntisenseCor="0.11463160303596701" /AntisenseRegPval="-1.2" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.975" /TUlongSig="NA" /TUlongPSig="NA" /label="S98" downshifts complement(282276) /Source="Nicolas_upshifts" /id="D102" /incds=0 /nref=3 /ntot=10 /MaxReadThrough="5.23914" /MaxDrop="3.14515" /score="13.8182557" /energy="-15.6" /TU="U185,U187" /idTUdmin="U185" /TUdmin="-491" /isTUend="FALSE" promotor_-35 282412..282417 /Source="Nicolas_upshift_promotors" /id="U184" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.986013986013986" /psig="0.986013986013986" /xcortree=1108 /SigmaFactorBS="gtttttagatgaataaatttaaaaacttctcctgtccctccG TCATCacttctgaagtaatgAAATATGATGAAAAGAGATcaaggggaggtgacgtgat g" /listShort="cwlJ" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 282431 /Source="Nicolas_upshifts" /id="U184" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.986013986013986" /psig="0.986013986013986" /xcortree=1108 /SigmaFactorBS="gtttttagatgaataaatttaaaaacttctcctgtccctccG TCATCacttctgaagtaatgAAATATGATGAAAAGAGATcaaggggaggtgacgtgat g" /listShort="cwlJ" /GFF_Attribute="listLong" promotor_-10 282433..282451 /Source="Nicolas_upshift_promotors" /id="U184" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.986013986013986" /psig="0.986013986013986" /xcortree=1108 /SigmaFactorBS="gtttttagatgaataaatttaaaaacttctcctgtccctccG TCATCacttctgaagtaatgAAATATGATGAAAAGAGATcaaggggaggtgacgtgat g" /listShort="cwlJ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(282445) /Source="Nicolas_upshifts" /id="U185" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.999000999001" /psig=0 /xcortree=680 /SigmaFactorBS="aatcgacatccgcactcgttgctctcacgaccGCCATcacgt caCCTCCCCTTGATCTCttttcatcatatttcattacttcagaagtgatgacggaggg a" /listShort="ycbP" /GFF_Attribute="listLong" promotor_-10 complement(282447..282461) /Source="Nicolas_upshift_promotors" /id="U185" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.999000999001" /psig=0 /xcortree=680 /SigmaFactorBS="aatcgacatccgcactcgttgctctcacgaccGCCATcacgt caCCTCCCCTTGATCTCttttcatcatatttcattacttcagaagtgatgacggaggg a" /listShort="ycbP" /GFF_Attribute="listLong" /label="promotor_-10" downshifts complement(282467) /Source="Nicolas_upshifts" /id="D103" /incds=0 /nref=2 /ntot=5 /MaxReadThrough="5.64474" /MaxDrop="3.76775" /score="13.8182557" /energy="-15.6" /TU="U187" /idTUdmin="U185" /TUdmin="-682" /isTUend="FALSE" promotor_-35 complement(282469..282473) /Source="Nicolas_upshift_promotors" /id="U185" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.999000999001" /psig=0 /xcortree=680 /SigmaFactorBS="aatcgacatccgcactcgttgctctcacgaccGCCATcacgt caCCTCCCCTTGATCTCttttcatcatatttcattacttcagaagtgatgacggaggg a" /listShort="ycbP" /GFF_Attribute="listLong" /label="promotor_-35" CDS 282469..282897 /gene="cwlJ" /locus_tag="BSU_02600" /old_locus_tag="BSU02600" /function="16.5: Explore" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:9515903, 11466292, 11807087, 12177332, 16936016, 26190134, 28333204" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9515903, 11466292, 11807087, 12177332, 16936016, 26190134, 28333204; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="spore cortex cell wall hydrolase" /protein_id="NP_388142.2" /db_xref="EnsemblGenomes-Gn:BSU02600" /db_xref="EnsemblGenomes-Tr:CAB12054" /db_xref="GOA:P42249" /db_xref="InterPro:IPR011105" /db_xref="SubtiList:BG11172" /db_xref="UniProtKB/Swiss-Prot:P42249" /translation="MAVVRATSADVDLMARLLRAEAEGEGKQGMLLVGNVGINRLRAN CSDFKGLRTIRQMIYQPHAFEAVTHGYFYQRARDSERALARRSINGERRWPAKFSLWY FRPQGDCPAQWYNQPFVARFKSHCFYQPTAETCENVYNTF*" gene 282469..282897 /gene="cwlJ" /locus_tag="BSU_02600" /old_locus_tag="BSU02600" downshifts 282876 /Source="Nicolas_upshifts" /id="D104" /incds=0 /nref=44 /ntot=63 /MaxReadThrough="2.30044" /MaxDrop="5.89045" /score="18.1873505" /energy="-11.4" /TU="NA" /idTUdmin="U184" /TUdmin=1 /isTUend="TRUE" promotor_-35 282942..282948 /Source="Nicolas_upshift_promotors" /id="U186" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.535464535464535" /psig="0.973026973026973" /xcortree=1784 /SigmaFactorBS="ggacaccgttcaaattgaacggtgtttttctttgaaaagATG CAATgcaaaatattccTGTGAGATAATCAAAGAAAAaagagctgacggagatgacaga a" /listShort="ycbR" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 282961..282980 /Source="Nicolas_upshift_promotors" /id="U186" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.535464535464535" /psig="0.973026973026973" /xcortree=1784 /SigmaFactorBS="ggacaccgttcaaattgaacggtgtttttctttgaaaagATG CAATgcaaaatattccTGTGAGATAATCAAAGAAAAaagagctgacggagatgacaga a" /listShort="ycbR" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 282963 /Source="Nicolas_upshifts" /id="U186" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.535464535464535" /psig="0.973026973026973" /xcortree=1784 /SigmaFactorBS="ggacaccgttcaaattgaacggtgtttttctttgaaaagATG CAATgcaaaatattccTGTGAGATAATCAAAGAAAAaagagctgacggagatgacaga a" /listShort="ycbR" /GFF_Attribute="listLong" CDS 283003..283734 /gene="ycbR" /locus_tag="BSU_02610" /old_locus_tag="BSU02610" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388143.2" /db_xref="EnsemblGenomes-Gn:BSU02610" /db_xref="EnsemblGenomes-Tr:CAB12055" /db_xref="InterPro:IPR002035" /db_xref="InterPro:IPR019303" /db_xref="InterPro:IPR036465" /db_xref="SubtiList:BG11173" /db_xref="UniProtKB/Swiss-Prot:P42250" /translation="MATIDLQKKSVKIVLEKKQLTKVTARVGLVLDITGSMRPLYKNG TVQNVVERILAVADQFDDNGLLDVWVYDNEFSRLKPVSEKDFSGYVDREILNNDRLHK FGRNDEPPVMKDVLRKYVTEEPSSYPAFIVFINDGGCKKSIKPIIEASSDKPVFWQFV GIGNGNFDFLNKLDTLEGRVIDNTNFLHIEEIDRISDDELYDALLAEFPFWLKEAKEK GIVREQEPPAEKPKKKGFFSRLFSK*" gene 283003..283734 /gene="ycbR" /locus_tag="BSU_02610" /old_locus_tag="BSU02610" promotor_-10 complement(283205..283224) /Source="Nicolas_upshift_promotors" /id="U187" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.932067932067932" /psig="0.975024975024975" /xcortree=2967 /SigmaFactorBS="tatttaaaatttcacgatcgacatagcccgaaaaatcctttt ctgaAACTGGCTttaatcgggaaaaTTCATTATCATACACCCATAcatccagcaaacc g" /listShort="S98, ycbP" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(283231) /Source="Nicolas_upshifts" /id="U187" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.932067932067932" /psig="0.975024975024975" /xcortree=2967 /SigmaFactorBS="tatttaaaatttcacgatcgacatagcccgaaaaatcctttt ctgaAACTGGCTttaatcgggaaaaTTCATTATCATACACCCATAcatccagcaaacc g" /listShort="S98, ycbP" /GFF_Attribute="listLong" promotor_-35 complement(283238..283245) /Source="Nicolas_upshift_promotors" /id="U187" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.932067932067932" /psig="0.975024975024975" /xcortree=2967 /SigmaFactorBS="tatttaaaatttcacgatcgacatagcccgaaaaatcctttt ctgaAACTGGCTttaatcgggaaaaTTCATTATCATACACCCATAcatccagcaaacc g" /listShort="S98, ycbP" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 283652 /Source="Nicolas_upshifts" /id="D105" /incds=1 /nref=9 /ntot=148 /MaxReadThrough="1.70712" /MaxDrop="3.61288" /score="25.6672471" /energy="-14.1" /TU="NA" /idTUdmin="U186" /TUdmin=7 /isTUend="TRUE" CDS 283816..283992 /gene="yczK" /locus_tag="BSU_02619" /old_locus_tag="BSU02619" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="YP_003097673.1" /db_xref="EnsemblGenomes-Gn:BSU02619" /db_xref="EnsemblGenomes-Tr:CAX52543" /db_xref="UniProtKB/Swiss-Prot:C0H3T2" /translation="MGGLQTTGYAENASFSQLSACFSSRLVREDLFLMFSAYNQFTLL HSRLTMISYNGDDQ*" gene 283816..283992 /gene="yczK" /locus_tag="BSU_02619" /old_locus_tag="BSU02619" promotor_-35 283944..283950 /Source="Nicolas_upshift_promotors" /id="U188" /multdbtbs="SigA" /comp="M6" /sig="Sig-" /pcomp="0.942057942057942" /psig="0.056943056943057" /xcortree=6 /SigmaFactorBS="gtttttaatgttcagcgcttacaatcagttcacactTCTTCA CagtcgtTTAACAATGATTTCCTATaatggagacgatcaatgaggagagaggggatct t" /listShort="phoD, tatAD, S99, tatCD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 283957..283974 /Source="Nicolas_upshift_promotors" /id="U188" /multdbtbs="SigA" /comp="M6" /sig="Sig-" /pcomp="0.942057942057942" /psig="0.056943056943057" /xcortree=6 /SigmaFactorBS="gtttttaatgttcagcgcttacaatcagttcacactTCTTCA CagtcgtTTAACAATGATTTCCTATaatggagacgatcaatgaggagagaggggatct t" /listShort="phoD, tatAD, S99, tatCD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 283968 /Source="Nicolas_upshifts" /id="U188" /multdbtbs="SigA" /comp="M6" /sig="Sig-" /pcomp="0.942057942057942" /psig="0.056943056943057" /xcortree=6 /SigmaFactorBS="gtttttaatgttcagcgcttacaatcagttcacactTCTTCA CagtcgtTTAACAATGATTTCCTATaatggagacgatcaatgaggagagaggggatct t" /listShort="phoD, tatAD, S99, tatCD" /GFF_Attribute="listLong" CDS 284011..285762 /gene="phoD" /locus_tag="BSU_02620" /old_locus_tag="BSU02620" /EC_number="3.1.4.46" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:11719524, 12867413, 16698798, 19395490, 19616508, 21479178, 27780866" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11719524, 12867413, 16698798, 19395490, 19616508, 21479178, 27780866; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="secreted phosphodiesterase (endo-hydrolysis at non-specific sites throughout the cell wall teichoic acid polymer)" /protein_id="NP_388144.2" /db_xref="EnsemblGenomes-Gn:BSU02620" /db_xref="EnsemblGenomes-Tr:CAB12056" /db_xref="GOA:P42251" /db_xref="InterPro:IPR008963" /db_xref="InterPro:IPR018946" /db_xref="InterPro:IPR029052" /db_xref="InterPro:IPR032093" /db_xref="PDB:2YEQ" /db_xref="SubtiList:BG11174" /db_xref="UniProtKB/Swiss-Prot:P42251" /translation="MAYDSRFDEWVQKLKEESFQNNTFDRRKFIQGAGKIAGLSLGLT IAQSVGAFEVNAAPNFSSYPFTLGVASGDPLSDSVVLWTRLAPDPLNGGGMPKQAVPV KWEVAKDEHFRKIVRKGTEMAKPSLAHSVHVEADGLEPNKVYYYRFKTGHELSPVGKT KTLPAPGANVPQMTFAFASCQQYEHGYYTAYKHMAKEKLDLVFHLGDYIYEYGPNEYV SKTGNVRTHNSAEIITLQDYRNRHAQYRSDANLKAAHAAFPWVVTWDDHEVENNYANK IPEKGQSVEAFVLRRAAAYQAYYEHMPLRISSLPNGPDMQLYRHFTYGNLASFNVLDT RQYRDDQANNDGNKPPSDESRNPNRTLLGKEQEQWLFNNLGSSTAHWNVLAQQIFFAK WNFGTSASPIYSMDSWDGYPAQRERVINFIKSKNLNNVVVLTGDVHASWASNLHVDFE KTSSKIFGAEFVGTSITSGGNGADKRADTDQILKENPHIQFFNDYRGYVRCTVTPHQW KADYRVMPFVTEPGAAISTRASFVYQKDQTGLRKVSSTTIQGGVKQSDEVEEDRFFSH NKAHEKQMIKKRAKITN*" gene 284011..285762 /gene="phoD" /locus_tag="BSU_02620" /old_locus_tag="BSU02620" promotor_-10 complement(284065..284080) /Source="Nicolas_upshift_promotors" /id="U189" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.875124875124875" /psig="0.875124875124875" /xcortree=1703 /SigmaFactorBS="gagaaagtcctgcaatcttccccgctcctTGAATAAATTtgc ggcggtcaaACGTATTGTTTTGAAAgctttcctctttcagtttctgtacccattcatc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(284071) /Source="Nicolas_upshifts" /id="U189" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.875124875124875" /psig="0.875124875124875" /xcortree=1703 /SigmaFactorBS="gagaaagtcctgcaatcttccccgctcctTGAATAAATTtgc ggcggtcaaACGTATTGTTTTGAAAgctttcctctttcagtttctgtacccattcatc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(284093..284102) /Source="Nicolas_upshift_promotors" /id="U189" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.875124875124875" /psig="0.875124875124875" /xcortree=1703 /SigmaFactorBS="gagaaagtcctgcaatcttccccgctcctTGAATAAATTtgc ggcggtcaaACGTATTGTTTTGAAAgctttcctctttcagtttctgtacccattcatc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 285775..285987 /gene="tatAD" /locus_tag="BSU_02630" /old_locus_tag="BSU02630" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:12867413, 15554971, 16678787, 19049517, 21479530, 27984091" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12867413, 15554971, 16678787, 19049517, 21479530, 27984091; Product type t : transporter" /codon_start=1 /transl_table=11 /product="component of the twin-arginine pre-protein translocation pathway" /protein_id="NP_388145.2" /db_xref="EnsemblGenomes-Gn:BSU02630" /db_xref="EnsemblGenomes-Tr:CAB12057" /db_xref="GOA:O31467" /db_xref="InterPro:IPR003369" /db_xref="InterPro:IPR003998" /db_xref="InterPro:IPR006312" /db_xref="PDB:2L16" /db_xref="SubtiList:BG12777" /db_xref="UniProtKB/Swiss-Prot:O31467" /translation="MFSNIGIPGLILIFVIALIIFGPSKLPEIGRAAGRTLLEFKSAT KSLVSGDEKEEKSAELTAVKQDKNAG*" gene 285775..285987 /gene="tatAD" /locus_tag="BSU_02630" /old_locus_tag="BSU02630" S_feature 285988..286047 /Source="Nicolas_S_feature" /locus_tag="new_285988_286047" /HighExp="LPhT, BI, Paraq, C90, H2O2, M40t90, C30, M0t90, GM 60, GM 120" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="Sig-" /TUshortPSig="0.0569" /TUlongSig="NA" /TUlongPSig="NA" /label="S99" CDS 286048..286776 /gene="tatCD" /locus_tag="BSU_02640" /old_locus_tag="BSU02640" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:16698798, 19049517, 27984091" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16698798, 19049517, 27984091; Product type t: transporter" /codon_start=1 /transl_table=11 /product="component of the twin-arginine pre-protein translocation pathway" /protein_id="NP_388146.2" /db_xref="EnsemblGenomes-Gn:BSU02640" /db_xref="EnsemblGenomes-Tr:CAB12058" /db_xref="GOA:P42252" /db_xref="InterPro:IPR002033" /db_xref="InterPro:IPR019820" /db_xref="SubtiList:BG11175" /db_xref="UniProtKB/Swiss-Prot:P42252" /translation="MDKKETHLIGHLEELRRRIIVTLAAFFLFLITAFLFVQDIYDWL IRDLDGKLAVLGPSEILWVYMMLSGICAIAASIPVAAYQLWRFVAPALTKTERKVTLM YIPGLFALFLAGISFGYFVLFPIVLSFLTHLSSGHFETMFTADRYFRFMVNLSLPFGF LFEMPLVVMFLTRLGILNPYRLAKARKLSYFLLIVVSILITPPDFISDFLVMIPLLVL FEVSVTLSAFVYKKRMREETAAAA*" gene 286048..286776 /gene="tatCD" /locus_tag="BSU_02640" /old_locus_tag="BSU02640" downshifts complement(286056) /Source="Nicolas_upshifts" /id="D106" /incds=0 /nref=4 /ntot=146 /MaxReadThrough="1.2763" /MaxDrop="3.13944" /score="-9.00478071" /energy="-8.5" /TU="NA" /idTUdmin="U190" /TUdmin="-6" /isTUend="TRUE" CDS complement(286773..287420) /gene="pcp" /locus_tag="BSU_02650" /old_locus_tag="BSU02650" /EC_number="3.4.19.3" /function="16.6: Maintain" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:1362573, 28830929" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1362573, 28830929; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="pyrrolidone-carboxylate (pyroglutamate) peptidase" /protein_id="NP_388147.1" /db_xref="EnsemblGenomes-Gn:BSU02650" /db_xref="EnsemblGenomes-Tr:CAB12059" /db_xref="GOA:P28618" /db_xref="InterPro:IPR000816" /db_xref="InterPro:IPR016125" /db_xref="InterPro:IPR029762" /db_xref="InterPro:IPR033693" /db_xref="InterPro:IPR033694" /db_xref="InterPro:IPR036440" /db_xref="SubtiList:BG10873" /db_xref="UniProtKB/Swiss-Prot:P28618" /translation="MRKKVLITGFDPFDKETVNPSWEAAKRLNGFETEEAIITAEQIP TVFRSALDTLRQAIQKHQPDIVICVGQAGGRMQITPERVAINLADARIPDNEGHQPID EEISPDGPAAYWTRLPVKRMTAKMKEHGIPAAVSYTAGTFVCNYLFYGLMDHISRTSP HIRGGFIHIPYIPQQTIDKTAPSLSLDTIVRALRIAAVTAAQYDEDVKSPGGTLH*" gene complement(286773..287420) /gene="pcp" /locus_tag="BSU_02650" /old_locus_tag="BSU02650" promotor_-10 complement(287435..287454) /Source="Nicolas_upshift_promotors" /id="U190" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.487512487512487" /psig="0.957042957042957" /xcortree=559 /SigmaFactorBS="aaatgctccattatgattcactcctttacattatttTGATGa aaaacccataaatAAACAATAGAATAAAAGAAAaaggagatgggagaatgagaaaaaa a" /listShort="pcp" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 287448..287454 /Source="Nicolas_upshift_promotors" /id="U191" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.603396603396603" /psig="0.988011988011988" /xcortree=2718 /SigmaFactorBS="tttttctcattctcccatctcctttttcttttattctATTGT TTatttatgggtttttCATCAAAATAATGTAAAGGAgtgaatcataatggagcatttg c" /listShort="ycbU" /GFF_Attribute="listLong" /label="promotor_-35" upshifts complement(287449) /Source="Nicolas_upshifts" /id="U190" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.487512487512487" /psig="0.957042957042957" /xcortree=559 /SigmaFactorBS="aaatgctccattatgattcactcctttacattatttTGATGa aaaacccataaatAAACAATAGAATAAAAGAAAaaggagatgggagaatgagaaaaaa a" /listShort="pcp" /GFF_Attribute="listLong" promotor_-10 287469..287488 /Source="Nicolas_upshift_promotors" /id="U191" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.603396603396603" /psig="0.988011988011988" /xcortree=2718 /SigmaFactorBS="tttttctcattctcccatctcctttttcttttattctATTGT TTatttatgggtttttCATCAAAATAATGTAAAGGAgtgaatcataatggagcatttg c" /listShort="ycbU" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(287469..287473) /Source="Nicolas_upshift_promotors" /id="U190" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.487512487512487" /psig="0.957042957042957" /xcortree=559 /SigmaFactorBS="aaatgctccattatgattcactcctttacattatttTGATGa aaaacccataaatAAACAATAGAATAAAAGAAAaaggagatgggagaatgagaaaaaa a" /listShort="pcp" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 287471 /Source="Nicolas_upshifts" /id="U191" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.603396603396603" /psig="0.988011988011988" /xcortree=2718 /SigmaFactorBS="tttttctcattctcccatctcctttttcttttattctATTGT TTatttatgggtttttCATCAAAATAATGTAAAGGAgtgaatcataatggagcatttg c" /listShort="ycbU" /GFF_Attribute="listLong" CDS 287499..288611 /gene="ycbU" /locus_tag="BSU_02660" /old_locus_tag="BSU02660" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative lyase (PLP-dependent)" /protein_id="NP_388148.2" /db_xref="EnsemblGenomes-Gn:BSU02660" /db_xref="EnsemblGenomes-Tr:CAB12060" /db_xref="GOA:P42253" /db_xref="InterPro:IPR000192" /db_xref="InterPro:IPR015421" /db_xref="InterPro:IPR015422" /db_xref="InterPro:IPR015424" /db_xref="InterPro:IPR020578" /db_xref="SubtiList:BG11176" /db_xref="UniProtKB/Swiss-Prot:P42253" /translation="MEHLPEQYRQLFPTLQTHTMLASCSQSALAEPVSRAIQDYYDSL LYKGTNWKEAIEKTEFARNEFAKLIGAEPDEVAIVPSVSDALVSVASSLTAFGKKHVV YTDMDFPAVPHVWQAHSDYTVSVIPSIDGVLPLEQYETHISDETVLTCVPHVHYRDGY VQDIKAIAEISQRKGSLLFVDAYQSAGHIPIDVKEWGVDMLAAGTRKYLLGIPGVAFL YVRKELADALKPKASAWFGRESGFDGAYAKVARRFQTGTPAFISVYAAAAALSLLNHI GVSHIRDHVKTICADAVQYAAEKGLQLAAAQGGIQPGMVAIRDERASETAGLLKKKKV ICAPRENVIRLAPHFYNTKEEMRHAIDEIAAKTIHK*" gene 287499..288611 /gene="ycbU" /locus_tag="BSU_02660" /old_locus_tag="BSU02660" upshifts complement(287845) /Source="Nicolas_upshifts" /id="U192" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.954045954045954" /psig="0.999000999001" /xcortree=2851 /SigmaFactorBS="tcaagcggcagcacgccgTCTATtgatggaatgacggaTACG GTATAATCGGAGTGTGcctgccaaacatgaggcaccgccggaaaatccatatctgtat a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 complement(287848..287867) /Source="Nicolas_upshift_promotors" /id="U192" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.954045954045954" /psig="0.999000999001" /xcortree=2851 /SigmaFactorBS="tcaagcggcagcacgccgTCTATtgatggaatgacggaTACG GTATAATCGGAGTGTGcctgccaaacatgaggcaccgccggaaaatccatatctgtat a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(287883..287887) /Source="Nicolas_upshift_promotors" /id="U192" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.954045954045954" /psig="0.999000999001" /xcortree=2851 /SigmaFactorBS="tcaagcggcagcacgccgTCTATtgatggaatgacggaTACG GTATAATCGGAGTGTGcctgccaaacatgaggcaccgccggaaaatccatatctgtat a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 288605 /Source="Nicolas_upshifts" /id="D107" /incds=0 /nref=45 /ntot=226 /MaxReadThrough="1.10091" /MaxDrop="4.52742" /score="6.75687898" /energy="-14" /TU="NA" /idTUdmin="U191" /TUdmin=814 /isTUend="FALSE" CDS complement(288653..290092) /gene="lmrB" /locus_tag="BSU_02670" /old_locus_tag="BSU02670" /function="16.1: Circulate" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:15317768, 15849754, 16850406, 17483215" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15317768, 15849754, 16850406, 17483215; Product type t: transporter" /codon_start=1 /transl_table=11 /product="flavonoid efflux transporter; drug-export protein" /protein_id="NP_388149.1" /db_xref="EnsemblGenomes-Gn:BSU02670" /db_xref="EnsemblGenomes-Tr:CAB12061" /db_xref="GOA:O35018" /db_xref="InterPro:IPR004638" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12613" /db_xref="UniProtKB/Swiss-Prot:O35018" /translation="MILETTAKASQQYKVMPIMISLLLAGFIGMFSETALNIALTDLM KELNITAATVQWLTTGYLLVLGILVPVSGLLLQWFTTRQLFTVSLIFSILGTFIAALA PSFSFLLAARIVQALGTGLLLPLMFNTILVIFPPHKRGAAMGTIGLVIMFAPAIGPTF SGLVLEHLNWHWIFWISLPFLVLALVFGIAYMQNVSETTKPKIDVLSIILSTIGFGGI VFGFSNAGEGSGGWSSPTVIVSLIVGVVGLILFSIRQLTMKQPMMNLRAFKYPMFILG VIMVFICMMVILSSMLLLPMYLQGGLVLTAFASGLVLLPGGILNGFMSPVTGRLFDKY GPKWLVIPGFVIVTVVLWFFSNVTTTSTAVLIIILHTCLMIGISMIMMPAQTNGLNQL PREFYPDGTAIMNTLQQMAGAIGTAVAVSIMAAGQHDYMSTVKNPADPAVIPQALTAG VQHAFVFAMIVAIIGLIGAFFMKRVKVDH*" gene complement(288653..290092) /gene="lmrB" /locus_tag="BSU_02670" /old_locus_tag="BSU02670" downshifts complement(288660) /Source="Nicolas_upshifts" /id="D108" /incds=0 /nref=162 /ntot=245 /MaxReadThrough="0.65833" /MaxDrop="6.75228" /score="18.3484535" /energy="-14" /TU="U193" /idTUdmin="U193" /TUdmin="-23" /isTUend="FALSE" CDS complement(290132..290698) /gene="lmrA" /locus_tag="BSU_02680" /old_locus_tag="BSU02680" /function="16.8: Protect" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:12718394, 15317768, 17483215" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12718394, 15317768, 17483215; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional repressor of lmrAB and yxaGH operons (flavonoid and antibiotic resistance)" /protein_id="NP_388150.1" /db_xref="EnsemblGenomes-Gn:BSU02680" /db_xref="EnsemblGenomes-Tr:CAB12062" /db_xref="GOA:O34619" /db_xref="InterPro:IPR001647" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR036271" /db_xref="SubtiList:BG12612" /db_xref="UniProtKB/Swiss-Prot:O34619" /translation="MSYGDSREKILSAATRLFQLQGYYGTGLNQIIKESGAPKGSLYY HFPGGKEQLAIEAVNEMKEYIRQKIADCMEACTDPAEGIQAFLKELSCQFSCTEDIEG LPVGLLAAETSLKSEPLREACHEAYKEWASVYEEKLRQTGCSESRAKEASTVVNAMIE GGILLSLTAKNSTPLLHISSCIPDLLKR*" gene complement(290132..290698) /gene="lmrA" /locus_tag="BSU_02680" /old_locus_tag="BSU02680" promotor_-10 complement(290736..290755) /Source="Nicolas_upshift_promotors" /id="U193" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.986013986013986" /psig=1 /xcortree=2398 /SigmaFactorBS="cttctttttttgtcttttcatacaatgaattttTCTTGACAa ttgatgattgaatCAAGATAATAGACCAGTCACtatatttttgattgcaattcagtaa g" /listShort="lmrA, lmrB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(290750) /Source="Nicolas_upshifts" /id="U193" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.986013986013986" /psig=1 /xcortree=2398 /SigmaFactorBS="cttctttttttgtcttttcatacaatgaattttTCTTGACAa ttgatgattgaatCAAGATAATAGACCAGTCACtatatttttgattgcaattcagtaa g" /listShort="lmrA, lmrB" /GFF_Attribute="listLong" promotor_-35 complement(290770..290777) /Source="Nicolas_upshift_promotors" /id="U193" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.986013986013986" /psig=1 /xcortree=2398 /SigmaFactorBS="cttctttttttgtcttttcatacaatgaattttTCTTGACAa ttgatgattgaatCAAGATAATAGACCAGTCACtatatttttgattgcaattcagtaa g" /listShort="lmrA, lmrB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 290852..290858 /Source="Nicolas_upshift_promotors" /id="U194" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.368631368631369" /psig="0.652347652347652" /xcortree=316 /SigmaFactorBS="acaaaaaatactgagagaaaagctgactgatcTTTTGACtga atagataaaatgTACAATGATTAATCATCAtatggatgtaaggagagaaatagatgaa a" /listShort="ansZ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 290874..290891 /Source="Nicolas_upshift_promotors" /id="U194" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.368631368631369" /psig="0.652347652347652" /xcortree=316 /SigmaFactorBS="acaaaaaatactgagagaaaagctgactgatcTTTTGACtga atagataaaatgTACAATGATTAATCATCAtatggatgtaaggagagaaatagatgaa a" /listShort="ansZ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 290880 /Source="Nicolas_upshifts" /id="U194" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.368631368631369" /psig="0.652347652347652" /xcortree=316 /SigmaFactorBS="acaaaaaatactgagagaaaagctgactgatcTTTTGACtga atagataaaatgTACAATGATTAATCATCAtatggatgtaaggagagaaatagatgaa a" /listShort="ansZ" /GFF_Attribute="listLong" CDS 290915..292042 /gene="ansZ" /locus_tag="BSU_02690" /old_locus_tag="BSU02690" /EC_number="3.5.1.1" /function="16.6: Maintain" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:11914346, 17686772" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11914346, 17686772; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="L-asparaginase 2 (putative lipoprotein)" /protein_id="NP_388151.1" /db_xref="EnsemblGenomes-Gn:BSU02690" /db_xref="EnsemblGenomes-Tr:CAB12063" /db_xref="GOA:O34482" /db_xref="InterPro:IPR004550" /db_xref="InterPro:IPR006034" /db_xref="InterPro:IPR020827" /db_xref="InterPro:IPR027473" /db_xref="InterPro:IPR027474" /db_xref="InterPro:IPR027475" /db_xref="InterPro:IPR036152" /db_xref="InterPro:IPR037152" /db_xref="SubtiList:BG12755" /db_xref="UniProtKB/Swiss-Prot:O34482" /translation="MKKQRMLVLFTALLFVFTGCSHSPETKESPKEKAQTQKVSSASA SEKKDLPNIRILATGGTIAGADQSKTSTTEYKAGVVGVESLIEAVPEMKDIANVSGEQ IVNVGSTNIDNKILLKLAKRINHLLASDDVDGIVVTHGTDTLEETAYFLNLTVKSDKP VVIVGSMRPSTAISADGPSNLYNAVKVAGAPEAKGKGTLVVLNDRIASARYVTKTNTT TTDTFKSEEMGFVGTIADDIYFNNEITRKHTKDTDFSVSNLDELPQVDIIYGYQNDGS YLFDAAVKAGAKGIVFAGSGNGSLSDAAEKGADSAVKKGVTVVRSTRTGNGVVTPNQD YAEKDLLASNSLNPQKARMLLMLALTKTNDPQKIQAYFNEY*" gene 290915..292042 /gene="ansZ" /locus_tag="BSU_02690" /old_locus_tag="BSU02690" downshifts 292015 /Source="Nicolas_upshifts" /id="D109" /incds=0 /nref=3 /ntot=26 /MaxReadThrough="1.70459" /MaxDrop="4.27333" /score="23.2201078" /energy="-7.6" /TU="NA" /idTUdmin="U194" /TUdmin=0 /isTUend="TRUE" promotor_-35 292139..292145 /Source="Nicolas_upshift_promotors" /id="U195" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.455544455544456" /psig=1 /xcortree=3077 /SigmaFactorBS="tctgaatcttaaaatttctttaaaaataagccaaaattacCC TTTACttaattaatttggTAACGTAATATAATTGGAGAatttgttacaaaaaaaggag g" /listShort="estA, S100, yccF" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 292159..292178 /Source="Nicolas_upshift_promotors" /id="U195" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.455544455544456" /psig=1 /xcortree=3077 /SigmaFactorBS="tctgaatcttaaaatttctttaaaaataagccaaaattacCC TTTACttaattaatttggTAACGTAATATAATTGGAGAatttgttacaaaaaaaggag g" /listShort="estA, S100, yccF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 292159 /Source="Nicolas_upshifts" /id="U195" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.455544455544456" /psig=1 /xcortree=3077 /SigmaFactorBS="tctgaatcttaaaatttctttaaaaataagccaaaattacCC TTTACttaattaatttggTAACGTAATATAATTGGAGAatttgttacaaaaaaaggag g" /listShort="estA, S100, yccF" /GFF_Attribute="listLong" CDS 292205..292843 /gene="estA" /locus_tag="BSU_02700" /old_locus_tag="BSU02700" /EC_number="3.1.1.3" /function="16.11: Scavenge (Catabolism)" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:8396026, 15812018, 18053819, 11029590, 24827611, 28963005" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8396026, 15812018, 18053819, 11029590, 24827611, 28963005; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="secreted alkaliphilic lipase" /protein_id="NP_388152.1" /db_xref="EnsemblGenomes-Gn:BSU02700" /db_xref="EnsemblGenomes-Tr:CAB12064" /db_xref="GOA:P37957" /db_xref="InterPro:IPR002918" /db_xref="InterPro:IPR029058" /db_xref="PDB:1I6W" /db_xref="PDB:1ISP" /db_xref="PDB:1R4Z" /db_xref="PDB:1R50" /db_xref="PDB:1T2N" /db_xref="PDB:1T4M" /db_xref="PDB:2QXT" /db_xref="PDB:2QXU" /db_xref="PDB:3D2A" /db_xref="PDB:3D2B" /db_xref="PDB:3D2C" /db_xref="PDB:3QMM" /db_xref="PDB:3QZU" /db_xref="PDB:5CRI" /db_xref="PDB:5CT4" /db_xref="PDB:5CT5" /db_xref="PDB:5CT6" /db_xref="PDB:5CT8" /db_xref="PDB:5CT9" /db_xref="PDB:5CTA" /db_xref="PDB:5CUR" /db_xref="SubtiList:BG10679" /db_xref="UniProtKB/Swiss-Prot:P37957" /translation="MKFVKRRIIALVTILMLSVTSLFALQPSAKAAEHNPVVMVHGIG GASFNFAGIKSYLVSQGWSRDKLYAVDFWDKTGTNYNNGPVLSRFVQKVLDETGAKKV DIVAHSMGGANTLYYIKNLDGGNKVANVVTLGGANRLTTGKALPGTDPNQKILYTSIY SSADMIVMNYLSRLDGARNVQIHGVGHIGLLYSSQVNSLIKEGLNGGGQNTN*" gene 292205..292843 /gene="estA" /locus_tag="BSU_02700" /old_locus_tag="BSU02700" downshifts 292829 /Source="Nicolas_upshifts" /id="D110" /incds=0 /nref=15 /ntot=117 /MaxReadThrough="4.54554" /MaxDrop="4.10395" /score="23.2201078" /energy="-7.6" /TU="U195" /idTUdmin="U194" /TUdmin=814 /isTUend="FALSE" S_feature 292874..293464 /Source="Nicolas_S_feature" /locus_tag="new_292874_293464" /HighExp="M9-tran, GM 150, LoTm, MG 150, GM 120, aero, T-1.40H, M/G, S2, GM 90" /AntisenseName="yczC" /AntisenseCor="3.5651747957185502E-2" /AntisenseRegPval="-0.3" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S100" CDS complement(292881..293264) /gene="yczC" /locus_tag="BSU_02710" /old_locus_tag="BSU02710" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 15849754, 16850406; Product type m:membrane component" /codon_start=1 /transl_table=11 /product="putative integral membrane protein of unknown function" /protein_id="NP_388153.1" /db_xref="EnsemblGenomes-Gn:BSU02710" /db_xref="EnsemblGenomes-Tr:CAB12065" /db_xref="GOA:O31469" /db_xref="InterPro:IPR010432" /db_xref="SubtiList:BG12778" /db_xref="UniProtKB/Swiss-Prot:O31469" /translation="MELAGFMLRACALLLDVIIAAAVILAAGFTFGDGSAGVIIVAIL MLIVYPLLMPLTNWKGTLGKKIIGLQIVRDETYKKISFPQAIVRYLIAWVHVFSRLIY LTAAFTKKKQTVHDMAAKTIVLKAE*" gene complement(292881..293264) /gene="yczC" /locus_tag="BSU_02710" /old_locus_tag="BSU02710" downshifts complement(292905) /Source="Nicolas_upshifts" /id="D111" /incds=0 /nref=4 /ntot=94 /MaxReadThrough="0.85389" /MaxDrop="2.7858" /score="15.0330092" /energy="-12.1" /TU="NA" /idTUdmin="U196" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(293294..293313) /Source="Nicolas_upshift_promotors" /id="U196" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.507492507492508" /psig="0.835164835164835" /xcortree=3082 /SigmaFactorBS="aacttttgtgatttaaggcttatcaccTATTCCCActttagg cccttcTTTTTTACAATCATTAGGTGtttatttaacattttaaggagtgtttctattg g" /listShort="yczC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(293301) /Source="Nicolas_upshifts" /id="U196" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.507492507492508" /psig="0.835164835164835" /xcortree=3082 /SigmaFactorBS="aacttttgtgatttaaggcttatcaccTATTCCCActttagg cccttcTTTTTTACAATCATTAGGTGtttatttaacattttaaggagtgtttctattg g" /listShort="yczC" /GFF_Attribute="listLong" promotor_-35 complement(293327..293334) /Source="Nicolas_upshift_promotors" /id="U196" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.507492507492508" /psig="0.835164835164835" /xcortree=3082 /SigmaFactorBS="aacttttgtgatttaaggcttatcaccTATTCCCActttagg cccttcTTTTTTACAATCATTAGGTGtttatttaacattttaaggagtgtttctattg g" /listShort="yczC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 293436..293439 /Source="Nicolas_upshift_promotors" /id="U197" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.916083916083916" /psig="0.999000999001" /xcortree=2575 /SigmaFactorBS="acattaccaaattcttttttagcccgaaacCAAGccctcaga agttattTTTGTTAAAATAGAAAAGTTacaacagaattcggagggtttattgtgggaa a" /listShort="yccF" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 293455..293474 /Source="Nicolas_upshift_promotors" /id="U197" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.916083916083916" /psig="0.999000999001" /xcortree=2575 /SigmaFactorBS="acattaccaaattcttttttagcccgaaacCAAGccctcaga agttattTTTGTTAAAATAGAAAAGTTacaacagaattcggagggtttattgtgggaa a" /listShort="yccF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 293466 /Source="Nicolas_upshifts" /id="U197" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.916083916083916" /psig="0.999000999001" /xcortree=2575 /SigmaFactorBS="acattaccaaattcttttttagcccgaaacCAAGccctcaga agttattTTTGTTAAAATAGAAAAGTTacaacagaattcggagggtttattgtgggaa a" /listShort="yccF" /GFF_Attribute="listLong" CDS 293499..294575 /gene="yccF" /locus_tag="BSU_02720" /old_locus_tag="BSU02720" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388154.1" /db_xref="EnsemblGenomes-Gn:BSU02720" /db_xref="EnsemblGenomes-Tr:CAB12066" /db_xref="GOA:O34478" /db_xref="InterPro:IPR004027" /db_xref="InterPro:IPR007889" /db_xref="InterPro:IPR036915" /db_xref="SubtiList:BG12756" /db_xref="UniProtKB/Swiss-Prot:O34478" /translation="MGKVKRNAPCPCGSGKKYKKCCGSKVVDFPAELAAKEAKQIQED LVEYAFTVHRESISGFINQHDFLSAMDRQTKDISVFNLGIWGIFFHPLAGEKTIFEEY LQKKGDSITRPKTREIVESWQSMTPALLLLKDLKEGIIHFEDVITAKQFEVEMDASNQ DLPPVGSLILGYPIHEAEKAEFFMQFTIFPVKRTEALISKVKKYADAAVKDGKTPEDF MKQEFNNVLFALLAEKDEEPQAEKAEVSTVEWANDLEKETAAAIEEGMSGEEYPTELI PAVIDIWKTFCEKKSPVIRKPEAFAAAVEYYVNAISLNGASVSQAKLAKKYGVSASTI SSRYKEIESTLQDEADRFAQALSS*" gene 293499..294575 /gene="yccF" /locus_tag="BSU_02720" /old_locus_tag="BSU02720" downshifts 294569 /Source="Nicolas_upshifts" /id="D112" /incds=0 /nref=60 /ntot=248 /MaxReadThrough="1.55048" /MaxDrop="5.18328" /score="33.0000484" /energy="-12.9" /TU="NA" /idTUdmin="U197" /TUdmin=2 /isTUend="TRUE" CDS complement(294615..295571) /gene="natK" /locus_tag="BSU_02730" /old_locus_tag="BSU02730" /function="16.3: Control" /function="16.12: Sense" /experiment="publication(s) with functional evidences, PMID:11717295, 17322186" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11717295, 17322186; Product type rc: receptor" /codon_start=1 /transl_table=11 /product="two-component sensor histidine kinase [NatR]" /protein_id="NP_388155.1" /db_xref="EnsemblGenomes-Gn:BSU02730" /db_xref="EnsemblGenomes-Tr:CAB12067" /db_xref="GOA:P70954" /db_xref="InterPro:IPR003594" /db_xref="InterPro:IPR032834" /db_xref="InterPro:IPR036890" /db_xref="SubtiList:BG11997" /db_xref="UniProtKB/Swiss-Prot:P70954" /translation="MITLFQCLYLILFSFICYQGAAAFSHSTAASWLAAALGAAAAGL YIWNTKRVWKHCSSGLCAWIAVIQVMSVGVVLIGTDIMPVLCVIAIFAGCEGLRIGQS ALQARLSDQIDKLTQAEQHANQMLIDVRSRNHDTMKHITAIKSAQPKADTQAYIQNWA DQYSQYDRFLKGENAYVAGVLYDFLEKARASNVSVSLHMHTPLSSLPFSPADQVSLVG NILENALDSAAEAREKAEIKLETSLRSGLYVLTCENSTPGMDPKVLDTIYQSFGRSTK NGAHEGMGTYIIQKLVKGAFGRLDFTYRHPIFRLEIKIPFQK*" gene complement(294615..295571) /gene="natK" /locus_tag="BSU_02730" /old_locus_tag="BSU02730" downshifts complement(294643) /Source="Nicolas_upshifts" /id="D113" /incds=0 /nref=1 /ntot=129 /MaxReadThrough="0.86926" /MaxDrop="2.67125" /score="14.02819" /energy="-12.9" /TU="NA" /idTUdmin="U198" /TUdmin=176 /isTUend="FALSE" CDS complement(295584..296285) /gene="natR" /locus_tag="BSU_02740" /old_locus_tag="BSU02740" /function="16.8: Protect" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11717295, 17322186" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11717295, 17322186; Product type r: regulator" /codon_start=1 /transl_table=11 /product="two-component response regulator [NatK]" /protein_id="NP_388156.1" /db_xref="EnsemblGenomes-Gn:BSU02740" /db_xref="EnsemblGenomes-Tr:CAB12068" /db_xref="GOA:P70955" /db_xref="InterPro:IPR001789" /db_xref="InterPro:IPR007492" /db_xref="InterPro:IPR011006" /db_xref="SubtiList:BG11998" /db_xref="UniProtKB/Swiss-Prot:P70955" /translation="MVKVGLVDDYRVDLEKLEAIVSRMQDVEIVFSTDSAKEAYRRVK NGDIDLLLADIEMPHMSGYELADLIKSHSLDVDVIFVTGHGGYAVHAFDLNVHDYIMK PYYADRLAASFDRYLKKKTETSLNGRILIKQKSEMHVLQKKDIIFAERTGRSTTIVTT AEEVQTYQTLNDIKGDLPEKDFLRSHRSFIINIHYIKHFSAYTKHSFTVSFEGTSKKA MITKQQLDYFQNYYF*" gene complement(295584..296285) /gene="natR" /locus_tag="BSU_02740" /old_locus_tag="BSU02740" promotor_-10 complement(296309..296328) /Source="Nicolas_upshift_promotors" /id="U198" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.397602397602398" /psig="0.992007992007992" /xcortree=2173 /SigmaFactorBS="attagttggataaagttgtcgcgaagagTTCTttttatgtcg tgaaaTGGGATAGAATAAAGATGATtctatgtaactaggggaatgataatggtaaaag t" /listShort="natR, natK" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(296315) /Source="Nicolas_upshifts" /id="U198" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.397602397602398" /psig="0.992007992007992" /xcortree=2173 /SigmaFactorBS="attagttggataaagttgtcgcgaagagTTCTttttatgtcg tgaaaTGGGATAGAATAAAGATGATtctatgtaactaggggaatgataatggtaaaag t" /listShort="natR, natK" /GFF_Attribute="listLong" promotor_-35 complement(296344..296347) /Source="Nicolas_upshift_promotors" /id="U198" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.397602397602398" /psig="0.992007992007992" /xcortree=2173 /SigmaFactorBS="attagttggataaagttgtcgcgaagagTTCTttttatgtcg tgaaaTGGGATAGAATAAAGATGATtctatgtaactaggggaatgataatggtaaaag t" /listShort="natR, natK" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 296365..296368 /Source="Nicolas_upshift_promotors" /id="U199" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.356643356643357" /psig="0.844155844155844" /xcortree=1785 /SigmaFactorBS="cgacataaaaagaactcttcgcgacaactttATCCaactaat ccagctttTCGTATATAGTCATTACTAGaaataaagataagggagattgtgacatgat t" /listShort="natA, natB, yccK" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 296384..296403 /Source="Nicolas_upshift_promotors" /id="U199" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.356643356643357" /psig="0.844155844155844" /xcortree=1785 /SigmaFactorBS="cgacataaaaagaactcttcgcgacaactttATCCaactaat ccagctttTCGTATATAGTCATTACTAGaaataaagataagggagattgtgacatgat t" /listShort="natA, natB, yccK" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 296394 /Source="Nicolas_upshifts" /id="U199" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.356643356643357" /psig="0.844155844155844" /xcortree=1785 /SigmaFactorBS="cgacataaaaagaactcttcgcgacaactttATCCaactaat ccagctttTCGTATATAGTCATTACTAGaaataaagataagggagattgtgacatgat t" /listShort="natA, natB, yccK" /GFF_Attribute="listLong" CDS 296429..297169 /gene="natA" /locus_tag="BSU_02750" /old_locus_tag="BSU02750" /function="16.1: Circulate" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:10356997, 17322186" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10356997, 17322186; Product type t: transporter" /codon_start=1 /transl_table=11 /product="Na+ ABC efflux transporter (ATP-binding protein)" /protein_id="NP_388157.1" /db_xref="EnsemblGenomes-Gn:BSU02750" /db_xref="EnsemblGenomes-Tr:CAB12069" /db_xref="GOA:P46903" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG11338" /db_xref="UniProtKB/Swiss-Prot:P46903" /translation="MITLTDCSRRFQDKKKVVKAVRDVSLTIEKGEVVGILGENGAGK TTMLRMIASLLEPSQGVITVDGFDTVKQPAEVKQRIGVLFGGETGLYDRMTAKENLQY FGRLYGLNRHEIKARIEDLSKRFGMRDYMNRRVGGFSKGMRQKVAIARALIHDPDIIL FDEPTTGLDITSSNIFREFIQQLKREQKTILFSSHIMEEVQALCDSVIMIHSGEVIYR GALESLYESERSEDLNYIFMSKLVRGIS*" gene 296429..297169 /gene="natA" /locus_tag="BSU_02750" /old_locus_tag="BSU02750" CDS 297170..298330 /gene="natB" /locus_tag="BSU_02760" /old_locus_tag="BSU02760" /function="16.8: Protect" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:10356997, 15849754, 16850406, 17322186" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10356997, 15849754, 16850406, 17322186; Product type t: transporter" /codon_start=1 /transl_table=11 /product="Na+ ABC efflux transporter (permease)" /protein_id="NP_388158.1" /db_xref="EnsemblGenomes-Gn:BSU02760" /db_xref="EnsemblGenomes-Tr:CAB12070" /db_xref="GOA:P46904" /db_xref="InterPro:IPR032688" /db_xref="SubtiList:BG11339" /db_xref="UniProtKB/Swiss-Prot:P46904" /translation="MLSHIYKKEMIDALRDRKTILLTILVPMIMMLGLVFFYESMLSD KGEQYTLAVGHSLPPALESKLNEIDEISVKTFAKPEEAVDEGKADAYLNVPKEFDSYV NSMTPFKVDVYGNSIDQGSSNAMQLVQSALDQYKNEIVQQRLTNKHIDQSVIQPFTIQ QKEADEEKGTSAIMLSAILPMLILTSIVSGAMPIALDIMAGEKDRKSIEALLLTPVSR NKVLVGKWLAVSTFGVASGVFALVFLILSTVLFTENLKTAFQLGDHMWSVIGASALII VLSALLISAMELFISIMSSSVKEAQSYMSLVVFLPVFPMFFIFSKAPNQFDLSYFLIP FLNLHALFKQLLFGMVDPATILSTSGTIAVLIAIFFLLARACFLKDKWVLPK*" gene 297170..298330 /gene="natB" /locus_tag="BSU_02760" /old_locus_tag="BSU02760" promotor_-35 298381..298389 /Source="Nicolas_upshift_promotors" /id="U200" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=430 /SigmaFactorBS="ggagaaatacactttctcctttttgtatatcctgaaaaaaGA AGGAAAAtagaaaaaggaTATCTAATACAAAAAGTGAccctgcactatttttcatcaa a" /listShort="yccK" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 298401..298419 /Source="Nicolas_upshift_promotors" /id="U200" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=430 /SigmaFactorBS="ggagaaatacactttctcctttttgtatatcctgaaaaaaGA AGGAAAAtagaaaaaggaTATCTAATACAAAAAGTGAccctgcactatttttcatcaa a" /listShort="yccK" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 298401 /Source="Nicolas_upshifts" /id="U200" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=430 /SigmaFactorBS="ggagaaatacactttctcctttttgtatatcctgaaaaaaGA AGGAAAAtagaaaaaggaTATCTAATACAAAAAGTGAccctgcactatttttcatcaa a" /listShort="yccK" /GFF_Attribute="listLong" CDS 298466..299398 /gene="yccK" /locus_tag="BSU_02770" /old_locus_tag="BSU02770" /EC_number="1.-.-.-" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 17322186, 24330391; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative ion channel associated aldo-keto reductase" /protein_id="NP_388159.1" /db_xref="EnsemblGenomes-Gn:BSU02770" /db_xref="EnsemblGenomes-Tr:CAB12071" /db_xref="GOA:P46905" /db_xref="InterPro:IPR020471" /db_xref="InterPro:IPR023210" /db_xref="InterPro:IPR036812" /db_xref="SubtiList:BG11340" /db_xref="UniProtKB/Swiss-Prot:P46905" /translation="MDQTRTLGKTKLKVKRIGFGANAVGGHNLFPNLNDETGKDLVRT ALDGGVNFIDTAFIYGLGRSEELIGEVVQERGVRNELIIATKGAHKEVDGSIELDNSR EFLRSEVEKSLKRLKTDYIDLYYVHFPDGKTPLAEVAGTLKELKDEGKIKAIGASNLD YQQLQDFNADGYLEVFQAEYSLIQRDAEKELLPYCEKQGISFIPYFPLASGLLTGKFT QDTVFDDFRKDKPQFQGETFIHNLKKVDKLKAVAEEKQADTAHVALAWLLTRPAIDAI IPGAKRPEQLQDNLKTLNIELTEDEVNFISDIFK*" gene 298466..299398 /gene="yccK" /locus_tag="BSU_02770" /old_locus_tag="BSU02770" CDS complement(299438..300502) /gene="ycdA" /locus_tag="BSU_02780" /old_locus_tag="BSU02780" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1b: Function from experimental evidences in the studied species; PubMedId: 22496484; Product type lp: lipoprotein" /codon_start=1 /transl_table=11 /product="lipoprotein involved in swarming behaviour" /protein_id="NP_388160.1" /db_xref="EnsemblGenomes-Gn:BSU02780" /db_xref="EnsemblGenomes-Tr:CAB12072" /db_xref="GOA:O34538" /db_xref="InterPro:IPR029050" /db_xref="InterPro:IPR029051" /db_xref="InterPro:IPR031343" /db_xref="PDB:4R4G" /db_xref="SubtiList:BG12757" /db_xref="UniProtKB/Swiss-Prot:O34538" /translation="MFQKKTYAVFLILLLMMFTAACSGSKTSAEKKESETEKSSDIAQ VKIKDVSYTLPSKYDKSTSDDQLVLKVNVAVKNTGKDPLNVDSMDFTLYQGDTKMSDT DPEDYSEKLQGSTINADKSVEGNLFFVVDKGKQYELNYTPESYGDKKPKSVTFKIDGK DKKILATADKLQDSAKALSAYVDVLLFGKDNADFEKITGANKNEIVNDFNESAKDGYL SASGLSSTYADSKALDNIVNGIKEGLSKNSSIQAKTTSISKDEAIVEATVKPVDASSL SDRIEDKVKDYYSKNSSASYEEAVKYALQVYPEEFKKLGPASSEKTVEVKMKKNDIDQ WQLDMDDYRAAELVEAFIKE*" gene complement(299438..300502) /gene="ycdA" /locus_tag="BSU_02780" /old_locus_tag="BSU02780" downshifts complement(299439) /Source="Nicolas_upshifts" /id="D114" /incds=0 /nref=198 /ntot=222 /MaxReadThrough="0.57029" /MaxDrop="8.85093" /score="27.0612397" /energy="-13.7" /TU="NA" /idTUdmin="U201" /TUdmin=0 /isTUend="TRUE" S_feature complement(300503..300693) /Source="Nicolas_S_feature" /locus_tag="new_300503_300693_c" /HighExp="S5, S4, MG 45, MG 15, MG-0.2, MG 25, MG-0.1, MG 10, S3, MG t5" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.997" /TUlongSig="NA" /TUlongPSig="NA" /label="S101" CDS complement(300525..300656) /locus_tag="BSU_02785" /old_locus_tag="BSU02785" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_009513941.1" /translation="MTKEGGVSRKSGENREKRTDFFGYMMLIHSKRSISQRQKTPLS* " gene complement(300525..300656) /locus_tag="BSU_02785" /old_locus_tag="BSU02785" promotor_-10 complement(300678..300697) /Source="Nicolas_upshift_promotors" /id="U201" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.954045954045954" /psig="0.997002997002997" /xcortree=2915 /SigmaFactorBS="ttaccagaacatttttcaccaaaaataggatgatgaaccTAT TCAATataaaagctaataaTCTTAAAATTAATTCCGTTGtaactttttataggtccat t" /listShort="S101, ycdA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(300698) /Source="Nicolas_upshifts" /id="U201" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.954045954045954" /psig="0.997002997002997" /xcortree=2915 /SigmaFactorBS="ttaccagaacatttttcaccaaaaataggatgatgaaccTAT TCAATataaaagctaataaTCTTAAAATTAATTCCGTTGtaactttttataggtccat t" /listShort="S101, ycdA" /GFF_Attribute="listLong" promotor_-35 complement(300712..300719) /Source="Nicolas_upshift_promotors" /id="U201" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.954045954045954" /psig="0.997002997002997" /xcortree=2915 /SigmaFactorBS="ttaccagaacatttttcaccaaaaataggatgatgaaccTAT TCAATataaaagctaataaTCTTAAAATTAATTCCGTTGtaactttttataggtccat t" /listShort="S101, ycdA" /GFF_Attribute="listLong" /label="promotor_-35" CDS 300830..302248 /gene="ycdB" /locus_tag="BSU_02790" /old_locus_tag="BSU02790" /function="16.11: Scavenge (Catabolism)" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388161.1" /db_xref="EnsemblGenomes-Gn:BSU02790" /db_xref="EnsemblGenomes-Tr:CAB12073" /db_xref="InterPro:IPR032599" /db_xref="SubtiList:BG12758" /db_xref="UniProtKB/Swiss-Prot:O34621" /translation="MKGAAFVKKEGLKQKALEIGRVPTHLKLEIEDYGGDDKRAHFCW ADPQDENTGIIVELGPDGELESLSRDIEPESGERLSEEKLEDIMRQFVETHHPGALSA FVREENDRAYGDKVRFSYVQMEAGLPLPMSGFMADVSLSGEIVYFRYYGEAGSIIKPK RVADVEEALAFIKKDVEFDLLFEVLHRSVYKNGDDQPHLVYEPEGRAITVPADLVQEE QAVDDDDDYREPESFPLPLFEGIREKADPDSMIGIENGFVKEREADLGDGRIGIVWRN PDDPVYQPADKSMDSWFKGRTHQVLKTIYNKETGKLEGVMSFMEKKGPLTVTLAECEK IALRFLFALFPNADQYFRIRYDEKDEEENAVAGFTFEAHCHGVPLRFGQIRICVSRQT GYITVYMGPDIDPNKLATIDPVPAISVEQAKSIFWQHFKVELGWEREYGDDEEHSYRL VYKPVYPHFIDAHTGEPVFSIW*" gene 300830..302248 /gene="ycdB" /locus_tag="BSU_02790" /old_locus_tag="BSU02790" promotor_-10 complement(302291..302309) /Source="Nicolas_upshift_promotors" /id="U202" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.685314685314685" /psig="0.96903096903097" /xcortree=2432 /SigmaFactorBS="agtgaagaaaggtccttttctattattgtCATTGTTTtttga gattctttCTGTTACTTTCATCACATActctcttctatatctgaggcaattgcgtgac t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(302299) /Source="Nicolas_upshifts" /id="U202" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.685314685314685" /psig="0.96903096903097" /xcortree=2432 /SigmaFactorBS="agtgaagaaaggtccttttctattattgtCATTGTTTtttga gattctttCTGTTACTTTCATCACATActctcttctatatctgaggcaattgcgtgac t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(302323..302330) /Source="Nicolas_upshift_promotors" /id="U202" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.685314685314685" /psig="0.96903096903097" /xcortree=2432 /SigmaFactorBS="agtgaagaaaggtccttttctattattgtCATTGTTTtttga gattctttCTGTTACTTTCATCACATActctcttctatatctgaggcaattgcgtgac t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 302355..302434 /Source="Nicolas_S_feature" /locus_tag="new_302355_302434" /HighExp="ferm, M40t45, M0t45, Lbstat, S0, nit, LBGtran, Lbtran, G135, LBGstat" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.868" /TUlongSig="NA" /TUlongPSig="NA" /label="S102" upshifts 302355 /Source="Nicolas_upshifts" /id="U203" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.48051948051948" /psig="0.868131868131868" /xcortree=1586 /SigmaFactorBS="tgatgaaagtaacagaaagaatctcaaaaaacaatgacaata atagaaaaggacctttcttcACTTTAAatgaagaaaggtctTTTTATATAATAAACAG G" /listShort="S102, ycdC, S103" /listLong="rapJ" promotor_-35 302357..302363 /Source="Nicolas_upshift_promotors" /id="U203" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.48051948051948" /psig="0.868131868131868" /xcortree=1586 /SigmaFactorBS="tgatgaaagtaacagaaagaatctcaaaaaacaatgacaata atagaaaaggacctttcttcACTTTAAatgaagaaaggtctTTTTATATAATAAACAG G" /listShort="S102, ycdC, S103" /listLong="rapJ" /label="promotor_-35" promotor_-10 302378..302395 /Source="Nicolas_upshift_promotors" /id="U203" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.48051948051948" /psig="0.868131868131868" /xcortree=1586 /SigmaFactorBS="tgatgaaagtaacagaaagaatctcaaaaaacaatgacaata atagaaaaggacctttcttcACTTTAAatgaagaaaggtctTTTTATATAATAAACAG G" /listShort="S102, ycdC, S103" /listLong="rapJ" /label="promotor_-10" CDS 302435..303796 /gene="ycdC" /locus_tag="BSU_02800" /old_locus_tag="BSU02800" /function="16.11: Scavenge (Catabolism)" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388162.1" /db_xref="EnsemblGenomes-Gn:BSU02800" /db_xref="EnsemblGenomes-Tr:CAB12074" /db_xref="InterPro:IPR032599" /db_xref="SubtiList:BG12759" /db_xref="UniProtKB/Swiss-Prot:O34772" /translation="MVNKQLKKKAQEIGNVPTHYELEIEDYDQKQKKYGQAYFIWKDP KDPEKHITVELRNDGALLTFSTTVHSETDKKLPDAELKLTALQFAAANHPGTFMNFHF QGKEERGQHIRFVYTKMELGLPIPNSGFLIDMTRSGQIVHFLYYGEGHKAEVPTEFVA KEKVVSHYLNTMSFELMYDVIDGEQEPRLVYEPILPGYSYPADVDEIVPDQHIADERI ENTAPLPPLQNKEEVDIFALLGFTSDMQKVSERDFGEQIGSTWRRGAAPERKDLSIGS YFETRNKNTIKMKTDKRTGKLKAALSFMDWRNNLQCSTEECQEIALQFLYALYPRAAE FFRVNPVRIDERGRVRNHFSVWYKGVPLRFGAARIIVNPETGLIDAFMAPDIEPEQLE AINHRPDVSAEEAKEAFLAAFDVKLEWQPDFTAGSDQHCKLVYKPVYPSYIDAHIRKK KRL*" gene 302435..303796 /gene="ycdC" /locus_tag="BSU_02800" /old_locus_tag="BSU02800" S_feature 303797..304377 /Source="Nicolas_S_feature" /locus_tag="new_303797_304377" /HighExp="ferm, M0t45, G135, G180, H2O2, M40t45, G150, Paraq, S0, nit" /AntisenseName="cwlK" /AntisenseCor="0.27553388443794402" /AntisenseRegPval="-5.3" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.868" /TUlongSig="NA" /TUlongPSig="NA" /label="S103" CDS complement(303804..304307) /gene="cwlK" /locus_tag="BSU_02810" /old_locus_tag="BSU02810" /EC_number="3.4.-.-" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:17588176" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 17588176; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="murein L,D:-endopeptidase" /protein_id="NP_388163.1" /db_xref="EnsemblGenomes-Gn:BSU02810" /db_xref="EnsemblGenomes-Tr:CAB12075" /db_xref="GOA:O34360" /db_xref="InterPro:IPR009045" /db_xref="SubtiList:BG12760" /db_xref="UniProtKB/Swiss-Prot:O34360" /translation="MNLPAKTFVILCILFLLDLCFSYIRHEWHSQNALQDMPVPSDLH PIVKQNADALKAAAANKGIDVVITEGFRSFKEQDELYKQGRTKKGNIVTYARGGESYH NYGLAIDFALQKKDGSIIWDMEYDGNQNGKSDWLEVVEIAKTLGFEWGGDWKRFKDYP HLEMIPN*" gene complement(303804..304307) /gene="cwlK" /locus_tag="BSU_02810" /old_locus_tag="BSU02810" S_feature complement(304308..304389) /Source="Nicolas_S_feature" /locus_tag="new_304308_304389_c" /HighExp="Cold, T0.30H, LBGstat, C30, T-0.40H, T1.0H, T1.30H, H2O2, T0.0H, T-1.10H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.946" /TUlongSig="NA" /TUlongPSig="NA" /label="S104" upshifts 304379 /Source="Nicolas_upshifts" /id="U204" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.992007992007992" /psig=1 /xcortree=2275 /SigmaFactorBS="tttctcaagatgtgctgaatgttaacgcttttaagtgattga ctctctctaaaagcgaacagcTATGATAAAATATAACATAAatagtagcaggaggaag g" /listShort="rapJ" /listLong="ycdF, ycdG, adcA, adcC, adcB" promotor_-10 complement(304381..304400) /Source="Nicolas_upshift_promotors" /id="U205" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.576423576423576" /psig="0.946053946053946" /xcortree=2433 /SigmaFactorBS="tgatggaatctttgctctcatcggtctgcctccttccTcctg ctactattTATGTTATATTTTATCATAGctgttcgcttttagagagagtcaatcactt a" /listShort="S104, cwlK" /GFF_Attribute="listLong" /label="promotor_-10" misc_feature 304382..304401 /Source="Nicolas_upshift_promotors" /id="U204" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.992007992007992" /psig=1 /xcortree=2275 /SigmaFactorBS="tttctcaagatgtgctgaatgttaacgcttttaagtgattga ctctctctaaaagcgaacagcTATGATAAAATATAACATAAatagtagcaggaggaag g" /listShort="rapJ" /listLong="ycdF, ycdG, adcA, adcC, adcB" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(304390) /Source="Nicolas_upshifts" /id="U205" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.576423576423576" /psig="0.946053946053946" /xcortree=2433 /SigmaFactorBS="tgatggaatctttgctctcatcggtctgcctccttccTcctg ctactattTATGTTATATTTTATCATAGctgttcgcttttagagagagtcaatcactt a" /listShort="S104, cwlK" /GFF_Attribute="listLong" promotor_-35 complement(304413) /Source="Nicolas_upshift_promotors" /id="U205" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.576423576423576" /psig="0.946053946053946" /xcortree=2433 /SigmaFactorBS="tgatggaatctttgctctcatcggtctgcctccttccTcctg ctactattTATGTTATATTTTATCATAGctgttcgcttttagagagagtcaatcactt a" /listShort="S104, cwlK" /GFF_Attribute="listLong" /label="promotor_-35" CDS 304430..305551 /gene="rapJ" /locus_tag="BSU_02820" /old_locus_tag="BSU02820" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:16816200" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16816200; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="response regulator aspartate phosphatase" /protein_id="NP_388164.1" /db_xref="EnsemblGenomes-Gn:BSU02820" /db_xref="EnsemblGenomes-Tr:CAB12076" /db_xref="GOA:O34327" /db_xref="InterPro:IPR011990" /db_xref="InterPro:IPR013026" /db_xref="InterPro:IPR019734" /db_xref="PDB:4GYO" /db_xref="SubtiList:BG12663" /db_xref="UniProtKB/Swiss-Prot:O34327" /translation="MRAKIPSEEVAVKLNEWYKLIRAFEADQAEALKQEIEYDLEDME ENQDLLLYFSLMEFRHRIMLDKLMPVKDSDTKPPFSDMLNEIESNQQKLTGLLEYYFY YFRGMYEFKQKNFILAIDHYKHAEEKLEYVEDEIEKAEFLFKVAEVYYHIKQTYFSMN YASQALDIYTKYELYGRRRVQCEFIIAGNLTDVYHHEKALTHLCSALEHARQLEEAYM IAAAYYNVGHCKYSLGDYKEAEGYFKTAAAIFEEHNFQQAVQAVFSLTHIYCKEGKYD KAVEAYDRGIKSAAEWEDDMYLTKFRLIHELYLGSGDLNVLTECFDLLESRQLLADAE DLLHDTAERFNQLEHYESAAFFYRRLMNIKKKLAEQRFQ*" gene 304430..305551 /gene="rapJ" /locus_tag="BSU_02820" /old_locus_tag="BSU02820" downshifts 305545 /Source="Nicolas_upshifts" /id="D115" /incds=0 /nref=88 /ntot=228 /MaxReadThrough="3.8438" /MaxDrop="5.06867" /score="32.2653577" /energy="-13.2" /TU="U204" /idTUdmin="U204" /TUdmin="-66" /isTUend="FALSE" promotor_-35 305592..305598 /Source="Nicolas_upshift_promotors" /id="U206" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=187 /SigmaFactorBS="tggcagagaactacaggttctctgctttttttgtgcTGTTTT CaactcggaaaaacaGGGTATTTTCCACTGCATAgtgagaaacagaggaggatatcaa g" /listShort="ycdF, ycdG, adcA, adcC, adcB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 305613..305631 /Source="Nicolas_upshift_promotors" /id="U206" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=187 /SigmaFactorBS="tggcagagaactacaggttctctgctttttttgtgcTGTTTT CaactcggaaaaacaGGGTATTTTCCACTGCATAgtgagaaacagaggaggatatcaa g" /listShort="ycdF, ycdG, adcA, adcC, adcB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 305616 /Source="Nicolas_upshifts" /id="U206" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=187 /SigmaFactorBS="tggcagagaactacaggttctctgctttttttgtgcTGTTTT CaactcggaaaaacaGGGTATTTTCCACTGCATAgtgagaaacagaggaggatatcaa g" /listShort="ycdF, ycdG, adcA, adcC, adcB" /GFF_Attribute="listLong" CDS 305658..306434 /gene="ycdF" /locus_tag="BSU_02830" /old_locus_tag="BSU02830" /EC_number="1.1.1.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10220166, 11948145, 15805528; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative oxidoreductase" /protein_id="NP_388165.1" /db_xref="EnsemblGenomes-Gn:BSU02830" /db_xref="EnsemblGenomes-Tr:CAB12077" /db_xref="GOA:P80869" /db_xref="InterPro:IPR002347" /db_xref="InterPro:IPR020904" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG12761" /db_xref="UniProtKB/Swiss-Prot:P80869" /translation="MYKDLTGKTAIVTGSSKGIGKAIAERFGKEKMNVVVNYHSDPSG ADETLEIIKQNGGKAVSVEADVSKEEGIQALLDTALEHFGTLDVMVNNSGFNGVEAMP HEMSLEDWQRVIDVNVTGTFLGAKAALNHMMKNNIKGNVLNISSVHQQIPRPVNVQYS TSKGGIKMMTETLALNYADKGIRVNAIAPGTIATESNVDTKKEESRQKQLKKIPMKAF GKPEEVAAAAAWLVSEEASYVTGATLFVDGGMTLYPSQLE*" gene 305658..306434 /gene="ycdF" /locus_tag="BSU_02830" /old_locus_tag="BSU02830" downshifts complement(305665) /Source="Nicolas_upshifts" /id="D116" /incds=0 /nref=10 /ntot=23 /MaxReadThrough="0.31912" /MaxDrop="4.8095" /score="0.506500496" /energy="-5.8" /TU="NA" /idTUdmin="U205" /TUdmin="-1914" /isTUend="FALSE" CDS 306459..308144 /gene="ycdG" /locus_tag="BSU_02840" /old_locus_tag="BSU02840" /EC_number="3.2.1.10" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 11544224; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative oligo-carbohydrate hydrolase" /protein_id="NP_388166.1" /db_xref="EnsemblGenomes-Gn:BSU02840" /db_xref="EnsemblGenomes-Tr:CAB12078" /db_xref="GOA:O34364" /db_xref="InterPro:IPR006047" /db_xref="InterPro:IPR017853" /db_xref="SubtiList:BG12762" /db_xref="UniProtKB/Swiss-Prot:O34364" /translation="MKTDWWKDAVVYQIYPRSFQDSNGDGIGDLRGIISRLDYIKELG ADVIWICPIYPSPNVDYGYDVTNHKAIMDSYGTMDDFHELLDQVHQRGLKLVMDFVLN HTSVEHPWFKEAELDKNSKYRSYYYWRPGTKNGPPTDWLSNYGCPVWQYEEHTGEYYL HMNAVKQADLNWENPEVRQAVYDMMKFWLDKGVDGLRIDQLHLISKKEYLPSYEDYIN QQAEPKPFQPNGERIHDYLKEITDEVFSHYDVMSVGEVGSVTPEEGLKYTGTDKHELN MIFHFQHMELDQQPGKEHWDLKPLELSDLKSVLTKWQKKLEHQGWNTLFWCNHDQPRI VSRFGDDGEYRKASAKMLAAVIYFMKGTPYIYQGEEIGMTNAPFTRIEDYKDIQTINM YHKRVFEKGYDPNDVMRSILAKSRDHARTPMQWNSGKNAGFTDGTPWLKVNPNFTAIN VEEAQGDPDSVLNYYKKLISLRKQYADLMKGSFDLLLPDDPQLFVYMRENSKQQLLSV NNFSKEQAVFQWPKNCGKAQASLLLSNYNNDDLDDEMVFRPYESRVYLLDKTN*" gene 306459..308144 /gene="ycdG" /locus_tag="BSU_02840" /old_locus_tag="BSU02840" promotor_no_box 307399..307499 /Source="Nicolas_upshift_promotors" /id="U207" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.487512487512487" /psig="0.044955044955045" /xcortree=117 /SigmaFactorBS="agaagcttgaacatcaaggctggaatacattgttttggtgca accacgaccagccccggattgtgtccagattcggagacgatggggaataccgcaaagc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts 307459 /Source="Nicolas_upshifts" /id="U207" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.487512487512487" /psig="0.044955044955045" /xcortree=117 /SigmaFactorBS="agaagcttgaacatcaaggctggaatacattgttttggtgca accacgaccagccccggattgtgtccagattcggagacgatggggaataccgcaaagc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" downshifts 307525 /Source="Nicolas_upshifts" /id="D117" /incds=1 /nref=1 /ntot=1 /MaxReadThrough="7.77365" /MaxDrop="2.18547" /score="23.9074448" /energy="-10.2" /TU="U206" /idTUdmin="U204" /TUdmin=1914 /isTUend="FALSE" downshifts 308141 /Source="Nicolas_upshifts" /id="D118" /incds=0 /nref=13 /ntot=56 /MaxReadThrough="5.8252" /MaxDrop="5.18702" /score="23.9074448" /energy="-10.2" /TU="U206" /idTUdmin="U204" /TUdmin=2530 /isTUend="FALSE" promotor_-35 308235..308242 /Source="Nicolas_upshift_promotors" /id="U208" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.401598401598402" /psig="0.999000999001" /xcortree=669 /SigmaFactorBS="ggcgggaagaataaatgaaaatgaaatttatTCTTGCAAaac gtaatgacttcgGTTTATTATGATATAGGATTacaaaatcgttatcattttgatttaa a" /listShort="adcA, adcC, adcB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 308258..308277 /Source="Nicolas_upshift_promotors" /id="U208" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.401598401598402" /psig="0.999000999001" /xcortree=669 /SigmaFactorBS="ggcgggaagaataaatgaaaatgaaatttatTCTTGCAAaac gtaatgacttcgGTTTATTATGATATAGGATTacaaaatcgttatcattttgatttaa a" /listShort="adcA, adcC, adcB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 308264 /Source="Nicolas_upshifts" /id="U208" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.401598401598402" /psig="0.999000999001" /xcortree=669 /SigmaFactorBS="ggcgggaagaataaatgaaaatgaaatttatTCTTGCAAaac gtaatgacttcgGTTTATTATGATATAGGATTacaaaatcgttatcattttgatttaa a" /listShort="adcA, adcC, adcB" /GFF_Attribute="listLong" CDS 308332..309291 /gene="znuA" /locus_tag="BSU_02850" /old_locus_tag="BSU02850" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 9379902, 12426338, 14730579, 21813502; Product type lp: lipoprotein" /codon_start=1 /transl_table=11 /product="Zn(II)-binding lipoprotein" /protein_id="NP_388167.1" /db_xref="EnsemblGenomes-Gn:BSU02850" /db_xref="EnsemblGenomes-Tr:CAB12079" /db_xref="GOA:O34966" /db_xref="InterPro:IPR006127" /db_xref="InterPro:IPR006128" /db_xref="InterPro:IPR006129" /db_xref="PDB:2O1E" /db_xref="SubtiList:BG12763" /db_xref="UniProtKB/Swiss-Prot:O34966" /translation="MFKKWSGLFVIAACFLLVAACGNSSTKGSADSKGDKLHVVTTFY PMYEFTKQIVKDKGDVDLLIPSSVEPHDWEPTPKDIANIQDADLFVYNSEYMETWVPS AEKSMGQGHAVFVNASKGIDLMEGSEEEHEEHDHGEHEHSHAMDPHVWLSPVLAQKEV KNITAQIVKQDPDNKEYYEKNSKEYIAKLQDLDKLYRTTAKKAEKKEFITQHTAFGYL AKEYGLKQVPIAGLSPDQEPSAASLAKLKTYAKEHNVKVIYFEEIASSKVADTLASEI GAKTEVLNTLEGLSKEEQDKGLGYIDIMKQNLDALKDSLLVKS*" gene 308332..309291 /gene="znuA" /locus_tag="BSU_02850" /old_locus_tag="BSU02850" promotor_-35 308887..308893 /Source="Nicolas_upshift_promotors" /id="U209" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.461538461538462" /psig="0.998001998001998" /xcortree=670 /SigmaFactorBS="aacaaagaatactatgagaaaaatagtaaagaatatATTGCA AaactgcaggatctTGATAAACTATATCGTACAAccgcaaaaaaagcggagaaaaaag a" /listShort="adcC, adcB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 308907..308926 /Source="Nicolas_upshift_promotors" /id="U209" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.461538461538462" /psig="0.998001998001998" /xcortree=670 /SigmaFactorBS="aacaaagaatactatgagaaaaatagtaaagaatatATTGCA AaactgcaggatctTGATAAACTATATCGTACAAccgcaaaaaaagcggagaaaaaag a" /listShort="adcC, adcB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 308911 /Source="Nicolas_upshifts" /id="U209" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.461538461538462" /psig="0.998001998001998" /xcortree=670 /SigmaFactorBS="aacaaagaatactatgagaaaaatagtaaagaatatATTGCA AaactgcaggatctTGATAAACTATATCGTACAAccgcaaaaaaagcggagaaaaaag a" /listShort="adcC, adcB" /GFF_Attribute="listLong" downshifts 309263 /Source="Nicolas_upshifts" /id="D119" /incds=0 /nref=140 /ntot=250 /MaxReadThrough="6.07181" /MaxDrop="5.15011" /score="8.99106569" /energy="-15.9" /TU="U206,U208,U209" /idTUdmin="U206" /TUdmin="-1562" /isTUend="FALSE" CDS 309347..310042 /gene="znuC" /locus_tag="BSU_02860" /old_locus_tag="BSU02860" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:9379902, 9811636, 21813502" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9379902, 9811636, 21813502; Product type t: transporter" /codon_start=1 /transl_table=11 /product="Zn(II) transporter (ATP-binding protein)" /protein_id="NP_388168.1" /db_xref="EnsemblGenomes-Gn:BSU02860" /db_xref="EnsemblGenomes-Tr:CAB12080" /db_xref="GOA:O34946" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG12764" /db_xref="UniProtKB/Swiss-Prot:O34946" /translation="MNLVSLKDIVFGYSHTPVLDKVSLDIESGEFVGITGPNGASKST LIKVMLGMLKPWEGTVTISKRNTEGKRLTIGYVPQQISSFNAGFPSTVLELVQSGRYT KGKWFKRLNEEDHLEVEKALKMVEMWDLRHRKIGDLSGGQKQKICIARMLASNPDLLM LDEPTTAVDYDSRKGFYEFMHHLVKNHNRTVVMVTHEQNEVQQFLDKVIRLERGEKGG WKCLTWNSCDELF*" gene 309347..310042 /gene="znuC" /locus_tag="BSU_02860" /old_locus_tag="BSU02860" CDS 310000..310842 /gene="znuB" /locus_tag="BSU_02870" /old_locus_tag="BSU02870" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15849754, 16850406, 9379902, 9811636, 21813502" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15849754, 16850406, 9379902, 9811636, 21813502; Product type t: transporter" /codon_start=1 /transl_table=11 /product="high affinity Zn(II) ABC transporter (permease)" /protein_id="NP_388169.1" /db_xref="EnsemblGenomes-Gn:BSU02870" /db_xref="EnsemblGenomes-Tr:CAB12081" /db_xref="GOA:O34610" /db_xref="InterPro:IPR001626" /db_xref="InterPro:IPR035568" /db_xref="SubtiList:BG12765" /db_xref="UniProtKB/Swiss-Prot:O34610" /translation="MEMFDLEFMRRAFLAGGMIAVMAPILGVYLVLRRQALMADTLSH ISLSGVAIGFFLSTNITAASIVVVTIGAIGIEYMRRAYRTYSEVSIAILMAAGLSFAM FLISLSKGTANMSIDQYLFGSLVTVNQQQVYIISIITLLILLYFIVLRRPLYLLTFDE ATAKTSGINTNVLSLSFSIVTGLAISVIIPIIGVLLVSALLVLPAAFAIRIAKGFNMV FITAILISLFSVFTGLTSSYQLGTPPGPSITLLLIVLLLIGFAVQGVWTFIKKEAQRK KRSR*" gene 310000..310842 /gene="znuB" /locus_tag="BSU_02870" /old_locus_tag="BSU02870" downshifts 310829 /Source="Nicolas_upshifts" /id="D120" /incds=0 /nref=168 /ntot=266 /MaxReadThrough="2.4865" /MaxDrop="6.44929" /score="27.8218406" /energy="-13.6" /TU="NA" /idTUdmin="U206" /TUdmin=4 /isTUend="TRUE" CDS complement(310880..311875) /gene="yceB" /locus_tag="BSU_02880" /old_locus_tag="BSU02880" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 16428414; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative luciferase-like monooxygenase" /protein_id="NP_388170.2" /db_xref="EnsemblGenomes-Gn:BSU02880" /db_xref="EnsemblGenomes-Tr:CAB12082" /db_xref="GOA:O34504" /db_xref="InterPro:IPR011251" /db_xref="InterPro:IPR019949" /db_xref="InterPro:IPR036661" /db_xref="SubtiList:BG12766" /db_xref="UniProtKB/Swiss-Prot:O34504" /translation="MIHLSILDQAPVSKGESPVTTLQHSVELAQLSEQWGYKRYWFAE HHSTKGLASTAPEIMIARIAAQTNTIRVGSGGVLLPQYSPFKVAETFRQLEALYPNRI DLGVGRSPGGTTKTRLALTDGVKKSLTEFNRQLQDVSYFLTDSLPPDHPYAGIKAAPL IGTAPELWVLGLGENSARRAAHQGIGYVFGHFINPERGENAFRIYRESFRPSAHFSNP SALFTIFVICAKTDEEAEELALSQDLWLLRVGKGLDSRVPSIEEAKAHPYTASDKKLI EENRKRMVIGSPTTVKQQLLDLTGCYETNEIMVLCNVFDFEAKKESYERLAELFL*" gene complement(310880..311875) /gene="yceB" /locus_tag="BSU_02880" /old_locus_tag="BSU02880" promotor_-35 311831..311838 /Source="Nicolas_upshift_promotors" /id="U210" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.661338661338661" /psig="0.997002997002997" /xcortree=1949 /SigmaFactorBS="accgaatgctggagagttgtcacagggctttcTCCTTTAGaa acaggtgcctgaTCAAGTATGCTTAAATGAATcaaaaggccgcttcctttctgtctgt t" /listShort="S105" /listLong="S106, yceC, yceD, yceE, yceF, yceG, yceH" /label="promotor_-35" promotor_-10 311853..311872 /Source="Nicolas_upshift_promotors" /id="U210" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.661338661338661" /psig="0.997002997002997" /xcortree=1949 /SigmaFactorBS="accgaatgctggagagttgtcacagggctttcTCCTTTAGaa acaggtgcctgaTCAAGTATGCTTAAATGAATcaaaaggccgcttcctttctgtctgt t" /listShort="S105" /listLong="S106, yceC, yceD, yceE, yceF, yceG, yceH" /label="promotor_-10" S_feature 311859..312061 /Source="Nicolas_S_feature" /locus_tag="new_311859_312061" /HighExp="Diami, Etha, dia5, Salt, H2O2, dia15, Paraq, T-0.40H, T0.30H, G135" /AntisenseName="yceB" /AntisenseCor="0.84300534435872998" /AntisenseRegPval="-73.099999999999994" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.997" /TUlongSig="NA" /TUlongPSig="NA" /label="S105" upshifts 311859 /Source="Nicolas_upshifts" /id="U210" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.661338661338661" /psig="0.997002997002997" /xcortree=1949 /SigmaFactorBS="accgaatgctggagagttgtcacagggctttcTCCTTTAGaa acaggtgcctgaTCAAGTATGCTTAAATGAATcaaaaggccgcttcctttctgtctgt t" /listShort="S105" /listLong="S106, yceC, yceD, yceE, yceF, yceG, yceH" promotor_-10 complement(311907..311926) /Source="Nicolas_upshift_promotors" /id="U211" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.98901098901099" /psig="0.992007992007992" /xcortree=1952 /SigmaFactorBS="gctataaagtgcgcttcttaaacaaacCATTTGACgcgggca agtcattTTGCCTATTCTGGTGTCACCatctaaaaacagacagaaaggaagcggcctt t" /listShort="yceB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(311915) /Source="Nicolas_upshifts" /id="U211" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.98901098901099" /psig="0.992007992007992" /xcortree=1952 /SigmaFactorBS="gctataaagtgcgcttcttaaacaaacCATTTGACgcgggca agtcattTTGCCTATTCTGGTGTCACCatctaaaaacagacagaaaggaagcggcctt t" /listShort="yceB" /GFF_Attribute="listLong" promotor_-35 complement(311941..311948) /Source="Nicolas_upshift_promotors" /id="U211" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.98901098901099" /psig="0.992007992007992" /xcortree=1952 /SigmaFactorBS="gctataaagtgcgcttcttaaacaaacCATTTGACgcgggca agtcattTTGCCTATTCTGGTGTCACCatctaaaaacagacagaaaggaagcggcctt t" /listShort="yceB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 312045..312054 /Source="Nicolas_upshift_promotors" /id="U212" /multdbtbs="SigA,SigW" /comp="M9" /sig="SigWXY" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1676 /SigmaFactorBS="agttttttttcgaggtttttcgtcaattattcttaactttta CGAAACTTTGatataataacaaACGTATATATTAGTAAtttacggcttattttccttg t" /listShort="S106, yceC, yceD, yceE, yceF, yceG, yceH, yceI" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 312063..312158 /Source="Nicolas_S_feature" /locus_tag="new_312063_312158" /HighExp="T0.0H, T-0.40H, T-1.10H, T0.30H, Salt, T1.0H, Etha, T-1.40H, T1.30H, T2.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigWXY" /TUshortPSig="0.999" /TUlongSig="SigA" /TUlongPSig="0.997" /label="S106" upshifts 312063 /Source="Nicolas_upshifts" /id="U212" /multdbtbs="SigA,SigW" /comp="M9" /sig="SigWXY" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1676 /SigmaFactorBS="agttttttttcgaggtttttcgtcaattattcttaactttta CGAAACTTTGatataataacaaACGTATATATTAGTAAtttacggcttattttccttg t" /listShort="S106, yceC, yceD, yceE, yceF, yceG, yceH, yceI" /GFF_Attribute="listLong" promotor_-10 312067..312082 /Source="Nicolas_upshift_promotors" /id="U212" /multdbtbs="SigA,SigW" /comp="M9" /sig="SigWXY" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1676 /SigmaFactorBS="agttttttttcgaggtttttcgtcaattattcttaactttta CGAAACTTTGatataataacaaACGTATATATTAGTAAtttacggcttattttccttg t" /listShort="S106, yceC, yceD, yceE, yceF, yceG, yceH, yceI" /GFF_Attribute="listLong" /label="promotor_-10" CDS 312159..312758 /gene="yceC" /locus_tag="BSU_02890" /old_locus_tag="BSU02890" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 24366250; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative stress adaptation protein (tellurite resistance)" /protein_id="NP_388171.1" /db_xref="EnsemblGenomes-Gn:BSU02890" /db_xref="EnsemblGenomes-Tr:CAB12083" /db_xref="GOA:P81100" /db_xref="InterPro:IPR003325" /db_xref="SubtiList:BG12767" /db_xref="UniProtKB/Swiss-Prot:P81100" /translation="MAISLEKGQRIDLTKGKAGLSKLMVGLGWDPVSSGGGFFSKLLG GGGPNIDCDASVLMLENGKFTDKKNLIYFGNLKSRCGGVQHTGDNLTGDGAGDDEQIM IDLDKVPGNIDKLVFVVNIYDCVRRKQDFGMIQNAFIRVVDQSNHEEMLKYNLRDNYA GRTSLITAEIYRSGSEWKFAAVGEGTNDTRLEDIISRYV*" gene 312159..312758 /gene="yceC" /locus_tag="BSU_02890" /old_locus_tag="BSU02890" CDS 312780..313361 /gene="yceD" /locus_tag="BSU_02900" /old_locus_tag="BSU02900" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 22720735, 24366250; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative stress adaptation protein (tellurite resistance)" /protein_id="NP_388172.1" /db_xref="EnsemblGenomes-Gn:BSU02900" /db_xref="EnsemblGenomes-Tr:CAB12084" /db_xref="GOA:P80875" /db_xref="InterPro:IPR003325" /db_xref="SubtiList:BG12768" /db_xref="UniProtKB/Swiss-Prot:P80875" /translation="MTISLAKGQKVDLTKTNPGLSKVVVGLGWDTNKYDGGHDFDLDS SVFLLDAAGKCASPNDFIFYNQLEGGNGSVVHSGDNLTGAGEGDDENVKVNLSAVPAN IDKISFVITIHDAEARSQNFGQVSNAFVRIVNEETNEELIRYDLAEDFSIETAIIAGE LYRHNGEWKFSAIGSGYQGGLARIATDYGLQVG*" gene 312780..313361 /gene="yceD" /locus_tag="BSU_02900" /old_locus_tag="BSU02900" CDS 313396..313974 /gene="yceE" /locus_tag="BSU_02910" /old_locus_tag="BSU02910" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 22720735, 24366250, 25355936; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative stress adaptation protein (tellurite resistance)" /protein_id="NP_388173.1" /db_xref="EnsemblGenomes-Gn:BSU02910" /db_xref="EnsemblGenomes-Tr:CAB12085" /db_xref="GOA:O34384" /db_xref="InterPro:IPR003325" /db_xref="SubtiList:BG12769" /db_xref="UniProtKB/Swiss-Prot:O34384" /translation="MAIQLSKGQRIDLTKTNPGLTKAVIGLGWDTNKYSGGHDFDLDA SAFLVDAHDNCVNDLDFVFYNNLEHPSGGVIHTGDNRTGEGDGDDEQIIVDFSKIPAH IEKIGITVTIHDAEARSQNFGQVSNAFVRVVDEETQNELLRFDLGEDFSIETAVVVCE LYRHGGEWKFNAIGSGFSGGLAALCRNYGLQV*" gene 313396..313974 /gene="yceE" /locus_tag="BSU_02910" /old_locus_tag="BSU02910" CDS 314025..314798 /gene="yceF" /locus_tag="BSU_02920" /old_locus_tag="BSU02920" /function="16.8: Protect" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406, 22720735, 24366250; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative stress adaptation transporter (tellurite resistance)" /protein_id="NP_388174.1" /db_xref="EnsemblGenomes-Gn:BSU02920" /db_xref="EnsemblGenomes-Tr:CAB12086" /db_xref="GOA:O34447" /db_xref="InterPro:IPR005496" /db_xref="InterPro:IPR022493" /db_xref="SubtiList:BG12770" /db_xref="UniProtKB/Swiss-Prot:O34447" /translation="MDFLHHILSTYASFFDWKMWGEVLTDPVSWGLIGSLVVLEGLLS ADNALVLAVMVKHLPEKQRKKALTYGLFGAYIFRFIFIGLGMLLIKFWWIKVLGALYL AWLVIKHFWIGEKEEEADGMKKNSWMVRTFGIFWATVISVELMDLAFSVDSILAAFAV SEKVWVLLIGGMLGILMMRTVAKVFLVLIDKIPELENTAFVLIGIIALKMAGSAFHYE MPHSVFFIIIIAAFAVTLIIHYINKQKQVREQTAASKEE*" gene 314025..314798 /gene="yceF" /locus_tag="BSU_02920" /old_locus_tag="BSU02920" downshifts 314785 /Source="Nicolas_upshifts" /id="D121" /incds=0 /nref=46 /ntot=239 /MaxReadThrough="6.82513" /MaxDrop="4.0674" /score="4.0495978" /energy="-8.2" /TU="U212" /idTUdmin="U210" /TUdmin=2728 /isTUend="FALSE" CDS 314883..316496 /gene="yceG" /locus_tag="BSU_02930" /old_locus_tag="BSU02930" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 24366250; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative toxic compound adaptation protein (tellurite resistance)" /protein_id="NP_388175.1" /db_xref="EnsemblGenomes-Gn:BSU02930" /db_xref="EnsemblGenomes-Tr:CAB12087" /db_xref="InterPro:IPR025647" /db_xref="SubtiList:BG12771" /db_xref="UniProtKB/Swiss-Prot:O34809" /translation="MRQEELTIHKALPADGDWKSLLFQPLPERDHYETAQGLSFSRLA GQILGTPIDETDYYNELYELSVNDRITILSETLDKTIEPETFQKLQHIHSINQKEKGL SVSRFVAFLDGEKLIAKHSNPLMHRHLRKALMTLLHTFADSHEKGLNHPDFRRVLLDV SKFSLNHLNPWLEKTDIEREMPKVVWYGDATKSQLYFLYYLMLVGCDVLLFHPAGTDQ LALVDPKQELGFTEKLPDVSELQPFPKEKPDRKSTVAYRSTKEIEHVLNHEESMLYKP WQFRDHTPVSVTLKTTYDELFLITKERAFIRPNFKADKHSIEIPNVFAKIMGVSKDNK EYWNRLHTLADYQETEMVRSFPFTEEIKSNYQFHYSHALDQEGNIDPDKLMASNVWQY KQLPAGVQTAIAKTISRMCRYPRLKALHQEQVKDVQIYLFKQTTNLPANLLKLIQMFD YAQTVPKLVLYHTEMSGGLTRSDAAALLFLNEIGIDIIIYNPPGHQDIEQFIEEDQYD IHWLDDMVFQQDYKEPSLVKRLFRTITQK*" gene 314883..316496 /gene="yceG" /locus_tag="BSU_02930" /old_locus_tag="BSU02930" CDS 316512..317603 /gene="yceH" /locus_tag="BSU_02940" /old_locus_tag="BSU02940" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 22720735, 24366250; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative reactive oxygen species resistance protein" /protein_id="NP_388176.1" /db_xref="EnsemblGenomes-Gn:BSU02940" /db_xref="EnsemblGenomes-Tr:CAB12088" /db_xref="InterPro:IPR008863" /db_xref="SubtiList:BG12772" /db_xref="UniProtKB/Swiss-Prot:O34833" /translation="MTTENQNPLVLDKNEEISQQKADDIRLQLRQEPEVKRLAQQIDV KNQMELLEYGKEPAVEISKFSDRILGMMKTTSVTDSGTMLTQLGKIMDRFDKNDFDEP KGLMAKIFKRGGSMIEKIFKKYQTLGGEIEKIHVEISKYKDEMTKTNYTLDEMYENNI KYYMELEKYVVAGQMKLEEMQSILPSYEEKAASGNQLAQMQLDTLRNGIQALEERVYD LDMARMVALQTAPQIRLLQRGNAKLIGKINSAFIITIPIFKNGIIQAVTVKRQKLVAD SMSELDRRTNEMLKRNAENISSQSVEIARMAGRPSIDIETIESSWNTIVSGMQETKQI EEENKRLREDGARRIAQLQDNIKKAALQQ*" gene 316512..317603 /gene="yceH" /locus_tag="BSU_02940" /old_locus_tag="BSU02940" downshifts 317577 /Source="Nicolas_upshifts" /id="D122" /incds=0 /nref=85 /ntot=228 /MaxReadThrough="4.46836" /MaxDrop="4.05585" /score="-6.59172775" /energy="-17.5" /TU="U212" /idTUdmin="U212" /TUdmin="-1322" /isTUend="FALSE" promotor_-35 317657..317664 /Source="Nicolas_upshift_promotors" /id="U213" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.977022977022977" /psig="0.998001998001998" /xcortree=2427 /SigmaFactorBS="aagcggggtatttcaattacatcatttagtTAATGACAatgt gtaaagacagGTGTAAACTTAAACGGTAATcattttgcatatcagaggtgttggcaat g" /listShort="yceI" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 317679..317698 /Source="Nicolas_upshift_promotors" /id="U213" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.977022977022977" /psig="0.998001998001998" /xcortree=2427 /SigmaFactorBS="aagcggggtatttcaattacatcatttagtTAATGACAatgt gtaaagacagGTGTAAACTTAAACGGTAATcattttgcatatcagaggtgttggcaat g" /listShort="yceI" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 317687 /Source="Nicolas_upshifts" /id="U213" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.977022977022977" /psig="0.998001998001998" /xcortree=2427 /SigmaFactorBS="aagcggggtatttcaattacatcatttagtTAATGACAatgt gtaaagacagGTGTAAACTTAAACGGTAATcattttgcatatcagaggtgttggcaat g" /listShort="yceI" /GFF_Attribute="listLong" CDS 317725..318927 /gene="niaP" /locus_tag="BSU_02950" /old_locus_tag="BSU02950" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15849754, 16850406, 18276644, 21953179" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15849754, 16850406, 18276644, 21953179; Product type t: transporter" /codon_start=1 /transl_table=11 /product="niacin permease" /protein_id="NP_388177.1" /db_xref="EnsemblGenomes-Gn:BSU02950" /db_xref="EnsemblGenomes-Tr:CAB12089" /db_xref="GOA:O34691" /db_xref="InterPro:IPR005829" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12773" /db_xref="UniProtKB/Swiss-Prot:O34691" /translation="MGKQQPISQRKLLGVAGLGWLFDAMDVGILSFIIAALHVEWNLS PEEMKWIGSVNSIGMAAGAFLFGLLADRIGRKKVFIITLLCFSIGSGISAFVTSLSAF LILRFVIGMGLGGELPVASTLVSEAVVPEKRGRVIVLLESFWAVGWLAAALISYFVIP SFGWQAALLLTALTAFYALYLRTSLPDSPKYESLSAKKRSMWENVKSVWARQYIRPTV MLSIVWFCVVFSYYGMFLWLPSVMLLKGFSMIQSFEYVLLMTLAQLPGYFSAAWLIEK AGRKWILVVYLIGTAGSAYFFGTADSLSLLLTAGVLLSFFNLGAWGVLYAYTPEQYPT AIRATGSGTTAAFGRIGGIFGPLLVGTLAARHISFSVIFSIFCIAILLAVACILIMGK ETKQTELE*" gene 317725..318927 /gene="niaP" /locus_tag="BSU_02950" /old_locus_tag="BSU02950" downshifts 318907 /Source="Nicolas_upshifts" /id="D123" /incds=0 /nref=8 /ntot=184 /MaxReadThrough="4.1968" /MaxDrop="3.48367" /score="13.0427769" /energy="-10.6" /TU="U213" /idTUdmin="U212" /TUdmin=8 /isTUend="TRUE" CDS complement(319180..320352) /gene="yceJ" /locus_tag="BSU_02960" /old_locus_tag="BSU02960" /function="16.8: Protect" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative carbohydrate transporter (possibly exporter)" /protein_id="NP_388178.1" /db_xref="EnsemblGenomes-Gn:BSU02960" /db_xref="EnsemblGenomes-Tr:CAB12090" /db_xref="GOA:O34724" /db_xref="InterPro:IPR001958" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12774" /db_xref="UniProtKB/Swiss-Prot:O34724" /translation="MNRIWLFFSVMFVIGTDTFLLSPLLPLLQDQFHVSTDLSGWMVS AYALGYALFAFIAGPISDRLNRKTVMLWGLAGFIVSTFLCGIAPSFAAMCLFRFAAGV SAAFVTPQIWASIPVIVQPSQIIKGMGIATAGLAASQMLGLPIGGFLASFTWHTPFFV LSACSLILLLILAAVMPGIRPSEPLARPSIVNPYRELFSLPKTSVILLAYFLFQTGNF ASFSFLGTWLSADYHLTVSQIGAAMLVLGLGNMLGSLIGSRVSEKLGMFKTLISGMLL MGALYFALPFFPNLFLVEAGFFLTFFTAGIIFPLMMGVFQSIAPNARGTIASLSNAAM YAGTTVGTSIAGFLYQSTQHFGAVTGFTAILFILSMTLYQTISKTGKRQSTARAQL*" gene complement(319180..320352) /gene="yceJ" /locus_tag="BSU_02960" /old_locus_tag="BSU02960" downshifts complement(319195) /Source="Nicolas_upshifts" /id="D124" /incds=0 /nref=1 /ntot=7 /MaxReadThrough="2.6211" /MaxDrop="2.7452" /score="9.21991741" /energy="-12.6" /TU="NA" /idTUdmin="U214" /TUdmin=0 /isTUend="TRUE" CDS complement(320421..320723) /gene="yceK" /locus_tag="BSU_02970" /old_locus_tag="BSU02970" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (ArsR family)" /protein_id="NP_388179.1" /db_xref="EnsemblGenomes-Gn:BSU02970" /db_xref="EnsemblGenomes-Tr:CAB12091" /db_xref="GOA:O34464" /db_xref="InterPro:IPR001845" /db_xref="InterPro:IPR011991" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12775" /db_xref="UniProtKB/Swiss-Prot:O34464" /translation="MYYSFMTMKQSDDQIRAQIFKALSDESRLAIIRTLYVSGKELSC GEVGEKCNIVKTTASYHFKTLREAGLTATRKDSRTKYVSLREDTFQTYLPGFLETL*" gene complement(320421..320723) /gene="yceK" /locus_tag="BSU_02970" /old_locus_tag="BSU02970" downshifts complement(320449) /Source="Nicolas_upshifts" /id="D125" /incds=0 /nref=221 /ntot=261 /MaxReadThrough="5.67096" /MaxDrop="6.89889" /score="2.01231069" /energy="-4.8" /TU="U214" /idTUdmin="U214" /TUdmin="-1254" /isTUend="FALSE" promotor_-10 complement(320706..320725) /Source="Nicolas_upshift_promotors" /id="U214" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.455544455544456" /psig="0.999000999001" /xcortree=635 /SigmaFactorBS="ccttcctcttatgacttcctgctcctttactggaaaaataAG TTGCTttttcaacacccaTTATGTATTATAGTTTCATGactatgaaacaatcagatga t" /listShort="yceK, yceJ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(320725) /Source="Nicolas_upshifts" /id="U214" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.455544455544456" /psig="0.999000999001" /xcortree=635 /SigmaFactorBS="ccttcctcttatgacttcctgctcctttactggaaaaataAG TTGCTttttcaacacccaTTATGTATTATAGTTTCATGactatgaaacaatcagatga t" /listShort="yceK, yceJ" /GFF_Attribute="listLong" promotor_-35 complement(320739..320745) /Source="Nicolas_upshift_promotors" /id="U214" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.455544455544456" /psig="0.999000999001" /xcortree=635 /SigmaFactorBS="ccttcctcttatgacttcctgctcctttactggaaaaataAG TTGCTttttcaacacccaTTATGTATTATAGTTTCATGactatgaaacaatcagatga t" /listShort="yceK, yceJ" /GFF_Attribute="listLong" /label="promotor_-35" misc_feature 320972..320991 /Source="Nicolas_upshift_promotors" /id="U215" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.555444555444555" /psig="0.99100899100899" /xcortree=2422 /SigmaFactorBS="gtttataaagaaatggtacagaataaaagagaatatgctgtt tgtgtgggaagttacataAATGTTACGGTAATAAAGATtgcttaatatggagggaaaa t" /listShort="opuAA, opuAB, opuAC" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 320972 /Source="Nicolas_upshifts" /id="U215" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.555444555444555" /psig="0.99100899100899" /xcortree=2422 /SigmaFactorBS="gtttataaagaaatggtacagaataaaagagaatatgctgtt tgtgtgggaagttacataAATGTTACGGTAATAAAGATtgcttaatatggagggaaaa t" /listShort="opuAA, opuAB, opuAC" /GFF_Attribute="listLong" CDS 321013..322269 /gene="opuAA" /locus_tag="BSU_02980" /old_locus_tag="BSU02980" /function="16.1: Circulate" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:7622480, 16225868, 16645306, 25012968" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7622480, 16225868, 16645306, 25012968; Product type t: transporter" /codon_start=1 /transl_table=11 /product="L-proline betaine and betonicine ABC transporter(ATP-binding protein)" /protein_id="NP_388180.2" /db_xref="EnsemblGenomes-Gn:BSU02980" /db_xref="EnsemblGenomes-Tr:CAB12092" /db_xref="GOA:P46920" /db_xref="InterPro:IPR000644" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR005892" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG11370" /db_xref="UniProtKB/Swiss-Prot:P46920" /translation="MSVDEKPIKIKVEKVSKIFGKQTKKAVQMLANGKTKKEILKATG STVGVNQADFEVYDGEIFVIMGLSGSGKSTLVRMLNRLIEPTAGNIYIDGDMITNMSK DQLREVRRKKISMVFQKFALFPHRTILENTEYGLELQGVDKQERQQKALESLKLVGLE GFEHQYPDQLSGGMQQRVGLARALTNDPDILLMDEAFSALDPLIRKDMQDELLDLHDN VGKTIIFITHDLDEALRIGDRIVLMKDGNIVQIGTPEEILMNPSNEYVEKFVEDVDLS KVLTAGHIMKRAETVRIDKGPRVALTLMKNLGISSIYAVDKQKKLLGVIYASDAKKAA ESDLSLQDILNTEFTTVPENTYLTEIFDVVSDANIPIAVVDEKQRMKGIVVRGALIGA LAGNNEYINAEGTNEQTQDPSAQEVK*" gene 321013..322269 /gene="opuAA" /locus_tag="BSU_02980" /old_locus_tag="BSU02980" downshifts complement(321021) /Source="Nicolas_upshifts" /id="D126" /incds=0 /nref=108 /ntot=175 /MaxReadThrough="2.83797" /MaxDrop="5.18503" /score="2.01231069" /energy="-4.8" /TU="NA" /idTUdmin="U214" /TUdmin="-1826" /isTUend="FALSE" CDS 322271..323119 /gene="opuAB" /locus_tag="BSU_02990" /old_locus_tag="BSU02990" /function="16.1: Circulate" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:8752321, 15849754, 16225868, 16645306, 16850406, 25012968" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8752321, 15849754, 16225868, 16645306, 16850406, 25012968; Product type t : transporter" /codon_start=1 /transl_table=11 /product="L-proline betaine and betonicine ABC transporter(permease)" /protein_id="NP_388181.1" /db_xref="EnsemblGenomes-Gn:BSU02990" /db_xref="EnsemblGenomes-Tr:CAB12093" /db_xref="GOA:P46921" /db_xref="InterPro:IPR000515" /db_xref="InterPro:IPR035906" /db_xref="SubtiList:BG11371" /db_xref="UniProtKB/Swiss-Prot:P46921" /translation="MDRLPRIPLADIIDRFVDWITMTFGGFFDGIANGLAAFVNGIVT GLGFIPSILLTIIFAALAWWISTRGIALFTLIGFLLIDYLGYWDPMLQTLALVLTSVI ISIVVGVPIGIWASQKETVRRIVTPILDLMQTMPAFVYLLPAIFFFNIGVVPGVVASV IFAMPPTIRMTVLGIKQVPADLIEATEAFGSTTAQRLFKVQLPLATKTILAGINQSIM LALSMVVIAAMVGAPGLGSEVYSAVTQLKTGVGVEAGIAIVIVAITLDRITQNIKVKK KSRGNA*" gene 322271..323119 /gene="opuAB" /locus_tag="BSU_02990" /old_locus_tag="BSU02990" CDS 323119..324000 /gene="opuAC" /locus_tag="BSU_03000" /old_locus_tag="BSU03000" /function="16.1: Circulate" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:7622480, 16225868, 16645306, 25012968" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7622480, 16225868, 16645306, 25012968; Product type lp: lipoprotein" /codon_start=1 /transl_table=11 /product="L-proline betaine and betonicine ABC transporterABC transporter (glycine betaine-binding lipoprotein)" /protein_id="NP_388182.1" /db_xref="EnsemblGenomes-Gn:BSU03000" /db_xref="EnsemblGenomes-Tr:CAB12094" /db_xref="GOA:P46922" /db_xref="InterPro:IPR007210" /db_xref="PDB:2B4L" /db_xref="PDB:2B4M" /db_xref="PDB:3CHG" /db_xref="SubtiList:BG11372" /db_xref="UniProtKB/Swiss-Prot:P46922" /translation="MLKKIIGIGVSAMLALSLAACGSENDENASAAEQVNKTIIGIDP GSGIMSLTDKAMKDYDLNDWTLISASSAAMTATLKKSYDRKKPIIITGWTPHWMFSRY KLKYLDDPKQSYGSAEEIHTITRKGFSKEQPNAAKLLSQFKWTQDEMGEIMIKVEEGE KPAKVAAEYVNKHKDQIAEWTKGVQKVKGDKINLAYVAWDSEIASTNVIGKVLEDLGY EVTLTQVEAGPMWTAIATGSADASLSAWLPNTHKAYAAKYKGKYDDIGTSMTGVKMGL VVPQYMKNVNSIEDLKK*" gene 323119..324000 /gene="opuAC" /locus_tag="BSU_03000" /old_locus_tag="BSU03000" downshifts 323981 /Source="Nicolas_upshifts" /id="D127" /incds=0 /nref=254 /ntot=269 /MaxReadThrough="0.74967" /MaxDrop="8.21394" /score="33.6263027" /energy="-12.2" /TU="NA" /idTUdmin="U215" /TUdmin=0 /isTUend="TRUE" downshifts complement(324013) /Source="Nicolas_upshifts" /id="D128" /incds=0 /nref=2 /ntot=62 /MaxReadThrough="4.29566" /MaxDrop="3.9514" /score="29.8489328" /energy="-12.2" /TU="U216" /idTUdmin="U216" /TUdmin="-220" /isTUend="FALSE" CDS complement(324038..325189) /gene="amhX" /locus_tag="BSU_03010" /old_locus_tag="BSU03010" /EC_number="3.5.1.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 8768514; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative amidohydrolase" /protein_id="NP_388183.2" /db_xref="EnsemblGenomes-Gn:BSU03010" /db_xref="EnsemblGenomes-Tr:CAB12095" /db_xref="GOA:P54983" /db_xref="InterPro:IPR002933" /db_xref="InterPro:IPR011650" /db_xref="InterPro:IPR017439" /db_xref="InterPro:IPR036264" /db_xref="SubtiList:BG11789" /db_xref="UniProtKB/Swiss-Prot:P54983" /translation="MQKLSEEMKQTIMDIFEHLHANPEVSWKEYETTSFLKQKLEDLG CRTRTFSDCTGVVGEIGSGSPVVAVRADIDALWQEVNGTFRANHSCGHDSHMTMALGT LMLLKKQPELPKGTIRFIFQPAEEKGGGALKMIEEGVLDDIDYLYGVHVRPIQETQNG RCAPSILHGSSQHIEGTIIGEEAHGARPHLGKNSIEIAAFLVHKLGLIHIDPQIPHTV KMTKLQAGGESSNIIPGKASFSLDLRAQTNEAMEALIAETERACEAAAAAFGAKIELH KEHSLPAATQNKEAEAIMAEAITEIIGAERLDDPLVTTGGEDFHFYAVKVPNLKTTML GLGCGLQPGLHHPHMTFDRNAMFTGIHILANAVLKTFQKAESLAAANAS*" gene complement(324038..325189) /gene="amhX" /locus_tag="BSU_03010" /old_locus_tag="BSU03010" downshifts complement(324057) /Source="Nicolas_upshifts" /id="D129" /incds=0 /nref=2 /ntot=70 /MaxReadThrough="4.33606" /MaxDrop="3.5225" /score="29.8489328" /energy="-12.2" /TU="U216" /idTUdmin="U216" /TUdmin="-264" /isTUend="FALSE" S_feature complement(325190..325277) /Source="Nicolas_S_feature" /locus_tag="new_325190_325277_c" /HighExp="Etha, T1.30H, M9-stat, T2.30H, S1, T3.30H, T5.0H, T4.0H, Sw, T3.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S107" promotor_-35 325245..325252 /Source="Nicolas_upshift_promotors" /id="U217" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.758241758241758" /psig="0.999000999001" /xcortree=2902 /SigmaFactorBS="atttttaccttctttactttatttaTATTGAAAcaggaagat aggctGTATATAATATAGCACATATtgctactattcagaataattaatattttcaaac a" /listShort="ycgA" /listLong="ycgB, S108, amyE" /label="promotor_-35" promotor_-10 complement(325264..325283) /Source="Nicolas_upshift_promotors" /id="U216" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.632367632367632" /psig=1 /xcortree=2878 /SigmaFactorBS="tttcgatccatcccctctgtttgaaaatattaattATTCTGA atagtagcaataTGTGCTATATTATATACAGCctatcttcctgtttcaatataaataa a" /listShort="S107, amhX" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-10 325267..325286 /Source="Nicolas_upshift_promotors" /id="U217" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.758241758241758" /psig="0.999000999001" /xcortree=2902 /SigmaFactorBS="atttttaccttctttactttatttaTATTGAAAcaggaagat aggctGTATATAATATAGCACATATtgctactattcagaataattaatattttcaaac a" /listShort="ycgA" /listLong="ycgB, S108, amyE" /label="promotor_-10" upshifts complement(325277) /Source="Nicolas_upshifts" /id="U216" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.632367632367632" /psig=1 /xcortree=2878 /SigmaFactorBS="tttcgatccatcccctctgtttgaaaatattaattATTCTGA atagtagcaataTGTGCTATATTATATACAGCctatcttcctgtttcaatataaataa a" /listShort="S107, amhX" /GFF_Attribute="listLong" upshifts 325280 /Source="Nicolas_upshifts" /id="U217" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.758241758241758" /psig="0.999000999001" /xcortree=2902 /SigmaFactorBS="atttttaccttctttactttatttaTATTGAAAcaggaagat aggctGTATATAATATAGCACATATtgctactattcagaataattaatattttcaaac a" /listShort="ycgA" /listLong="ycgB, S108, amyE" promotor_-35 complement(325296..325302) /Source="Nicolas_upshift_promotors" /id="U216" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.632367632367632" /psig=1 /xcortree=2878 /SigmaFactorBS="tttcgatccatcccctctgtttgaaaatattaattATTCTGA atagtagcaataTGTGCTATATTATATACAGCctatcttcctgtttcaatataaataa a" /listShort="S107, amhX" /GFF_Attribute="listLong" /label="promotor_-35" CDS 325339..326772 /gene="ycgA" /locus_tag="BSU_03020" /old_locus_tag="BSU03020" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406, 21747963, 21764931; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative branched chain amino acid permease" /protein_id="NP_388184.2" /db_xref="EnsemblGenomes-Gn:BSU03020" /db_xref="EnsemblGenomes-Tr:CAB12096" /db_xref="GOA:P55908" /db_xref="InterPro:IPR018385" /db_xref="SubtiList:BG11999" /db_xref="UniProtKB/Swiss-Prot:P55908" /translation="MSMPAAETQPKKKRMTFKMPDAYVLLFMIAFICAIASYIVPAGE FDRVTKGDVTTAVPGSYHSIEQSPVRLISFFTSLQDGMVGSAPIIFLILFTGGTIAIL EKTGAINGLIYNVISKFRTKQLLFICIVGALFSILGTTGIVVNSVIGFIPIGLIVARS LKWDAVAGAAVIYIGCYAGFNSTILSPSPLGLSQSIAELPLFSGIGLRVVIYICFLLS SIIYIYLYTRKLKKSKDASVLGTDWFPAAGMGEAGKEEDQSVPFTVRHKLILAVAGLS LVGFLYGALKLGWSDSQMAATFIFISVLAGLIGGLAANDIAKTFITGCQSLVYGALIV GMARSISVILENGKLLDTVVNALASLLDGFSPIAGAIGMYIASALLHFLISSGSGEAV VFIPILAPLADLMGITRQVAVEAVMLGEGVVNCVNPTSGVLMAVLAASGIPYVKWLRF MVPLALIWFLIGLVFIVIGVMINWGPF*" gene 325339..326772 /gene="ycgA" /locus_tag="BSU_03020" /old_locus_tag="BSU03020" promotor_-35 326077..326085 /Source="Nicolas_upshift_promotors" /id="U218" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.98901098901099" /psig="0.98901098901099" /xcortree=498 /SigmaFactorBS="ggaacagattggttccctgcgGCAGGAATGggcgaagccggT AAAGAAGAAGATCAGTCAgtgccgtttaccgttcgccataagctgattttggctgtgg c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 326097..326115 /Source="Nicolas_upshift_promotors" /id="U218" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.98901098901099" /psig="0.98901098901099" /xcortree=498 /SigmaFactorBS="ggaacagattggttccctgcgGCAGGAATGggcgaagccggT AAAGAAGAAGATCAGTCAgtgccgtttaccgttcgccataagctgattttggctgtgg c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 326116 /Source="Nicolas_upshifts" /id="U218" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.98901098901099" /psig="0.98901098901099" /xcortree=498 /SigmaFactorBS="ggaacagattggttccctgcgGCAGGAATGggcgaagccggT AAAGAAGAAGATCAGTCAgtgccgtttaccgttcgccataagctgattttggctgtgg c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" downshifts 326754 /Source="Nicolas_upshifts" /id="D130" /incds=0 /nref=1 /ntot=74 /MaxReadThrough="3.53497" /MaxDrop="3.31444" /score="12.0135493" /energy="-15.6" /TU="U217" /idTUdmin="U218" /TUdmin=0 /isTUend="TRUE" promotor_-35 326815..326822 /Source="Nicolas_upshift_promotors" /id="U219" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.915084915084915" /psig="0.999000999001" /xcortree=1929 /SigmaFactorBS="ccggcttgtacggcgggcttttgagttatTCATTGCAgaagc gcaggctgtTATTGTAACATGTAAGCCATaagccattcgtaaaagtgcgggaggaagg t" /listShort="ycgB, S108, amyE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 326837..326856 /Source="Nicolas_upshift_promotors" /id="U219" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.915084915084915" /psig="0.999000999001" /xcortree=1929 /SigmaFactorBS="ccggcttgtacggcgggcttttgagttatTCATTGCAgaagc gcaggctgtTATTGTAACATGTAAGCCATaagccattcgtaaaagtgcgggaggaagg t" /listShort="ycgB, S108, amyE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 326846 /Source="Nicolas_upshifts" /id="U219" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.915084915084915" /psig="0.999000999001" /xcortree=1929 /SigmaFactorBS="ccggcttgtacggcgggcttttgagttatTCATTGCAgaagc gcaggctgtTATTGTAACATGTAAGCCATaagccattcgtaaaagtgcgggaggaagg t" /listShort="ycgB, S108, amyE" /GFF_Attribute="listLong" CDS 326888..327469 /gene="ycgB" /locus_tag="BSU_03030" /old_locus_tag="BSU03030" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 15849754, 16850406, 22720735; Producttype m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral inner membrane protein of unknown function" /protein_id="NP_388185.2" /db_xref="EnsemblGenomes-Gn:BSU03030" /db_xref="EnsemblGenomes-Tr:CAB12097" /db_xref="SubtiList:BG12000" /db_xref="UniProtKB/Swiss-Prot:P55909" /translation="MNNLRNRLSGVNGKNKRVKEKEQKIWSEIGMIAGAFALLDVIIR GIMFEFPFKEWAASLVFLFIIILYYCIRAAASGMLMPRIDTKEELQKRVKQQRIESIA VAFAVVVLTMYDRGIPHTFFAWLKMILLFIVCGGVLFLLRYVIVKLAYRRAVKEEIKK KSSFLFGKRGKRSQFRAAFFIGTLICIHSAKLF*" gene 326888..327469 /gene="ycgB" /locus_tag="BSU_03030" /old_locus_tag="BSU03030" upshifts 327282 /Source="Nicolas_upshifts" /id="U220" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.288711288711289" /psig="0.241758241758242" /xcortree=1550 /SigmaFactorBS="tgtacgacagggggattccccatacattcttcgcttggctga aaatgattcttctttttatcgtCTGCGgcggcgttctgtttctgcttcggtatgtgat t" /listShort="S108, amyE" /GFF_Attribute="listLong" misc_feature 327286..327290 /Source="Nicolas_upshift_promotors" /id="U220" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.288711288711289" /psig="0.241758241758242" /xcortree=1550 /SigmaFactorBS="tgtacgacagggggattccccatacattcttcgcttggctga aaatgattcttctttttatcgtCTGCGgcggcgttctgtttctgcttcggtatgtgat t" /listShort="S108, amyE" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" promotor_-35 327445..327452 /Source="Nicolas_upshift_promotors" /id="U221" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.892107892107892" /psig="0.999000999001" /xcortree=365 /SigmaFactorBS="ctttttttataggaacattgatttgTATTCACTctgccaagt tgtttTGATAGAGTGATTGTGATAAttttaaatgtaagcgttaacaaaattctccagt c" /listShort="S108, amyE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 327467..327486 /Source="Nicolas_upshift_promotors" /id="U221" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.892107892107892" /psig="0.999000999001" /xcortree=365 /SigmaFactorBS="ctttttttataggaacattgatttgTATTCACTctgccaagt tgtttTGATAGAGTGATTGTGATAAttttaaatgtaagcgttaacaaaattctccagt c" /listShort="S108, amyE" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 327480..327617 /Source="Nicolas_S_feature" /locus_tag="new_327480_327617" /HighExp="BC, M0t90, M40t90, S2, M9-stat, T4.0H, Sw, T3.30H, Lbtran, T3.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, Sig-, SigA" /TUshortPSig="0.999, 0.242, 0.999" /TUlongSig="SigA" /TUlongPSig="0.999" /label="S108" upshifts 327480 /Source="Nicolas_upshifts" /id="U221" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.892107892107892" /psig="0.999000999001" /xcortree=365 /SigmaFactorBS="ctttttttataggaacattgatttgTATTCACTctgccaagt tgtttTGATAGAGTGATTGTGATAAttttaaatgtaagcgttaacaaaattctccagt c" /listShort="S108, amyE" /GFF_Attribute="listLong" CDS 327618..329597 /gene="amyE" /locus_tag="BSU_03040" /old_locus_tag="BSU03040" /EC_number="3.2.1.1" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:3117969, 9353930" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 3117969, 9353930; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="alpha-amylase" /protein_id="NP_388186.2" /db_xref="EnsemblGenomes-Gn:BSU03040" /db_xref="EnsemblGenomes-Tr:CAB12098" /db_xref="GOA:P00691" /db_xref="InterPro:IPR006046" /db_xref="InterPro:IPR006047" /db_xref="InterPro:IPR013783" /db_xref="InterPro:IPR017853" /db_xref="InterPro:IPR031319" /db_xref="InterPro:IPR031965" /db_xref="PDB:1BAG" /db_xref="PDB:1UA7" /db_xref="SubtiList:BG10473" /db_xref="UniProtKB/Swiss-Prot:P00691" /translation="MFAKRFKTSLLPLFAGFLLLFHLVLAGPAAASAETANKSNELTA PSIKSGTILHAWNWSFNTLKHNMKDIHDAGYTAIQTSPINQVKEGNQGDKSMSNWYWL YQPTSYQIGNRYLGTEQEFKEMCAAAEEYGIKVIVDAVINHTTSDYAAISNEVKSIPN WTHGNTQIKNWSDRWDVTQNSLLGLYDWNTQNTQVQSYLKRFLDRALNDGADGFRFDA AKHIELPDDGSYGSQFWPNITNTSAEFQYGEILQDSASRDAAYANYMDVTASNYGHSI RSALKNRNLGVSNISHYASDVSADKLVTWVESHDTYANDDEESTWMSDDDIRLGWAVI ASRSGSTPLFFSRPEGGGNGVRFPGKSQIGDRGSALFEDQAITAVNRFHNVMAGQPEE LSNPNGNNQIFMNQRGSHGVVLANAGSSSVSINTATKLPDGRYDNKAGAGSFQVNDGK LTGTINARSVAVLYPDDIAKAPHVFLENYKTGVTHSFNDQLTITLRADANTTKAVYQI NNGPETAFKDGDQFTIGKGDPFGKTYTIMLKGTNSDGVTRTEKYSFVKRDPASAKTIG YQNPNHWSQVNAYIYKHDGSRVIELTGSWPGKPMTKNADGIYTLTLPADTDTTNAKVI FNNGSAQVPGQNQPGFDYVLNGLYNDSGLSGSLPH*" gene 327618..329597 /gene="amyE" /locus_tag="BSU_03040" /old_locus_tag="BSU03040" downshifts 329611 /Source="Nicolas_upshifts" /id="D131" /incds=0 /nref=57 /ntot=131 /MaxReadThrough="1.64783" /MaxDrop="6.55823" /score="-8.82332571" /energy="-3.4" /TU="U221" /idTUdmin="U219" /TUdmin=0 /isTUend="TRUE" promotor_-35 329677..329684 /Source="Nicolas_upshift_promotors" /id="U222" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.753246753246753" /psig=1 /xcortree=1599 /SigmaFactorBS="caatgatggtttcttttttgttcataaatcagacaaaacttt tCTCTTGCAaaagtttgtgaagTGTTGCACAATATAAATGTGaaatacttcacaaaca a" /listShort="ldh, lctP" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 329694 /Source="Nicolas_upshifts" /id="U222" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.753246753246753" /psig=1 /xcortree=1599 /SigmaFactorBS="caatgatggtttcttttttgttcataaatcagacaaaacttt tCTCTTGCAaaagtttgtgaagTGTTGCACAATATAAATGTGaaatacttcacaaaca a" /listShort="ldh, lctP" /GFF_Attribute="listLong" promotor_-10 329698..329717 /Source="Nicolas_upshift_promotors" /id="U222" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.753246753246753" /psig=1 /xcortree=1599 /SigmaFactorBS="caatgatggtttcttttttgttcataaatcagacaaaacttt tCTCTTGCAaaagtttgtgaagTGTTGCACAATATAAATGTGaaatacttcacaaaca a" /listShort="ldh, lctP" /GFF_Attribute="listLong" /label="promotor_-10" CDS 329774..330739 /gene="lctE" /locus_tag="BSU_03050" /old_locus_tag="BSU03050" /EC_number="1.1.1.27" /function="16.10: Respire" /experiment="publication(s) with functional evidences, PMID:10809684, 16207915, 19383131" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10809684, 16207915, 19383131; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="L-lactate dehydrogenase" /protein_id="NP_388187.2" /db_xref="EnsemblGenomes-Gn:BSU03050" /db_xref="EnsemblGenomes-Tr:CAB12099" /db_xref="GOA:P13714" /db_xref="InterPro:IPR001236" /db_xref="InterPro:IPR001557" /db_xref="InterPro:IPR011304" /db_xref="InterPro:IPR015955" /db_xref="InterPro:IPR018177" /db_xref="InterPro:IPR022383" /db_xref="InterPro:IPR036291" /db_xref="PDB:3PQD" /db_xref="PDB:3PQE" /db_xref="PDB:3PQF" /db_xref="SubtiList:BG19003" /db_xref="UniProtKB/Swiss-Prot:P13714" /translation="MMNKHVNKVALIGAGFVGSSYAFALINQGITDELVVIDVNKEKA MGDVMDLNHGKAFAPQPVKTSYGTYEDCKDADIVCICAGANQKPGETRLELVEKNLKI FKGIVSEVMASGFDGIFLVATNPVDILTYATWKFSGLPKERVIGSGTTLDSARFRFML SEYFGAAPQNVHAHIIGEHGDTELPVWSHANVGGVPVSELVEKNDAYKQEELDQIVDD VKNAAYHIIEKKGATYYGVAMSLARITKAILHNENSILTVSTYLDGQYGADDVYIGVP AVVNRGGIAGITELNLNEKEKEQFLHSAGVLKNILKPHFAEQKVN*" gene 329774..330739 /gene="lctE" /locus_tag="BSU_03050" /old_locus_tag="BSU03050" CDS 330771..332396 /gene="lctP" /locus_tag="BSU_03060" /old_locus_tag="BSU03060" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:10809684, 15849754, 16428414, 16850406" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10809684, 15849754, 16428414, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="L-lactate permease" /protein_id="NP_388188.2" /db_xref="EnsemblGenomes-Gn:BSU03060" /db_xref="EnsemblGenomes-Tr:CAB12100" /db_xref="GOA:P55910" /db_xref="InterPro:IPR003804" /db_xref="SubtiList:BG12001" /db_xref="UniProtKB/Swiss-Prot:P55910" /translation="MWEQLYDPFGNEYVSALVALTPILFFLLALTVLKMKGILAAFLT LAVSFFVSVWAFHMPVEKAISSVLLGIGSGLWPIGYIVLMAVWLYKIAVKTGKFTIIR SSIAGISPDQRLQLLLIGFCFNAFLEGAAGFGVPIAISAALLVELGFKPLKAAALCLI ANAASGAFGAIGIPVITGAQIGDLSALELSRTLMWTLPMISFLIPFLLVFLLDRMKGI KQTWPALLVVSGGYTAVQTLTMAVLGPELANILAALFSMGGLALFLRKWQPKEIYREE GAGDAGEKKAYRAADIAKAWSPFYILTAAITIWSLPAFKALFQEGGLLYQSTLLFKMP FLHQQIMKMPPIAPSAMPLDAVFKVDLLSATGTAILAAVIVTGLFSKKFSSRDAFASL KETGKELWVPIMTICFVMGFANLANFAGLSSSIGLALAKTGDLFPFVSPVLGWIGVFI TGSVVSNNALFGHLQVVTGAQIGAGSDLLLAANTAGGVMAKLVSPQSIAIAAAAVGQT GKESKLFKRTVAYSLILLLIICIWTFILARLGV*" gene 330771..332396 /gene="lctP" /locus_tag="BSU_03060" /old_locus_tag="BSU03060" downshifts 330777 /Source="Nicolas_upshifts" /id="D132" /incds=0 /nref=1 /ntot=16 /MaxReadThrough="8.56142" /MaxDrop="2.8862" /score="-8.82332571" /energy="-3.4" /TU="U222" /idTUdmin="U221" /TUdmin=1144 /isTUend="FALSE" downshifts 332383 /Source="Nicolas_upshifts" /id="D133" /incds=0 /nref=51 /ntot=118 /MaxReadThrough="2.31168" /MaxDrop="7.73065" /score="39.575264" /energy="-15.6" /TU="NA" /idTUdmin="U222" /TUdmin=0 /isTUend="TRUE" CDS complement(332441..333979) /gene="mdr" /locus_tag="BSU_03070" /old_locus_tag="BSU03070" /function="16.1: Circulate" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:9023234, 15489457, 15849754, 16850406, 21690368" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9023234, 15489457, 15849754, 16850406, 21690368; Product type t : transporter" /codon_start=1 /transl_table=11 /product="multidrug-efflux transporter" /protein_id="NP_388189.2" /db_xref="EnsemblGenomes-Gn:BSU03070" /db_xref="EnsemblGenomes-Tr:CAB12101" /db_xref="GOA:P96712" /db_xref="InterPro:IPR004638" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12002" /db_xref="UniProtKB/Swiss-Prot:P96712" /translation="MDTTTAKQASTKFVVLGLLLGILMSAMDNTIVATAMGNIVADLG SFDKFAWVTASYMVAVMAGMPIYGKLSDMYGRKRFFLFGLIFFLIGSALCGIAQTMNQ LIIFRAIQGIGGGALLPIAFTIIFDLFPPEKRGKMSGMFGAVFGLSSVLGPLLGAIIT DSISWHWVFYINVPIGALSLFFIIRYYKESLEHRKQKIDWGGAITLVVSIVCLMFALE LGGKTYDWNSIQIIGLFIVFAVFFIAFFIVERKAEEPIISFWMFKNRLFATAQILAFL YGGTFIILAVFIPIFVQAVYGSSATSAGFILTPMMIGSVIGSMIGGIFQTKASFRNLM LISVIAFFIGMLLLSNMTPDTARVWLTVFMMISGFGVGFNFSLLPAASMNDLEPRFRG TANSTNSFLRSFGMTLGVTIFGTVQTNVFTNKLNDAFSGMKGSAGSGAAQNIGDPQEI FQAGTRSQIPDAILNRIIDAMSSSITYVFLLALIPIVLAAVTILFMGKARVKTTAEMT KKAN*" gene complement(332441..333979) /gene="mdr" /locus_tag="BSU_03070" /old_locus_tag="BSU03070" downshifts complement(332459) /Source="Nicolas_upshifts" /id="D134" /incds=0 /nref=70 /ntot=182 /MaxReadThrough="1.04964" /MaxDrop="4.53635" /score="30.8374042" /energy="-15.6" /TU="NA" /idTUdmin="U225" /TUdmin=0 /isTUend="TRUE" promotor_no_box complement(333033..333133) /Source="Nicolas_upshift_promotors" /id="U223" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.495504495504495" /psig="0.002997002997003" /xcortree=1728 /SigmaFactorBS="attttagcggtatttattccgattttcgttcaggcggtctac ggcagctcggcgacaagcgcgggcttcattctgacgccgatgatgattggatcagtca t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts complement(333073) /Source="Nicolas_upshifts" /id="U223" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.495504495504495" /psig="0.002997002997003" /xcortree=1728 /SigmaFactorBS="attttagcggtatttattccgattttcgttcaggcggtctac ggcagctcggcgacaagcgcgggcttcattctgacgccgatgatgattggatcagtca t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 333993..333997 /Source="Nicolas_upshift_promotors" /id="U224" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.772227772227772" /psig="0.971028971028971" /xcortree=2583 /SigmaFactorBS="ttgttgtgtccatttgttctacctccTCTTActtttctatgt aagtTCTGATATCATGATAATAGTttgattgttgaatatctcgattatcaagataaac t" /listShort="ycgE, ycgF, ycgG" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 334013..334032 /Source="Nicolas_upshift_promotors" /id="U224" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.772227772227772" /psig="0.971028971028971" /xcortree=2583 /SigmaFactorBS="ttgttgtgtccatttgttctacctccTCTTActtttctatgt aagtTCTGATATCATGATAATAGTttgattgttgaatatctcgattatcaagataaac t" /listShort="ycgE, ycgF, ycgG" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 334027 /Source="Nicolas_upshifts" /id="U224" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.772227772227772" /psig="0.971028971028971" /xcortree=2583 /SigmaFactorBS="ttgttgtgtccatttgttctacctccTCTTActtttctatgt aagtTCTGATATCATGATAATAGTttgattgttgaatatctcgattatcaagataaac t" /listShort="ycgE, ycgF, ycgG" /GFF_Attribute="listLong" promotor_-10 complement(334059..334078) /Source="Nicolas_upshift_promotors" /id="U225" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.501498501498502" /psig="0.999000999001" /xcortree=2540 /SigmaFactorBS="ccaactcacttctggaatttcttGTTGACAactgacagtcct ccCTATAAAATCGAGTTTATCTtgataatcgagatattcaacaatcaaactattatca t" /listShort="mdr" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(334062) /Source="Nicolas_upshifts" /id="U225" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.501498501498502" /psig="0.999000999001" /xcortree=2540 /SigmaFactorBS="ccaactcacttctggaatttcttGTTGACAactgacagtcct ccCTATAAAATCGAGTTTATCTtgataatcgagatattcaacaatcaaactattatca t" /listShort="mdr" /GFF_Attribute="listLong" CDS 334092..334556 /gene="ycgE" /locus_tag="BSU_03080" /old_locus_tag="BSU03080" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator" /protein_id="NP_388190.2" /db_xref="EnsemblGenomes-Gn:BSU03080" /db_xref="EnsemblGenomes-Tr:CAB12102" /db_xref="GOA:O31472" /db_xref="InterPro:IPR000835" /db_xref="InterPro:IPR011991" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12003" /db_xref="UniProtKB/Swiss-Prot:O31472" /translation="MSTRNSRSELEKTAVQLFRKLGTRTVLFHQAAAQALGLFPTDLK SADILNEAGPMTAGELGKKTGLSTGSVTALVDRLEKAGYVAREKDPNDRRRVVIVPLT ASKKHIKDLFRPLSESTMDLCREYTEEELELIFSFVGKAADIMEEELERLKQ*" gene 334092..334556 /gene="ycgE" /locus_tag="BSU_03080" /old_locus_tag="BSU03080" promotor_-35 complement(334093..334099) /Source="Nicolas_upshift_promotors" /id="U225" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.501498501498502" /psig="0.999000999001" /xcortree=2540 /SigmaFactorBS="ccaactcacttctggaatttcttGTTGACAactgacagtcct ccCTATAAAATCGAGTTTATCTtgataatcgagatattcaacaatcaaactattatca t" /listShort="mdr" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 334566..334571 /Source="Nicolas_upshift_promotors" /id="U226" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=970 /SigmaFactorBS="ttgaacgtctgaaacagtaagtgaatttgTGCATAgcttggc ccgttcccGAATAAATTGTACAAGTTAcataagagaagggagtacgggccggtgaaca t" /listShort="ycgF, ycgG" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 334587..334605 /Source="Nicolas_upshift_promotors" /id="U226" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=970 /SigmaFactorBS="ttgaacgtctgaaacagtaagtgaatttgTGCATAgcttggc ccgttcccGAATAAATTGTACAAGTTAcataagagaagggagtacgggccggtgaaca t" /listShort="ycgF, ycgG" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 334597 /Source="Nicolas_upshifts" /id="U226" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=970 /SigmaFactorBS="ttgaacgtctgaaacagtaagtgaatttgTGCATAgcttggc ccgttcccGAATAAATTGTACAAGTTAcataagagaagggagtacgggccggtgaaca t" /listShort="ycgF, ycgG" /GFF_Attribute="listLong" CDS 334630..335259 /gene="ycgF" /locus_tag="BSU_03090" /old_locus_tag="BSU03090" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative aminoacid export permease" /protein_id="NP_388191.1" /db_xref="EnsemblGenomes-Gn:BSU03090" /db_xref="EnsemblGenomes-Tr:CAB12103" /db_xref="GOA:P94381" /db_xref="InterPro:IPR001123" /db_xref="SubtiList:BG12004" /db_xref="UniProtKB/Swiss-Prot:P94381" /translation="MNIFLSYIVLGLSLSAPVGPVNAAQIDKGIKNGFWHAWIFGLGA MTADGLYMLFIYFGLSQFLTAPFVKTFLWLFGFFVLTYTGIETLKNVREPMDVRSSRG KPSYRKTFASGFLISLSNPLSILFWLGIYGSILAKTAEAYNMNQLLIYSSGIMIGILI WDFCMAITASTFRNLLHEKLLRGLTGIAGVSLLVFGFYFGYQGIKQLLG*" gene 334630..335259 /gene="ycgF" /locus_tag="BSU_03090" /old_locus_tag="BSU03090" promotor_-35 335270..335279 /Source="Nicolas_upshift_promotors" /id="U227" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=1281 /SigmaFactorBS="caaacagttattgggctgattcatgaaggACAGTCACCTgcc gcttccagttTTAATATAGTATCCAGATGAtactggaggtggatcaatggtgaatggg a" /listShort="ycgG" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 335293..335312 /Source="Nicolas_upshift_promotors" /id="U227" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=1281 /SigmaFactorBS="caaacagttattgggctgattcatgaaggACAGTCACCTgcc gcttccagttTTAATATAGTATCCAGATGAtactggaggtggatcaatggtgaatggg a" /listShort="ycgG" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 335301 /Source="Nicolas_upshifts" /id="U227" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=1281 /SigmaFactorBS="caaacagttattgggctgattcatgaaggACAGTCACCTgcc gcttccagttTTAATATAGTATCCAGATGAtactggaggtggatcaatggtgaatggg a" /listShort="ycgG" /GFF_Attribute="listLong" CDS 335329..336090 /gene="ycgG" /locus_tag="BSU_03100" /old_locus_tag="BSU03100" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function (similar to phage protein)" /protein_id="NP_388192.2" /db_xref="EnsemblGenomes-Gn:BSU03100" /db_xref="EnsemblGenomes-Tr:CAB12104" /db_xref="InterPro:IPR014988" /db_xref="SubtiList:BG12005" /db_xref="UniProtKB/Swiss-Prot:P94382" /translation="MVNGIYTKSFLERIQEELPEWQRIAFELLAETLGDDADTFPCIP GRQAFLTDQLRIAFAGDPRENRTAEELAPLLAEYGKISRDTGKYASLVVLFDTPEDLA EHYSIEAYEELFWRFLNRLSHQDEKEWPEDIPADPEHYKWEFCFDGEPYFILCATPGH EARRSRSFPFFMVTFQPRWVFDDLNGSTAFGRNMSRLIRSRLEAYDQAPIHPQLGWYG GKDNREWKQYFLRDDEKQVSKCPFSYLKNMFNKMK*" gene 335329..336090 /gene="ycgG" /locus_tag="BSU_03100" /old_locus_tag="BSU03100" S_feature complement(335729..336091) /Source="Nicolas_S_feature" /locus_tag="new_335729_336091_c" /HighExp="S8, S7, S5, S6, S4, nit, ferm, BT, Pyr, G/S" /AntisenseName="ycgG" /AntisenseCor="0.73875580854115197" /AntisenseRegPval="-46.9" /CDS_PredictionProba="NA" /TUshortSig="SigGF" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S109" downshifts 336087 /Source="Nicolas_upshifts" /id="D135" /incds=0 /nref=21 /ntot=174 /MaxReadThrough="1.53211" /MaxDrop="4.92685" /score="6.36985882" /energy="-8.6" /TU="NA" /idTUdmin="U227" /TUdmin="-6" /isTUend="TRUE" CDS complement(336092..337432) /gene="ycgH" /locus_tag="BSU_03110" /old_locus_tag="BSU03110" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative amino acid transporter" /protein_id="NP_388193.2" /db_xref="EnsemblGenomes-Gn:BSU03110" /db_xref="EnsemblGenomes-Tr:CAB12105" /db_xref="GOA:P94383" /db_xref="InterPro:IPR002293" /db_xref="InterPro:IPR004841" /db_xref="SubtiList:BG12006" /db_xref="UniProtKB/Swiss-Prot:P94383" /translation="MSQTKKDQPKGNLAWWQLSLIGVGCTIGTGFFLGSSIAIVKSGF SVLLSFLIAGIGTYFVFEQLAKLSAKQPEKGSFCAYARKAFGKWAGFSNGWVYWTSEM LITGSQLTAISLFTKHWFPQVPLWVFASIYAVLGLLIIFTGLSVFEKTENVLAVIKTA AIFMFIVIAILALCGILSGGNHGIHVPNKTSEFFPYGAMGLWTGLIYAFYAFGGIEVM GLMAVHLKKPEEASKSGKLMLATLAIIYIISIGLALLLVPLHTFTEQDSPFITSLKGY NLEIILDIFNGIFIIAGFSTLVASLFAVTTLLCTMADDGDAPKCFTLKEGKKICWPAL GLTFAGLVLSIILSLVLPKNIYEHMTTAAGLMLLYTWLFILFSSKKLTDPEGMGKTQI YLAMVLIAAAVSGTLFEKSSRPGFFVSIGFLVIIAIVTMIYQKKQGHKDRPASP*" gene complement(336092..337432) /gene="ycgH" /locus_tag="BSU_03110" /old_locus_tag="BSU03110" promotor_-10 complement(337459..337470) /Source="Nicolas_upshift_promotors" /id="U228" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=918 /SigmaFactorBS="ctgcttccttctccatgtaaaaagaggcaaaaatccgaTGTA TATaagctttggacagaTCACAATCTAACcttagataaaaggggttgaataaataatg a" /listShort="ycgH, S109" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(337469) /Source="Nicolas_upshifts" /id="U228" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=918 /SigmaFactorBS="ctgcttccttctccatgtaaaaagaggcaaaaatccgaTGTA TATaagctttggacagaTCACAATCTAACcttagataaaaggggttgaataaataatg a" /listShort="ycgH, S109" /GFF_Attribute="listLong" promotor_-35 complement(337485..337491) /Source="Nicolas_upshift_promotors" /id="U228" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=918 /SigmaFactorBS="ctgcttccttctccatgtaaaaagaggcaaaaatccgaTGTA TATaagctttggacagaTCACAATCTAACcttagataaaaggggttgaataaataatg a" /listShort="ycgH, S109" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 337511..337517 /Source="Nicolas_upshift_promotors" /id="U229" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=817 /SigmaFactorBS="ttgtgatctgtccaaagcttatatacatcggatttttgcctc ttttTACATGGagaaggaagcagacGCTCATACTAATgaaaaaaggagcaaaccaatg a" /listShort="ycgI" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 337525 /Source="Nicolas_upshifts" /id="U229" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=817 /SigmaFactorBS="ttgtgatctgtccaaagcttatatacatcggatttttgcctc ttttTACATGGagaaggaagcagacGCTCATACTAATgaaaaaaggagcaaaccaatg a" /listShort="ycgI" /GFF_Attribute="listLong" promotor_-10 337532..337543 /Source="Nicolas_upshift_promotors" /id="U229" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=817 /SigmaFactorBS="ttgtgatctgtccaaagcttatatacatcggatttttgcctc ttttTACATGGagaaggaagcagacGCTCATACTAATgaaaaaaggagcaaaccaatg a" /listShort="ycgI" /GFF_Attribute="listLong" /label="promotor_-10" CDS 337562..338158 /gene="ycgI" /locus_tag="BSU_03120" /old_locus_tag="BSU03120" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1b: Function from experimental evidences in the studied species; PubMedId: 16433904, 28898812; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="xenotiotic metabolite methyltransferase" /protein_id="NP_388194.3" /db_xref="EnsemblGenomes-Gn:BSU03120" /db_xref="EnsemblGenomes-Tr:CAB12106" /db_xref="InterPro:IPR018959" /db_xref="SubtiList:BG12007" /db_xref="UniProtKB/Swiss-Prot:O31473" /translation="MTQQYIVEPKKGLGLKLKKGQILKVVDVEGQQVADFVAYHAKDF YEHLDQGATIDANHSIHVKVNDHLYSNLYKPMLTLIEDTVGKHDLLLPACRPDMNRLL YGKQKDEFQDTCYDNMNRALEQFGVPKPHMHYPFAIFMNTVLDEKGNLSVETPLSNAG DYVRLRAEMDLIVAFSSCPIEKGKCNGDSVTSIRVEVS*" gene 337562..338158 /gene="ycgI" /locus_tag="BSU_03120" /old_locus_tag="BSU03120" promotor_-35 338166..338173 /Source="Nicolas_upshift_promotors" /id="U230" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.471528471528472" /psig="0.99100899100899" /xcortree=104 /SigmaFactorBS="gtgtgacatccatacgggttgaagtcagctgatctctctTGT TCACAgtgaatgaagaccTGTGCTATATTTAATAGGGAtacataacagtcatgattca t" /listShort="S110, nadE" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 338187..338287 /Source="Nicolas_S_feature" /locus_tag="new_338187_338287" /HighExp="dia15, LBGtran, dia5, Etha, dia0, LBGexp, M0t45, Lbexp, Diami, Heat" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.991" /TUlongSig="NA" /TUlongPSig="NA" /label="S110" promotor_-10 338187..338206 /Source="Nicolas_upshift_promotors" /id="U230" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.471528471528472" /psig="0.99100899100899" /xcortree=104 /SigmaFactorBS="gtgtgacatccatacgggttgaagtcagctgatctctctTGT TCACAgtgaatgaagaccTGTGCTATATTTAATAGGGAtacataacagtcatgattca t" /listShort="S110, nadE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 338187 /Source="Nicolas_upshifts" /id="U230" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.471528471528472" /psig="0.99100899100899" /xcortree=104 /SigmaFactorBS="gtgtgacatccatacgggttgaagtcagctgatctctctTGT TCACAgtgaatgaagaccTGTGCTATATTTAATAGGGAtacataacagtcatgattca t" /listShort="S110, nadE" /GFF_Attribute="listLong" downshifts complement(338283) /Source="Nicolas_upshifts" /id="D136" /incds=0 /nref=3 /ntot=24 /MaxReadThrough="1.2989" /MaxDrop="4.67402" /score="15.0992897" /energy="-14.1" /TU="NA" /idTUdmin="U233" /TUdmin=1562 /isTUend="FALSE" CDS 338288..339106 /gene="nadE" /locus_tag="BSU_03130" /old_locus_tag="BSU03130" /EC_number="6.3.1.5" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:7890752, 9271869, 12682299, 19204287" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7890752, 9271869, 12682299, 19204287; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="ammonium-dependent NAD+ synthetase" /protein_id="NP_388195.1" /db_xref="EnsemblGenomes-Gn:BSU03130" /db_xref="EnsemblGenomes-Tr:CAB12107" /db_xref="GOA:P08164" /db_xref="InterPro:IPR003694" /db_xref="InterPro:IPR014729" /db_xref="InterPro:IPR022310" /db_xref="InterPro:IPR022926" /db_xref="PDB:1EE1" /db_xref="PDB:1FYD" /db_xref="PDB:1IFX" /db_xref="PDB:1IH8" /db_xref="PDB:1KQP" /db_xref="PDB:1NSY" /db_xref="PDB:2NSY" /db_xref="SubtiList:BG10694" /db_xref="UniProtKB/Swiss-Prot:P08164" /translation="MSMQEKIMRELHVKPSIDPKQEIEDRVNFLKQYVKKTGAKGFVL GISGGQDSTLAGRLAQLAVESIREEGGDAQFIAVRLPHGTQQDEDDAQLALKFIKPDK SWKFDIKSTVSAFSDQYQQETGDQLTDFNKGNVKARTRMIAQYAIGGQEGLLVLGTDH AAEAVTGFFTKYGDGGADLLPLTGLTKRQGRTLLKELGAPERLYLKEPTADLLDEKPQ QSDETELGISYDEIDDYLEGKEVSAKVSEALEKRYSMTEHKRQVPASMFDDWWK*" gene 338288..339106 /gene="nadE" /locus_tag="BSU_03130" /old_locus_tag="BSU03130" downshifts 339088 /Source="Nicolas_upshifts" /id="D137" /incds=0 /nref=144 /ntot=271 /MaxReadThrough="2.68866" /MaxDrop="6.24927" /score="20.6612287" /energy="-14.1" /TU="U230" /idTUdmin="U230" /TUdmin="-65" /isTUend="FALSE" CDS complement(339156..339749) /gene="tmrB" /locus_tag="BSU_03140" /old_locus_tag="BSU03140" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:1624425, 7766032, 15131133, 27315722" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1624425, 7766032, 15131133, 27315722; Product type f: factor" /codon_start=1 /transl_table=11 /product="ATP-binding tunicamycin resistance protein" /protein_id="NP_388196.2" /db_xref="EnsemblGenomes-Gn:BSU03140" /db_xref="EnsemblGenomes-Tr:CAB12108" /db_xref="GOA:P12921" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG10456" /db_xref="UniProtKB/Swiss-Prot:P12921" /translation="MIIWINGAFGSGKTQTAFELHRRLNPSYVYDPEKMGFALRSMVP QEIAKDDFQSYPLWRAFNYSLLASLTDTYRGILIVPMTIVHPEYFNEIIGRLRQEGRI VHHFTLMASKETLLKRLRTRAEGKNSWAAKQIDRCVEGLSSPIFEDHIQTDNLSIQDV AENIAARAELPLDPDTRGSLRRFADRLMVKLNHIRIK*" gene complement(339156..339749) /gene="tmrB" /locus_tag="BSU_03140" /old_locus_tag="BSU03140" downshifts complement(339163) /Source="Nicolas_upshifts" /id="D138" /incds=0 /nref=10 /ntot=143 /MaxReadThrough="0.60282" /MaxDrop="3.74815" /score="15.0992897" /energy="-14.1" /TU="NA" /idTUdmin="U233" /TUdmin=682 /isTUend="FALSE" promotor_-10 complement(339764..339783) /Source="Nicolas_upshift_promotors" /id="U231" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.779220779220779" /psig="0.999000999001" /xcortree=3131 /SigmaFactorBS="gttaaaaccttccgcctttattgtttttccagctgactCTTC gatggaagggtcttTTTCTGTATGATAAATAGGAagggagaaatggcgatgatcattt g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(339779) /Source="Nicolas_upshifts" /id="U231" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.779220779220779" /psig="0.999000999001" /xcortree=3131 /SigmaFactorBS="gttaaaaccttccgcctttattgtttttccagctgactCTTC gatggaagggtcttTTTCTGTATGATAAATAGGAagggagaaatggcgatgatcattt g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(339798..339801) /Source="Nicolas_upshift_promotors" /id="U231" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.779220779220779" /psig="0.999000999001" /xcortree=3131 /SigmaFactorBS="gttaaaaccttccgcctttattgtttttccagctgactCTTC gatggaagggtcttTTTCTGTATGATAAATAGGAagggagaaatggcgatgatcattt g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" S_feature complement(339807..339955) /Source="Nicolas_S_feature" /locus_tag="new_339807_339955_c" /HighExp="S4, S3, S6, S5, S7, BT, S8, LoTm, T5.0H, B36" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig="0.987" /TUlongSig="NA" /TUlongPSig="NA" /label="S111" promotor_-35 339857..339864 /Source="Nicolas_upshift_promotors" /id="U232" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.495504495504495" /psig="0.997002997002997" /xcortree=3017 /SigmaFactorBS="aaaggcggaaggttttaacgcttttttgcgtcgaagTATTAA AAtacctgcagaaaTGTTGTACAATGAATGTCATtcaggcaaaaatggctacaacaaa g" /listShort="S112, aroK" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 339877..339896 /Source="Nicolas_upshift_promotors" /id="U232" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.495504495504495" /psig="0.997002997002997" /xcortree=3017 /SigmaFactorBS="aaaggcggaaggttttaacgcttttttgcgtcgaagTATTAA AAtacctgcagaaaTGTTGTACAATGAATGTCATtcaggcaaaaatggctacaacaaa g" /listShort="S112, aroK" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 339879..339987 /Source="Nicolas_S_feature" /locus_tag="new_339879_339987" /HighExp="Diami, BMM, GM 15, GM 25, GM 120, GM 60, GM 10, G180, GM 45, M9-exp" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.997" /TUlongSig="NA" /TUlongPSig="NA" /label="S112" upshifts 339881 /Source="Nicolas_upshifts" /id="U232" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.495504495504495" /psig="0.997002997002997" /xcortree=3017 /SigmaFactorBS="aaaggcggaaggttttaacgcttttttgcgtcgaagTATTAA AAtacctgcagaaaTGTTGTACAATGAATGTCATtcaggcaaaaatggctacaacaaa g" /listShort="S112, aroK" /GFF_Attribute="listLong" promotor_-10 complement(339949..339967) /Source="Nicolas_upshift_promotors" /id="U233" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.987012987012987" /psig="0.987012987012987" /xcortree=1121 /SigmaFactorBS="tcttcggcgaaatcctcctaaggaatgaaattatataTTCAT TatatgcttatttagcGAATATTTATATAGATACCggctttaccggtcaagcttatag t" /listShort="S111" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 339955..339962 /Source="Nicolas_upshift_promotors" /id="U234" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.943056943056943" /psig="0.988011988011988" /xcortree=1750 /SigmaFactorBS="taagcttgaccggtaaagccggtatcTATATAAAtattcgct aaataaGCATATAATGAATATATAATttcattccttaggaggatttcgccgaagatga a" /listShort="aroK" /GFF_Attribute="listLong" /label="promotor_-35" upshifts complement(339965) /Source="Nicolas_upshifts" /id="U233" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.987012987012987" /psig="0.987012987012987" /xcortree=1121 /SigmaFactorBS="tcttcggcgaaatcctcctaaggaatgaaattatataTTCAT TatatgcttatttagcGAATATTTATATAGATACCggctttaccggtcaagcttatag t" /listShort="S111" /GFF_Attribute="listLong" promotor_-10 339977..339996 /Source="Nicolas_upshift_promotors" /id="U234" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.943056943056943" /psig="0.988011988011988" /xcortree=1750 /SigmaFactorBS="taagcttgaccggtaaagccggtatcTATATAAAtattcgct aaataaGCATATAATGAATATATAATttcattccttaggaggatttcgccgaagatga a" /listShort="aroK" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(339983..339988) /Source="Nicolas_upshift_promotors" /id="U233" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.987012987012987" /psig="0.987012987012987" /xcortree=1121 /SigmaFactorBS="tcttcggcgaaatcctcctaaggaatgaaattatataTTCAT TatatgcttatttagcGAATATTTATATAGATACCggctttaccggtcaagcttatag t" /listShort="S111" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 339989 /Source="Nicolas_upshifts" /id="U234" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.943056943056943" /psig="0.988011988011988" /xcortree=1750 /SigmaFactorBS="taagcttgaccggtaaagccggtatcTATATAAAtattcgct aaataaGCATATAATGAATATATAATttcattccttaggaggatttcgccgaagatga a" /listShort="aroK" /GFF_Attribute="listLong" CDS 340025..340585 /gene="aroK" /locus_tag="BSU_03150" /old_locus_tag="BSU03150" /EC_number="2.7.1.71" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 170268, 7612934, 27339308; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="shikimate kinase" /protein_id="NP_388197.2" /db_xref="EnsemblGenomes-Gn:BSU03150" /db_xref="EnsemblGenomes-Tr:CAB12109" /db_xref="GOA:P37944" /db_xref="InterPro:IPR000623" /db_xref="InterPro:IPR023000" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR031322" /db_xref="SubtiList:BG10457" /db_xref="UniProtKB/Swiss-Prot:P37944" /translation="MNAKRAIPVRERNIVLIGFMGVGKTTIGQLVAKKLYRDFIDIDQ QIEKDFNMSIPEIFEKKGEDFFRKTEKEYILDICHHKRFKIVSLGGGSFKQEEIRNCC LENCLVLHLDLSWENWKQRADLLIESRPVLHNRSMDEMEQLFNERKVIYDKHNSKVAT DNLSPEEVADYIVETLKIGWDLYQPM*" gene 340025..340585 /gene="aroK" /locus_tag="BSU_03150" /old_locus_tag="BSU03150" downshifts 340562 /Source="Nicolas_upshifts" /id="D139" /incds=0 /nref=21 /ntot=239 /MaxReadThrough="2.07607" /MaxDrop="4.67156" /score="44.9099474" /energy="-13.1" /TU="NA" /idTUdmin="U232" /TUdmin=1 /isTUend="TRUE" CDS complement(340613..341374) /gene="ycgJ" /locus_tag="BSU_03160" /old_locus_tag="BSU03160" /EC_number="2.1.1.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1b: Function from experimental evidences in the studied species; PubMedId: 28898812; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="xenotiotic metabolite methyltransferase" /protein_id="NP_388198.2" /db_xref="EnsemblGenomes-Gn:BSU03160" /db_xref="EnsemblGenomes-Tr:CAB12110" /db_xref="GOA:O31474" /db_xref="InterPro:IPR013216" /db_xref="InterPro:IPR029063" /db_xref="PDB:1XXL" /db_xref="PDB:2GLU" /db_xref="SubtiList:BG12008" /db_xref="UniProtKB/Swiss-Prot:O31474" /translation="MTNETPFSKNAEMYRDEKVFAEGEDLGLMIKTAECRAEHRVLDI GAGAGHTALAFSPYVQECIGVDATKEMVEVASSFAQEKGVENVRFQQGTAESLPFPDD SFDIITCRYAAHHFSDVRKAVREVARVLKQDGRFLLVDHYAPEDPVLDEFVNHLNRLR DPSHVRESSLSEWQAMFSANQLAYQDIQKWNLPIQYDSWIKRGGTPADREKQIITHLN HASDEARDTFCITLNQNGQPISFCLKAILIQGIKR*" gene complement(340613..341374) /gene="ycgJ" /locus_tag="BSU_03160" /old_locus_tag="BSU03160" downshifts complement(340637) /Source="Nicolas_upshifts" /id="D140" /incds=0 /nref=3 /ntot=55 /MaxReadThrough="0.31391" /MaxDrop="3.85249" /score="18.9843263" /energy="-13.1" /TU="NA" /idTUdmin="U235" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(341406..341425) /Source="Nicolas_upshift_promotors" /id="U235" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.392607392607393" /psig="0.942057942057942" /xcortree=1808 /SigmaFactorBS="acctatcattttcatcatttttatatcTTGGACgaatcataa cagaaATTGCTAACATAATCCATATcatcatttacgaaaagaaggagctggttcaaat g" /listShort="ycgJ" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 341407..341414 /Source="Nicolas_upshift_promotors" /id="U236" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.662337662337662" /psig="0.983016983016983" /xcortree=1867 /SigmaFactorBS="cagctccttcttttcgtaaatgatgaTATGGATTatgttagc aatttcTGTTATGATTCGTCCAAGATataaaaatgatgaaaatgataggttcaaccta t" /listShort="ycgK, S113, cah, S114, ycgL" /GFF_Attribute="listLong" /label="promotor_-35" upshifts complement(341412) /Source="Nicolas_upshifts" /id="U235" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.392607392607393" /psig="0.942057942057942" /xcortree=1808 /SigmaFactorBS="acctatcattttcatcatttttatatcTTGGACgaatcataa cagaaATTGCTAACATAATCCATATcatcatttacgaaaagaaggagctggttcaaat g" /listShort="ycgJ" /GFF_Attribute="listLong" promotor_-10 341429..341448 /Source="Nicolas_upshift_promotors" /id="U236" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.662337662337662" /psig="0.983016983016983" /xcortree=1867 /SigmaFactorBS="cagctccttcttttcgtaaatgatgaTATGGATTatgttagc aatttcTGTTATGATTCGTCCAAGATataaaaatgatgaaaatgataggttcaaccta t" /listShort="ycgK, S113, cah, S114, ycgL" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(341440..341445) /Source="Nicolas_upshift_promotors" /id="U235" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.392607392607393" /psig="0.942057942057942" /xcortree=1808 /SigmaFactorBS="acctatcattttcatcatttttatatcTTGGACgaatcataa cagaaATTGCTAACATAATCCATATcatcatttacgaaaagaaggagctggttcaaat g" /listShort="ycgJ" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 341441 /Source="Nicolas_upshifts" /id="U236" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.662337662337662" /psig="0.983016983016983" /xcortree=1867 /SigmaFactorBS="cagctccttcttttcgtaaatgatgaTATGGATTatgttagc aatttcTGTTATGATTCGTCCAAGATataaaaatgatgaaaatgataggttcaaccta t" /listShort="ycgK, S113, cah, S114, ycgL" /GFF_Attribute="listLong" CDS 341492..342466 /gene="ycgK" /locus_tag="BSU_03170" /old_locus_tag="BSU03170" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10939241; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (LysR family)" /protein_id="NP_388199.2" /db_xref="EnsemblGenomes-Gn:BSU03170" /db_xref="EnsemblGenomes-Tr:CAB12111" /db_xref="GOA:P94387" /db_xref="InterPro:IPR000847" /db_xref="InterPro:IPR005119" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12009" /db_xref="UniProtKB/Swiss-Prot:P94387" /translation="MDIKVMEYAAEIARRQSFTKAAEHLHIAQPSLSQQIKKLEAELG LTLFHRSHGSVTLTPHGRRFIEKAEDIIRSRDDLLREMQERSQGIGHKLSIGIPAVTG RYLFPPLLKQFLARYPHVEVQLVEKDPVSLEKMTAKGEVDLSVLSLPIEDERLSITPL LTEPVVLAVPKEKQRWMPPELVALIEKALEEDEGRQPCVPIDMVRNVPFILLKEGFGF RRTVLDLCAESGFKPNAAFKTSHIETAQSLVANGLGVTMAPNMVRRDKDPGVIYLSIQ SAPSRTLVFVFLKNRYVSLTAQAFMELSRESLKQTFDEGCLGNKDENI*" gene 341492..342466 /gene="ycgK" /locus_tag="BSU_03170" /old_locus_tag="BSU03170" S_feature 342467..342537 /Source="Nicolas_S_feature" /locus_tag="new_342467_342537" /HighExp="Diami, dia5, dia15, S1, dia0, C90, LBGexp, Heat, Lbexp, GM 120" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.983" /TUlongSig="NA" /TUlongPSig="NA" /label="S113" CDS 342538..343494 /gene="cah" /locus_tag="BSU_03180" /old_locus_tag="BSU03180" /EC_number="3.1.1.41" /EC_number="3.1.1.72" /function="16.11: Scavenge (Catabolism)" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:12842474, 19837798, 21382014" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12842474, 19837798, 21382014; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="promiscuous acetyl xylan esterase-cephalosporin C deacetylase" /protein_id="NP_388200.1" /db_xref="EnsemblGenomes-Gn:BSU03180" /db_xref="EnsemblGenomes-Tr:CAB12112" /db_xref="GOA:P94388" /db_xref="InterPro:IPR008391" /db_xref="InterPro:IPR029058" /db_xref="PDB:1L7A" /db_xref="PDB:1ODS" /db_xref="PDB:1ODT" /db_xref="SubtiList:BG11919" /db_xref="UniProtKB/Swiss-Prot:P94388" /translation="MQLFDLPLDQLQTYKPEKTAPKDFSEFWKLSLEELAKVQAEPDL QPVDYPADGVKVYRLTYKSFGNARITGWYAVPDKEGPHPAIVKYHGYNASYDGEIHEM VNWALHGYATFGMLVRGQQSSEDTSISPHGHALGWMTKGILDKDTYYYRGVYLDAVRA LEVISSFDEVDETRIGVTGGSQGGGLTIAAAALSDIPKAAVADYPYLSNFERAIDVAL EQPYLEINSFFRRNGSPETEVQAMKTLSYFDIMNLADRVKVPVLMSIGLIDKVTPPST VFAAYNHLETKKELKVYRYFGHEYIPAFQTEKLAFFKQHLKG*" gene 342538..343494 /gene="cah" /locus_tag="BSU_03180" /old_locus_tag="BSU03180" promotor_-35 342953..342959 /Source="Nicolas_upshift_promotors" /id="U237" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=806 /SigmaFactorBS="ttcaccgcacggtcacgctttgggctggatgaCGAAAGGaat tcttgataaagATACATACTATTaccgcggtgtttatttggacgccgtccgcgcgctt g" /listShort="S114, ycgL" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 342974..342985 /Source="Nicolas_upshift_promotors" /id="U237" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=806 /SigmaFactorBS="ttcaccgcacggtcacgctttgggctggatgaCGAAAGGaat tcttgataaagATACATACTATTaccgcggtgtttatttggacgccgtccgcgcgctt g" /listShort="S114, ycgL" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 342981 /Source="Nicolas_upshifts" /id="U237" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=806 /SigmaFactorBS="ttcaccgcacggtcacgctttgggctggatgaCGAAAGGaat tcttgataaagATACATACTATTaccgcggtgtttatttggacgccgtccgcgcgctt g" /listShort="S114, ycgL" /GFF_Attribute="listLong" S_feature 343495..343573 /Source="Nicolas_S_feature" /locus_tag="new_343495_343573" /HighExp="dia5, dia15, Diami, dia0, B36, S1, MG 10, BT, B60, MG t5" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigGF, SigA" /TUshortPSig="0.998, 0.983" /TUlongSig="NA" /TUlongPSig="NA" /label="S114" promotor_-35 343548..343553 /Source="Nicolas_upshift_promotors" /id="U238" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.993006993006993" /psig="0.993006993006993" /xcortree=1193 /SigmaFactorBS="atatcatcaggcggtttttttctgcaaactgccGGAATGaga acagactggagacGAATAGATATGAAACAAAGaatcattgatgaattaaaacggatcg a" /listShort="ycgL, S115, ycgM, ycgN, S116, ycgO" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 343570..343588 /Source="Nicolas_upshift_promotors" /id="U238" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.993006993006993" /psig="0.993006993006993" /xcortree=1193 /SigmaFactorBS="atatcatcaggcggtttttttctgcaaactgccGGAATGaga acagactggagacGAATAGATATGAAACAAAGaatcattgatgaattaaaacggatcg a" /listShort="ycgL, S115, ycgM, ycgN, S116, ycgO" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 343575 /Source="Nicolas_upshifts" /id="U238" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.993006993006993" /psig="0.993006993006993" /xcortree=1193 /SigmaFactorBS="atatcatcaggcggtttttttctgcaaactgccGGAATGaga acagactggagacGAATAGATATGAAACAAAGaatcattgatgaattaaaacggatcg a" /listShort="ycgL, S115, ycgM, ycgN, S116, ycgO" /GFF_Attribute="listLong" CDS 343578..344360 /gene="ycgL" /locus_tag="BSU_03190" /old_locus_tag="BSU03190" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388201.1" /db_xref="EnsemblGenomes-Gn:BSU03190" /db_xref="EnsemblGenomes-Tr:CAB12113" /db_xref="InterPro:IPR018775" /db_xref="SubtiList:BG12010" /db_xref="UniProtKB/Swiss-Prot:P94389" /translation="MKQRIIDELKRIEQSYGVKIVYAVESGSRAWGFPSQDSDYDVRF IYVPKKEWYFSIEQERDVIEEPIHDLLDISGWELRKTLRLFKKSNPPLLEWLSSDIVY YEAFTTAEQLRKLRTEAFKPEASVYHYINMARRNVKDYLQGQEVKIKKYFYVLRPILA CQWIEKHGTIPPMDFTVLMNELVAEPELKAEMETLLERKRRGEELDLEARIDVIHQFI ETEIERIMEAAKELKAEKKDMTSELNRLLLNTVEEVWKDGGS*" gene 343578..344360 /gene="ycgL" /locus_tag="BSU_03190" /old_locus_tag="BSU03190" downshifts 344325 /Source="Nicolas_upshifts" /id="D141" /incds=0 /nref=11 /ntot=63 /MaxReadThrough="3.94077" /MaxDrop="4.37398" /score="0.421649027" /energy="-5.9" /TU="U238" /idTUdmin="U236" /TUdmin=2 /isTUend="TRUE" S_feature 344370..344497 /Source="Nicolas_S_feature" /locus_tag="new_344370_344497" /HighExp="S5, S6, S8, S4, S7, B36, B60, BT, S3, S1" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig="0.993" /TUlongSig="NA" /TUlongPSig="NA" /label="S115" promotor_-35 344474..344478 /Source="Nicolas_upshift_promotors" /id="U239" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.472527472527473" /psig="0.922077922077922" /xcortree=391 /SigmaFactorBS="cacaaaaataatcagaatctttgtattttgagaatATTGTga acgctggttttgTCCATTTACAATAAACTCATacaaatacttcttagattgcggggtg t" /listShort="ycgM, ycgN, S116, ycgO, S118, ycgP" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 344493..344512 /Source="Nicolas_upshift_promotors" /id="U239" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.472527472527473" /psig="0.922077922077922" /xcortree=391 /SigmaFactorBS="cacaaaaataatcagaatctttgtattttgagaatATTGTga acgctggttttgTCCATTTACAATAAACTCATacaaatacttcttagattgcggggtg t" /listShort="ycgM, ycgN, S116, ycgO, S118, ycgP" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 344499 /Source="Nicolas_upshifts" /id="U239" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.472527472527473" /psig="0.922077922077922" /xcortree=391 /SigmaFactorBS="cacaaaaataatcagaatctttgtattttgagaatATTGTga acgctggttttgTCCATTTACAATAAACTCATacaaatacttcttagattgcggggtg t" /listShort="ycgM, ycgN, S116, ycgO, S118, ycgP" /GFF_Attribute="listLong" CDS 344551..345462 /gene="putB" /locus_tag="BSU_03200" /old_locus_tag="BSU03200" /EC_number="1.5.5.2" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:17536821, 2118500, 21840319, 22139509, 26735940" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 17536821, 2118500, 21840319, 22139509, 26735940; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="proline oxidase" /protein_id="NP_388202.1" /db_xref="EnsemblGenomes-Gn:BSU03200" /db_xref="EnsemblGenomes-Tr:CAB12114" /db_xref="GOA:P94390" /db_xref="InterPro:IPR002872" /db_xref="InterPro:IPR008219" /db_xref="InterPro:IPR015659" /db_xref="InterPro:IPR029041" /db_xref="SubtiList:BG12011" /db_xref="UniProtKB/Swiss-Prot:P94390" /translation="MITRDFFLFLSKSGFLNKMARNWGSRVAAGKIIGGNDFNSSIPT IRQLNSQGLSVTVDHLGEFVNSAEVARERTEECIQTIATIADQELNSHVSLKMTSLGL DIDMDLVYENMTKILQTAEKHKIMVTIDMEDEVRCQKTLDIFKDFRKKYEHVSTVLQA YLYRTEKDIDDLDSLNPFLRLVKGAYKESEKVAFPEKSDVDENYKKIIRKQLLNGHYT AIATHDDKMIDFTKQLAKEHGIANDKFEFQMLYGMRSQTQLSLVKEGYNMRVYLPYGE DWYGYFMRRLAERPSNIAFAFKGMTKK*" gene 344551..345462 /gene="putB" /locus_tag="BSU_03200" /old_locus_tag="BSU03200" CDS 345479..347026 /gene="putC" /locus_tag="BSU_03210" /old_locus_tag="BSU03210" /EC_number="1.2.1.88" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:11418582, 17183215, 21840319, 22139509, 25355936" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11418582, 17183215, 21840319, 22139509, 25355936; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="1-pyrroline-5-carboxylate dehydrogenase" /protein_id="NP_388203.2" /db_xref="EnsemblGenomes-Gn:BSU03210" /db_xref="EnsemblGenomes-Tr:CAB12115" /db_xref="GOA:P94391" /db_xref="InterPro:IPR005932" /db_xref="InterPro:IPR015590" /db_xref="InterPro:IPR016160" /db_xref="InterPro:IPR016161" /db_xref="InterPro:IPR016162" /db_xref="InterPro:IPR029510" /db_xref="SubtiList:BG12012" /db_xref="UniProtKB/Swiss-Prot:P94391" /translation="MTTPYKHEPFTNFQDQNNVEAFKKALATVSEYLGKDYPLVINGE RVETEAKIVSINPADKEEVVGRVSKASQEHAEQAIQAAAKAFEEWRYTSPEERAAVLF RAAAKVRRRKHEFSALLVKEAGKPWNEADADTAEAIDFMEYYARQMIELAKGKPVNSR EGEKNQYVYTPTGVTVVIPPWNFLFAIMAGTTVAPIVTGNTVVLKPASATPVIAAKFV EVLEESGLPKGVVNFVPGSGAEVGDYLVDHPKTSLITFTGSREVGTRIFERAAKVQPG QQHLKRVIAEMGGKDTVVVDEDADIELAAQSIFTSAFGFAGQKCSAGSRAVVHEKVYD QVLERVIEITESKVTAKPDSADVYMGPVIDQGSYDKIMSYIEIGKQEGRLVSGGTGDD SKGYFIKPTIFADLDPKARLMQEEIFGPVVAFCKVSDFDEALEVANNTEYGLTGAVIT NNRKHIERAKQEFHVGNLYFNRNCTGAIVGYHPFGGFKMSGTDSKAGGPDYLALHMQA KTISEMF*" gene 345479..347026 /gene="putC" /locus_tag="BSU_03210" /old_locus_tag="BSU03210" promotor_-35 346450..346456 /Source="Nicolas_upshift_promotors" /id="U240" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.411588411588412" /psig="0.994005994005994" /xcortree=2488 /SigmaFactorBS="ggctttgcgggacaaaaatgctctgcaggttcACGTGCAgta gttcatgaaaAAGTGTATGATCAAGTATTAgagcgtgtcattgaaattacggaatcaa a" /listShort="S116, ycgO, S118, ycgP" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 346470..346489 /Source="Nicolas_upshift_promotors" /id="U240" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.411588411588412" /psig="0.994005994005994" /xcortree=2488 /SigmaFactorBS="ggctttgcgggacaaaaatgctctgcaggttcACGTGCAgta gttcatgaaaAAGTGTATGATCAAGTATTAgagcgtgtcattgaaattacggaatcaa a" /listShort="S116, ycgO, S118, ycgP" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 346478 /Source="Nicolas_upshifts" /id="U240" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.411588411588412" /psig="0.994005994005994" /xcortree=2488 /SigmaFactorBS="ggctttgcgggacaaaaatgctctgcaggttcACGTGCAgta gttcatgaaaAAGTGTATGATCAAGTATTAgagcgtgtcattgaaattacggaatcaa a" /listShort="S116, ycgO, S118, ycgP" /GFF_Attribute="listLong" promotor_-35 346561..346567 /Source="Nicolas_upshift_promotors" /id="U241" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.793206793206793" /psig=1 /xcortree=2403 /SigmaFactorBS="aaacctgacagtgcagatgtttatatgggaccTGTCATTgac caaggttctTATGATAAAATTATGAGCTAtattgagatcggaaaacaggaagggcgtt t" /listShort="S116, ycgO" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 346580..346599 /Source="Nicolas_upshift_promotors" /id="U241" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.793206793206793" /psig=1 /xcortree=2403 /SigmaFactorBS="aaacctgacagtgcagatgtttatatgggaccTGTCATTgac caaggttctTATGATAAAATTATGAGCTAtattgagatcggaaaacaggaagggcgtt t" /listShort="S116, ycgO" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 346589 /Source="Nicolas_upshifts" /id="U241" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.793206793206793" /psig=1 /xcortree=2403 /SigmaFactorBS="aaacctgacagtgcagatgtttatatgggaccTGTCATTgac caaggttctTATGATAAAATTATGAGCTAtattgagatcggaaaacaggaagggcgtt t" /listShort="S116, ycgO" /GFF_Attribute="listLong" misc_feature 347025..347029 /Source="Nicolas_upshift_promotors" /id="U242" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.315684315684316" /psig="0.248751248751249" /xcortree=3009 /SigmaFactorBS="cgggccggattacttggctctgcatatgcaagcaaaaacaat cagtgaaatgttctAAGCGggactaaatgggcatcctccctgcgggggtgtccatttc a" /listShort="S116, ycgO, S118, ycgP" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" S_feature 347027..347149 /Source="Nicolas_S_feature" /locus_tag="new_347027_347149" /HighExp="S1, T2.0H, T2.30H, Lbstat, aero, HiOs, BC, Sw, LPh, T3.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.52312199999999998" /TUshortSig="Sig-, SigA, SigA, SigA, SigEF" /TUshortPSig="0.249, 1, 0.994, 0.922, 0.993" /TUlongSig="NA" /TUlongPSig="NA" /label="S116" upshifts 347029 /Source="Nicolas_upshifts" /id="U242" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.315684315684316" /psig="0.248751248751249" /xcortree=3009 /SigmaFactorBS="cgggccggattacttggctctgcatatgcaagcaaaaacaat cagtgaaatgttctAAGCGggactaaatgggcatcctccctgcgggggtgtccatttc a" /listShort="S116, ycgO, S118, ycgP" /GFF_Attribute="listLong" CDS 347150..348571 /gene="putP" /locus_tag="BSU_03220" /old_locus_tag="BSU03220" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:11902719, 14976255, 15849754, 16850406, 21840319, 22139509, 24142252" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11902719, 14976255, 15849754, 16850406, 21840319, 22139509, 24142252; Product type t: transporter" /codon_start=1 /transl_table=11 /product="proline permease" /protein_id="NP_388204.2" /db_xref="EnsemblGenomes-Gn:BSU03220" /db_xref="EnsemblGenomes-Tr:CAB12116" /db_xref="GOA:P94392" /db_xref="InterPro:IPR001734" /db_xref="InterPro:IPR011851" /db_xref="InterPro:IPR018212" /db_xref="SubtiList:BG12013" /db_xref="UniProtKB/Swiss-Prot:P94392" /translation="MLLIGYFAYKRTSNLTDYMLGGRSLGPAVTALSAGAADMSGWLL MGLPGAMFSTGLSGAWIVIGLCLGAWANWLYVAPRLRTYTEKAGNSITIPGFLENRFG DQTKLLRLFSGIVILVFFTFYVSSGMVSGGVLFNSILGMDYHTGLWIVTGVVVAYTLF GGFLAVSWTDFVQGIIMFAALILVPIVTFFHTGGAGDTVAEIRSVDPDMFNIFKGTSV LGIISLFAWGLGYFGQPHIIVRFMAITSVKEIKRARRIGMGWMILSAVGAVLTGLGGI AYYHQRGMTLKDPETIFIQLGNILFHPIITGFLISAILAAIMSTISSQLLVTSSSLVE DLYKSMFRRSASDKELVFLGRLAVLAVSIVALVLAWEKNNTILGLVSYAWAGFGASFG PVVLLSLFWKRMTKWGALAGMIVGAATVIIWANAGLSDFLYEMIPGFAASLLSVFFVS ILTQAPSQAVTDQFNDYQDTMSQ*" gene 347150..348571 /gene="putP" /locus_tag="BSU_03220" /old_locus_tag="BSU03220" S_feature complement(347670..349525) /Source="Nicolas_S_feature" /locus_tag="new_347670_349525_c" /HighExp="T1.0H, T1.30H, T0.30H, T2.0H, T2.30H, T3.0H, T3.30H, C30, T4.0H, Lbstat" /AntisenseName="ycgP" /AntisenseCor="0.143781082577395" /AntisenseRegPval="-1.7" /CDS_PredictionProba="NA" /TUshortSig="SigD" /TUshortPSig="0.679" /TUlongSig="NA" /TUlongPSig="NA" /label="S117" downshifts 348551 /Source="Nicolas_upshifts" /id="D142" /incds=0 /nref=21 /ntot=160 /MaxReadThrough="5.09597" /MaxDrop="4.17771" /score="5.89792272" /energy="-15.9" /TU="U239,U240,U242" /idTUdmin="U238" /TUdmin=4 /isTUend="TRUE" S_feature 348596..348692 /Source="Nicolas_S_feature" /locus_tag="new_348596_348692" /HighExp="S1, LPh, T2.0H, HPh, aero, Lbstat, LoTm, T2.30H, Cold, HiOs" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="Sig-, SigA, SigA" /TUshortPSig="0.249, 0.994, 0.922" /TUlongSig="NA" /TUlongPSig="NA" /label="S118" promotor_-35 348663..348670 /Source="Nicolas_upshift_promotors" /id="U243" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.985014985014985" /psig=1 /xcortree=2392 /SigmaFactorBS="tttttcttttggaaacaaacgtattttttTCTATACAaaaag accccgtatGGATATGATTAAAGTAAAAAaagtataggagaaaaaggtatggaagagc t" /listShort="ycgP" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 348685..348704 /Source="Nicolas_upshift_promotors" /id="U243" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.985014985014985" /psig=1 /xcortree=2392 /SigmaFactorBS="tttttcttttggaaacaaacgtattttttTCTATACAaaaag accccgtatGGATATGATTAAAGTAAAAAaagtataggagaaaaaggtatggaagagc t" /listShort="ycgP" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 348694 /Source="Nicolas_upshifts" /id="U243" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.985014985014985" /psig=1 /xcortree=2392 /SigmaFactorBS="tttttcttttggaaacaaacgtattttttTCTATACAaaaag accccgtatGGATATGATTAAAGTAAAAAaagtataggagaaaaaggtatggaagagc t" /listShort="ycgP" /GFF_Attribute="listLong" CDS 348724..349959 /gene="putR" /locus_tag="BSU_03230" /old_locus_tag="BSU03230" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:21840319, 21964733, 22139509" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 21840319, 21964733, 22139509; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional activator of proline degradationoperon" /protein_id="NP_388205.2" /db_xref="EnsemblGenomes-Gn:BSU03230" /db_xref="EnsemblGenomes-Tr:CAB12117" /db_xref="GOA:P94393" /db_xref="InterPro:IPR025736" /db_xref="InterPro:IPR029016" /db_xref="SubtiList:BG12014" /db_xref="UniProtKB/Swiss-Prot:P94393" /translation="MEELLERVFSFSDVDKLIDFISYELQKPVILESADFFLLAYNSY YINHFDSANQQTIFSKKCPVQIFERFLKDGIIEKLKTEPEPFRVNKIESIGLNQRVVV SAKHKGEVMGYIWIQELDQNLTDEELDFLYETSFHVGKIIYKTNKLKQEKEEKAEDLI KRAIYQQFTSEKELRREAERINTVLPSMFSVVILHAANGDGEAVEDLKENIRSYLNLR DKVSHVLTIESNIVIVVASFSQKSSVSSAASEFINKLLTHFHFQKIPTPIYIGIGNEY NHLLKLGKSYTEALEVIKAAEITGNQENIPYEYAKLGIYRYLESIEQKNEFLEYENKD LALLKAKDEESSTELLKTLEIYLLNNCKTKPAAEQLFIHQNTLNYRIKQITEMTSIDL SDFRTRCQLYLDLMLMKKK*" gene 348724..349959 /gene="putR" /locus_tag="BSU_03230" /old_locus_tag="BSU03230" promotor_-10 complement(349518..349536) /Source="Nicolas_upshift_promotors" /id="U244" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp="0.679320679320679" /psig="0.679320679320679" /xcortree=1717 /SigmaFactorBS="tcaagtgcttctgtgtagctcttgccaagttttaatagGTGA TTATattcgtttccgatACCGATATAAATAGGGGTAggtattttttgaaagtgaaaat g" /listShort="S117" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(349535) /Source="Nicolas_upshifts" /id="U244" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp="0.679320679320679" /psig="0.679320679320679" /xcortree=1717 /SigmaFactorBS="tcaagtgcttctgtgtagctcttgccaagttttaatagGTGA TTATattcgtttccgatACCGATATAAATAGGGGTAggtattttttgaaagtgaaaat g" /listShort="S117" /GFF_Attribute="listLong" promotor_-35 complement(349550..349557) /Source="Nicolas_upshift_promotors" /id="U244" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp="0.679320679320679" /psig="0.679320679320679" /xcortree=1717 /SigmaFactorBS="tcaagtgcttctgtgtagctcttgccaagttttaatagGTGA TTATattcgtttccgatACCGATATAAATAGGGGTAggtattttttgaaagtgaaaat g" /listShort="S117" /GFF_Attribute="listLong" /label="promotor_-35" downshifts complement(349943) /Source="Nicolas_upshifts" /id="D143" /incds=0 /nref=1 /ntot=5 /MaxReadThrough="0.0291099999999993" /MaxDrop="3.08474" /score="-9.94728494" /energy="-16.9" /TU="NA" /idTUdmin="U245" /TUdmin=66 /isTUend="FALSE" CDS complement(349996..350853) /gene="ycgQ" /locus_tag="BSU_03240" /old_locus_tag="BSU03240" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388206.1" /db_xref="EnsemblGenomes-Gn:BSU03240" /db_xref="EnsemblGenomes-Tr:CAB12118" /db_xref="GOA:P94394" /db_xref="InterPro:IPR015402" /db_xref="SubtiList:BG12015" /db_xref="UniProtKB/Swiss-Prot:P94394" /translation="MFRLLVLMGFTFFFYHLHASGNLTKYINMKYAYLSFIAIFLLAI LTAVQAYLFIKSPEKSGHHHDHDCGCGHDHEHDHEQNKPFYQRYLIYVVFLFPLVSGI FFPIATLDSSIVKTKGFSFKAMESGDHYSQTQYLRPDASLYYAQDSYDKQMKQLFNKY SSKKEISLTDDDFLKGMETIYNYPGEFLGRTIEFHGFAYKGNAINKNQLFVLRFGIIH CIADSGVYGMLVEFPKDMDIKDDEWIHIKGTLASEYYQPFKSTLPVVKVTDWNTIKKP DDPYVYRGF*" gene complement(349996..350853) /gene="ycgQ" /locus_tag="BSU_03240" /old_locus_tag="BSU03240" downshifts complement(350009) /Source="Nicolas_upshifts" /id="D144" /incds=0 /nref=48 /ntot=167 /MaxReadThrough="1.97725" /MaxDrop="4.53007" /score="-9.94728494" /energy="-16.9" /TU="NA" /idTUdmin="U245" /TUdmin=0 /isTUend="TRUE" CDS complement(350858..351742) /gene="ycgR" /locus_tag="BSU_03250" /old_locus_tag="BSU03250" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative permease" /protein_id="NP_388207.1" /db_xref="EnsemblGenomes-Gn:BSU03250" /db_xref="EnsemblGenomes-Tr:CAB12119" /db_xref="GOA:P94395" /db_xref="InterPro:IPR005524" /db_xref="SubtiList:BG12016" /db_xref="UniProtKB/Swiss-Prot:P94395" /translation="MTAQSSFLQLNSIFISILIEAIPFILIGVILSGIIQMFVSEEMI ARIMPKNRFLAVLFGALAGVLFPACECGIIPITRRLLLKGVPLHAGVAFMLTAPIINP IVLFSTYIAFGNRWSVVFYRGGLALAVSLIIGVILSYQFKDNQLLKPDEPGHHHHHHG TLLQKLGGTLRHAIDEFFSVGKYLIIGAFIAAAMQTYVKTSTLLAIGQNDVSSSLVMM GLAFVLSLCSEVDAFIASSFSSTFSLGSLIAFLVFGAMVDIKNLLMMLAAFKKRFVFL LITYIVVIVLAGSLLVKG*" gene complement(350858..351742) /gene="ycgR" /locus_tag="BSU_03250" /old_locus_tag="BSU03250" upshifts complement(351794) /Source="Nicolas_upshifts" /id="U245" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.566433566433566" /psig="0.566433566433566" /xcortree=2523 /SigmaFactorBS="tttggaatcctaaccaaagTGAAACGATcctttcccctcctc CGTCAAACAAGCAGtgcctttttttctggtatcataagaaaggcagcttaacatgagc g" /listShort="ycgR, ycgQ" /GFF_Attribute="listLong" promotor_-10 complement(351799..351812) /Source="Nicolas_upshift_promotors" /id="U245" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.566433566433566" /psig="0.566433566433566" /xcortree=2523 /SigmaFactorBS="tttggaatcctaaccaaagTGAAACGATcctttcccctcctc CGTCAAACAAGCAGtgcctttttttctggtatcataagaaaggcagcttaacatgagc g" /listShort="ycgR, ycgQ" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(351827..351835) /Source="Nicolas_upshift_promotors" /id="U245" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.566433566433566" /psig="0.566433566433566" /xcortree=2523 /SigmaFactorBS="tttggaatcctaaccaaagTGAAACGATcctttcccctcctc CGTCAAACAAGCAGtgcctttttttctggtatcataagaaaggcagcttaacatgagc g" /listShort="ycgR, ycgQ" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(351842..352696) /gene="ycgS" /locus_tag="BSU_03260" /old_locus_tag="BSU03260" /EC_number="3.7.1.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative aromatic hydrocarbon hydrolase" /protein_id="NP_388208.1" /db_xref="EnsemblGenomes-Gn:BSU03260" /db_xref="EnsemblGenomes-Tr:CAB12120" /db_xref="GOA:P94396" /db_xref="InterPro:IPR000073" /db_xref="InterPro:IPR029058" /db_xref="SubtiList:BG12017" /db_xref="UniProtKB/Swiss-Prot:P94396" /translation="MKRRVETITFDGGTLEYSVTGKGTPILVMHGGHSNCYEEFGYTA LIEQGYSIITPSRPGYGRTSKEIGKSLANACRFYVKLLDHLQIESVHVIAISAGGPSG ICFASHYPERVNTLTLQSAVTKEWLTPKDTEYKLGEILFRPPVEKWIWKLISSLNNAF PRLMFRAMSPQFSTLPFQRIKSLMNEKDIEAFRKMNSRQRSGEGFLIDLSQTAAVSLK DLQAIICPVLIMQSVYDGLVDLSHAHHAKEHIRGAVLCLLHSWGHLIWLGKEAAETGS ILLGFLES*" gene complement(351842..352696) /gene="ycgS" /locus_tag="BSU_03260" /old_locus_tag="BSU03260" promotor_-10 complement(352715..352734) /Source="Nicolas_upshift_promotors" /id="U246" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.715284715284715" /psig=1 /xcortree=1859 /SigmaFactorBS="gtatatcatatttcaagggcctttgtttattcatttcttcta cCTTGtggtcaattgctgaAAACTCTATAATAGGCAAAAaccaattgggtgaaacaga t" /listShort="ycgS, ycgR" /listLong="ycgQ" /label="promotor_-10" upshifts complement(352735) /Source="Nicolas_upshifts" /id="U246" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.715284715284715" /psig=1 /xcortree=1859 /SigmaFactorBS="gtatatcatatttcaagggcctttgtttattcatttcttcta cCTTGtggtcaattgctgaAAACTCTATAATAGGCAAAAaccaattgggtgaaacaga t" /listShort="ycgS, ycgR" /listLong="ycgQ" promotor_-35 complement(352749..352752) /Source="Nicolas_upshift_promotors" /id="U246" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.715284715284715" /psig=1 /xcortree=1859 /SigmaFactorBS="gtatatcatatttcaagggcctttgtttattcatttcttcta cCTTGtggtcaattgctgaAAACTCTATAATAGGCAAAAaccaattgggtgaaacaga t" /listShort="ycgS, ycgR" /listLong="ycgQ" /label="promotor_-35" misc_feature 352786..352805 /Source="Nicolas_upshift_promotors" /id="U247" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.762237762237762" /psig="0.993006993006993" /xcortree=2116 /SigmaFactorBS="ttcagcaattgaccacaaggtagaagaaatgaataaacaaag gcccttgaaaTATGATATACTTTGTATTGAtattcattctcaattaaaactttgatat a" /listShort="S119, ycgT, S120" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" promotor_-10 complement(352786..352804) /Source="Nicolas_upshift_promotors" /id="U248" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.966033966033966" /psig="0.966033966033966" /xcortree=774 /SigmaFactorBS="agccatccgtcctgcctcccgttcacatctatatcaaaGTTT TAattgagaatgaatatCAATACAAAGTATATCATAtttcaagggcctttgtttattc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 352793..352857 /Source="Nicolas_S_feature" /locus_tag="new_352793_352857" /HighExp="B60, Lbexp, LBGexp, dia0, B36, HiOs, GM 15, GM 10, Salt, dia5" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.993" /TUlongSig="NA" /TUlongPSig="NA" /label="S119" upshifts 352794 /Source="Nicolas_upshifts" /id="U247" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.762237762237762" /psig="0.993006993006993" /xcortree=2116 /SigmaFactorBS="ttcagcaattgaccacaaggtagaagaaatgaataaacaaag gcccttgaaaTATGATATACTTTGTATTGAtattcattctcaattaaaactttgatat a" /listShort="S119, ycgT, S120" /GFF_Attribute="listLong" upshifts complement(352803) /Source="Nicolas_upshifts" /id="U248" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.966033966033966" /psig="0.966033966033966" /xcortree=774 /SigmaFactorBS="agccatccgtcctgcctcccgttcacatctatatcaaaGTTT TAattgagaatgaatatCAATACAAAGTATATCATAtttcaagggcctttgtttattc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(352820..352825) /Source="Nicolas_upshift_promotors" /id="U248" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.966033966033966" /psig="0.966033966033966" /xcortree=774 /SigmaFactorBS="agccatccgtcctgcctcccgttcacatctatatcaaaGTTT TAattgagaatgaatatCAATACAAAGTATATCATAtttcaagggcctttgtttattc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 352858..353868 /gene="ffoR" /locus_tag="BSU_03270" /old_locus_tag="BSU03270" /EC_number="1.18.1.-" /EC_number="1.8.1.-" /function="16.6: Maintain" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:16672620, 25826316" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16672620, 25826316; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="Fur-regulated NADPH:ferredoxin oxidoreductase" /protein_id="NP_388209.1" /db_xref="EnsemblGenomes-Gn:BSU03270" /db_xref="EnsemblGenomes-Tr:CAB12121" /db_xref="GOA:O31475" /db_xref="InterPro:IPR000103" /db_xref="InterPro:IPR022890" /db_xref="InterPro:IPR023753" /db_xref="InterPro:IPR036188" /db_xref="SubtiList:BG12018" /db_xref="UniProtKB/Swiss-Prot:O31475" /translation="MAENQEVYDVTIIGGGPIGLFTAFYCGMRELKTKVIEFLPKLGG KVSLFFPEKIIRDIGGIPGIAGKQLIEQLKEQAATFDPDIVLNQRVTGFERLDDGTIV LTGSEGKKHYTRTVILACGMGTLEVNEFDSEDAARYAGKNLHYGVEKLDAFKGKRVVI SGGGDTAVDWANELEPIAASVTVVHRREEFGGMESSVTKMKQSSVRVLTPYRLEQLNG DEEGIKSVTVCHTESGQRKDIEIDELIINHGFKIDLGPMMEWGLEIEEGRVKADRHMR TNLPGVFVAGDAAFYESKLRLIAGGFTEGPTAVNSAKAYLDPKAENMAMYSTHHKKLV HK*" gene 352858..353868 /gene="ffoR" /locus_tag="BSU_03270" /old_locus_tag="BSU03270" S_feature 353869..356316 /Source="Nicolas_S_feature" /locus_tag="new_353869_356316" /HighExp="B60, Lbexp, GM 10, GM 25, HiOs, GM 15, dia0, GM 45, LBGexp, H2O2" /AntisenseName="nasF" /AntisenseCor="-0.30348565853404702" /AntisenseRegPval="-6.4" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.993" /TUlongSig="NA" /TUlongPSig="NA" /label="S120" CDS complement(353900..355351) /gene="nasF" /locus_tag="BSU_03280" /old_locus_tag="BSU03280" /EC_number="2.1.1.107" /function="16.10: Respire" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:9765565, 10217486, 15028686" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9765565, 10217486, 15028686; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="uroporphyrin-III C-methyltransferase" /protein_id="NP_388210.1" /db_xref="EnsemblGenomes-Gn:BSU03280" /db_xref="EnsemblGenomes-Tr:CAB12122" /db_xref="GOA:P42437" /db_xref="InterPro:IPR000878" /db_xref="InterPro:IPR003043" /db_xref="InterPro:IPR006366" /db_xref="InterPro:IPR012409" /db_xref="InterPro:IPR014776" /db_xref="InterPro:IPR014777" /db_xref="InterPro:IPR035996" /db_xref="InterPro:IPR036108" /db_xref="SubtiList:BG11098" /db_xref="UniProtKB/Swiss-Prot:P42437" /translation="MIMKNGIVYFVGAGPGDPGLLTIKGKQALKEADVILYDRLANPK LLEFASPDCQFIYCGKLPNRHFMKQKEINALLVEKALNGLTVVRLKGGDPSVFGRVGE EADALHEHGIRYEMVPGITSGIAAPLYAGIPVTHRDFASSFAMITAHDKSLKGTPNLD WEGLARSVQTLVFYMGVKNLSYICQQLISYGKSPSVPVIVIQWGTWGRQRSVKGTLEN IQQKVQEHQITNPAIIVIGDIVNFQTHSWFESKPLIGRHLMVVTHGEDEDPLADKLRD SGADLIEWPKWRTENMPVNEEILRKIGTFEDVFFTSRRAVCEFFRALASQKIDIRQLT AKLSAASEQAKTELEKRGFLVTAIQPDSEKRLVVGSRHAVENMQKHESCSFYITHENV IDDRFTHMIQRTISESPLHMVICPNKLSVQQLINGGEQIGILPEPSASRPPIVCIGDD SAAGIYGFTAVQEQDELLAFIHNQHAEKKLLHT*" gene complement(353900..355351) /gene="nasF" /locus_tag="BSU_03280" /old_locus_tag="BSU03280" downshifts complement(353904) /Source="Nicolas_upshifts" /id="D145" /incds=0 /nref=131 /ntot=230 /MaxReadThrough="1.40657" /MaxDrop="6.58881" /score="10.9556399" /energy="-11.7" /TU="NA" /idTUdmin="U250" /TUdmin="-1" /isTUend="TRUE" CDS complement(355412..355732) /gene="nasE" /locus_tag="BSU_03290" /old_locus_tag="BSU03290" /EC_number="1.7.1.4" /function="16.2: Construct biomass (Anabolism)" /function="16.10: Respire" /experiment="publication(s) with functional evidences, PMID:10217486, 15028686, 9765565, 22103536" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10217486, 15028686, 9765565, 22103536; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="assimilatory nitrite reductase subunit" /protein_id="NP_388211.1" /db_xref="EnsemblGenomes-Gn:BSU03290" /db_xref="EnsemblGenomes-Tr:CAB12123" /db_xref="GOA:P42436" /db_xref="InterPro:IPR012748" /db_xref="InterPro:IPR017941" /db_xref="InterPro:IPR036922" /db_xref="SubtiList:BG11097" /db_xref="UniProtKB/Swiss-Prot:P42436" /translation="MVNKDVTKVCIGKIEELPEQLGKTVYIEDKELAVFKLSDGSIRA IENRCPHKGGVLAEGIVSGQYVFCPMHDWKISLEDGIVQEPDHGCVKTYETLIEGEHV YLVY*" gene complement(355412..355732) /gene="nasE" /locus_tag="BSU_03290" /old_locus_tag="BSU03290" promotor_-35 355583..355588 /Source="Nicolas_upshift_promotors" /id="U249" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.965034965034965" /psig="0.00899100899100899" /xcortree=84 /SigmaFactorBS="tgacgatgccttctgccaggacgccgcccttatgCGGACAgc ggttttcaatgGCGCGgatgcttccgtctgaaagcttgaaaaccgcgagctccttatc t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 355602..355606 /Source="Nicolas_upshift_promotors" /id="U249" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.965034965034965" /psig="0.00899100899100899" /xcortree=84 /SigmaFactorBS="tgacgatgccttctgccaggacgccgcccttatgCGGACAgc ggttttcaatgGCGCGgatgcttccgtctgaaagcttgaaaaccgcgagctccttatc t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 355609 /Source="Nicolas_upshifts" /id="U249" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.965034965034965" /psig="0.00899100899100899" /xcortree=84 /SigmaFactorBS="tgacgatgccttctgccaggacgccgcccttatgCGGACAgc ggttttcaatgGCGCGgatgcttccgtctgaaagcttgaaaaccgcgagctccttatc t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" upshifts complement(355641) /Source="Nicolas_upshifts" /id="U250" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.853146853146853" /psig="0.957042957042957" /xcortree=1590 /SigmaFactorBS="tcggaaaaattgaagaatTGCCTGAAcaattaggcaaaaCAG TGTATATTGAAGATAAGgagctcgcggttttcaagctttcagacggaagcatccgcgc c" /listShort="nasF" /GFF_Attribute="listLong" promotor_-10 complement(355643..355662) /Source="Nicolas_upshift_promotors" /id="U250" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.853146853146853" /psig="0.957042957042957" /xcortree=1590 /SigmaFactorBS="tcggaaaaattgaagaatTGCCTGAAcaattaggcaaaaCAG TGTATATTGAAGATAAGgagctcgcggttttcaagctttcagacggaagcatccgcgc c" /listShort="nasF" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(355676..355683) /Source="Nicolas_upshift_promotors" /id="U250" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.853146853146853" /psig="0.957042957042957" /xcortree=1590 /SigmaFactorBS="tcggaaaaattgaagaatTGCCTGAAcaattaggcaaaaCAG TGTATATTGAAGATAAGgagctcgcggttttcaagctttcagacggaagcatccgcgc c" /listShort="nasF" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(355764..358181) /gene="nasD" /locus_tag="BSU_03300" /old_locus_tag="BSU03300" /EC_number="1.7.1.4" /function="16.2: Construct biomass (Anabolism)" /function="16.10: Respire" /experiment="publication(s) with functional evidences, PMID:10972836, 15028686, 9765565, 16428414, 22103536" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10972836, 15028686, 9765565, 16428414, 22103536; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="assimilatory nitrite reductase subunit" /protein_id="NP_388212.1" /db_xref="EnsemblGenomes-Gn:BSU03300" /db_xref="EnsemblGenomes-Tr:CAB12124" /db_xref="GOA:P42435" /db_xref="InterPro:IPR005117" /db_xref="InterPro:IPR006066" /db_xref="InterPro:IPR006067" /db_xref="InterPro:IPR007419" /db_xref="InterPro:IPR012744" /db_xref="InterPro:IPR017121" /db_xref="InterPro:IPR023753" /db_xref="InterPro:IPR036136" /db_xref="InterPro:IPR036188" /db_xref="SubtiList:BG11096" /db_xref="UniProtKB/Swiss-Prot:P42435" /translation="MGKKQLVLVGNGMAGVRAIEEILSVAKDEFQITIFGAEPHPNYN RILLSKVLQGDTDIKDITLNDWDWYEENNIQLYTNETVIKVDTENKTVITDADRIQPY DELILATGSVPFILPIPGADKKGVTAFRDIKDTDTMLAASKQYKKAAVIGGGLLGLEA ARGLLNLGMDVSVIHLAPFLMERQLDATAGRLLQNELEKQGMTFLLEKQTEEIVGDDR VEGLRFKDGTSIEADLVVMAVGIRPNTTLGAESGIPVNRGIIVNDYMQTEIPHIYAVG ECAEHRGIAYGLVAPLYEQAKVLAKHMCGIETKPYEGSVLSTQLKVSGVEVFSAGDFN ESEEKKAIKVFDEQDGIYKKIVLRGNQIVGAVLFGDSSEGNRLFSMIQKEADISETSK ISILQPLSQEAGTSITAAMSDDEIICGCNGVSKGAIIQAIQEKGCSSTDEIKACTGAS RSCGGCKPLVEEILQHTLGSDFDASAQKEAICGCTTLSRDEVVEEIKAKGLSHTREVM NVLGWKTPEGCSKCRPALNYYLGMINPTKYEDDRTSRFVNERMHANIQKDGTYSVVPR MYGGVTNSTDLRKIADVVDKYEIPLVKMTGGQRIDLIGVKKEDLPKVWEDLDMPSGYA YGKTLRTVKTCVGEQFCRFGTQDSMALGIALEKKFEGLNTPHKVKMAVSACPRNCAES GIKDLGVVGIDGGWELYVGGNGGTHLRAGDLLMKVKTNEEVLEYAGAYLQYYRETANY LERTSAWLERVGLSHVQSVLNDPEKRQELNGRMNETLSVHKDPWKDFLEDKQTSKELF ENVVTTS*" gene complement(355764..358181) /gene="nasD" /locus_tag="BSU_03300" /old_locus_tag="BSU03300" promotor_-10 complement(358206..358225) /Source="Nicolas_upshift_promotors" /id="U251" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.915084915084915" /psig="0.998001998001998" /xcortree=1620 /SigmaFactorBS="cttttcgtatattttgttacattttataacatgtatcTTAAA TAttcctttttgcTGTGCTACGCTGGAAAAAACatttgataaggagcggatcatctga t" /listShort="nasD, nasE, nasF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(358220) /Source="Nicolas_upshifts" /id="U251" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.915084915084915" /psig="0.998001998001998" /xcortree=1620 /SigmaFactorBS="cttttcgtatattttgttacattttataacatgtatcTTAAA TAttcctttttgcTGTGCTACGCTGGAAAAAACatttgataaggagcggatcatctga t" /listShort="nasD, nasE, nasF" /GFF_Attribute="listLong" promotor_-35 complement(358237..358243) /Source="Nicolas_upshift_promotors" /id="U251" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.915084915084915" /psig="0.998001998001998" /xcortree=1620 /SigmaFactorBS="cttttcgtatattttgttacattttataacatgtatcTTAAA TAttcctttttgcTGTGCTACGCTGGAAAAAACatttgataaggagcggatcatctga t" /listShort="nasD, nasE, nasF" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(358303..360435) /gene="nasC" /locus_tag="BSU_03310" /old_locus_tag="BSU03310" /EC_number="1.7.99.4" /function="16.2: Construct biomass (Anabolism)" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:10972836, 15028686, 9765565" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10972836, 15028686, 9765565; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="assimilatory nitrate reductase (catalytic subunit)" /protein_id="NP_388213.2" /db_xref="EnsemblGenomes-Gn:BSU03310" /db_xref="EnsemblGenomes-Tr:CAB12125" /db_xref="GOA:P42434" /db_xref="InterPro:IPR006655" /db_xref="InterPro:IPR006656" /db_xref="InterPro:IPR006657" /db_xref="InterPro:IPR006963" /db_xref="InterPro:IPR009010" /db_xref="InterPro:IPR027467" /db_xref="SubtiList:BG11095" /db_xref="UniProtKB/Swiss-Prot:P42434" /translation="MTERLLRYFRDKQQDVQSEKTYDTQCPFCSMQCKMQLVEQTIVT RKKYTAIGIDNPTTQGRLCIKGMNAHQHALNSSRITRPLLKKNGEFMPVSWEEALNHI KDQVTMIQTEHGHDAMAVYGSASITNEEAYLLGKFARVGLQTKYIDYNGRLCMSAAAT AANQTFGADRGLTNPLSDIPHTRVIILAGTNIAECQPTIMPYFEKAKENGAYFIAIDP RETATTKIADLHLKIKPGTDAALANGLVKIIIDEQLINEDFIQSRTNGFEELKQHTDS LDLNDIAEQTSVSLVDIRKAAVKFAKETSGMLFTARGIEQQTDGTAAVKGFLNMVLIT GKIGKPYSGYGAITGQGNGQGAREHGQKADQLPGYRSIENEEHRAHIAKVWGIHQDEL PRKGVSAYEMMEKINDGDIKGLFLMCSNPAVSSPNANLVKKALRRLTFFVAIDLFISE TAKYADVILPASSYLEDEGTMTNVEGRVTLREASRPCPGEAKHDWQIICDLASALGKG RYFSYTSAEDIFNELREASRGGIADYSGISYGRLRREGGIHWPCPESDHPGTGRLFTE SFAHPDQKAALSVIPNEPPVPKEKPTADYPLYLTTGRVMSHYLTGVQTRKSAALAARH FESFMEIHPQTAATYNIEDRVLVKIESPRGSITVRSKLSEQIRKDTVFVPIHWADAQN VNDLIGEALDPACKMPGFKVCAVRIIPI*" gene complement(358303..360435) /gene="nasC" /locus_tag="BSU_03310" /old_locus_tag="BSU03310" CDS complement(360442..362757) /gene="nasB" /locus_tag="BSU_03320" /old_locus_tag="BSU03320" /EC_number="1.7.1.3" /function="16.2: Construct biomass (Anabolism)" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:7836289, 8799114, 9765565, 10940050, 10972836, 15028686, 24122235" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7836289, 8799114, 9765565, 10940050, 10972836, 15028686, 24122235; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="assimilatory nitrate reductase (electron transfer subunit NasB)" /protein_id="NP_388214.2" /db_xref="EnsemblGenomes-Gn:BSU03320" /db_xref="EnsemblGenomes-Tr:CAB12126" /db_xref="GOA:P42433" /db_xref="InterPro:IPR005117" /db_xref="InterPro:IPR007419" /db_xref="InterPro:IPR012744" /db_xref="InterPro:IPR017121" /db_xref="InterPro:IPR023753" /db_xref="InterPro:IPR036136" /db_xref="InterPro:IPR036188" /db_xref="SubtiList:BG11094" /db_xref="UniProtKB/Swiss-Prot:P42433" /translation="MKKQRLVLAGNGMAGIRCIEEVLKLNRHMFEIVIFGSEPHPNYN RILLSSVLQGEASLDDITLNSKDWYDKHGITLYTGETVIQIDTDQQQVITDRKRTLSY DKLIVATGSSPHILPIPGADKKGVYGFRTIEDCQALMNMAQHFQKAAVIGAGLLGLEA AVGLQHLGMDVSVIHHSAGIMQKQLDQTAARLLQTELEQKGLTFLLEKDTVSISGATK ADRIHFKDGSSLKADLIVMAAGVKPNIELAVSAGIKVNRGIIVNDFMQTSEPNIYAVG ECAEHNGTVYGLVAPLYEQGKALASHICGVPCEEYQGSAPSAALKIAGIDVWSAGKIQ EDERTTSIKIYDEQAGVYKKALFVDDKLAGVILFGDTRDKQRLLDSLLKQRDISIAKK QIIEPETSGPLFESMPSSETICQCNTVTKGAIEDAVHTNSLTTVEEVKHCTKATGSCG GCKPLVEDLLRYMTNSEYTKPASTPSFCSCTDFTEDDIIAELQRRPFTNPAEVMNQLD WKTKNGCSTCVPAIQYYLEMLYPGFVQPEPATEETCILIPQMYGGRTNAEQLRTIANI IEAYSIPDVSITHGQRLKLSGIKPADLPNMKKDLKMPVYTNEHRHALQSIKACTCGQN RSIQQLAAQIERQLEMLPLPAPISISLSCETDCTEAALQDVGAIRTQAGWDIHIGGVR GTHARSGALFCVTENEDSTAGMIKGLIQYYRETAHYLEGVHQWIDRLGIVHIREVLFE EDLRAQLLESLQTDLSLIQNPTVETGAYKKG*" gene complement(360442..362757) /gene="nasB" /locus_tag="BSU_03320" /old_locus_tag="BSU03320" promotor_no_box complement(362776..362876) /Source="Nicolas_upshift_promotors" /id="U252" /multdbtbs="SigA" /comp="M21" /sig="Sig-" /pcomp="0.241758241758242" /psig="0.410589410589411" /xcortree=313 /SigmaFactorBS="ttattttctggaaaagacatgtgtaagtttttgtgacacgtt taatgcgttaacaatgcattgtgacataatttttaataggagaaaacttacgagcttc g" /listShort="nasB, nasC, nasD, nasE, nasF" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts complement(362816) /Source="Nicolas_upshifts" /id="U252" /multdbtbs="SigA" /comp="M21" /sig="Sig-" /pcomp="0.241758241758242" /psig="0.410589410589411" /xcortree=313 /SigmaFactorBS="ttattttctggaaaagacatgtgtaagtttttgtgacacgtt taatgcgttaacaatgcattgtgacataatttttaataggagaaaacttacgagcttc g" /listShort="nasB, nasC, nasD, nasE, nasF" /GFF_Attribute="listLong" promotor_-35 362859..362866 /Source="Nicolas_upshift_promotors" /id="U253" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.613386613386613" /psig="0.928071928071928" /xcortree=319 /SigmaFactorBS="ttaaacgtgtcacaaaaacttacacatGTCTTTTCcagaaaa taatggTCCTATATCCTTGATTCAGAaaatgtaaaataatgagggtctagaaagggga a" /listShort="nasA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 362880..362899 /Source="Nicolas_upshift_promotors" /id="U253" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.613386613386613" /psig="0.928071928071928" /xcortree=319 /SigmaFactorBS="ttaaacgtgtcacaaaaacttacacatGTCTTTTCcagaaaa taatggTCCTATATCCTTGATTCAGAaaatgtaaaataatgagggtctagaaagggga a" /listShort="nasA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 362892 /Source="Nicolas_upshifts" /id="U253" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.613386613386613" /psig="0.928071928071928" /xcortree=319 /SigmaFactorBS="ttaaacgtgtcacaaaaacttacacatGTCTTTTCcagaaaa taatggTCCTATATCCTTGATTCAGAaaatgtaaaataatgagggtctagaaagggga a" /listShort="nasA" /GFF_Attribute="listLong" CDS 362937..364142 /gene="nasA" /locus_tag="BSU_03330" /old_locus_tag="BSU03330" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 7868621, 12823818, 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative nitrate transporter" /protein_id="NP_388215.2" /db_xref="EnsemblGenomes-Gn:BSU03330" /db_xref="EnsemblGenomes-Tr:CAB12127" /db_xref="GOA:P42432" /db_xref="InterPro:IPR004737" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG11093" /db_xref="UniProtKB/Swiss-Prot:P42432" /translation="MKLSELKTSGHPLTLLCSFLYFDVSFMIWVMLGALGVYISQDFG LSPFEKGLVVAVPILSGSVFRIILGILTDRIGPKKTAVIGMLVTMIPLLWGTFGGRSL TELYAIGILLGVAGASFAVALPMASRWYPPHLQGLAMGIAGAGNSGTLFATLFGPRLA EQFGWHIVMGIALIPLLIVFILFVSMAKDSPAQPSPQPLKSYLHVFGQKETWFFCLLY SVTFGGFVGLSSFLSIFFVDQYQLSKIHAGDFVTLCVAAGSFFRPVGGLISDRVGGTK VLSVLFVIVALCMAGVSSLPSLSMVIVLLFVGMMGLGMGNGAVFQLVPQRFRKEIGMV TGIVGAAGGIGGFFLPNILGSLKQMTGTYAIGFITFSCIALLAFALVLAAGYYWRKSW SAESSPADV*" gene 362937..364142 /gene="nasA" /locus_tag="BSU_03330" /old_locus_tag="BSU03330" downshifts 364127 /Source="Nicolas_upshifts" /id="D146" /incds=0 /nref=1 /ntot=3 /MaxReadThrough="2.02479" /MaxDrop="3.6823" /score="39.2612286" /energy="-11.9" /TU="NA" /idTUdmin="U253" /TUdmin=0 /isTUend="TRUE" promotor_-35 364186..364192 /Source="Nicolas_upshift_promotors" /id="U254" /multdbtbs="SigA" /comp="M17" /sig="SigA" /pcomp="0.362637362637363" /psig="0.998001998001998" /xcortree=667 /SigmaFactorBS="cacgcgtttgtgcgtgtcttttttattttctCTTGATTttca acagtgaaccGATCAAAATAAATAGTAATTattacgatttgttagtgagaggagtttt c" /listShort="folEB, yciB" /listLong="yczL, yciC" /label="promotor_-35" promotor_-10 364207..364226 /Source="Nicolas_upshift_promotors" /id="U254" /multdbtbs="SigA" /comp="M17" /sig="SigA" /pcomp="0.362637362637363" /psig="0.998001998001998" /xcortree=667 /SigmaFactorBS="cacgcgtttgtgcgtgtcttttttattttctCTTGATTttca acagtgaaccGATCAAAATAAATAGTAATTattacgatttgttagtgagaggagtttt c" /listShort="folEB, yciB" /listLong="yczL, yciC" /label="promotor_-10" upshifts 364215 /Source="Nicolas_upshifts" /id="U254" /multdbtbs="SigA" /comp="M17" /sig="SigA" /pcomp="0.362637362637363" /psig="0.998001998001998" /xcortree=667 /SigmaFactorBS="cacgcgtttgtgcgtgtcttttttattttctCTTGATTttca acagtgaaccGATCAAAATAAATAGTAATTattacgatttgttagtgagaggagtttt c" /listShort="folEB, yciB" /listLong="yczL, yciC" CDS 364259..365173 /gene="folEB" /locus_tag="BSU_03340" /old_locus_tag="BSU03340" /EC_number="3.5.4.16" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12426338, 17032654, 19767425" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12426338, 17032654, 19767425; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="GTP cyclohydrolase I" /protein_id="NP_388216.2" /db_xref="EnsemblGenomes-Gn:BSU03340" /db_xref="EnsemblGenomes-Tr:CAB12128" /db_xref="GOA:P94398" /db_xref="InterPro:IPR003801" /db_xref="InterPro:IPR022838" /db_xref="SubtiList:BG12019" /db_xref="UniProtKB/Swiss-Prot:P94398" /translation="MNQHTLLPKKTERLQYFGSVSPIKGEKPVEKEKMKDLQNIRKDY FFDIQHVGVANVSHPVTITSAMMPAEQTTAANFTMTCNLPRNQKGINMSRLTELLQVY HQNGWILSFSSLQQFTKELAENMDTSSATVEVRFPWFFERKSPKLEKAGLMHADIFMS VTYRKDQPFKQRAGISAKVTTLCPCSKEISEYSAHNQRGTVSIWADIHPAASLPSDVK ADLLHAAESNASARLHPVLKRPDEKAVTETAYENPRFVEDLARLIAADLFELEWVSAF EIECRNEESIHLHDAYAKLCFSKEVDKI*" gene 364259..365173 /gene="folEB" /locus_tag="BSU_03340" /old_locus_tag="BSU03340" CDS 365170..365754 /gene="yciB" /locus_tag="BSU_03350" /old_locus_tag="BSU03350" /function="16.1: Circulate" /function="16.13: Shape" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12426338, 20013255; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative Zn(2+)-dependent division lipoprotein (schizosome)" /protein_id="NP_388217.2" /db_xref="EnsemblGenomes-Gn:BSU03350" /db_xref="EnsemblGenomes-Tr:CAB12129" /db_xref="GOA:C0SP99" /db_xref="InterPro:IPR005490" /db_xref="SubtiList:BG12020" /db_xref="UniProtKB/Swiss-Prot:C0SP99" /translation="MKLSLFIIAVLMPVILLSACSDHAEEHASINTKKTVENITDVRK TAKTSIDWTKPSGGEYPDIKQKHVWIDVNVKEQKAYIKEGSNTIYTMMISSGLDQTKD DATPKGTFYVEPERGEWFFSEGYQEGAEYWVSWKNHGEFLFHSVPMTKDQKVIKTEAE KLGTKASHGCIRLTIPDAKWVYENIPEHTKVVIS*" gene 365170..365754 /gene="yciB" /locus_tag="BSU_03350" /old_locus_tag="BSU03350" promotor_-35 365765..365772 /Source="Nicolas_upshift_promotors" /id="U255" /multdbtbs="SigA" /comp="M17" /sig="SigA" /pcomp="0.671328671328671" /psig=1 /xcortree=668 /SigmaFactorBS="aaaagtggtgatcagctgaattgaaaaccGTTGACAAaaagg aaaaaagaCCATACAATTTAAATCGTAAcaattacgttttatgataaatggcttatca t" /listShort="yczL, yciC, S121" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 365786..365805 /Source="Nicolas_upshift_promotors" /id="U255" /multdbtbs="SigA" /comp="M17" /sig="SigA" /pcomp="0.671328671328671" /psig=1 /xcortree=668 /SigmaFactorBS="aaaagtggtgatcagctgaattgaaaaccGTTGACAAaaagg aaaaaagaCCATACAATTTAAATCGTAAcaattacgttttatgataaatggcttatca t" /listShort="yczL, yciC, S121" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 365796 /Source="Nicolas_upshifts" /id="U255" /multdbtbs="SigA" /comp="M17" /sig="SigA" /pcomp="0.671328671328671" /psig=1 /xcortree=668 /SigmaFactorBS="aaaagtggtgatcagctgaattgaaaaccGTTGACAAaaagg aaaaaagaCCATACAATTTAAATCGTAAcaattacgttttatgataaatggcttatca t" /listShort="yczL, yciC, S121" /GFF_Attribute="listLong" CDS 365850..366035 /gene="yczL" /locus_tag="BSU_03359" /old_locus_tag="BSU03359" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_003097674.1" /db_xref="EnsemblGenomes-Gn:BSU03359" /db_xref="EnsemblGenomes-Tr:CAX52544" /db_xref="UniProtKB/Swiss-Prot:C0H3U7" /translation="MKSGKASIKDLAVGKGKDLRWGKGLNAVGVFTDLEIGRQREMSA KSCSTPLYIRRSIQFKS*" gene 365850..366035 /gene="yczL" /locus_tag="BSU_03359" /old_locus_tag="BSU03359" CDS 366063..367256 /gene="zinU" /locus_tag="BSU_03360" /old_locus_tag="BSU03360" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:2013568, 9811636, 12426338, 18344368, 19648245, 27060116, 27561249" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 2013568, 9811636, 12426338, 18344368, 19648245, 27060116, 27561249; Product type t: transporter" /codon_start=1 /transl_table=11 /product="zinc metallochaperone with NTPase activity" /protein_id="NP_388218.1" /db_xref="EnsemblGenomes-Gn:BSU03360" /db_xref="EnsemblGenomes-Tr:CAB12130" /db_xref="GOA:P94400" /db_xref="InterPro:IPR003495" /db_xref="InterPro:IPR011629" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR036627" /db_xref="SubtiList:BG12021" /db_xref="UniProtKB/Swiss-Prot:P94400" /translation="MKKIPVTVLSGYLGAGKTTLLNSILQNREGLKIAVIVNDMSEVN IDAGLVKQEGGLSRTDEKLVEMSNGCICCTLREDLLIEVEKLAKDGRFDYIVIESTGI SEPIPVAQTFSYIDEEMGIDLTKFCQLDTMVTVVDANRFWHDYQSGESLLDRKEALGE KDEREIADLLIDQIEFCDVLILNKCDLVSEQELEQLENVLRKLQPRARFIRSVKGNVK PQEILHTGLFNFEEASGSAGWIQELTAGHAEHTPETEEYGISSFVYKRRLPFHSTRFY RWLDQMPKNVVRAKGIVWCASHNNLALLMSQAGPSVTIEPVSYWVAALPKLEQEQVKQ QEPEILEEWDPEFGDRLTQLVFIGTDLDEETITKELDQCLLTEYEFDSDWSLFEDPFK WKLNQ*" gene 366063..367256 /gene="zinU" /locus_tag="BSU_03360" /old_locus_tag="BSU03360" downshifts 367248 /Source="Nicolas_upshifts" /id="D147" /incds=0 /nref=26 /ntot=45 /MaxReadThrough="5.12378" /MaxDrop="5.8275" /score="15.6427627" /energy="-9.2" /TU="U255" /idTUdmin="U255" /TUdmin="-792" /isTUend="FALSE" S_feature 367293..368962 /Source="Nicolas_S_feature" /locus_tag="new_367293_368962" /HighExp="Etha, B60, Cold, Heat, B36, C30, BMM, S6, C90, S2" /AntisenseName="yckB" /AntisenseCor="-0.170121935628575" /AntisenseRegPval="-2.2999999999999998" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S121" CDS complement(367305..367985) /gene="yckA" /locus_tag="BSU_03370" /old_locus_tag="BSU03370" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); PubMedId: 15849754, 16850406, 23038252; Product type t: transporter" /codon_start=1 /transl_table=11 /product="aminoacid ABC transporter (permease subunit)" /protein_id="NP_388219.1" /db_xref="EnsemblGenomes-Gn:BSU03370" /db_xref="EnsemblGenomes-Tr:CAB12131" /db_xref="GOA:P42399" /db_xref="InterPro:IPR000515" /db_xref="InterPro:IPR010065" /db_xref="InterPro:IPR035906" /db_xref="SubtiList:BG11177" /db_xref="UniProtKB/Swiss-Prot:P42399" /translation="MINSIQWEYIFNTKLAIESFPYVIKGIGYTLLISFVSMFAGTVI GLFISLARMSKLALLRWPAKLYISFMRGVPILVILFILYFGFPYIGIEFSAVTAALIG FSLNSAAYIAEINRSAISSVEKGQWEAASSLGLSYWQTMRGIILPQSIRIALPPLANV LLDLIKASSLAAMITVPELLQHAKIIGGREFDYMTMYILTALIYWAICSIAAVFQNIL EKKYAHYV*" gene complement(367305..367985) /gene="yckA" /locus_tag="BSU_03370" /old_locus_tag="BSU03370" downshifts complement(367311) /Source="Nicolas_upshifts" /id="D148" /incds=0 /nref=101 /ntot=231 /MaxReadThrough="0.41655" /MaxDrop="6.18136" /score="40.1548023" /energy="-12.6" /TU="NA" /idTUdmin="U256" /TUdmin="-9" /isTUend="TRUE" CDS complement(367995..368858) /gene="yckB" /locus_tag="BSU_03380" /old_locus_tag="BSU03380" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:23038252" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 23038252; Product type t: transporter" /codon_start=1 /transl_table=11 /product="amino acid ABC transporter (binding lipoprotein subunit)" /protein_id="NP_388220.1" /db_xref="EnsemblGenomes-Gn:BSU03380" /db_xref="EnsemblGenomes-Tr:CAB12132" /db_xref="GOA:P42400" /db_xref="InterPro:IPR001638" /db_xref="InterPro:IPR018313" /db_xref="PDB:2IEE" /db_xref="SubtiList:BG11178" /db_xref="UniProtKB/Swiss-Prot:P42400" /translation="MKSFMHSKAVIFSFTMAFFLILAACSGKNEADSKDTGWEQIKDK GKIVVATSGTLYPTSYHDTDSGSDKLTGYEVEVVREAAKRLGLKVEFKEMGIDGMLTA VNSGQVDAAANDIDVTKDREEKFAFSTPYKYSYGTAIVRKDDLSGIKTLKDLKGKKAA GAATTVYMEVARKYGAKEVIYDNATNEQYLKDVANGRTDVILNDYYLQTLALAAFPDL NITIHPDIKYMPNKQALVMKKSNAALQKKMNEALKEMSKDGSLTKLSKQFFNKADVSK KIDADVQDVDL*" gene complement(367995..368858) /gene="yckB" /locus_tag="BSU_03380" /old_locus_tag="BSU03380" promotor_-10 complement(368880..368899) /Source="Nicolas_upshift_promotors" /id="U256" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.791208791208791" /psig="0.983016983016983" /xcortree=1804 /SigmaFactorBS="caattcgaactttttgaaaacgcgatcaacaTATTGCAAccc cttatgttcaaTGCTATCTTTTTAGTTGATTaacagattgggggaactataggtgaaa t" /listShort="yckB, yckA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(368892) /Source="Nicolas_upshifts" /id="U256" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.791208791208791" /psig="0.983016983016983" /xcortree=1804 /SigmaFactorBS="caattcgaactttttgaaaacgcgatcaacaTATTGCAAccc cttatgttcaaTGCTATCTTTTTAGTTGATTaacagattgggggaactataggtgaaa t" /listShort="yckB, yckA" /GFF_Attribute="listLong" S_feature complement(368894..371728) /Source="Nicolas_S_feature" /locus_tag="new_368894_371728_c" /HighExp="GM 150, T-4.40H, G/S, Pyr, S2, C30, T-5.40H, C90, T-3.40H, T0.30H" /AntisenseName="bglC" /AntisenseCor="-0.37749573319969598" /AntisenseRegPval="-9.8000000000000007" /CDS_PredictionProba="NA" /TUshortSig="Sig-, SigA, Sig-" /TUshortPSig="0.248, 0.994, 0.0879" /TUlongSig="SigD" /TUlongPSig=1 /label="S122" promotor_-35 complement(368914..368921) /Source="Nicolas_upshift_promotors" /id="U256" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.791208791208791" /psig="0.983016983016983" /xcortree=1804 /SigmaFactorBS="caattcgaactttttgaaaacgcgatcaacaTATTGCAAccc cttatgttcaaTGCTATCTTTTTAGTTGATTaacagattgggggaactataggtgaaa t" /listShort="yckB, yckA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 368931..368937 /Source="Nicolas_upshift_promotors" /id="U257" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=154 /SigmaFactorBS="acataaggggttgcaatatgttgatcgCGTTTTCaaaaagtt cgaattGTGTATACAAAAAGCATGGgtgggtgtttaaaagcgtctatgaagggaagag g" /listShort="S123, yckC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 368952..368970 /Source="Nicolas_upshift_promotors" /id="U257" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=154 /SigmaFactorBS="acataaggggttgcaatatgttgatcgCGTTTTCaaaaagtt cgaattGTGTATACAAAAAGCATGGgtgggtgtttaaaagcgtctatgaagggaagag g" /listShort="S123, yckC" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 368964..369186 /Source="Nicolas_S_feature" /locus_tag="new_368964_369186" /HighExp="Etha, Salt, B60, Sw, B36, Gly, Heat, S6, Cold, S7" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.99896700000000005" /TUshortSig="SigB" /TUshortPSig="0.996" /TUlongSig="NA" /TUlongPSig="NA" /label="S123" upshifts 368964 /Source="Nicolas_upshifts" /id="U257" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=154 /SigmaFactorBS="acataaggggttgcaatatgttgatcgCGTTTTCaaaaagtt cgaattGTGTATACAAAAAGCATGGgtgggtgtttaaaagcgtctatgaagggaagag g" /listShort="S123, yckC" /GFF_Attribute="listLong" CDS 369020..369217 /locus_tag="BSU_03385" /old_locus_tag="BSU03385" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_009513942.1" /translation="MSKDECQTYQGNACESEGCSRPVTHLCQYRKKWSRGMKPIFRIN LSLADAPKAYDIFDEKENGNI*" gene 369020..369217 /locus_tag="BSU_03385" /old_locus_tag="BSU03385" promotor_-35 369155..369160 /Source="Nicolas_upshift_promotors" /id="U258" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.876123876123876" /psig="0.876123876123876" /xcortree=779 /SigmaFactorBS="atgaaaccgatcttcagaataaatttaAGTCTTgctgatgcc cctaagGCATATGATATATTCGATGagaaagaaaatggaaacatttaaaccataatgg g" /listShort="yckC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 369176..369194 /Source="Nicolas_upshift_promotors" /id="U258" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.876123876123876" /psig="0.876123876123876" /xcortree=779 /SigmaFactorBS="atgaaaccgatcttcagaataaatttaAGTCTTgctgatgcc cctaagGCATATGATATATTCGATGagaaagaaaatggaaacatttaaaccataatgg g" /listShort="yckC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 369188 /Source="Nicolas_upshifts" /id="U258" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.876123876123876" /psig="0.876123876123876" /xcortree=779 /SigmaFactorBS="atgaaaccgatcttcagaataaatttaAGTCTTgctgatgcc cctaagGCATATGATATATTCGATGagaaagaaaatggaaacatttaaaccataatgg g" /listShort="yckC" /GFF_Attribute="listLong" CDS 369236..369691 /gene="yckC" /locus_tag="BSU_03390" /old_locus_tag="BSU03390" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 15849754, 16850406; Product type m:membrane component" /codon_start=1 /transl_table=11 /product="conserved integral membrane protein of unknown function" /protein_id="NP_388221.1" /db_xref="EnsemblGenomes-Gn:BSU03390" /db_xref="EnsemblGenomes-Tr:CAB12133" /db_xref="GOA:P42401" /db_xref="InterPro:IPR010432" /db_xref="SubtiList:BG11179" /db_xref="UniProtKB/Swiss-Prot:P42401" /translation="MNIYKPAGFWIRLGAALLDYIIVSVPLLLIYWLITGKDPNDSMF ISLVVLLYSILLPMFWRGYLIGKRICGIRIVKKDGSQVSLLTMFLRVIVAGLVYCITF GLGLIASLILIAVREDKRTLHDLIAGTYVTYATPGEEELNADEEIRKSE*" gene 369236..369691 /gene="yckC" /locus_tag="BSU_03390" /old_locus_tag="BSU03390" downshifts 369666 /Source="Nicolas_upshifts" /id="D149" /incds=0 /nref=40 /ntot=193 /MaxReadThrough="1.14817" /MaxDrop="5.48303" /score="23.1539807" /energy="-9.8" /TU="NA" /idTUdmin="U257" /TUdmin="-2" /isTUend="TRUE" promotor_-35 369714..369720 /Source="Nicolas_upshift_promotors" /id="U259" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=899 /SigmaFactorBS="cgaagagattagaaagagcgaataatggttcgctctttttat ttttaTGCATAAaaaatacaaggcaGCAAAACATATGaaaaataggattggaggaata a" /listShort="yckD" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 369727 /Source="Nicolas_upshifts" /id="U259" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=899 /SigmaFactorBS="cgaagagattagaaagagcgaataatggttcgctctttttat ttttaTGCATAAaaaatacaaggcaGCAAAACATATGaaaaataggattggaggaata a" /listShort="yckD" /GFF_Attribute="listLong" promotor_-10 369734..369745 /Source="Nicolas_upshift_promotors" /id="U259" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=899 /SigmaFactorBS="cgaagagattagaaagagcgaataatggttcgctctttttat ttttaTGCATAAaaaatacaaggcaGCAAAACATATGaaaaataggattggaggaata a" /listShort="yckD" /GFF_Attribute="listLong" /label="promotor_-10" CDS 369773..370105 /gene="yckD" /locus_tag="BSU_03400" /old_locus_tag="BSU03400" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative exported protein" /protein_id="NP_388222.1" /db_xref="EnsemblGenomes-Gn:BSU03400" /db_xref="EnsemblGenomes-Tr:CAB12134" /db_xref="InterPro:IPR024485" /db_xref="SubtiList:BG11180" /db_xref="UniProtKB/Swiss-Prot:P42402" /translation="MKRITINIITMFIAAAVISLTGTAEAAEKQQQSPANVTLTDQQK KEIEQLEAEILKKRKDVISKYVQYGILPKERGEHIKNHLDKHFEMMKQNGFVPKHHPH PHKFEKRH*" gene 369773..370105 /gene="yckD" /locus_tag="BSU_03400" /old_locus_tag="BSU03400" downshifts 370086 /Source="Nicolas_upshifts" /id="D150" /incds=0 /nref=20 /ntot=44 /MaxReadThrough="2.48743" /MaxDrop="4.3022" /score="-1.40416926" /energy="-11.8" /TU="NA" /idTUdmin="U259" /TUdmin=0 /isTUend="TRUE" promotor_-35 370191..370198 /Source="Nicolas_upshift_promotors" /id="U260" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.936063936063936" /psig="0.953046953046953" /xcortree=1581 /SigmaFactorBS="caatattagctgagctgttccgcgactaacatcGAGTTGATa tgaaacgcgtttcaTAGCCTATGATAGGTTTATCaaataattcaggagtgataaacac t" /listShort="bglC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 370214..370233 /Source="Nicolas_upshift_promotors" /id="U260" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.936063936063936" /psig="0.953046953046953" /xcortree=1581 /SigmaFactorBS="caatattagctgagctgttccgcgactaacatcGAGTTGATa tgaaacgcgtttcaTAGCCTATGATAGGTTTATCaaataattcaggagtgataaacac t" /listShort="bglC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 370218 /Source="Nicolas_upshifts" /id="U260" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.936063936063936" /psig="0.953046953046953" /xcortree=1581 /SigmaFactorBS="caatattagctgagctgttccgcgactaacatcGAGTTGATa tgaaacgcgtttcaTAGCCTATGATAGGTTTATCaaataattcaggagtgataaacac t" /listShort="bglC" /GFF_Attribute="listLong" CDS 370259..371692 /gene="bglC" /locus_tag="BSU_03410" /old_locus_tag="BSU03410" /EC_number="3.2.1.86" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:14652714, 15139916, 18069788" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14652714, 15139916, 18069788; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="aryl-phospho-beta-d-glucosidase" /protein_id="NP_388223.1" /db_xref="EnsemblGenomes-Gn:BSU03410" /db_xref="EnsemblGenomes-Tr:CAB12135" /db_xref="GOA:P42403" /db_xref="InterPro:IPR001360" /db_xref="InterPro:IPR017853" /db_xref="InterPro:IPR018120" /db_xref="InterPro:IPR033132" /db_xref="SubtiList:BG11181" /db_xref="UniProtKB/Swiss-Prot:P42403" /translation="MIHQHPESFPKHFLWGSASAAYQIEGAWNEDGKGPSVWDVFTKI PGKTFKGTNGEIAVDHYHRFKEDVALMAEMGLKAYRFSVSWPRVFPKGKGEINEAGLA FYDSLIDELLSHHIEPVLTLYHWDLPQALMDEYGGFESRNIIEDFNHYCITLYKRFGD RVKYWVTLNEQNYNFNHGFITAMHPPGVKDRKRFYEANHIAFLANAKAIESFREYVPE GKIGPSFAYSPAYPLSSHPEDILAFENAEEFTNNWWLDMYCWGTYPQIPFRCLEKQGW APTIEAGDMDLLAKGKPDFVGVNYYQTITYERNPLDGVSEGKMNTTGQKGTNQETGIP GVFKTKKNPHLTTSNWDWTIDPIGLRIGLRRITSRYQLPVFITENGLGEFDKVEDGTV QDDYRIDYLRSHLEQCRQAISDGVDLIGYCSWSFTDLLSWLNGYQKRYGFVYVNRDEE STSDLKRLKKKSFYWYQDVIKTNGESL*" gene 370259..371692 /gene="bglC" /locus_tag="BSU_03410" /old_locus_tag="BSU03410" downshifts 371670 /Source="Nicolas_upshifts" /id="D151" /incds=0 /nref=12 /ntot=61 /MaxReadThrough="1.51167" /MaxDrop="4.6748" /score="18.0928088" /energy="-15.9" /TU="NA" /idTUdmin="U260" /TUdmin=0 /isTUend="TRUE" CDS complement(371729..372127) /gene="nin" /locus_tag="BSU_03420" /old_locus_tag="BSU03420" /function="16.3: Control" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:11359569, 11814663, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11359569, 11814663, 22720735; Product type r: regulator" /codon_start=1 /transl_table=11 /product="inhibitor of the DNA degrading activity of NucA (competence)" /protein_id="NP_388224.1" /db_xref="EnsemblGenomes-Gn:BSU03420" /db_xref="EnsemblGenomes-Tr:CAB12136" /db_xref="GOA:P12669" /db_xref="InterPro:IPR020354" /db_xref="PDB:4MQD" /db_xref="SubtiList:BG10839" /db_xref="UniProtKB/Swiss-Prot:P12669" /translation="MIKSWKPQELSISYHQFTVFQKDSTPPVMDWTDEAIEKGYAAAD GAISFEAQRNTKAFILFRLNSSETVNSYEKKVTVPFHVTENGIHIESIMSKRLSFDLP KGDYQLTCWTVPAEMSDLHADTYIIDAVSV*" gene complement(371729..372127) /gene="nin" /locus_tag="BSU_03420" /old_locus_tag="BSU03420" promotor_no_box complement(372124..372224) /Source="Nicolas_upshift_promotors" /id="U261" /multdbtbs="-" /comp="M18" /sig="Sig-" /pcomp="0.234765234765235" /psig="0.247752247752248" /xcortree=1715 /SigmaFactorBS="caggctcttgggtcgggcatcggcttaccgattacccagacg gcacaaaggttttattcacaattcagtaaacagtacatagaggaggaacagcacattg a" /listShort="nin, S122" /GFF_Attribute="listLong" /label="promotor_no_box" CDS complement(372154..372603) /gene="nucA" /locus_tag="BSU_03430" /old_locus_tag="BSU03430" /function="16.11: Scavenge (Catabolism)" /function="16.8: Protect" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:2841296, 7746143, 11359569, 11814663" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 2841296, 7746143, 11359569, 11814663; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="endonuclease" /protein_id="NP_388225.3" /db_xref="EnsemblGenomes-Gn:BSU03430" /db_xref="EnsemblGenomes-Tr:CAB12137" /db_xref="GOA:P12667" /db_xref="InterPro:IPR029476" /db_xref="SubtiList:BG10838" /db_xref="UniProtKB/Swiss-Prot:P12667" /translation="MNITTDIIKTILLVIVIIAAAAVGLIKGDFFSADQKTSQTKEYD ETMAFPSDRYPETAKHIKDAINEGHSEVCTIDRDGAEERREQSLKDVPSKKGYDRDEW PMAMCKEGGEGASVEYISPADNRGAGSWVGHRLTDYPDGTKVLFTIQ*" gene complement(372154..372603) /gene="nucA" /locus_tag="BSU_03430" /old_locus_tag="BSU03430" upshifts complement(372164) /Source="Nicolas_upshifts" /id="U261" /multdbtbs="-" /comp="M18" /sig="Sig-" /pcomp="0.234765234765235" /psig="0.247752247752248" /xcortree=1715 /SigmaFactorBS="caggctcttgggtcgggcatcggcttaccgattacccagacg gcacaaaggttttattcacaattcagtaaacagtacatagaggaggaacagcacattg a" /listShort="nin, S122" /GFF_Attribute="listLong" promotor_-10 complement(372618..372637) /Source="Nicolas_upshift_promotors" /id="U262" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.532467532467532" /psig="0.994005994005994" /xcortree=2957 /SigmaFactorBS="taaactgatcgtaaaacataaaatttaaACCTTTACaccaaa tgctttcTGGATTACTCTTGTGTCAGTtttaaaagcgggaggtgaacatcacgacgga c" /listShort="nucA, nin, S122, yckB, yckA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(372626) /Source="Nicolas_upshifts" /id="U262" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.532467532467532" /psig="0.994005994005994" /xcortree=2957 /SigmaFactorBS="taaactgatcgtaaaacataaaatttaaACCTTTACaccaaa tgctttcTGGATTACTCTTGTGTCAGTtttaaaagcgggaggtgaacatcacgacgga c" /listShort="nucA, nin, S122, yckB, yckA" /GFF_Attribute="listLong" S_feature complement(372628..372770) /Source="Nicolas_S_feature" /locus_tag="new_372628_372770_c" /HighExp="C30, Diami, M40t45, Cold, Lbstat, T0.30H, M0t90, dia15, C90, Lbtran" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="Sig-, SigD" /TUshortPSig="0.0879, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S124" promotor_-35 complement(372651..372658) /Source="Nicolas_upshift_promotors" /id="U262" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.532467532467532" /psig="0.994005994005994" /xcortree=2957 /SigmaFactorBS="taaactgatcgtaaaacataaaatttaaACCTTTACaccaaa tgctttcTGGATTACTCTTGTGTCAGTtttaaaagcgggaggtgaacatcacgacgga c" /listShort="nucA, nin, S122, yckB, yckA" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(372771..374492) /gene="tlpC" /locus_tag="BSU_03440" /old_locus_tag="BSU03440" /function="16.12: Sense" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:7704255, 7921238, 15187186, 27899502" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7704255, 7921238, 15187186, 27899502; Product type rc: receptor" /codon_start=1 /transl_table=11 /product="methyl-accepting chemotaxis protein (plant colonization)" /protein_id="NP_388226.2" /db_xref="EnsemblGenomes-Gn:BSU03440" /db_xref="EnsemblGenomes-Tr:CAB12138" /db_xref="GOA:P39209" /db_xref="InterPro:IPR003660" /db_xref="InterPro:IPR004089" /db_xref="InterPro:IPR004090" /db_xref="InterPro:IPR029151" /db_xref="InterPro:IPR033463" /db_xref="SubtiList:BG10790" /db_xref="UniProtKB/Swiss-Prot:P39209" /translation="MLIKRFKMKLGTKILCLVFVVILLFSASVGTVMLKEITESMKQM ATEKAKGDLALSSTYIDDVMSGDWQVKNNKLYKGQTQINGNEDIVDLLGEKTGDTITI FQGDTRVATNVMKNGERAVGTQASSEVIAAVLKKGKRFYGQADVAGSSYQTAYMPLKD QNGNIIGMLYTGANQSILASLTQSLFTQFAIVLVIVIMVSVILVLVFTRKINKRLNAL KSAFESAGNGDMTIEVSDKTGDELSELSVYYNKMRMKLNDTIQTVQQSALQLASASQQ LSAGAEETNQASEKITEAVQQIANGAQDQITRIENSESSLKQASADIRDISANTAAIA DKGQLAQSKADIGQKEIANVQAQMDAIHQSIQKSGEIIHQLDGRSKQIEQILSVITQI ADQTNLLALNAAIEAARAGEQGKGFAVVADEVRKLAEESQQSAGQISKLIIEIQKDMN RSARSVEHVKTEAAEGVTMIQRTRDAFKEIAAATGEISAEISDLSASVTNISASAHQI NDSFAANTADIKESTKNTRQAAALTEEQFAAMEEITAASETLSQLAEELTGIISQFKM INQAENG*" gene complement(372771..374492) /gene="tlpC" /locus_tag="BSU_03440" /old_locus_tag="BSU03440" promotor_-35 372783..372790 /Source="Nicolas_upshift_promotors" /id="U263" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.955044955044955" /psig="0.996003996003996" /xcortree=2959 /SigmaFactorBS="ttgccaatttacaataatgatagtaagtcatcagccgttttc GGCTTGATtaatcattttaaatTGGCTTATGATACCGGTAAGctcctcagctaattga g" /listShort="S125, hxlR" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 372801..375944 /Source="Nicolas_S_feature" /locus_tag="new_372801_375944" /HighExp="T1.0H, T1.30H, T0.30H, T2.0H, T2.30H, T3.0H, T3.30H, T4.0H, T0.0H, T-0.40H" /AntisenseName="tlpC" /AntisenseCor="-0.40398083053643302" /AntisenseRegPval="-11.3" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.996" /TUlongSig="NA" /TUlongPSig="NA" /label="S125" upshifts 372801 /Source="Nicolas_upshifts" /id="U263" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.955044955044955" /psig="0.996003996003996" /xcortree=2959 /SigmaFactorBS="ttgccaatttacaataatgatagtaagtcatcagccgttttc GGCTTGATtaatcattttaaatTGGCTTATGATACCGGTAAGctcctcagctaattga g" /listShort="S125, hxlR" /GFF_Attribute="listLong" promotor_-10 372805..372824 /Source="Nicolas_upshift_promotors" /id="U263" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.955044955044955" /psig="0.996003996003996" /xcortree=2959 /SigmaFactorBS="ttgccaatttacaataatgatagtaagtcatcagccgttttc GGCTTGATtaatcattttaaatTGGCTTATGATACCGGTAAGctcctcagctaattga g" /listShort="S125, hxlR" /GFF_Attribute="listLong" /label="promotor_-10" promotor_no_box complement(372806..372906) /Source="Nicolas_upshift_promotors" /id="U264" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.452547452547453" /psig="0.0879120879120879" /xcortree=2190 /SigmaFactorBS="ggctgcattaacagaggagcaatttgctgcaatggaggagat taccgcagcttctgaaacactttctcaattagctgaggagcttaccggtatcataagc c" /listShort="S124, nucA, nin, S122" /listLong="yckB, yckA" /label="promotor_no_box" upshifts complement(372846) /Source="Nicolas_upshifts" /id="U264" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.452547452547453" /psig="0.0879120879120879" /xcortree=2190 /SigmaFactorBS="ggctgcattaacagaggagcaatttgctgcaatggaggagat taccgcagcttctgaaacactttctcaattagctgaggagcttaccggtatcataagc c" /listShort="S124, nucA, nin, S122" /listLong="yckB, yckA" promotor_-10 complement(374516..374534) /Source="Nicolas_upshift_promotors" /id="U265" /multdbtbs="SigD" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2796 /SigmaFactorBS="cggcctgaagatcaggccggttttattttttctaaaATAAAA CTttaaacccaaaaaCCCGATAAGTAATATGACCtgcaaatcgtaaagggaggaatta t" /listShort="tlpC, S124, nucA, nin" /listLong="S122" /label="promotor_-10" upshifts complement(374531) /Source="Nicolas_upshifts" /id="U265" /multdbtbs="SigD" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2796 /SigmaFactorBS="cggcctgaagatcaggccggttttattttttctaaaATAAAA CTttaaacccaaaaaCCCGATAAGTAATATGACCtgcaaatcgtaaagggaggaatta t" /listShort="tlpC, S124, nucA, nin" /listLong="S122" promotor_-35 complement(374548..374555) /Source="Nicolas_upshift_promotors" /id="U265" /multdbtbs="SigD" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2796 /SigmaFactorBS="cggcctgaagatcaggccggttttattttttctaaaATAAAA CTttaaacccaaaaaCCCGATAAGTAATATGACCtgcaaatcgtaaagggaggaatta t" /listShort="tlpC, S124, nucA, nin" /listLong="S122" /label="promotor_-35" CDS complement(374603..375160) /gene="hxlB" /locus_tag="BSU_03450" /old_locus_tag="BSU03450" /EC_number="5.3.1.27" /function="16.8: Protect" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:10572115, 15978081" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10572115, 15978081; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="6-phospho-3-hexuloisomerase (PHI)" /protein_id="NP_388227.1" /db_xref="EnsemblGenomes-Gn:BSU03450" /db_xref="EnsemblGenomes-Tr:CAB12139" /db_xref="GOA:P42404" /db_xref="InterPro:IPR001347" /db_xref="InterPro:IPR017552" /db_xref="PDB:1M3S" /db_xref="PDB:1VIV" /db_xref="SubtiList:BG11182" /db_xref="UniProtKB/Swiss-Prot:P42404" /translation="MKTTEYVAEILNELHNSAAYISNEEADQLADHILSSHQIFTAGA GRSGLMAKSFAMRLMHMGFNAHIVGEILTPPLAEGDLVIIGSGSGETKSLIHTAAKAK SLHGIVAALTINPESSIGKQADLIIRMPGSPKDQSNGSYKTIQPMGSLFEQTLLLFYD AVILKLMEKKGLDSETMFTHHANLE*" gene complement(374603..375160) /gene="hxlB" /locus_tag="BSU_03450" /old_locus_tag="BSU03450" downshifts complement(374606) /Source="Nicolas_upshifts" /id="D152" /incds=0 /nref=51 /ntot=130 /MaxReadThrough="1.98332" /MaxDrop="6.56052" /score="42.3682356" /energy="-15.4" /TU="NA" /idTUdmin="U266" /TUdmin=0 /isTUend="TRUE" CDS complement(375166..375798) /gene="hxlA" /locus_tag="BSU_03460" /old_locus_tag="BSU03460" /EC_number="4.1.2.43" /function="16.8: Protect" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:10572115, 15978081" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10572115, 15978081; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="3-hexulose-6-phosphate synthase (HPS)" /protein_id="NP_388228.1" /db_xref="EnsemblGenomes-Gn:BSU03460" /db_xref="EnsemblGenomes-Tr:CAB12140" /db_xref="GOA:P42405" /db_xref="InterPro:IPR001754" /db_xref="InterPro:IPR011060" /db_xref="InterPro:IPR013785" /db_xref="InterPro:IPR017553" /db_xref="SubtiList:BG11183" /db_xref="UniProtKB/Swiss-Prot:P42405" /translation="MELQLALDLVNIPEAIELVKEVEQYIDVVEIGTPVVINEGLRAV KEIKEAFPQLKVLADLKIMDAGGYEIMKASEAGADIITVLGATDDATIKGAVEEAKKQ KKKILVDMINVKDIESRAKEIDALGVDYICVHTGYDLQAEGKNSFEELTTIKNTVKNA KTAIAGGIKLDTLPEVIQQKPDLVIVGGGITSAADKAETASKMKQLIVQG*" gene complement(375166..375798) /gene="hxlA" /locus_tag="BSU_03460" /old_locus_tag="BSU03460" promotor_-10 complement(375824..375843) /Source="Nicolas_upshift_promotors" /id="U266" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.658341658341658" /psig="0.987012987012987" /xcortree=1517 /SigmaFactorBS="agtatcctccaagtaacttgttgacttcaaagtgcctaCTTC tcaacaaaagaaggAACCTATAGAATGAACAATAattcgaaaaagggagtggatcaac a" /listShort="hxlA, hxlB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(375839) /Source="Nicolas_upshifts" /id="U266" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.658341658341658" /psig="0.987012987012987" /xcortree=1517 /SigmaFactorBS="agtatcctccaagtaacttgttgacttcaaagtgcctaCTTC tcaacaaaagaaggAACCTATAGAATGAACAATAattcgaaaaagggagtggatcaac a" /listShort="hxlA, hxlB" /GFF_Attribute="listLong" promotor_-35 complement(375858..375861) /Source="Nicolas_upshift_promotors" /id="U266" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.658341658341658" /psig="0.987012987012987" /xcortree=1517 /SigmaFactorBS="agtatcctccaagtaacttgttgacttcaaagtgcctaCTTC tcaacaaaagaaggAACCTATAGAATGAACAATAattcgaaaaagggagtggatcaac a" /listShort="hxlA, hxlB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 375922..375925 /Source="Nicolas_upshift_promotors" /id="U267" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.536463536463537" /psig=1 /xcortree=1957 /SigmaFactorBS="acttggaggatactgtgaggagagacaatcagatttCTTTcg cttgattttatgAGTGAGTATAATGAAAAAAGagtctgcaaaaaagtaagtaagtgat g" /listShort="hxlR" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 375940..375959 /Source="Nicolas_upshift_promotors" /id="U267" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.536463536463537" /psig=1 /xcortree=1957 /SigmaFactorBS="acttggaggatactgtgaggagagacaatcagatttCTTTcg cttgattttatgAGTGAGTATAATGAAAAAAGagtctgcaaaaaagtaagtaagtgat g" /listShort="hxlR" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 375946 /Source="Nicolas_upshifts" /id="U267" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.536463536463537" /psig=1 /xcortree=1957 /SigmaFactorBS="acttggaggatactgtgaggagagacaatcagatttCTTTcg cttgattttatgAGTGAGTATAATGAAAAAAGagtctgcaaaaaagtaagtaagtgat g" /listShort="hxlR" /GFF_Attribute="listLong" CDS 376032..376394 /gene="hxlR" /locus_tag="BSU_03470" /old_locus_tag="BSU03470" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:15978081, 26973631" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15978081, 26973631; Product type r: regulator" /codon_start=1 /transl_table=11 /product="positive regulator of hxlAB expression (formaldehyde sensing)" /protein_id="NP_388229.2" /db_xref="EnsemblGenomes-Gn:BSU03470" /db_xref="EnsemblGenomes-Tr:CAB12141" /db_xref="GOA:P42406" /db_xref="InterPro:IPR002577" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG11184" /db_xref="UniProtKB/Swiss-Prot:P42406" /translation="MSRMDDKRFNCEKELTLAVIGGKWKMLILWHLGKEGTKRFNELK TLIPDITQKILVNQLRELEQDMIVHREVYPVVPPKVEYSLTPHGESLMPILEAMYEWG KGYMELIDIDKNVMKESL*" gene 376032..376394 /gene="hxlR" /locus_tag="BSU_03470" /old_locus_tag="BSU03470" downshifts 376378 /Source="Nicolas_upshifts" /id="D153" /incds=0 /nref=14 /ntot=154 /MaxReadThrough="3.13609" /MaxDrop="3.66949" /score="20.4643411" /energy="-9.6" /TU="U267" /idTUdmin="U263" /TUdmin="-2" /isTUend="TRUE" promotor_-35 376641..376644 /Source="Nicolas_upshift_promotors" /id="U268" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.658341658341658" /psig="0.994005994005994" /xcortree=3241 /SigmaFactorBS="cggcatcccgcatgaaacttttcacccatttttcGGTGataa aaacatttttTTCATTTAAACTGAACGGTAgaaagataaaaaatattgaaaacaatga a" /listShort="S126, srfAA, srfAB, comS, srfAC, srfAD, ycxA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 376659..376678 /Source="Nicolas_upshift_promotors" /id="U268" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.658341658341658" /psig="0.994005994005994" /xcortree=3241 /SigmaFactorBS="cggcatcccgcatgaaacttttcacccatttttcGGTGataa aaacatttttTTCATTTAAACTGAACGGTAgaaagataaaaaatattgaaaacaatga a" /listShort="S126, srfAA, srfAB, comS, srfAC, srfAD, ycxA" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 376667..376967 /Source="Nicolas_S_feature" /locus_tag="new_376667_376967" /HighExp="HiOs, T-1.10H, T5.0H, T4.0H, T-1.40H, S2, M9-stat, T3.30H, T0.0H, T2.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.20585600000000001" /TUshortSig="SigA" /TUshortPSig="0.994" /TUlongSig="NA" /TUlongPSig="NA" /label="S126" upshifts 376667 /Source="Nicolas_upshifts" /id="U268" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.658341658341658" /psig="0.994005994005994" /xcortree=3241 /SigmaFactorBS="cggcatcccgcatgaaacttttcacccatttttcGGTGataa aaacatttttTTCATTTAAACTGAACGGTAgaaagataaaaaatattgaaaacaatga a" /listShort="S126, srfAA, srfAB, comS, srfAC, srfAD, ycxA" /GFF_Attribute="listLong" CDS 376968..387731 /gene="srfAA" /locus_tag="BSU_03480" /old_locus_tag="BSU03480" /function="16.5: Explore" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:15066026, 16166527, 8288534, 8441623, 14762003, 16707694, 26284661, 26268540, 14762003" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15066026, 16166527, 8288534, 8441623, 14762003, 16707694, 26284661, 26268540, 14762003; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="surfactin synthetase" /protein_id="NP_388230.2" /db_xref="EnsemblGenomes-Gn:BSU03480" /db_xref="EnsemblGenomes-Tr:CAB12142" /db_xref="GOA:P27206" /db_xref="InterPro:IPR000873" /db_xref="InterPro:IPR001242" /db_xref="InterPro:IPR006162" /db_xref="InterPro:IPR009081" /db_xref="InterPro:IPR010060" /db_xref="InterPro:IPR010071" /db_xref="InterPro:IPR013321" /db_xref="InterPro:IPR020806" /db_xref="InterPro:IPR020845" /db_xref="InterPro:IPR025110" /db_xref="InterPro:IPR036736" /db_xref="SubtiList:BG10168" /db_xref="UniProtKB/Swiss-Prot:P27206" /translation="MEITFYPLTDAQKRIWYTEKFYPHTSISNLAGIGKLVSADAIDY VLVEQAIQEFIRRNDAMRLRLRLDENGEPVQYISEYRPVDIKHTDTTEDPNAIEFISQ WSREETKKPLPLYDCDLFRFSLFTIKENEVWFYANVHHVISDGISMNILGNAIMHIYL ELASGSETKEGISHSFIDHVLSEQEYAQSKRFEKDKAFWNKQFESVPELVSLKRNASA GGSLDAERFSKDVPEALHQQILSFCEANKVSVLSVFQSLLAAYLYRVSGQNDVVTGTF MGNRTNAKEKQMLGMFVSTVPLRTNIDGGQAFSEFVKDRMKDLMKTLRHQKYPYNLLI NDLRETKSSLTKLFTVSLEYQVMQWQKEEDLAFLTEPIFSGSGLNDVSIHVKDRWDTG KLTIDFDYRTDLFSREEINMICERMITMLENALTHPEHTIDELTLISDAEKEKLLARA GGKSVSYRKDMTIPELFQEKAELLSDHPAVVFEDRTLSYRTLHEQSARIANVLKQKGV GPDSPVAVLIERSERMITAIMGILKAGGAYVPIDPGFPAERIQYILEDCGADFILTES KVAAPEADAELIDLDQAIEEGAEESLNADVNARNLAYIIYTSGTTGRPKGVMIEHRQV HHLVESLQQTIYQSGSQTLRMALLAPFHFDASVKQIFASLLLGQTLYIVPKKTVTNGA ALTAYYRKNSIEATDGTPAHLQMLAAAGDFEGLKLKHMLIGGEGLSSVVADKLLKLFK EAGTAPRLTNVYGPTETCVDASVHPVIPENAVQSAYVPIGKALGNNRLYILDQKGRLQ PEGVAGELYIAGDGVGRGYLHLPELTEEKFLQDPFVPGDRMYRTGDVVRWLPDGTIEY LGREDDQVKVRGYRIELGEIEAVIQQAPDVAKAVVLARPDEQGNLEVCAYVVQKPGSE FAPAGLREHAARQLPDYMVPAYFTEVTEIPLTPSGKVDRRKLFALEVKAVSGTAYTAP RNETEKAIAAIWQDVLNVEKAGIFDNFFETGGHSLKAMTLLTKIHKETGIEIPLQFLF EHPTITALAEEADHRESKAFAVIEPAEKQEHYPLSLAQQRTYIVSQFEDAGVGYNMPA AAILEGPLDIQKLERAFQGLIRRHESLRTSFVLENSTPRQKIHDSVDFNIEMIERGGR SDEAIMASFVRTFDLAKAPLFRIGLLGLEENRHMLLFDMHHLISDGVSIGIMLEELAR IYKGEQLPDLRLQYKDYAVWQSRQAAEGYKKDQAYWKEVFAGELPVLQLLSDYPRPPV QSFEGDRVSIKLDAGVKDRLNRLAEQNGATLYMVMLSAYYTLLSKYTGQDDIIVGTPS AGRNHSDTEGIIGMFVNTLAIRSEVKQNETFTQLISRVRKRVLDAFSHQDYPFEWLVE DLNIPRDVSRHPLFDTMFSLQNATEGIPAVGDLSLSVQETNFKIAKFDLTVQARETDE GIEIDVDYSTKLFKQSTADRLLTHFARLLEDAAADPEKPISEYKLLSEEEAASQIQQF NPGRTPYPKDKTIVQLFEEQAANTPDHTALQYEGESLTYRELNERANRLARGILSLGA GEGRTAAVLCERSMDMIVSILAVLKSGSAYVPIDPEHPIQRMQHFFRDSGAKVLLTQR KLKALAEEAEFKGVIVLADEEESYHADARNLALPLDSAAMANLTYTSGTTGTPKGNIV THANILRTVKETNYLSITEQDTILGLSNYVFDAFMFDMFGSLLNGAKLVLIPKETVLD MARLSRVIERENISILMITTALFHLLVDLNPACLSTLRKIMFGGERASVEHVRKALQT VGKGKLLHMYGPSESTVFATYHPVDELEEHTLSVPIGKPVSNTEVYILDRTGHVQPAG IAGELCVSGEGLVKGYYNRPELTEEKFVPHPFTSGERMYKTGDLARWLPNGDIEFIGR IDHQVKIRGQRIELGEIEHQLQTHDRVQESVVLAVDQGAGDKLLCAYYVGEGDISSQE MREHAAKDLPAYMVPAVFIQMDELPLTGNGKIDRRALPIPDANVSRGVSYVAPRNGTE QKVADIWAQVLQAEQVGAYDHFFDIGGHSLAGMKMLALVHQELGVELSLKDLFQSPTV EGLAQVIASAEKGTAASISPAEKQDTYPVSSPQKRMYVLQQLEDAQTSYNMPAVLRLT GELDVERLNSVMQQLMQRHEALRTTFEIKDGETVQRIWEEAECEIAYFEAPEEETERI VSEFIKPFKIDQLPLFRIGLIKHSDTEHVLLFDMHHIISDGASVGVLIEELSKLYDGE TLEPLRIQYKDYAVWQQQFIQSELYKKQEEHWLKELDGELPVLTLPTDYSRPAVQTFE GDRIAFSLEAGKADALRRLAKETDSTLYMVLLASYSAFLSKISGQDDIIVGSPVAGRS QADVSRVIGMFVNTLALRTYPKGEKTFADYLNEVKETALSAFDAQDYPLEDLIGNVQV QRDTSRNPLFDAVFSMQNANIKDLTMKGIQLEPHPFERKTAKFDLTLTADETDGGLTF VLEYNTALFKQETIERWKQYWMELLDAVTGNPNQPLSSLSLVTETEKQALLEAWKGKA LPVPTDKTVHQLFEETAQRHKDRPAVTYNGQSWTYGELNAKANRLARILMDCGISPDD RVGVLTKPSLEMSAAVLGVLKAGAAFVPIDPDYPDQRIEYILQDSGAKLLLKQEGISV PDSYTGDVILLDGSRTILSLPLDENDEENPETAVTAENLAYMIYTSGTTGQPKGVMVE HHALVNLCFWHHDAFSMTAEDRSAKYAGFGFDASIWEMFPTWTIGAELHVIEEAIRLD IVRLNDYFETNGVTITFLPTQLAEQFMELENTSLRVLLTGGDKLKRAVKKPYTLVNNY GPTENTVVATSAEIHPEEGSLSIGRAIANTRVYILGEGNQVQPEGVAGELCVAGRGLA RGYLNREDETAKRFVADPFVPGERMYRTGDLVKWTGGGIEYIGRIDQQVKVRGYRIEL SEIEVQLAQLSEVQDAAVTAVKDKGGNTAIAAYVTPESADIEALKSALKETLPDYMIP AFWVTLNELPVTANGKVDRKALPEPDIEAGSGEYKAPTTDMEELLAGIWQDVLGMSEV GVTDNFFSLGGDSIKGIQMASRLNQHGWKLEMKDLFQHPTIEELTQYVERAEGKQADQ GPVEGEVILTPIQRWFFEKNFTNKHHWNQSVMLHAKKGFDPERVEKTLQALIEHHDAL RMVYREGQEDVIQYNRGLEAASAQLEVIQIEGQAADYEDRIEREAERLQSSIDLQEGG LLKAGLFQAEDGDHLLLAIHHLVVDGVSWRILLEDFAAVYTQLEQGNEPVLPQKTHSF AEYAERLQDFANSKAFLKEKEYWRQLEEQAVAAKLPKDRESGDQRMKHTKTIEFSLTA EETEQLTTKVHEAYHTEMNDILLTAFGLAMKEWTGQDRVSVHLEGHGREEIIEDLTIS RTVGWFTSMYPMVLDMKHADDLGYQLKQMKEDIRHVPNKGVGYGILRYLTAPEHKEDV AFSIQPDVSFNYLGQFDEMSDAGLFTRSELPSGQSLSPETEKPNALDVVGYIENGKLT MSLAYHSLEFHEKTVQTFSDSFKAHLLRIIEHCLSQDGTELTPSDLGDDDLTLDELDK LMEIF*" gene 376968..387731 /gene="srfAA" /locus_tag="BSU_03480" /old_locus_tag="BSU03480" CDS 387744..398495 /gene="srfAB" /locus_tag="BSU_03490" /old_locus_tag="BSU03490" /function="16.5: Explore" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:15066026, 16166527, 16553878, 17227471, 14762003, 26284661" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15066026, 16166527, 16553878, 17227471, 14762003, 26284661; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="surfactin synthetase" /protein_id="NP_388231.2" /db_xref="EnsemblGenomes-Gn:BSU03490" /db_xref="EnsemblGenomes-Tr:CAB12143" /db_xref="GOA:Q04747" /db_xref="InterPro:IPR000873" /db_xref="InterPro:IPR001242" /db_xref="InterPro:IPR006162" /db_xref="InterPro:IPR009081" /db_xref="InterPro:IPR010060" /db_xref="InterPro:IPR010071" /db_xref="InterPro:IPR020806" /db_xref="InterPro:IPR020845" /db_xref="InterPro:IPR025110" /db_xref="InterPro:IPR036736" /db_xref="SubtiList:BG10169" /db_xref="UniProtKB/Swiss-Prot:Q04747" /translation="MSKKSIQKVYALTPMQEGMLYHAMLDPHSSSYFTQLELGIHGAF DLEIFEKSVNELIRSYDILRTVFVHQQLQKPRQVVLAERKTKVHYEDISHADENRQKE HIERYKQDVQRQGFNLAKDILFKVAVFRLAADQLYLVWSNHHIMMDGWSMGVLMKSLF QNYEALRAGRTPANGQGKPYSDYIKWLGKQDNEEAESYWSERLAGFEQPSVLPGRLPV KKDEYVNKEYSFTWDETLVARIQQTANLHQVTGPNLFQAVWGIVLSKYNFTDDVIFGT VVSGRPSEINGIETMAGLFINTIPVRVKVERDAAFADIFTAVQQHAVEAERYDYVPLY EIQKRSALDGNLLNHLVAFENYPLDQELENGSMEDRLGFSIKVESAFEQTSFDFNLIV YPGKTWTVKIKYNGAAFDSAFIERTAEHLTRMMEAAVDQPAAFVREYGLVGDEEQRQI VEVFNSTKAELPEGMAVHQVFEEQAKRTPASTAVVYEGTKLTYRELNAAANRLARKLV EHGLQKGETAAIMNDRSVETVVGMLAVLKAGAAYVPLDPALPGDRLRFMAEDSSVRMV LIGNSYTGQAHQLQVPVLTLDIGFEESEAADNLNLPSAPSDLAYIMYTSGSTGKPKGV MIEHKSILRLVKNAGYVPVTEEDRMAQTGAVSFDAGTFEVFGALLNGAALYPVKKETL LDAKQFAAFLREQSITTMWLTSPLFNQLAAKDAGMFGTLRHLIIGGDALVPHIVSKVK QASPSLSLWNGYGPTENTTFSTSFLIDREYGGSIPIGKPIGNSTAYIMDEQQCLQPIG APGELCVGGIGVARGYVNLPELTEKQFLEDPFRPGERIYRTGDLARWLPDGNIEFLGR IDNQVKVRGFRIELGEIETKLNMAEHVTEAAVIIRKNKADENEICAYFTADREVAVSE LRKTLSQSLPDYMVPAHLIQMDSLPLTPNGKINKKELPAPQSEAVQPEYAAPKTESEK KLAEIWEGILGVKAGVTDNFFMIGGHSLKAMMMTAKIQEHFHKEVPIKVLFEKPTIQE LALYLEENESKEEQTFEPIRQASYQQHYPVSPAQRRMYILNQLGQANTSYNVPAVLLL EGEVDKDRLENAIQQLINRHEILRTSFDMIDGEVVQTVHKNISFQLEAAKGREEDAEE IIKAFVQPFELNRAPLVRSKLVQLEEKRHLLLIDMHHIITDGSSTGILIGDLAKIYQG ADLELPQIHYKDYAVWHKEQTNYQKDEEYWLDVFKGELPILDLPADFERPAERSFAGE RVMFGLDKQITAQIKSLMAETDTTMYMFLLAAFNVLLSKYASQDDIIVGSPTAGRTHP DLQGVPGMFVNTVALRTAPAGDKTFAQFLEEVKTASLQAFEHQSYPLEELIEKLPLTR DTSRSPLFSVMFNMQNMEIPSLRLGDLKISSYSMLHHVAKFDLSLEAVEREEDIGLSF DYATALFKDETIRRWSRHFVNIIKAAAANPNVRLSDVDLLSSAETAALLEERHMTQIT EATFAALFEKQAQQTPDHSAVKAGGNLLTYRELDEQANQLAHHLRAQGAGNEDIVAIV MDRSAEVMVSILGVMKAGAAFLPIDPDTPEERIRYSLEDSGAKFAVVNERNMTAIGQY EGIIVSLDDGKWRNESKERPSSISGSRNLAYVIYTSGTTGKPKGVQIEHRNLTNYVSW FSEEAGLTENDKTVLLSSYAFDLGYTSMFPVLLGGGELHIVQKETYTAPDEIAHYIKE HGITYIKLTPSLFHTIVNTASFAKDANFESLRLIVLGGEKIIPTDVIAFRKMYGHTEF INHYGPTEATIGAIAGRVDLYEPDAFAKRPTIGRPIANAGALVLNEALKLVPPGASGQ LYITGQGLARGYLNRPQLTAERFVENPYSPGSLMYKTGDVVRRLSDGTLAFIGRADDQ VKIRGYRIEPKEIETVMLSLSGIQEAVVLAVSEGGLQELCAYYTSDQDIEKAELRYQL SLTLPSHMIPAFFVQVDAIPLTANGKTDRNALPKPNAAQSGGKALAAPETALEESLCR IWQKTLGIEAIGIDDNFFDLGGHSLKGMMLIANIQAELEKSVPLKALFEQPTVRQLAA YMEASAVSGGHQVLKPADKQDMYPLSSAQKRMYVLNQLDRQTISYNMPSVLLMEGELD ISRLRDSLNQLVNRHESLRTSFMEANGEPVQRIIEKAEVDLHVFEAKEDEADQKIKEF IRPFDLNDAPLIRAALLRIEAKKHLLLLDMHHIIADGVSRGIFVKELALLYKGEQLPE PTLHYKDFAVWQNEAEQKERMKEHEAYWMSVLSGELPELDLPLDYARPPVQSFKGDTI RFRTGSETAKAVEKLLAETGTTLHMVLHAVFHVFLSKISGQRDIVIGSVTAGRTNADV QDMPGMFVNTLALRMEAKEQQTFAELLELAKQTNLSALEHQEYPFEDLVNQLDLPRDM SRNPLFNVMVTTENPDKEQLTLQNLSISPYEAHQGTSKFDLTLGGFTDENGIGLQLEY ATDLFAKETAEKWSEYVLRLLKAVADNPNQPLSSLLLVTETEKQALLEAWKGKALPVP TDKTVHQLFEETVQRHKDRPAVTYNGQSWTYGELNAKANRLARILMDCGISPDDRVGV LTKPSLEMSAAVLGVLKAGAAFVPIDPDYPDQRIEYILQDSGAKLLLKQEGISVPDSY TGDVILLDGSRTILSLPLDENDEGNPETAVTAENLAYMIYTSGTTGQPKGVMVEHHAL VNLCFWHHDAFSMTAEDRSAKYAGFGFDASIWEMFPTWTIGAELHVIDEAIRLDIVRL NDYFETNGVTITFLPTQLAEQFMELENTSLRVLLTGGDKLKRAVKKPYTLVNNYGPTE NTVVATSAEIHPEEGSLSIGRAIANTRVYILGEGNQVQPEGVAGELCVAGRGLARGYL NREDETAKRFVADPFVPGERMYRTGDLVKWVNGGIEYIGRIDQQVKVRGYRIELSEIE VQLAQLSEVQDAAVTAVKDKGGNTAIAAYVTPETADIEALKSTLKETLPDYMIPAFWV TLNELPVTANGKVDRKALPEPDIEAGSGEYKAPTTDMEELLAGIWQDVLGMSEVGVTD NFFSLGGDSIKGIQMASRLNQHGWKLEMKDLFQHPTIEELTQYVERAEGKQADQGPVE GEVILTPIQRWFFEKNFTNKHHWNQSVMLHAKKGFDPERVEKTLQALIEHHDALRMVY REENGDIVQVYKPIGESKVSFEIVDLYGSDEEMLRSQIKLLANKLQSSLDLRNGPLLK AEQYRTEAGDHLLIAVHHLVVDGVSWRILLEDFASGYMQAEKEESLVFPQKTNSFKDW AEELAAFSQSAHLLQQAEYWSQIAAEQVSPLPKDCETEQRIVKDTSSVLCELTAEDTK HLLTDVHQPYGTEINDILLSALGLTMKEWTKGAKIGINLEGHGREDIIPNVNISRTVG WFTAQYPVVLDISDADASAVIKTVKENLRRIPDKGVGYGILRYFTETAETKGFTPEIS FNYLGQFDSEVKTDFFEPSAFDMGRQVSGESEALYALSFSGMIRNGRFVLSCSYNEKE FERATVEEQMERFKENLLMLIRHCTEKEDKEFTPSDFSAEDLEMDEMGDIFDMLEENL K*" gene 387744..398495 /gene="srfAB" /locus_tag="BSU_03490" /old_locus_tag="BSU03490" CDS 390880..391020 /gene="comS" /locus_tag="BSU_03500" /old_locus_tag="BSU03500" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:10361283, 16554821, 8752331, 9696775, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10361283, 16554821, 8752331, 9696775, 22720735; Product type r: regulator" /codon_start=1 /transl_table=11 /product="regulator of genetic competence" /protein_id="NP_388232.1" /db_xref="EnsemblGenomes-Gn:BSU03500" /db_xref="EnsemblGenomes-Tr:CAB12144" /db_xref="GOA:P80355" /db_xref="InterPro:IPR035139" /db_xref="SubtiList:BG11045" /db_xref="UniProtKB/Swiss-Prot:P80355" /translation="MNRSGKHLISSIILYPRPSGECISSISLDKQTQATTSPLYFCWR EK*" gene 390880..391020 /gene="comS" /locus_tag="BSU_03500" /old_locus_tag="BSU03500" CDS 398532..402359 /gene="srfAC" /locus_tag="BSU_03510" /old_locus_tag="BSU03510" /function="16.8: Protect" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:15066026, 16166527, 16553878, 17227471, 14762003, 22720735, 26284661" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15066026, 16166527, 16553878, 17227471, 14762003, 22720735, 26284661; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="surfactin synthetase" /protein_id="NP_388233.2" /db_xref="EnsemblGenomes-Gn:BSU03510" /db_xref="EnsemblGenomes-Tr:CAB12145" /db_xref="GOA:Q08787" /db_xref="InterPro:IPR000873" /db_xref="InterPro:IPR001031" /db_xref="InterPro:IPR001242" /db_xref="InterPro:IPR006162" /db_xref="InterPro:IPR009081" /db_xref="InterPro:IPR010071" /db_xref="InterPro:IPR020806" /db_xref="InterPro:IPR020845" /db_xref="InterPro:IPR025110" /db_xref="InterPro:IPR029058" /db_xref="InterPro:IPR036736" /db_xref="PDB:1JMK" /db_xref="PDB:2VSQ" /db_xref="SubtiList:BG10170" /db_xref="UniProtKB/Swiss-Prot:Q08787" /translation="MSQFSKDQVQDMYYLSPMQEGMLFHAILNPGQSFYLEQITMKVK GSLNIKCLEESMNVIMDRYDVFRTVFIHEKVKRPVQVVLKKRQFHIEEIDLTHLTGSE QTAKINEYKEQDKIRGFDLTRDIPMRAAIFKKAEESFEWVWSYHHIILDGWCFGIVVQ DLFKVYNALREQKPYSLPPVKPYKDYIKWLEKQDKQASLRYWREYLEGFEGQTTFAEQ RKKQKDGYEPKELLFSLSEAETKAFTELAKSQHTTLSTALQAVWSVLISRYQQSGDLA FGTVVSGRPAEIKGVEHMVGLFINVVPRRVKLSEGITFNGLLKRLQEQSLQSEPHQYV PLYDIQSQADQPKLIDHIIVFENYPLQDAKNEESSENGFDMVDVHVFEKSNYDLNLMA SPGDEMLIKLAYNENVFDEAFILRLKSQLLTAIQQLIQNPDQPVSTINLVDDREREFL LTGLNPPAQAHETKPLTYWFKEAVNANPDAPALTYSGQTLSYRELDEEANRIARRLQK HGAGKGSVVALYTKRSLELVIGILGVLKAGAAYLPVDPKLPEDRISYMLADSAAACLL THQEMKEQAAELPYTGTTLFIDDQTRFEEQASDPATAIDPNDPAYIMYTSGTTGKPKG NITTHANIQGLVKHVDYMAFSDQDTFLSVSNYAFDAFTFDFYASMLNAARLIIADEHT LLDTERLTDLILQENVNVMFATTALFNLLTDAGEDWMKGLRCILFGGERASVPHVRKA LRIMGPGKLINCYGPTEGTVFATAHVVHDLPDSISSLPIGKPISNASVYILNEQSQLQ PFGAVGELCISGMGVSKGYVNRADLTKEKFIENPFKPGETLYRTGDLARWLPDGTIEY AGRIDDQVKIRGHRIELEEIEKQLQEYPGVKDAVVVADRHESGDASINAYLVNRTQLS AEDVKAHLKKQLPAYMVPQTFTFLDELPLTTNGKVNKRLLPKPDQDQLAEEWIGPRNE MEETIAQIWSEVLGRKQIGIHDDFFALGGHSLKAMTAASRIKKELGIDLPVKLLFEAP TIAGISAYLKNGGSDGLQDVTIMNQDQEQIIFAFPPVLGYGLMYQNLSSRLPSYKLCA FDFIEEEDRLDRYADLIQKLQPEGPLTLFGYSAGCSLAFEAAKKLEEQGRIVQRIIMV DSYKKQGVSDLDGRTVESDVEALMNVNRDNEALNSEAVKHGLKQKTHAFYSYYVNLIS TGQVKADIDLLTSGADFDMPEWLASWEEATTGVYRVKRGFGTHAEMLQGETLDRNAEI LLEFLNTQTVTVS*" gene 398532..402359 /gene="srfAC" /locus_tag="BSU_03510" /old_locus_tag="BSU03510" CDS 402388..403116 /gene="srfAD" /locus_tag="BSU_03520" /old_locus_tag="BSU03520" /function="16.8: Protect" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:16166527, 16553878, 17227471, 14762003, 22720735, 26284661" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16166527, 16553878, 17227471, 14762003, 22720735, 26284661; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="surfactin synthetase" /protein_id="NP_388234.1" /db_xref="EnsemblGenomes-Gn:BSU03520" /db_xref="EnsemblGenomes-Tr:CAB12146" /db_xref="GOA:Q08788" /db_xref="InterPro:IPR001031" /db_xref="InterPro:IPR012223" /db_xref="InterPro:IPR029058" /db_xref="PDB:2K2Q" /db_xref="PDB:2RON" /db_xref="SubtiList:BG10171" /db_xref="UniProtKB/Swiss-Prot:Q08788" /translation="MSQLFKSFDASEKTQLICFPFAGGYSASFRPLHAFLQGECEMLA AEPPGHGTNQTSAIEDLEELTDLYKQELNLRPDRPFVLFGHSMGGMITFRLAQKLERE GIFPQAVIISAIQPPHIQRKKVSHLPDDQFLDHIIQLGGMPAELVENKEVMSFFLPSF RSDYRALEQFELYDLAQIQSPVHVFNGLDDKKCIRDAEGWKKWAKDITFHQFDGGHMF LLSQTEEVAERIFAILNQHPIIQP*" gene 402388..403116 /gene="srfAD" /locus_tag="BSU_03520" /old_locus_tag="BSU03520" downshifts 403098 /Source="Nicolas_upshifts" /id="D154" /incds=0 /nref=196 /ntot=261 /MaxReadThrough="4.65721" /MaxDrop="6.48992" /score="24.9581454" /energy="-11.1" /TU="U268" /idTUdmin="U268" /TUdmin="-1339" /isTUend="FALSE" promotor_-35 403154..403161 /Source="Nicolas_upshift_promotors" /id="U269" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.795204795204795" /psig=1 /xcortree=2955 /SigmaFactorBS="cattcaaccgtgatcaaaagcggacagcttcggctgttccgc tttttttgTGTTGAATgccaatttctgCATGGTATAATAGTCGAAATactcaaataaa g" /listShort="ycxA" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 403164 /Source="Nicolas_upshifts" /id="U269" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.795204795204795" /psig=1 /xcortree=2955 /SigmaFactorBS="cattcaaccgtgatcaaaagcggacagcttcggctgttccgc tttttttgTGTTGAATgccaatttctgCATGGTATAATAGTCGAAATactcaaataaa g" /listShort="ycxA" /GFF_Attribute="listLong" promotor_-10 403173..403192 /Source="Nicolas_upshift_promotors" /id="U269" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.795204795204795" /psig=1 /xcortree=2955 /SigmaFactorBS="cattcaaccgtgatcaaaagcggacagcttcggctgttccgc tttttttgTGTTGAATgccaatttctgCATGGTATAATAGTCGAAATactcaaataaa g" /listShort="ycxA" /GFF_Attribute="listLong" /label="promotor_-10" CDS 403217..404443 /gene="srfT" /locus_tag="BSU_03530" /old_locus_tag="BSU03530" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1b: Function from experimental evidences in the studied species; PubMedId: 15849754, 16850406, 25366377; Product type t: transporter" /codon_start=1 /transl_table=11 /product="surfactin exporter" /protein_id="NP_388235.2" /db_xref="EnsemblGenomes-Gn:BSU03530" /db_xref="EnsemblGenomes-Tr:CAB12147" /db_xref="GOA:Q08791" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG10172" /db_xref="UniProtKB/Swiss-Prot:Q08791" /translation="MRTSPRMKWFVLLFTFVFAIGMNSFRNSFQFFMLPMADAFHADR SLISVSVSIFMITTGIVQFFVGFFIDRFSVRKIMALGAVCISASFLVLPYSPNVHVFS AIYGVLGGIGYSCAVGVTTQYFISCWFDTHKGLALAILTNANSAGLLLLSPIWAAAPY HAGWQSTYTILGIVMAAVLLPLLVFGMKHPPHAQAETVKKSYDWRGFWNVMKQSRLIH ILYFGVFTCGFTMGIIDAHLVPILKDAHVSHVNGMMAAFGAFIIIGGLLAGWLSDLLG SRSVMLSILFFIRLLSLICLLIPILGIHHSDLWYFGFILLFGLSYTGVIPLTAASISE SYQTGLIGSLLGINFFIHQVAGALSVYAGGLFFDMTHGYLLIVAVCIVFVGLSAVIEL VPFLDKQKAKETHHSI*" gene 403217..404443 /gene="srfT" /locus_tag="BSU_03530" /old_locus_tag="BSU03530" downshifts 404437 /Source="Nicolas_upshifts" /id="D155" /incds=0 /nref=15 /ntot=198 /MaxReadThrough="2.67601" /MaxDrop="4.06773" /score="7.33278866" /energy="-13.2" /TU="NA" /idTUdmin="U268" /TUdmin=0 /isTUend="TRUE" CDS complement(404458..405015) /gene="ycxB" /locus_tag="BSU_03540" /old_locus_tag="BSU03540" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function; PubMedId : 21965396" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="NP_388236.1" /db_xref="EnsemblGenomes-Gn:BSU03540" /db_xref="EnsemblGenomes-Tr:CAB12148" /db_xref="GOA:Q08793" /db_xref="InterPro:IPR025588" /db_xref="SubtiList:BG10173" /db_xref="UniProtKB/Swiss-Prot:Q08793" /translation="MIQYASESINLPGEITFKDVREIFFYQIAKISCFYFLLFCAIFA AVNFINGWPRIVYGSDALNLFMNSMLIIVMSVLFTLLLLLLLYVKFSRAYKKNERMKS KRTYTLNQEGIRICSKKYDLIFNWDEITAVFEYKNIFRVNTSSGQYIAIPKHFFHSEE EMNRFKEIILKNTETKKLKFKKDQH*" gene complement(404458..405015) /gene="ycxB" /locus_tag="BSU_03540" /old_locus_tag="BSU03540" promotor_no_box complement(404473..404573) /Source="Nicolas_upshift_promotors" /id="U270" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.725274725274725" /psig="0.024975024975025" /xcortree=283 /SigmaFactorBS="atattgcgatccccaaacatttttttcactccgaagaggaga tgaacagattcaaggagattatccttaaaaataccgaaacaaaaaaactcaaatttaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" downshifts complement(404495) /Source="Nicolas_upshifts" /id="D156" /incds=0 /nref=46 /ntot=241 /MaxReadThrough="0.9216" /MaxDrop="4.25654" /score="8.42655219" /energy="-14.3" /TU="U270" /idTUdmin="U271" /TUdmin=18 /isTUend="TRUE" upshifts complement(404513) /Source="Nicolas_upshifts" /id="U270" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.725274725274725" /psig="0.024975024975025" /xcortree=283 /SigmaFactorBS="atattgcgatccccaaacatttttttcactccgaagaggaga tgaacagattcaaggagattatccttaaaaataccgaaacaaaaaaactcaaatttaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" misc_feature complement(405044..405063) /Source="Nicolas_upshift_promotors" /id="U271" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.942057942057942" /psig=1 /xcortree=3105 /SigmaFactorBS="aaaaaacaaagcgccctggtatgcctgcaaaaaaatgagaaa tTATGCTAGACTAAAAGGAAAaacatggttagaggtgtaggtttaccgtatgattcaa t" /listShort="ycxB" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(405046) /Source="Nicolas_upshifts" /id="U271" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.942057942057942" /psig=1 /xcortree=3105 /SigmaFactorBS="aaaaaacaaagcgccctggtatgcctgcaaaaaaatgagaaa tTATGCTAGACTAAAAGGAAAaacatggttagaggtgtaggtttaccgtatgattcaa t" /listShort="ycxB" /GFF_Attribute="listLong" CDS complement(405069..406007) /gene="ycxC" /locus_tag="BSU_03550" /old_locus_tag="BSU03550" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative permease" /protein_id="NP_388237.2" /db_xref="EnsemblGenomes-Gn:BSU03550" /db_xref="EnsemblGenomes-Tr:CAB12149" /db_xref="GOA:Q08794" /db_xref="InterPro:IPR000620" /db_xref="SubtiList:BG10174" /db_xref="UniProtKB/Swiss-Prot:Q08794" /translation="MVKHQQTPAYIAAILYSFIIGLSFLFVKIALQTAEPFDILAHRF TIAFAAATVPILFGWVKLSIRVKDVIDILPLALLYPALFFSFQAFGLVYSSSSEAGII QAAIPIFTMVFAAYVLKERPTWTQKGFTVLSVAGVMFIFVMKGVDVESASLKGSLLIL LSALSSAMYNTAARKMTQRFKLTELTYIMSAIGFVVFNAIALVRHGAAGTVGTYFLPF REPGFVLAIVYLGVLSSLVTSFLSNYTLSRIEAFKMSAFNHVSTIVTMIAGFVILNES LAWYHLAGAVCIMIGVVGSNINLEKKTKRPGMPAKK*" gene complement(405069..406007) /gene="ycxC" /locus_tag="BSU_03550" /old_locus_tag="BSU03550" promotor_-10 complement(406046..406064) /Source="Nicolas_upshift_promotors" /id="U272" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.536463536463537" /psig="0.536463536463537" /xcortree=793 /SigmaFactorBS="tgtaccggtacagttcattgtttttctcATTGTAccgttctg accgcggCCATACAATAAAGGGAGCGaccggcgctgcaattcaggtaaaggagccctt c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(406053) /Source="Nicolas_upshifts" /id="U272" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.536463536463537" /psig="0.536463536463537" /xcortree=793 /SigmaFactorBS="tgtaccggtacagttcattgtttttctcATTGTAccgttctg accgcggCCATACAATAAAGGGAGCGaccggcgctgcaattcaggtaaaggagccctt c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(406080..406085) /Source="Nicolas_upshift_promotors" /id="U272" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.536463536463537" /psig="0.536463536463537" /xcortree=793 /SigmaFactorBS="tgtaccggtacagttcattgtttttctcATTGTAccgttctg accgcggCCATACAATAAAGGGAGCGaccggcgctgcaattcaggtaaaggagccctt c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 406131..407465 /gene="ycxD" /locus_tag="BSU_03560" /old_locus_tag="BSU03560" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15223311, 26585522; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative PLP-dependent transcriptional regulator" /protein_id="NP_388238.1" /db_xref="EnsemblGenomes-Gn:BSU03560" /db_xref="EnsemblGenomes-Tr:CAB12150" /db_xref="GOA:Q08792" /db_xref="InterPro:IPR000524" /db_xref="InterPro:IPR004839" /db_xref="InterPro:IPR015421" /db_xref="InterPro:IPR015422" /db_xref="InterPro:IPR015424" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG10175" /db_xref="UniProtKB/Swiss-Prot:Q08792" /translation="MEKYMSLLTRIEEMMQSTSYQEGDRLPSIRQLSARYQVSKSTVI RALQELEKRHLIYSVPKSGYYIVKKSGKSKSGQPGPIDFATSAPDPDVFPYLDFQHCI NKAIDTYKNDLFIYGTPKGLPSLIRVLRKLLATQQVFADERHIFITSGVQQALSLLCA MPFPNGKEKIAIEQPGYHLMVEQLETLGIPAIGVKRTEEGLDIAKVERLFQTESIKFF YTMPRFHNPLGCSLSERDKQELVRLAEAYDVYLVEDDYLGDLEENKKADPLYAYDLSS HVIYLKSFSKMMFPGLRVGAAVLPEALTDTFYAYKKLNDIDCSMISQAALEIYLKSGM YGRHKEKIRDSYKERSLRLHQAIRTHRQLGSGRFTFSSGQAPCMHTHLVLPQDLPASR VIHRLEKQGVLLEAIDRHYLSDYPKENLLKINISNVKTEDIERGVKLLMSHL*" gene 406131..407465 /gene="ycxD" /locus_tag="BSU_03560" /old_locus_tag="BSU03560" CDS complement(407460..407627) /gene="sfpAc" /locus_tag="BSU_03569" /old_locus_tag="BSU03569" /EC_number="2.7.8.-" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1b: Function from experimental evidences in the studied species; PubMedId: 10568751, 17376553, 2848009, 9384377, 14762003, 16707694, 19061923, 20971906, 25288929, 26268540; Product type e: enzyme" /pseudo /codon_start=1 /transl_table=11 /product="C-terminal part of 4'-phosphopantetheinyl transferase (Surfactin synthetase-activating enzyme)" /db_xref="PSEUDO:CAX52545.1" /translation="MRLHQDGQVSIELPDSHSPCYIKTYEVDPGYKMAVCAVHPDFPE DITMVSYEELL*" gene complement(407460..407627) /gene="sfpAc" /locus_tag="BSU_03569" /old_locus_tag="BSU03569" /pseudo CDS complement(407638..408135) /gene="sfpAn" /locus_tag="BSU_03570" /old_locus_tag="BSU03570" /EC_number="2.7.8.-" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1b: Function from experimental evidences in the studied species; PubMedId: 10568751, 17376553, 2848009, 9384377, 14762003, 16707694, 19061923, 20971906, 25288929, 26268540; Product type e: enzyme" /pseudo /codon_start=1 /transl_table=11 /product="N-terminal part of 4'-phosphopantetheinyl transferase (surfactin synthetase-activating enzyme)" /db_xref="GOA:P39135" /db_xref="InterPro:IPR004568" /db_xref="InterPro:IPR008278" /db_xref="InterPro:IPR037143" /db_xref="PDB:1QR0" /db_xref="PDB:2GE0" /db_xref="PDB:2GE1" /db_xref="PDB:4MRT" /db_xref="PSEUDO:CAB12151.2" /db_xref="SubtiList:BG10176" /db_xref="UniProtKB/Swiss-Prot:P39135" /translation="MKIYGIYMDRPLSQEENERFMSFISPEKREKCRRFYHKEDAHRT LLGDVLVRSVISRQYQLDKSDIRFSTQEYGKPCIPDLPDAHFNISHSGRWVICAFDSQ PIGIDIEKTKPISLEIAKRFFSKTEYSDLLAKDKDEQTDYFYHLWSMKESFIKQGRQR LIASA*" gene complement(407638..408135) /gene="sfpAn" /locus_tag="BSU_03570" /old_locus_tag="BSU03570" /pseudo misc_feature complement(408162..408181) /Source="Nicolas_upshift_promotors" /id="U273" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.984015984015984" /psig=1 /xcortree=2243 /SigmaFactorBS="agccgccttggctttgtttttttattttctcctctatatgag tcttgtggaagTATGATAGGATGGTTTTGACaatcttttgcagacggaggatctagaa t" /listShort="sfp, sfp" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(408174) /Source="Nicolas_upshifts" /id="U273" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.984015984015984" /psig=1 /xcortree=2243 /SigmaFactorBS="agccgccttggctttgtttttttattttctcctctatatgag tcttgtggaagTATGATAGGATGGTTTTGACaatcttttgcagacggaggatctagaa t" /listShort="sfp, sfp" /GFF_Attribute="listLong" CDS complement(408240..408887) /gene="yczE" /locus_tag="BSU_03580" /old_locus_tag="BSU03580" /function="15.11: Biosynthesis of natural products" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 15849754, 16850406, 17827323, 14762003, 16707694, 17827323, 25288929; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="integral inner membrane protein regulating antibiotic production" /protein_id="NP_388240.2" /db_xref="EnsemblGenomes-Gn:BSU03580" /db_xref="EnsemblGenomes-Tr:CAB12152" /db_xref="GOA:O34927" /db_xref="SubtiList:BG12779" /db_xref="UniProtKB/Swiss-Prot:O34927" /translation="MKQELVLRWTFYFAGLIILAFGVSLTIEGKALGISPWDAFHYSL FQHFGLTVGQWSIIIGALIVGFTSLFTRAWPKIGALLNMVLIGVFIDFFNFILPALST YTGSIIVFSLGVVLIGYGVGVYVSAGLGAGPRDSLMMLITEKTGWNVQWVRNGMELTI LFAAWGMGGPIGFGTILTAILTGLILRFSLPQSIQLLNYAVARRTAAVKASPPVH*" gene complement(408240..408887) /gene="yczE" /locus_tag="BSU_03580" /old_locus_tag="BSU03580" promotor_-10 complement(408916..408935) /Source="Nicolas_upshift_promotors" /id="U274" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.866133866133866" /psig=1 /xcortree=2616 /SigmaFactorBS="tttttttgttgagcccctttcgccTATTCcgcccttctgtca gaTGTGCTACAATGACAATCGActgatttttacgaaagaagggacctcacgtgaagca a" /listShort="yczE, sfp, sfp" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(408919) /Source="Nicolas_upshifts" /id="U274" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.866133866133866" /psig=1 /xcortree=2616 /SigmaFactorBS="tttttttgttgagcccctttcgccTATTCcgcccttctgtca gaTGTGCTACAATGACAATCGActgatttttacgaaagaagggacctcacgtgaagca a" /listShort="yczE, sfp, sfp" /GFF_Attribute="listLong" promotor_-35 complement(408951..408955) /Source="Nicolas_upshift_promotors" /id="U274" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.866133866133866" /psig=1 /xcortree=2616 /SigmaFactorBS="tttttttgttgagcccctttcgccTATTCcgcccttctgtca gaTGTGCTACAATGACAATCGActgatttttacgaaagaagggacctcacgtgaagca a" /listShort="yczE, sfp, sfp" /GFF_Attribute="listLong" /label="promotor_-35" S_feature complement(409056..409207) /Source="Nicolas_S_feature" /locus_tag="new_409056_409207_c" /HighExp="G180, G135, dia15, H2O2, Diami, S8, Oxctl, G150, LPhT, Heat" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S127" CDS complement(409208..409951) /gene="tcyC" /locus_tag="BSU_03590" /old_locus_tag="BSU03590" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15262924, 16513748, 22212096" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15262924, 16513748, 22212096; Product type t: transporter" /codon_start=1 /transl_table=11 /product="cystine ABC transporter (ATP-binding protein)" /protein_id="NP_388241.2" /db_xref="EnsemblGenomes-Gn:BSU03590" /db_xref="EnsemblGenomes-Tr:CAB12153" /db_xref="GOA:P39456" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR030679" /db_xref="SubtiList:BG11185" /db_xref="UniProtKB/Swiss-Prot:P39456" /translation="MLTVKGLNKSFGENEILKKIDMKIEKGKVIAILGPSGSGKTTLL RCLNALEIPNRGELAFDDFSIDFSKKVKQADILKLRRKSGMVFQAYHLFPHRTALENV MEGPVQVQKRNKEEVRKEAIQLLDKVGLKDKMDLYPFQLSGGQQQRVGIARALAIQPE LMLFDEPTSALDPELVGEVLKVIKDLANEGWTMVVVTHEIKFAQEVADEVIFIDGGVI VEQGPPEQIFSAPKEERTQRFLNRILNPL*" gene complement(409208..409951) /gene="tcyC" /locus_tag="BSU_03590" /old_locus_tag="BSU03590" downshifts complement(409264) /Source="Nicolas_upshifts" /id="D157" /incds=0 /nref=72 /ntot=232 /MaxReadThrough="4.60958" /MaxDrop="4.44283" /score="1.62131565" /energy="-12.6" /TU="U275" /idTUdmin="U276" /TUdmin=4 /isTUend="TRUE" CDS complement(409965..410669) /gene="tcyB" /locus_tag="BSU_03600" /old_locus_tag="BSU03600" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15262924, 15849754, 16850406, 22212096" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15262924, 15849754, 16850406, 22212096; Product type t: transporter" /codon_start=1 /transl_table=11 /product="cystine ABC transporter (permease)" /protein_id="NP_388242.1" /db_xref="EnsemblGenomes-Gn:BSU03600" /db_xref="EnsemblGenomes-Tr:CAB12154" /db_xref="GOA:P42200" /db_xref="InterPro:IPR000515" /db_xref="InterPro:IPR010065" /db_xref="InterPro:IPR035906" /db_xref="SubtiList:BG11186" /db_xref="UniProtKB/Swiss-Prot:P42200" /translation="MFLNNLPALTLGTAIPWDLVQQSFWPILSGGIYYTIPLTILSFI FGMILALITALARMSKVRPLRWVFSVYVSAIRGTPLLVQLFIIFYLFPAFNVTLDPFP SAVIAFSLNVGAYASEIIRASILSVPKGQWEAGYTIGMTHQKTLFRVILPQAFRVSIP PLSNTFISLIKDTSLASQILVAELFRKAQEIGARNLDQILVIYIEAAFIYWIICFLLS LVQHVIERRLDRYVAK*" gene complement(409965..410669) /gene="tcyB" /locus_tag="BSU_03600" /old_locus_tag="BSU03600" CDS complement(410656..411462) /gene="tcyA" /locus_tag="BSU_03610" /old_locus_tag="BSU03610" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15262924, 22212096" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15262924, 22212096; Product type t: transporter" /codon_start=1 /transl_table=11 /product="cystine ABC transporter (substrate-binding lipoprotein)" /protein_id="NP_388243.2" /db_xref="EnsemblGenomes-Gn:BSU03610" /db_xref="EnsemblGenomes-Tr:CAB12155" /db_xref="GOA:P42199" /db_xref="InterPro:IPR001638" /db_xref="InterPro:IPR018313" /db_xref="SubtiList:BG11187" /db_xref="UniProtKB/Swiss-Prot:P42199" /translation="MKKALLALFMVVSIAALAACGAGNDNQSKDNAKDGDLWASIKKK GVLTVGTEGTYEPFTYHDKDTDKLTGYDVEVITEVAKRLGLKVDFKETQWDSMFAGLN SKRFDVVANQVGKTDREDKYDFSDKYTTSRAVVVTKKDNNDIKSEADVKGKTSAQSLT SNYNKLATNAGAKVEGVEGMAQALQMIQQGRVDMTYNDKLAVLNYLKTSGNKNVKIAF ETGEPQSTYFTFRKGSGEVVDQVNKALKEMKEDGTLSKISKKWFGEDVSK*" gene complement(410656..411462) /gene="tcyA" /locus_tag="BSU_03610" /old_locus_tag="BSU03610" promotor_-10 complement(411511..411530) /Source="Nicolas_upshift_promotors" /id="U275" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.913086913086913" /psig="0.987012987012987" /xcortree=1798 /SigmaFactorBS="ttttaaaagattttgtcttatgaaaaccaaatACTTGACTca tactaaaaaaaAGTTATCCTTTAGATTTGTAagctaattttttatttcaataaaatca a" /listShort="tcyA, tcyB, tcyC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(411523) /Source="Nicolas_upshifts" /id="U275" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.913086913086913" /psig="0.987012987012987" /xcortree=1798 /SigmaFactorBS="ttttaaaagattttgtcttatgaaaaccaaatACTTGACTca tactaaaaaaaAGTTATCCTTTAGATTTGTAagctaattttttatttcaataaaatca a" /listShort="tcyA, tcyB, tcyC" /GFF_Attribute="listLong" promotor_-35 complement(411544..411551) /Source="Nicolas_upshift_promotors" /id="U275" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.913086913086913" /psig="0.987012987012987" /xcortree=1798 /SigmaFactorBS="ttttaaaagattttgtcttatgaaaaccaaatACTTGACTca tactaaaaaaaAGTTATCCTTTAGATTTGTAagctaattttttatttcaataaaatca a" /listShort="tcyA, tcyB, tcyC" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(411578..412450) /gene="bsdA" /locus_tag="BSU_03620" /old_locus_tag="BSU03620" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:17295427" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 17295427; Product type r: regulator" /codon_start=1 /transl_table=11 /product="HTH-type transcriptional regulator BsdA (LysR family)" /protein_id="NP_388244.1" /db_xref="EnsemblGenomes-Gn:BSU03620" /db_xref="EnsemblGenomes-Tr:CAB12156" /db_xref="GOA:P94403" /db_xref="InterPro:IPR000847" /db_xref="InterPro:IPR005119" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12022" /db_xref="UniProtKB/Swiss-Prot:P94403" /translation="MDIRQLRYFITIAQEQKITSAAKKLHMAQPPLSRQLKQLEDELG VVLFDRNKKKQMTLTYEGAVFLKRAKEILHRFEDAVIEVQELKEEVAGTLAVGSTIYC AALMLEKVTQIKERYPHLTFNIWENEPATLLELLESRQIDAAVTTTLIKSDTVQFKQL DDIPCVLVLSDEAGYPCGDTIKMVDIPSFPLILLRPVNGKGVYNQVMNEFHRLNLEPR IVCECHDSATLLSLVSSGFGASILPVTMIPVHMRNHVHTVHIENNPFIMTPAVMWRTD SYLPKPAQQFLDLF*" gene complement(411578..412450) /gene="bsdA" /locus_tag="BSU_03620" /old_locus_tag="BSU03620" promotor_-10 complement(412188..412206) /Source="Nicolas_upshift_promotors" /id="U276" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=148 /SigmaFactorBS="ctaaaaagagcaaaagagattctgcataGGTTTGAagatgca gtcattgAGGTACAGGAGCTGAAGGAggaagtagccggtacacttgccgtgggatcaa c" /listShort="tcyA, tcyB, tcyC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(412195) /Source="Nicolas_upshifts" /id="U276" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=148 /SigmaFactorBS="ctaaaaagagcaaaagagattctgcataGGTTTGAagatgca gtcattgAGGTACAGGAGCTGAAGGAggaagtagccggtacacttgccgtgggatcaa c" /listShort="tcyA, tcyB, tcyC" /GFF_Attribute="listLong" promotor_-35 complement(412221..412227) /Source="Nicolas_upshift_promotors" /id="U276" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=148 /SigmaFactorBS="ctaaaaagagcaaaagagattctgcataGGTTTGAagatgca gtcattgAGGTACAGGAGCTGAAGGAggaagtagccggtacacttgccgtgggatcaa c" /listShort="tcyA, tcyB, tcyC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 412504..412511 /Source="Nicolas_upshift_promotors" /id="U278" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.947052947052947" /psig="0.97902097902098" /xcortree=1580 /SigmaFactorBS="ccttttaggtattaattatagatttaatagaTATTTTTCata tggatatatcAGGAGTATGATTGAAATGAAagcagaattcaagcgtaaaggagggggc a" /listShort="ubiX, ubiD, bsdD, yclD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(412519..412538) /Source="Nicolas_upshift_promotors" /id="U277" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.978021978021978" /psig="0.985014985014985" /xcortree=1966 /SigmaFactorBS="cgagtttcactttgccccctcctttaCGCTTGAAttctgctt tcattTCAATCATACTCCTGATATAtccatatgaaaaatatctattaaatctataatt a" /listShort="yclA" /listLong="tcyA, tcyB, tcyC" /label="promotor_-10" promotor_-10 412525..412544 /Source="Nicolas_upshift_promotors" /id="U278" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.947052947052947" /psig="0.97902097902098" /xcortree=1580 /SigmaFactorBS="ccttttaggtattaattatagatttaatagaTATTTTTCata tggatatatcAGGAGTATGATTGAAATGAAagcagaattcaagcgtaaaggagggggc a" /listShort="ubiX, ubiD, bsdD, yclD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(412525) /Source="Nicolas_upshifts" /id="U277" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.978021978021978" /psig="0.985014985014985" /xcortree=1966 /SigmaFactorBS="cgagtttcactttgccccctcctttaCGCTTGAAttctgctt tcattTCAATCATACTCCTGATATAtccatatgaaaaatatctattaaatctataatt a" /listShort="yclA" /listLong="tcyA, tcyB, tcyC" upshifts 412533 /Source="Nicolas_upshifts" /id="U278" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.947052947052947" /psig="0.97902097902098" /xcortree=1580 /SigmaFactorBS="ccttttaggtattaattatagatttaatagaTATTTTTCata tggatatatcAGGAGTATGATTGAAATGAAagcagaattcaagcgtaaaggagggggc a" /listShort="ubiX, ubiD, bsdD, yclD" /GFF_Attribute="listLong" CDS 412540..413154 /gene="ubiX" /locus_tag="BSU_03630" /old_locus_tag="BSU03630" /EC_number="4.1.1.-" /EC_number="4.1.1.61" /function="3.2: Degradation" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1b: Function from experimental evidences in the studied species; PubMedId: 10919793, 15979273, 17295427, 18388975, 26083743, 26658822, 26337367; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="phenolic acid decarboxylase-flavin prenyltransferase subunit" /protein_id="NP_388245.1" /db_xref="EnsemblGenomes-Gn:BSU03630" /db_xref="EnsemblGenomes-Tr:CAB12157" /db_xref="GOA:P94404" /db_xref="InterPro:IPR003382" /db_xref="InterPro:IPR004507" /db_xref="InterPro:IPR032901" /db_xref="InterPro:IPR036551" /db_xref="SubtiList:BG12023" /db_xref="UniProtKB/Swiss-Prot:P94404" /translation="MKAEFKRKGGGKVKLVVGMTGATGAIFGVRLLQWLKAAGVETHL VVSPWANVTIKHETGYTLQEVEQLATYTYSHKDQAAAISSGSFDTDGMIVAPCSMKSL ASIRTGMADNLLTRAADVMLKERKKLVLLTRETPLNQIHLENMLALTKMGTIILPPMP AFYNRPRSLEEMVDHIVFRTLDQFGIRLPEAKRWNGIEKQKGGA*" gene 412540..413154 /gene="ubiX" /locus_tag="BSU_03630" /old_locus_tag="BSU03630" promotor_-35 complement(412552..412559) /Source="Nicolas_upshift_promotors" /id="U277" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.978021978021978" /psig="0.985014985014985" /xcortree=1966 /SigmaFactorBS="cgagtttcactttgccccctcctttaCGCTTGAAttctgctt tcattTCAATCATACTCCTGATATAtccatatgaaaaatatctattaaatctataatt a" /listShort="yclA" /listLong="tcyA, tcyB, tcyC" /label="promotor_-35" CDS 413157..414578 /gene="bsdC" /locus_tag="BSU_03640" /old_locus_tag="BSU03640" /EC_number="4.1.1.61" /EC_number="4.1.1.-" /function="3.2: Degradation" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1b: Function from experimental evidences in the studied species; PubMedId: 11029449, 15979273, 17295427, 18388975, 26658822, 26337367; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="promiscuous phenolic acid decarboxylase subunit;1,4-dihydroxy-2-naphtoate-heptaprenyl diphosphatedecarboxylase" /protein_id="NP_388246.1" /db_xref="EnsemblGenomes-Gn:BSU03640" /db_xref="EnsemblGenomes-Tr:CAB12158" /db_xref="GOA:P94405" /db_xref="InterPro:IPR002830" /db_xref="InterPro:IPR012349" /db_xref="InterPro:IPR032902" /db_xref="SubtiList:BG12024" /db_xref="UniProtKB/Swiss-Prot:P94405" /translation="MAYQDFREFLAALEKEGQLLTVNEEVKPEPDLGASARAASNLGD KSPALLFNNIYGYHNARIAMNVIGSWPNHAMMLGMPKDTPVKEQFFEFAKRYDQFPMP VKREETAPFHENEITEDINLFDILPLFRINQGDGGYYLDKACVISRDLEDPDNFGKQN VGIYRMQVKGKDRLGIQPVPQHDIAIHLRQAEERGINLPVTIALGCEPVITTAASTPL LYDQSEYEMAGAIQGEPYRIVKSKLSDLDVPWGAEVVLEGEIIAGEREYEGPFGEFTG HYSGGRSMPIIKIKRVYHRNNPIFEHLYLGMPWTECDYMIGINTCVPLYQQLKEAYPN EIVAVNAMYTHGLIAIVSTKTRYGGFAKAVGMRALTTPHGLGYCKMVIVVDEDVDPFN LPQVMWALSTKMHPKHDAVIIPDLSVLPLDPGSNPSGITHKMILDATTPVAPETRGHY SQPLDSPLTTKEWEQKLMDLMNK*" gene 413157..414578 /gene="bsdC" /locus_tag="BSU_03640" /old_locus_tag="BSU03640" CDS 414595..414822 /gene="bsdD" /locus_tag="BSU_03651" /old_locus_tag="BSU03651" /EC_number="4.1.1.91" /EC_number="4.1.1.-" /EC_number="4.1.1.61" /function="3.2: Degradation" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1b: Function from experimental evidences in the studied species; PubMedId: 15979273, 17295427, 18388975, 26658822; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="phenolic acid decarboxylase subunit" /protein_id="YP_003097675.1" /db_xref="EnsemblGenomes-Gn:BSU03651" /db_xref="EnsemblGenomes-Tr:CAX52546" /db_xref="GOA:C0H3U9" /db_xref="UniProtKB/Swiss-Prot:C0H3U9" /translation="MHTCPRCDSKKGEVMSKSPVEGAWEVYQCQTCFFTWRSCEPESI TNPEKYNPAFKIDPKETETAIEVPAVPERKA*" gene 414595..414822 /gene="bsdD" /locus_tag="BSU_03651" /old_locus_tag="BSU03651" CDS 414819..415283 /gene="yclD" /locus_tag="BSU_03652" /old_locus_tag="BSU03652" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15979273, 18388975; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative FMN-binding enzyme subunit" /protein_id="NP_388247.2" /db_xref="EnsemblGenomes-Gn:BSU03652" /db_xref="EnsemblGenomes-Tr:CAB12159" /db_xref="GOA:C0SPB5" /db_xref="InterPro:IPR012349" /db_xref="SubtiList:BG12025" /db_xref="UniProtKB/Swiss-Prot:C0SPB5" /translation="MIRVNCMSDRLFELLDGSCLNEKQHEAFVLQTVSEDGWPHAAMI SAGEIIALSRTDIRIALWKNTMTSANILRTGKAQFTAWWKGAAYYVKLECAPLPPLKD AEYERDRFSCRIVSVKEDVAKYADLTSGVRIQLHSPEEVLSRWKKTLEDLKR*" gene 414819..415283 /gene="yclD" /locus_tag="BSU_03652" /old_locus_tag="BSU03652" downshifts 415264 /Source="Nicolas_upshifts" /id="D158" /incds=0 /nref=1 /ntot=4 /MaxReadThrough="3.32586" /MaxDrop="3.88166" /score="45.8937489" /energy="-15.1" /TU="NA" /idTUdmin="U278" /TUdmin=0 /isTUend="TRUE" misc_feature 415290..415291 /Source="Nicolas_upshift_promotors" /id="U279" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.357642357642358" /psig="0.557442557442557" /xcortree=3132 /SigmaFactorBS="ctgaagaggtgctgagcagatggaaaaagaccctggaagatt taaaacggtaatatcgaTAgcctgacgccatgcgtcaggctttttttatataatgaaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 415291 /Source="Nicolas_upshifts" /id="U279" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.357642357642358" /psig="0.557442557442557" /xcortree=3132 /SigmaFactorBS="ctgaagaggtgctgagcagatggaaaaagaccctggaagatt taaaacggtaatatcgaTAgcctgacgccatgcgtcaggctttttttatataatgaaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS 415350..416195 /gene="yclE" /locus_tag="BSU_03660" /old_locus_tag="BSU03660" /function="16.6: Maintain" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative hydrolase" /protein_id="NP_388248.2" /db_xref="EnsemblGenomes-Gn:BSU03660" /db_xref="EnsemblGenomes-Tr:CAB12160" /db_xref="GOA:P94407" /db_xref="InterPro:IPR000073" /db_xref="InterPro:IPR029058" /db_xref="SubtiList:BG12026" /db_xref="UniProtKB/Swiss-Prot:P94407" /translation="MERAGICHSDGFDLAYRIEGEGAPILVIGSAVYYPRLFSSDIKQ KYQWVFVDHRGFAKPKRELRAEDSRLDAVLADIERMRTFLQLEDVTILGHSGHAFMAL EYARTYPKQVRKVALFNTAPDNSEERQRKSESFFMETASLERKKRFEKDIENLPQDID KDPERRFVHMCIRAEAKSFYQERPHAAALWDGVFTNMPIIDELWGNTFARIDLLQRLA DVRMPVYIGLGRYDYLVAPVSLWDAVDGLYPHVDKVIFEKSGHQPMLEEPEAFDQSFR KWLDQ*" gene 415350..416195 /gene="yclE" /locus_tag="BSU_03660" /old_locus_tag="BSU03660" CDS complement(416235..417713) /gene="dtpT" /locus_tag="BSU_03670" /old_locus_tag="BSU03670" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 8458848, 11717292, 15849754, 16204487, 16850406, 17496096, 23144141, 25966844; Product type t: transporter" /codon_start=1 /transl_table=11 /product="di-tripeptide-proton ABC symporter" /protein_id="NP_388249.2" /db_xref="EnsemblGenomes-Gn:BSU03670" /db_xref="EnsemblGenomes-Tr:CAB12175" /db_xref="GOA:P94408" /db_xref="InterPro:IPR000109" /db_xref="InterPro:IPR005279" /db_xref="InterPro:IPR018456" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12027" /db_xref="UniProtKB/Swiss-Prot:P94408" /translation="MASIDNESIIKSVPQKGFFGHPRGLFTLFFTEFWERFSYYGMRA ILLYYLYTETVNGGLGFDKGTAVAIMSIYGSLVYMSTIIGGWLADRVFGTANTVFYGG IFIMFGHIALAYPGSSIAFYISMVLIIVGTGLLKPNVSSVVGDLYTKEDPRRDSGFSI FYMGINLGGLLAPLIVGTLGQKYNYHLGFGAAAVGMLLGLIVFALTRKKNLGLAGSNV PNPLSKKSAIGTGIGVIIVAIAVIISVQTGVLTIKRFIDLVSILGILIPVIYFIIMFT SKKADKTEKSRLAAYVPLFIGAVMFWAIQEQGATILAVYADERIRLSLGGFELQSSWF QSLNPLFVVIFAPIFAWLWMKLGKRQPSTPVKFSIGIILAGLSFIIMVFPAMQGKEAL VSPLWLVLSFLLVVLGELCLSPVGLSVTTKLAPAAFSAQTMSMWFLTNAAAQAINAQV AGLFDKIPETMYFGTIGLISIVLGGILLLLSPVIKRAMKGVL*" gene complement(416235..417713) /gene="dtpT" /locus_tag="BSU_03670" /old_locus_tag="BSU03670" downshifts complement(416243) /Source="Nicolas_upshifts" /id="D159" /incds=0 /nref=17 /ntot=90 /MaxReadThrough="1.40624" /MaxDrop="3.91827" /score="43.5753464" /energy="-21" /TU="NA" /idTUdmin="U281" /TUdmin=0 /isTUend="TRUE" promotor_-35 417740..417742 /Source="Nicolas_upshift_promotors" /id="U280" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.257742257742258" /psig="0.581418581418581" /xcortree=1444 /SigmaFactorBS="ctttcgttatcaatcgaagccatgtcagccaaaccctttcta aaaaaagTGTattataaaaatcatatTCTTATATAATACTTGTGTcaatataatttat a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(417741..417760) /Source="Nicolas_upshift_promotors" /id="U281" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.936063936063936" /psig="0.97002997002997" /xcortree=1442 /SigmaFactorBS="tttttccaatatggaactatttgaaatgagtataaattaTAT TGACAcaagtattatataaGAATATGATTTTTATAATACactttttttagaaagggtt t" /listShort="dtpT" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 417751 /Source="Nicolas_upshifts" /id="U280" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.257742257742258" /psig="0.581418581418581" /xcortree=1444 /SigmaFactorBS="ctttcgttatcaatcgaagccatgtcagccaaaccctttcta aaaaaagTGTattataaaaatcatatTCTTATATAATACTTGTGTcaatataatttat a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 417759..417777 /Source="Nicolas_upshift_promotors" /id="U280" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.257742257742258" /psig="0.581418581418581" /xcortree=1444 /SigmaFactorBS="ctttcgttatcaatcgaagccatgtcagccaaaccctttcta aaaaaagTGTattataaaaatcatatTCTTATATAATACTTGTGTcaatataatttat a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(417761) /Source="Nicolas_upshifts" /id="U281" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.936063936063936" /psig="0.97002997002997" /xcortree=1442 /SigmaFactorBS="tttttccaatatggaactatttgaaatgagtataaattaTAT TGACAcaagtattatataaGAATATGATTTTTATAATACactttttttagaaagggtt t" /listShort="dtpT" /GFF_Attribute="listLong" S_feature complement(417763..418267) /Source="Nicolas_S_feature" /locus_tag="new_417763_418267_c" /HighExp="S3, S4, LoTm, S5, S6, T5.0H, T4.0H, M9-stat, S8, T3.30H" /AntisenseName="yclG" /AntisenseCor="0.33937447534762299" /AntisenseRegPval="-7.9" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S128" promotor_-35 complement(417775..417782) /Source="Nicolas_upshift_promotors" /id="U281" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.936063936063936" /psig="0.97002997002997" /xcortree=1442 /SigmaFactorBS="tttttccaatatggaactatttgaaatgagtataaattaTAT TGACAcaagtattatataaGAATATGATTTTTATAATACactttttttagaaagggtt t" /listShort="dtpT" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 417931..417940 /Source="Nicolas_upshift_promotors" /id="U282" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1425 /SigmaFactorBS="attcctttatatttttttaataaaattttagagaaatGTACA AGCAGatcgggcctttgTGAGTAACATGATAGTAATCatagagaaggaggctcgcaat t" /listShort="yclG" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 417953..417972 /Source="Nicolas_upshift_promotors" /id="U282" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1425 /SigmaFactorBS="attcctttatatttttttaataaaattttagagaaatGTACA AGCAGatcgggcctttgTGAGTAACATGATAGTAATCatagagaaggaggctcgcaat t" /listShort="yclG" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 417954 /Source="Nicolas_upshifts" /id="U282" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1425 /SigmaFactorBS="attcctttatatttttttaataaaattttagagaaatGTACA AGCAGatcgggcctttgTGAGTAACATGATAGTAATCatagagaaggaggctcgcaat t" /listShort="yclG" /GFF_Attribute="listLong" CDS 417993..419747 /gene="yclG" /locus_tag="BSU_03680" /old_locus_tag="BSU03680" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative uronase" /protein_id="NP_388250.1" /db_xref="EnsemblGenomes-Gn:BSU03680" /db_xref="EnsemblGenomes-Tr:CAB12176" /db_xref="InterPro:IPR006626" /db_xref="InterPro:IPR006633" /db_xref="InterPro:IPR011050" /db_xref="InterPro:IPR012334" /db_xref="InterPro:IPR024535" /db_xref="SubtiList:BG12028" /db_xref="UniProtKB/Swiss-Prot:P94409" /translation="MAEFILNAADFGVPRDGKTDSTERINQCLSTAVSKGYHTVWFPK GTYLIDATLGGDLNQRFRNAGIIVPGNLEIMMDPECIMKVIPNSSWGYSAFYVGKQEN ITISGGQIIGERDEHTYASAGIRSTHEWGFGICIEGCSNVVIDDVKISDFTGDGIIVS PRGLKTNQDYRTSEQIIIRRCEVRRSRRNNISITGCDMVTVEECLIEDAGTGNGTAPK FGIDIEGYGEGDVDYEEPINVSIRNNHFVGNVSSSVTNFNGYGILIEGNHSDNTISYG YGTQTVIKGNILRRPEDAAAAPRVGITGLGVSQGKETSDAVIAGNLITGFSTGIDVRG KSVLVTNNKISNFENTGILVYQSSDVKVDGNQIQNGLSETRRSIGLRAVLSDDIAFLN NCLIQVVDGVNVSGGNMIIKDNLLRKFSRGIWIAQGNAVIEGNTLNPDAFEAVPESYS VSVTNNAGAIIKNNTFKEFKNYPIYCSTSAKTSIIGNHLERSPLLVTIYISAGVHEIF DNTISVNRTAGNPIVIYLNGSAGSIISGNTINNLSAGTATAIQTNTSTNSKIIGNRIF KGTINKHSSDTIDGNMIV*" gene 417993..419747 /gene="yclG" /locus_tag="BSU_03680" /old_locus_tag="BSU03680" promotor_-10 complement(418264..418282) /Source="Nicolas_upshift_promotors" /id="U283" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1003 /SigmaFactorBS="atcccgttcgccgataatttgtcctccggaaataGTTATAtt ctcttgcttgcctACATAAAATGCGGAATAACcccacgaactattcggtatcactttc a" /listShort="S128, dtpT" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(418277) /Source="Nicolas_upshifts" /id="U283" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1003 /SigmaFactorBS="atcccgttcgccgataatttgtcctccggaaataGTTATAtt ctcttgcttgcctACATAAAATGCGGAATAACcccacgaactattcggtatcactttc a" /listShort="S128, dtpT" /GFF_Attribute="listLong" promotor_-35 complement(418298..418303) /Source="Nicolas_upshift_promotors" /id="U283" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1003 /SigmaFactorBS="atcccgttcgccgataatttgtcctccggaaataGTTATAtt ctcttgcttgcctACATAAAATGCGGAATAACcccacgaactattcggtatcactttc a" /listShort="S128, dtpT" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 419738 /Source="Nicolas_upshifts" /id="D160" /incds=0 /nref=6 /ntot=21 /MaxReadThrough="0.325519999999999" /MaxDrop="4.9689" /score="4.29139266" /energy="-5.4" /TU="NA" /idTUdmin="U282" /TUdmin=7 /isTUend="TRUE" CDS complement(419763..419984) /gene="yczF" /locus_tag="BSU_03690" /old_locus_tag="BSU03690" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388251.1" /db_xref="EnsemblGenomes-Gn:BSU03690" /db_xref="EnsemblGenomes-Tr:CAB12177" /db_xref="GOA:O31479" /db_xref="SubtiList:BG12780" /db_xref="UniProtKB/Swiss-Prot:O31479" /translation="MKILGVTGFILICLLAISVLMDMLQGFSLTKAVYNNMSSFKMTT FAEWVVLLFFVLVLVREMYVIYKSKKKNP*" gene complement(419763..419984) /gene="yczF" /locus_tag="BSU_03690" /old_locus_tag="BSU03690" promotor_-10 complement(420003..420014) /Source="Nicolas_upshift_promotors" /id="U284" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=857 /SigmaFactorBS="aaattgagattatgcattagggttagatgcGGTATAActtct ccgccaaagATAGACACTAAAagcggaggatgatgaagcatgaagatattgggcgtga c" /listShort="yczF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(420005) /Source="Nicolas_upshifts" /id="U284" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=857 /SigmaFactorBS="aaattgagattatgcattagggttagatgcGGTATAActtct ccgccaaagATAGACACTAAAagcggaggatgatgaagcatgaagatattgggcgtga c" /listShort="yczF" /GFF_Attribute="listLong" promotor_-35 complement(420029..420035) /Source="Nicolas_upshift_promotors" /id="U284" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=857 /SigmaFactorBS="aaattgagattatgcattagggttagatgcGGTATAActtct ccgccaaagATAGACACTAAAagcggaggatgatgaagcatgaagatattgggcgtga c" /listShort="yczF" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 420050..420056 /Source="Nicolas_upshift_promotors" /id="U285" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=903 /SigmaFactorBS="gagaagttataccgcatctaaccctaaTGCATAAtctcaatt ttaaaAGGAAGAATATGagaaaacgacaaggaaaggtatttgtgtatgcctttatttt c" /listShort="gerKA, gerKC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 420070..420081 /Source="Nicolas_upshift_promotors" /id="U285" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=903 /SigmaFactorBS="gagaagttataccgcatctaaccctaaTGCATAAtctcaatt ttaaaAGGAAGAATATGagaaaacgacaaggaaaggtatttgtgtatgcctttatttt c" /listShort="gerKA, gerKC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 420083 /Source="Nicolas_upshifts" /id="U285" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=903 /SigmaFactorBS="gagaagttataccgcatctaaccctaaTGCATAAtctcaatt ttaaaAGGAAGAATATGagaaaacgacaaggaaaggtatttgtgtatgcctttatttt c" /listShort="gerKA, gerKC" /GFF_Attribute="listLong" CDS 420110..421744 /gene="gerKA" /locus_tag="BSU_03700" /old_locus_tag="BSU03700" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:10762253, 16707705, 16740944" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10762253, 16707705, 16740944; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="spore germination receptor subunit" /protein_id="NP_388252.1" /db_xref="EnsemblGenomes-Gn:BSU03700" /db_xref="EnsemblGenomes-Tr:CAB12178" /db_xref="GOA:P49939" /db_xref="InterPro:IPR004995" /db_xref="SubtiList:BG11392" /db_xref="UniProtKB/Swiss-Prot:P49939" /translation="MPLFSKRKNNTDSKDKQNTDERNQEQQQEKERPVLISPSLAKNI AETKKEVGSSSDVIIREIKIGEQDHVHLAVIYISGLVDNNTIHESLIDPLVQDESIQN THAIQQILEKTLPLGGVKAEKSWDKLFSELMLGNALIFADGHDEALICSTQGGEQRSI QEPSTQVSFRGPRQGFTESLQTNISMIRRYIKNPNLWVEKMKKGSVTNTDIALMYIQG ICDEKVLKEVKQRLEKIDIDSILESGYIEQLIEDETFTTFPTMYHTERPDVVAGNLLE GRFAIIVDGTPFVLIAPALFVQFFQSVEDYYSRFDIATSIRILRVLVFFISLVAPAVY VAATTFHQEMIPTQLLVVIAAQREIVPFPAVVEALTMEVAFEILREAGVRLPRVVGSA VSIVGALVIGQAAVQAGIVSPAMVIIVALTAIASFATPAFAMAISARLIRFIFIIASA VMGFYGLILGIIMMFVHLCSLRSFGVPYMSPLAPFSSQGVKDALFRVPWWADEKRPES VSKEDKVRQGKDQRPEPAASRGMVNKDLEEGDQNGT*" gene 420110..421744 /gene="gerKA" /locus_tag="BSU_03700" /old_locus_tag="BSU03700" CDS 421734..422957 /gene="gerKC" /locus_tag="BSU_03710" /old_locus_tag="BSU03710" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:10762253, 16707705, 16740944, 19363077" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10762253, 16707705, 16740944, 19363077; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="spore germination receptor subunit" /protein_id="NP_388253.1" /db_xref="EnsemblGenomes-Gn:BSU03710" /db_xref="EnsemblGenomes-Tr:CAB12179" /db_xref="GOA:P49941" /db_xref="InterPro:IPR008844" /db_xref="SubtiList:BG11394" /db_xref="UniProtKB/Swiss-Prot:P49941" /translation="MVRKCLLAVLMLLSVIVLPGCWDKRELTDLAIISAIGIDRTNDS NYVLHLQIINPGNVAGGLQGGGAGDRPPVSVYSIEGNNITEALRKASMKVSRRLYFAH TNLVVINEKLAKEEGLDFVLDNLDRDTEFRTTATFVVAHKTKAENIVKILTPIDKIPS NKVNKTLDFTEAQYGRVVKINIQDVLKTLAANTMAPVIPGYMMIGDDKKGVSMENTQA TDPKAILQADGLAVFDKAGYLKYWLEDDESVGAVWLMNKIQHTFINADWGKTKDAVSL QVTHQDTKLVPKMRNGRPYIHVKVSVEGIIDAVKYPFQLSDPKVLAAIEKALNKELEK EISHTVKKIKKNKIDFIGFGDTIYRKYPEQWEKMKDTWDKEYLPELPIDVKAETYIRR TGLRNNPIKHQFKDD*" gene 421734..422957 /gene="gerKC" /locus_tag="BSU_03710" /old_locus_tag="BSU03710" CDS 422982..424103 /gene="gerKB" /locus_tag="BSU_03720" /old_locus_tag="BSU03720" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:10762253, 15849754, 16707705, 16740944, 16850406, 19363077" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10762253, 15849754, 16707705, 16740944, 16850406, 19363077; Product type cp : cell process" /codon_start=1 /transl_table=11 /product="spore germination receptor subunit" /protein_id="NP_388254.1" /db_xref="EnsemblGenomes-Gn:BSU03720" /db_xref="EnsemblGenomes-Tr:CAB12180" /db_xref="GOA:P49940" /db_xref="InterPro:IPR004761" /db_xref="SubtiList:BG11393" /db_xref="UniProtKB/Swiss-Prot:P49940" /translation="MEKARISIRQLFVMIIIFELGSSLLITPGSMAGRDAWIAVLLGC AIGLFLFYLYQGIYQCYPNSSPKEYMDDMLGTKLSWLFSFLYILYFAYIAARVLRDFG EMLLTFAYHDTPIIIVNALLMVVSIYAVRKGIEVLARAAELLFGAMYLLGAIGLVLII VSGTIDPHNLKPVLANGISPVLHSVFTQTMYVPFGEVVLFVMIFPNLNDRKDVKKMGM IAMAISGLIVALTVAINISVLDVDLTLRSQFPLLSTIQTIKVEEFLDRLDVFFMLALI IGGFFKVSLYLYATVVGTSTLFKEKNPSQLAYPMGLGILILSITIATNFSEHLNEGLN VVPLYIHLPFQLLFPLFLFIVAVWKKKRREKSKGEEAKK*" gene 422982..424103 /gene="gerKB" /locus_tag="BSU_03720" /old_locus_tag="BSU03720" downshifts 424087 /Source="Nicolas_upshifts" /id="D161" /incds=0 /nref=6 /ntot=58 /MaxReadThrough="2.55658" /MaxDrop="3.73002" /score="3.39927899" /energy="-10.5" /TU="NA" /idTUdmin="U285" /TUdmin=2200 /isTUend="FALSE" CDS complement(424208..424888) /gene="yclH" /locus_tag="BSU_03730" /old_locus_tag="BSU03730" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative ABC transporter (ATPase component)" /protein_id="NP_388255.1" /db_xref="EnsemblGenomes-Gn:BSU03730" /db_xref="EnsemblGenomes-Tr:CAB12181" /db_xref="GOA:P94411" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG12029" /db_xref="UniProtKB/Swiss-Prot:P94411" /translation="MSLLQFQQVGYWYKNKSQPLFQDINISFQKGKFYTIVGTSGTGK TTFLSLAGGLDAPKEGNILYDGKAVSKIGLTNFRNQYVSIVFQAYNLLPYMTALQNVT TAMEITGSKEKNKESYALDMLQKVGINEKQARQKVLTLSGGQQQRVSITRAFCCDTDL IVADEPTGNLDEDTSKEIVRLFQDLAHKEDKCVIMVTHDEQIAKVSDINIRLSRGSFT VKENVAVV*" gene complement(424208..424888) /gene="yclH" /locus_tag="BSU_03730" /old_locus_tag="BSU03730" CDS complement(424904..426364) /gene="yclI" /locus_tag="BSU_03740" /old_locus_tag="BSU03740" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative transporter" /protein_id="NP_388256.2" /db_xref="EnsemblGenomes-Gn:BSU03740" /db_xref="EnsemblGenomes-Tr:CAB12182" /db_xref="GOA:P94412" /db_xref="InterPro:IPR003838" /db_xref="InterPro:IPR025857" /db_xref="SubtiList:BG12030" /db_xref="UniProtKB/Swiss-Prot:P94412" /translation="MNFIKRAFWNMKAKKGKTLLQLFVFTVICVFVLSGLAIQSAAQK SSELARQELGGSVTLQVDRQKQMEKQQDSGEKRSFESTPIKVSDANKLAALDHVKSYN YTTSASANAGNFDAIESSSSSDSSSSSSSSNAKNSQGGGQGGPQMVQADLSIEGVIST ALVDDFSDGDSKITDGRAITKSDVGKKVTVINETLAEENDLSVGDSITIESATDEDTT VKLKIVGIYKTTSSGDDQAQNFSFLNPYNKLYTPYTATAALKGDDYKNTIDSAVYYMD DAKNMDTFVKAAKKTSIDFDTYTLNTNDQLYQQMVGPIENVASFSKNVVYLVSVAGAV ILGLIVMMSIRERKYEMGVLMAIGEKRWKLIGQFLTEILIVAVIAIGLASVTGNLVAN QLGNQLLSQQISSSTDSTQTASGQMPGGGGGMGGKMFGHSSSNVDVIDSLNVAVSMND MLILGGIGILIAIIATLLPSISVLRLHPKTILTKQE*" gene complement(424904..426364) /gene="yclI" /locus_tag="BSU_03740" /old_locus_tag="BSU03740" misc_feature 426534..426553 /Source="Nicolas_upshift_promotors" /id="U286" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.647352647352647" /psig="0.962037962037962" /xcortree=1584 /SigmaFactorBS="tctagttgatgaaataaaaactaacaattgtgaaacgcaaaa ccttctgtttaaaatGGTGCTATTATATAAAAAAGcatcaaaacaaccggaggatata a" /listShort="yclJ, yclK, S129, rapC, phrC" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 426537 /Source="Nicolas_upshifts" /id="U286" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.647352647352647" /psig="0.962037962037962" /xcortree=1584 /SigmaFactorBS="tctagttgatgaaataaaaactaacaattgtgaaacgcaaaa ccttctgtttaaaatGGTGCTATTATATAAAAAAGcatcaaaacaaccggaggatata a" /listShort="yclJ, yclK, S129, rapC, phrC" /GFF_Attribute="listLong" CDS 426577..427260 /gene="yclJ" /locus_tag="BSU_03750" /old_locus_tag="BSU03750" /function="16.10: Respire" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11717295, 15375128, 20512483" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11717295, 15375128, 20512483; Product type r: regulator" /codon_start=1 /transl_table=11 /product="two-component response regulator [YclK] (possibly involved in arabinogalactan metabolism)" /protein_id="NP_388257.1" /db_xref="EnsemblGenomes-Gn:BSU03750" /db_xref="EnsemblGenomes-Tr:CAB12183" /db_xref="GOA:P94413" /db_xref="InterPro:IPR001789" /db_xref="InterPro:IPR001867" /db_xref="InterPro:IPR011006" /db_xref="InterPro:IPR016032" /db_xref="InterPro:IPR036388" /db_xref="SubtiList:BG12031" /db_xref="UniProtKB/Swiss-Prot:P94413" /translation="MKILMIEDNVSVCTMTEMFFFKEGFEAEFVHDGLEGYQRFTEEN WDLIILDIMLPSMDGVTICRKIRETSTVPIIMLTAKDTESDQVIGFEMGADDYVTKPF SPLTLVARIKAVIRRYKATGKAVIDEDMIETECFTINKKTREVLLNGEPVENLTPKEF DLLYYLVQNPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRKKLASEDKPFLYTVW GVGYKFDED*" gene 426577..427260 /gene="yclJ" /locus_tag="BSU_03750" /old_locus_tag="BSU03750" CDS 427247..428668 /gene="yclK" /locus_tag="BSU_03760" /old_locus_tag="BSU03760" /function="16.3: Control" /function="16.10: Respire" /function="16.12: Sense" /experiment="publication(s) with functional evidences, PMID:11717295, 15375128, 20512483" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11717295, 15375128, 20512483; Product type rc: receptor" /codon_start=1 /transl_table=11 /product="two-component sensor histidine kinase [YclJ]" /protein_id="NP_388258.1" /db_xref="EnsemblGenomes-Gn:BSU03760" /db_xref="EnsemblGenomes-Tr:CAB12184" /db_xref="GOA:P94414" /db_xref="InterPro:IPR003594" /db_xref="InterPro:IPR003660" /db_xref="InterPro:IPR003661" /db_xref="InterPro:IPR004358" /db_xref="InterPro:IPR005467" /db_xref="InterPro:IPR036097" /db_xref="InterPro:IPR036890" /db_xref="SubtiList:BG12032" /db_xref="UniProtKB/Swiss-Prot:P94414" /translation="MMKIKYLYQLLLSHISILILAFVIIISLFSHFVKEFAYQNKVEE LTSYAVQIANEFQSGQVDMRRLYPYQDILSTRKTQFIIFNEEQQPYFLPEGFHHPPRE QLKKSEWNKLKKGQTVTIRADGRFDDEVSLVAQPIFVQNEFKGAVLLISPISGVEQMV NQVNLYMFYAVISTLVITILVSWLLSKFHVKRIQKLREATDKVASGDYDIHLENSYGD EIGVLASDFNIMAKKLKQSRDEIERLEKRRRQFIADVSHELKTPLTTINGLVEGLNSH TIPEDKKDKCFSLISEETKRMLRLVKENLDYEKIRSQQITLNKLDVPLIEVFEIVKEH LQQQAEEKQNKLMIQVEDHVIVHADYDRFIQILVNITKNSIQFTQNGDIWLRGMEGYK ETIIEIEDTGIGIPKEDIEHIWERFYKADISRTNTAYGEYGLGLSIVRQLVEMHQGTV EIKSEEGKGTKFIIRLPLTAKQQ*" gene 427247..428668 /gene="yclK" /locus_tag="BSU_03760" /old_locus_tag="BSU03760" downshifts 428644 /Source="Nicolas_upshifts" /id="D162" /incds=0 /nref=20 /ntot=169 /MaxReadThrough="3.43905" /MaxDrop="4.91565" /score="13.4599201" /energy="-15" /TU="U286" /idTUdmin="U286" /TUdmin="-1427" /isTUend="FALSE" S_feature 428689..428793 /Source="Nicolas_S_feature" /locus_tag="new_428689_428793" /HighExp="Lbstat, nit, ferm, BI, M0t45, M40t45, M0t90, S0, S2, Paraq" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.962" /TUlongSig="NA" /TUlongPSig="NA" /label="S129" misc_feature 428783..428802 /Source="Nicolas_upshift_promotors" /id="U287" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.96903096903097" /psig="0.986013986013986" /xcortree=678 /SigmaFactorBS="tcccgaaaacaaagattgcgtgtttttcgggttgggacggcc tataaaCATGATAAAATATGACATAAacagtttttgatgggagagggtgaaggaatga a" /listShort="rapC, phrC" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 428795 /Source="Nicolas_upshifts" /id="U287" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.96903096903097" /psig="0.986013986013986" /xcortree=678 /SigmaFactorBS="tcccgaaaacaaagattgcgtgtttttcgggttgggacggcc tataaaCATGATAAAATATGACATAAacagtttttgatgggagagggtgaaggaatga a" /listShort="rapC, phrC" /GFF_Attribute="listLong" downshifts complement(428827) /Source="Nicolas_upshifts" /id="D163" /incds=0 /nref=2 /ntot=81 /MaxReadThrough="1.74985" /MaxDrop="4.10695" /score="1.47729412" /energy="-10.3" /TU="NA" /idTUdmin="U290" /TUdmin=1320 /isTUend="FALSE" CDS 428831..429979 /gene="rapC" /locus_tag="BSU_03770" /old_locus_tag="BSU03770" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:10464187, 12456319, 12897006, 12950917, 15968044, 19202088" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10464187, 12456319, 12897006, 12950917, 15968044, 19202088; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="response regulator aspartate phosphatase" /protein_id="NP_388259.1" /db_xref="EnsemblGenomes-Gn:BSU03770" /db_xref="EnsemblGenomes-Tr:CAB12185" /db_xref="GOA:P94415" /db_xref="InterPro:IPR011990" /db_xref="InterPro:IPR013026" /db_xref="InterPro:IPR019734" /db_xref="SubtiList:BG11966" /db_xref="UniProtKB/Swiss-Prot:P94415" /translation="MKSGVIPSSAVGQKINEWYRYIRTFSVPDAEVLKAEIQQELKHM QHDSNLLLYYSLMEFRHQLMLDYLEPLEKLNIEDQPSLSELSRNIDSNQADLKGLLDY YVNFFRGMYEFDKREFISAITYYKQAEKKLSFVADHIERAEFYFKIAEAYYYMKQTYF SLINIKNAYEIYVEQETYNVRIIQCHFVFGVNLMDERNFEQAARHFKLALNMAQAEQK AQLVGRAYYNLGLCYYNQDLLDPAIDYFEKAVSTFESSRIVNSLPQAYFLITLIYYKQ GKHDKASEYHKRGYEYAKETDDADYAVKFEFLQSLYLDQPNEEGIERCFQYLKNKNMY ADIEDLALEVAKYYYEQKWFKLSASYFLQVEEARKQIQRSEGLYEIEI*" gene 428831..429979 /gene="rapC" /locus_tag="BSU_03770" /old_locus_tag="BSU03770" promotor_-35 429679..429684 /Source="Nicolas_upshift_promotors" /id="U288" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.776223776223776" /psig="0.776223776223776" /xcortree=1063 /SigmaFactorBS="caccctgatttattataaacagggaaaacatgataaagcttc GGAATAtcacaagcggggctatGAATATGCTAAAGAAACAGacgatgcagactatgcc g" /listShort="phrC" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 429697 /Source="Nicolas_upshifts" /id="U288" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.776223776223776" /psig="0.776223776223776" /xcortree=1063 /SigmaFactorBS="caccctgatttattataaacagggaaaacatgataaagcttc GGAATAtcacaagcggggctatGAATATGCTAAAGAAACAGacgatgcagactatgcc g" /listShort="phrC" /GFF_Attribute="listLong" promotor_-10 429701..429719 /Source="Nicolas_upshift_promotors" /id="U288" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.776223776223776" /psig="0.776223776223776" /xcortree=1063 /SigmaFactorBS="caccctgatttattataaacagggaaaacatgataaagcttc GGAATAtcacaagcggggctatGAATATGCTAAAGAAACAGacgatgcagactatgcc g" /listShort="phrC" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 429841..429849 /Source="Nicolas_upshift_promotors" /id="U289" /multdbtbs="SigH" /comp="M1" /sig="SigH" /pcomp="0.753246753246753" /psig="0.753246753246753" /xcortree=788 /SigmaFactorBS="taaaaaataaaaatatgtacgctgatatAGAGGATTTagccc tagaagTAGCAAAATATTACTATGAacagaaatggtttaaactgtctgcttcctactt t" /listShort="phrC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 429861..429879 /Source="Nicolas_upshift_promotors" /id="U289" /multdbtbs="SigH" /comp="M1" /sig="SigH" /pcomp="0.753246753246753" /psig="0.753246753246753" /xcortree=788 /SigmaFactorBS="taaaaaataaaaatatgtacgctgatatAGAGGATTTagccc tagaagTAGCAAAATATTACTATGAacagaaatggtttaaactgtctgcttcctactt t" /listShort="phrC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 429873 /Source="Nicolas_upshifts" /id="U289" /multdbtbs="SigH" /comp="M1" /sig="SigH" /pcomp="0.753246753246753" /psig="0.753246753246753" /xcortree=788 /SigmaFactorBS="taaaaaataaaaatatgtacgctgatatAGAGGATTTagccc tagaagTAGCAAAATATTACTATGAacagaaatggtttaaactgtctgcttcctactt t" /listShort="phrC" /GFF_Attribute="listLong" CDS 429963..430085 /gene="phrC" /locus_tag="BSU_03780" /old_locus_tag="BSU03780" /function="16.3: Control" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:10464187, 12456319, 12897006, 12950917, 16816200, 19202088" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10464187, 12456319, 12897006, 12950917, 16816200, 19202088; Product type r : regulator" /codon_start=1 /transl_table=11 /product="secreted regulator of the activity of phosphatase RapC and competence and sporulation stimulating factor (CSF)" /protein_id="NP_388260.1" /db_xref="EnsemblGenomes-Gn:BSU03780" /db_xref="EnsemblGenomes-Tr:CAB12186" /db_xref="GOA:P94416" /db_xref="InterPro:IPR020243" /db_xref="InterPro:IPR025899" /db_xref="SubtiList:BG11959" /db_xref="UniProtKB/Swiss-Prot:P94416" /translation="MKLKSKLFVICLAAAAIFTAAGVSANAEALDFHVTERGMT*" gene 429963..430085 /gene="phrC" /locus_tag="BSU_03780" /old_locus_tag="BSU03780" downshifts 430072 /Source="Nicolas_upshifts" /id="D164" /incds=0 /nref=260 /ntot=275 /MaxReadThrough="3.24518" /MaxDrop="7.70367" /score="26.3182765" /energy="-14" /TU="NA" /idTUdmin="U286" /TUdmin=1 /isTUend="TRUE" downshifts complement(430140) /Source="Nicolas_upshifts" /id="D165" /incds=0 /nref=3 /ntot=64 /MaxReadThrough="0.60499" /MaxDrop="7.4475" /score="-1.25354129" /energy="-15.8" /TU="NA" /idTUdmin="U290" /TUdmin=7 /isTUend="TRUE" CDS complement(430185..430274) /gene="yczM" /locus_tag="BSU_03788" /old_locus_tag="BSU03788" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 20156992, 21670523; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative type I toxin" /protein_id="YP_003097676.1" /db_xref="EnsemblGenomes-Gn:BSU03788" /db_xref="EnsemblGenomes-Tr:CAX52547" /db_xref="GOA:C0H3V0" /db_xref="InterPro:IPR010070" /db_xref="UniProtKB/Swiss-Prot:C0H3V0" /translation="MSGYGTSFALIVVLFILLIIVGTAFVGGY*" gene complement(430185..430274) /gene="yczM" /locus_tag="BSU_03788" /old_locus_tag="BSU03788" downshifts complement(430345) /Source="Nicolas_upshifts" /id="D166" /incds=0 /nref=25 /ntot=113 /MaxReadThrough="7.05273" /MaxDrop="3.3619" /score="32.1465401" /energy="-16.5" /TU="U290" /idTUdmin="U290" /TUdmin="-198" /isTUend="FALSE" CDS complement(430356..430469) /gene="yczN" /locus_tag="BSU_03789" /old_locus_tag="BSU03789" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 21670523; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative spore and germination protein" /protein_id="YP_003097677.1" /db_xref="EnsemblGenomes-Gn:BSU03789" /db_xref="EnsemblGenomes-Tr:CAX52548" /db_xref="GOA:C0H3V1" /db_xref="InterPro:IPR010070" /db_xref="UniProtKB/Swiss-Prot:C0H3V1" /translation="MSGYSNGGGYGGISSFALIVVLFILLIIVGTAFVGGF*" gene complement(430356..430469) /gene="yczN" /locus_tag="BSU_03789" /old_locus_tag="BSU03789" promotor_-10 complement(430490..430509) /Source="Nicolas_upshift_promotors" /id="U290" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1406 /SigmaFactorBS="attcttcattttttctcttgtccactattaTCCCTGCCAAat ggatcggttcAGCATATCTTATAGTATCCTtcatagggaggtgaaaccttatgtcagg a" /listShort="yczN, yczM" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(430501) /Source="Nicolas_upshifts" /id="U290" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1406 /SigmaFactorBS="attcttcattttttctcttgtccactattaTCCCTGCCAAat ggatcggttcAGCATATCTTATAGTATCCTtcatagggaggtgaaaccttatgtcagg a" /listShort="yczN, yczM" /GFF_Attribute="listLong" promotor_-35 complement(430522..430531) /Source="Nicolas_upshift_promotors" /id="U290" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1406 /SigmaFactorBS="attcttcattttttctcttgtccactattaTCCCTGCCAAat ggatcggttcAGCATATCTTATAGTATCCTtcatagggaggtgaaaccttatgtcagg a" /listShort="yczN, yczM" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(430623..431987) /gene="thrD" /locus_tag="BSU_03790" /old_locus_tag="BSU03790" /EC_number="2.7.2.4" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:2152900, 11471740, 27260660" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 2152900, 11471740, 27260660; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="aspartate kinase III" /protein_id="NP_388261.1" /db_xref="EnsemblGenomes-Gn:BSU03790" /db_xref="EnsemblGenomes-Tr:CAB12187" /db_xref="GOA:P94417" /db_xref="InterPro:IPR001048" /db_xref="InterPro:IPR001341" /db_xref="InterPro:IPR002912" /db_xref="InterPro:IPR005260" /db_xref="InterPro:IPR018042" /db_xref="InterPro:IPR027795" /db_xref="InterPro:IPR035804" /db_xref="InterPro:IPR036393" /db_xref="SubtiList:BG12033" /db_xref="UniProtKB/Swiss-Prot:P94417" /translation="MKVVKFGGSSLASGAQLDKVFHIVTSDPARKAVVVSAPGKHYAE DTKVTDLLIACAEQYLATGSAPELAEAVVERYALIANELQLGQSIIEKIRDDLFTLLE GDKSNPEQYLDAVKASGEDNNAKLIAAYFRYKGVKAEYVNPKDAGLFVTNEPGNAQVL PESYQNLYRLRERDGLIIFPGFFGFSKDGDVITFSRSGSDITGSILANGLQADLYENF TDVDAVYSVNPSFVENPKEISELTYREMRELSYAGFSVFHDEALIPAFRAGIPVQIKN TNNPSAEGTRVVSKRDNTNGPVVGIASDTGFCSIYISKYLMNREIGFGRRALQILEEH GLTYEHVPSGIDDMTIILRQGQMDAATERSVIKRIEEDLHADEVIVEHHLALIMVVGE AMRHNVGTTARAAKALSEAQVNIEMINQGSSEVSMMFGVKEAEERKAVQALYQEFFAG VLIS*" gene complement(430623..431987) /gene="thrD" /locus_tag="BSU_03790" /old_locus_tag="BSU03790" downshifts complement(430631) /Source="Nicolas_upshifts" /id="D167" /incds=0 /nref=23 /ntot=129 /MaxReadThrough="2.21842" /MaxDrop="4.81019" /score="44.9085917" /energy="-15" /TU="NA" /idTUdmin="U291" /TUdmin=0 /isTUend="TRUE" downshifts complement(430675) /Source="Nicolas_upshifts" /id="D168" /incds=0 /nref=1 /ntot=17 /MaxReadThrough="5.53807" /MaxDrop="2.54279" /score="44.9085917" /energy="-15" /TU="U291" /idTUdmin="U291" /TUdmin="-44" /isTUend="FALSE" promotor_-10 complement(432023..432042) /Source="Nicolas_upshift_promotors" /id="U291" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.946053946053946" /psig="0.999000999001" /xcortree=3042 /SigmaFactorBS="aaaaatacaaatgttctcctgagaaagaaattcccCCTTGAT TtacagtactgaaagAGAGATAATAAATACTAAATttgtgtgaaaattttaaacatta g" /listShort="yclM" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(432039) /Source="Nicolas_upshifts" /id="U291" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.946053946053946" /psig="0.999000999001" /xcortree=3042 /SigmaFactorBS="aaaaatacaaatgttctcctgagaaagaaattcccCCTTGAT TtacagtactgaaagAGAGATAATAAATACTAAATttgtgtgaaaattttaaacatta g" /listShort="yclM" /GFF_Attribute="listLong" promotor_-35 complement(432057..432064) /Source="Nicolas_upshift_promotors" /id="U291" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.946053946053946" /psig="0.999000999001" /xcortree=3042 /SigmaFactorBS="aaaaatacaaatgttctcctgagaaagaaattcccCCTTGAT TtacagtactgaaagAGAGATAATAAATACTAAATttgtgtgaaaattttaaacatta g" /listShort="yclM" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 432178..432182 /Source="Nicolas_upshift_promotors" /id="U292" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.843156843156843" /psig="0.997002997002997" /xcortree=2746 /SigmaFactorBS="aaatatggtaaacagcctaacgttttggGATGGaaaatggtt agaatgATTAGTAAAATTGATAAATGactaggttaatatttttaaagaatattgacta a" /listShort="S130, yclN, yclO, yclP, yclQ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 432198..432217 /Source="Nicolas_upshift_promotors" /id="U292" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.843156843156843" /psig="0.997002997002997" /xcortree=2746 /SigmaFactorBS="aaatatggtaaacagcctaacgttttggGATGGaaaatggtt agaatgATTAGTAAAATTGATAAATGactaggttaatatttttaaagaatattgacta a" /listShort="S130, yclN, yclO, yclP, yclQ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 432210 /Source="Nicolas_upshifts" /id="U292" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.843156843156843" /psig="0.997002997002997" /xcortree=2746 /SigmaFactorBS="aaatatggtaaacagcctaacgttttggGATGGaaaatggtt agaatgATTAGTAAAATTGATAAATGactaggttaatatttttaaagaatattgacta a" /listShort="S130, yclN, yclO, yclP, yclQ" /GFF_Attribute="listLong" promotor_-35 432241..432248 /Source="Nicolas_upshift_promotors" /id="U293" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.926073926073926" /psig=1 /xcortree=2099 /SigmaFactorBS="ataaatgactaggttaatatttttaaagaaTATTGACTaacc ctataaaaaTGGTAATATGTAAATGATAAtgataatcaattactatatggccatattg t" /listShort="S130, yclN, yclO, yclP, yclQ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 432262..432281 /Source="Nicolas_upshift_promotors" /id="U293" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.926073926073926" /psig=1 /xcortree=2099 /SigmaFactorBS="ataaatgactaggttaatatttttaaagaaTATTGACTaacc ctataaaaaTGGTAATATGTAAATGATAAtgataatcaattactatatggccatattg t" /listShort="S130, yclN, yclO, yclP, yclQ" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 432271..432371 /Source="Nicolas_S_feature" /locus_tag="new_432271_432371" /HighExp="LBGexp, Lbexp, G150, dia0, G135, H2O2, Paraq, dia15, G180, Diami" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="1, 0.997" /TUlongSig="NA" /TUlongPSig="NA" /label="S130" upshifts 432271 /Source="Nicolas_upshifts" /id="U293" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.926073926073926" /psig=1 /xcortree=2099 /SigmaFactorBS="ataaatgactaggttaatatttttaaagaaTATTGACTaacc ctataaaaaTGGTAATATGTAAATGATAAtgataatcaattactatatggccatattg t" /listShort="S130, yclN, yclO, yclP, yclQ" /GFF_Attribute="listLong" CDS 432372..433322 /gene="pbtN" /locus_tag="BSU_03800" /old_locus_tag="BSU03800" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:12354229, 15849754, 16850406, 19955416" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12354229, 15849754, 16850406, 19955416; Product type t: transporter" /codon_start=1 /transl_table=11 /product="petrobactin iron-siderophore ABC transporter (permease)" /protein_id="NP_388262.1" /db_xref="EnsemblGenomes-Gn:BSU03800" /db_xref="EnsemblGenomes-Tr:CAB12188" /db_xref="GOA:P94418" /db_xref="InterPro:IPR000522" /db_xref="InterPro:IPR035568" /db_xref="SubtiList:BG12034" /db_xref="UniProtKB/Swiss-Prot:P94418" /translation="MKLRYLFILLIILAVTSVFIGVEDLSPLDLFDLSKQEASTLFAS RLPRLISIVIAGLSMSICGLIMQQISRNKFVSPTTAGTMDWARLGILISLLLFTSASP LIKMLVAFVFALAGNFLFMKILERIKFNDTIFIPLVGLMLGNIVSSIATFIAYKYDLI QNVSSWLQGDFSLVVKGRYELLYLSIPLVIIAYVYADKFTLAGMGESFSVNLGLKYKR VVNIGLIIVSLITSLVILTVGMLPFLGLIIPNIVSIYRGDNLKSSLPHTVLLGAVFVL FCDILGRIIIFPYEISIGLMVGIIGSGIFLFMLLRRKAYA*" gene 432372..433322 /gene="pbtN" /locus_tag="BSU_03800" /old_locus_tag="BSU03800" CDS 433315..434262 /gene="pbtO" /locus_tag="BSU_03810" /old_locus_tag="BSU03810" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:12354229, 15849754, 16850406, 19955416" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12354229, 15849754, 16850406, 19955416; Product type t: transporter" /codon_start=1 /transl_table=11 /product="petrobactin iron-siderophore ABC transporter (permease)" /protein_id="NP_388263.1" /db_xref="EnsemblGenomes-Gn:BSU03810" /db_xref="EnsemblGenomes-Tr:CAB12189" /db_xref="GOA:P94419" /db_xref="InterPro:IPR000522" /db_xref="InterPro:IPR035568" /db_xref="SubtiList:BG12035" /db_xref="UniProtKB/Swiss-Prot:P94419" /translation="MRNQMKIALLVGLAIVCIGLFLFYDLGNWDYTLPRRIKKVAAIV LTGGAIAFSTMIFQTITNNRILTPSILGLDSLYMLIQTGIIFLFGSANMVIMNKNINF IISVLLMILFSLVLYQIMFKGEGRNIFFLLLIGIVFGTLFSSLSSFMQMLIDPNEFQV VQDKMFASFNNINTDLLWLAFIIFLLTGVYVWRFTKFFDVLSLGREHAVNLGIDYDKV VKQMLIVVAILVSVSTALVGPIMFLGLLVVNLAREFLKTYKHSYLIAGSVFISIIALV GGQFVVEKVFTFSTTLSVIINFAGGIYFIYLLLKENKSW*" gene 433315..434262 /gene="pbtO" /locus_tag="BSU_03810" /old_locus_tag="BSU03810" CDS 434256..435014 /gene="pbtP" /locus_tag="BSU_03820" /old_locus_tag="BSU03820" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:12354229, 19955416" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12354229, 19955416; Product type t: transporter" /codon_start=1 /transl_table=11 /product="petrobactin iron-siderophore ABC transporter (ATP-binding protein)" /protein_id="NP_388264.1" /db_xref="EnsemblGenomes-Gn:BSU03820" /db_xref="EnsemblGenomes-Tr:CAB12190" /db_xref="GOA:P94420" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG12036" /db_xref="UniProtKB/Swiss-Prot:P94420" /translation="MVEVRNVSKQYGGKVVLEETSVTIQKGKITSFIGPNGAGKSTLL SIMSRLIKKDSGEIYIDGQEIGACDSKELAKKMSILKQANQINIRLTIKDLVSFGRFP YSQGRLTEEDWVHINQALSYMKLEDIQDKYLDQLSGGQCQRAFIAMVIAQDTDYIFLD EPLNNLDMKHSVEIMKLLKRLVEELGKTIVIVIHDINFASVYSDYIVALKNGRIVKEG PPEEMIETSVLEEIYDMTIPIQTIDNQRIGVYFS*" gene 434256..435014 /gene="pbtP" /locus_tag="BSU_03820" /old_locus_tag="BSU03820" CDS 435036..435989 /gene="pbtQ" /locus_tag="BSU_03830" /old_locus_tag="BSU03830" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:12354229, 19955416, 25355936" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12354229, 19955416, 25355936; Product type t: transporter" /codon_start=1 /transl_table=11 /product="petrobactin iron-siderophore ABC transporter (binding lipoprotein)" /protein_id="NP_388265.1" /db_xref="EnsemblGenomes-Gn:BSU03830" /db_xref="EnsemblGenomes-Tr:CAB12191" /db_xref="GOA:P94421" /db_xref="InterPro:IPR002491" /db_xref="InterPro:IPR033870" /db_xref="PDB:3GFV" /db_xref="SubtiList:BG12037" /db_xref="UniProtKB/Swiss-Prot:P94421" /translation="MKKFALLFIALVTAVVISACGNQSTSSKGSDTKKEQITVKHQLD KNGTKVPKNPKKVVVFDFGSLDTLDKLGLDDIVAGLPKQVLPKYLSKFKDDKYADVGS LKEPDFDKVAELDPDLIIISARQSESYKEFSKIAPTIYLGVDTAKYMESFKSDAETIG KIFDKEDKVKDELANIDHSIADVKKTAEKLNKNGLVIMANDGKISAFGPKSRYGLIHD VFGVAPADQNIKASTHGQSVSYEYISKTNPDYLFVIDRGTAIGETSSTKQVVENDYVK NVNAVKNGHVIYLDSATWYLSGGGLESMTQMIKEVKDGLEK*" gene 435036..435989 /gene="pbtQ" /locus_tag="BSU_03830" /old_locus_tag="BSU03830" downshifts 435972 /Source="Nicolas_upshifts" /id="D169" /incds=0 /nref=161 /ntot=280 /MaxReadThrough="3.87669" /MaxDrop="7.4722" /score="31.9942335" /energy="-13.8" /TU="U293" /idTUdmin="U292" /TUdmin=5 /isTUend="TRUE" CDS complement(436036..437454) /gene="ycnB" /locus_tag="BSU_03840" /old_locus_tag="BSU03840" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 15855514, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative efflux transporter" /protein_id="NP_388266.1" /db_xref="EnsemblGenomes-Gn:BSU03840" /db_xref="EnsemblGenomes-Tr:CAB12192" /db_xref="GOA:P94422" /db_xref="InterPro:IPR004638" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12038" /db_xref="UniProtKB/Swiss-Prot:P94422" /translation="MNTSIEQKPFNRSVIVGILLAGAFVAILNQTLLITALPHIMRDF NVDANQAQWLTTSFMLTNGILIPITAFLIEKFTSRALLITAMSIFTAGTVVGAFAPNF PVLLTARIIQAAGAGIMMPLMQTVFLTIFPIEKRGQAMGMVGLVISFAPAIGPTLSGW AVEAFSWRSLFYIILPFAVIDLILASILMKNVTTLRKTQIDILSVILSTFGFGGLLYG FSSVGSYGWSSSTVLISLLVGVIALLLFITRQMKLKKPMLEFRVFTFGVFSLTTLLGT LVFALLIGTETILPLYTQNVRDVTAFDTGLMLLPGAVVMGFMSPIIGRIFDRVGGRGL AIAGFCIIFLTSLPFMQLTDHTSLAWIVVLYTVRLLGTAMIMMPVTTAGINALPRHLI PHGTAMNNTIRQVGGSIGTALLVSVMSNQAAHAGTTNVKHAALHGMNAAFIVAAVIAL VGFLLSFTLKKPQRPAEQQPAR*" gene complement(436036..437454) /gene="ycnB" /locus_tag="BSU_03840" /old_locus_tag="BSU03840" downshifts complement(436057) /Source="Nicolas_upshifts" /id="D170" /incds=0 /nref=8 /ntot=150 /MaxReadThrough="2.00954" /MaxDrop="5.13029" /score="17.5501827" /energy="-13.8" /TU="NA" /idTUdmin="U294" /TUdmin="-14" /isTUend="TRUE" CDS complement(437474..438352) /gene="ycnC" /locus_tag="BSU_03850" /old_locus_tag="BSU03850" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (TetR/AcrR family)" /protein_id="NP_388267.2" /db_xref="EnsemblGenomes-Gn:BSU03850" /db_xref="EnsemblGenomes-Tr:CAB12193" /db_xref="GOA:P94423" /db_xref="InterPro:IPR001647" /db_xref="InterPro:IPR009057" /db_xref="SubtiList:BG12039" /db_xref="UniProtKB/Swiss-Prot:P94423" /translation="MLDKKTDILLAARKLFSEKDFTSVSMQAIAEECKMSKASIYKLF QSKEDLLLELLSFNQKQMVAAASRLQENTALTPEERLTQKVKMELEGFRRNQQFFNML TYGNPKLHNDRVKQHIHQTRSTIICWHRDSLIQAYGETILPFVWDLVIILHGMMREFL MLIKIEEKPLELDPIAEFIISTLNQIIKNRETRQSLLPPEAIELYIHSASSYKPKDKS VLLSESLKELHKGISSLSAADYDVDELTSAAAMLEEEAKKEEPRAFLLKSLIGYLEQT GVLTQPVSMLKTLLIT*" gene complement(437474..438352) /gene="ycnC" /locus_tag="BSU_03850" /old_locus_tag="BSU03850" S_feature complement(438353..438419) /Source="Nicolas_S_feature" /locus_tag="new_438353_438419_c" /HighExp="dia15, H2O2, Diami, Paraq, Oxctl, Cold, G180, Salt, BMM, GM 120" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S131" promotor_-10 complement(438418..438437) /Source="Nicolas_upshift_promotors" /id="U294" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.373626373626374" /psig="0.999000999001" /xcortree=2489 /SigmaFactorBS="gcaggcctttcatttacccggttaaaatcCATTGACttctat tttgtttaTCTGGTAAAATTTTTTCATTgttactcattggttttctgtgaaccaatgg g" /listShort="S131, ycnC, ycnB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(438427) /Source="Nicolas_upshifts" /id="U294" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.373626373626374" /psig="0.999000999001" /xcortree=2489 /SigmaFactorBS="gcaggcctttcatttacccggttaaaatcCATTGACttctat tttgtttaTCTGGTAAAATTTTTTCATTgttactcattggttttctgtgaaccaatgg g" /listShort="S131, ycnC, ycnB" /GFF_Attribute="listLong" promotor_-35 complement(438452..438458) /Source="Nicolas_upshift_promotors" /id="U294" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.373626373626374" /psig="0.999000999001" /xcortree=2489 /SigmaFactorBS="gcaggcctttcatttacccggttaaaatcCATTGACttctat tttgtttaTCTGGTAAAATTTTTTCATTgttactcattggttttctgtgaaccaatgg g" /listShort="S131, ycnC, ycnB" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(438516..439265) /gene="nfrAB" /locus_tag="BSU_03860" /old_locus_tag="BSU03860" /EC_number="1.5.1.39" /EC_number="1.6.99.-" /function="16.11: Scavenge (Catabolism)" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:16229462, 9836433, 20862523" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16229462, 9836433, 20862523; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="NADPH-FMN oxidoreductase (nitroreductase)" /protein_id="NP_388268.1" /db_xref="EnsemblGenomes-Gn:BSU03860" /db_xref="EnsemblGenomes-Tr:CAB12194" /db_xref="GOA:P94424" /db_xref="InterPro:IPR000415" /db_xref="InterPro:IPR016446" /db_xref="InterPro:IPR029479" /db_xref="PDB:1ZCH" /db_xref="SubtiList:BG12040" /db_xref="UniProtKB/Swiss-Prot:P94424" /translation="MNEVIKSLTDHRSIRSYTDEPVAQEQLDQIIEAVQSAPSSINGQ QVTVITVQDKERKKKISELAGGQPWIDQAPVFLLFCADFNRAKIALEDLHDFKMEITN GLESVLVGAVDAGIALGTATAAAESLGLGTVPIGAVRGNPQELIELLELPKYVFPLSG LVIGHPADRSAKKPRLPQEAVNHQETYLNQDELTSHIQAYDEQMSEYMNKRTNGKETR NWSQSIASYYERLYYPHIREMLEKQGFKVEK*" gene complement(438516..439265) /gene="nfrAB" /locus_tag="BSU_03860" /old_locus_tag="BSU03860" downshifts complement(438529) /Source="Nicolas_upshifts" /id="D171" /incds=0 /nref=136 /ntot=243 /MaxReadThrough="2.08639" /MaxDrop="5.10745" /score="11.1864402" /energy="-18.6" /TU="NA" /idTUdmin="U296" /TUdmin=0 /isTUend="TRUE" CDS complement(439282..439569) /gene="ycnE" /locus_tag="BSU_03870" /old_locus_tag="BSU03870" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 17274596, 21454635; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative AI-2 degrading enzyme" /protein_id="NP_388269.1" /db_xref="EnsemblGenomes-Gn:BSU03870" /db_xref="EnsemblGenomes-Tr:CAB12195" /db_xref="GOA:P94425" /db_xref="InterPro:IPR007138" /db_xref="InterPro:IPR011008" /db_xref="SubtiList:BG12041" /db_xref="UniProtKB/Swiss-Prot:P94425" /translation="MIVLQAYIKVKPEKREEFLSEAQSLVQHSRAEEGNAQYDLFEKV GEENTFVMLEKWKDEAAMKFHNETAHFQGFVAKGKELLSAPLDVVRTELSE*" gene complement(439282..439569) /gene="ycnE" /locus_tag="BSU_03870" /old_locus_tag="BSU03870" promotor_-35 439535..439542 /Source="Nicolas_upshift_promotors" /id="U295" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.966033966033966" /psig="0.993006993006993" /xcortree=1982 /SigmaFactorBS="aaaattcctcgcgtttttctGGTTTTACtttgatgtaagctT GTAATACGATCATGTAAATctcctccgtcgttatgcgaatttattgttcgaatttcat c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 439556..439575 /Source="Nicolas_upshift_promotors" /id="U295" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.966033966033966" /psig="0.993006993006993" /xcortree=1982 /SigmaFactorBS="aaaattcctcgcgtttttctGGTTTTACtttgatgtaagctT GTAATACGATCATGTAAATctcctccgtcgttatgcgaatttattgttcgaatttcat c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 439575 /Source="Nicolas_upshifts" /id="U295" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.966033966033966" /psig="0.993006993006993" /xcortree=1982 /SigmaFactorBS="aaaattcctcgcgtttttctGGTTTTACtttgatgtaagctT GTAATACGATCATGTAAATctcctccgtcgttatgcgaatttattgttcgaatttcat c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 complement(439613..439632) /Source="Nicolas_upshift_promotors" /id="U296" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.573426573426573" /psig=1 /xcortree=1945 /SigmaFactorBS="acaattagaatgacaattttactatataagggttttTCCTTT ACctcatttagaataCATGTTACATTTAGTTCGATgaaattcgaacaataaattcgca t" /listShort="ycnE, ycnD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(439629) /Source="Nicolas_upshifts" /id="U296" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.573426573426573" /psig=1 /xcortree=1945 /SigmaFactorBS="acaattagaatgacaattttactatataagggttttTCCTTT ACctcatttagaataCATGTTACATTTAGTTCGATgaaattcgaacaataaattcgca t" /listShort="ycnE, ycnD" /GFF_Attribute="listLong" promotor_-35 complement(439646..439653) /Source="Nicolas_upshift_promotors" /id="U296" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.573426573426573" /psig=1 /xcortree=1945 /SigmaFactorBS="acaattagaatgacaattttactatataagggttttTCCTTT ACctcatttagaataCATGTTACATTTAGTTCGATgaaattcgaacaataaattcgca t" /listShort="ycnE, ycnD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 439674..439681 /Source="Nicolas_upshift_promotors" /id="U297" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.614385614385614" /psig="0.955044955044955" /xcortree=576 /SigmaFactorBS="taacatgtattctaaatgaggtaaaggaaaaacccttatata gtaaaaTTGTCATTctaattgttgTATGATACATTTGTGTCATGaacattccaaacca t" /listShort="yczG" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 439686 /Source="Nicolas_upshifts" /id="U297" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.614385614385614" /psig="0.955044955044955" /xcortree=576 /SigmaFactorBS="taacatgtattctaaatgaggtaaaggaaaaacccttatata gtaaaaTTGTCATTctaattgttgTATGATACATTTGTGTCATGaacattccaaacca t" /listShort="yczG" /GFF_Attribute="listLong" promotor_-10 439692..439711 /Source="Nicolas_upshift_promotors" /id="U297" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.614385614385614" /psig="0.955044955044955" /xcortree=576 /SigmaFactorBS="taacatgtattctaaatgaggtaaaggaaaaacccttatata gtaaaaTTGTCATTctaattgttgTATGATACATTTGTGTCATGaacattccaaacca t" /listShort="yczG" /GFF_Attribute="listLong" /label="promotor_-10" CDS 439709..440023 /gene="yczG" /locus_tag="BSU_03880" /old_locus_tag="BSU03880" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (ArsR family)" /protein_id="NP_388270.1" /db_xref="EnsemblGenomes-Gn:BSU03880" /db_xref="EnsemblGenomes-Tr:CAB12196" /db_xref="GOA:O31480" /db_xref="InterPro:IPR001845" /db_xref="InterPro:IPR011991" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12781" /db_xref="UniProtKB/Swiss-Prot:O31480" /translation="MNIPNHPETETLQLTKVLHALSDPLRLELVKQLAEAKEKTCSTC ADVQVAKSTLSHHFKVLRESGIAQVRIEGKRRYYSLRAEDLEKAFPGLLEAVLNVDQD RW*" gene 439709..440023 /gene="yczG" /locus_tag="BSU_03880" /old_locus_tag="BSU03880" downshifts 440015 /Source="Nicolas_upshifts" /id="D172" /incds=0 /nref=173 /ntot=262 /MaxReadThrough="0.52252" /MaxDrop="5.32898" /score="20.7855667" /energy="-7.4" /TU="NA" /idTUdmin="U297" /TUdmin=0 /isTUend="TRUE" CDS complement(440025..441464) /gene="gabR" /locus_tag="BSU_03890" /old_locus_tag="BSU03890" /experiment="publication(s) with functional evidences, PMID:15223311, 24127574, 25388514, 27640111, 28348215, 28412355" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15223311, 24127574, 25388514, 27640111, 28348215, 28412355; Product type r : regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator (GntR/MocR family) with PLP binding site (GabR-GABA-PLP aldimine)" /protein_id="NP_388271.1" /db_xref="EnsemblGenomes-Gn:BSU03890" /db_xref="EnsemblGenomes-Tr:CAB12197" /db_xref="GOA:P94426" /db_xref="InterPro:IPR000524" /db_xref="InterPro:IPR004839" /db_xref="InterPro:IPR015421" /db_xref="InterPro:IPR015422" /db_xref="InterPro:IPR015424" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="PDB:4MGR" /db_xref="PDB:4N0B" /db_xref="PDB:4TV7" /db_xref="PDB:5T4J" /db_xref="PDB:5T4K" /db_xref="PDB:5X03" /db_xref="SubtiList:BG12042" /db_xref="UniProtKB/Swiss-Prot:P94426" /translation="MDITITLDRSEQADYIYQQIYQKLKKEILSRNLLPHSKVPSKRE LAENLKVSVNSVNSAYQQLLAEGYLYAIERKGFFVEELDMFSAEEHPPFALPDDLKEI HIDQSDWISFSHMSSDTDHFPIKSWFRCEQKAASRSYRTLGDMSHPQGIYEVRAAITR LISLTRGVKCRPEQMIIGAGTQVLMQLLTELLPKEAVYAMEEPGYRRMYQLLKNAGKQ VKTIMLDEKGMSIAEITRQQPDVLVTTPSHQFPSGTIMPVSRRIQLLNWAAEEPRRYI IEDDYDSEFTYDVDSIPALQSLDRFQNVIYMGTFSKSLLPGLRISYMVLPPELLRAYK QRGYDLQTCSSLTQLTLQEFIESGEYQKHIKKMKQHYKEKRERLITALEAEFSGEVTV KGANAGLHFVTEFDTRRTEQDILSHAAGLQLEIFGMSRFNLKENKRQTGRPALIIGFA RLKEEDIQEGVQRLFKAVYGHKKIPVTGD*" gene complement(440025..441464) /gene="gabR" /locus_tag="BSU_03890" /old_locus_tag="BSU03890" promotor_-10 complement(440349..440360) /Source="Nicolas_upshift_promotors" /id="U298" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=919 /SigmaFactorBS="cctgcaggaatttatcgagtctggtgaatatcagaAGCATAT aaaaaaaatgaagCAGCATTATAAAgaaaagagagaacgcctgatcaccgctttagaa g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(440355) /Source="Nicolas_upshifts" /id="U298" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=919 /SigmaFactorBS="cctgcaggaatttatcgagtctggtgaatatcagaAGCATAT aaaaaaaatgaagCAGCATTATAAAgaaaagagagaacgcctgatcaccgctttagaa g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(440374..440380) /Source="Nicolas_upshift_promotors" /id="U298" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=919 /SigmaFactorBS="cctgcaggaatttatcgagtctggtgaatatcagaAGCATAT aaaaaaaatgaagCAGCATTATAAAgaaaagagagaacgcctgatcaccgctttagaa g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(441507..441526) /Source="Nicolas_upshift_promotors" /id="U299" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.728271728271728" /psig="0.999000999001" /xcortree=2992 /SigmaFactorBS="tcatgtgaatatccccctgtcggtattttcTTATCATTctga cttctcTTTGGTATGATGAAAAGTACcaattataactttttgatggtatcagaaggag a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 441508..441515 /Source="Nicolas_upshift_promotors" /id="U300" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.537462537462537" /psig="0.942057942057942" /xcortree=377 /SigmaFactorBS="ttctccttctgataccatcaaaaagttataattggTACTTTT CatcataccaaagaGAAGTCAGAATGATAAGAAAataccgacagggggatattcacat g" /listShort="gabT" /GFF_Attribute="listLong" /label="promotor_-35" upshifts complement(441514) /Source="Nicolas_upshifts" /id="U299" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.728271728271728" /psig="0.999000999001" /xcortree=2992 /SigmaFactorBS="tcatgtgaatatccccctgtcggtattttcTTATCATTctga cttctcTTTGGTATGATGAAAAGTACcaattataactttttgatggtatcagaaggag a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 441529..441548 /Source="Nicolas_upshift_promotors" /id="U300" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.537462537462537" /psig="0.942057942057942" /xcortree=377 /SigmaFactorBS="ttctccttctgataccatcaaaaagttataattggTACTTTT CatcataccaaagaGAAGTCAGAATGATAAGAAAataccgacagggggatattcacat g" /listShort="gabT" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 441533 /Source="Nicolas_upshifts" /id="U300" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.537462537462537" /psig="0.942057942057942" /xcortree=377 /SigmaFactorBS="ttctccttctgataccatcaaaaagttataattggTACTTTT CatcataccaaagaGAAGTCAGAATGATAAGAAAataccgacagggggatattcacat g" /listShort="gabT" /GFF_Attribute="listLong" promotor_-35 complement(441537..441544) /Source="Nicolas_upshift_promotors" /id="U299" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.728271728271728" /psig="0.999000999001" /xcortree=2992 /SigmaFactorBS="tcatgtgaatatccccctgtcggtattttcTTATCATTctga cttctcTTTGGTATGATGAAAAGTACcaattataactttttgatggtatcagaaggag a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 441571..442881 /gene="gabT" /locus_tag="BSU_03900" /old_locus_tag="BSU03900" /EC_number="2.6.1.19" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:4590473, 12123465, 12354229, 15590624, 9723923, 19854901, 24529384" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 4590473, 12123465, 12354229, 15590624, 9723923, 19854901, 24529384; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="4-aminobutyrate aminotransferase" /protein_id="NP_388272.1" /db_xref="EnsemblGenomes-Gn:BSU03900" /db_xref="EnsemblGenomes-Tr:CAB12198" /db_xref="GOA:P94427" /db_xref="InterPro:IPR004632" /db_xref="InterPro:IPR005814" /db_xref="InterPro:IPR015421" /db_xref="InterPro:IPR015422" /db_xref="InterPro:IPR015424" /db_xref="SubtiList:BG12043" /db_xref="UniProtKB/Swiss-Prot:P94427" /translation="MSQTTASITTAQWQQKRDQFVSKGVSNGNRSLAVKGEGAELYDL DGRRFIDFAGAIGTLNVGHSHPKVVEAVKRQAEELIHPGFNVMMYPTYIELAEKLCGI APGSHEKKAIFLNSGAEAVENAVKIARKYTKRQGVVSFTRGFHGRTNMTMSMTSKVKP YKFGFGPFAPEVYQAPFPYYYQKPAGMSDESYDDMVIQAFNDFFIASVAPETVACVVM EPVQGEGGFIIPSKRFVQHVASFCKEHGIVFVADEIQTGFARTGTYFAIEHFDVVPDL ITVSKSLAAGLPLSGVIGRAEMLDAAAPGELGGTYAGSPLGCAAALAVLDIIEEEGLN ERSEEIGKIIEDKAYEWKQEFPFIGDIRRLGAMAAIEIVKDPDTREPDKTKAAAIAAY ANQNGLLLLTAGINGNIIRFLTPLVISDSLLNEGLSILEAGLRA*" gene 441571..442881 /gene="gabT" /locus_tag="BSU_03900" /old_locus_tag="BSU03900" promotor_-35 442759..442765 /Source="Nicolas_upshift_promotors" /id="U301" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=250 /SigmaFactorBS="cagcagcgatcgcggcctatgcgaatcaaaacGGATTACttt tgctgacagcGGGAATTAACGGTAATATCatccgctttttgacaccgctcgtcatctc a" /listShort="gabD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 442779..442797 /Source="Nicolas_upshift_promotors" /id="U301" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=250 /SigmaFactorBS="cagcagcgatcgcggcctatgcgaatcaaaacGGATTACttt tgctgacagcGGGAATTAACGGTAATATCatccgctttttgacaccgctcgtcatctc a" /listShort="gabD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 442787 /Source="Nicolas_upshifts" /id="U301" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=250 /SigmaFactorBS="cagcagcgatcgcggcctatgcgaatcaaaacGGATTACttt tgctgacagcGGGAATTAACGGTAATATCatccgctttttgacaccgctcgtcatctc a" /listShort="gabD" /GFF_Attribute="listLong" promotor_-35 442883..442890 /Source="Nicolas_upshift_promotors" /id="U302" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.987012987012987" /psig="0.998001998001998" /xcortree=2034 /SigmaFactorBS="catcttggaggcgggcctgcgagcttaatCATTGGAAagaaa atggccgggTCTGCTATCATTTTAAGTAAtcatgaaaagaaaggaatgttcaatatgc c" /listShort="gabD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 442905..442924 /Source="Nicolas_upshift_promotors" /id="U302" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.987012987012987" /psig="0.998001998001998" /xcortree=2034 /SigmaFactorBS="catcttggaggcgggcctgcgagcttaatCATTGGAAagaaa atggccgggTCTGCTATCATTTTAAGTAAtcatgaaaagaaaggaatgttcaatatgc c" /listShort="gabD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 442914 /Source="Nicolas_upshifts" /id="U302" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.987012987012987" /psig="0.998001998001998" /xcortree=2034 /SigmaFactorBS="catcttggaggcgggcctgcgagcttaatCATTGGAAagaaa atggccgggTCTGCTATCATTTTAAGTAAtcatgaaaagaaaggaatgttcaatatgc c" /listShort="gabD" /GFF_Attribute="listLong" CDS 442950..444338 /gene="gabD" /locus_tag="BSU_03910" /old_locus_tag="BSU03910" /EC_number="1.2.1.24" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:12354229, 15590624, 9723923, 12123465, 24529384, 24809290, 25911692" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12354229, 15590624, 9723923, 12123465, 24529384, 24809290, 25911692; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="succinate-semialdehyde dehydrogenase" /protein_id="NP_388273.1" /db_xref="EnsemblGenomes-Gn:BSU03910" /db_xref="EnsemblGenomes-Tr:CAB12199" /db_xref="GOA:P94428" /db_xref="InterPro:IPR010102" /db_xref="InterPro:IPR012394" /db_xref="InterPro:IPR015590" /db_xref="InterPro:IPR016160" /db_xref="InterPro:IPR016161" /db_xref="InterPro:IPR016162" /db_xref="SubtiList:BG12044" /db_xref="UniProtKB/Swiss-Prot:P94428" /translation="MPDQLTVYNPATGEEIKTIPQQSATEVEEAIERSHQAFKTWSKT SANERTSLLKKWYELIVEHKEELADLITKENGKPYQEAVGEVLYGAGYIEWFAEEAKR VYGRTVPAPTTGKRIVVTRQPVGPVAAITPWNFPNAMITRKAAPALAAGCTFIIKPAP DTPLSAYELARLAYEAGIPKDVLQVVIGDGEEIGNVFTSSPKIRKITFTGSTPVGKIL MKNSADTVKHVSMELGGHAPLIVDEDADIDLAVEQAMASKYRNAGQTCVCANRLIVHE SIKDEFAAKLSEQVSKLKVGNGLEEGVNVGPIINKRGFEKIVSQIDDAVEKGAKVIAG GTYDRNDDKGCYFVNPTVLTDVDTSMNIMHEETFGPVAPIVTFSDIDEAIQLANDTPY GLAAYFFTENYRRGIYISENLEYGIIGWNDGGPSAVQAPFGGMKESGIGREGGSEGIE PYLETKYLSIGL*" gene 442950..444338 /gene="gabD" /locus_tag="BSU_03910" /old_locus_tag="BSU03910" downshifts 444346 /Source="Nicolas_upshifts" /id="D173" /incds=0 /nref=107 /ntot=240 /MaxReadThrough="0.105510000000001" /MaxDrop="6.52053" /score="38.677658" /energy="-19.9" /TU="NA" /idTUdmin="U301" /TUdmin="-3" /isTUend="TRUE" promotor_-35 444396..444402 /Source="Nicolas_upshift_promotors" /id="U303" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=885 /SigmaFactorBS="gagctgccggattttccggcagctctttttgtgttccggCGA ATAAtcacaacaattccAGCCAAAATAACagcaaatacattttgaaagaaggttcccc a" /listShort="glcU, gdh" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 444416..444427 /Source="Nicolas_upshift_promotors" /id="U303" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=885 /SigmaFactorBS="gagctgccggattttccggcagctctttttgtgttccggCGA ATAAtcacaacaattccAGCCAAAATAACagcaaatacattttgaaagaaggttcccc a" /listShort="glcU, gdh" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 444417 /Source="Nicolas_upshifts" /id="U303" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=885 /SigmaFactorBS="gagctgccggattttccggcagctctttttgtgttccggCGA ATAAtcacaacaattccAGCCAAAATAACagcaaatacattttgaaagaaggttcccc a" /listShort="glcU, gdh" /GFF_Attribute="listLong" CDS 444461..445324 /gene="glcU" /locus_tag="BSU_03920" /old_locus_tag="BSU03920" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 10438764, 15849754, 16850406, 19054326, 21564334, 27329749; Product type t : transporter" /codon_start=1 /transl_table=11 /product="glucose uptake protein" /protein_id="NP_388274.1" /db_xref="EnsemblGenomes-Gn:BSU03920" /db_xref="EnsemblGenomes-Tr:CAB12200" /db_xref="GOA:P40420" /db_xref="InterPro:IPR010651" /db_xref="SubtiList:BG11066" /db_xref="UniProtKB/Swiss-Prot:P40420" /translation="MDLLLALLPALFWGSIVLFNVKLGGGPYSQTLGTTIGALIVSIV IYFFVQPVLSLRIFIVGIVSGLFWSLGQANQLKSIQLMGVSKTMPISTGMQLVSTSLF GVIVFREWSTPIAITLGVLALIFIIVGIILTSLEDKNDKKEGEPSNLKKGILILLVST LGYLVYVVVARLFNVSGWSALLPQAIGMVVGGLVLTYRHKPFNKYAIRNILPGLIWAG GNMFLFISQPRVGVATSFSLSQMGIVISTLGGIFILREKKTKRQLIAIAIGIILIIAA AVFLGIAKTNS*" gene 444461..445324 /gene="glcU" /locus_tag="BSU_03920" /old_locus_tag="BSU03920" CDS 445344..446129 /gene="gdh" /locus_tag="BSU_03930" /old_locus_tag="BSU03930" /EC_number="1.1.1.47" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:2493633, 3141376, 6438057, 16912926" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 2493633, 3141376, 6438057, 16912926; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="forespore glucose 1-dehydrogenase" /protein_id="NP_388275.1" /db_xref="EnsemblGenomes-Gn:BSU03930" /db_xref="EnsemblGenomes-Tr:CAB12201" /db_xref="GOA:P12310" /db_xref="InterPro:IPR002347" /db_xref="InterPro:IPR020904" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG10545" /db_xref="UniProtKB/Swiss-Prot:P12310" /translation="MYPDLKGKVVAITGAASGLGKAMAIRFGKEQAKVVINYYSNKQD PNEVKEEVIKAGGEAVVVQGDVTKEEDVKNIVQTAIKEFGTLDIMINNAGLENPVPSH EMPLKDWDKVIGTNLTGAFLGSREAIKYFVENDIKGNVINMSSVHEVIPWPLFVHYAA SKGGIKLMTETLALEYAPKGIRVNNIGPGAINTPINAEKFADPKQKADVESMIPMGYI GEPEEIAAVAAWLASKEASYVTGITLFADGGMTQYPSFQAGRG*" gene 445344..446129 /gene="gdh" /locus_tag="BSU_03930" /old_locus_tag="BSU03930" misc_feature 445449..445468 /Source="Nicolas_upshift_promotors" /id="U304" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.692307692307692" /psig="0.732267732267732" /xcortree=1477 /SigmaFactorBS="gcttcagggctcggaaaggcgatggccattcgcttcggcaag gagcaggcaaaagtggttATCAACTATTATAGTAATAAacaagatccgaacgaggtaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 445449 /Source="Nicolas_upshifts" /id="U304" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.692307692307692" /psig="0.732267732267732" /xcortree=1477 /SigmaFactorBS="gcttcagggctcggaaaggcgatggccattcgcttcggcaag gagcaggcaaaagtggttATCAACTATTATAGTAATAAacaagatccgaacgaggtaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" downshifts 445537 /Source="Nicolas_upshifts" /id="D174" /incds=1 /nref=1 /ntot=3 /MaxReadThrough="6.44884" /MaxDrop="2.47712" /score="-5.4075438" /energy="-11.7" /TU="U303" /idTUdmin="U301" /TUdmin=1188 /isTUend="FALSE" downshifts 446131 /Source="Nicolas_upshifts" /id="D175" /incds=0 /nref=4 /ntot=40 /MaxReadThrough="2.7861" /MaxDrop="4.2307" /score="-5.4075438" /energy="-11.7" /TU="U303" /idTUdmin="U303" /TUdmin="-836" /isTUend="FALSE" CDS complement(446174..446788) /gene="cutI" /locus_tag="BSU_03940" /old_locus_tag="BSU03940" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 19168619, 22904286, 27010565, 26822828; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative membrane protein involved in copper intake" /protein_id="NP_388276.1" /db_xref="EnsemblGenomes-Gn:BSU03940" /db_xref="EnsemblGenomes-Tr:CAB12202" /db_xref="GOA:P94431" /db_xref="InterPro:IPR012533" /db_xref="SubtiList:BG12045" /db_xref="UniProtKB/Swiss-Prot:P94431" /translation="MLKKIALTLCPAIVGSLLFFTAPASAHVSVKPAESAAGSWETYT MKVPSEKNLPTTKVVLKMPKDVEFQQYEPIPGWKVSTQKHDDKSVSVTWEATDGGIQE GQFQQFTFVAKNPDKAEEAAWDAYQYYKDGSIVEWTGDEDADTPHSITNITSAKQVTD EHGATKTEDDSENSGSSALDITAMVLSAAAIILSVAALVKKKRA*" gene complement(446174..446788) /gene="cutI" /locus_tag="BSU_03940" /old_locus_tag="BSU03940" downshifts complement(446185) /Source="Nicolas_upshifts" /id="D176" /incds=0 /nref=95 /ntot=219 /MaxReadThrough="0.879290000000001" /MaxDrop="6.67627" /score="21.5633403" /energy="-16" /TU="NA" /idTUdmin="U305" /TUdmin=0 /isTUend="TRUE" CDS complement(446801..448426) /gene="cutJ" /locus_tag="BSU_03950" /old_locus_tag="BSU03950" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15101989, 15849754, 16850406, 19168619, 22904286, 23012364" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15101989, 15849754, 16850406, 19168619, 22904286, 23012364; Product type t : transporter" /codon_start=1 /transl_table=11 /product="copper import permease subunit" /protein_id="NP_388277.2" /db_xref="EnsemblGenomes-Gn:BSU03950" /db_xref="EnsemblGenomes-Tr:CAB12203" /db_xref="GOA:C0SP95" /db_xref="InterPro:IPR007348" /db_xref="InterPro:IPR008457" /db_xref="InterPro:IPR013783" /db_xref="InterPro:IPR014756" /db_xref="InterPro:IPR032693" /db_xref="InterPro:IPR032694" /db_xref="SubtiList:BG12046" /db_xref="UniProtKB/Swiss-Prot:C0SP95" /translation="MKRNRWWIILLLFLVFLPKTSFAHAYIVKSSPGENSELKSAPAQ VEIEFNEPVEEGFHYIKVYNSNGDRVDTDKTEIKKDNHHIMTVKLKKNLPKDVYRAEW NAVSADGHPVSGVIPFSIGKADGGFSSQKAADSALNPGTAADRAILYTALSLFIGTVF FHLFWYKGKSEQLVKRTRRILTGSIAALGLALLLQLPIQTKANAGGGWGSAFQPGYIR ETLFETAGGSIWIIQAALFVLLALSVIPAIRKNRFSSFGYWTAPLIFFFGLLLAKAFT GHAAVVEEKTVGILMDFLHLTSASIWVGGIAALVLLLSKEWRQPDKTLAWETVRRFSP WALTAVGVILFSGLLNGFFIIRSMDSLFHTAYGQALLVKSGLFVFMLVLGAIHFLLTR KQRRTGISRTLKAEWAIGIAVLITAAVFTSLPSPPEPAPEPFYQTKAIENGQSVSLSI SPNQPGKNVFELRVTDHNGDPVKNIQQITLTVYKTGLSGSENKSTFTLKEKTKGVFQD QNLSINEKGNWKIKVHGLTGDFNEINIMFTKTN*" gene complement(446801..448426) /gene="cutJ" /locus_tag="BSU_03950" /old_locus_tag="BSU03950" CDS complement(448461..449033) /gene="cutR" /locus_tag="BSU_03960" /old_locus_tag="BSU03960" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:15101989, 22904286, 23012364" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15101989, 22904286, 23012364; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator of copper intake (CutR-Cu(+))" /protein_id="NP_388278.1" /db_xref="EnsemblGenomes-Gn:BSU03960" /db_xref="EnsemblGenomes-Tr:CAB12204" /db_xref="GOA:P94433" /db_xref="InterPro:IPR001034" /db_xref="InterPro:IPR008719" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12047" /db_xref="UniProtKB/Swiss-Prot:P94433" /translation="MLPINRQQHILKWLKEEGSLRISDISARFGVSEMTVYRDVNQLV QSNQVIKTAGGITLPVRTPQTDHMCSYCLKPVNQAHSVQLITVNQDIEQLCCAHCAFL RYADKTEEVSHLICRDFLLQTTVSAGSAYFVVNAELNLHCCQPQAIPFATLDHAERFQ KGFGGAVCTFDQALEDMLQDRKKRCTCTKK*" gene complement(448461..449033) /gene="cutR" /locus_tag="BSU_03960" /old_locus_tag="BSU03960" promotor_-10 complement(449055..449074) /Source="Nicolas_upshift_promotors" /id="U305" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.944055944055944" /psig="0.999000999001" /xcortree=1591 /SigmaFactorBS="tgttcaacacattttcacattttttatcatccactTACTTGT CtccgtctctaaaaTCCTCTACGCTTAAATAGATcttaatgaagagggtgtatgaatg c" /listShort="ycnK, ycnJ, ycnI" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(449070) /Source="Nicolas_upshifts" /id="U305" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.944055944055944" /psig="0.999000999001" /xcortree=1591 /SigmaFactorBS="tgttcaacacattttcacattttttatcatccactTACTTGT CtccgtctctaaaaTCCTCTACGCTTAAATAGATcttaatgaagagggtgtatgaatg c" /listShort="ycnK, ycnJ, ycnI" /GFF_Attribute="listLong" promotor_-35 complement(449088..449095) /Source="Nicolas_upshift_promotors" /id="U305" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.944055944055944" /psig="0.999000999001" /xcortree=1591 /SigmaFactorBS="tgttcaacacattttcacattttttatcatccactTACTTGT CtccgtctctaaaaTCCTCTACGCTTAAATAGATcttaatgaagagggtgtatgaatg c" /listShort="ycnK, ycnJ, ycnI" /GFF_Attribute="listLong" /label="promotor_-35" misc_feature 449155..449174 /Source="Nicolas_upshift_promotors" /id="U306" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.764235764235764" /psig="0.999000999001" /xcortree=2504 /SigmaFactorBS="aaaaatgtgaaaatgtgttgaacagcaacaaaacgaaacaga agggacTCTGGTATAATAGACAGATGgaatagaaagtgaggaataccctatgaaagaa a" /listShort="ycnL" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 449167 /Source="Nicolas_upshifts" /id="U306" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.764235764235764" /psig="0.999000999001" /xcortree=2504 /SigmaFactorBS="aaaaatgtgaaaatgtgttgaacagcaacaaaacgaaacaga agggacTCTGGTATAATAGACAGATGgaatagaaagtgaggaataccctatgaaagaa a" /listShort="ycnL" /GFF_Attribute="listLong" CDS 449198..449551 /gene="ycnL" /locus_tag="BSU_03970" /old_locus_tag="BSU03970" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406, 18307109, 27010565; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative reductase or disulfide isomerase" /protein_id="NP_388279.1" /db_xref="EnsemblGenomes-Gn:BSU03970" /db_xref="EnsemblGenomes-Tr:CAB12205" /db_xref="GOA:P94434" /db_xref="SubtiList:BG12048" /db_xref="UniProtKB/Swiss-Prot:P94434" /translation="MKETPCPNCGKPLTGDMVRSSNVPCQFRCGHCRERLYEYKVSAP IMLVSLAAIVLLIYLLMLLRNAAGSVLPAVQHVPMAVFALVCAYPVFIVSERMIAKYV IQNGNIIYRGKRKGS*" gene 449198..449551 /gene="ycnL" /locus_tag="BSU_03970" /old_locus_tag="BSU03970" downshifts 449522 /Source="Nicolas_upshifts" /id="D177" /incds=0 /nref=136 /ntot=248 /MaxReadThrough="0.860829999999999" /MaxDrop="6.25982" /score="38.4886131" /energy="-13.4" /TU="NA" /idTUdmin="U306" /TUdmin="-19" /isTUend="TRUE" promotor_-35 449615..449622 /Source="Nicolas_upshift_promotors" /id="U307" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.938061938061938" /psig=1 /xcortree=1546 /SigmaFactorBS="tgtcacagtcatgtgccaaagtcctctttactttCAATTGTA tagggactgtaagCGTTTTAACATAGAGTCAAAgggaagcatcattctctgaacatat t" /listShort="S132, mtlA, mtlF, mtlD, ycsA, sipU, S133" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 449636..449655 /Source="Nicolas_upshift_promotors" /id="U307" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.938061938061938" /psig=1 /xcortree=1546 /SigmaFactorBS="tgtcacagtcatgtgccaaagtcctctttactttCAATTGTA tagggactgtaagCGTTTTAACATAGAGTCAAAgggaagcatcattctctgaacatat t" /listShort="S132, mtlA, mtlF, mtlD, ycsA, sipU, S133" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 449641 /Source="Nicolas_upshifts" /id="U307" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.938061938061938" /psig=1 /xcortree=1546 /SigmaFactorBS="tgtcacagtcatgtgccaaagtcctctttactttCAATTGTA tagggactgtaagCGTTTTAACATAGAGTCAAAgggaagcatcattctctgaacatat t" /listShort="S132, mtlA, mtlF, mtlD, ycsA, sipU, S133" /GFF_Attribute="listLong" S_feature 449651..449723 /Source="Nicolas_S_feature" /locus_tag="new_449651_449723" /HighExp="S0, dia5, Gly, G135, B60, T0.30H, BT, G180, G150, M40t45" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S132" CDS 449724..451160 /gene="mtlA" /locus_tag="BSU_03981" /old_locus_tag="BSU03981" /EC_number="2.7.1.197" /function="16.1: Circulate" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:12897001, 23279188" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12897001, 23279188; Product type t: transporter" /codon_start=1 /transl_table=11 /product="phosphotransferase system (PTS) mannitol-specific enzyme IICB component" /protein_id="NP_388280.2" /db_xref="EnsemblGenomes-Gn:BSU03981" /db_xref="EnsemblGenomes-Tr:CAB12206" /db_xref="GOA:P42956" /db_xref="InterPro:IPR003352" /db_xref="InterPro:IPR003501" /db_xref="InterPro:IPR004718" /db_xref="InterPro:IPR013011" /db_xref="InterPro:IPR013014" /db_xref="InterPro:IPR029503" /db_xref="InterPro:IPR036095" /db_xref="SubtiList:BG11215" /db_xref="UniProtKB/Swiss-Prot:P42956" /translation="MQQQEQQQGGMKVKVQRFGSYLSGMIMPNIGAFIAWGIITALFI PAGWFPNEQLNTLVSPMITYLLPLLIAYTGGKMIYDHRGGVVGATAAIGVIVGSDIPM FLGAMIMGPLGGYLIKQTDKLFKDKVKQGFEMLINNFTAGIVGAALTILAFYAIGPVV LTLNKLLAAGVEVIVHANLLPVASVFVEPAKVLFLNNAINHGILSPIGIEQASQTGKS ILFLVEANPGPGLGILLAYMFFGKGSSKSTAPGAAIIHFFGGIHEIYFPYILMKPALI LAAIAGGASGLLTFTIFNAGLVAAASPGSIIALMAMTPRGGYFGVLAGVLVAAAVSFI VSAVILKSSKASEEDLAAATEKMQSMKGKKSQAAAALEAEQAKAEEASELSPESVNKI IFACDAGMGSSAMGASILRNKVKKAELDISVTNTAINNLPSDADIVITHKDLTDRAKA KLPNATHISVDNFLNSPKYDELIEKLKK*" gene 449724..451160 /gene="mtlA" /locus_tag="BSU_03981" /old_locus_tag="BSU03981" CDS 451185..451616 /gene="mtlF" /locus_tag="BSU_03982" /old_locus_tag="BSU03982" /EC_number="2.7.1.197" /function="16.1: Circulate" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:12897001, 23279188" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12897001, 23279188; Product type t: transporter" /codon_start=1 /transl_table=11 /product="phosphotransferase system (PTS) mannitol-specific enzyme IIA component" /protein_id="YP_003097678.1" /db_xref="EnsemblGenomes-Gn:BSU03982" /db_xref="EnsemblGenomes-Tr:CAX52549" /db_xref="GOA:C0H3V2" /db_xref="InterPro:IPR002178" /db_xref="InterPro:IPR016152" /db_xref="UniProtKB/Swiss-Prot:C0H3V2" /translation="MQVLAKENIKLNQTVSSKEEAIKLAGQTLIDNGYVTEDYISKMF EREETSSTFMGNFIAIPHGTEEAKSEVLHSGISIIQIPEGVEYGEGNTAKVVFGIAGK NNEHLDILSNIAIICSEEENIERLISAKSEEDLIAIFNEVN*" gene 451185..451616 /gene="mtlF" /locus_tag="BSU_03982" /old_locus_tag="BSU03982" CDS 451618..452739 /gene="mtlD" /locus_tag="BSU_03990" /old_locus_tag="BSU03990" /EC_number="1.1.1.17" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:12897001, 22014119, 23279188" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12897001, 22014119, 23279188; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="mannitol-1-phosphate 5-dehydrogenase" /protein_id="NP_388281.2" /db_xref="EnsemblGenomes-Gn:BSU03990" /db_xref="EnsemblGenomes-Tr:CAB12207" /db_xref="GOA:P42957" /db_xref="InterPro:IPR000669" /db_xref="InterPro:IPR008927" /db_xref="InterPro:IPR013118" /db_xref="InterPro:IPR013131" /db_xref="InterPro:IPR013328" /db_xref="InterPro:IPR023027" /db_xref="InterPro:IPR023028" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG11216" /db_xref="UniProtKB/Swiss-Prot:P42957" /translation="MIALHFGAGNIGRGFIGALLHHSGYDVVFADVNETMVSLLNEKK EYTVELAEEGRSSEIIGPVSAINSGSQTEELYRLMNEAALITTAVGPNVLKLIAPSIA EGLRRRNTANTLNIIACENMIGGSSFLKKEIYSHLTEAEQKSVSETVGFPNSAVDRIV PIQHHEDPLKVSVEPFFEWVIDESGFKGKTPVINGALFVDDLTPYIERKLFTVNTGHA VTAYVGYQRGLKTVKEAIDHPEIRRVVHSALLETGDYLVKSYGFKQTEHEQYIKKIIG RFENPFISDDVTRVARSPLRKLGENDRLVGPAKKIKEPNALAEGIAAALRFDFTGDPE AVELQALIEEKGYSGVLQEVCGIQSHEPLHAIILKKLNQ*" gene 451618..452739 /gene="mtlD" /locus_tag="BSU_03990" /old_locus_tag="BSU03990" downshifts 452722 /Source="Nicolas_upshifts" /id="D178" /incds=0 /nref=46 /ntot=156 /MaxReadThrough="5.56503" /MaxDrop="4.72154" /score="32.3837677" /energy="-13.4" /TU="U307" /idTUdmin="U308" /TUdmin="-1254" /isTUend="FALSE" promotor_-35 452768..452771 /Source="Nicolas_upshift_promotors" /id="U308" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.964035964035964" /psig=1 /xcortree=1552 /SigmaFactorBS="ttaatcaataaccgaccacccgtgacacaatgtcacgggCTT TttttactatctcgcaATCTAGTATAATAGAAAGCGcttacgataacaggggaaggag a" /listShort="ycsA" /listLong="sipU, S133, ycsD" /label="promotor_-35" promotor_-10 452787..452806 /Source="Nicolas_upshift_promotors" /id="U308" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.964035964035964" /psig=1 /xcortree=1552 /SigmaFactorBS="ttaatcaataaccgaccacccgtgacacaatgtcacgggCTT TttttactatctcgcaATCTAGTATAATAGAAAGCGcttacgataacaggggaaggag a" /listShort="ycsA" /listLong="sipU, S133, ycsD" /label="promotor_-10" upshifts 452789 /Source="Nicolas_upshifts" /id="U308" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.964035964035964" /psig=1 /xcortree=1552 /SigmaFactorBS="ttaatcaataaccgaccacccgtgacacaatgtcacgggCTT TttttactatctcgcaATCTAGTATAATAGAAAGCGcttacgataacaggggaaggag a" /listShort="ycsA" /listLong="sipU, S133, ycsD" CDS 452830..453894 /gene="ycsA" /locus_tag="BSU_04000" /old_locus_tag="BSU04000" /EC_number="1.1.1.93" /EC_number="1.1.1.83" /EC_number="4.1.1.73" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 10568751, 12356321; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative tartrate dehydrogenase" /protein_id="NP_388282.3" /db_xref="EnsemblGenomes-Gn:BSU04000" /db_xref="EnsemblGenomes-Tr:CAB12208" /db_xref="GOA:P42958" /db_xref="InterPro:IPR011829" /db_xref="InterPro:IPR019818" /db_xref="InterPro:IPR024084" /db_xref="SubtiList:BG11222" /db_xref="UniProtKB/Swiss-Prot:P42958" /translation="MTMKQFEIAAIPGDGVGKEVVAAAEKVLHTAAEVHGGLSFSFTA FPWSCDYYLEHGKMMPEDGIHTLTQFEAVFLGAVGNPKLVPDHISLWGLLLKIRRELE LSINMRPAKQMAGITSPLLHPNDFDFVVIRENSEGEYSEVGGRIHRGDDEIAIQNAVF TRKATERVMRFAFELAKKRRSHVTSATKSNGIYHAMPFWDEVFQQTAADYSGIETSSQ HIDALAAFFVTRPETFDVIVASNLFGDILTDISSSLMGSIGIAPSANINPSGKYPSMF EPVHGSAPDIAGQGLANPIGQIWTAKLMLDHFGEEELGAKILDVMEQVTADGIKTRDI GGQSTTAEVTDEICSRLRKL*" gene 452830..453894 /gene="ycsA" /locus_tag="BSU_04000" /old_locus_tag="BSU04000" promotor_-35 453064..453072 /Source="Nicolas_upshift_promotors" /id="U309" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.96903096903097" /psig="0.96903096903097" /xcortree=1234 /SigmaFactorBS="atttgaagcagtttttttgggagctgtcGGAAATCCGaagct ggttcccgATCATATATCGTTATGGGGGctgctgctgaaaatccggagggagcttgag c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 453086..453105 /Source="Nicolas_upshift_promotors" /id="U309" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.96903096903097" /psig="0.96903096903097" /xcortree=1234 /SigmaFactorBS="atttgaagcagtttttttgggagctgtcGGAAATCCGaagct ggttcccgATCATATATCGTTATGGGGGctgctgctgaaaatccggagggagcttgag c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 453096 /Source="Nicolas_upshifts" /id="U309" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.96903096903097" /psig="0.96903096903097" /xcortree=1234 /SigmaFactorBS="atttgaagcagtttttttgggagctgtcGGAAATCCGaagct ggttcccgATCATATATCGTTATGGGGGctgctgctgaaaatccggagggagcttgag c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" downshifts 453888 /Source="Nicolas_upshifts" /id="D179" /incds=0 /nref=7 /ntot=41 /MaxReadThrough="4.24123" /MaxDrop="4.42639" /score="9.70532694" /energy="-11.6" /TU="U307,U308" /idTUdmin="U308" /TUdmin="-88" /isTUend="FALSE" promotor_-35 453961..453968 /Source="Nicolas_upshift_promotors" /id="U310" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.567432567432567" /psig="0.996003996003996" /xcortree=2303 /SigmaFactorBS="atttccttacgaaaatttccacgaaagTCTAACCAagcagat ccaaaTGCTGTATAATAATTTGGAAttcttaggaaagcatcgggtgaaggaagttgaa t" /listShort="sipU, S133, ycsD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 453981..454000 /Source="Nicolas_upshift_promotors" /id="U310" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.567432567432567" /psig="0.996003996003996" /xcortree=2303 /SigmaFactorBS="atttccttacgaaaatttccacgaaagTCTAACCAagcagat ccaaaTGCTGTATAATAATTTGGAAttcttaggaaagcatcgggtgaaggaagttgaa t" /listShort="sipU, S133, ycsD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 453994 /Source="Nicolas_upshifts" /id="U310" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.567432567432567" /psig="0.996003996003996" /xcortree=2303 /SigmaFactorBS="atttccttacgaaaatttccacgaaagTCTAACCAagcagat ccaaaTGCTGTATAATAATTTGGAAttcttaggaaagcatcgggtgaaggaagttgaa t" /listShort="sipU, S133, ycsD" /GFF_Attribute="listLong" CDS 454029..454592 /gene="sipU" /locus_tag="BSU_04010" /old_locus_tag="BSU04010" /EC_number="3.4.21.89" /function="16.1: Circulate" /function="16.2: Construct biomass (Anabolism)" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:9325333, 10198007, 11856304, 14568161" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9325333, 10198007, 11856304, 14568161; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="type I signal peptidase" /protein_id="NP_388283.1" /db_xref="EnsemblGenomes-Gn:BSU04010" /db_xref="EnsemblGenomes-Tr:CAB12209" /db_xref="GOA:P42959" /db_xref="InterPro:IPR000223" /db_xref="InterPro:IPR015927" /db_xref="InterPro:IPR019756" /db_xref="InterPro:IPR019757" /db_xref="InterPro:IPR019758" /db_xref="InterPro:IPR036286" /db_xref="SubtiList:BG11223" /db_xref="UniProtKB/Swiss-Prot:P42959" /translation="MNAKTITLKKKRKIKTIVVLSIIMIAALIFTIRLVFYKPFLIEG SSMAPTLKDSERILVDKAVKWTGGFHRGDIIVIHDKKSGRSFVKRLIGLPGDSIKMKN DQLYINDKKVEEPYLKEYKQEVKESGVTLTGDFEVEVPSGKYFVMGDNRLNSLDSRNG MGMPSEDDIIGTESLVFYPFGEMRQAK*" gene 454029..454592 /gene="sipU" /locus_tag="BSU_04010" /old_locus_tag="BSU04010" S_feature 454593..455317 /Source="Nicolas_S_feature" /locus_tag="new_454593_455317" /HighExp="G150, Oxctl, Lbexp, G135, Paraq, dia0, LBGexp, Mt0, G180, dia15" /AntisenseName="yczH" /AntisenseCor="0.134432865921808" /AntisenseRegPval="-1.6" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.996, 1" /TUlongSig="SigA" /TUlongPSig=1 /label="S133" CDS complement(454652..455260) /gene="yczH" /locus_tag="BSU_04020" /old_locus_tag="BSU04020" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative hydrolase" /protein_id="NP_388284.2" /db_xref="EnsemblGenomes-Gn:BSU04020" /db_xref="EnsemblGenomes-Tr:CAB12210" /db_xref="GOA:O31482" /db_xref="InterPro:IPR002925" /db_xref="InterPro:IPR029058" /db_xref="SubtiList:BG12782" /db_xref="UniProtKB/Swiss-Prot:O31482" /translation="MFPKPLVILAHEIYGVNSHMKKMGRLIKMAGYDVLTPNLLGEDE VYTLKEEKTAYEQFTKHERLKTGETIIQNVIRQNAGRHIFVIGFSVGATIAWKCSSMP EVSGSVCYYGSRIRDSLHHMPACPVLLFFPNYEPSFDVALLIKKLREKQHTHLEIYQF DALHGFANPDSVYFNRALFFKTLSIIKNGAESRLRTVSSSFF*" gene complement(454652..455260) /gene="yczH" /locus_tag="BSU_04020" /old_locus_tag="BSU04020" misc_feature complement(455278..455297) /Source="Nicolas_upshift_promotors" /id="U311" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.397602397602398" /psig="0.993006993006993" /xcortree=2931 /SigmaFactorBS="aagataatgagttcattttatatctcctttttttgaccatta tatctcagcctaaagtgaaacgATAGGATATAATGGAAAAAAcacaaaaggaggccgt t" /listShort="yczH" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" promotor_-35 455294..455300 /Source="Nicolas_upshift_promotors" /id="U312" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.572427572427572" /psig="0.995004995004995" /xcortree=3001 /SigmaFactorBS="ataacggcctccttttgtgttttttccattatatcCTATCGT ttcactttaggcTGAGATATAATGGTCAAAAAaaggagatataaaatgaactcattat c" /listShort="ycsD" /GFF_Attribute="listLong" /label="promotor_-35" upshifts complement(455301) /Source="Nicolas_upshifts" /id="U311" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.397602397602398" /psig="0.993006993006993" /xcortree=2931 /SigmaFactorBS="aagataatgagttcattttatatctcctttttttgaccatta tatctcagcctaaagtgaaacgATAGGATATAATGGAAAAAAcacaaaaggaggccgt t" /listShort="yczH" /GFF_Attribute="listLong" promotor_-10 455313..455332 /Source="Nicolas_upshift_promotors" /id="U312" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.572427572427572" /psig="0.995004995004995" /xcortree=3001 /SigmaFactorBS="ataacggcctccttttgtgttttttccattatatcCTATCGT ttcactttaggcTGAGATATAATGGTCAAAAAaaggagatataaaatgaactcattat c" /listShort="ycsD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 455319 /Source="Nicolas_upshifts" /id="U312" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.572427572427572" /psig="0.995004995004995" /xcortree=3001 /SigmaFactorBS="ataacggcctccttttgtgttttttccattatatcCTATCGT ttcactttaggcTGAGATATAATGGTCAAAAAaaggagatataaaatgaactcattat c" /listShort="ycsD" /GFF_Attribute="listLong" CDS 455346..455738 /gene="ycsD" /locus_tag="BSU_04030" /old_locus_tag="BSU04030" /EC_number="4.2.1.-" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12682299, 16291680, 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative hydroxyacyl-(acyl carrier protein) dehydratase" /protein_id="NP_388285.2" /db_xref="EnsemblGenomes-Gn:BSU04030" /db_xref="EnsemblGenomes-Tr:CAB12211" /db_xref="InterPro:IPR013114" /db_xref="InterPro:IPR029069" /db_xref="SubtiList:BG11225" /db_xref="UniProtKB/Swiss-Prot:P42961" /translation="MNSLSLPHRYPFLFIDGVTDSEPGKHAAAYKLISENDWFITDTQ TEMPFSLVIEALAQTAAFTGITDENSLGLLSSVKKAEKLGEAVPGDRLDLTFEVTRNR RGFVFGHAKASVGEQPVAEAEIGIYIEK*" gene 455346..455738 /gene="ycsD" /locus_tag="BSU_04030" /old_locus_tag="BSU04030" downshifts 455715 /Source="Nicolas_upshifts" /id="D180" /incds=0 /nref=23 /ntot=189 /MaxReadThrough="1.8721" /MaxDrop="3.42324" /score="-5.4921522" /energy="-13.6" /TU="NA" /idTUdmin="U310" /TUdmin=0 /isTUend="TRUE" CDS complement(455771..455935) /gene="yczO" /locus_tag="BSU_04039" /old_locus_tag="BSU04039" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="YP_003097679.1" /db_xref="EnsemblGenomes-Gn:BSU04039" /db_xref="EnsemblGenomes-Tr:CAX52550" /db_xref="UniProtKB/Swiss-Prot:C0H3V3" /translation="MTEKKQQNKPNENPEHNDLTDPIPNEELKENMNDEKHKRQQRDN SQSERDYDTK*" gene complement(455771..455935) /gene="yczO" /locus_tag="BSU_04039" /old_locus_tag="BSU04039" downshifts complement(455791) /Source="Nicolas_upshifts" /id="D181" /incds=0 /nref=101 /ntot=193 /MaxReadThrough="1.44096" /MaxDrop="6.55741" /score="22.582242" /energy="-10.6" /TU="NA" /idTUdmin="U313" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(455945..455963) /Source="Nicolas_upshift_promotors" /id="U313" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.992007992007992" /psig="0.992007992007992" /xcortree=206 /SigmaFactorBS="ttctaatacattatacccagcgggacaaaaaagcgatttcct aTGTTTGAggagaatgaataagAGGAAAACAAACGGTGAGGtgatcaaacatgacaga a" /listShort="yczO" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(455967) /Source="Nicolas_upshifts" /id="U313" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.992007992007992" /psig="0.992007992007992" /xcortree=206 /SigmaFactorBS="ttctaatacattatacccagcgggacaaaaaagcgatttcct aTGTTTGAggagaatgaataagAGGAAAACAAACGGTGAGGtgatcaaacatgacaga a" /listShort="yczO" /GFF_Attribute="listLong" promotor_-35 complement(455978..455984) /Source="Nicolas_upshift_promotors" /id="U313" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.992007992007992" /psig="0.992007992007992" /xcortree=206 /SigmaFactorBS="ttctaatacattatacccagcgggacaaaaaagcgatttcct aTGTTTGAggagaatgaataagAGGAAAACAAACGGTGAGGtgatcaaacatgacaga a" /listShort="yczO" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 455997..456004 /Source="Nicolas_upshift_promotors" /id="U314" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.809190809190809" /psig=1 /xcortree=2352 /SigmaFactorBS="cctcttattcattctcctcaaacataggaaatcgctTTTTTG TCccgctgggtataaTGTATTAGAATAGAGAGAAGcacaacaaaaagataaagagagg t" /listShort="ycsE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 456018..456037 /Source="Nicolas_upshift_promotors" /id="U314" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.809190809190809" /psig=1 /xcortree=2352 /SigmaFactorBS="cctcttattcattctcctcaaacataggaaatcgctTTTTTG TCccgctgggtataaTGTATTAGAATAGAGAGAAGcacaacaaaaagataaagagagg t" /listShort="ycsE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 456021 /Source="Nicolas_upshifts" /id="U314" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.809190809190809" /psig=1 /xcortree=2352 /SigmaFactorBS="cctcttattcattctcctcaaacataggaaatcgctTTTTTG TCccgctgggtataaTGTATTAGAATAGAGAGAAGcacaacaaaaagataaagagagg t" /listShort="ycsE" /GFF_Attribute="listLong" CDS 456068..456817 /gene="ribZ" /locus_tag="BSU_04040" /old_locus_tag="BSU04040" /EC_number="3.1.3.-" /function="4.9: Riboflavin, FMN, and FAD" /function="16.11: Scavenge (Catabolism)" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1b: Function from experimental evidences in the studied species; PubMedId: 26316208, 27435445, 27784292; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="5-amino-6-ribitylamino-2,4(1H, 3H)-pyrimidinedione 5'-phosphate phosphatase / 5' nucleotidase" /protein_id="NP_388286.2" /db_xref="EnsemblGenomes-Gn:BSU04040" /db_xref="EnsemblGenomes-Tr:CAB12212" /db_xref="GOA:P42962" /db_xref="InterPro:IPR006379" /db_xref="InterPro:IPR023214" /db_xref="InterPro:IPR036412" /db_xref="SubtiList:BG11226" /db_xref="UniProtKB/Swiss-Prot:P42962" /translation="MSVQREDVDIKLIAIDMDGTLLNDEQLISDENRKAIREAEDKGV YVVISTGRTLMTCRELAESLKLSSFLITANGSEIWDSNFNLVERKLLHTDHIQMMWDL RNKHNTNFWASTVNKVWRGEFPENITDHEWLKFGFDIEDDDIRNEVLEELRKNKELEI TNSSPTNIEVNALGINKAAALAKVTEKLGFTMENVMAMGDSLNDIAMIKEAGLGVAMG NAQDIVKETADYITDTNIEDGVAKAIRHWVL*" gene 456068..456817 /gene="ribZ" /locus_tag="BSU_04040" /old_locus_tag="BSU04040" downshifts 456794 /Source="Nicolas_upshifts" /id="D182" /incds=0 /nref=219 /ntot=253 /MaxReadThrough="3.23506" /MaxDrop="6.84998" /score="19.5535298" /energy="-11.7" /TU="NA" /idTUdmin="U314" /TUdmin="-21" /isTUend="TRUE" downshifts complement(456870) /Source="Nicolas_upshifts" /id="D183" /incds=0 /nref=1 /ntot=7 /MaxReadThrough="0.52326" /MaxDrop="2.84763" /score="25.9755124" /energy="-11.7" /TU="NA" /idTUdmin="U313" /TUdmin="-1079" /isTUend="FALSE" promotor_-35 456900..456906 /Source="Nicolas_upshift_promotors" /id="U315" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.386613386613387" /psig="0.996003996003996" /xcortree=2194 /SigmaFactorBS="attctgggaccatggtaggttttctgacaaaagtATTTCACa aactgatatgatTCACTTATAATGAAATAAAGttcaaaaattcggaatagtcgttccg a" /listShort="S134, ycsF, ycsG, ycsI, kipI, kipA, kipR, lipC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 456920..456939 /Source="Nicolas_upshift_promotors" /id="U315" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.386613386613387" /psig="0.996003996003996" /xcortree=2194 /SigmaFactorBS="attctgggaccatggtaggttttctgacaaaagtATTTCACa aactgatatgatTCACTTATAATGAAATAAAGttcaaaaattcggaatagtcgttccg a" /listShort="S134, ycsF, ycsG, ycsI, kipI, kipA, kipR, lipC" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 456926..457022 /Source="Nicolas_S_feature" /locus_tag="new_456926_457022" /HighExp="S1, Cold, S0, GM 5, BMM, MG 25, Lbtran, aero, GM 10, HiOs" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.996" /TUlongSig="NA" /TUlongPSig="NA" /label="S134" upshifts 456926 /Source="Nicolas_upshifts" /id="U315" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.386613386613387" /psig="0.996003996003996" /xcortree=2194 /SigmaFactorBS="attctgggaccatggtaggttttctgacaaaagtATTTCACa aactgatatgatTCACTTATAATGAAATAAAGttcaaaaattcggaatagtcgttccg a" /listShort="S134, ycsF, ycsG, ycsI, kipI, kipA, kipR, lipC" /GFF_Attribute="listLong" CDS 457023..457796 /gene="pxpA" /locus_tag="BSU_04050" /old_locus_tag="BSU04050" /EC_number="3.5.2.9" /function="16.6: Maintain" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:9334321, 28830929" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9334321, 28830929; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="oxoprolinase subunit A" /protein_id="NP_388287.3" /db_xref="EnsemblGenomes-Gn:BSU04050" /db_xref="EnsemblGenomes-Tr:CAB12213" /db_xref="GOA:P42963" /db_xref="InterPro:IPR005501" /db_xref="InterPro:IPR011330" /db_xref="SubtiList:BG11227" /db_xref="UniProtKB/Swiss-Prot:P42963" /translation="MFQIDLNCDLGESFGAYKIGLDQDILEYVTSANIACGFHAGDPS VMRKTVALAAERGVKMGAHPGLPDLLGFGRRNMAISPEEAYDLVVYQIGALSGFLKAE GLHMQHVKPHGALYNMAAVDQKLSDAIAKAVYKVDPGLILFGLAESELVKAGERIGLQ TANEVFADRTYQSDGTLTPRSQPDALIESDDAAVTQVIKMVKEGAVKSQQGHDVSLKA DTVCIHGDGAHALTFAQKIRKQLKAAGIEVTAISEQRST*" gene 457023..457796 /gene="pxpA" /locus_tag="BSU_04050" /old_locus_tag="BSU04050" CDS 457811..459025 /gene="pxpG" /locus_tag="BSU_04060" /old_locus_tag="BSU04060" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); PubMedId: 9334321, 15849754, 16850406, 28830929; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="5-oxoproline transporter" /protein_id="NP_388288.3" /db_xref="EnsemblGenomes-Gn:BSU04060" /db_xref="EnsemblGenomes-Tr:CAB12214" /db_xref="GOA:P42964" /db_xref="InterPro:IPR001046" /db_xref="SubtiList:BG11228" /db_xref="UniProtKB/Swiss-Prot:P42964" /translation="MEQQKKTAGKKAGSWSLLMGAAFLMATSAIGPGFLTQTATFTNT LAASFGFVILISIILDIFAQTNVWRIIAVSGKRGQEIANMVLPGLGYFIAILVVLGGL AFNIGNIGGAGLGLQVLFGITPETGALISAVIAILIFVIKEAGKAMDRFTQIAGFVMI ILTVYVAATTAPPVGQAVANTFVPEHISIFAIVTLVGGTVGGYITFAGGHRLLDAGIK GKESIPQVTKSSVVGILITSVMRIALFLAVLGVVSKGLHIDESNPAASVFKLAAGNVG YKIFGLIMWSAAITSVIGAAYTSVSFFKTFSPKIEKNSRGIIIGFIVVSTLAFVTIGQ PAKILVLVGSLNGLILPIALGTLLVAAYKKNIVGDYKHPLWLTSTGALVVIVMAVMGI YTLCTQLPQLWS*" gene 457811..459025 /gene="pxpG" /locus_tag="BSU_04060" /old_locus_tag="BSU04060" CDS 459049..459822 /gene="pxpI" /locus_tag="BSU_04070" /old_locus_tag="BSU04070" /function="16.11: Scavenge (Catabolism)" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 8186229, 9334321, 28830929; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative D-5-oxoproline epimerase" /protein_id="NP_388289.3" /db_xref="EnsemblGenomes-Gn:BSU04070" /db_xref="EnsemblGenomes-Tr:CAB12215" /db_xref="GOA:P42966" /db_xref="InterPro:IPR009906" /db_xref="InterPro:IPR016938" /db_xref="SubtiList:BG11230" /db_xref="UniProtKB/Swiss-Prot:P42966" /translation="MAPKDVRALIREGKINGPTAGMSGGYAQANLVVLKKDLAFDFLL FCQRNQKPCPVLDVTEAGSPVPSLAAPDADIRTDFPKYRIYRHGILTEEVSDITPYWE DDFVGFLIGCSFSFEQALINNGIAVRHIDEGTNVSMYKTNIDCVPAGAFHGQMVVSMR PVPERLAVRAAQVTSRFPAVHGGPIHIGNPGAIGIRDLGKPDFGDAVSIRDGEVPVFW ACGVTPQAVAMNVKPEMVITHAPGHMLITDIRDESLAVL*" gene 459049..459822 /gene="pxpI" /locus_tag="BSU_04070" /old_locus_tag="BSU04070" CDS 459867..460589 /gene="pxpB" /locus_tag="BSU_04080" /old_locus_tag="BSU04080" /EC_number="3.5.2.9" /function="16.8: Protect" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:9334321, 18823995, 19040634, 20524093, 21050859, 21245531, 22277658, 28830929" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9334321, 18823995, 19040634, 20524093, 21050859, 21245531, 22277658, 28830929; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="L-5-oxoprolinase (ATP-dependent) subunit B" /protein_id="NP_388290.2" /db_xref="EnsemblGenomes-Gn:BSU04080" /db_xref="EnsemblGenomes-Tr:CAB12216" /db_xref="GOA:P60495" /db_xref="InterPro:IPR003833" /db_xref="InterPro:IPR010016" /db_xref="InterPro:IPR024946" /db_xref="InterPro:IPR029000" /db_xref="PDB:2KWA" /db_xref="PDB:2ZP2" /db_xref="SubtiList:BG11231" /db_xref="UniProtKB/Swiss-Prot:P60495" /translation="MTVRYQIEQLGDSAMMIRFGEEINEQVNGIVHAAAAYIEEQPFP GFIECIPAFTSLTVFYDMYEVYKHLPQGISSPFESVKRDVEERLAEIAEDYEVNRRIV EIPVCYGGEFGPDLEEVAKINQLSPEEVIDIHTNGEYVVYMLGFAPGFPFLGGMSKRI AAPRKSSPRPSIPAGSVGIAGLQTGVYPISTPGGWQLIGKTPLALFRPQENPPTLLRA GDIVKFVRISEKDYHAYKEESN*" gene 459867..460589 /gene="pxpB" /locus_tag="BSU_04080" /old_locus_tag="BSU04080" CDS 460592..461599 /gene="pxpC" /locus_tag="BSU_04090" /old_locus_tag="BSU04090" /EC_number="3.5.2.9" /function="16.6: Maintain" /function="16.8: Protect" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:9334321, 18823995, 19040634, 20524093, 21050859, 21245531, 22277658, 28830929" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9334321, 18823995, 19040634, 20524093, 21050859, 21245531, 22277658, 28830929; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="L-5-oxoprolinase (ATP-dependent) subunit C" /protein_id="YP_054571.2" /db_xref="EnsemblGenomes-Gn:BSU04090" /db_xref="EnsemblGenomes-Tr:CAE01447" /db_xref="GOA:Q7WY77" /db_xref="InterPro:IPR003778" /db_xref="InterPro:IPR029000" /db_xref="SubtiList:BG14193" /db_xref="UniProtKB/Swiss-Prot:Q7WY77" /translation="MKVLKPGLLTTVQDIGRTGYQKYGVLASGAMDTVSLRIANLLIG NGENEAGLEITMMGPGPSFHFSKQTLIAVTGADFTLRINDEEAPLWKPVLIKENSTVS FGPCKLGSRAYLAAAGGIEVPAVMESKSTYVRGSIGGLHGRALQKEDELNIGEMSALS QTILSRLSSQLGKQGFAAPKWSVSRGRFLPLKKNPVIRVLEGKQFAFFTEESKTRFYE EAFRVTPQSDRMGYRLKGEPLELKAPLEMVSEAVSFGTVQVPPDGNPIILLADRQTTG GYPRIAHIISADLPIVSQIMPGEHVQFEPVSLQEAEALAVEREQHIKELKTRMKMEWL T*" gene 460592..461599 /gene="pxpC" /locus_tag="BSU_04090" /old_locus_tag="BSU04090" downshifts 461085 /Source="Nicolas_upshifts" /id="D184" /incds=1 /nref=6 /ntot=27 /MaxReadThrough="5.04721" /MaxDrop="4.5277" /score="-7.2426149" /energy="-12.4" /TU="U315" /idTUdmin="U315" /TUdmin="-1975" /isTUend="FALSE" promotor_no_box 461179..461279 /Source="Nicolas_upshift_promotors" /id="U316" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.645354645354645" /psig="0.020979020979021" /xcortree=1726 /SigmaFactorBS="cattcgggtgctggaaggaaagcaatttgcctttttcacaga agaatcaaaaacgcgtttttatgaagaagcatttcgtgtcacgccgcagtccgaccgt a" /listShort="kipR, lipC" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts 461239 /Source="Nicolas_upshifts" /id="U316" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.645354645354645" /psig="0.020979020979021" /xcortree=1726 /SigmaFactorBS="cattcgggtgctggaaggaaagcaatttgcctttttcacaga agaatcaaaaacgcgtttttatgaagaagcatttcgtgtcacgccgcagtccgaccgt a" /listShort="kipR, lipC" /GFF_Attribute="listLong" CDS 461615..462367 /gene="pxpR" /locus_tag="BSU_04100" /old_locus_tag="BSU04100" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 9334321; Product type r : regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator of the pxp operon (IclR family)" /protein_id="NP_388291.2" /db_xref="EnsemblGenomes-Gn:BSU04100" /db_xref="EnsemblGenomes-Tr:CAB12217" /db_xref="GOA:P42968" /db_xref="InterPro:IPR005471" /db_xref="InterPro:IPR014757" /db_xref="InterPro:IPR029016" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG11214" /db_xref="UniProtKB/Swiss-Prot:P42968" /translation="MQNKNKTVVKSMALLNLFLHKPSLTLSELVSLTGMPKTSVHRMV SSLEEMGFLSRDASGAYSLGLVFLEFGQLVADRLDIRKIAKPVMEELCREVDEAVQLI MRDGNEAIYVEKIEGTQTVRLYTAIGRRSPLYAGACARSILSFLPREEIEAYIKQTEL ISIGSGTITDPEKLLQEIDASVQNGYTVSYSELENYTAAIGAPIFNHERQVAAGISIA GFEARFTEDRLPYLTEKVKDAALQISRKIGYT*" gene 461615..462367 /gene="pxpR" /locus_tag="BSU_04100" /old_locus_tag="BSU04100" promotor_-35 462365..462374 /Source="Nicolas_upshift_promotors" /id="U317" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1275 /SigmaFactorBS="cagatttcaagaaaaataggatatacaTAAGTAGCCAatctt ttctctgcTGCGTACATTAACGTATCGAcgttcaagagtggaggaaagaacatggtgc t" /listShort="lipC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 462388..462407 /Source="Nicolas_upshift_promotors" /id="U317" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1275 /SigmaFactorBS="cagatttcaagaaaaataggatatacaTAAGTAGCCAatctt ttctctgcTGCGTACATTAACGTATCGAcgttcaagagtggaggaaagaacatggtgc t" /listShort="lipC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 462398 /Source="Nicolas_upshifts" /id="U317" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1275 /SigmaFactorBS="cagatttcaagaaaaataggatatacaTAAGTAGCCAatctt ttctctgcTGCGTACATTAACGTATCGAcgttcaagagtggaggaaagaacatggtgc t" /listShort="lipC" /GFF_Attribute="listLong" CDS 462431..463072 /gene="lipC" /locus_tag="BSU_04110" /old_locus_tag="BSU04110" /EC_number="3.1.1.-" /function="16.3: Control" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:9334321, 17220230, 20057119" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9334321, 17220230, 20057119; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="spore coat phospholipase B" /protein_id="NP_388292.1" /db_xref="EnsemblGenomes-Gn:BSU04110" /db_xref="EnsemblGenomes-Tr:CAB12218" /db_xref="GOA:P42969" /db_xref="InterPro:IPR013830" /db_xref="InterPro:IPR036514" /db_xref="SubtiList:BG11232" /db_xref="UniProtKB/Swiss-Prot:P42969" /translation="MVLRYTALGDSLTTGRGSGLFSPGFVQRFGDMMEADLKTRTAIN IFARSGLNTEEILGLLSYPYVQKCIRDADMITITGCGNDLIDSVLAYQTSKDETIFSR VSAHCHENFEKMIAKVAEIKGENPSPYAIRVFNLYNPFPEIDIAGKWITSFNSHLETL ASAPHVKIADAYSIFKGKEQEYLSFDGVHPNSKGYQAMAEAVHKLGYKELSVS*" gene 462431..463072 /gene="lipC" /locus_tag="BSU_04110" /old_locus_tag="BSU04110" downshifts 463058 /Source="Nicolas_upshifts" /id="D185" /incds=0 /nref=106 /ntot=223 /MaxReadThrough="0.550230000000001" /MaxDrop="6.63515" /score="26.7371783" /energy="-11.8" /TU="NA" /idTUdmin="U315" /TUdmin="-2" /isTUend="TRUE" S_feature complement(463070..463495) /Source="Nicolas_S_feature" /locus_tag="new_463070_463495_c" /HighExp="S1, Sw, BC, S2, Lbtran, M0t90, LPhT, BI, M40t45, C90" /AntisenseName="yczI" /AntisenseCor="-0.57558682544748696" /AntisenseRegPval="-24.4" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.965" /TUlongSig="NA" /TUlongPSig="NA" /label="S135" downshifts complement(463115) /Source="Nicolas_upshifts" /id="D186" /incds=0 /nref=171 /ntot=252 /MaxReadThrough="1.91715" /MaxDrop="5.13764" /score="6.4765859" /energy="-11.8" /TU="NA" /idTUdmin="U319" /TUdmin="-1" /isTUend="TRUE" promotor_-35 463148..463154 /Source="Nicolas_upshift_promotors" /id="U318" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.361638361638362" /psig="0.998001998001998" /xcortree=2779 /SigmaFactorBS="gatcgaaatattaaaagaaacttaaaattctctgtcttcTGT TCTAcagacaaacaaagTGCGCTAGAATAATGGAGGGcgtaggcaaatatagccataa c" /listShort="yczI, S136, pbpC, S137, ycsN" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 463168..463187 /Source="Nicolas_upshift_promotors" /id="U318" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.361638361638362" /psig="0.998001998001998" /xcortree=2779 /SigmaFactorBS="gatcgaaatattaaaagaaacttaaaattctctgtcttcTGT TCTAcagacaaacaaagTGCGCTAGAATAATGGAGGGcgtaggcaaatatagccataa c" /listShort="yczI, S136, pbpC, S137, ycsN" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 463169 /Source="Nicolas_upshifts" /id="U318" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.361638361638362" /psig="0.998001998001998" /xcortree=2779 /SigmaFactorBS="gatcgaaatattaaaagaaacttaaaattctctgtcttcTGT TCTAcagacaaacaaagTGCGCTAGAATAATGGAGGGcgtaggcaaatatagccataa c" /listShort="yczI, S136, pbpC, S137, ycsN" /GFF_Attribute="listLong" CDS 463245..463490 /gene="yczI" /locus_tag="BSU_04120" /old_locus_tag="BSU04120" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388293.1" /db_xref="EnsemblGenomes-Gn:BSU04120" /db_xref="EnsemblGenomes-Tr:CAB12219" /db_xref="GOA:P42970" /db_xref="InterPro:IPR025018" /db_xref="SubtiList:BG12783" /db_xref="UniProtKB/Swiss-Prot:P42970" /translation="MFRIFKMSFAVIIIILALIAFNYTEHTSVIQSVMLVFLGAVMFM QGLEERKKENDGSGAFNIYTAVFVWSVSLIGFTLHII*" gene 463245..463490 /gene="yczI" /locus_tag="BSU_04120" /old_locus_tag="BSU04120" S_feature 463491..463901 /Source="Nicolas_S_feature" /locus_tag="new_463491_463901" /HighExp="T5.0H, T2.30H, T3.30H, T2.0H, T3.0H, T4.0H, T1.30H, M9-stat, T-4.40H, T-3.40H" /AntisenseName="yczJ" /AntisenseCor="-0.20847541933848601" /AntisenseRegPval="-3.2" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S136" CDS complement(463496..463783) /gene="yczJ" /locus_tag="BSU_04130" /old_locus_tag="BSU04130" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388294.1" /db_xref="EnsemblGenomes-Gn:BSU04130" /db_xref="EnsemblGenomes-Tr:CAB12220" /db_xref="InterPro:IPR007138" /db_xref="InterPro:IPR011008" /db_xref="SubtiList:BG12784" /db_xref="UniProtKB/Swiss-Prot:O31484" /translation="MVREAAMLHIKEGLEQEFEDAFRQAAPIISGMKGYITHSLSKCM EETHKYLLLVEWETLEDHTEGFRGSSEYQEWKALLHRFYTPFPTVEHFQDV*" gene complement(463496..463783) /gene="yczJ" /locus_tag="BSU_04130" /old_locus_tag="BSU04130" misc_feature complement(463804..463823) /Source="Nicolas_upshift_promotors" /id="U319" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.542457542457542" /psig="0.965034965034965" /xcortree=1595 /SigmaFactorBS="aagatttttttgaaaatgaaggaaaagttcaccgattttgca gaaatctcctatcgtTTGCTGTAGACTATTTGAAAagacagaaagaagggatagcatg g" /listShort="yczJ, S135" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(463820) /Source="Nicolas_upshifts" /id="U319" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.542457542457542" /psig="0.965034965034965" /xcortree=1595 /SigmaFactorBS="aagatttttttgaaaatgaaggaaaagttcaccgattttgca gaaatctcctatcgtTTGCTGTAGACTATTTGAAAagacagaaagaagggatagcatg g" /listShort="yczJ, S135" /GFF_Attribute="listLong" promotor_-35 463877..463881 /Source="Nicolas_upshift_promotors" /id="U320" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.855144855144855" /psig="0.946053946053946" /xcortree=2681 /SigmaFactorBS="aaatcggtgaacttttccttcattttcaaaaaaaTCTTGcac gcaccaattcaatTAAGAGAAAATAACAAGTGGaaggcaggggaaagtcatgttaaaa a" /listShort="pbpC, S137, ycsN, S138, mtlR" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 463898..463917 /Source="Nicolas_upshift_promotors" /id="U320" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.855144855144855" /psig="0.946053946053946" /xcortree=2681 /SigmaFactorBS="aaatcggtgaacttttccttcattttcaaaaaaaTCTTGcac gcaccaattcaatTAAGAGAAAATAACAAGTGGaaggcaggggaaagtcatgttaaaa a" /listShort="pbpC, S137, ycsN, S138, mtlR" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 463903 /Source="Nicolas_upshifts" /id="U320" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.855144855144855" /psig="0.946053946053946" /xcortree=2681 /SigmaFactorBS="aaatcggtgaacttttccttcattttcaaaaaaaTCTTGcac gcaccaattcaatTAAGAGAAAATAACAAGTGGaaggcaggggaaagtcatgttaaaa a" /listShort="pbpC, S137, ycsN, S138, mtlR" /GFF_Attribute="listLong" CDS 463934..465940 /gene="pbpC" /locus_tag="BSU_04140" /old_locus_tag="BSU04140" /function="16.13: Shape" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:8830698, 10648534" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8830698, 10648534; Product type lp: lipoprotein" /codon_start=1 /transl_table=11 /product="penicillin-binding lipoprotein 3; transpeptidase" /protein_id="NP_388295.1" /db_xref="EnsemblGenomes-Gn:BSU04140" /db_xref="EnsemblGenomes-Tr:CAB12221" /db_xref="GOA:P42971" /db_xref="InterPro:IPR001460" /db_xref="InterPro:IPR005311" /db_xref="InterPro:IPR007887" /db_xref="InterPro:IPR012338" /db_xref="InterPro:IPR032710" /db_xref="InterPro:IPR036138" /db_xref="SubtiList:BG11234" /db_xref="UniProtKB/Swiss-Prot:P42971" /translation="MLKKCILLVFLCVGLIGLIGCSKTDSPEDRMEAFVKQWNDQQFD DMYQSLTKDVKKEISKKDFVNRYKAIYEQAGVKNLKVTAGEVDKDDQDNKTMKHIPYK VSMNTNAGKVSFKNTAVLKLEKTDDEESWNIDWDPSFIFKQLADDKTVQIMSIEPKRG QIYDKNGKGLAVNTDVPEIGIVPGELGDKKEKVIKELAKKLDLTEDDIKKKLDQGWVK DDSFVPLKKVKPDQEKLVSEATSLQGVTRTNVSSRYYPYGEKTAHLTGYVRAITAEEL KKKKEGTYSDTSNIGIAGLENVYEDKLRGTTGWKIYVPQTGEVIAEKKAKDGEDLHLT IDIKTQMKLYDELKDDSGAAVALQPKTGETLALVSAPSYDPNGFIFGWSDKEWKKLNK DKNNPFSAKFNKTYAPGSTIKPIAAAIGIKNGTLKADEKKTIKGKEWQKDSSWGGYSV TRVSERLQQVDLENALITSDNIYFAQNALDMGADTFTKGLKTFGFSEDVPYEFPIQKS SIANDKLDSDILLADTGYGQGQMQMSPLHLATAYTPFVDNGDLVKPTLIKKDSQTADV WHKQVVTKEGAADITKGLKGVVEDERGSAYQPVVKGITVAGKTGTAELKTSKDDKDGT ENGWFVGYDYENKDLLVAMMIQNVQDRGGSHYVVEKAKKQFQSN*" gene 463934..465940 /gene="pbpC" /locus_tag="BSU_04140" /old_locus_tag="BSU04140" S_feature 465941..466041 /Source="Nicolas_S_feature" /locus_tag="new_465941_466041" /HighExp="LBGstat, T5.0H, M0t45, T3.30H, S0, LBGtran, Oxctl, T4.0H, C30, T3.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.946, 0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S137" CDS 466042..466944 /gene="ycsN" /locus_tag="BSU_04150" /old_locus_tag="BSU04150" /EC_number="1.1.1.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative oxidoreductase" /protein_id="NP_388296.1" /db_xref="EnsemblGenomes-Gn:BSU04150" /db_xref="EnsemblGenomes-Tr:CAB12222" /db_xref="GOA:P42972" /db_xref="InterPro:IPR020471" /db_xref="InterPro:IPR023210" /db_xref="InterPro:IPR036812" /db_xref="SubtiList:BG11235" /db_xref="UniProtKB/Swiss-Prot:P42972" /translation="MQRIQLAEDLQFSRVIHGLWRLNEWNYSDAELLSLIEWCIDHGI TTFDHADIYGGYTCEKLFGNALALSPGLRENIELVTKCGIVLESPERPAHRSHHYNTS KSHILASVEQSLMNLRTDYIDMLLIHRPDPLMDPEGVAEAFQALKCSGKVRYFGVSNF KDHQYRMLESYLPEKLVTNQIELSAYELENMLDGTLNLCQEKRIPPMAWSPLAGGKVF TENTDKDRRVRTALESVQGEIGAASLDEVMYAWLYTHPAGIMPIVGSGKRERISAAIN ALSYKLDQDQWFRIFTAVQGYDIP*" gene 466042..466944 /gene="ycsN" /locus_tag="BSU_04150" /old_locus_tag="BSU04150" downshifts 466924 /Source="Nicolas_upshifts" /id="D187" /incds=0 /nref=48 /ntot=206 /MaxReadThrough="3.20352" /MaxDrop="4.57855" /score="1.36962171" /energy="-10.6" /TU="U320" /idTUdmin="U318" /TUdmin="-8" /isTUend="TRUE" promotor_-35 467017..467024 /Source="Nicolas_upshift_promotors" /id="U321" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.779220779220779" /psig="0.995004995004995" /xcortree=1547 /SigmaFactorBS="gtcacaccgcttagtgccaaattaccatttataagTGATTGA TtctttcttgaaagCGTTTTATATTAAAAGGAAAcctctctatatcctctactgcatc t" /listShort="S138, mtlR" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 467038..467057 /Source="Nicolas_upshift_promotors" /id="U321" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.779220779220779" /psig="0.995004995004995" /xcortree=1547 /SigmaFactorBS="gtcacaccgcttagtgccaaattaccatttataagTGATTGA TtctttcttgaaagCGTTTTATATTAAAAGGAAAcctctctatatcctctactgcatc t" /listShort="S138, mtlR" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 467042..467129 /Source="Nicolas_S_feature" /locus_tag="new_467042_467129" /HighExp="S0, Gly, BC, Lbstat, S2, M9-stat, G135, dia5, T0.30H, T2.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.995, 0.946" /TUlongSig="NA" /TUlongPSig="NA" /label="S138" upshifts 467042 /Source="Nicolas_upshifts" /id="U321" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.779220779220779" /psig="0.995004995004995" /xcortree=1547 /SigmaFactorBS="gtcacaccgcttagtgccaaattaccatttataagTGATTGA TtctttcttgaaagCGTTTTATATTAAAAGGAAAcctctctatatcctctactgcatc t" /listShort="S138, mtlR" /GFF_Attribute="listLong" CDS 467130..469214 /gene="mtlR" /locus_tag="BSU_04160" /old_locus_tag="BSU04160" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:12897001, 23279188, 24196428, 26159071" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12897001, 23279188, 24196428, 26159071; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator, PTS-dependent activator" /protein_id="NP_388297.1" /db_xref="EnsemblGenomes-Gn:BSU04160" /db_xref="EnsemblGenomes-Tr:CAB12223" /db_xref="GOA:P96574" /db_xref="InterPro:IPR002178" /db_xref="InterPro:IPR003501" /db_xref="InterPro:IPR007737" /db_xref="InterPro:IPR011608" /db_xref="InterPro:IPR013011" /db_xref="InterPro:IPR013196" /db_xref="InterPro:IPR016152" /db_xref="InterPro:IPR036095" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="InterPro:IPR036634" /db_xref="SubtiList:BG12049" /db_xref="UniProtKB/Swiss-Prot:P96574" /translation="MYMTAREQKLLKHLLLQNRYITVTELAELMQVSTRTIHRELKSI KPLMETVGLTLDKQPGKGLKAVGSPEGKQKLLTDLSYEQHEYSADERKLLILCSLLES QEPVKLYTLAHDLQVTNATVSYDLDELEKWISPFGLTLIRKRGFGIQLIGPENAKRKI VGNLIVNRLDIQMFLEAVELNIKGKTDSSEKMFGVVSKGELLKMERILFQLKEKIAFS LSDSSYIALVVHLTYAIERIKLGETITMEQNELEELMNAKEYSSALEIAGELERAFGV TIPEAEVGYITIHLRSANRKYKTEYKAQEIELETALQTKRLIAFISDKIRMDLTKNYS LYEGLIAHLEPAVSRIKENIEIYNPMKEQIKRDYFLLYMAIEEGVEKYFPGMSFSDDE IAFIVLHFGSALEIKKEEAKVKALVVCSSGIGSSKMLASRLKKELPEIESFDMSSLIE LKGKDVQAYDMIVSTVPIPYENIDYIMVSPLLNEEDANQVKQYIKRKIPLILNKKRSS KEEAQQADVPDMLEAAESIGRYMEVIQDVLRHFTLAQLKTNPDHSMLLLELFQQLKKD GLIRDPEKAAVCLAEREKQGGLGIPGTNMALYHLKNDEIVLPFFKMFDLSTPYEVDGM DGNTLRMTRILVMMAPGSLSAEGSEILSAISSAIIESGESMAGFQEEGGQELYQRLNR IFFTWMKEKNIL*" gene 467130..469214 /gene="mtlR" /locus_tag="BSU_04160" /old_locus_tag="BSU04160" downshifts 469201 /Source="Nicolas_upshifts" /id="D188" /incds=0 /nref=107 /ntot=220 /MaxReadThrough="1.91059" /MaxDrop="5.63565" /score="9.4904968" /energy="-12.4" /TU="NA" /idTUdmin="U321" /TUdmin="-19" /isTUend="TRUE" promotor_-35 469243..469249 /Source="Nicolas_upshift_promotors" /id="U322" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=739 /SigmaFactorBS="acctgcatggcacacgtcaaaaatttggCGTGTGTttttctg tggatgGGGAACAAAATAAGAAAATgtgggactattttatcattcagtattggaataa t" /listShort="S139, ydaB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 469263..469281 /Source="Nicolas_upshift_promotors" /id="U322" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=739 /SigmaFactorBS="acctgcatggcacacgtcaaaaatttggCGTGTGTttttctg tggatgGGGAACAAAATAAGAAAATgtgggactattttatcattcagtattggaataa t" /listShort="S139, ydaB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 469275 /Source="Nicolas_upshifts" /id="U322" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=739 /SigmaFactorBS="acctgcatggcacacgtcaaaaatttggCGTGTGTttttctg tggatgGGGAACAAAATAAGAAAATgtgggactattttatcattcagtattggaataa t" /listShort="S139, ydaB" /GFF_Attribute="listLong" S_feature 469286..469367 /Source="Nicolas_S_feature" /locus_tag="new_469286_469367" /HighExp="Etha, S5, S6, ferm, S8, nit, S7, BT, Salt, Sw" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigB" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S139" promotor_-35 469329..469336 /Source="Nicolas_upshift_promotors" /id="U323" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.69030969030969" /psig="0.992007992007992" /xcortree=1439 /SigmaFactorBS="gaataattccaaaatgaaatAGTTTTACaagttatctttttT GGGTTAAAATGGGTGAGGTaaggaagaaaatctaacaaattattgaagattcaagaga a" /listShort="ydaB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 469350..469369 /Source="Nicolas_upshift_promotors" /id="U323" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.69030969030969" /psig="0.992007992007992" /xcortree=1439 /SigmaFactorBS="gaataattccaaaatgaaatAGTTTTACaagttatctttttT GGGTTAAAATGGGTGAGGTaaggaagaaaatctaacaaattattgaagattcaagaga a" /listShort="ydaB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 469369 /Source="Nicolas_upshifts" /id="U323" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.69030969030969" /psig="0.992007992007992" /xcortree=1439 /SigmaFactorBS="gaataattccaaaatgaaatAGTTTTACaagttatctttttT GGGTTAAAATGGGTGAGGTaaggaagaaaatctaacaaattattgaagattcaagaga a" /listShort="ydaB" /GFF_Attribute="listLong" CDS 469426..470937 /gene="ydaB" /locus_tag="BSU_04170" /old_locus_tag="BSU04170" /EC_number="6.2.1.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative acyl-CoA ligase" /protein_id="NP_388298.2" /db_xref="EnsemblGenomes-Gn:BSU04170" /db_xref="EnsemblGenomes-Tr:CAB12224" /db_xref="GOA:P96575" /db_xref="InterPro:IPR000873" /db_xref="InterPro:IPR020845" /db_xref="InterPro:IPR025110" /db_xref="SubtiList:BG12050" /db_xref="UniProtKB/Swiss-Prot:P96575" /translation="METLQHLILHDMPNSEEIEAVKSGDHTLTYKGYRKRINQLANAM LQKGIQKGDRVALLCKNGHPASTVMFAALEIGAVVVPVSWQLKPYEMTGILKASEPKA MFYGAEFKEILDEVLPELSSLCVTMETGTAYETSAEFEALFAGPDHLPETEMVSPDDT ALLMFTSGTTGNPKRCMITHGGIYRYVKKSNSSIARMKGLRFLACHPIYHTSALICIM LGTFAETTFVFTKDQDPVHMLKVIEEEKIQTVMALPVFYTYLLEAWEKHQTDLSSLVI LMTGGTKVPSSLISRYLDIGIPLAHGYGSTEAWGISTWTPDMGMDKAASAGKPVAGVK VKVEDPLTGEELPQGEIGEIVVHTPFLFKGYEDNPEATAKVLQNGWFRTGDSGYVDED GFIFITGRYKDVIIYGGDNVYPDQVEEVIQQIPGILETAVVGIPDPLYGEKPKAFIVK NGGQRITEEDVIAFCKERLSAYKIPEVEFVNELPKNNLGKVKKDVLRNQAVHS*" gene 469426..470937 /gene="ydaB" /locus_tag="BSU_04170" /old_locus_tag="BSU04170" downshifts 470921 /Source="Nicolas_upshifts" /id="D189" /incds=0 /nref=3 /ntot=55 /MaxReadThrough="0.57376" /MaxDrop="3.70168" /score="9.4904968" /energy="-12.4" /TU="NA" /idTUdmin="U323" /TUdmin=73 /isTUend="FALSE" CDS complement(470957..471502) /gene="ydaC" /locus_tag="BSU_04180" /old_locus_tag="BSU04180" /EC_number="2.1.1.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative methyltransferase" /protein_id="NP_388299.1" /db_xref="EnsemblGenomes-Gn:BSU04180" /db_xref="EnsemblGenomes-Tr:CAB12225" /db_xref="GOA:P96576" /db_xref="InterPro:IPR029063" /db_xref="SubtiList:BG12051" /db_xref="UniProtKB/Swiss-Prot:P96576" /translation="MIAGYIMAAENQTLNQWTINQLGITRGDSILEVGFGPGYCMQQM LKREKDVHLHGIDVSEAMLKLAARRVKPKGVRLIQGSIETFPLPASFYDKVISVNNYT IWNDQTKGIKQIYRALKPGGKAAITMQPREADASPEKTKSFGRQMIADFKAAGFEDID IQFKNIKPELSVCATAKKPAT*" gene complement(470957..471502) /gene="ydaC" /locus_tag="BSU_04180" /old_locus_tag="BSU04180" downshifts complement(470990) /Source="Nicolas_upshifts" /id="D190" /incds=0 /nref=3 /ntot=11 /MaxReadThrough="1.44039" /MaxDrop="3.73662" /score="-9.35066962" /energy="-11.5" /TU="NA" /idTUdmin="U324" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(471569..471587) /Source="Nicolas_upshift_promotors" /id="U324" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=211 /SigmaFactorBS="tggcttggcaccttcgcattgctttatcagaaaaaTGTTTCA catggaacgctgagAGGAAATTAACTCAAAAAGggggttggttgctgaatgattaaca t" /listShort="ydaC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(471583) /Source="Nicolas_upshifts" /id="U324" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=211 /SigmaFactorBS="tggcttggcaccttcgcattgctttatcagaaaaaTGTTTCA catggaacgctgagAGGAAATTAACTCAAAAAGggggttggttgctgaatgattaaca t" /listShort="ydaC" /GFF_Attribute="listLong" promotor_-35 complement(471602..471608) /Source="Nicolas_upshift_promotors" /id="U324" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=211 /SigmaFactorBS="tggcttggcaccttcgcattgctttatcagaaaaaTGTTTCA catggaacgctgagAGGAAATTAACTCAAAAAGggggttggttgctgaatgattaaca t" /listShort="ydaC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 471644..471650 /Source="Nicolas_upshift_promotors" /id="U325" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=191 /SigmaFactorBS="tgaaacatttttctgataaagcaatgcgaaggtgccaagcca TGTTTATccaaagagtgtgtgAGGTACACAACAAATAGACatgaaaacaaaggaggag a" /listShort="ydaD, ydaE, ydaF" /listLong="ydaG, S140" /label="promotor_-35" upshifts 471662 /Source="Nicolas_upshifts" /id="U325" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=191 /SigmaFactorBS="tgaaacatttttctgataaagcaatgcgaaggtgccaagcca TGTTTATccaaagagtgtgtgAGGTACACAACAAATAGACatgaaaacaaaggaggag a" /listShort="ydaD, ydaE, ydaF" /listLong="ydaG, S140" promotor_-10 471665..471683 /Source="Nicolas_upshift_promotors" /id="U325" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=191 /SigmaFactorBS="tgaaacatttttctgataaagcaatgcgaaggtgccaagcca TGTTTATccaaagagtgtgtgAGGTACACAACAAATAGACatgaaaacaaaggaggag a" /listShort="ydaD, ydaE, ydaF" /listLong="ydaG, S140" /label="promotor_-10" CDS 471709..472569 /gene="ydaD" /locus_tag="BSU_04190" /old_locus_tag="BSU04190" /EC_number="1.1.1.-" /function="16.11: Scavenge (Catabolism)" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10220166, 11948145, 15805528, 21520290, 28197687; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative dehydrogenase" /protein_id="NP_388300.1" /db_xref="EnsemblGenomes-Gn:BSU04190" /db_xref="EnsemblGenomes-Tr:CAB12226" /db_xref="GOA:P80873" /db_xref="InterPro:IPR002347" /db_xref="InterPro:IPR020904" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG12052" /db_xref="UniProtKB/Swiss-Prot:P80873" /translation="MANYPKELPAQTQSRQPGIESEMNPSPVYEYEDYKGADKLKGKV ALITGGDSGIGRAVSVAYAKEGADIAIVYKDEHEDAEETKKRVEQEGVKCLLIAGDVG EEEFCNEAVEKTVKELGGLDILVNNAGEQHPKESIKDITSEQLHRTFKTNFYSQFYLT KKAIDYLKPGSAIINTTSINPYVGNPTLIDYTATKGAINAFTRTMAQALVKDGIRVNA VAPGPIWTPLIPATFPEETVAQFGQDTPMGRPGQPVEHVGCYVLLASDESSYMTGQTL HVNGGNFVTT*" gene 471709..472569 /gene="ydaD" /locus_tag="BSU_04190" /old_locus_tag="BSU04190" CDS 472585..473088 /gene="lyxE" /locus_tag="BSU_04200" /old_locus_tag="BSU04200" /EC_number="5.3.1.15" /experiment="publication(s) with functional evidences, PMID:10220166, 15805528, 21421786, 21520290" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10220166, 15805528, 21421786, 21520290; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="D-lyxose ketol isomerase" /protein_id="NP_388301.1" /db_xref="EnsemblGenomes-Gn:BSU04200" /db_xref="EnsemblGenomes-Tr:CAB12227" /db_xref="GOA:P96578" /db_xref="InterPro:IPR011051" /db_xref="InterPro:IPR014710" /db_xref="PDB:2Y0O" /db_xref="SubtiList:BG12053" /db_xref="UniProtKB/Swiss-Prot:P96578" /translation="MGITKEEVNSYYQKAGIVLTDEEVDQIQLMDYGLGKERKVGLQL FVYVNTDRYCSKELVLFPGQTCPEHRHPPVDGQEGKQETFRCRYGKVYLYVEGEKTPL PKVLPPQEDREHYTVWHEIELEPGGQYTIPPNTKHWFQAGEEGAVVTEMSSTSTDKHD IFTDPRI*" gene 472585..473088 /gene="lyxE" /locus_tag="BSU_04200" /old_locus_tag="BSU04200" downshifts 473069 /Source="Nicolas_upshifts" /id="D191" /incds=0 /nref=16 /ntot=26 /MaxReadThrough="4.81615" /MaxDrop="6.21035" /score="29.8440619" /energy="-15.5" /TU="U325" /idTUdmin="U325" /TUdmin="-683" /isTUend="FALSE" promotor_-35 473117..473124 /Source="Nicolas_upshift_promotors" /id="U326" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.95004995004995" /psig=1 /xcortree=2929 /SigmaFactorBS="agaatataaggatgggcttaacagcccatcctttttgTATTG AAAaaaacagaatcatCGCTATAATGGGTAAAAAAGgaaagagggcgaggcaatgttc a" /listShort="ydaF, ydaG, S140" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 473138..473157 /Source="Nicolas_upshift_promotors" /id="U326" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.95004995004995" /psig=1 /xcortree=2929 /SigmaFactorBS="agaatataaggatgggcttaacagcccatcctttttgTATTG AAAaaaacagaatcatCGCTATAATGGGTAAAAAAGgaaagagggcgaggcaatgttc a" /listShort="ydaF, ydaG, S140" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 473140 /Source="Nicolas_upshifts" /id="U326" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.95004995004995" /psig=1 /xcortree=2929 /SigmaFactorBS="agaatataaggatgggcttaacagcccatcctttttgTATTG AAAaaaacagaatcatCGCTATAATGGGTAAAAAAGgaaagagggcgaggcaatgttc a" /listShort="ydaF, ydaG, S140" /GFF_Attribute="listLong" CDS 473174..473725 /gene="ydaF" /locus_tag="BSU_04210" /old_locus_tag="BSU04210" /EC_number="2.3.1.-" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15468321; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative ribosomal protein N-acetyltransferase" /protein_id="NP_388302.1" /db_xref="EnsemblGenomes-Gn:BSU04210" /db_xref="EnsemblGenomes-Tr:CAB12228" /db_xref="GOA:P96579" /db_xref="InterPro:IPR000182" /db_xref="InterPro:IPR016181" /db_xref="PDB:1NSL" /db_xref="SubtiList:BG12054" /db_xref="UniProtKB/Swiss-Prot:P96579" /translation="MFTCKVNEHITIRLLEPKDAERLAELIIQNQQRLGKWLFFAENP SSADTYRETIIPDWRRQYADLNGIEAGLLYDGSLCGMISLHNLDQVNRKAEIGYWIAK EFEGKGIITAACRKLITYAFEELELNRVAICAAVGNEKSRAVPERIGFLEEGKARDGL YVNGMHHDLVYYSLLKREWEGEK*" gene 473174..473725 /gene="ydaF" /locus_tag="BSU_04210" /old_locus_tag="BSU04210" promotor_-35 473740..473746 /Source="Nicolas_upshift_promotors" /id="U327" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=268 /SigmaFactorBS="ggcgaaaaataaagagcacactttctTGTTTAAatcttcccc ggatgTGGAAAAGTAACAGCGGAGacgttaaaaaggagtgattcgagatgaatcagca a" /listShort="ydaG, S140" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 473761..473779 /Source="Nicolas_upshift_promotors" /id="U327" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=268 /SigmaFactorBS="ggcgaaaaataaagagcacactttctTGTTTAAatcttcccc ggatgTGGAAAAGTAACAGCGGAGacgttaaaaaggagtgattcgagatgaatcagca a" /listShort="ydaG, S140" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 473774 /Source="Nicolas_upshifts" /id="U327" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=268 /SigmaFactorBS="ggcgaaaaataaagagcacactttctTGTTTAAatcttcccc ggatgTGGAAAAGTAACAGCGGAGacgttaaaaaggagtgattcgagatgaatcagca a" /listShort="ydaG, S140" /GFF_Attribute="listLong" CDS 473803..474225 /gene="ydaG" /locus_tag="BSU_04220" /old_locus_tag="BSU04220" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10220166; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative general stress protein" /protein_id="NP_388303.1" /db_xref="EnsemblGenomes-Gn:BSU04220" /db_xref="EnsemblGenomes-Tr:CAB12229" /db_xref="GOA:P80238" /db_xref="InterPro:IPR012349" /db_xref="SubtiList:BG19017" /db_xref="UniProtKB/Swiss-Prot:P80238" /translation="MNQQDIKQKVLDVLDHHKVGSLATVQKGKPHSRYMTFFHDGLTI YTPTSKETHKAEEIENNPNVHILLGYDCEGFGDAYVEVAGKAKINNSAELKDKIWSSK LERWFDGKDDPNLVILEIEPEDIRLMNAGEKTPVSLEL*" gene 473803..474225 /gene="ydaG" /locus_tag="BSU_04220" /old_locus_tag="BSU04220" promotor_-35 474230..474238 /Source="Nicolas_upshift_promotors" /id="U328" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.753246753246753" /psig="0.993006993006993" /xcortree=273 /SigmaFactorBS="gtctcactcgaactataaaaaaTTTGTGTTTtcaggggcgaT ATGTTATTATGAATAGCTAgtaagaaaaataagcaaataaaaaagaaagtaaacttct t" /listShort="S140" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 474249..474268 /Source="Nicolas_upshift_promotors" /id="U328" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.753246753246753" /psig="0.993006993006993" /xcortree=273 /SigmaFactorBS="gtctcactcgaactataaaaaaTTTGTGTTTtcaggggcgaT ATGTTATTATGAATAGCTAgtaagaaaaataagcaaataaaaaagaaagtaaacttct t" /listShort="S140" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 474268..474634 /Source="Nicolas_S_feature" /locus_tag="new_474268_474634" /HighExp="Etha, Salt, Cold, Sw, B60, Gly, M9-stat, LPhT, B36, G135" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigB, SigA" /TUshortPSig="0.993, 0.999, 1" /TUlongSig="SigB" /TUlongPSig=1 /label="S140" upshifts 474268 /Source="Nicolas_upshifts" /id="U328" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.753246753246753" /psig="0.993006993006993" /xcortree=273 /SigmaFactorBS="gtctcactcgaactataaaaaaTTTGTGTTTtcaggggcgaT ATGTTATTATGAATAGCTAgtaagaaaaataagcaaataaaaaagaaagtaaacttct t" /listShort="S140" /GFF_Attribute="listLong" promotor_no_box complement(474294..474394) /Source="Nicolas_upshift_promotors" /id="U329" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.725274725274725" /psig="0.010989010989011" /xcortree=121 /SigmaFactorBS="aggggcgatttgttatgaaggaaaagaataagggcagctggt tatgctgcttgggaagcggtaagcttctctctcaaaacagaaaaaagaagtttacttt c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" misc_RNA complement(474329..474597) /gene="bsrC" /locus_tag="BSU_misc_RNA_64" /product="small regulatory RNA" /experiment="publication(s) with functional evidences, PMID:18948176, 23457461" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 18948176, 23457461; Product type n: RNA" gene complement(474329..474597) /gene="bsrC" /locus_tag="BSU_misc_RNA_64" upshifts complement(474334) /Source="Nicolas_upshifts" /id="U329" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.725274725274725" /psig="0.010989010989011" /xcortree=121 /SigmaFactorBS="aggggcgatttgttatgaaggaaaagaataagggcagctggt tatgctgcttgggaagcggtaagcttctctctcaaaacagaaaaaagaagtttacttt c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" downshifts 474591 /Source="Nicolas_upshifts" /id="D192" /incds=0 /nref=124 /ntot=275 /MaxReadThrough="2.67264" /MaxDrop="7.35087" /score="29.9942993" /energy="-12" /TU="NA" /idTUdmin="U326" /TUdmin=3 /isTUend="TRUE" promotor_-35 474671..474680 /Source="Nicolas_upshift_promotors" /id="U330" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1651 /SigmaFactorBS="gacggtttttttattgcaaaaaacacatcgtacTGAAACCTC CttgtcttctttcCAGTCTTATCTCTAGGatgaaattggaggaagaataacgtgcatg t" /listShort="ydaH, lrpC, topB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 474693..474708 /Source="Nicolas_upshift_promotors" /id="U330" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1651 /SigmaFactorBS="gacggtttttttattgcaaaaaacacatcgtacTGAAACCTC CttgtcttctttcCAGTCTTATCTCTAGGatgaaattggaggaagaataacgtgcatg t" /listShort="ydaH, lrpC, topB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 474698 /Source="Nicolas_upshifts" /id="U330" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1651 /SigmaFactorBS="gacggtttttttattgcaaaaaacacatcgtacTGAAACCTC CttgtcttctttcCAGTCTTATCTCTAGGatgaaattggaggaagaataacgtgcatg t" /listShort="ydaH, lrpC, topB" /GFF_Attribute="listLong" CDS 474731..475540 /gene="amj" /locus_tag="BSU_04230" /old_locus_tag="BSU04230" /experiment="publication(s) with functional evidences, PMID:15849754, 16850406, 25918422, 27537185" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15849754, 16850406, 25918422, 27537185; Product type t: transporter" /codon_start=1 /transl_table=11 /product="lipid II flippase" /protein_id="NP_388304.1" /db_xref="EnsemblGenomes-Gn:BSU04230" /db_xref="EnsemblGenomes-Tr:CAB12230" /db_xref="GOA:P96581" /db_xref="InterPro:IPR021260" /db_xref="SubtiList:BG12055" /db_xref="UniProtKB/Swiss-Prot:P96581" /translation="MHVITTQVLFIFCFLLLIHSIETLAYATRLSGARVGFIASALSL FNVMVIVSRMSNMVQQPFTGHLIDDAGKNALAIVGEQFRFLIFGSTVGTILGIILLPS FVALFSRAIIHLAGGGGSVFQVFRKGFSKQGFKNALSYLRLPSISYVKGFHMRLIPKR LFVINMLITSIYTIGVLSALYAGLLAPERSTTAVMASGLINGIATMLLAIFVDPKVSV LADDVAKGKRSYIYLKWTSVTMVTSRVAGTLLAQLMFIPGAYYIAWLTKWF*" gene 474731..475540 /gene="amj" /locus_tag="BSU_04230" /old_locus_tag="BSU04230" downshifts 475521 /Source="Nicolas_upshifts" /id="D193" /incds=0 /nref=5 /ntot=103 /MaxReadThrough="2.92236" /MaxDrop="3.54247" /score="15.7032536" /energy="-14.9" /TU="U330" /idTUdmin="U327" /TUdmin=911 /isTUend="FALSE" CDS complement(475584..475874) /gene="ydzA" /locus_tag="BSU_04240" /old_locus_tag="BSU04240" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388305.1" /db_xref="EnsemblGenomes-Gn:BSU04240" /db_xref="EnsemblGenomes-Tr:CAB12231" /db_xref="GOA:O31485" /db_xref="InterPro:IPR023845" /db_xref="SubtiList:BG12807" /db_xref="UniProtKB/Swiss-Prot:O31485" /translation="MLHTPIGRLRTMGFIEGMSLLILLFIAMPLKYWAGLPLAVTIVG SVHGGLFILYLLVLAYATFSVKWPLKWSAAGFIAAFVPFGNFLYDRGLRNYK*" gene complement(475584..475874) /gene="ydzA" /locus_tag="BSU_04240" /old_locus_tag="BSU04240" downshifts complement(475588) /Source="Nicolas_upshifts" /id="D194" /incds=0 /nref=235 /ntot=260 /MaxReadThrough="1.23465" /MaxDrop="7.74945" /score="10.1798531" /energy="-14.9" /TU="NA" /idTUdmin="U332" /TUdmin=0 /isTUend="TRUE" misc_feature complement(475902..475921) /Source="Nicolas_upshift_promotors" /id="U332" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.653346653346653" /psig="0.967032967032967" /xcortree=1622 /SigmaFactorBS="catgtaaaaatgaatgttttccgaacattttttgaaagctgt catatgcccccccggATTGTTTATAGTATAAAATGaaaacgtgtccacaaggagggcg a" /listShort="ydzA" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" misc_feature 475902..475920 /Source="Nicolas_upshift_promotors" /id="U331" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.343656343656344" /psig="0.691308691308691" /xcortree=306 /SigmaFactorBS="aagtcttccgatcggcgtgtgcagcataaatcgccctccttg tggacacgttttCATTTTATACTATAAACAAtccgggggggcatatgacagctttcaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 475908 /Source="Nicolas_upshifts" /id="U331" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.343656343656344" /psig="0.691308691308691" /xcortree=306 /SigmaFactorBS="aagtcttccgatcggcgtgtgcagcataaatcgccctccttg tggacacgttttCATTTTATACTATAAACAAtccgggggggcatatgacagctttcaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" upshifts complement(475918) /Source="Nicolas_upshifts" /id="U332" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.653346653346653" /psig="0.967032967032967" /xcortree=1622 /SigmaFactorBS="catgtaaaaatgaatgttttccgaacattttttgaaagctgt catatgcccccccggATTGTTTATAGTATAAAATGaaaacgtgtccacaaggagggcg a" /listShort="ydzA" /GFF_Attribute="listLong" promotor_-35 475996..476003 /Source="Nicolas_upshift_promotors" /id="U333" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.765234765234765" /psig="0.999000999001" /xcortree=2269 /SigmaFactorBS="aacattcatttttacatgccttttctagggaactgTACTTGT CatttacaaaaataCCCGAGATAATGTGTACAAAatcaaaaaagaaggatgttgaaat g" /listShort="lrpC, topB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 476017..476036 /Source="Nicolas_upshift_promotors" /id="U333" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.765234765234765" /psig="0.999000999001" /xcortree=2269 /SigmaFactorBS="aacattcatttttacatgccttttctagggaactgTACTTGT CatttacaaaaataCCCGAGATAATGTGTACAAAatcaaaaaagaaggatgttgaaat g" /listShort="lrpC, topB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 476021 /Source="Nicolas_upshifts" /id="U333" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.765234765234765" /psig="0.999000999001" /xcortree=2269 /SigmaFactorBS="aacattcatttttacatgccttttctagggaactgTACTTGT CatttacaaaaataCCCGAGATAATGTGTACAAAatcaaaaaagaaggatgttgaaat g" /listShort="lrpC, topB" /GFF_Attribute="listLong" CDS 476059..476493 /gene="lrpC" /locus_tag="BSU_04250" /old_locus_tag="BSU04250" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:9341680, 10606655, 10913073, 12458218, 16407330, 16528101" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9341680, 10606655, 10913073, 12458218, 16407330, 16528101; Product type r : regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator (Lrp/AsnC family)" /protein_id="NP_388306.1" /db_xref="EnsemblGenomes-Gn:BSU04250" /db_xref="EnsemblGenomes-Tr:CAB12232" /db_xref="GOA:P96582" /db_xref="InterPro:IPR000485" /db_xref="InterPro:IPR011008" /db_xref="InterPro:IPR019887" /db_xref="InterPro:IPR019888" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="PDB:2CFX" /db_xref="SubtiList:BG12056" /db_xref="UniProtKB/Swiss-Prot:P96582" /translation="MKLDQIDLNIIEELKKDSRLSMRELGRKIKLSPPSVTERVRQLE SFGIIKQYTLEVDQKKLGLPVSCIVEATVKNADYERFKSYIQTLPNIEFCYRIAGAAC YMLKINAESLEAVEDFINKTSPYAQTVTHVIFSEIDTKNGRG*" gene 476059..476493 /gene="lrpC" /locus_tag="BSU_04250" /old_locus_tag="BSU04250" promotor_-35 476490..476493 /Source="Nicolas_upshift_promotors" /id="U334" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.685314685314685" /psig="0.988011988011988" /xcortree=2491 /SigmaFactorBS="cgtcactcacgtcattttctcagaaattgacacgaaaaacgg gcgcggTTAGagagtgccgcgcgaagTCTGTTATAATAACAGGATGagcgtgaaagaa a" /listShort="topB, S141, ydaJ" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 476502 /Source="Nicolas_upshifts" /id="U334" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.685314685314685" /psig="0.988011988011988" /xcortree=2491 /SigmaFactorBS="cgtcactcacgtcattttctcagaaattgacacgaaaaacgg gcgcggTTAGagagtgccgcgcgaagTCTGTTATAATAACAGGATGagcgtgaaagaa a" /listShort="topB, S141, ydaJ" /GFF_Attribute="listLong" promotor_-10 476510..476529 /Source="Nicolas_upshift_promotors" /id="U334" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.685314685314685" /psig="0.988011988011988" /xcortree=2491 /SigmaFactorBS="cgtcactcacgtcattttctcagaaattgacacgaaaaacgg gcgcggTTAGagagtgccgcgcgaagTCTGTTATAATAACAGGATGagcgtgaaagaa a" /listShort="topB, S141, ydaJ" /GFF_Attribute="listLong" /label="promotor_-10" CDS 476558..478741 /gene="topB" /locus_tag="BSU_04260" /old_locus_tag="BSU04260" /EC_number="5.99.1.2" /function="16.2: Construct biomass (Anabolism)" /function="16.6: Maintain" /function="16.9: Replicate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 16192570, 16556226; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="DNA topoisomerase III" /protein_id="NP_388307.1" /db_xref="EnsemblGenomes-Gn:BSU04260" /db_xref="EnsemblGenomes-Tr:CAB12233" /db_xref="GOA:P96583" /db_xref="InterPro:IPR000380" /db_xref="InterPro:IPR003601" /db_xref="InterPro:IPR003602" /db_xref="InterPro:IPR005738" /db_xref="InterPro:IPR006171" /db_xref="InterPro:IPR013497" /db_xref="InterPro:IPR013825" /db_xref="InterPro:IPR023405" /db_xref="InterPro:IPR023406" /db_xref="InterPro:IPR034144" /db_xref="SubtiList:BG11979" /db_xref="UniProtKB/Swiss-Prot:P96583" /translation="MSKTVVLAEKPSVGRDLARVLKCHKKGNGYLEGDQYIVTWALGH LVTLADPEGYGKEFQSWRLEDLPIIPEPLKLVVIKKTGKQFNAVKSQLTRKDVNQIVI ATDAGREGELVARWIIEKANVRKPIKRLWISSVTDKAIKEGFQKLRSGKEYENLYHSA VARAEADWIVGINATRALTTKFNAQLSCGRVQTPTLAMIAKREADIQAFTPVPYYGIR AAVDGMTLTWQDKKSKQTRTFNQDVTSRLLKNLQGKQAVVAELKKTAKKSFAPALYDL TELQRDAHKRFGFSAKETLSVLQKLYEQHKLVTYPRTDSRFLSSDIVPTLKDRLEGME VKPYAQYVSQIKKRGIKSHKGYVNDAKVSDHHAIIPTEEPLVLSSLSDKERKLYDLIA KRFLAVLMPAFEYEETKVIAEIGGETFTAKGKTVQSQGWKAVYDMAEEDDEQEDDRDQ TLPALQKGDTLAVRTLTETSGQTKPPARFNEGTLLSAMENPSAFMQGEEKGLVKTLGE TGGLGTVATRADIIEKLFNSFLIEKKGQDIFITSKGKQLLQLVPEDLKSPALTAEWEQ KLSAIAAGKLKSAVFIKDMKAYAHQTVKEIKNSSQTFRHDNITGTACPECGKMMLKVN GKRGTMLVCQDRECGSRKTIARKTNARCPNCHKRMELRGQGEGQTFACVCGHREKLSV FEKRKNKDKARATKRDVSSYMKKQNKDEPINNALAEQLKKLGLDK*" gene 476558..478741 /gene="topB" /locus_tag="BSU_04260" /old_locus_tag="BSU04260" downshifts 478724 /Source="Nicolas_upshifts" /id="D195" /incds=0 /nref=133 /ntot=245 /MaxReadThrough="3.22367" /MaxDrop="6.18597" /score="23.5229393" /energy="-10.4" /TU="U334" /idTUdmin="U333" /TUdmin=0 /isTUend="TRUE" promotor_-35 478790..478796 /Source="Nicolas_upshift_promotors" /id="U335" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=179 /SigmaFactorBS="tgtgcctatcgcacaggttttttattggacttaggtccTGTT TTCttaatgttcaaaaaGGGAAAAAAAAGCTAGCAAtctgcattttttttcttttata g" /listShort="S141, ydaJ, ydaK" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 478811..478829 /Source="Nicolas_upshift_promotors" /id="U335" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=179 /SigmaFactorBS="tgtgcctatcgcacaggttttttattggacttaggtccTGTT TTCttaatgttcaaaaaGGGAAAAAAAAGCTAGCAAtctgcattttttttcttttata g" /listShort="S141, ydaJ, ydaK" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 478812..478943 /Source="Nicolas_S_feature" /locus_tag="new_478812_478943" /HighExp="Etha, Salt, Heat, Cold, H2O2, G180, LPhT, Oxctl, Paraq, G135" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigB, SigA" /TUshortPSig="1, 0.988" /TUlongSig="NA" /TUlongPSig="NA" /label="S141" upshifts 478812 /Source="Nicolas_upshifts" /id="U335" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=179 /SigmaFactorBS="tgtgcctatcgcacaggttttttattggacttaggtccTGTT TTCttaatgttcaaaaaGGGAAAAAAAAGCTAGCAAtctgcattttttttcttttata g" /listShort="S141, ydaJ, ydaK" /GFF_Attribute="listLong" CDS 478944..480032 /gene="epsJ" /locus_tag="BSU_04270" /old_locus_tag="BSU04270" /function="16.13: Shape" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:15661000, 26078454, 27897378" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15661000, 26078454, 27897378; Product type lp: lipoprotein" /codon_start=1 /transl_table=11 /product="glycosyl hydrolase lipoprotein" /protein_id="NP_388308.1" /db_xref="EnsemblGenomes-Gn:BSU04270" /db_xref="EnsemblGenomes-Tr:CAB12234" /db_xref="GOA:O31486" /db_xref="InterPro:IPR008928" /db_xref="SubtiList:BG12057" /db_xref="UniProtKB/Swiss-Prot:O31486" /translation="MRHVLIAVILFFLSIGLSAGCAEAGNKTQNQSATEVNASPLQPA EYFIYHNLMNDKGLIKTDFSDQPSYLSESLGLWMEFLLSKNDAPHFQDQYQHLTDSFL MSNHLVTWKIQNGQASGTNALIDDMRIMLSLDQAAAKWGRSDYAQTARDIGTSLKTYN MNNGFFTDFYDSQAASKDVTLSYVMPDALAVLKKNGIIDEETEQRNANVLYSAPLKNG FLPKTYSSETKEYTYDSEINLIDQLYAAWHLPEGDEKASVLADWIKQEFQKNGKLYGR YSAYTKEPAVQYESPSVYALAVLFLTKQHENSSVIKAIYDRMNDFEIHDPVKSYYGGY MSGTQTHSFDNLLPLLAERKLFNENIIQ*" gene 478944..480032 /gene="epsJ" /locus_tag="BSU_04270" /old_locus_tag="BSU04270" CDS 480013..480864 /gene="epsK" /locus_tag="BSU_04280" /old_locus_tag="BSU04280" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:23893111, 27897378" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 23893111, 27897378; Product type rc: receptor" /codon_start=1 /transl_table=11 /product="cyclic-di-GMP receptor" /protein_id="NP_388309.1" /db_xref="EnsemblGenomes-Gn:BSU04280" /db_xref="EnsemblGenomes-Tr:CAB12235" /db_xref="GOA:P96585" /db_xref="InterPro:IPR000160" /db_xref="InterPro:IPR029787" /db_xref="SubtiList:BG12058" /db_xref="UniProtKB/Swiss-Prot:P96585" /translation="MKISFSESQKLFAYFSGLIAALSLFIYYVSAQQSEGALILCITF GVIAAGIWFGPIYALAVTLIVLFVLGTLMMFFQTGQTSLFPAEEGLRMLVVWGIALLL FSFISGRIHDITAELRRSMTRLQSEIKSYVAVDRVTGFDNKQRMKLELSEEIKRAERY GNSFVFLLLHMHYFKEFKSLYGEKETDRLFQYVGQQIRTSVRETDKKFRPSDERIGIV LTHTPAEHMPAVLTKLKKQLDTYQLENGKYVSLTFHVCYLPYRNDIQTADQFLEELEN EMMMNEL*" gene 480013..480864 /gene="epsK" /locus_tag="BSU_04280" /old_locus_tag="BSU04280" CDS 480875..482584 /gene="ydaL" /locus_tag="BSU_04290" /old_locus_tag="BSU04290" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 27897378; Product type ph :phenotype" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388310.1" /db_xref="EnsemblGenomes-Gn:BSU04290" /db_xref="EnsemblGenomes-Tr:CAB12236" /db_xref="GOA:O31487" /db_xref="InterPro:IPR018763" /db_xref="SubtiList:BG12059" /db_xref="UniProtKB/Swiss-Prot:O31487" /translation="MLCVMMLLFSAIASFPVSAQAKDQDAGILIIYSTLDGKESSQVK MLDLLAGHFTSHVTVKKDSDVEASDFKGKDHVIYYGQTKRKLSQKLLSLISGVKKPVV AIGYNAGQISQFSGLSLARKENVFQVHSRSEKADVSLESGLNVLSVSGLKGTALYTFK ADEGTTHSFIWKTKKGNVYIGLTNLLNDNLIVAKQLREAFGEKAGTTLLYLRLEDISP MSDEKLLLQAGTYLHKRHIPFILAVIPVYLNPETGDKVYLSNQPKMVKVLKKLQSMGG SIIVHGYTHAYRYSETGEGFEFWDAKADQPITSGNAEDPPSILEKEQDFPNEQAYHSY LEPFREKEETYTKQKLTRAIEDLTSSGLYPLAFEAPHYTMSEYGYQIASQYFTSIFGQ VQLSSTTWKTSGAPPFVTAPSMLHGMTLYPETIGFVDTSKQNPLGEMEEHISQMIDFE GGVAGGFYHPYLGMKYLPELVDQMERIPDSEWLDLKKTKQTVKTDKVEIHTSGDGTIQ VKNGVSPIYEFFDHHRQTPLEKALWILSAVVLLFVIMFVSYTFYLRATLKKRIFKERR SLG*" gene 480875..482584 /gene="ydaL" /locus_tag="BSU_04290" /old_locus_tag="BSU04290" CDS 482577..483839 /gene="ydaM" /locus_tag="BSU_04300" /old_locus_tag="BSU04300" /EC_number="2.4.-.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 27897378, 28296273; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative glycosyltransferase associated to biofilm formation" /protein_id="NP_388311.1" /db_xref="EnsemblGenomes-Gn:BSU04300" /db_xref="EnsemblGenomes-Tr:CAB12237" /db_xref="GOA:P96587" /db_xref="InterPro:IPR029044" /db_xref="SubtiList:BG12060" /db_xref="UniProtKB/Swiss-Prot:P96587" /translation="MGNTLFFISLSLIWVMLLYHMFLMQGGFRHYMTFERNIPKWREN MKELPKVSVLIPAHNEEVVIRQTLKAMVNLYYPKDRLEIIVVNDNSSDRTGDIVNEFS EKYDFIKMVITKPPNAGKGKSSALNSGFAESNGDVICVYDADNTPEKMAVYYLVLGLM NDEKAGAVVGKFRVINAAKTLLTRFINIETICFQWMAQGGRWKWFKIATIPGTNFAIR RSIIEKLGGWDDKALAEDTELTIRVYNLGYHIRFFPAAITWEQEPETWKVWWRQRTRW ARGNQYVVLKFLAQFFKLKRKRIIFDLFYFFFTYFLFFFGVIMSNAIFVVNLFYDLHL SVGFLAMILWILAFFLFMTEVMITLSIEKTEMNKQNFFIVFLMYFTYSQAWIVLVIYS LFVEIKHRLFKQEVKWYKTERYNQHKSG*" gene 482577..483839 /gene="ydaM" /locus_tag="BSU_04300" /old_locus_tag="BSU04300" CDS 483845..485956 /gene="ydaN" /locus_tag="BSU_04310" /old_locus_tag="BSU04310" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 27897378; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative regulator of exopolysaccharide synthesis" /protein_id="NP_388312.1" /db_xref="EnsemblGenomes-Gn:BSU04310" /db_xref="EnsemblGenomes-Tr:CAB12238" /db_xref="GOA:O31488" /db_xref="InterPro:IPR008979" /db_xref="InterPro:IPR018513" /db_xref="SubtiList:BG12061" /db_xref="UniProtKB/Swiss-Prot:O31488" /translation="MKQIMIFLTSFMLLAMTGQTALAKDVQVSGSLLGKSSQEQAKQQ VLTSELITLYGSKDSAELTYQIPAGASSGNQQLVIEYEASNLLISPSSLTVVIDDEPV KTLKLDGDSKRKTVKLNLNKSQSAQGYHNVSLKFYGVMKEGVCVRQDTSGNWIKIYPD SRLTLADSSEAKGTSLDHYPYPFAQSGNTAEETAIVIPDNPSSAEIEAAVKTEGYLKT VDSSVSIAYVTESELKKIDKPTIVIGVDKHWNGKVKKLLKQAGLQAKGENLLLAERVL KAEGKQQPVLFAQAASEDALTKKISVMTDQTYTGQLSGDTLSISKLQQTEKKESDKLT LENFGAGDITIGADKTSSAHYFYPASAVLDENQSAKLSLKLKKSETIQASTAENESAS QAAELKVMINGQPHSVRLDELGKEDKNGFYHVTVKVDPKLLQKNRYIDIQFVTTGLKE NNPCNTTDEEKWVFIDKNSTLSYAIKGMSPSADFQEWPLPYAGNQDQTTLIVLPDTVS QSKLEELSLVTESFGNEAQHSYTVKKSSDVTANDAKGRNLIFIGGINQFSLLKEKSSD LLVPQEKNGSFDVSSFEMLNETTKQVVFTQASVWDSRYTMAVFAPSKGDGTAVTKEII SYLNSNDESATVLNETNSQQVFTNHQQLKSETNSSDAEQPTQDHSQKWMYIGVLALIM VVAAVFIWIAVRRKKRKTDTE*" gene 483845..485956 /gene="ydaN" /locus_tag="BSU_04310" /old_locus_tag="BSU04310" downshifts 485940 /Source="Nicolas_upshifts" /id="D196" /incds=0 /nref=18 /ntot=91 /MaxReadThrough="0.438479999999999" /MaxDrop="4.36576" /score="34.1370207" /energy="-9.9" /TU="NA" /idTUdmin="U336" /TUdmin="-4598" /isTUend="FALSE" promotor_-35 486053..486060 /Source="Nicolas_upshift_promotors" /id="U336" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.976023976023976" /psig="0.998001998001998" /xcortree=2720 /SigmaFactorBS="cattttatttttttctctcagccaataagccTCTTTACAacg tgcgggaacggGAGTATGATCTCTTTTAGAAaacaaatcgcttaatctgaaatcagag c" /listShort="NA, S142, ydaO, mutT, ydaP" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 486075..486094 /Source="Nicolas_upshift_promotors" /id="U336" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.976023976023976" /psig="0.998001998001998" /xcortree=2720 /SigmaFactorBS="cattttatttttttctctcagccaataagccTCTTTACAacg tgcgggaacggGAGTATGATCTCTTTTAGAAaacaaatcgcttaatctgaaatcagag c" /listShort="NA, S142, ydaO, mutT, ydaP" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 486082 /Source="Nicolas_upshifts" /id="U336" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.976023976023976" /psig="0.998001998001998" /xcortree=2720 /SigmaFactorBS="cattttatttttttctctcagccaataagccTCTTTACAacg tgcgggaacggGAGTATGATCTCTTTTAGAAaacaaatcgcttaatctgaaatcagag c" /listShort="NA, S142, ydaO, mutT, ydaP" /GFF_Attribute="listLong" misc_RNA 486092..486235 /gene="swaO" /locus_tag="BSU_misc_RNA_7" /product="ATP-, cyclic di-AMP-sensing riboswitch" /experiment="publication(s) with functional evidences, PMID:15096624, 20511502, 23086297, 25086507, 25086509" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15096624, 20511502, 23086297, 25086507, 25086509; Product type n: RNA" /function="16.3: Control" gene 486092..486235 /gene="swaO" /locus_tag="BSU_misc_RNA_7" downshifts 486233 /Source="Nicolas_upshifts" /id="D197" /incds=0 /nref=10 /ntot=52 /MaxReadThrough="7.43698" /MaxDrop="5.83561" /score="30.4392599" /energy="-14.7" /TU="U336" /idTUdmin="U336" /TUdmin="-4305" /isTUend="FALSE" S_feature 486278..486431 /Source="Nicolas_S_feature" /locus_tag="new_486278_486431" /HighExp="LPhT, LBGstat, LPh, T-1.10H, T-0.40H, G135, G180, T-1.40H, G150, C30" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S142" CDS 486432..488255 /gene="kimA" /locus_tag="BSU_04320" /old_locus_tag="BSU04320" /function="16.3: Control" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15096624, 15849754, 16850406, 20511502, 25086509, 26789423, 28420751" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15096624, 15849754, 16850406, 20511502, 25086509, 26789423, 28420751; Product type t: transporter" /codon_start=1 /transl_table=11 /product="cyclic di-AMP controlled transporter of potassium" /protein_id="NP_388313.1" /db_xref="EnsemblGenomes-Gn:BSU04320" /db_xref="EnsemblGenomes-Tr:CAB12239" /db_xref="GOA:P96589" /db_xref="InterPro:IPR002293" /db_xref="SubtiList:BG12062" /db_xref="UniProtKB/Swiss-Prot:P96589" /translation="MYHSIKRFLIGKPLKSQAAGEQKLTKLKALAMLSSDALSSVAYG TEQILIILATISAAAFWYSIPIAVGVLILLLALILSYRQIIYAYPQGGGAYIVSKENL GEKPGLIAGGSLLVDYILTVAVSISAGTDAITSAFPALHDYHVPIAIFLVLVIMILNL RGLSESASILAYPVYLFVVALLVLIAVGLFKLMTGQIDQPAHHTSLGTPVAGITLFLL LKAFSSGCSALTGVEAISNAIPAFKNPPARNAARTLAMMGILLAILFSGITVLAYGYG TAPKPDETVVSQIASETFGRNVFYYVIQGVTSLILVLAANTGFSAFPQLAFNLARDQY MPRMFTVRGDRLGFSNGIIFLGFASIVLIILFGGQTEHLIPLYAVGVFIPFTLSQTGM CMKWIKQKPKGWIGKMLINSCGALISFMVLSILFVTKFNVVWPVLIFMPIVVLLFFAI KNHYTAVGEQLRIVDKEPEEIKGTVVIVPVAGVTTVVQKSIHYAKSLSDQVIAVHVSF DREQEKKFEKRWEELNNGVRLVTLHSSYRSLVHPFDKFLETVEAKAKKEQFSVMVLFP QFITKKRWHTILHNQSAFLLRVRLFWKKDIMVATLPYHFKK*" gene 486432..488255 /gene="kimA" /locus_tag="BSU_04320" /old_locus_tag="BSU04320" downshifts 488247 /Source="Nicolas_upshifts" /id="D198" /incds=0 /nref=50 /ntot=181 /MaxReadThrough="3.55206" /MaxDrop="4.7232" /score="6.00201196" /energy="-13.9" /TU="U336" /idTUdmin="U336" /TUdmin="-2291" /isTUend="FALSE" CDS 488314..488763 /gene="nudT" /locus_tag="BSU_04330" /old_locus_tag="BSU04330" /EC_number="3.6.1.-" /function="16.8: Protect" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15576788, 16513759; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative NTP pyrophosphohydrolase" /protein_id="NP_388314.1" /db_xref="EnsemblGenomes-Gn:BSU04330" /db_xref="EnsemblGenomes-Tr:CAB12240" /db_xref="GOA:P96590" /db_xref="InterPro:IPR000086" /db_xref="InterPro:IPR015797" /db_xref="InterPro:IPR020084" /db_xref="InterPro:IPR020476" /db_xref="SubtiList:BG11956" /db_xref="UniProtKB/Swiss-Prot:P96590" /translation="MYTQGAFVIVLNESQQILLVKRKDVPLWDLPGGRVDPGESAEEA AVREILEETGYNAALSAKIGVYQRPKFQDEQHLFFGSITGGQAMADGTETAGLKWVSP GRLPLFMVPNRKRQINDFKNGAQDVNVTVKDSGLLAAIDLLKRRLGK*" gene 488314..488763 /gene="nudT" /locus_tag="BSU_04330" /old_locus_tag="BSU04330" promotor_-35 488776..488782 /Source="Nicolas_upshift_promotors" /id="U337" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=192 /SigmaFactorBS="tgttgaaaagaagactgggcaagtgattcaggtctccgGGTT TTAaagcctttctcctgTGGTATTGAAAAAAGGAAAaaggaggatacgttatggcaca c" /listShort="ydaP, S145" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 488797..488815 /Source="Nicolas_upshift_promotors" /id="U337" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=192 /SigmaFactorBS="tgttgaaaagaagactgggcaagtgattcaggtctccgGGTT TTAaagcctttctcctgTGGTATTGAAAAAAGGAAAaaggaggatacgttatggcaca c" /listShort="ydaP, S145" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 488798 /Source="Nicolas_upshifts" /id="U337" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=192 /SigmaFactorBS="tgttgaaaagaagactgggcaagtgattcaggtctccgGGTT TTAaagcctttctcctgTGGTATTGAAAAAAGGAAAaaggaggatacgttatggcaca c" /listShort="ydaP, S145" /GFF_Attribute="listLong" CDS 488830..490554 /gene="poxB" /locus_tag="BSU_04340" /old_locus_tag="BSU04340" /EC_number="1.2.3.3" /function="16.6: Maintain" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 16291680, 16513748, 10220166, 23611909; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="acetyl-phosphate generating pyruvate oxidase" /protein_id="NP_388315.1" /db_xref="EnsemblGenomes-Gn:BSU04340" /db_xref="EnsemblGenomes-Tr:CAB12241" /db_xref="GOA:P96591" /db_xref="InterPro:IPR000399" /db_xref="InterPro:IPR011766" /db_xref="InterPro:IPR012000" /db_xref="InterPro:IPR012001" /db_xref="InterPro:IPR029035" /db_xref="InterPro:IPR029061" /db_xref="SubtiList:BG12063" /db_xref="UniProtKB/Swiss-Prot:P96591" /translation="MAHKTAGQAMTELLEQWGVDHVYGIPGDSINEFIEELRHERNQL KFIQTRHEEVAALAAAAEAKLTGKIGVCLSIAGPGAVHLLNGLYDAKADGAPVLAIAG QVSSGEVGRDYFQEIKLEQMFEDVAVFNREVHSAESLPDLLNQAIRTAYSKKGVAVLS VSDDLFAEKIKREPVYTSPVYIEGNLEPKKEQLVTCAQYINNAKKPIILAGQGMKKAK RELLEFADKAAAPIVVTLPAKGVVPDKHPHFLGNLGQIGTKPAYEAMEECDLLIMLGT SFPYRDYLPDDTPAIQLDSDPAKIGKRYPVTAGLVCDSALGLRELTEYIERKEDRRFL NACTEHMQHWWNEIEKDETEATTPLKPQQVVARLQEAAADDAVLSVDVGTVTVWMARH FKMNANQDFIVSSWLATMGCGLPGAIAASLSEPERQAIAVCGDGGFSMVMQDLPTAVK YKLPITVVILNNENLGMIEYEQQVKGNIDYVTKLQNVDYAAFAESCGAKGIKVTKAEE LAPAFHEALHSDQPVVVDVMIGNEPPLPGKITYGQAKGFSKYMLKNFFENQKFEMPSL KKSLKRLF*" gene 488830..490554 /gene="poxB" /locus_tag="BSU_04340" /old_locus_tag="BSU04340" S_feature complement(489666..490525) /Source="Nicolas_S_feature" /locus_tag="new_489666_490525_c" /HighExp="H2O2, Paraq, G180, G150, Oxctl, Diami, dia15, G135, C30, dia5" /AntisenseName="ydaP" /AntisenseCor="-5.0529608261635599E-2" /AntisenseRegPval="-0.4" /CDS_PredictionProba="NA" /TUshortSig="Sig-, SigA, SigA" /TUshortPSig="0.113, 1, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S143" S_feature complement(490527..490638) /Source="Nicolas_S_feature" /locus_tag="new_490527_490638_c" /HighExp="dia5, M0t45, S0, S2, S1, Paraq, GM 120, Lbstat, MG 5, UNK1" /AntisenseName="ydaP" /AntisenseCor="1.7026698118644101E-2" /AntisenseRegPval="-0.1" /CDS_PredictionProba="NA" /TUshortSig="Sig-, SigA, SigA" /TUshortPSig="0.113, 1, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S144" downshifts 490538 /Source="Nicolas_upshifts" /id="D199" /incds=0 /nref=50 /ntot=166 /MaxReadThrough="5.18566" /MaxDrop="6.66568" /score="7.55338633" /energy="-5.3" /TU="U337" /idTUdmin="U336" /TUdmin=0 /isTUend="TRUE" CDS complement(490546..490749) /locus_tag="BSU_04345" /old_locus_tag="BSU04345" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_009513943.1" /translation="MIRISMQGQMHLPLKQDAFVLLSVSSMAKSVPNTYTDHFMNSNM LKIHLFPKKKKKTRALRAPVFLK*" gene complement(490546..490749) /locus_tag="BSU_04345" /old_locus_tag="BSU04345" downshifts complement(490570) /Source="Nicolas_upshifts" /id="D200" /incds=0 /nref=5 /ntot=55 /MaxReadThrough="4.75809" /MaxDrop="8.06239" /score="11.2659249" /energy="-9.1" /TU="U338,U340,U341" /idTUdmin="U338" /TUdmin="-110" /isTUend="FALSE" promotor_no_box complement(490598..490698) /Source="Nicolas_upshift_promotors" /id="U338" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.445554445554446" /psig="0.112887112887113" /xcortree=1496 /SigmaFactorBS="gcatttgtccttttgtctgtttcgagtatggcgaaatcagtt cctaatacatataccgatcattttatgaattcaaacatgctgaaaatacatttgtttc c" /listShort="S144, S143" /GFF_Attribute="listLong" /label="promotor_no_box" promotor_-35 490607..490612 /Source="Nicolas_upshift_promotors" /id="U339" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.914085914085914" /psig="0.914085914085914" /xcortree=1216 /SigmaFactorBS="tgtttttttttttttttttggaaacaaaTGTATTttcagcat gtttgaatTCATAAAATGATCGGTATAtgtattaggaactgatttcgccatactcgaa a" /listShort="S145" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 490629..490647 /Source="Nicolas_upshift_promotors" /id="U339" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.914085914085914" /psig="0.914085914085914" /xcortree=1216 /SigmaFactorBS="tgtttttttttttttttttggaaacaaaTGTATTttcagcat gtttgaatTCATAAAATGATCGGTATAtgtattaggaactgatttcgccatactcgaa a" /listShort="S145" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(490638) /Source="Nicolas_upshifts" /id="U338" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.445554445554446" /psig="0.112887112887113" /xcortree=1496 /SigmaFactorBS="gcatttgtccttttgtctgtttcgagtatggcgaaatcagtt cctaatacatataccgatcattttatgaattcaaacatgctgaaaatacatttgtttc c" /listShort="S144, S143" /GFF_Attribute="listLong" S_feature 490639..490854 /Source="Nicolas_S_feature" /locus_tag="new_490639_490854" /HighExp="Etha, S4, S8, S5, C30, S7, B60, S6, Salt, B36" /AntisenseName="ydzK" /AntisenseCor="3.8830946787094797E-2" /AntisenseRegPval="-0.3" /CDS_PredictionProba="NA" /TUshortSig="SigEF, SigB" /TUshortPSig="0.914, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S145" upshifts 490639 /Source="Nicolas_upshifts" /id="U339" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.914085914085914" /psig="0.914085914085914" /xcortree=1216 /SigmaFactorBS="tgtttttttttttttttttggaaacaaaTGTATTttcagcat gtttgaatTCATAAAATGATCGGTATAtgtattaggaactgatttcgccatactcgaa a" /listShort="S145" /GFF_Attribute="listLong" S_feature complement(490705..490776) /Source="Nicolas_S_feature" /locus_tag="new_490705_490776_c" /HighExp="Sw, B60, dia15, dia5, BI, Etha, BC, M9-stat, C90, M0t45" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="1, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S146" downshifts complement(490748) /Source="Nicolas_upshifts" /id="D201" /incds=0 /nref=21 /ntot=191 /MaxReadThrough="5.39949" /MaxDrop="5.81865" /score="3.34912028" /energy="-20.3" /TU="U340,U341" /idTUdmin="U343" /TUdmin=0 /isTUend="TRUE" CDS complement(490777..491043) /gene="ydzK" /locus_tag="BSU_04359" /old_locus_tag="BSU04359" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative membrane protein" /protein_id="YP_003097680.1" /db_xref="EnsemblGenomes-Gn:BSU04359" /db_xref="EnsemblGenomes-Tr:CAX52551" /db_xref="GOA:C0H3V4" /db_xref="UniProtKB/Swiss-Prot:C0H3V4" /translation="MSVFILFYLWIVPIVIGILCSVAAHKSKGKMRVAPGIAMIVLSI ISLITAFTAGHTNFHVFIGGMFLFGTFLVGSAFPFFFGLKKKEK*" gene complement(490777..491043) /gene="ydzK" /locus_tag="BSU_04359" /old_locus_tag="BSU04359" promotor_-10 complement(491059..491078) /Source="Nicolas_upshift_promotors" /id="U340" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.637362637362637" /psig=1 /xcortree=2076 /SigmaFactorBS="cttctaaagccggtttttatttttccgcaaaagctcattgAT ACCCTTtttgacagaaaTTTGTTATGATAGAAGAAAAatcggagttttgatgatgtca g" /listShort="ydzK, S146, S144, S143" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(491077) /Source="Nicolas_upshifts" /id="U340" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.637362637362637" /psig=1 /xcortree=2076 /SigmaFactorBS="cttctaaagccggtttttatttttccgcaaaagctcattgAT ACCCTTtttgacagaaaTTTGTTATGATAGAAGAAAAatcggagttttgatgatgtca g" /listShort="ydzK, S146, S144, S143" /GFF_Attribute="listLong" promotor_-35 complement(491090..491097) /Source="Nicolas_upshift_promotors" /id="U340" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.637362637362637" /psig=1 /xcortree=2076 /SigmaFactorBS="cttctaaagccggtttttatttttccgcaaaagctcattgAT ACCCTTtttgacagaaaTTTGTTATGATAGAAGAAAAatcggagttttgatgatgtca g" /listShort="ydzK, S146, S144, S143" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(491147..492424) /gene="mntH" /locus_tag="BSU_04360" /old_locus_tag="BSU04360" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:12029030, 12950915, 14580210, 15849754, 16850406, 27573840, 27748968" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12029030, 12950915, 14580210, 15849754, 16850406, 27573840, 27748968; Product type t: transporter" /codon_start=1 /transl_table=11 /product="proton-coupled manganese transporter" /protein_id="NP_388317.1" /db_xref="EnsemblGenomes-Gn:BSU04360" /db_xref="EnsemblGenomes-Tr:CAB12243" /db_xref="GOA:P96593" /db_xref="InterPro:IPR001046" /db_xref="SubtiList:BG12065" /db_xref="UniProtKB/Swiss-Prot:P96593" /translation="MMNKDITAQSPRSKAVQDALDGKIRGFRGLLPFLGPAFIAAIAY IDPGNFATNISAGSKYGYMLLWVILFSNIMALLIQSLSAKLGIATGKNLPEVAREEFP KPVSIGLWIQGELVIIATDLAEFIGAALGLYLLFGIPMLEASIIAAIGSFAILELQRR GYRSLEAGIAGMLFVVVIAFALQTFFAKPDAVSVMKGLFVPAFHGTDSVLLAAGILGA TVMPHAIYLHSALTQRRVVGKTDAERKKIFRFEFIDILIAMLIAGAINASMLIVAAAL FFKNGLFVEDLDVAFQQFGHLVSPMSAALFGIGLLVAGLSSSSVGTLSGDVIMQGFIN YRIPLYVRRFITIIPPILIIASGVNPTTALVLSQVVLSFGIAFALIPLIMFTSNKRIM GSLINAKWITVVSWLIAVLIVALNVFLIVDTFR*" gene complement(491147..492424) /gene="mntH" /locus_tag="BSU_04360" /old_locus_tag="BSU04360" downshifts complement(491166) /Source="Nicolas_upshifts" /id="D202" /incds=0 /nref=170 /ntot=242 /MaxReadThrough="5.8826" /MaxDrop="4.8109" /score="28.3182556" /energy="-9.6" /TU="U341,U343" /idTUdmin="U342" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(492486..492505) /Source="Nicolas_upshift_promotors" /id="U341" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.528471528471528" /psig=1 /xcortree=1525 /SigmaFactorBS="ggaaaaattcagaagtgtattttgaacattttcGGTTGACAa gaaaccgggatGGTCATATGATGTAGATAAAataatttgccttaaggaaactctttgt t" /listShort="mntH, ydzK, S146, S144, S143" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(492498) /Source="Nicolas_upshifts" /id="U341" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.528471528471528" /psig=1 /xcortree=1525 /SigmaFactorBS="ggaaaaattcagaagtgtattttgaacattttcGGTTGACAa gaaaccgggatGGTCATATGATGTAGATAAAataatttgccttaaggaaactctttgt t" /listShort="mntH, ydzK, S146, S144, S143" /GFF_Attribute="listLong" S_feature complement(492500..492577) /Source="Nicolas_S_feature" /locus_tag="new_492500_492577_c" /HighExp="S6, S8, S7, Etha, S5, Salt, BT, Heat, B36, B60" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigK, SigB" /TUshortPSig="1, 0.993" /TUlongSig="NA" /TUlongPSig="NA" /label="S147" promotor_-35 complement(492518..492525) /Source="Nicolas_upshift_promotors" /id="U341" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.528471528471528" /psig=1 /xcortree=1525 /SigmaFactorBS="ggaaaaattcagaagtgtattttgaacattttcGGTTGACAa gaaaccgggatGGTCATATGATGTAGATAAAataatttgccttaaggaaactctttgt t" /listShort="mntH, ydzK, S146, S144, S143" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(492561..492580) /Source="Nicolas_upshift_promotors" /id="U342" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1312 /SigmaFactorBS="aggcatcgtttcgaaatgaaacgatgtctttttaTATGGGAC CTtatcacgaatcccTACATATCATGTTACATAACagggaaaaattcagaagtgtatt t" /listShort="S147, mntH" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(492577) /Source="Nicolas_upshifts" /id="U342" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1312 /SigmaFactorBS="aggcatcgtttcgaaatgaaacgatgtctttttaTATGGGAC CTtatcacgaatcccTACATATCATGTTACATAACagggaaaaattcagaagtgtatt t" /listShort="S147, mntH" /GFF_Attribute="listLong" promotor_-35 complement(492594..492603) /Source="Nicolas_upshift_promotors" /id="U342" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1312 /SigmaFactorBS="aggcatcgtttcgaaatgaaacgatgtctttttaTATGGGAC CTtatcacgaatcccTACATATCATGTTACATAACagggaaaaattcagaagtgtatt t" /listShort="S147, mntH" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(492654..492911) /gene="ydaS" /locus_tag="BSU_04370" /old_locus_tag="BSU04370" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388318.1" /db_xref="EnsemblGenomes-Gn:BSU04370" /db_xref="EnsemblGenomes-Tr:CAB12244" /db_xref="GOA:P96594" /db_xref="InterPro:IPR007341" /db_xref="SubtiList:BG12066" /db_xref="UniProtKB/Swiss-Prot:P96594" /translation="MLSFLVSLVVAIVIGLIGSAIVGNRLPGGIFGSMIAGLIGAWIG HGLLGTWGPSLAGFAIFPAIIGAAIFVFLLGLIFRGLRKEA*" gene complement(492654..492911) /gene="ydaS" /locus_tag="BSU_04370" /old_locus_tag="BSU04370" downshifts complement(492662) /Source="Nicolas_upshifts" /id="D203" /incds=0 /nref=7 /ntot=33 /MaxReadThrough="4.70076" /MaxDrop="4.7213" /score="7.04635537" /energy="-13.4" /TU="U343" /idTUdmin="U342" /TUdmin="-1496" /isTUend="FALSE" downshifts complement(492728) /Source="Nicolas_upshifts" /id="D204" /incds=1 /nref=2 /ntot=69 /MaxReadThrough="7.55545" /MaxDrop="2.8244" /score="7.04635537" /energy="-13.4" /TU="U343" /idTUdmin="U342" /TUdmin="-1562" /isTUend="FALSE" CDS complement(492989..493441) /gene="ydaT" /locus_tag="BSU_04380" /old_locus_tag="BSU04380" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388319.1" /db_xref="EnsemblGenomes-Gn:BSU04380" /db_xref="EnsemblGenomes-Tr:CAB12245" /db_xref="InterPro:IPR018691" /db_xref="SubtiList:BG12067" /db_xref="UniProtKB/Swiss-Prot:P96595" /translation="MPWSMKDYPASLKNLEKPVRKKAIDIANAMIDEGYEEGRAIPIA TSKAKEWAENASTDEIDDFLTHDDETERDADPSSGSGPELMNKAEHVIKHKKGWAVKA EGAKRVSEIKDTKKEAIERAKEIAAHKGTEVIVHLADGSVQRKIKTGS*" gene complement(492989..493441) /gene="ydaT" /locus_tag="BSU_04380" /old_locus_tag="BSU04380" promotor_-10 complement(493460..493478) /Source="Nicolas_upshift_promotors" /id="U343" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp="0.993006993006993" /psig="0.993006993006993" /xcortree=230 /SigmaFactorBS="ttttttctactatatagtataccttcattttttcggatgCGT TTTTatttttcacctgcGGGTACCATTTTTATAAAAggaaaaggagtgatagacatgc c" /listShort="ydaT, ydaS, S147, mntH, ydzK" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(493477) /Source="Nicolas_upshifts" /id="U343" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp="0.993006993006993" /psig="0.993006993006993" /xcortree=230 /SigmaFactorBS="ttttttctactatatagtataccttcattttttcggatgCGT TTTTatttttcacctgcGGGTACCATTTTTATAAAAggaaaaggagtgatagacatgc c" /listShort="ydaT, ydaS, S147, mntH, ydzK" /GFF_Attribute="listLong" promotor_-35 complement(493492..493498) /Source="Nicolas_upshift_promotors" /id="U343" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp="0.993006993006993" /psig="0.993006993006993" /xcortree=230 /SigmaFactorBS="ttttttctactatatagtataccttcattttttcggatgCGT TTTTatttttcacctgcGGGTACCATTTTTATAAAAggaaaaggagtgatagacatgc c" /listShort="ydaT, ydaS, S147, mntH, ydzK" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 493510 /Source="Nicolas_upshifts" /id="U344" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.795204795204795" /psig="0.993006993006993" /xcortree=2375 /SigmaFactorBS="ctccttttccttttataaaaatggtacccgcaggtgaaaaat aaaaacgcatccgaaaaaatgaaggtATACTATATAGTAGAAAAAAcggaagggaagt g" /listShort="ydbA" /GFF_Attribute="listLong" misc_feature 493518..493537 /Source="Nicolas_upshift_promotors" /id="U344" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.795204795204795" /psig="0.993006993006993" /xcortree=2375 /SigmaFactorBS="ctccttttccttttataaaaatggtacccgcaggtgaaaaat aaaaacgcatccgaaaaaatgaaggtATACTATATAGTAGAAAAAAcggaagggaagt g" /listShort="ydbA" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" CDS 493559..494377 /gene="ydbA" /locus_tag="BSU_04390" /old_locus_tag="BSU04390" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388320.1" /db_xref="EnsemblGenomes-Gn:BSU04390" /db_xref="EnsemblGenomes-Tr:CAB12246" /db_xref="InterPro:IPR024787" /db_xref="SubtiList:BG12068" /db_xref="UniProtKB/Swiss-Prot:P96596" /translation="MPTERKEDLHQQLKEIEKWEKDQQKVWFWEKLSRLPFQLLDKLT PEFIQKKIGKLLDEVGSFVQTGGQYLTSEKQIIRMFQKKLPEEIFESLEDIRKAPLPV MDEIAEGMGKNRTNAATVQGATTGVGGVFTLAADIPAVLGLSLKTLQDIAVAYGYDPK EKKERVFIVKCLQLTSADVVGKRSILQELKHYDQDRTYKNVASQIQGWREVVLGYRDT FGWKKLFQIVPVAGMVFGAAANRSTLNDITETGMMLYKKRRILERLKETEREME*" gene 493559..494377 /gene="ydbA" /locus_tag="BSU_04390" /old_locus_tag="BSU04390" downshifts 494368 /Source="Nicolas_upshifts" /id="D205" /incds=0 /nref=118 /ntot=223 /MaxReadThrough="0.66117" /MaxDrop="4.41502" /score="5.38936313" /energy="-9.2" /TU="NA" /idTUdmin="U344" /TUdmin=0 /isTUend="TRUE" promotor_-35 494445..494451 /Source="Nicolas_upshift_promotors" /id="U345" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=219 /SigmaFactorBS="ttttagtggaaacatacccaatgtgttttgttTGTTTAAaag aattgtgagcGGGAATACAACAACCAACAccaattaaaggaggaattcaaaatggcag a" /listShort="gsiB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 494465..494483 /Source="Nicolas_upshift_promotors" /id="U345" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=219 /SigmaFactorBS="ttttagtggaaacatacccaatgtgttttgttTGTTTAAaag aattgtgagcGGGAATACAACAACCAACAccaattaaaggaggaattcaaaatggcag a" /listShort="gsiB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 494473 /Source="Nicolas_upshifts" /id="U345" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=219 /SigmaFactorBS="ttttagtggaaacatacccaatgtgttttgttTGTTTAAaag aattgtgagcGGGAATACAACAACCAACAccaattaaaggaggaattcaaaatggcag a" /listShort="gsiB" /GFF_Attribute="listLong" CDS 494506..494877 /gene="gsiB" /locus_tag="BSU_04400" /old_locus_tag="BSU04400" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:7651322, 9669336, 9763714, 12562800, 21421783" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7651322, 9669336, 9763714, 12562800, 21421783; Product type f: factor" /codon_start=1 /transl_table=11 /product="general stress protein glucose starvation induced" /protein_id="NP_388321.1" /db_xref="EnsemblGenomes-Gn:BSU04400" /db_xref="EnsemblGenomes-Tr:CAB12247" /db_xref="InterPro:IPR019626" /db_xref="SubtiList:BG10826" /db_xref="UniProtKB/Swiss-Prot:P26907" /translation="MADNNKMSREEAGRKGGETTSKNHDKEFYQEIGQKGGEATSKNH DKEFYQEIGEKGGEATSKNHDKEFYQEIGEKGGEATSENHDKEFYQEIGRKGGEATSK NHDKEFYQEIGSKGGNARNND*" gene 494506..494877 /gene="gsiB" /locus_tag="BSU_04400" /old_locus_tag="BSU04400" downshifts complement(494510) /Source="Nicolas_upshifts" /id="D206" /incds=0 /nref=1 /ntot=25 /MaxReadThrough="1.50212" /MaxDrop="4.6705" /score="-7.76438364" /energy="-14.2" /TU="NA" /idTUdmin="U346" /TUdmin=0 /isTUend="TRUE" downshifts 494894 /Source="Nicolas_upshifts" /id="D207" /incds=0 /nref=153 /ntot=219 /MaxReadThrough="3.75525" /MaxDrop="8.3301" /score="39.7307477" /energy="-16.6" /TU="U345" /idTUdmin="U345" /TUdmin="-24" /isTUend="FALSE" upshifts complement(494928) /Source="Nicolas_upshifts" /id="U346" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.738261738261738" /psig="0.00899100899100899" /xcortree=120 /SigmaFactorBS="cttattgtatctcaatagcggcataaattgagaagattccaa aaaaaagcgatcCAGCtgatgtgccggatcgcttttttatttacaggttgtctgcctt t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" misc_feature complement(494931..494934) /Source="Nicolas_upshift_promotors" /id="U346" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.738261738261738" /psig="0.00899100899100899" /xcortree=120 /SigmaFactorBS="cttattgtatctcaatagcggcataaattgagaagattccaa aaaaaagcgatcCAGCtgatgtgccggatcgcttttttatttacaggttgtctgcctt t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" promotor_-35 494956..494963 /Source="Nicolas_upshift_promotors" /id="U347" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.98101898101898" /psig=1 /xcortree=2941 /SigmaFactorBS="ggcacatcagctggatcgcttttttttggaatctTCTCAATT tatgccgctatTGAGATACAATAAGTGAAAAaggggttttcgctaatgtccaagatgc a" /listShort="ydbB, ydbC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 494975..494994 /Source="Nicolas_upshift_promotors" /id="U347" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.98101898101898" /psig=1 /xcortree=2941 /SigmaFactorBS="ggcacatcagctggatcgcttttttttggaatctTCTCAATT tatgccgctatTGAGATACAATAAGTGAAAAaggggttttcgctaatgtccaagatgc a" /listShort="ydbB, ydbC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 494982 /Source="Nicolas_upshifts" /id="U347" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.98101898101898" /psig=1 /xcortree=2941 /SigmaFactorBS="ggcacatcagctggatcgcttttttttggaatctTCTCAATT tatgccgctatTGAGATACAATAAGTGAAAAaggggttttcgctaatgtccaagatgc a" /listShort="ydbB, ydbC" /GFF_Attribute="listLong" CDS 495009..495350 /gene="ydbB" /locus_tag="BSU_04410" /old_locus_tag="BSU04410" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10704478; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative enzyme; cupin family" /protein_id="NP_388322.1" /db_xref="EnsemblGenomes-Gn:BSU04410" /db_xref="EnsemblGenomes-Tr:CAB12248" /db_xref="GOA:P96597" /db_xref="InterPro:IPR011051" /db_xref="InterPro:IPR013096" /db_xref="InterPro:IPR014710" /db_xref="InterPro:IPR019780" /db_xref="SubtiList:BG12069" /db_xref="UniProtKB/Swiss-Prot:P96597" /translation="MSKMQNLLAIANEVKEKHANFSISEVNDHCVRLAVFTGEYDWHH HPDSDELFIVLEGELLIDFKDKETAVLKANDSLLIPKGTVHRTRSYVRTVNLCVEHKQ AETVIIEEQPC*" gene 495009..495350 /gene="ydbB" /locus_tag="BSU_04410" /old_locus_tag="BSU04410" CDS 495344..495703 /gene="ydbC" /locus_tag="BSU_04420" /old_locus_tag="BSU04420" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388323.1" /db_xref="EnsemblGenomes-Gn:BSU04420" /db_xref="EnsemblGenomes-Tr:CAB12249" /db_xref="InterPro:IPR011008" /db_xref="InterPro:IPR032555" /db_xref="SubtiList:BG12070" /db_xref="UniProtKB/Swiss-Prot:P96598" /translation="MLIKKMICEVDAANAEAFAKAQSQWEALSHISGFIKQAGGWRKT IDEPLTAEIISVWENREAYDHFMENEHDSIYEENDQKAVILSIEVTVYEEDKPFVHDL LHNPDIRYEPNWTVLKA*" gene 495344..495703 /gene="ydbC" /locus_tag="BSU_04420" /old_locus_tag="BSU04420" S_feature complement(495406..495699) /Source="Nicolas_S_feature" /locus_tag="new_495406_495699_c" /HighExp="Etha, Salt, M9-stat, C30, Heat, Sw, B60, S8, C90, UNK1" /AntisenseName="ydbC" /AntisenseCor="0.16172626521480701" /AntisenseRegPval="-2.1" /CDS_PredictionProba="NA" /TUshortSig="SigB" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S148" downshifts 495644 /Source="Nicolas_upshifts" /id="D208" /incds=0 /nref=2 /ntot=130 /MaxReadThrough="1.8663" /MaxDrop="2.67081" /score="39.7307477" /energy="-16.6" /TU="NA" /idTUdmin="U347" /TUdmin=0 /isTUend="TRUE" downshifts 495688 /Source="Nicolas_upshifts" /id="D209" /incds=0 /nref=1 /ntot=28 /MaxReadThrough="0.252220000000001" /MaxDrop="2.61185" /score="39.7307477" /energy="-16.6" /TU="NA" /idTUdmin="U347" /TUdmin=44 /isTUend="FALSE" CDS complement(495740..496561) /gene="ydbD" /locus_tag="BSU_04430" /old_locus_tag="BSU04430" /EC_number="1.11.1.6" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15231799; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative manganese-containing catalase" /protein_id="NP_388324.1" /db_xref="EnsemblGenomes-Gn:BSU04430" /db_xref="EnsemblGenomes-Tr:CAB12250" /db_xref="GOA:P80878" /db_xref="InterPro:IPR007760" /db_xref="InterPro:IPR009078" /db_xref="InterPro:IPR012347" /db_xref="InterPro:IPR027407" /db_xref="SubtiList:BG12071" /db_xref="UniProtKB/Swiss-Prot:P80878" /translation="MFKHTKMLQHPAKPDRPDPLFAKKMQEILGGQFGEISVAMQYLF QGWNTRGNEKYKDLLMDTATEELGHVEMIATMIARLLEDAPLDQQEKAAEDPVIGSIL GGMNPHHAIVSGLGAMPESSTGVPWSGGYIVASGNLLADFRANLNAESQGRLQVARLF EMTDDKGVKDMLSFLLARDTMHQNQWLAAIKELEAQEGPVVPGTFPKALEKQEFSHQL INFSEGEVSAEQNWLNEKAPDGEAFEYVKEAKTFGEKPELKPAPPFVHNTLPGRE*" gene complement(495740..496561) /gene="ydbD" /locus_tag="BSU_04430" /old_locus_tag="BSU04430" downshifts complement(495744) /Source="Nicolas_upshifts" /id="D210" /incds=0 /nref=62 /ntot=214 /MaxReadThrough="4.23505" /MaxDrop="6.82771" /score="-6.55917314" /energy="-13.1" /TU="U348" /idTUdmin="U348" /TUdmin="-310" /isTUend="FALSE" promotor_-10 complement(496583..496601) /Source="Nicolas_upshift_promotors" /id="U348" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=193 /SigmaFactorBS="gctgcgaaaagattcatagttcccatctcgatacgctgtttt tCGTTTATctttctatcgatcGGAAATATAAAAAGAGATAaacgaaaaaggagatggg t" /listShort="ydbD, S148" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(496604) /Source="Nicolas_upshifts" /id="U348" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=193 /SigmaFactorBS="gctgcgaaaagattcatagttcccatctcgatacgctgtttt tCGTTTATctttctatcgatcGGAAATATAAAAAGAGATAaacgaaaaaggagatggg t" /listShort="ydbD, S148" /GFF_Attribute="listLong" promotor_-35 complement(496615..496621) /Source="Nicolas_upshift_promotors" /id="U348" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=193 /SigmaFactorBS="gctgcgaaaagattcatagttcccatctcgatacgctgtttt tCGTTTATctttctatcgatcGGAAATATAAAAAGAGATAaacgaaaaaggagatggg t" /listShort="ydbD, S148" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(496646..497698) /gene="dctB" /locus_tag="BSU_04440" /old_locus_tag="BSU04440" /function="16.12: Sense" /experiment="publication(s) with functional evidences, PMID:1809844, 10708364, 11566984, 24375102" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1809844, 10708364, 11566984, 24375102; Product type rc: receptor" /codon_start=1 /transl_table=11 /product="membrane bound C4-dicarboxylate binding sensor protein" /protein_id="NP_388325.1" /db_xref="EnsemblGenomes-Gn:BSU04440" /db_xref="EnsemblGenomes-Tr:CAB12251" /db_xref="GOA:P96600" /db_xref="InterPro:IPR004682" /db_xref="InterPro:IPR018389" /db_xref="SubtiList:BG12072" /db_xref="UniProtKB/Swiss-Prot:P96600" /translation="MKSLLACLALMIAGIATALFIGFHDHTGNKKIVYDDDQEGLQDQ IVFKFSHVVAENTPKGLAANKFADLVNEKSGGKIKIEVFPNGSLYSDIEEIEALQNGD VQFIAPSTSKLGMLSPEWGVLDLPYAFTDYNAVKKGLNGSIGTQLFDSLKKNQLKGLA YWTNGFKQITTNQGPVKTPDDLKGQDLRIMQSDVIEDQFKLLGATPHQESFNSTFQLL ENNVVDGEENTISNIYSKKFYNVQDYLTISSHGYLGYAVMTDEHFWKAQTPETRRILT EAMKETTEWNETYAEQMNKEQLEEIKKNSAIHIYELSDKEKQEWMKRLDPVYRQYEPI FGRELIRELLELRKDS*" gene complement(496646..497698) /gene="dctB" /locus_tag="BSU_04440" /old_locus_tag="BSU04440" promotor_-35 496958..496965 /Source="Nicolas_upshift_promotors" /id="U349" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.882117882117882" /psig=1 /xcortree=1811 /SigmaFactorBS="cagtcatgacagcgtagccgagataaccgtggctgctTATTG TCAaatagtcctgaacaTTATAAAATTTTTTAGAATAgatgtttgaaattgtattttc t" /listShort="S149, dctS" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 496980..497767 /Source="Nicolas_S_feature" /locus_tag="new_496980_497767" /HighExp="LBGstat, Diami, T-0.40H, T0.0H, T0.30H, Heat, UNK1, GM-0.1, MG 90, Fru" /AntisenseName="dctB" /AntisenseCor="0.64205060306327899" /AntisenseRegPval="-31.9" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S149" promotor_-10 496980..496999 /Source="Nicolas_upshift_promotors" /id="U349" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.882117882117882" /psig=1 /xcortree=1811 /SigmaFactorBS="cagtcatgacagcgtagccgagataaccgtggctgctTATTG TCAaatagtcctgaacaTTATAAAATTTTTTAGAATAgatgtttgaaattgtattttc t" /listShort="S149, dctS" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 496981 /Source="Nicolas_upshifts" /id="U349" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.882117882117882" /psig=1 /xcortree=1811 /SigmaFactorBS="cagtcatgacagcgtagccgagataaccgtggctgctTATTG TCAaatagtcctgaacaTTATAAAATTTTTTAGAATAgatgtttgaaattgtattttc t" /listShort="S149, dctS" /GFF_Attribute="listLong" promotor_-10 complement(497711..497730) /Source="Nicolas_upshift_promotors" /id="U350" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.515484515484515" /psig="0.937062937062937" /xcortree=1551 /SigmaFactorBS="tttgttcatcagcttctcctttcagGTCTTTACgaatgtcat agccCCCATTATCCTTAACATAGGggagggcttttcatgaagagtttgcttgcatgtc t" /listShort="dctB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(497716) /Source="Nicolas_upshifts" /id="U350" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.515484515484515" /psig="0.937062937062937" /xcortree=1551 /SigmaFactorBS="tttgttcatcagcttctcctttcagGTCTTTACgaatgtcat agccCCCATTATCCTTAACATAGGggagggcttttcatgaagagtttgcttgcatgtc t" /listShort="dctB" /GFF_Attribute="listLong" promotor_-35 complement(497744..497751) /Source="Nicolas_upshift_promotors" /id="U350" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.515484515484515" /psig="0.937062937062937" /xcortree=1551 /SigmaFactorBS="tttgttcatcagcttctcctttcagGTCTTTACgaatgtcat agccCCCATTATCCTTAACATAGGggagggcttttcatgaagagtttgcttgcatgtc t" /listShort="dctB" /GFF_Attribute="listLong" /label="promotor_-35" CDS 497768..499375 /gene="dctS" /locus_tag="BSU_04450" /old_locus_tag="BSU04450" /function="16.3: Control" /function="16.12: Sense" /experiment="publication(s) with functional evidences, PMID:10627041, 11717295, 1290636, 12949159, 24375102" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10627041, 11717295, 1290636, 12949159, 24375102; Product type rc: receptor" /codon_start=1 /transl_table=11 /product="two-component sensor histidine kinase" /protein_id="NP_388326.1" /db_xref="EnsemblGenomes-Gn:BSU04450" /db_xref="EnsemblGenomes-Tr:CAB12252" /db_xref="GOA:P96601" /db_xref="InterPro:IPR000014" /db_xref="InterPro:IPR003594" /db_xref="InterPro:IPR004358" /db_xref="InterPro:IPR005467" /db_xref="InterPro:IPR016120" /db_xref="InterPro:IPR029151" /db_xref="InterPro:IPR033463" /db_xref="InterPro:IPR035965" /db_xref="InterPro:IPR036890" /db_xref="SubtiList:BG12073" /db_xref="UniProtKB/Swiss-Prot:P96601" /translation="MNKKKLSIRWKITILSYILVIFSFLIGGIVLIGNIQHTEERELK KRLMNTARTVSEMTEVKEALARKKQTEAVRHAVEEIRMINEADYIVVMDMNHIRYTHP VSTSIGKKSEGADEEAAFAEHIYFSEAKGEIGTAVRAFYPVKDQDLNQIGVVLVGKTL PGIADILLHLKRDIAFIVVLTLGFGLAGSFLLARHIKKQMFQLEPHEIVRMYEERTAT FHSMNEGVIAIDNRLVITIFNEKAKQIFEVQGDLIGKVIWEVLKDSRLPEIVERNKAV YNEEIRVSGKVIMSSRIPIVMKKKVIGAVAIFQDRTEAAKMAEELTGVRNFVEALRVQ NHEHMNKLHTIAGLIQLGKSEKALQLAFQASTEQENVTEFLHRSIQNDAAAGLLLSKI RRGRELGIAVHIDENSSLQQFPEHVDQHDIVVLLGNLIENAFGSFETVQSEDKRIDIS IEQTDDILAILIEDNGCGIEPTHMPRLYDKGFTVNKTGGTGYGLYLVKQIIDKGSGTI EVDSHAGQGTSFSIVFPMKGEEAQHGS*" gene 497768..499375 /gene="dctS" /locus_tag="BSU_04450" /old_locus_tag="BSU04450" CDS 499365..500045 /gene="dctR" /locus_tag="BSU_04460" /old_locus_tag="BSU04460" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:10627041, 11717295, 1290636, 12949159" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10627041, 11717295, 1290636, 12949159; Product type r: regulator" /codon_start=1 /transl_table=11 /product="two-component response regulator" /protein_id="NP_388327.1" /db_xref="EnsemblGenomes-Gn:BSU04460" /db_xref="EnsemblGenomes-Tr:CAB12253" /db_xref="GOA:P96602" /db_xref="InterPro:IPR001034" /db_xref="InterPro:IPR001789" /db_xref="InterPro:IPR011006" /db_xref="InterPro:IPR024187" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12074" /db_xref="UniProtKB/Swiss-Prot:P96602" /translation="MARKEWKVLLIEDDPMVQEVNKDFITTVKGVTVCATAGNGEEGM KLIKEEQPDLVILDVYMPKKDGIKTLQEIRKQKLEVDVIVVSAAKDKETISLMLQNGA VDYILKPFKLERMRQALEKYKQYKQKIEANDTLSQEQLDAILNIPQQAVQDLPKGLNH FTMNEVTAFLKQQTASLSAEEVAKALGIARVTARRYLDYLEKTGIIKLDVQYGGVGRP VNRYVLKG*" gene 499365..500045 /gene="dctR" /locus_tag="BSU_04460" /old_locus_tag="BSU04460" S_feature 500046..500120 /Source="Nicolas_S_feature" /locus_tag="new_500046_500120" /HighExp="Sw, Diami, Mt0, G150, BI, Lbstat, M40t45, Lbtran, Mal, Oxctl" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S150" promotor_-35 500087..500094 /Source="Nicolas_upshift_promotors" /id="U351" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.450549450549451" /psig="0.96003996003996" /xcortree=1558 /SigmaFactorBS="accaaaatgtccgttatgatcataaACTTCCCCagactgtat gaaaaCGCTATCATTCTAGTAAGaaagacacaaaaggcgaataggacagggggatgaa g" /listShort="dctP" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 500109..500126 /Source="Nicolas_upshift_promotors" /id="U351" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.450549450549451" /psig="0.96003996003996" /xcortree=1558 /SigmaFactorBS="accaaaatgtccgttatgatcataaACTTCCCCagactgtat gaaaaCGCTATCATTCTAGTAAGaaagacacaaaaggcgaataggacagggggatgaa g" /listShort="dctP" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 500122 /Source="Nicolas_upshifts" /id="U351" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.450549450549451" /psig="0.96003996003996" /xcortree=1558 /SigmaFactorBS="accaaaatgtccgttatgatcataaACTTCCCCagactgtat gaaaaCGCTATCATTCTAGTAAGaaagacacaaaaggcgaataggacagggggatgaa g" /listShort="dctP" /GFF_Attribute="listLong" CDS 500166..501431 /gene="dctP" /locus_tag="BSU_04470" /old_locus_tag="BSU04470" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:10627041, 10708364, 12949159, 15849754, 16850406, 20363944, 22389480" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10627041, 10708364, 12949159, 15849754, 16850406, 20363944, 22389480; Product type t: transporter" /codon_start=1 /transl_table=11 /product="C4-dicarboxylate transport protein" /protein_id="NP_388328.1" /db_xref="EnsemblGenomes-Gn:BSU04470" /db_xref="EnsemblGenomes-Tr:CAB12254" /db_xref="GOA:P96603" /db_xref="InterPro:IPR001991" /db_xref="InterPro:IPR018107" /db_xref="InterPro:IPR023954" /db_xref="InterPro:IPR036458" /db_xref="SubtiList:BG12075" /db_xref="UniProtKB/Swiss-Prot:P96603" /translation="MKLFKNLTVQVITAVIIGVIVGLVWPDVGKEMKPLGDTFINAVK MVIAPIIFFTIVLGIAKMGDMKKVGKVGGKAFIYFEVVTTLALIIGLFVVNIMKPGAG LDYSKLEKGDVSQYTQNGGQGIDWIEFITHIVPSNMVDAFAKGDILQVLFFSILFGVG LAALGEKGKSVIDFFDKVSHVFFKIIGYIMRAAPIGAFGAMAYTIGHFGLDSIKPLAS LMMSVYITMFLFVFVALNIICKLYGFSLWNYLRFIKDELLIVLGTSSSESVLPRMMDK MERYGCSKSVVGLVIPTGYSFNLDGTSIYLSMATVFLAQVFGVDLSIGQQITIILVLM LTSKGAAGVTGSGFIVLASTLSALQVIPLEGLALLLGVDRFMSEGRAIVNLIGNGIAT IIVAKSENEFDEAKSIEAVEGMKKMKTAV*" gene 500166..501431 /gene="dctP" /locus_tag="BSU_04470" /old_locus_tag="BSU04470" downshifts 501424 /Source="Nicolas_upshifts" /id="D211" /incds=0 /nref=175 /ntot=235 /MaxReadThrough="3.99042" /MaxDrop="7.04798" /score="45.0636559" /energy="-12.6" /TU="NA" /idTUdmin="U351" /TUdmin=0 /isTUend="TRUE" downshifts complement(501478) /Source="Nicolas_upshifts" /id="D212" /incds=0 /nref=1 /ntot=9 /MaxReadThrough="0.588190000000001" /MaxDrop="3.06255" /score="19.3433396" /energy="-12.6" /TU="NA" /idTUdmin="U350" /TUdmin="-4818" /isTUend="FALSE" misc_feature 501515..501532 /Source="Nicolas_upshift_promotors" /id="U352" /multdbtbs="-" /comp="M3" /sig="Sig-" /pcomp="0.423576423576424" /psig="0.483516483516484" /xcortree=1457 /SigmaFactorBS="gtttttttaattgtttaagaattattaaggtaaggacagaga cctcagcatttttttgTTATATAATTTACAAATGgatactatattgaatgaaggacgt t" /listShort="ydbI, S151, ydbJ, ydbK, ydbL, S152, ydbM" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 501517 /Source="Nicolas_upshifts" /id="U352" /multdbtbs="-" /comp="M3" /sig="Sig-" /pcomp="0.423576423576424" /psig="0.483516483516484" /xcortree=1457 /SigmaFactorBS="gtttttttaattgtttaagaattattaaggtaaggacagaga cctcagcatttttttgTTATATAATTTACAAATGgatactatattgaatgaaggacgt t" /listShort="ydbI, S151, ydbJ, ydbK, ydbL, S152, ydbM" /GFF_Attribute="listLong" CDS 501579..502631 /gene="ydbI" /locus_tag="BSU_04480" /old_locus_tag="BSU04480" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral inner membrane protein" /protein_id="NP_388329.1" /db_xref="EnsemblGenomes-Gn:BSU04480" /db_xref="EnsemblGenomes-Tr:CAB12255" /db_xref="GOA:P96604" /db_xref="InterPro:IPR002549" /db_xref="SubtiList:BG12076" /db_xref="UniProtKB/Swiss-Prot:P96604" /translation="MAALVKFFQHPGVRRFSIFVVLTGVLYLFKSMINLILLTFIFTF LMDRLELVVRQFVSQFFRVSQRVVITFLYMLLAVLLTVGGFVFYPVVAAQIQQLVKQI KHIAYHPDSIPFFDEITSVFGDINISSYVKEGFNVVYTYLADISTFGLQVVMALILSM FFLFEKKRLSEFMAKFKTSKLRVFYEEIAFFGSKFARTFGKVLEAQFIIALVNCILTF IALWIMHFPQLFGLSIMVFFLGLIPVAGVVISLIPLSIIAYSTGGGMYVLYIVLVIFA IHAIETYFLNPKLMSAKTELPIFFTFTVLIFSEHFFGIWGLIIGIPIFVFLLDILDVT NKEDRSKGPRENSDKK*" gene 501579..502631 /gene="ydbI" /locus_tag="BSU_04480" /old_locus_tag="BSU04480" S_feature 502632..502875 /Source="Nicolas_S_feature" /locus_tag="new_502632_502875" /HighExp="S8, S5, S6, LoTm, S7, S3, LBGstat, LBGexp, Paraq, Sw" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.87223499999999998" /TUshortSig="Sig-" /TUshortPSig="0.484" /TUlongSig="NA" /TUlongPSig="NA" /label="S151" downshifts 502832 /Source="Nicolas_upshifts" /id="D213" /incds=0 /nref=6 /ntot=45 /MaxReadThrough="6.05001" /MaxDrop="3.52626" /score="17.6400305" /energy="-12.4" /TU="U352" /idTUdmin="U351" /TUdmin=1408 /isTUend="FALSE" CDS 502908..503834 /gene="ydbJ" /locus_tag="BSU_04490" /old_locus_tag="BSU04490" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative ABC transporter (ATP-binding subunit)" /protein_id="NP_388330.1" /db_xref="EnsemblGenomes-Gn:BSU04490" /db_xref="EnsemblGenomes-Tr:CAB12256" /db_xref="GOA:P96605" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG12077" /db_xref="UniProtKB/Swiss-Prot:P96605" /translation="MAEPILHIEGLDKKIGSKQILKQISMDVMEGEIIGLLGPNGSGK TTLIRIIVGLLKQNSGSVTISGFQHDTEFEKAMEAVGAIVENPEFYPYLTGWENLKHF ANMHKKIADERLDEVVERVGLTSAIHDKVKTYSLGMRQRLGIAQAILHRPKLLILDEP TNGLDPAGMKDFRDHIKELAEMEGTAVLFATHLLREVEDLCDRVIIIQKGEIKAEVSL QGTDQTTEKAIIEVQPQEKALNWLTGNQYQAESQDGTIVVEVAKENIPELNRSLVGQD LNVFSITPYTQSLEDEFIKATTAHQEEGEELV*" gene 502908..503834 /gene="ydbJ" /locus_tag="BSU_04490" /old_locus_tag="BSU04490" CDS 503854..504594 /gene="ydbK" /locus_tag="BSU_04500" /old_locus_tag="BSU04500" /function="16.1: Circulate" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12486040, 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative efflux ABC-transporter (permease subunit)" /protein_id="NP_388331.1" /db_xref="EnsemblGenomes-Gn:BSU04500" /db_xref="EnsemblGenomes-Tr:CAB12257" /db_xref="GOA:P96606" /db_xref="InterPro:IPR032688" /db_xref="SubtiList:BG12078" /db_xref="UniProtKB/Swiss-Prot:P96606" /translation="MKLFNRKVTLVSLILMAVFQFFMALIIKRIVISAGTDENFIGYL SYTPSLNILLQALTIVIAATIVSMEFDKKTIKFLLIRPVKRQKVFWSKLITVVMVSFY LYLAYYILALLFGLLFFGTSVTAESKTLLVNTLALIGSNWLEAVMMGLFGLLCSSLFR NSAVAVVVSFVVLYGASTLVQLMKLFENKWGSFLLFANTDFTQYRSGETALFSGMTPL FSIGILIIHAIFFIVVGWWCFCKRDVRV*" gene 503854..504594 /gene="ydbK" /locus_tag="BSU_04500" /old_locus_tag="BSU04500" misc_feature 504653..504672 /Source="Nicolas_upshift_promotors" /id="U353" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.612387612387612" /psig="0.99000999000999" /xcortree=1624 /SigmaFactorBS="caaggaatgacatttttgtgaaaaagctcacgtaaatcaata tcatttgatatttTGGTTTATACTAAAGGTACTgacggaggtgtctcgattgaggaac t" /listShort="ydbL, S152, ydbM" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 504658 /Source="Nicolas_upshifts" /id="U353" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.612387612387612" /psig="0.99000999000999" /xcortree=1624 /SigmaFactorBS="caaggaatgacatttttgtgaaaaagctcacgtaaatcaata tcatttgatatttTGGTTTATACTAAAGGTACTgacggaggtgtctcgattgaggaac t" /listShort="ydbL, S152, ydbM" /GFF_Attribute="listLong" CDS 504689..505024 /gene="ydbL" /locus_tag="BSU_04510" /old_locus_tag="BSU04510" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 17928292; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative glyco-prenyl flippase subunit" /protein_id="NP_388332.1" /db_xref="EnsemblGenomes-Gn:BSU04510" /db_xref="EnsemblGenomes-Tr:CAB12258" /db_xref="GOA:P96607" /db_xref="SubtiList:BG12079" /db_xref="UniProtKB/Swiss-Prot:P96607" /translation="MRNFITALPIVLLLGFSFVSFMFQFEHLVYFRLALGLFSLVGLY MIYKMKTGIRYFIIYLYASWIVLAAVTAFEEPIFSSFFFGGLVMTMGYLTYMLIYLGM KQDRDANPV*" gene 504689..505024 /gene="ydbL" /locus_tag="BSU_04510" /old_locus_tag="BSU04510" downshifts 504999 /Source="Nicolas_upshifts" /id="D214" /incds=0 /nref=2 /ntot=99 /MaxReadThrough="5.33473" /MaxDrop="5.39081" /score="25.8152101" /energy="-18.4" /TU="U352,U353" /idTUdmin="U352" /TUdmin="-1177" /isTUend="FALSE" S_feature 505044..505113 /Source="Nicolas_S_feature" /locus_tag="new_505044_505113" /HighExp="ferm, nit, S2, S0, Gly, M0t45, M0t90, Lbstat, M/G, M40t90" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, Sig-" /TUshortPSig="0.99, 0.484" /TUlongSig="NA" /TUlongPSig="NA" /label="S152" promotor_-35 505079..505086 /Source="Nicolas_upshift_promotors" /id="U354" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.572427572427572" /psig="0.973026973026973" /xcortree=1741 /SigmaFactorBS="ttttctatactgggcaaaaggttaaCAGTTGCGgaaaaatgg caggAAATCTATAATACATATTAAatttatcggaattaaaactggggggctgccggat g" /listShort="ydbM" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 505100..505119 /Source="Nicolas_upshift_promotors" /id="U354" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.572427572427572" /psig="0.973026973026973" /xcortree=1741 /SigmaFactorBS="ttttctatactgggcaaaaggttaaCAGTTGCGgaaaaatgg caggAAATCTATAATACATATTAAatttatcggaattaaaactggggggctgccggat g" /listShort="ydbM" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 505114 /Source="Nicolas_upshifts" /id="U354" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.572427572427572" /psig="0.973026973026973" /xcortree=1741 /SigmaFactorBS="ttttctatactgggcaaaaggttaaCAGTTGCGgaaaaatgg caggAAATCTATAATACATATTAAatttatcggaattaaaactggggggctgccggat g" /listShort="ydbM" /GFF_Attribute="listLong" CDS 505152..506297 /gene="ydbM" /locus_tag="BSU_04520" /old_locus_tag="BSU04520" /EC_number="1.3.99.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12193636, 16513748, 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative acyl-CoA dehydrogenase" /protein_id="NP_388333.1" /db_xref="EnsemblGenomes-Gn:BSU04520" /db_xref="EnsemblGenomes-Tr:CAB12259" /db_xref="GOA:P96608" /db_xref="InterPro:IPR006091" /db_xref="InterPro:IPR009100" /db_xref="InterPro:IPR013107" /db_xref="InterPro:IPR013786" /db_xref="InterPro:IPR036250" /db_xref="InterPro:IPR037069" /db_xref="SubtiList:BG12080" /db_xref="UniProtKB/Swiss-Prot:P96608" /translation="MSLFIQNDQQRQWMEKIGRIADEFQQTAAEDDEQGRFPAEKIQK LRDAGYTALTLPASHGGGGISVYDMLLFQERLARGDAPTALSIGWHLSVIGELGEGNS WDEDVFAFVAKEVQNGAVINRAATEAKTGSPTRGGRPGTHAVKKDGKWAVNGRKTFTT MSQALDYFLVTAWIEDKQTTGVFLIHKDDPGLSIEETWDMMAMRATGSHDLVLNEVML DENKLVELLQGPRGAKPNGWLLHIPAIYLGVAQAARDYAVQFASEYSPNSLNGPIKNV PAVQQRTGEMELELLNARHFLFHIAQLYDDPVRRPHLTSELGAAKHIVTNAALSVVDK AMRIVGAKSLERTNPLQRYYRDVRAGLHNPPMDDAVIHKLAAEAFES*" gene 505152..506297 /gene="ydbM" /locus_tag="BSU_04520" /old_locus_tag="BSU04520" downshifts 506279 /Source="Nicolas_upshifts" /id="D215" /incds=0 /nref=13 /ntot=123 /MaxReadThrough="2.90782" /MaxDrop="4.20573" /score="9.48525091" /energy="-7" /TU="NA" /idTUdmin="U353" /TUdmin="-7" /isTUend="TRUE" CDS complement(506322..506501) /gene="fbpB" /locus_tag="BSU_04530" /old_locus_tag="BSU04530" /experiment="publication(s) with functional evidences, PMID:12354229, 16428414, 18697947, 22427629" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12354229, 16428414, 18697947, 22427629; Product type r: regulator" /codon_start=1 /transl_table=11 /product="regulator of iron homeostasis" /protein_id="NP_388334.1" /db_xref="EnsemblGenomes-Gn:BSU04530" /db_xref="EnsemblGenomes-Tr:CAB12260" /db_xref="GOA:P96609" /db_xref="InterPro:IPR025004" /db_xref="SubtiList:BG12081" /db_xref="UniProtKB/Swiss-Prot:P96609" /translation="MNTNMSGGRRSMPKRKVKTYQQLIQENKEAIMGNPKLMNVIYDR IDRKHQKNLQEQNNT*" gene complement(506322..506501) /gene="fbpB" /locus_tag="BSU_04530" /old_locus_tag="BSU04530" downshifts complement(506340) /Source="Nicolas_upshifts" /id="D216" /incds=0 /nref=158 /ntot=207 /MaxReadThrough="2.35872" /MaxDrop="6.38199" /score="26.3317207" /energy="-7" /TU="NA" /idTUdmin="U355" /TUdmin=0 /isTUend="TRUE" CDS complement(506455..506619) /gene="fbpA" /locus_tag="BSU_04536" /old_locus_tag="BSU04536" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:18697947" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 18697947; Product type r: regulator" /codon_start=1 /transl_table=11 /product="regulator of iron homeostasis" /protein_id="YP_009513944.1" /db_xref="EnsemblGenomes-Gn:BSU04536" /db_xref="EnsemblGenomes-Tr:CCQ48594" /db_xref="InterPro:IPR025072" /db_xref="UniProtKB/TrEMBL:L8ECQ9" /translation="MTPQSAEIRKKQLIHLLIQNGIYKKSKRHLYELSLTELESEYKH VRRAPEHAEA*" gene complement(506455..506619) /gene="fbpA" /locus_tag="BSU_04536" /old_locus_tag="BSU04536" S_feature complement(506502..506670) /Source="Nicolas_S_feature" /locus_tag="new_506502_506670_c" /HighExp="B60, nit, B36, Lbexp, GM 15, GM 10, dia0, S2, GM 25, BI" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.99141199999999996" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S153" promotor_-10 complement(506662..506681) /Source="Nicolas_upshift_promotors" /id="U355" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.93906093906094" /psig=1 /xcortree=2111 /SigmaFactorBS="taaattggccaagaataggactcttttcaTCTTTACAggcta ttgcggacaTTGTATACTGAAGTTAATTGataatgattatcaatatcgtttgattgga g" /listShort="S153, ydbN" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(506672) /Source="Nicolas_upshifts" /id="U355" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.93906093906094" /psig=1 /xcortree=2111 /SigmaFactorBS="taaattggccaagaataggactcttttcaTCTTTACAggcta ttgcggacaTTGTATACTGAAGTTAATTGataatgattatcaatatcgtttgattgga g" /listShort="S153, ydbN" /GFF_Attribute="listLong" promotor_-35 complement(506696..506703) /Source="Nicolas_upshift_promotors" /id="U355" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.93906093906094" /psig=1 /xcortree=2111 /SigmaFactorBS="taaattggccaagaataggactcttttcaTCTTTACAggcta ttgcggacaTTGTATACTGAAGTTAATTGataatgattatcaatatcgtttgattgga g" /listShort="S153, ydbN" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 506811..506816 /Source="Nicolas_upshift_promotors" /id="U356" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.933066933066933" /psig="0.933066933066933" /xcortree=1191 /SigmaFactorBS="tgctgtcgaaatattccgcttcattgaacgcacccTGCTATt tttcatgttttgaaCCATACTATGTAATAGAATggaggctggtattcaatggagcgga c" /listShort="ydbO" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 506832..506850 /Source="Nicolas_upshift_promotors" /id="U356" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.933066933066933" /psig="0.933066933066933" /xcortree=1191 /SigmaFactorBS="tgctgtcgaaatattccgcttcattgaacgcacccTGCTATt tttcatgttttgaaCCATACTATGTAATAGAATggaggctggtattcaatggagcgga c" /listShort="ydbO" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 506836 /Source="Nicolas_upshifts" /id="U356" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.933066933066933" /psig="0.933066933066933" /xcortree=1191 /SigmaFactorBS="tgctgtcgaaatattccgcttcattgaacgcacccTGCTATt tttcatgttttgaaCCATACTATGTAATAGAATggaggctggtattcaatggagcgga c" /listShort="ydbO" /GFF_Attribute="listLong" CDS 506866..507738 /gene="ydbO" /locus_tag="BSU_04540" /old_locus_tag="BSU04540" /function="16.8: Protect" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative cation efflux system" /protein_id="NP_388335.1" /db_xref="EnsemblGenomes-Gn:BSU04540" /db_xref="EnsemblGenomes-Tr:CAB12261" /db_xref="GOA:P96610" /db_xref="InterPro:IPR002524" /db_xref="InterPro:IPR027469" /db_xref="InterPro:IPR027470" /db_xref="InterPro:IPR036837" /db_xref="SubtiList:BG12082" /db_xref="UniProtKB/Swiss-Prot:P96610" /translation="MERTENLKKGEKGALLNIFAYVILAVVKLVIGILYHSEALRADG LNNGTDIVASVAVLIGLRISQRPADSDHPYGHYRAETISSLVASFIMMAVGIEVLIGG GKAIAGGTTETPNLIAAWTALGSAVFMYGIYLYNKRLAASIKSSALMAAAKDSRSDAF VSAGAFIGVFSSQLKLPWVDPVTAFIIGIIICKTAWDIFKDASHSLTDGFHLKDLEPY KQTVGRIENVHRLKDVKARYLGSTVHIEMVITVDPKLTVEEGHGVADEVEDKIKHEHD VTHVHVHVEPDDIK*" gene 506866..507738 /gene="ydbO" /locus_tag="BSU_04540" /old_locus_tag="BSU04540" promotor_-35 507102..507111 /Source="Nicolas_upshift_promotors" /id="U357" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1650 /SigmaFactorBS="gctgacagcgatcatccatacggccattatcgggcTGAAACA ATTtcgtctcttgttGCGTCTTTTATTATGAtggcagtcggcattgaagtgttaatcg g" /listShort="S155, S156, ddl, murF, S157, S158, cshA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 507124..507139 /Source="Nicolas_upshift_promotors" /id="U357" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1650 /SigmaFactorBS="gctgacagcgatcatccatacggccattatcgggcTGAAACA ATTtcgtctcttgttGCGTCTTTTATTATGAtggcagtcggcattgaagtgttaatcg g" /listShort="S155, S156, ddl, murF, S157, S158, cshA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 507127 /Source="Nicolas_upshifts" /id="U357" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1650 /SigmaFactorBS="gctgacagcgatcatccatacggccattatcgggcTGAAACA ATTtcgtctcttgttGCGTCTTTTATTATGAtggcagtcggcattgaagtgttaatcg g" /listShort="S155, S156, ddl, murF, S157, S158, cshA" /GFF_Attribute="listLong" S_feature complement(507683..507752) /Source="Nicolas_S_feature" /locus_tag="new_507683_507752_c" /HighExp="LPhT, dia15, dia5, Diami, Etha, Lbtran, LBGtran, LBGstat, Mt0, M0t45" /AntisenseName="ydbO" /AntisenseCor="0.18463882527998399" /AntisenseRegPval="-2.6" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S154" downshifts complement(507726) /Source="Nicolas_upshifts" /id="D217" /incds=0 /nref=145 /ntot=242 /MaxReadThrough="3.07579" /MaxDrop="6.00116" /score="9.69023537" /energy="-12.3" /TU="U359" /idTUdmin="U359" /TUdmin="-198" /isTUend="FALSE" S_feature 507739..508088 /Source="Nicolas_S_feature" /locus_tag="new_507739_508088" /HighExp="Salt, Paraq, G135, ferm, Oxctl, T-0.40H, G150, Lbexp, T3.0H, T2.30H" /AntisenseName="ydbP" /AntisenseCor="-0.27800721625230801" /AntisenseRegPval="-5.4" /CDS_PredictionProba="NA" /TUshortSig="SigWXY" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S155" CDS complement(507753..508073) /gene="ydbP" /locus_tag="BSU_04550" /old_locus_tag="BSU04550" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10482513; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative thioredoxin or thiol-disulfide isomerase" /protein_id="NP_388336.1" /db_xref="EnsemblGenomes-Gn:BSU04550" /db_xref="EnsemblGenomes-Tr:CAB12262" /db_xref="GOA:P96611" /db_xref="InterPro:IPR005746" /db_xref="InterPro:IPR013766" /db_xref="InterPro:IPR036249" /db_xref="SubtiList:BG12083" /db_xref="UniProtKB/Swiss-Prot:P96611" /translation="MKKITTNEQFNELIQSDKEIIVKFYADWCPDCTRMNMFIGDILE EYNQNDWYELNKDELPDLAEKYQVMGIPSLLIFKNGEKTAHLHSANAKTPEEVTEFLS EHIS*" gene complement(507753..508073) /gene="ydbP" /locus_tag="BSU_04550" /old_locus_tag="BSU04550" promotor_-35 508069..508073 /Source="Nicolas_upshift_promotors" /id="U358" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.65034965034965" /psig="0.298701298701299" /xcortree=1554 /SigmaFactorBS="tgaatcagttcattaaattgttcgtttgttgtgatttttTTC ATatgtcacaTCTCCTTTTCAATGCcattttaatataaaataaaaaggaattacatac a" /listShort="S156, ddl, murF, S157, S158, cshA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 508082..508096 /Source="Nicolas_upshift_promotors" /id="U358" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.65034965034965" /psig="0.298701298701299" /xcortree=1554 /SigmaFactorBS="tgaatcagttcattaaattgttcgtttgttgtgatttttTTC ATatgtcacaTCTCCTTTTCAATGCcattttaatataaaataaaaaggaattacatac a" /listShort="S156, ddl, murF, S157, S158, cshA" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 508090..508247 /Source="Nicolas_S_feature" /locus_tag="new_508090_508247" /HighExp="Lbexp, dia0, LBGexp, H2O2, Paraq, Oxctl, G180, Salt, M0t45, Mt0" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="Sig-, SigWXY" /TUshortPSig="0.299, 0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S156" upshifts 508090 /Source="Nicolas_upshifts" /id="U358" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.65034965034965" /psig="0.298701298701299" /xcortree=1554 /SigmaFactorBS="tgaatcagttcattaaattgttcgtttgttgtgatttttTTC ATatgtcacaTCTCCTTTTCAATGCcattttaatataaaataaaaaggaattacatac a" /listShort="S156, ddl, murF, S157, S158, cshA" /GFF_Attribute="listLong" promotor_-10 complement(508094..508113) /Source="Nicolas_upshift_promotors" /id="U359" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.98001998001998" /psig=1 /xcortree=2021 /SigmaFactorBS="gatctaattatttttgggcatgctgatgttgaatgCATTTGT AtgtaattccttttTATTTTATATTAAAATGGCAttgaaaaggagatgtgacatatga a" /listShort="ydbP, S154" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(508109) /Source="Nicolas_upshifts" /id="U359" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.98001998001998" /psig=1 /xcortree=2021 /SigmaFactorBS="gatctaattatttttgggcatgctgatgttgaatgCATTTGT AtgtaattccttttTATTTTATATTAAAATGGCAttgaaaaggagatgtgacatatga a" /listShort="ydbP, S154" /GFF_Attribute="listLong" promotor_-35 complement(508127..508134) /Source="Nicolas_upshift_promotors" /id="U359" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.98001998001998" /psig=1 /xcortree=2021 /SigmaFactorBS="gatctaattatttttgggcatgctgatgttgaatgCATTTGT AtgtaattccttttTATTTTATATTAAAATGGCAttgaaaaggagatgtgacatatga a" /listShort="ydbP, S154" /GFF_Attribute="listLong" /label="promotor_-35" CDS 508248..509312 /gene="ddlA" /locus_tag="BSU_04560" /old_locus_tag="BSU04560" /EC_number="6.3.2.4" /function="16.13: Shape" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 8662022, 12682299, 22407814; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="D-alanyl-D-alanine ligase A" /protein_id="NP_388337.1" /db_xref="EnsemblGenomes-Gn:BSU04560" /db_xref="EnsemblGenomes-Tr:CAB12263" /db_xref="GOA:P96612" /db_xref="InterPro:IPR000291" /db_xref="InterPro:IPR005905" /db_xref="InterPro:IPR011095" /db_xref="InterPro:IPR011127" /db_xref="InterPro:IPR011761" /db_xref="InterPro:IPR013815" /db_xref="InterPro:IPR016185" /db_xref="SubtiList:BG11932" /db_xref="UniProtKB/Swiss-Prot:P96612" /translation="MYGGKSAEHNVSLQTALAVIKALNTEKFDIHPIYITEKGEWVRG ARLTEPVSNVKMLQFEQGGSAFSPAALNQEMFPQEASQQNEAIDVVFPLLHGPNGEDG TIQGMLELLNIPYVGNGVLASSAGMDKVVMKHLFAQVGLAQAKYAAFLKKDWTRSPKE SCEEVEQELGYPCFVKPANLGSSVGISKCRNREELQKAFELAFQYDRKVVVEEGINGR EIEIGVLGNDDPKCSVVGEIAPKTDFYDYKAKYEDGDTDLMIPAIVTDEEYATISDMA IKAFKAIDGSGLVRADFFLTADGEVLINEVNTMPGFTPFSMFPLLWKEAGVEYADLIE QLVELAKERHAEKQLIKHTF*" gene 508248..509312 /gene="ddlA" /locus_tag="BSU_04560" /old_locus_tag="BSU04560" downshifts 509300 /Source="Nicolas_upshifts" /id="D218" /incds=0 /nref=1 /ntot=59 /MaxReadThrough="5.68418" /MaxDrop="2.53103" /score="3.92144467" /energy="-9.6" /TU="U357,U358" /idTUdmin="U356" /TUdmin=2310 /isTUend="FALSE" CDS 509384..510757 /gene="murF" /locus_tag="BSU_04570" /old_locus_tag="BSU04570" /EC_number="6.3.2.10" /function="16.13: Shape" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12682299, 17714441; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate-D-alanyl-D-alanine ligase" /protein_id="NP_388338.1" /db_xref="EnsemblGenomes-Gn:BSU04570" /db_xref="EnsemblGenomes-Tr:CAB12264" /db_xref="GOA:P96613" /db_xref="InterPro:IPR000713" /db_xref="InterPro:IPR004101" /db_xref="InterPro:IPR005863" /db_xref="InterPro:IPR013221" /db_xref="InterPro:IPR035911" /db_xref="InterPro:IPR036565" /db_xref="InterPro:IPR036615" /db_xref="SubtiList:BG12084" /db_xref="UniProtKB/Swiss-Prot:P96613" /translation="MIKRTVKNIAEMVKGTLANPQYEQTVIHGVATDTRKLEQHQLFI PLKGERFDGHSFVEQAFEAGVAAVLWDRSVPNPPENHAVILVDDTLTALQQLAKAYLQ ELGTRVIGVTGSNGKTTTKDMIHAVLGTQYRVHKTGGNFNNHIGLPLTVLAMPENTEI AVLEMGMSAKGEIDLLSRLANPDAAVITNIGESHMQDLGSREGIAEAKLEIINGLKED GVLIYIGDEPLLQNAYSCQTKTYGTGTHNDYQLQDVSQSEEGTHFTIKGIENTFFIPI LGKHNVMNAMAAIAAGAYFGIAPEDAAKGLSGLKVTGMRLELIKTDSGLSIINDAYNA SPTSMKAAIQLTESLEGYGKKMLVLGDMLELGDLEETFHKECGAVISPDKIDRVFTYG KLGAFIAEGALKHFEKDRVSHYTEKKDLLQAVKENASKGDLILFKASRGMKLEEIVKD LIESPLS*" gene 509384..510757 /gene="murF" /locus_tag="BSU_04570" /old_locus_tag="BSU04570" promotor_-35 510788..510794 /Source="Nicolas_upshift_promotors" /id="U360" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=849 /SigmaFactorBS="gaaaatattttgcgaaaaaacgcatattgcATCATAAaataa cctgatatGCAAACACTAATgtatgccggccgaaaattatgtatatctggccggctgc g" /listShort="S157, S158, cshA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 510808..510819 /Source="Nicolas_upshift_promotors" /id="U360" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=849 /SigmaFactorBS="gaaaatattttgcgaaaaaacgcatattgcATCATAAaataa cctgatatGCAAACACTAATgtatgccggccgaaaattatgtatatctggccggctgc g" /listShort="S157, S158, cshA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 510818 /Source="Nicolas_upshifts" /id="U360" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=849 /SigmaFactorBS="gaaaatattttgcgaaaaaacgcatattgcATCATAAaataa cctgatatGCAAACACTAATgtatgccggccgaaaattatgtatatctggccggctgc g" /listShort="S157, S158, cshA" /GFF_Attribute="listLong" misc_feature 510861..510880 /Source="Nicolas_upshift_promotors" /id="U361" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.958041958041958" /psig=1 /xcortree=2138 /SigmaFactorBS="tgatatgcaaacactaatgtatgccggccgaaaattatgtat atctggccggctgcggcTATGATACAATATATATAGGttatttcgcgatacgaacata t" /listShort="S157, S158, cshA" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" S_feature 510862..511036 /Source="Nicolas_S_feature" /locus_tag="new_510862_511036" /HighExp="Cold, ferm, nit, G135, S5, LBGexp, G150, S8, S7, BI" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.76694499999999999" /TUshortSig="SigA, SigGF, Sig-, SigWXY" /TUshortPSig="1, 1, 0.299, 0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S157" upshifts 510862 /Source="Nicolas_upshifts" /id="U361" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.958041958041958" /psig=1 /xcortree=2138 /SigmaFactorBS="tgatatgcaaacactaatgtatgccggccgaaaattatgtat atctggccggctgcggcTATGATACAATATATATAGGttatttcgcgatacgaacata t" /listShort="S157, S158, cshA" /GFF_Attribute="listLong" promotor_-35 511004..511011 /Source="Nicolas_upshift_promotors" /id="U362" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.586413586413586" /psig=1 /xcortree=1884 /SigmaFactorBS="tcgagatgccgatctgcttctcatctTATTGAAAaacaaata gtgtaaTGGTAAGATAAAACTTAAAGtaattcgggctttgtatacggatggatcctgt c" /listShort="S158, cshA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 511026..511045 /Source="Nicolas_upshift_promotors" /id="U362" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.586413586413586" /psig=1 /xcortree=1884 /SigmaFactorBS="tcgagatgccgatctgcttctcatctTATTGAAAaacaaata gtgtaaTGGTAAGATAAAACTTAAAGtaattcgggctttgtatacggatggatcctgt c" /listShort="S158, cshA" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 511038..511105 /Source="Nicolas_S_feature" /locus_tag="new_511038_511105" /HighExp="Cold, G150, T-3.40H, HPh, Salt, LPh, G180, G135, Oxctl, T-5.40H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA, SigGF, Sig-, SigWXY" /TUshortPSig="1, 1, 1, 0.299, 0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S158" upshifts 511038 /Source="Nicolas_upshifts" /id="U362" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.586413586413586" /psig=1 /xcortree=1884 /SigmaFactorBS="tcgagatgccgatctgcttctcatctTATTGAAAaacaaata gtgtaaTGGTAAGATAAAACTTAAAGtaattcgggctttgtatacggatggatcctgt c" /listShort="S158, cshA" /GFF_Attribute="listLong" CDS 511157..512641 /gene="cshA" /locus_tag="BSU_04580" /old_locus_tag="BSU04580" /EC_number="3.6.1.-" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:16352840, 27965645" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16352840, 27965645; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="ATP-dependent RNA helicase; cold shock" /protein_id="NP_388339.2" /db_xref="EnsemblGenomes-Gn:BSU04580" /db_xref="EnsemblGenomes-Tr:CAB12265" /db_xref="GOA:P96614" /db_xref="InterPro:IPR000629" /db_xref="InterPro:IPR001650" /db_xref="InterPro:IPR011545" /db_xref="InterPro:IPR014001" /db_xref="InterPro:IPR014014" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR030880" /db_xref="SubtiList:BG12085" /db_xref="UniProtKB/Swiss-Prot:P96614" /translation="MTITFQDFNLSSDLMKAINRMGFEEATPIQAQTIPLGLSNKDVI GQAQTGTGKTAAFGIPLVEKINPESPNIQAIVIAPTRELAIQVSEELYKIGQDKRAKV LPIYGGQDIGRQIRALKKNPNIIVGTPGRLLDHINRRTIRLNNVNTVVMDEADEMLNM GFIDDIESILSNVPSEHQTLLFSATMPAPIKRIAERFMTEPEHVKVKAKEMTVSNIQQ FYLEVQERKKFDTLTRLLDIQSPELAIVFGRTKRRVDELAEALNLRGYAAEGIHGDLT QAKRMVALRKFKEGAIEVLVATDVAARGLDISGVTHVYNFDVPQDPESYVHRIGRTGR AGKTGMAMTFITPREKSMLRAIEQTTKRKMDRMKEPTLDEALEGQQQVTVERLRTTIS ENNLNFYMTAAAELLEDHDAVTVVAAAIKMATKEPDDTPVRLTDEAPMVSKRYKNQRS SKRRDGQGGGYRGGKGKSNNRSSYDKKRSNDRRSSGDRRQKKSY*" gene 511157..512641 /gene="cshA" /locus_tag="BSU_04580" /old_locus_tag="BSU04580" downshifts 512634 /Source="Nicolas_upshifts" /id="D219" /incds=0 /nref=309 /ntot=313 /MaxReadThrough="1.91428" /MaxDrop="8.13079" /score="26.104757" /energy="-13.1" /TU="NA" /idTUdmin="U358" /TUdmin="-10" /isTUend="TRUE" S_feature 512754..512813 /Source="Nicolas_S_feature" /locus_tag="new_512754_512813" /HighExp="Etha, LBGexp, G180, Cold, Lbtran, dia0, G150, BMM, UNK1, MG-0.1" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigWXY" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S159" promotor_-35 512754..512763 /Source="Nicolas_upshift_promotors" /id="U363" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1673 /SigmaFactorBS="tttgttattcagcaaactttcagctgacggaagccatttttc tctgtatgcttaagaaTGAAACCTTTctgtaaaagagACGTATAAATAACGACgaaaa a" /listShort="S159, ydbS, ydbT, S160, S161, acpS, S162, ydcC" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 512756 /Source="Nicolas_upshifts" /id="U363" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1673 /SigmaFactorBS="tttgttattcagcaaactttcagctgacggaagccatttttc tctgtatgcttaagaaTGAAACCTTTctgtaaaagagACGTATAAATAACGACgaaaa a" /listShort="S159, ydbS, ydbT, S160, S161, acpS, S162, ydcC" /GFF_Attribute="listLong" promotor_-10 512775..512790 /Source="Nicolas_upshift_promotors" /id="U363" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1673 /SigmaFactorBS="tttgttattcagcaaactttcagctgacggaagccatttttc tctgtatgcttaagaaTGAAACCTTTctgtaaaagagACGTATAAATAACGACgaaaa a" /listShort="S159, ydbS, ydbT, S160, S161, acpS, S162, ydcC" /GFF_Attribute="listLong" /label="promotor_-10" CDS 512814..513293 /gene="ydbS" /locus_tag="BSU_04590" /old_locus_tag="BSU04590" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:16629676" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16629676; Product type ph: phenotype" /codon_start=1 /transl_table=11 /product="resistance to heterologous antibiotics" /protein_id="NP_388340.1" /db_xref="EnsemblGenomes-Gn:BSU04590" /db_xref="EnsemblGenomes-Tr:CAB12266" /db_xref="GOA:P96615" /db_xref="InterPro:IPR005182" /db_xref="SubtiList:BG12086" /db_xref="UniProtKB/Swiss-Prot:P96615" /translation="MREQPKNQISPDGLKVWRLQEIIISAVCLLIVIAVAVLSYYFHW PYWISGVLGAVWLLGSIVTVFIIPKVRHKVWRYEVHEHEIDIQSGIFVVTRVIVPMVR VQHVDTSQGPLLKKYNLATVKISTAATVHSIPALEMEEADRLRDSISRLARVTDDDV* " gene 512814..513293 /gene="ydbS" /locus_tag="BSU_04590" /old_locus_tag="BSU04590" CDS 513283..514764 /gene="ydbT" /locus_tag="BSU_04600" /old_locus_tag="BSU04600" /experiment="publication(s) with functional evidences, PMID:16629676" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16629676; Product type ph: phenotype" /codon_start=1 /transl_table=11 /product="resistance to heterologous antibiotics" /protein_id="NP_388341.1" /db_xref="EnsemblGenomes-Gn:BSU04600" /db_xref="EnsemblGenomes-Tr:CAB12267" /db_xref="GOA:P96616" /db_xref="InterPro:IPR005182" /db_xref="InterPro:IPR014529" /db_xref="SubtiList:BG12087" /db_xref="UniProtKB/Swiss-Prot:P96616" /translation="MMSEPKRLHPVAVILNLCHTIIQTIKNIILPFFFVYIVNSNHTV RFYGAIALGVLFIWLVAASIIKWRRFTYRIEDDEFRIEEGLFVTKKRYISIDRIQTMN TSAGLVQQIFKLVKLQIETAGGGKEAEAVLSAISVEEAERIKEAVFKKKAQRRENELD EERLEAEEELDPSVEVQEHYRMNAKELLMAASTSGGIGVIISAVFALISQLDEVLPMD WLFDKFSFLQHASIGIYAVLIFIGLFIAWIFSIAGMMFRYANFQIIKKEQELVISRGI IEKHQVTIPLRKIQAIKIKENIIRQLFGFVTVSIVSAGGGDREKEEGALTILFPMIHK KKLPHMLRTFTPEYTLEENCRRLPRRALKRYLFRSVIFSLFLIIPLCIFFQPWGYLSV ILLPIELLFGYLAYKEAAWTINGDRLQLTSRFIGRTTAIVLKKRMQVCKFSQSYFQKK GRLYTISTSVKSSSHMEELTVRDVGEEDAAFILKWYSYEKADG*" gene 513283..514764 /gene="ydbT" /locus_tag="BSU_04600" /old_locus_tag="BSU04600" downshifts 514734 /Source="Nicolas_upshifts" /id="D220" /incds=0 /nref=6 /ntot=162 /MaxReadThrough="4.90913" /MaxDrop="3.0931" /score="48.2239319" /energy="-17.1" /TU="U363" /idTUdmin="U364" /TUdmin="-638" /isTUend="FALSE" S_feature 514779..515106 /Source="Nicolas_S_feature" /locus_tag="new_514779_515106" /HighExp="Salt, T0.30H, G135, T1.0H, T1.30H, G150, G180, Oxctl, T-0.40H, aero" /AntisenseName="ydcA" /AntisenseCor="-0.25636523135066602" /AntisenseRegPval="-4.7" /CDS_PredictionProba="NA" /TUshortSig="SigWXY" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S160" downshifts complement(514788) /Source="Nicolas_upshifts" /id="D221" /incds=0 /nref=1 /ntot=66 /MaxReadThrough="0.258529999999999" /MaxDrop="3.15455" /score="-3.74867023" /energy="-8.8" /TU="NA" /idTUdmin="U365" /TUdmin=220 /isTUend="FALSE" CDS complement(515016..515615) /gene="ydcA" /locus_tag="BSU_04610" /old_locus_tag="BSU04610" /EC_number="3.4.21.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15616571, 15849754, 16850406; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative rhomboid protease" /protein_id="NP_388342.1" /db_xref="EnsemblGenomes-Gn:BSU04610" /db_xref="EnsemblGenomes-Tr:CAB12268" /db_xref="GOA:P96617" /db_xref="InterPro:IPR022764" /db_xref="InterPro:IPR035952" /db_xref="SubtiList:BG12088" /db_xref="UniProtKB/Swiss-Prot:P96617" /translation="MFIRTENFQTFIRLYPVVTFILALQAVLWLFFSLPAHSVVLWRD TVTGYNLGVANGEWWRLITPILLHAGFTHLLFNSMSIFLFAPALERMLGKARFLLVYA GSGIIGNIGTYVTEPLDYVHVGASGAIFGLFGVYLFMVLFRNELIGQEHSKMIITLLA FAVLMSFINSNINMMAHLFGLCGGFLLSFLCVQKKERRY*" gene complement(515016..515615) /gene="ydcA" /locus_tag="BSU_04610" /old_locus_tag="BSU04610" promotor_-35 515076..515081 /Source="Nicolas_upshift_promotors" /id="U364" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.988011988011988" /psig=1 /xcortree=2751 /SigmaFactorBS="aaaacgaaagaagaaacccgccgcatagTCCAAAcaaatggg ccatCATGTTAATATTGGAGTTGAtaaacgacatgagaacggcaaatgcgagcagtgt g" /listShort="S161" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 515094..515113 /Source="Nicolas_upshift_promotors" /id="U364" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.988011988011988" /psig=1 /xcortree=2751 /SigmaFactorBS="aaaacgaaagaagaaacccgccgcatagTCCAAAcaaatggg ccatCATGTTAATATTGGAGTTGAtaaacgacatgagaacggcaaatgcgagcagtgt g" /listShort="S161" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 515108..515709 /Source="Nicolas_S_feature" /locus_tag="new_515108_515709" /HighExp="Salt, G135, G150, T0.30H, G180, T1.0H, T1.30H, H2O2, Paraq, Oxctl" /AntisenseName="ydcA" /AntisenseCor="-0.11975373672841701" /AntisenseRegPval="-1.3" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigWXY" /TUshortPSig="1, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S161" upshifts 515108 /Source="Nicolas_upshifts" /id="U364" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.988011988011988" /psig=1 /xcortree=2751 /SigmaFactorBS="aaaacgaaagaagaaacccgccgcatagTCCAAAcaaatggg ccatCATGTTAATATTGGAGTTGAtaaacgacatgagaacggcaaatgcgagcagtgt g" /listShort="S161" /GFF_Attribute="listLong" misc_feature complement(515639..515658) /Source="Nicolas_upshift_promotors" /id="U365" /multdbtbs="SigE" /comp="M4" /sig="SigA" /pcomp="0.879120879120879" /psig="0.907092907092907" /xcortree=1402 /SigmaFactorBS="tgtatgataacctcctttgcgtacgtactatttaaatggttt gtctcataaaCGTGTTACTATAGATATACCaaaatgaagaaaaggggctcggaatgtt t" /listShort="ydcA" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(515650) /Source="Nicolas_upshifts" /id="U365" /multdbtbs="SigE" /comp="M4" /sig="SigA" /pcomp="0.879120879120879" /psig="0.907092907092907" /xcortree=1402 /SigmaFactorBS="tgtatgataacctcctttgcgtacgtactatttaaatggttt gtctcataaaCGTGTTACTATAGATATACCaaaatgaagaaaaggggctcggaatgtt t" /listShort="ydcA" /GFF_Attribute="listLong" CDS 515710..516075 /gene="acpS" /locus_tag="BSU_04620" /old_locus_tag="BSU04620" /EC_number="2.7.8.7" /function="16.13: Shape" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 11489886, 11525165, 11867633, 12682299, 12926246, 15955059, 16597923; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="holo-acyl carrier protein synthase (phosphopantetheinyl transferase)" /protein_id="NP_388343.1" /db_xref="EnsemblGenomes-Gn:BSU04620" /db_xref="EnsemblGenomes-Tr:CAB12269" /db_xref="GOA:P96618" /db_xref="InterPro:IPR002582" /db_xref="InterPro:IPR004568" /db_xref="InterPro:IPR008278" /db_xref="InterPro:IPR037143" /db_xref="PDB:1F7L" /db_xref="PDB:1F7T" /db_xref="PDB:1F80" /db_xref="SubtiList:BG12089" /db_xref="UniProtKB/Swiss-Prot:P96618" /translation="MIYGIGLDITELKRIASMAGRQKRFAERILTRSELDQYYELSEK RKNEFLAGRFAAKEAFSKAFGTGIGRQLSFQDIEIRKDQNGKPYIICTKLSQAAVHVS ITHTKEYAAAQVVIERLSS*" gene 515710..516075 /gene="acpS" /locus_tag="BSU_04620" /old_locus_tag="BSU04620" promotor_-35 516078..516083 /Source="Nicolas_upshift_promotors" /id="U366" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=976 /SigmaFactorBS="tgccgcgcaggttgtgattgaaaggttgtcaagctagtcTGC ATAttagggaaaccccacTCATATATTTGATAGTGCAttaagggagacaagttgtttg a" /listShort="S162, ydcC, alrA" /listLong="endB, ndoA" /label="promotor_-35" S_feature 516099..516240 /Source="Nicolas_S_feature" /locus_tag="new_516099_516240" /HighExp="S3, S4, BT, LoTm, S5, T5.0H, M9-stat, S7, T4.0H, T3.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigEF, SigWXY" /TUshortPSig="1, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S162" promotor_-10 516099..516117 /Source="Nicolas_upshift_promotors" /id="U366" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=976 /SigmaFactorBS="tgccgcgcaggttgtgattgaaaggttgtcaagctagtcTGC ATAttagggaaaccccacTCATATATTTGATAGTGCAttaagggagacaagttgtttg a" /listShort="S162, ydcC, alrA" /listLong="endB, ndoA" /label="promotor_-10" upshifts 516099 /Source="Nicolas_upshifts" /id="U366" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=976 /SigmaFactorBS="tgccgcgcaggttgtgattgaaaggttgtcaagctagtcTGC ATAttagggaaaccccacTCATATATTTGATAGTGCAttaagggagacaagttgtttg a" /listShort="S162, ydcC, alrA" /listLong="endB, ndoA" CDS 516241..517257 /gene="ydcC" /locus_tag="BSU_04630" /old_locus_tag="BSU04630" /function="16.5: Explore" /function="16.13: Shape" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 14523133; Product type lp: lipoprotein" /codon_start=1 /transl_table=11 /product="putative lipoprotein" /protein_id="NP_388344.2" /db_xref="EnsemblGenomes-Gn:BSU04630" /db_xref="EnsemblGenomes-Tr:CAB12270" /db_xref="GOA:P96619" /db_xref="InterPro:IPR029046" /db_xref="SubtiList:BG12090" /db_xref="UniProtKB/Swiss-Prot:P96619" /translation="MKKVRKSFVLLLTGLLAVLILSACGQKTQQDIVAGLDEKAKEYT SYKAKAKMTIETGSEPQVYNVEIWHKKPSLYRVYLENPKKDQNQVILRNENGVFVLTP SLNKSFRFQSDWPNNSSQVYLFESLVKDVQNDSDAVFTAKEKKYVFETKTNYQHNKML PTQEITFNKKDMSPSSVKVMDTDRKVMVKVEFSSFEFNKQFDKESFDEKKNMTLSQMD VATSAKPSDTFAVKTPLELPLGVKLLEEKDISTEDGKRIIMTYGGEKSFTLIQEKAQI AKASSSVTLNGEPVNLGYTIGALSDASLSWTYDGVDYLLSSKDLSKEEMVTVAKSMQG QSSK*" gene 516241..517257 /gene="ydcC" /locus_tag="BSU_04630" /old_locus_tag="BSU04630" downshifts 517242 /Source="Nicolas_upshifts" /id="D222" /incds=0 /nref=193 /ntot=256 /MaxReadThrough="3.39815" /MaxDrop="6.13946" /score="22.0391647" /energy="-9.5" /TU="U366" /idTUdmin="U363" /TUdmin=0 /isTUend="TRUE" promotor_-35 517302..517309 /Source="Nicolas_upshift_promotors" /id="U367" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.652347652347652" /psig=1 /xcortree=1877 /SigmaFactorBS="aaacatgatttggcctttttttcgttagacatCGTTTCCCtt tagcctttaatTTTAGTATGATATGTAAATGatattgaataaaagctaggaagtgtcg t" /listShort="alrA, endB, ndoA, rsbRA, rsbS, rsbT, rsbU, rsbV, rsbW, sigB, rsbX" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 517323..517342 /Source="Nicolas_upshift_promotors" /id="U367" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.652347652347652" /psig=1 /xcortree=1877 /SigmaFactorBS="aaacatgatttggcctttttttcgttagacatCGTTTCCCtt tagcctttaatTTTAGTATGATATGTAAATGatattgaataaaagctaggaagtgtcg t" /listShort="alrA, endB, ndoA, rsbRA, rsbS, rsbT, rsbU, rsbV, rsbW, sigB, rsbX" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 517330 /Source="Nicolas_upshifts" /id="U367" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.652347652347652" /psig=1 /xcortree=1877 /SigmaFactorBS="aaacatgatttggcctttttttcgttagacatCGTTTCCCtt tagcctttaatTTTAGTATGATATGTAAATGatattgaataaaagctaggaagtgtcg t" /listShort="alrA, endB, ndoA, rsbRA, rsbS, rsbT, rsbU, rsbV, rsbW, sigB, rsbX" /GFF_Attribute="listLong" CDS 517372..518541 /gene="alrA" /locus_tag="BSU_04640" /old_locus_tag="BSU04640" /EC_number="5.1.1.1" /function="16.2: Construct biomass (Anabolism)" /function="16.13: Shape" /function="16.8: Protect" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 2835089, 12682299, 15043879, 18399999, 25227915; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="D-alanine racemase" /protein_id="NP_388345.1" /db_xref="EnsemblGenomes-Gn:BSU04640" /db_xref="EnsemblGenomes-Tr:CAB12271" /db_xref="GOA:P10725" /db_xref="InterPro:IPR000821" /db_xref="InterPro:IPR001608" /db_xref="InterPro:IPR009006" /db_xref="InterPro:IPR011079" /db_xref="InterPro:IPR020622" /db_xref="InterPro:IPR029066" /db_xref="SubtiList:BG10950" /db_xref="UniProtKB/Swiss-Prot:P10725" /translation="MSTKPFYRDTWAEIDLSAIKENVSNMKKHIGEHVHLMAVVKANA YGHGDAETAKAALDAGASCLAVAILDEAISLRKKGLKAPILVLGAVPPEYVAIAAEYD VTLTGYSVEWLQEAARHTKKGSLHFHLKVDTGMNRLGVKTEEEVQNVMAILDRNPRLK CKGVFTHFATADEKERGYFLMQFERFKELIAPLPLKNLMVHCANSAAGLRLKKGFFNA VRFGIGMYGLRPSADMSDEIPFQLRPAFTLHSTLSHVKLIRKGESVSYGAEYTAEKDT WIGTVPVGYADGWLRKLKGTDILVKGKRLKIAGRICMDQFMVELDQEYPPGTKVTLIG RQGDEYISMDEIAGRLETINYEVACTISSRVPRMFLENGSIMEVRNPLLQVNISN*" gene 517372..518541 /gene="alrA" /locus_tag="BSU_04640" /old_locus_tag="BSU04640" promotor_-35 518470..518475 /Source="Nicolas_upshift_promotors" /id="U368" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.93906093906094" /psig="0.93906093906094" /xcortree=1177 /SigmaFactorBS="tgaggtggcctgtacaataagttcccgtgttcccCGTATGtt tttggaaaatggGAGTATAATGGAAGTAAGAaatcctttattgcaggtaaatataagc a" /listShort="endB, ndoA, rsbRA, rsbS, rsbT, rsbU, rsbV, rsbW, sigB, rsbX" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 518490..518508 /Source="Nicolas_upshift_promotors" /id="U368" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.93906093906094" /psig="0.93906093906094" /xcortree=1177 /SigmaFactorBS="tgaggtggcctgtacaataagttcccgtgttcccCGTATGtt tttggaaaatggGAGTATAATGGAAGTAAGAaatcctttattgcaggtaaatataagc a" /listShort="endB, ndoA, rsbRA, rsbS, rsbT, rsbU, rsbV, rsbW, sigB, rsbX" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 518496 /Source="Nicolas_upshifts" /id="U368" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.93906093906094" /psig="0.93906093906094" /xcortree=1177 /SigmaFactorBS="tgaggtggcctgtacaataagttcccgtgttcccCGTATGtt tttggaaaatggGAGTATAATGGAAGTAAGAaatcctttattgcaggtaaatataagc a" /listShort="endB, ndoA, rsbRA, rsbS, rsbT, rsbU, rsbV, rsbW, sigB, rsbX" /GFF_Attribute="listLong" promotor_-35 518571..518574 /Source="Nicolas_upshift_promotors" /id="U369" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.527472527472527" /psig=1 /xcortree=2132 /SigmaFactorBS="taagcaattaacttacctaaatggagaattcataaaacagCT TTgcttgaagagtgaatAATGGTATCATTATCACTGGatggataaaagagtcgtatcc g" /listShort="endB, ndoA, rsbRA, rsbS, rsbT, rsbU, rsbV, rsbW, sigB, rsbX" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 518590..518609 /Source="Nicolas_upshift_promotors" /id="U369" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.527472527472527" /psig=1 /xcortree=2132 /SigmaFactorBS="taagcaattaacttacctaaatggagaattcataaaacagCT TTgcttgaagagtgaatAATGGTATCATTATCACTGGatggataaaagagtcgtatcc g" /listShort="endB, ndoA, rsbRA, rsbS, rsbT, rsbU, rsbV, rsbW, sigB, rsbX" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 518591 /Source="Nicolas_upshifts" /id="U369" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.527472527472527" /psig=1 /xcortree=2132 /SigmaFactorBS="taagcaattaacttacctaaatggagaattcataaaacagCT TTgcttgaagagtgaatAATGGTATCATTATCACTGGatggataaaagagtcgtatcc g" /listShort="endB, ndoA, rsbRA, rsbS, rsbT, rsbU, rsbV, rsbW, sigB, rsbX" /GFF_Attribute="listLong" CDS 518657..518938 /gene="ndoAI" /locus_tag="BSU_04650" /old_locus_tag="BSU04650" /function="16.3: Control" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:15882409, 21763692, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15882409, 21763692, 22720735; Product type r: regulator" /codon_start=1 /transl_table=11 /product="antitoxin EndoAI" /protein_id="NP_388346.1" /db_xref="EnsemblGenomes-Gn:BSU04650" /db_xref="EnsemblGenomes-Tr:CAB12272" /db_xref="GOA:P96621" /db_xref="InterPro:IPR002145" /db_xref="InterPro:IPR010985" /db_xref="InterPro:IPR013321" /db_xref="PDB:4ME7" /db_xref="SubtiList:BG12091" /db_xref="UniProtKB/Swiss-Prot:P96621" /translation="MSESSARTEMKISLPENLVAELDGVAMREKRSRNELISQAVRAY VSERTTRHNRDLMRRGYMEMAKINLNISSEAHFAECEAETTVERLVSGG*" gene 518657..518938 /gene="ndoAI" /locus_tag="BSU_04650" /old_locus_tag="BSU04650" CDS 518943..519293 /gene="ndoA" /locus_tag="BSU_04660" /old_locus_tag="BSU04660" /function="16.5: Explore" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:15882409, 21763692, 21897862, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15882409, 21763692, 21897862, 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="endoribonuclease toxin" /protein_id="NP_388347.1" /db_xref="EnsemblGenomes-Gn:BSU04660" /db_xref="EnsemblGenomes-Tr:CAB12273" /db_xref="GOA:P96622" /db_xref="InterPro:IPR003477" /db_xref="InterPro:IPR011067" /db_xref="PDB:1NE8" /db_xref="PDB:4MDX" /db_xref="PDB:4ME7" /db_xref="SubtiList:BG12092" /db_xref="UniProtKB/Swiss-Prot:P96622" /translation="MIVKRGDVYFADLSPVVGSEQGGVRPVLVIQNDIGNRFSPTAIV AAITAQIQKAKLPTHVEIDAKRYGFERDSVILLEQIRTIDKQRLTDKITHLDDEMMDK VDEALQISLALIDF*" gene 518943..519293 /gene="ndoA" /locus_tag="BSU_04660" /old_locus_tag="BSU04660" S_feature complement(519083..519559) /Source="Nicolas_S_feature" /locus_tag="new_519083_519559_c" /HighExp="Etha, Gly, Sw, S8, C30, S6, LBGstat, T0.30H, S7, Salt" /AntisenseName="ndoA" /AntisenseCor="-0.36117231948253697" /AntisenseRegPval="-9" /CDS_PredictionProba="NA" /TUshortSig="SigD, SigB, SigK" /TUshortPSig="1, 1, 0.973" /TUlongSig="NA" /TUlongPSig="NA" /label="S163" downshifts complement(519126) /Source="Nicolas_upshifts" /id="D223" /incds=1 /nref=6 /ntot=171 /MaxReadThrough="3.51096" /MaxDrop="3.79912" /score="-8.86444162" /energy="-10.2" /TU="U372" /idTUdmin="U371" /TUdmin="-4" /isTUend="TRUE" downshifts 519273 /Source="Nicolas_upshifts" /id="D224" /incds=0 /nref=143 /ntot=254 /MaxReadThrough="5.57908" /MaxDrop="5.74865" /score="29.7721113" /energy="-8.9" /TU="U367,U368,U369" /idTUdmin="U366" /TUdmin=799 /isTUend="FALSE" promotor_-35 519327..519334 /Source="Nicolas_upshift_promotors" /id="U370" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.772227772227772" /psig="0.999000999001" /xcortree=1992 /SigmaFactorBS="atatttgcaggttgctcaaatagagcaacttTTTTTGTTttc aaaaaacataAACGATATAATAGTGAAATAacgaaaaaatatgttgttttttattggg a" /listShort="rsbRA, rsbS, rsbT, rsbU, rsbV, rsbW, sigB, rsbX" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 519348..519367 /Source="Nicolas_upshift_promotors" /id="U370" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.772227772227772" /psig="0.999000999001" /xcortree=1992 /SigmaFactorBS="atatttgcaggttgctcaaatagagcaacttTTTTTGTTttc aaaaaacataAACGATATAATAGTGAAATAacgaaaaaatatgttgttttttattggg a" /listShort="rsbRA, rsbS, rsbT, rsbU, rsbV, rsbW, sigB, rsbX" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 519356 /Source="Nicolas_upshifts" /id="U370" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.772227772227772" /psig="0.999000999001" /xcortree=1992 /SigmaFactorBS="atatttgcaggttgctcaaatagagcaacttTTTTTGTTttc aaaaaacataAACGATATAATAGTGAAATAacgaaaaaatatgttgttttttattggg a" /listShort="rsbRA, rsbS, rsbT, rsbU, rsbV, rsbW, sigB, rsbX" /GFF_Attribute="listLong" CDS 519408..520232 /gene="rsbRA" /locus_tag="BSU_04670" /old_locus_tag="BSU04670" /function="16.8: Protect" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:15312768, 15583165, 16963570, 17158665, 11157946, 20019076, 21362065, 22287516, 23320651, 28271471" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15312768, 15583165, 16963570, 17158665, 11157946, 20019076, 21362065, 22287516, 23320651, 28271471; Product type f: factor" /codon_start=1 /transl_table=11 /product="component of the anxiosome (stressosome); positive regulation of sigma(B) activity in response to salt and heat stress" /protein_id="NP_388348.1" /db_xref="EnsemblGenomes-Gn:BSU04670" /db_xref="EnsemblGenomes-Tr:CAB12274" /db_xref="InterPro:IPR002645" /db_xref="InterPro:IPR014792" /db_xref="InterPro:IPR036513" /db_xref="PDB:2BNL" /db_xref="SubtiList:BG11090" /db_xref="UniProtKB/Swiss-Prot:P42409" /translation="MMSNQTVYQFIAENQNELLQLWTDTLKELSEQESYQLTDQVYEN ISKEYIDILLLSVKDENAAESQISELALRAVQIGLSMKFLATALAEFWKRLYTKMNDK RLPDQESTELIWQIDRFFSPINTEIFNQYSISWEKTVSLQKIALQELSAPLIPVFENI TVMPLVGTIDTERAKRIMENLLNGVVKHRSQVVLIDITGVPVVDTMVAHHIIQASEAV RLVGAKCLLAGIRPEIAQTIVNLGIDLSQVITKNTLQKGIQTALEMTDRKIVSLGE*" gene 519408..520232 /gene="rsbRA" /locus_tag="BSU_04670" /old_locus_tag="BSU04670" promotor_-10 complement(519542..519560) /Source="Nicolas_upshift_promotors" /id="U371" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2828 /SigmaFactorBS="gccagttcgctgatttggctttcagcagcattttcgtcCTTA ACAGacagcagcagaatGTCGATATATTCTTTAGATatattttcatacacttggtcag t" /listShort="S163" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(519559) /Source="Nicolas_upshifts" /id="U371" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2828 /SigmaFactorBS="gccagttcgctgatttggctttcagcagcattttcgtcCTTA ACAGacagcagcagaatGTCGATATATTCTTTAGATatattttcatacacttggtcag t" /listShort="S163" /GFF_Attribute="listLong" S_feature complement(519561..520160) /Source="Nicolas_S_feature" /locus_tag="new_519561_520160_c" /HighExp="Etha, Sw, Gly, S6, S8, S7, B60, Salt, BT, M9-stat" /AntisenseName="rsbRA" /AntisenseCor="-0.53924606340364201" /AntisenseRegPval="-21" /CDS_PredictionProba="NA" /TUshortSig="SigB, SigK" /TUshortPSig="1, 0.973" /TUlongSig="NA" /TUlongPSig="NA" /label="S164" promotor_-35 complement(519574..519581) /Source="Nicolas_upshift_promotors" /id="U371" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2828 /SigmaFactorBS="gccagttcgctgatttggctttcagcagcattttcgtcCTTA ACAGacagcagcagaatGTCGATATATTCTTTAGATatattttcatacacttggtcag t" /listShort="S163" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(520149..520167) /Source="Nicolas_upshift_promotors" /id="U372" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=202 /SigmaFactorBS="tgaaacgatttttcgatccgtcatttccaatgcTGTTTGAat tcctttttgcaGGGTATTCTTAGTTATAACttgggataaatcaatccccaggttgacg a" /listShort="S164, S163" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(520160) /Source="Nicolas_upshifts" /id="U372" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=202 /SigmaFactorBS="tgaaacgatttttcgatccgtcatttccaatgcTGTTTGAat tcctttttgcaGGGTATTCTTAGTTATAACttgggataaatcaatccccaggttgacg a" /listShort="S164, S163" /GFF_Attribute="listLong" S_feature complement(520162..520750) /Source="Nicolas_S_feature" /locus_tag="new_520162_520750_c" /HighExp="S6, S8, S7, BT, C30, S5, G135, C90, Gly, Fru" /AntisenseName="rsbS" /AntisenseCor="-0.57706416777859804" /AntisenseRegPval="-24.6" /CDS_PredictionProba="NA" /TUshortSig="SigK" /TUshortPSig="0.973" /TUlongSig="NA" /TUlongPSig="NA" /label="S165" promotor_-35 complement(520181..520187) /Source="Nicolas_upshift_promotors" /id="U372" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=202 /SigmaFactorBS="tgaaacgatttttcgatccgtcatttccaatgcTGTTTGAat tcctttttgcaGGGTATTCTTAGTTATAACttgggataaatcaatccccaggttgacg a" /listShort="S164, S163" /GFF_Attribute="listLong" /label="promotor_-35" CDS 520237..520602 /gene="rsbS" /locus_tag="BSU_04680" /old_locus_tag="BSU04680" /function="16.3: Control" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:15583165, 16963570, 17158665, 11157946, 23320651, 28271471" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15583165, 16963570, 17158665, 11157946, 23320651, 28271471; Product type f : factor" /codon_start=1 /transl_table=11 /product="antagonist of RsbT" /protein_id="NP_388349.1" /db_xref="EnsemblGenomes-Gn:BSU04680" /db_xref="EnsemblGenomes-Tr:CAB12275" /db_xref="GOA:P42410" /db_xref="InterPro:IPR002645" /db_xref="InterPro:IPR036513" /db_xref="SubtiList:BG11091" /db_xref="UniProtKB/Swiss-Prot:P42410" /translation="MRHPKIPILKLYNCLLVSIQWELDDQTALTFQEDLLNKIYETGA NGVVIDLTSVDMIDSFIAKVLGDVITMSKLMGAKVVLTGIQPAVAVTLIELGIALEEI ETALDLEQGLETLKRELGE*" gene 520237..520602 /gene="rsbS" /locus_tag="BSU_04680" /old_locus_tag="BSU04680" CDS 520606..521007 /gene="rsbT" /locus_tag="BSU_04690" /old_locus_tag="BSU04690" /EC_number="2.7.11.1" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:15583165, 16963570, 17158665, 11157946, 20019076, 20558511, 21362065, 21979936, 23320651" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15583165, 16963570, 17158665, 11157946, 20019076, 20558511, 21362065, 21979936, 23320651; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="switch protein/serine-threonine kinase; controlsthe activity of the anxiosome (stressosome)" /protein_id="NP_388350.1" /db_xref="EnsemblGenomes-Gn:BSU04690" /db_xref="EnsemblGenomes-Tr:CAB12276" /db_xref="GOA:P42411" /db_xref="InterPro:IPR003594" /db_xref="InterPro:IPR036890" /db_xref="SubtiList:BG11092" /db_xref="UniProtKB/Swiss-Prot:P42411" /translation="MNDQSCVRIMTEWDIVAARQLGRNVAKELGFGTVDQARITTAIS ELARNIYLYAGKGQIGIEQVADRGKKGLKIIAEDQGPGIPDIRKVMEDGFSTSGGLGA GLPGVKRLMDEFSLNSVAGEGTEIQAIKWLR*" gene 520606..521007 /gene="rsbT" /locus_tag="BSU_04690" /old_locus_tag="BSU04690" promotor_-10 complement(520748..520767) /Source="Nicolas_upshift_promotors" /id="U373" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.973026973026973" /psig="0.973026973026973" /xcortree=1334 /SigmaFactorBS="ttttcaggcctttttttcctctgtctgcgacctgtTCAATTC CAAtctgccctttgccGGCATATAAATAAATATTCCtggctaattctgaaatagccgt t" /listShort="S165, S164, S163" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(520765) /Source="Nicolas_upshifts" /id="U373" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.973026973026973" /psig="0.973026973026973" /xcortree=1334 /SigmaFactorBS="ttttcaggcctttttttcctctgtctgcgacctgtTCAATTC CAAtctgccctttgccGGCATATAAATAAATATTCCtggctaattctgaaatagccgt t" /listShort="S165, S164, S163" /GFF_Attribute="listLong" promotor_-35 complement(520781..520790) /Source="Nicolas_upshift_promotors" /id="U373" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.973026973026973" /psig="0.973026973026973" /xcortree=1334 /SigmaFactorBS="ttttcaggcctttttttcctctgtctgcgacctgtTCAATTC CAAtctgccctttgccGGCATATAAATAAATATTCCtggctaattctgaaatagccgt t" /listShort="S165, S164, S163" /GFF_Attribute="listLong" /label="promotor_-35" CDS 521019..522026 /gene="rsbU" /locus_tag="BSU_04700" /old_locus_tag="BSU04700" /EC_number="3.1.3.3" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:15583165, 16963570, 17158665, 17303566, 21979936, 28461450" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15583165, 16963570, 17158665, 17303566, 21979936, 28461450; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="protein serine phosphatase; controls the activity of the anxiosome (stressosome)" /protein_id="NP_388351.1" /db_xref="EnsemblGenomes-Gn:BSU04700" /db_xref="EnsemblGenomes-Tr:CAB12277" /db_xref="GOA:P40399" /db_xref="InterPro:IPR001932" /db_xref="InterPro:IPR014787" /db_xref="InterPro:IPR017944" /db_xref="InterPro:IPR036457" /db_xref="PDB:1W53" /db_xref="PDB:2J6Y" /db_xref="PDB:2J6Z" /db_xref="PDB:2J70" /db_xref="SubtiList:BG11057" /db_xref="UniProtKB/Swiss-Prot:P40399" /translation="MDFREVIEQRYHQLLSRYIAELTETSLYQAQKFSRKTIEHQIPP EEIISIHRKVLKELYPSLPEDVFHSLDFLIEVMIGYGMAYQEHQTLRGIQQEIKSEIE IAANVQQTLLGTKVPQEEALDIGAISVPAKQMSGDYYHFVKDKESINIAIADVIGKGI PAALCMSMIKYAMDSLPETGIHPSQVLKNLNRVVEQNVDASMFITMFYANYNMDKHQF TYASAGHEPGFYYSQKDNTFYDLEAKGLVLGISQDYDYKQFDQHLEKGDMIVLFSDGV TECRTENGFLERPDLQKLIEEHMCSSAQEMVKNIYDSLLKLQDFQLHDDFTLIVLRRK V*" gene 521019..522026 /gene="rsbU" /locus_tag="BSU_04700" /old_locus_tag="BSU04700" promotor_-35 522020..522026 /Source="Nicolas_upshift_promotors" /id="U374" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=260 /SigmaFactorBS="cgatgattttacgttaattgttttgcggagaaaGGTTTAAcg tctgtcagacgaGGGTATAAAGCAACTAGTGatttgaaggaaaatttgaggtgatacg a" /listShort="rsbV, rsbW, sigB, rsbX" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 522041..522059 /Source="Nicolas_upshift_promotors" /id="U374" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=260 /SigmaFactorBS="cgatgattttacgttaattgttttgcggagaaaGGTTTAAcg tctgtcagacgaGGGTATAAAGCAACTAGTGatttgaaggaaaatttgaggtgatacg a" /listShort="rsbV, rsbW, sigB, rsbX" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 522047 /Source="Nicolas_upshifts" /id="U374" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=260 /SigmaFactorBS="cgatgattttacgttaattgttttgcggagaaaGGTTTAAcg tctgtcagacgaGGGTATAAAGCAACTAGTGatttgaaggaaaatttgaggtgatacg a" /listShort="rsbV, rsbW, sigB, rsbX" /GFF_Attribute="listLong" CDS 522088..522417 /gene="rsbV" /locus_tag="BSU_04710" /old_locus_tag="BSU04710" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:15342585, 15583165, 16077134, 16885458, 20454630, 21979936, 27977677" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15342585, 15583165, 16077134, 16885458, 20454630, 21979936, 27977677; Product type f: factor" /codon_start=1 /transl_table=11 /product="anti-anti-sigma factor (antagonist of RsbW)" /protein_id="NP_388352.1" /db_xref="EnsemblGenomes-Gn:BSU04710" /db_xref="EnsemblGenomes-Tr:CAB12278" /db_xref="GOA:P17903" /db_xref="InterPro:IPR002645" /db_xref="InterPro:IPR003658" /db_xref="InterPro:IPR036513" /db_xref="SubtiList:BG10733" /db_xref="UniProtKB/Swiss-Prot:P17903" /translation="MNINVDVKQNENDIQVNIAGEIDVYSAPVLREKLVPLAEQGADL RICLKDVSYMDSTGLGVFVGTFKMVKKQGGSLKLENLSERLIRLFDITGLKDIIDISA KSEGGVQ*" gene 522088..522417 /gene="rsbV" /locus_tag="BSU_04710" /old_locus_tag="BSU04710" CDS 522414..522896 /gene="rsbW" /locus_tag="BSU_04720" /old_locus_tag="BSU04720" /EC_number="2.7.11.1" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:15342585, 15583165, 16077134, 16885458, 21979936, 27977677" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15342585, 15583165, 16077134, 16885458, 21979936, 27977677; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="switch protein/serine kinase and anti-sigma factor (inhibitory sigma-B binding protein)" /protein_id="NP_388353.1" /db_xref="EnsemblGenomes-Gn:BSU04720" /db_xref="EnsemblGenomes-Tr:CAB12279" /db_xref="GOA:P17904" /db_xref="InterPro:IPR003594" /db_xref="InterPro:IPR010193" /db_xref="InterPro:IPR036890" /db_xref="SubtiList:BG10734" /db_xref="UniProtKB/Swiss-Prot:P17904" /translation="MKNNADYIEMKVPAQPEYVGIIRLTLSGVASRMGYTYDEIEDLK IAVSEACTNAVQHAYKEDKNGEVSIRFGVFEDRLEVIVADEGDSFDFDQKQQDLGPYT PSHTVDQLSEGGLGLYLMETLMDEVRVQNHSGVTVAMTKYLNGERVDHDTTIKNYETN *" gene 522414..522896 /gene="rsbW" /locus_tag="BSU_04720" /old_locus_tag="BSU04720" CDS 522862..523650 /gene="sigB" /locus_tag="BSU_04730" /old_locus_tag="BSU04730" /function="16.3: Control" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:15312768, 15805528, 16077134, 16267279, 16321960, 17158665, 28271471" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15312768, 15805528, 16077134, 16267279, 16321960, 17158665, 28271471; Product type r: regulator" /codon_start=1 /transl_table=11 /product="RNA polymerase sigma-37 factor (sigma(B))" /protein_id="NP_388354.2" /db_xref="EnsemblGenomes-Gn:BSU04730" /db_xref="EnsemblGenomes-Tr:CAB12280" /db_xref="GOA:P06574" /db_xref="InterPro:IPR000943" /db_xref="InterPro:IPR007624" /db_xref="InterPro:IPR007627" /db_xref="InterPro:IPR007630" /db_xref="InterPro:IPR013324" /db_xref="InterPro:IPR013325" /db_xref="InterPro:IPR014284" /db_xref="InterPro:IPR014288" /db_xref="InterPro:IPR014322" /db_xref="InterPro:IPR036388" /db_xref="SubtiList:BG10735" /db_xref="UniProtKB/Swiss-Prot:P06574" /translation="MTQPSKTTKLTKDEVDRLISDYQTKQDEQAQETLVRVYTNLVDM LAKKYSKGKSFHEDLRQVGMIGLLGAIKRYDPVVGKSFEAFAIPTIIGEIKRFLRDKT WSVHVPRRIKELGPRIKMAVDQLTTETQRSPKVEEIAEFLDVSEEEVLETMEMGKSYQ ALSVDHSIEADSDGSTVTILDIVGSQEDGYERVNQQLMLQSVLHVLSDREKQIIDLTY IQNKSQKETGDILGISQMHVSRLQRKAVKKLREALIEDPSMELM*" gene 522862..523650 /gene="sigB" /locus_tag="BSU_04730" /old_locus_tag="BSU04730" CDS 523650..524249 /gene="rsbX" /locus_tag="BSU_04740" /old_locus_tag="BSU04740" /EC_number="3.1.3.3" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:10671474, 12950928, 15466036, 9068644, 9658013, 21979936, 26057679" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10671474, 12950928, 15466036, 9068644, 9658013, 21979936, 26057679; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="serine phosphatase" /protein_id="NP_388355.1" /db_xref="EnsemblGenomes-Gn:BSU04740" /db_xref="EnsemblGenomes-Tr:CAB12281" /db_xref="GOA:P17906" /db_xref="InterPro:IPR001932" /db_xref="InterPro:IPR036457" /db_xref="PDB:3W40" /db_xref="PDB:3W41" /db_xref="PDB:3W42" /db_xref="PDB:3W43" /db_xref="PDB:3W44" /db_xref="PDB:3W45" /db_xref="SubtiList:BG10736" /db_xref="UniProtKB/Swiss-Prot:P17906" /translation="MIQVEENEHIQTLVYQLNKEGKSICGDSFFMKADDKELICAVAD GLGSGSLANESSAAIKDLVENYASEDVESIIERCNQAMKNKRGATASILKINFEQRQF TYCSVGNVRFILHSPSGESFYPLPISGYLSGKPQKYKTHTATYEKGSKFIIHTDGLNV PDIRSHLKKGQSVEEISNSLKMYTTSRKDDLTYILGQLS*" gene 523650..524249 /gene="rsbX" /locus_tag="BSU_04740" /old_locus_tag="BSU04740" downshifts 524235 /Source="Nicolas_upshifts" /id="D225" /incds=0 /nref=267 /ntot=278 /MaxReadThrough="2.46753" /MaxDrop="7.92167" /score="1.26147577" /energy="-6" /TU="NA" /idTUdmin="U369" /TUdmin="-3" /isTUend="TRUE" promotor_-35 524293..524299 /Source="Nicolas_upshift_promotors" /id="U375" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.427572427572428" /psig=1 /xcortree=2529 /SigmaFactorBS="gctggacatccggcttcttttttttgcGGTTGACtattaata agtgcgCTTATTATAATTAATAAGTGaacttatcattctgggagcttatgggatgtgg a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 524314..524333 /Source="Nicolas_upshift_promotors" /id="U375" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.427572427572428" /psig=1 /xcortree=2529 /SigmaFactorBS="gctggacatccggcttcttttttttgcGGTTGACtattaata agtgcgCTTATTATAATTAATAAGTGaacttatcattctgggagcttatgggatgtgg a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 524326 /Source="Nicolas_upshifts" /id="U375" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.427572427572428" /psig=1 /xcortree=2529 /SigmaFactorBS="gctggacatccggcttcttttttttgcGGTTGACtattaata agtgcgCTTATTATAATTAATAAGTGaacttatcattctgggagcttatgggatgtgg a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS 524360..524476 /locus_tag="BSU_04745" /old_locus_tag="BSU04745" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_009513945.1" /translation="MWNYEYTAIADVDVGKPGTVIRKQKQWINGRRVLHQIL*" gene 524360..524476 /locus_tag="BSU_04745" /old_locus_tag="BSU04745" CDS 524492..524785 /gene="ydcF" /locus_tag="BSU_04750" /old_locus_tag="BSU04750" /function="18: Unknown function" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388356.1" /db_xref="EnsemblGenomes-Gn:BSU04750" /db_xref="EnsemblGenomes-Tr:CAB12282" /db_xref="SubtiList:BG12093" /db_xref="UniProtKB/Swiss-Prot:P96623" /translation="MERKEHCFCKEKQFSYGLSMWRNIGRFLSWSTCPHSNVIMEFFH VLQKQKEDLCITYGIVLEGAEAKKWGEIIGTELSKDMPTAVSRLVHLYGGVIK*" gene 524492..524785 /gene="ydcF" /locus_tag="BSU_04750" /old_locus_tag="BSU04750" promotor_-35 524753..524761 /Source="Nicolas_upshift_promotors" /id="U376" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.65034965034965" /psig=1 /xcortree=2272 /SigmaFactorBS="agacatgccgacggctgtcagcaggCTTGTCCATctttacgg aggAGTGATAAAATGAACACAAAttactggatcggcgttgtgtcagagcaacatgtat t" /listShort="ydcG, ydcH" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 524773..524792 /Source="Nicolas_upshift_promotors" /id="U376" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.65034965034965" /psig=1 /xcortree=2272 /SigmaFactorBS="agacatgccgacggctgtcagcaggCTTGTCCATctttacgg aggAGTGATAAAATGAACACAAAttactggatcggcgttgtgtcagagcaacatgtat t" /listShort="ydcG, ydcH" /GFF_Attribute="listLong" /label="promotor_-10" CDS 524782..525222 /gene="ydcG" /locus_tag="BSU_04760" /old_locus_tag="BSU04760" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388357.1" /db_xref="EnsemblGenomes-Gn:BSU04760" /db_xref="EnsemblGenomes-Tr:CAB12283" /db_xref="InterPro:IPR002740" /db_xref="InterPro:IPR015947" /db_xref="InterPro:IPR022996" /db_xref="SubtiList:BG12094" /db_xref="UniProtKB/Swiss-Prot:P96624" /translation="MNTNYWIGVVSEQHVLKGAAGGFAQLCHGKKAPLAKMKEGDWLI YYSPRDAYPDGKLLRSFTAIGKVKSGNIYPYQMAPNFIPYRLDIDYYPCHKIGFYDIK SKLEFVQETKHLGFLFRRGHFEISKKDFLTIAQAMGVNISGMAL*" gene 524782..525222 /gene="ydcG" /locus_tag="BSU_04760" /old_locus_tag="BSU04760" upshifts 524788 /Source="Nicolas_upshifts" /id="U376" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.65034965034965" /psig=1 /xcortree=2272 /SigmaFactorBS="agacatgccgacggctgtcagcaggCTTGTCCATctttacgg aggAGTGATAAAATGAACACAAAttactggatcggcgttgtgtcagagcaacatgtat t" /listShort="ydcG, ydcH" /GFF_Attribute="listLong" S_feature complement(525021..528076) /Source="Nicolas_S_feature" /locus_tag="new_525021_528076_c" /HighExp="S6, S8, S7, S5, B36, S4, B60, BT, Pyr, C30" /AntisenseName="ydcI" /AntisenseCor="-0.61304426345041496" /AntisenseRegPval="-28.4" /CDS_PredictionProba="0.40759499999999999" /TUshortSig="SigK" /TUshortPSig="0.994" /TUlongSig="NA" /TUlongPSig="NA" /label="S166" CDS 525206..525649 /gene="ydcH" /locus_tag="BSU_04770" /old_locus_tag="BSU04770" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12088660; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator" /protein_id="NP_388358.1" /db_xref="EnsemblGenomes-Gn:BSU04770" /db_xref="EnsemblGenomes-Tr:CAB12284" /db_xref="GOA:P96625" /db_xref="InterPro:IPR000835" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12095" /db_xref="UniProtKB/Swiss-Prot:P96625" /translation="MEWHSKFSGPNTSPGFLLWQATQSWQRKVGKALAEFDLTHVQFV LLTSCKYMIAHGETVTQKKLASFSQTNIMMVSEVVRTLEKKGFIERSKNPQDKREVLL SLTEIGGEKVTAALPIVEKIDQAFFAAAMKKENFLSGLQELLKHE*" gene 525206..525649 /gene="ydcH" /locus_tag="BSU_04770" /old_locus_tag="BSU04770" downshifts 525624 /Source="Nicolas_upshifts" /id="D226" /incds=0 /nref=11 /ntot=147 /MaxReadThrough="2.17786" /MaxDrop="3.86856" /score="21.3746204" /energy="-6.8" /TU="NA" /idTUdmin="U376" /TUdmin=0 /isTUend="TRUE" promotor_-35 525680..525681 /Source="Nicolas_upshift_promotors" /id="U377" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.712287712287712" /psig="0.997002997002997" /xcortree=1998 /SigmaFactorBS="gaaacatgagtaaagatacgggcagcgccagctgtctttttt tATgtgtttttttcggttTTTGATACACTAGAGAAAGAacgacaaaattggaggcttt g" /listShort="ydcI, S167, ydcK" /listLong="S168, trnS-Asn, trnS-Ser, trnS-Glu, trnS-Gln, trnS-Lys, trnS-Leu1, trnS-Leu2" /label="promotor_-35" promotor_-10 525697..525716 /Source="Nicolas_upshift_promotors" /id="U377" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.712287712287712" /psig="0.997002997002997" /xcortree=1998 /SigmaFactorBS="gaaacatgagtaaagatacgggcagcgccagctgtctttttt tATgtgtttttttcggttTTTGATACACTAGAGAAAGAacgacaaaattggaggcttt g" /listShort="ydcI, S167, ydcK" /listLong="S168, trnS-Asn, trnS-Ser, trnS-Glu, trnS-Gln, trnS-Lys, trnS-Leu1, trnS-Leu2" /label="promotor_-10" upshifts 525697 /Source="Nicolas_upshifts" /id="U377" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.712287712287712" /psig="0.997002997002997" /xcortree=1998 /SigmaFactorBS="gaaacatgagtaaagatacgggcagcgccagctgtctttttt tATgtgtttttttcggttTTTGATACACTAGAGAAAGAacgacaaaattggaggcttt g" /listShort="ydcI, S167, ydcK" /listLong="S168, trnS-Asn, trnS-Ser, trnS-Glu, trnS-Gln, trnS-Lys, trnS-Leu1, trnS-Leu2" CDS 525743..527902 /gene="tex" /locus_tag="BSU_04780" /old_locus_tag="BSU04780" /function="16.3: Control" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 8755871, 12910271, 15383836, 16282592; Product type f: factor" /codon_start=1 /transl_table=11 /product="RNA helicase transcriptional accessory protein" /protein_id="NP_388359.2" /db_xref="EnsemblGenomes-Gn:BSU04780" /db_xref="EnsemblGenomes-Tr:CAB12285" /db_xref="GOA:O31489" /db_xref="InterPro:IPR003029" /db_xref="InterPro:IPR006641" /db_xref="InterPro:IPR010994" /db_xref="InterPro:IPR012337" /db_xref="InterPro:IPR012340" /db_xref="InterPro:IPR018974" /db_xref="InterPro:IPR022967" /db_xref="InterPro:IPR023319" /db_xref="InterPro:IPR023323" /db_xref="InterPro:IPR032639" /db_xref="SubtiList:BG12096" /db_xref="UniProtKB/Swiss-Prot:O31489" /translation="METSALLKQQIAKEIGLSQKHVESVIRLLEDGNTVPFIARYRKE QTGSMDEVQIQTISERWQYIQNLNQRKEEVIRLIAEQDKLTDNLKRKIEQSVKLQEVE DLYRPYKQKRKTKATVAKSKGLEPLADYILTLPQDDHLAATADQYISEEKEVFTREEA IEGAKHIIAEQISDEPTFRKWIRQETFKRGTIKSAAGKSADTDEKNVYEMYYEYEEPI AKVVPHRVLAMNRGEKEDILKVAIEPPADHIKAYLEKQIIKNRSTSVREILQETIEDS YKRLIQPAIEREIRKELSEKADEQAIHIFSENLRKLLLQPPMKGKTVLGVDPAFRTGC KLAVSDETGKVLKIDVIYPHAPVNKTKEAHEKVKKILEQYQVEMVAIGNGTASRETEQ FIVNVLRDMPRKIYYVIVNEAGASVYSASELAREEFPDLKVEERSAVSIARRLQDPLA ELVKIDPKSVGVGQYQHDVSQKRLNESLRFVVETVVNQVGVNVNTASAALLQYVAGLS KSVAGNVVKKREEIGKFSNRKELKDIPRLGAKTYEQCIGFLRVQEGTEPLDRTGIHPE SYKETKALLKKLGLSTEHIGTAELKDKINQLALSETAKELGIGEITLKDICEQLTRPE RDPRDKVPKPLLKTDVLQLEDLKEGMELQGTVRNVVDFGAFVDIGVKQDGLVHISKLS NQFVKHPLDVVSVGDIVTVWVDGVDVQKGRVSLSMVK*" gene 525743..527902 /gene="tex" /locus_tag="BSU_04780" /old_locus_tag="BSU04780" misc_feature 527890..527909 /Source="Nicolas_upshift_promotors" /id="U378" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.995004995004995" /psig="0.999000999001" /xcortree=2162 /SigmaFactorBS="gacggcgtagatgtacaaaaaggcagagtatcgctgtcTATG GTAAAATAAAAGCACTgcttacgagcagtgttttttcctatagaaataccagcattga t" /listShort="S167, ydcK, S168, trnS-Asn, trnS-Ser, trnS-Glu, trnS-Gln, trnS-Lys, trnS-Leu1" /listLong="trnS-Leu2, S169" /label="promotor_single_box" /note="Geneious type: promotor_single_box" S_feature 527912..528128 /Source="Nicolas_S_feature" /locus_tag="new_527912_528128" /HighExp="Cold, Etha, LBGstat, dia5, LPhT, T4.0H, dia15, T3.0H, T2.30H, T3.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.999, 0.997" /TUlongSig="NA" /TUlongPSig="NA" /label="S167" upshifts 527912 /Source="Nicolas_upshifts" /id="U378" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.995004995004995" /psig="0.999000999001" /xcortree=2162 /SigmaFactorBS="gacggcgtagatgtacaaaaaggcagagtatcgctgtcTATG GTAAAATAAAAGCACTgcttacgagcagtgttttttcctatagaaataccagcattga t" /listShort="S167, ydcK, S168, trnS-Asn, trnS-Ser, trnS-Glu, trnS-Gln, trnS-Lys, trnS-Leu1" /listLong="trnS-Leu2, S169" CDS complement(527912..528025) /gene="cmpA" /locus_tag="BSU_04785" /old_locus_tag="BSU04785" /function="16.3: Control" /function="16.6: Maintain" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:22463703, 26387458" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 22463703, 26387458; Product type f: factor" /codon_start=1 /transl_table=11 /product="factor allowing degradation of SpoIVA by ClpXP" /protein_id="YP_009513946.1" /translation="MPNWLKKQMQKAFLEKDNYQIKLLNQCWYFYRKKHCS*" gene complement(527912..528025) /gene="cmpA" /locus_tag="BSU_04785" /old_locus_tag="BSU04785" promotor_-10 complement(528065..528084) /Source="Nicolas_upshift_promotors" /id="U379" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=1320 /SigmaFactorBS="tctttgttatccatggtgcacctcacttaaaaaacATTGAAC GGgacaattcaccgttCGCATACAATATGGTAATCActgtccctcttatgataaaagc t" /listShort="S166" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(528082) /Source="Nicolas_upshifts" /id="U379" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=1320 /SigmaFactorBS="tctttgttatccatggtgcacctcacttaaaaaacATTGAAC GGgacaattcaccgttCGCATACAATATGGTAATCActgtccctcttatgataaaagc t" /listShort="S166" /GFF_Attribute="listLong" promotor_-35 complement(528099..528107) /Source="Nicolas_upshift_promotors" /id="U379" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=1320 /SigmaFactorBS="tctttgttatccatggtgcacctcacttaaaaaacATTGAAC GGgacaattcaccgttCGCATACAATATGGTAATCActgtccctcttatgataaaagc t" /listShort="S166" /GFF_Attribute="listLong" /label="promotor_-35" CDS 528129..528581 /gene="ydcK" /locus_tag="BSU_04790" /old_locus_tag="BSU04790" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388360.1" /db_xref="EnsemblGenomes-Gn:BSU04790" /db_xref="EnsemblGenomes-Tr:CAB12286" /db_xref="GOA:P96628" /db_xref="InterPro:IPR006640" /db_xref="InterPro:IPR023524" /db_xref="InterPro:IPR035240" /db_xref="SubtiList:BG12098" /db_xref="UniProtKB/Swiss-Prot:P96628" /translation="MDNKELQKLTEDISETYFKKPFRHQALFNDRLKTTGGRYLLTSH NIELNRKYLIEHGREELIGIIKHELCHYHLHLEGKGYKHRDRDFRMLLQQVNAPRFCT PLKKKAENKKTYMYICTTCGQQYIKKRAMNPDRYRCGKCRGKIKRIFS*" gene 528129..528581 /gene="ydcK" /locus_tag="BSU_04790" /old_locus_tag="BSU04790" promotor_-35 528587..528593 /Source="Nicolas_upshift_promotors" /id="U380" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.576423576423576" /psig=1 /xcortree=2626 /SigmaFactorBS="gaaaaataaaaagaattttttcgtgaaaaagGTTGACGaata tggcaagcctATGTTACATTATAAAAGTCGtcacgagagataaataaaaacatttacc t" /listShort="S168, trnS-Asn, trnS-Ser, trnS-Glu, trnS-Gln, trnS-Lys, trnS-Leu1, trnS-Leu2, S169" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 528608..528627 /Source="Nicolas_upshift_promotors" /id="U380" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.576423576423576" /psig=1 /xcortree=2626 /SigmaFactorBS="gaaaaataaaaagaattttttcgtgaaaaagGTTGACGaata tggcaagcctATGTTACATTATAAAAGTCGtcacgagagataaataaaaacatttacc t" /listShort="S168, trnS-Asn, trnS-Ser, trnS-Glu, trnS-Gln, trnS-Lys, trnS-Leu1, trnS-Leu2, S169" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 528616..528703 /Source="Nicolas_S_feature" /locus_tag="new_528616_528703" /HighExp="C30, LBGstat, Cold, UNK1, GM 25, GM 120, GM 15, Heat, T-3.40H, GM 90" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="1, 0.999" /TUlongSig="SigA" /TUlongPSig="0.997" /label="S168" upshifts 528616 /Source="Nicolas_upshifts" /id="U380" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.576423576423576" /psig=1 /xcortree=2626 /SigmaFactorBS="gaaaaataaaaagaattttttcgtgaaaaagGTTGACGaata tggcaagcctATGTTACATTATAAAAGTCGtcacgagagataaataaaaacatttacc t" /listShort="S168, trnS-Asn, trnS-Ser, trnS-Glu, trnS-Gln, trnS-Lys, trnS-Leu1, trnS-Leu2, S169" /GFF_Attribute="listLong" downshifts complement(528648) /Source="Nicolas_upshifts" /id="D227" /incds=0 /nref=1 /ntot=28 /MaxReadThrough="2.50342" /MaxDrop="3.97305" /score="8.78044068" /energy="-9.2" /TU="NA" /idTUdmin="U381" /TUdmin=704 /isTUend="FALSE" tRNA 528704..528778 /gene="trnS-Asn" /locus_tag="BSU_tRNA_45" /product="tRNA-Asn" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Asn(GUU); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 528704..528778 /gene="trnS-Asn" /locus_tag="BSU_tRNA_45" tRNA 528783..528873 /gene="trnS-Ser" /locus_tag="BSU_tRNA_46" /product="tRNA-Ser" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Ser(GCU); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 528783..528873 /gene="trnS-Ser" /locus_tag="BSU_tRNA_46" tRNA 528903..528974 /gene="trnS-Glu" /locus_tag="BSU_tRNA_47" /product="tRNA-Glu" /inference="profile:tRNAscan:1.23" /note="Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 528903..528974 /gene="trnS-Glu" /locus_tag="BSU_tRNA_47" tRNA 528986..529060 /gene="trnS-Gln" /locus_tag="BSU_tRNA_48" /product="tRNA-Gln" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Gln(UUG); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 528986..529060 /gene="trnS-Gln" /locus_tag="BSU_tRNA_48" tRNA 529087..529162 /gene="trnS-Lys" /locus_tag="BSU_tRNA_49" /product="tRNA-Lys" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Lys(UUU); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 529087..529162 /gene="trnS-Lys" /locus_tag="BSU_tRNA_49" tRNA 529174..529255 /gene="trnS-Leu1" /locus_tag="BSU_tRNA_50" /product="tRNA-Leu" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Leu(UAG); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 529174..529255 /gene="trnS-Leu1" /locus_tag="BSU_tRNA_50" downshifts 529320 /Source="Nicolas_upshifts" /id="D228" /incds=0 /nref=3 /ntot=136 /MaxReadThrough="6.94232" /MaxDrop="3.5424" /score="34.987622" /energy="-13.7" /TU="U380" /idTUdmin="U378" /TUdmin=0 /isTUend="TRUE" tRNA 529336..529422 /gene="trnS-Leu2" /locus_tag="BSU_tRNA_51" /product="tRNA-Leu" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Leu (GAG); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 529336..529422 /gene="trnS-Leu2" /locus_tag="BSU_tRNA_51" downshifts 529409 /Source="Nicolas_upshifts" /id="D229" /incds=0 /nref=82 /ntot=235 /MaxReadThrough="4.38481" /MaxDrop="5.23398" /score="34.987622" /energy="-13.7" /TU="U380" /idTUdmin="U378" /TUdmin=89 /isTUend="FALSE" S_feature 529454..530352 /Source="Nicolas_S_feature" /locus_tag="new_529454_530352" /HighExp="Cold, G180, G135, Paraq, Oxctl, C30, G150, H2O2, Fru, Lbexp" /AntisenseName="ydcL" /AntisenseCor="-0.23338643759911901" /AntisenseRegPval="-4" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="SigA" /TUlongPSig="0.999" /label="S169" downshifts complement(529477) /Source="Nicolas_upshifts" /id="D230" /incds=0 /nref=96 /ntot=231 /MaxReadThrough="2.93365" /MaxDrop="6.05127" /score="8.78044068" /energy="-9.2" /TU="U381" /idTUdmin="U381" /TUdmin="-125" /isTUend="FALSE" CDS complement(529505..530611) /gene="ydcL" /locus_tag="BSU_04800" /old_locus_tag="BSU04800" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 22505685; Product type h : extrachromosomal origin" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: integrase" /protein_id="NP_388361.1" /db_xref="EnsemblGenomes-Gn:BSU04800" /db_xref="EnsemblGenomes-Tr:CAB12287" /db_xref="GOA:P96629" /db_xref="InterPro:IPR002104" /db_xref="InterPro:IPR004107" /db_xref="InterPro:IPR010998" /db_xref="InterPro:IPR011010" /db_xref="InterPro:IPR013762" /db_xref="SubtiList:BG12099" /db_xref="UniProtKB/Swiss-Prot:P96629" /translation="MSVKKLENGQYQVDVSFGFDPITGERIRTRPVASTRKEALELEA KLRREFQEERARKSRSVSFPTLISIYLASCEIDSKPNYYQNQKYIINKHISDYFLKSD IQKITHREITDFRKHLMETGLSNKSVNNIMTSLSKIFDTAVHEEILKRNPCDNVKRLP LTRKKMKFWRPEEFKKFISLIPQDQLLFKTFYTVAFLTGLRCGEMLALQWKDIDKILL EIDVHKSCTWLDGQFVVTTPKTKNSIRRVSINKKLLKLLERWKEAQEELFNELGIRHS HDTYIFQYKDTPSRKDIFSRKIKYFCKDSDLTPIRLHDFRHSHVALLIHQGEDYITIK ERLGHGSVKTTIDVYGHLYPNKQKEMADKLDDLL*" gene complement(529505..530611) /gene="ydcL" /locus_tag="BSU_04800" /old_locus_tag="BSU04800" CDS complement(530624..531133) /gene="immA" /locus_tag="BSU_04810" /old_locus_tag="BSU04810" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:18761623, 21036995, 22505685" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 18761623, 21036995, 22505685; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: site-specific protease cleaving ImmR" /protein_id="NP_388362.1" /db_xref="EnsemblGenomes-Gn:BSU04810" /db_xref="EnsemblGenomes-Tr:CAB12288" /db_xref="GOA:P96630" /db_xref="InterPro:IPR010359" /db_xref="SubtiList:BG12100" /db_xref="UniProtKB/Swiss-Prot:P96630" /translation="MITIYTSKGIKHKVQSVIKTHGTNNVYEICDIQKIYILKNDLGQ ANGLLQHDKATDQYLIHINENLQHQQFVIAHELGHYFLHKRLNTFKVVNCSKVLKDKL EHQASLFASELILTDKMLNEALPYIQGFSKEQIAAYFNVPSFVTDYKLSQIGSFSNRI YSHEISAFG*" gene complement(530624..531133) /gene="immA" /locus_tag="BSU_04810" /old_locus_tag="BSU04810" downshifts complement(530936) /Source="Nicolas_upshifts" /id="D231" /incds=1 /nref=12 /ntot=39 /MaxReadThrough="6.14325" /MaxDrop="3.22989" /score="17.0287275" /energy="-11.8" /TU="U381" /idTUdmin="U384" /TUdmin=1518 /isTUend="FALSE" CDS complement(531130..531513) /gene="immR" /locus_tag="BSU_04820" /old_locus_tag="BSU04820" /function="16.5: Explore" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:8083175, 17511812, 22505685" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8083175, 17511812, 22505685; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: transcriptional regulator(Xre family)" /protein_id="NP_388363.1" /db_xref="EnsemblGenomes-Gn:BSU04820" /db_xref="EnsemblGenomes-Tr:CAB12289" /db_xref="GOA:P96631" /db_xref="InterPro:IPR001387" /db_xref="InterPro:IPR010982" /db_xref="InterPro:IPR027910" /db_xref="SubtiList:BG12101" /db_xref="UniProtKB/Swiss-Prot:P96631" /translation="MSLGKRLKEARQKAGYTQKEAAEKLNIGNNNLSNYERDYRDPDT DTLLKLSNLYNVSTDYLLGKDEVSKKNETDLLNKTINEAIQELKDEDTLLFMNDGEFD EETARLVKKALKNGIKFIDELKKKE*" gene complement(531130..531513) /gene="immR" /locus_tag="BSU_04820" /old_locus_tag="BSU04820" promotor_-10 complement(531542..531561) /Source="Nicolas_upshift_promotors" /id="U381" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.967032967032967" /psig=1 /xcortree=3028 /SigmaFactorBS="tagaattatttatttaacttataggtgaaatTAATGAATtct ccaaaaaatgtTGTTATTATTTTTATAAAAAtcaactctttgtgaaatggatgataaa a" /listShort="immR, immA, ydcL" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(531554) /Source="Nicolas_upshifts" /id="U381" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.967032967032967" /psig=1 /xcortree=3028 /SigmaFactorBS="tagaattatttatttaacttataggtgaaatTAATGAATtct ccaaaaaatgtTGTTATTATTTTTATAAAAAtcaactctttgtgaaatggatgataaa a" /listShort="immR, immA, ydcL" /GFF_Attribute="listLong" promotor_-35 complement(531576..531583) /Source="Nicolas_upshift_promotors" /id="U381" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.967032967032967" /psig=1 /xcortree=3028 /SigmaFactorBS="tagaattatttatttaacttataggtgaaatTAATGAATtct ccaaaaaatgtTGTTATTATTTTTATAAAAAtcaactctttgtgaaatggatgataaa a" /listShort="immR, immA, ydcL" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 531713..531720 /Source="Nicolas_upshift_promotors" /id="U382" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.98001998001998" /psig=1 /xcortree=2860 /SigmaFactorBS="tgttcaaaaaaatacactttaaggtgaattttgTGTTGACTt acacgaaaaggagTTTTATAATAAAGTTAATTCacaaagagttgagttaacgaggagg t" /listShort="sacV, ydzL, ydcO, S171, ydcP, ydcQ, ydcR" /listLong="S172, ydcS, ydcT, yddA, yddB, yddC, yddD, yddE, yddF, yddG, yddH, yddI, yddJ" /label="promotor_-35" promotor_-10 531735..531754 /Source="Nicolas_upshift_promotors" /id="U382" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.98001998001998" /psig=1 /xcortree=2860 /SigmaFactorBS="tgttcaaaaaaatacactttaaggtgaattttgTGTTGACTt acacgaaaaggagTTTTATAATAAAGTTAATTCacaaagagttgagttaacgaggagg t" /listShort="sacV, ydzL, ydcO, S171, ydcP, ydcQ, ydcR" /listLong="S172, ydcS, ydcT, yddA, yddB, yddC, yddD, yddE, yddF, yddG, yddH, yddI, yddJ" /label="promotor_-10" upshifts 531740 /Source="Nicolas_upshifts" /id="U382" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.98001998001998" /psig=1 /xcortree=2860 /SigmaFactorBS="tgttcaaaaaaatacactttaaggtgaattttgTGTTGACTt acacgaaaaggagTTTTATAATAAAGTTAATTCacaaagagttgagttaacgaggagg t" /listShort="sacV, ydzL, ydcO, S171, ydcP, ydcQ, ydcR" /listLong="S172, ydcS, ydcT, yddA, yddB, yddC, yddD, yddE, yddF, yddG, yddH, yddI, yddJ" CDS 531787..531981 /gene="xis" /locus_tag="BSU_04830" /old_locus_tag="BSU04830" /function="16.3: Control" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:3269394, 17511812, 22505685, 26013486" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 3269394, 17511812, 22505685, 26013486; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: excisionase" /protein_id="NP_388364.1" /db_xref="EnsemblGenomes-Gn:BSU04830" /db_xref="EnsemblGenomes-Tr:CAB12290" /db_xref="GOA:O31490" /db_xref="SubtiList:BG12670" /db_xref="UniProtKB/Swiss-Prot:O31490" /translation="MKGEFLTARDIQKILGVKQAKSYDIIRTLNAQMKEEGYMVIQGK VSRAKFEECYCYKGPKSQTG*" gene 531787..531981 /gene="xis" /locus_tag="BSU_04830" /old_locus_tag="BSU04830" CDS 531978..532238 /gene="ydzL" /locus_tag="BSU_04839" /old_locus_tag="BSU04839" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 22505685, 26013486; Product type h:extrachromosomal origin" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: conserved protein of unknown function" /protein_id="YP_003097681.1" /db_xref="EnsemblGenomes-Gn:BSU04839" /db_xref="EnsemblGenomes-Tr:CAX52552" /db_xref="UniProtKB/Swiss-Prot:C0H3V5" /translation="MIFINIDITNSFMKEAVPLARQMEGDWIARMKIALNSVIINHYL NLPLTIENVNELLRKGVSYRRICKHYGIGRKDIEKLRQSSVV*" gene 531978..532238 /gene="ydzL" /locus_tag="BSU_04839" /old_locus_tag="BSU04839" CDS 532292..532552 /gene="ydcO" /locus_tag="BSU_04840" /old_locus_tag="BSU04840" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 22505685, 26013486; Product type h:extrachromosomal origin" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: conserved protein of unknown function" /protein_id="NP_388365.1" /db_xref="EnsemblGenomes-Gn:BSU04840" /db_xref="EnsemblGenomes-Tr:CAB12291" /db_xref="SubtiList:BG12102" /db_xref="UniProtKB/Swiss-Prot:P96632" /translation="MKIRVNATIITDVEALKADKDLNHFKDYATCETFVVDADNHLKA NEEISELLKGWDWWCIWSTRPLSKKDNQVFTLYNDDLYNLCR*" gene 532292..532552 /gene="ydcO" /locus_tag="BSU_04840" /old_locus_tag="BSU04840" S_feature complement(532412..532652) /Source="Nicolas_S_feature" /locus_tag="new_532412_532652_c" /HighExp="T5.0H, T4.0H, T3.0H, Lbstat, T3.30H, T2.0H, Cold, Gly, S2, T2.30H" /AntisenseName="ydcO" /AntisenseCor="0.131178357364787" /AntisenseRegPval="-1.5" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.987" /TUlongSig="NA" /TUlongPSig="NA" /label="S170" promotor_-35 532578..532585 /Source="Nicolas_upshift_promotors" /id="U383" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.984015984015984" /psig="0.99000999000999" /xcortree=2861 /SigmaFactorBS="tgtcgataggagtgtttgttccttgaaaactacaTATAGACA aaaaaagcgccttgACGAATGATCATCAAGAACGccggaaaataaaaactagacactt t" /listShort="S171, ydcP, ydcQ, ydcR, S172, ydcS, ydcT, yddA, yddB, yddC, yddD, yddE, yddF, yddG, yddH, yddI, yddJ" /GFF_Attribute="listLong" /label="promotor_-35" misc_RNA complement(532583..532642) /gene="sncO" /locus_tag="BSU_misc_RNA_65" /product="ICEBs1 mobile element: conserved small untranslated RNA" /experiment="publication(s) with functional evidences, PMID:20525796, 22505685" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 20525796, 22505685; Product type n: RNA" gene complement(532583..532642) /gene="sncO" /locus_tag="BSU_misc_RNA_65" promotor_-10 532600..532619 /Source="Nicolas_upshift_promotors" /id="U383" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.984015984015984" /psig="0.99000999000999" /xcortree=2861 /SigmaFactorBS="tgtcgataggagtgtttgttccttgaaaactacaTATAGACA aaaaaagcgccttgACGAATGATCATCAAGAACGccggaaaataaaaactagacactt t" /listShort="S171, ydcP, ydcQ, ydcR, S172, ydcS, ydcT, yddA, yddB, yddC, yddD, yddE, yddF, yddG, yddH, yddI, yddJ" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 532604..532921 /Source="Nicolas_S_feature" /locus_tag="new_532604_532921" /HighExp="T0.30H, T0.0H, T1.0H, T1.30H, T-0.40H, T2.0H, HiOs, T2.30H, MG 120, T-1.10H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.99, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S171" upshifts 532604 /Source="Nicolas_upshifts" /id="U383" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.984015984015984" /psig="0.99000999000999" /xcortree=2861 /SigmaFactorBS="tgtcgataggagtgtttgttccttgaaaactacaTATAGACA aaaaaagcgccttgACGAATGATCATCAAGAACGccggaaaataaaaactagacactt t" /listShort="S171, ydcP, ydcQ, ydcR, S172, ydcS, ydcT, yddA, yddB, yddC, yddD, yddE, yddF, yddG, yddH, yddI, yddJ" /GFF_Attribute="listLong" promotor_-10 complement(532637..532656) /Source="Nicolas_upshift_promotors" /id="U384" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.78021978021978" /psig="0.987012987012987" /xcortree=3113 /SigmaFactorBS="tttaaagtgattgctgttcatcactcaaatactcaCGCATGA CatttcaacaagaaTACCGTATAATAAAAGTGTCtagtttttattttccggcgttctt g" /listShort="S170" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(532652) /Source="Nicolas_upshifts" /id="U384" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.78021978021978" /psig="0.987012987012987" /xcortree=3113 /SigmaFactorBS="tttaaagtgattgctgttcatcactcaaatactcaCGCATGA CatttcaacaagaaTACCGTATAATAAAAGTGTCtagtttttattttccggcgttctt g" /listShort="S170" /GFF_Attribute="listLong" promotor_-35 complement(532670..532677) /Source="Nicolas_upshift_promotors" /id="U384" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.78021978021978" /psig="0.987012987012987" /xcortree=3113 /SigmaFactorBS="tttaaagtgattgctgttcatcactcaaatactcaCGCATGA CatttcaacaagaaTACCGTATAATAAAAGTGTCtagtttttattttccggcgttctt g" /listShort="S170" /GFF_Attribute="listLong" /label="promotor_-35" CDS 532758..532886 /locus_tag="BSU_04849" /old_locus_tag="BSU04849" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function; PubMedId : 22505685" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: hypothetical protein" /protein_id="YP_009513947.1" /translation="MMAIISLLGCHEGVKPLATDKRQDGYRTGANQKHKIEINVLL*" gene 532758..532886 /locus_tag="BSU_04849" /old_locus_tag="BSU04849" CDS 532922..533302 /gene="helP" /locus_tag="BSU_04850" /old_locus_tag="BSU04850" /experiment="publication(s) with functional evidences, PMID:22505685, 23326247, 26013486" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 22505685, 23326247, 26013486; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: helicase processivity factor" /protein_id="NP_388366.1" /db_xref="EnsemblGenomes-Gn:BSU04850" /db_xref="EnsemblGenomes-Tr:CAB12292" /db_xref="InterPro:IPR010365" /db_xref="SubtiList:BG12103" /db_xref="UniProtKB/Swiss-Prot:P96633" /translation="MNLNFIVPDINMTFGDMKFMGLNRERYVYDRENNKRTDVLESRI YNIASAVQGGQIEVTIPEYAGAKEIPPFADIELKNPKISAMATSQRDSTYANVMWKLE ADDIVVKGGSSVKPAAATGGNEKK*" gene 532922..533302 /gene="helP" /locus_tag="BSU_04850" /old_locus_tag="BSU04850" CDS 533338..534780 /gene="conQ" /locus_tag="BSU_04860" /old_locus_tag="BSU04860" /experiment="publication(s) with functional evidences, PMID:17511812, 22505685, 26013486" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 17511812, 22505685, 26013486; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: coupling conjugation protein VirD4" /protein_id="NP_388367.1" /db_xref="EnsemblGenomes-Gn:BSU04860" /db_xref="EnsemblGenomes-Tr:CAB12293" /db_xref="GOA:P96634" /db_xref="InterPro:IPR002543" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG12104" /db_xref="UniProtKB/Swiss-Prot:P96634" /translation="MSDFLNKRFWKYRGKRIRPYMRNNVKLAGAIIFVPVFLLSMFLF WREQLIHFDLSQVIKNFEWNVPLIIKSVLCSVLIAVGSIVASYFLLFDSYKKILHRQK IAKMIFSNKFYEKENVKVRKIFSNETDSKEKITYFPRMYYQVKNNHIYIRIAMDMSRF QNRFLDLGKDLENGLFCDLVDKQMEEGFVCFKLLYDVKKNRISIDDAVAENGVLPLMK HISWQFDKLPHMLIAGGTGGGKTYFMLTIIKACVGLGADVRILDPKNADLADLEEVLP KKVYSQKNGILMCLRKSVDGMMERMDEMKQMSNYKTGENYAYLGLKPVFIFFDEYVAF MDLLDMKERNEALSYMKQLVMLGRQAGYFLVLGAQRPDAKYLADGIRDQFSFRVSLGL MSDTGYGMMFGDVEKAYVNKKETGRGYANVGTGSVLEFYSPIVPKGYDFMSSIKNALV GVEGAQATAVASGSVSDQTASGEGVSEANG*" gene 533338..534780 /gene="conQ" /locus_tag="BSU_04860" /old_locus_tag="BSU04860" CDS 534773..535831 /gene="nicK" /locus_tag="BSU_04870" /old_locus_tag="BSU04870" /experiment="publication(s) with functional evidences, PMID:17511812, 17693500, 22505685, 26013486" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 17511812, 17693500, 22505685, 26013486; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: DNA relaxase" /protein_id="NP_388368.1" /db_xref="EnsemblGenomes-Gn:BSU04870" /db_xref="EnsemblGenomes-Tr:CAB12294" /db_xref="GOA:P96635" /db_xref="InterPro:IPR003491" /db_xref="SubtiList:BG12105" /db_xref="UniProtKB/Swiss-Prot:P96635" /translation="MDELKQPPHANRGVVIVKEKNEAVESPLVSMVDYIRVSFKTHDV DRIIEEVLHLSKDFMTEKQSGFYGYVGTYELDYIKVFYSAPDDNRGVLIEMSGQGCRQ FESFLECRKKTWYDFFQDCMQQGGSFTRFDLAIDDKKTYFSIPELLKKAQKGECISRF RKSDFNGSFDLSDGITGGTTIYFGSKKSEAYLCFYEKNYEQAEKYNIPLEELGDWNRY ELRLKNERAQVAIDALLKTKDLTLIAMQIINNYVRFVDADENITREHWKTSLFWSDFI GDVGRLPLYVKPQKDFYQKSRNWLRNSCAPTMKMVLEADEHLGKTDLSDMIAEAELAD KHKKMLDVYMADVADMVV*" gene 534773..535831 /gene="nicK" /locus_tag="BSU_04870" /old_locus_tag="BSU04870" downshifts 534776 /Source="Nicolas_upshifts" /id="D232" /incds=0 /nref=1 /ntot=1 /MaxReadThrough="5.48512" /MaxDrop="3.25403" /score="-9.5933493" /energy="-23.1" /TU="U382,U383" /idTUdmin="U382" /TUdmin="-176" /isTUend="FALSE" S_feature 535832..536095 /Source="Nicolas_S_feature" /locus_tag="new_535832_536095" /HighExp="T0.30H, T1.0H, T1.30H, T0.0H, T2.0H, T2.30H, T-0.40H, T3.0H, T3.30H, MG 120" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.99" /TUlongSig="SigA" /TUlongPSig=1 /label="S172" CDS 536096..536365 /gene="ydcS" /locus_tag="BSU_04880" /old_locus_tag="BSU04880" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 22505685; Product type h :extrachromosomal origin" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: conserved protein of unknown function" /protein_id="NP_388369.1" /db_xref="EnsemblGenomes-Gn:BSU04880" /db_xref="EnsemblGenomes-Tr:CAB12295" /db_xref="SubtiList:BG12106" /db_xref="UniProtKB/Swiss-Prot:P96636" /translation="MHNVNLLNQAGLENALESVGCLDIVEDLIEKMQEYVLYHTETAE RFAIDIFTVVNNYTKKVHAIFNVLENEDGETNVKNVEFEVMHFTE*" gene 536096..536365 /gene="ydcS" /locus_tag="BSU_04880" /old_locus_tag="BSU04880" promotor_-10 complement(536156..536175) /Source="Nicolas_upshift_promotors" /id="U385" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.956043956043956" /psig="0.998001998001998" /xcortree=2065 /SigmaFactorBS="aatctttcggcagtttcggtatgatacaaaacataTTCCTGC AtcttttctattaaaTCTTCTACAATATCTAAACAgccaactgattccaaagcatttt c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(536172) /Source="Nicolas_upshifts" /id="U385" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.956043956043956" /psig="0.998001998001998" /xcortree=2065 /SigmaFactorBS="aatctttcggcagtttcggtatgatacaaaacataTTCCTGC AtcttttctattaaaTCTTCTACAATATCTAAACAgccaactgattccaaagcatttt c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(536190..536197) /Source="Nicolas_upshift_promotors" /id="U385" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.956043956043956" /psig="0.998001998001998" /xcortree=2065 /SigmaFactorBS="aatctttcggcagtttcggtatgatacaaaacataTTCCTGC AtcttttctattaaaTCTTCTACAATATCTAAACAgccaactgattccaaagcatttt c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 536404..536670 /gene="ydcT" /locus_tag="BSU_04890" /old_locus_tag="BSU04890" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 22505685; Product type h :extrachromosomal origin" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: conserved protein of unknown function" /protein_id="NP_388370.1" /db_xref="EnsemblGenomes-Gn:BSU04890" /db_xref="EnsemblGenomes-Tr:CAB12296" /db_xref="SubtiList:BG12107" /db_xref="UniProtKB/Swiss-Prot:P96637" /translation="MFNINLLNQARLESDLDSLGCLDIAEELIEKMMEDVFYSDVAQR IIVQTLAVINNANAKLQATFNILEDEDMETDERSVEFEGISYYE*" gene 536404..536670 /gene="ydcT" /locus_tag="BSU_04890" /old_locus_tag="BSU04890" CDS 536687..536995 /gene="yddA" /locus_tag="BSU_04900" /old_locus_tag="BSU04900" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 22505685; Product type h :extrachromosomal origin" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: conserved protein of unknown function" /protein_id="NP_388371.1" /db_xref="EnsemblGenomes-Gn:BSU04900" /db_xref="EnsemblGenomes-Tr:CAB12297" /db_xref="SubtiList:BG12108" /db_xref="UniProtKB/Swiss-Prot:P96638" /translation="MSAVDKRFKSLGFNVGIPSLVFVRSLSRDCMLVVEGERVKGFAE YRYTFYKTRYLPDGRMTSLKVYMENQSIKRVLHRVASFLSFLERTKQIEQKECEKVAQ *" gene 536687..536995 /gene="yddA" /locus_tag="BSU_04900" /old_locus_tag="BSU04900" CDS 536985..538049 /gene="conB" /locus_tag="BSU_04910" /old_locus_tag="BSU04910" /experiment="publication(s) with functional evidences, PMID:22505685, 26013486" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 22505685, 26013486; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: subunit of the conjugation machinery VirB8" /protein_id="NP_388372.1" /db_xref="EnsemblGenomes-Gn:BSU04910" /db_xref="EnsemblGenomes-Tr:CAB12298" /db_xref="GOA:O31491" /db_xref="InterPro:IPR024735" /db_xref="InterPro:IPR035628" /db_xref="SubtiList:BG12109" /db_xref="UniProtKB/Swiss-Prot:O31491" /translation="MLNKEIGSDKKEESFFRSAFQKLKRIERPEKDKQKVPRDRSKLI AVTLWSCVGSLLFICLLAVLLSINTRSQLNDMKDETNKPTNDDKQKISVTAAENFLSG FINEYMNVKNDQESIEKRMQSLESYMVKQEDNHFEDEERFNVDGLKGDRELKGYSLYN VKEGDKNSLFQYKVTYENLYPVEKEVEKEVKDGKKKKKVKEKVKTNEKYEKQMLLNIP VTNKGDSFAVSAVPYFTQIYDLKGDIAFKGKEETRDEYAGEKKESIESFLQNFFEKYA SEKKEEMVYMMKKPEALEGNLLFGEVQSVKIFETKKGFEVFCAVRFKEKENDIPVNEK FSLEITENSGQFYVNKLKHQ*" gene 536985..538049 /gene="conB" /locus_tag="BSU_04910" /old_locus_tag="BSU04910" misc_feature 537523..537530 /Source="Nicolas_upshift_promotors" /id="U386" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.363636363636364" /psig="0.454545454545455" /xcortree=1489 /SigmaFactorBS="tgaaagaaggtgataaaaacagcctttttcaatataaggtca catatgaaaatctatACCCTGTAgaaaaggaagttgaaaaagaagttaaagacggaaa g" /listShort="yddC, yddD, yddE, yddF, yddG, yddH, yddI" /listLong="yddJ" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 537526 /Source="Nicolas_upshifts" /id="U386" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.363636363636364" /psig="0.454545454545455" /xcortree=1489 /SigmaFactorBS="tgaaagaaggtgataaaaacagcctttttcaatataaggtca catatgaaaatctatACCCTGTAgaaaaggaagttgaaaaagaagttaaagacggaaa g" /listShort="yddC, yddD, yddE, yddF, yddG, yddH, yddI" /listLong="yddJ" downshifts 537614 /Source="Nicolas_upshifts" /id="D233" /incds=1 /nref=1 /ntot=15 /MaxReadThrough="6.32422" /MaxDrop="3.45679" /score="-2.67923628" /energy="-7.8" /TU="U383,U386" /idTUdmin="U382" /TUdmin=2662 /isTUend="FALSE" CDS 538061..538309 /gene="conC" /locus_tag="BSU_04920" /old_locus_tag="BSU04920" /function="18: Unknown function" /experiment="publication(s) with functional evidences, PMID:22505685, 26013486" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 22505685, 26013486; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: subunit of the conjugation machinery" /protein_id="NP_388373.1" /db_xref="EnsemblGenomes-Gn:BSU04920" /db_xref="EnsemblGenomes-Tr:CAB12299" /db_xref="GOA:P96640" /db_xref="SubtiList:BG12110" /db_xref="UniProtKB/Swiss-Prot:P96640" /translation="MDFMNFFILGADLPTLGGVKGWASDVVIQFITIVVMFIAAKNLM KLKMGGIIFVCCIGSAVTWVIKHWSEFSGWINALMEKL*" gene 538061..538309 /gene="conC" /locus_tag="BSU_04920" /old_locus_tag="BSU04920" CDS 538322..538846 /gene="conD" /locus_tag="BSU_04930" /old_locus_tag="BSU04930" /experiment="publication(s) with functional evidences, PMID:22505685, 26013486" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 22505685, 26013486; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: subunit of the conjugation machinery" /protein_id="NP_388374.1" /db_xref="EnsemblGenomes-Gn:BSU04930" /db_xref="EnsemblGenomes-Tr:CAB12300" /db_xref="GOA:P96641" /db_xref="InterPro:IPR025608" /db_xref="SubtiList:BG12111" /db_xref="UniProtKB/Swiss-Prot:P96641" /translation="MGRLVFNYRKAMREPKKIQQLTENYSLPFAVELIPAINYFIFVG LCFGFWYGVRMIFPHAFDNSYVIVIFGIPFFLTMLVTKIKPEGKNIYIYFFDFAKYYF FIKLPQKKYCNDRKIDLSNEKQIEFRKLVKVVDYSNETKNAYEGNTQEFAVNKNGRRV GVLPNKKQFDSYAK*" gene 538322..538846 /gene="conD" /locus_tag="BSU_04930" /old_locus_tag="BSU04930" CDS 538734..541229 /gene="conE" /locus_tag="BSU_04940" /old_locus_tag="BSU04940" /experiment="publication(s) with functional evidences, PMID:19734305, 19943900, 22505685, 26013486" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 19734305, 19943900, 22505685, 26013486; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: VirB4-like ATPase" /protein_id="NP_388375.3" /db_xref="EnsemblGenomes-Gn:BSU04940" /db_xref="EnsemblGenomes-Tr:CAB12301" /db_xref="GOA:P96642" /db_xref="InterPro:IPR016628" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG12112" /db_xref="UniProtKB/Swiss-Prot:P96642" /translation="MRLKTPMKAIHKNLLLTRTGDVWAYYRIKSNSIPMQNKEKVESY KKKWQHLFEEITSYEDFHLMMYPSEYELEKRFKDLETDIAADAMDVARYYNEETVRLL EQRLGRLTKYDFILGVKLKSSLVNISVELKDNILSFFNTATDTVVKMLGWEQNVSTSF FEKYEEVEETLANIMASVRGERLSETEMTYINRYHFVRGLKHQTNEESEIKDVRSITN TIIDPTDPSVLHLHSDQDEGYSAFVVIDEFLHNMSESDLFYEAQSLPFPVEVQMKIQT ESKSITKPALNLKRQQLKEEQKEQQSTGDRSDVSTVTSATMIRHLQDEIKKEDVHVMN WLSVIVVHGKTKKECVGKATIVKRHLKGAGITCRLPVADQLNLFYKMLPGEKLDITDK NWIQKTTQDGVAESLFAVNSDIGSKIGFFLGWVDRFQEHTDLESAIMSSRDFVLFHPF LANQQLKGSKTRSPHCLITGDTGNGKSYLAKLIFNYISMLNIKSLYIDPKKEMRKWIQ RVLNDEYIRENFPLYIAHLEKYNYITLDHENTHNWGALDPISFLPPMKAKELVQVIFE QVYDFKGKDDINTAFLRATSEVIDAKQKGEQVGSLDIIRKMQSHPEEAVQKAGDYLNE VVSDSILKLCIHDGSNPALSLEKRITILEVENMDLPDHAERLENYTISQLKSSAVMFA LGKFCELFGMNQDEQTVEFIDEAWIFTTSQQGKKVERQMRRIGRSYNNAEYFISQSTK DALKEEDSGNFGVAFAFDEPNEREEVLKWMNMEVTKDNKKMMESMFQGQCLFKDYYGR TSKISIECLFEEWQGALKTVEKKAVAYAEEKYL*" gene 538734..541229 /gene="conE" /locus_tag="BSU_04940" /old_locus_tag="BSU04940" CDS 541248..541574 /gene="yddF" /locus_tag="BSU_04950" /old_locus_tag="BSU04950" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 19943900, 22505685, 26013486; Producttype h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: conserved protein of unknown function" /protein_id="NP_388376.1" /db_xref="EnsemblGenomes-Gn:BSU04950" /db_xref="EnsemblGenomes-Tr:CAB12302" /db_xref="InterPro:IPR015055" /db_xref="SubtiList:BG12113" /db_xref="UniProtKB/Swiss-Prot:P96643" /translation="MEIAFLNSLVVTSPGFYKAEKITLDEVKQWLKHYDGRYKSFIGH KSTAQFLQKLLGIRIEQNRKTFRHMKYQKAICFSLYERYPENVLLTQRDLEKARYQFY LLTRLD*" gene 541248..541574 /gene="yddF" /locus_tag="BSU_04950" /old_locus_tag="BSU04950" CDS 541578..544025 /gene="conG" /locus_tag="BSU_04960" /old_locus_tag="BSU04960" /experiment="publication(s) with functional evidences, PMID:19943900, 22505685, 26013486" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 19943900, 22505685, 26013486; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: VirB6 subunit of the conjugation machinery" /protein_id="NP_388377.1" /db_xref="EnsemblGenomes-Gn:BSU04960" /db_xref="EnsemblGenomes-Tr:CAB12303" /db_xref="GOA:P96644" /db_xref="InterPro:IPR000515" /db_xref="SubtiList:BG12114" /db_xref="UniProtKB/Swiss-Prot:P96644" /translation="MVVMKKKRILIVSAIVLLFLTVASAVTVFSADGDTTTQPKVEKA GGVELKVKRFPISRYQANNEASDDLIKGAFVGLTNVTFSFAGNIVRVVDTGMDILYNL QPIDEFANSITNVSKTVYKTLKKNFGEALFIFTCAYVVYLFCVRGSVKEAMRRSILFI CVMVIGGLWMSNAGYYMKVLNALSVEAQGKLLTAGNGLVGIVQDEGNFADSSAIEKGK EMEGTVAVMRNLYFDIALMKPFLIVNFDETSEKKINEEDTDKGGLNRIDKLLSYKLSE DGEKDKKDYIKETEIDDYKNESMTSGNVFNQLGESFIAVVASIVIGIPFLALAFFNFL LQVVALVIVFFVPFAFILAYVPQLAYSGFVTLGRLGSVYLLKAMLGVIVLFVYVTCFI VDKLIPPNGFGMYLLNVAVLASILWIGFHKRDAIIKFVTAGKVVSVDNNMMENMRQNI VQPAWEQAKKIGGVWGNGGGVFTDFTKHFGGRKDGSNADGVTGAPSGGGNSPSGTAMG YDNTHAISRTPQKETANGIANHNSRSLKRNPQTLSKEQEKQKQKEAFANAKENKQQSH LARLRKDGINSPMLKDALNEGNEDLSKRAPILQDKKDESARTDQKEYVEQLLKQPNNQ QQTDDASLQHEEESTSNRAPVLQENEKDTERTDQKAYIYDEQNQNLETDQQQDFEVQK DDSVSNSEPVAQEKTAEIKRSDQKVMMNQPEPQLGFESPQSTKVENQPIANNERKIRP SEPAKVHSDGIRVDEKQAVAPAENKTVSREKQPSSQTIKRTEQSVNSFDQVSLNEIAR RSSSKVEDRLRRDERTR*" gene 541578..544025 /gene="conG" /locus_tag="BSU_04960" /old_locus_tag="BSU04960" CDS 544022..545011 /gene="cwlT" /locus_tag="BSU_04970" /old_locus_tag="BSU04970" /experiment="publication(s) with functional evidences, PMID:18305117, 22505685, 24532767, 26013486" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 18305117, 22505685, 24532767, 26013486; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: two-domain autolysin withN-acetylmuramidase and DL-endopeptidase activity VirB1" /protein_id="NP_388378.1" /db_xref="EnsemblGenomes-Gn:BSU04970" /db_xref="EnsemblGenomes-Tr:CAB12304" /db_xref="GOA:P96645" /db_xref="InterPro:IPR000064" /db_xref="InterPro:IPR023346" /db_xref="SubtiList:BG12115" /db_xref="UniProtKB/Swiss-Prot:P96645" /translation="MISKKVVLPLVFSAPFIFFFVLCIVVVMTISRENQVGDDFIGGG DGEYETVGIAPEVERFRAVFEKYARQEGVFDQVNIIMALTMQESGGRSLDIMQSSESI GLPPNSITDPERSIEVGIKHFKKVFKQAGGDVRLTLQAYNFGSGFIDYVKKNGGKYTK KLALDFSRLQAFKMGWKSYGDPSYVDHVMRYVKGSDKNVKPVKGSMDFYETVMKEALK YEGQPYAWGGSNPETGFDCSGLVQWSFAKAGITLPRTAQEQHGATKKISEKEATAGDL VFFGGTYEGKAITHVGIYVGNGRMFNSNDSGIQYSDLKSGYWRDHLVSFGRIK*" gene 544022..545011 /gene="cwlT" /locus_tag="BSU_04970" /old_locus_tag="BSU04970" CDS 545026..545532 /gene="yddI" /locus_tag="BSU_04980" /old_locus_tag="BSU04980" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 22505685; Product type h :extrachromosomal origin" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: conserved protein of unknown function" /protein_id="NP_388379.1" /db_xref="EnsemblGenomes-Gn:BSU04980" /db_xref="EnsemblGenomes-Tr:CAB12305" /db_xref="GOA:P96646" /db_xref="SubtiList:BG12116" /db_xref="UniProtKB/Swiss-Prot:P96646" /translation="MKTHIAWASACLLLVMLTGFFTIGQQTYKIEKLKDKNEVLSEKI KELNHIESTSSASENKAFFEAFFNYSDIDIRYETVKKHTTGKGFDYAFPSRSDQKHTV SVQSELLSLESYSKPLDESHELFLNIVEVATTANSVTTNQVLIVQTTMKKEKDGWLVD NVQVKGNG*" gene 545026..545532 /gene="yddI" /locus_tag="BSU_04980" /old_locus_tag="BSU04980" promotor_-35 545535..545541 /Source="Nicolas_upshift_promotors" /id="U387" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.464535464535465" /psig="0.997002997002997" /xcortree=555 /SigmaFactorBS="ataatgtgcaggttaagggaaatggataaaaGGTGGAAaaga tcaatttgtTTGTTTATACTAAATATTGAaaaaggaggtaatgtttattttgaaaaac c" /listShort="yddJ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 545555..545574 /Source="Nicolas_upshift_promotors" /id="U387" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.464535464535465" /psig="0.997002997002997" /xcortree=555 /SigmaFactorBS="ataatgtgcaggttaagggaaatggataaaaGGTGGAAaaga tcaatttgtTTGTTTATACTAAATATTGAaaaaggaggtaatgtttattttgaaaaac c" /listShort="yddJ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 545564 /Source="Nicolas_upshifts" /id="U387" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.464535464535465" /psig="0.997002997002997" /xcortree=555 /SigmaFactorBS="ataatgtgcaggttaagggaaatggataaaaGGTGGAAaaga tcaatttgtTTGTTTATACTAAATATTGAaaaaggaggtaatgtttattttgaaaaac c" /listShort="yddJ" /GFF_Attribute="listLong" CDS 545595..545975 /gene="yddJ" /locus_tag="BSU_04990" /old_locus_tag="BSU04990" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type lp: lipoprotein" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: putative lipoprotein of unknown function" /protein_id="NP_388380.1" /db_xref="EnsemblGenomes-Gn:BSU04990" /db_xref="EnsemblGenomes-Tr:CAB12306" /db_xref="InterPro:IPR028075" /db_xref="SubtiList:BG12117" /db_xref="UniProtKB/Swiss-Prot:P96647" /translation="MKNLFIFLSLMMMFVLTACGGSKYDDAIDDVISQYKEHKGNDTE INIKRENAIVRVYEGGKYIQFAFYMPDNSSRELTTFKYYEKFGDKYEKMTDMPGNGEN DRLGLSKKTPDYEEVKGEETELEE*" gene 545595..545975 /gene="yddJ" /locus_tag="BSU_04990" /old_locus_tag="BSU04990" downshifts 545952 /Source="Nicolas_upshifts" /id="D234" /incds=0 /nref=167 /ntot=245 /MaxReadThrough="2.07932" /MaxDrop="5.51482" /score="8.08816145" /energy="-14.7" /TU="NA" /idTUdmin="U383" /TUdmin=0 /isTUend="TRUE" downshifts complement(546028) /Source="Nicolas_upshifts" /id="D235" /incds=0 /nref=51 /ntot=228 /MaxReadThrough="3.21157" /MaxDrop="4.80215" /score="-2.66780619" /energy="-18.7" /TU="U388" /idTUdmin="U388" /TUdmin="-110" /isTUend="FALSE" S_feature complement(546051..546165) /Source="Nicolas_S_feature" /locus_tag="new_546051_546165_c" /HighExp="LPhT, Lbtran, Mt0, HiTm, Lbexp, M40t45, M0t45, HPh, dia0, Mal" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S173" downshifts complement(546094) /Source="Nicolas_upshifts" /id="D236" /incds=0 /nref=1 /ntot=2 /MaxReadThrough="5.69722" /MaxDrop="4.64006" /score="-2.66780619" /energy="-18.7" /TU="U388" /idTUdmin="U388" /TUdmin="-176" /isTUend="FALSE" CDS complement(546166..546966) /gene="yddK" /locus_tag="BSU_05000" /old_locus_tag="BSU05000" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 22505685; Product type h :extrachromosomal origin" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: conserved protein of unknown function" /protein_id="NP_388381.1" /db_xref="EnsemblGenomes-Gn:BSU05000" /db_xref="EnsemblGenomes-Tr:CAB12307" /db_xref="GOA:P96648" /db_xref="InterPro:IPR000157" /db_xref="InterPro:IPR035897" /db_xref="SubtiList:BG12118" /db_xref="UniProtKB/Swiss-Prot:P96648" /translation="MDTLKKLKFEANGIIGVLLDYSREPVLTNIIDQFRTSLESNDIE LIRYSLEQLKTWYARNRNEIYKNEFVFNEFEHHETENKIKKFLDELPVVDETEKSSIT HFSSDQNRELEKKIFISHSSKDKIVCNAFVELLEDIGVSSEDIIYTSSPYHGIPGDED IFEYLKKHLFKGAYVFYMLSDNYYDSVYCLNEMGATWVNSNNCSTFILPGFKGEIKGV IDKNKKAFSLEEPIDLFNLKEKILRMYDLTLEDKKWERIKAKFNTKLK*" gene complement(546166..546966) /gene="yddK" /locus_tag="BSU_05000" /old_locus_tag="BSU05000" promotor_-10 complement(547011..547030) /Source="Nicolas_upshift_promotors" /id="U388" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.762237762237762" /psig=1 /xcortree=2317 /SigmaFactorBS="tttatgaattacccaaacaatccagactgctttaaaataaGT AGttagaataggagtctATGTTATATAATTAGATATGaaatgtttacaaacaatggat t" /listShort="yddK, S173" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(547029) /Source="Nicolas_upshifts" /id="U388" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.762237762237762" /psig=1 /xcortree=2317 /SigmaFactorBS="tttatgaattacccaaacaatccagactgctttaaaataaGT AGttagaataggagtctATGTTATATAATTAGATATGaaatgtttacaaacaatggat t" /listShort="yddK, S173" /GFF_Attribute="listLong" promotor_-35 complement(547046..547049) /Source="Nicolas_upshift_promotors" /id="U388" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.762237762237762" /psig=1 /xcortree=2317 /SigmaFactorBS="tttatgaattacccaaacaatccagactgctttaaaataaGT AGttagaataggagtctATGTTATATAATTAGATATGaaatgtttacaaacaatggat t" /listShort="yddK, S173" /GFF_Attribute="listLong" /label="promotor_-35" CDS 547306..548481 /gene="rapI" /locus_tag="BSU_05010" /old_locus_tag="BSU05010" /EC_number="3.1.-.-" /experiment="publication(s) with functional evidences, PMID:16105942, 22505685, 23526881" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16105942, 22505685, 23526881; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: response regulator aspartate phosphatase" /protein_id="NP_388382.1" /db_xref="EnsemblGenomes-Gn:BSU05010" /db_xref="EnsemblGenomes-Tr:CAB12308" /db_xref="GOA:P96649" /db_xref="InterPro:IPR011990" /db_xref="InterPro:IPR013026" /db_xref="InterPro:IPR019734" /db_xref="PDB:4I1A" /db_xref="SubtiList:BG12119" /db_xref="UniProtKB/Swiss-Prot:P96649" /translation="MRGVFLDKDKIPYDLVTKKLNEWYTSIKNDQVEQAEIIKTEVEK ELLNMEENQDALLYYQLLEFRHEIMLSYMKSKEIEDLNNAYETIKEIEKQGQLTGMLE YYFYFFKGMYEFRRKELISAISAYRIAESKLSEVEDEIEKAEFFFKVSYVYYYMKQTY FSMNYANRALKIFREYEEYAVQTVRCQFIVAGNLIDSLEYERALEQFLKSLEISKESN IEHLIAMSHMNIGICYDELKEYKKASQHLILALEIFEKSKHSFLTKTLFTLTYVEAKQ QNYNVALIYFRKGRFIADKSDDKEYSAKFKILEGLFFSDGETQLIKNAFSYLASRKMF ADVENFSIEVADYFHEQGNLMLSNEYYRMSIEARRKIKKGEIIDENQPDSIGSSDFK* " gene 547306..548481 /gene="rapI" /locus_tag="BSU_05010" /old_locus_tag="BSU05010" promotor_-35 548161..548168 /Source="Nicolas_upshift_promotors" /id="U389" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=2790 /SigmaFactorBS="aacaaaattataatgttgctttgatatacTTTAGGAAagggc gatttattGCCGATAAAAGTGATGATAaggaatactcagcgaaattcaaaatattaga g" /listShort="phrI, yddM, S174" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 548182..548200 /Source="Nicolas_upshift_promotors" /id="U389" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=2790 /SigmaFactorBS="aacaaaattataatgttgctttgatatacTTTAGGAAagggc gatttattGCCGATAAAAGTGATGATAaggaatactcagcgaaattcaaaatattaga g" /listShort="phrI, yddM, S174" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 548192 /Source="Nicolas_upshifts" /id="U389" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=2790 /SigmaFactorBS="aacaaaattataatgttgctttgatatacTTTAGGAAagggc gatttattGCCGATAAAAGTGATGATAaggaatactcagcgaaattcaaaatattaga g" /listShort="phrI, yddM, S174" /GFF_Attribute="listLong" promotor_-35 548389..548395 /Source="Nicolas_upshift_promotors" /id="U390" /multdbtbs="SigH" /comp="M8" /sig="SigGF" /pcomp="0.902097902097902" /psig="0.902097902097902" /xcortree=882 /SigmaFactorBS="agtcgctgattattttcatgaacaaggaaatttaatgctctc taatgaatattatCGTATGAgtattgaagcaagaCGAAAAATTAAAaaaggggagatt a" /listShort="phrI" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 548394 /Source="Nicolas_upshifts" /id="U390" /multdbtbs="SigH" /comp="M8" /sig="SigGF" /pcomp="0.902097902097902" /psig="0.902097902097902" /xcortree=882 /SigmaFactorBS="agtcgctgattattttcatgaacaaggaaatttaatgctctc taatgaatattatCGTATGAgtattgaagcaagaCGAAAAATTAAAaaaggggagatt a" /listShort="phrI" /GFF_Attribute="listLong" promotor_-10 548410..548421 /Source="Nicolas_upshift_promotors" /id="U390" /multdbtbs="SigH" /comp="M8" /sig="SigGF" /pcomp="0.902097902097902" /psig="0.902097902097902" /xcortree=882 /SigmaFactorBS="agtcgctgattattttcatgaacaaggaaatttaatgctctc taatgaatattatCGTATGAgtattgaagcaagaCGAAAAATTAAAaaaggggagatt a" /listShort="phrI" /GFF_Attribute="listLong" /label="promotor_-10" CDS 548438..548557 /gene="phrI" /locus_tag="BSU_05020" /old_locus_tag="BSU05020" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:16816200, 21908671, 22505685" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16816200, 21908671, 22505685; Product type r: regulator" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: secreted regulator of theactivity of phosphatase RapI" /protein_id="NP_388383.1" /db_xref="EnsemblGenomes-Gn:BSU05020" /db_xref="EnsemblGenomes-Tr:CAB12309" /db_xref="SubtiList:BG12645" /db_xref="UniProtKB/Swiss-Prot:O31492" /translation="MKISRILLAAVILSSVFSITYLQSDHNTEIKVAADRVGA*" gene 548438..548557 /gene="phrI" /locus_tag="BSU_05020" /old_locus_tag="BSU05020" downshifts 548555 /Source="Nicolas_upshifts" /id="D237" /incds=0 /nref=46 /ntot=227 /MaxReadThrough="4.14733" /MaxDrop="5.8523" /score="15.7846721" /energy="-10.4" /TU="U389" /idTUdmin="U390" /TUdmin="-15" /isTUend="TRUE" CDS 548710..549651 /gene="yddM" /locus_tag="BSU_05030" /old_locus_tag="BSU05030" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 22505685; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="ICEBs1 mobile element: putative helicase" /protein_id="NP_388384.1" /db_xref="EnsemblGenomes-Gn:BSU05030" /db_xref="EnsemblGenomes-Tr:CAB12310" /db_xref="GOA:P96650" /db_xref="SubtiList:BG12120" /db_xref="UniProtKB/Swiss-Prot:P96650" /translation="MGENMFKKEKVTEYIWTILIPTIITFIISWVGSYYNGTSTVSIG QPTKVSGQYITPINISPYHDIKELRITFPQKLDVKQISSNEPINVKSDKNNIGVESNS TFEIAKIVENNSVQLLITTQKKLNDKEIRIDKNGNNISVNYESQIVNPAKKQLINLII TSSIYFIMLNILALIMNKRWDKYYAKMKNEIKEFEDNAKDLDKKSKKKSEELSELRKT LNQAFEETDRIKYHEKKKQILLLAKLNDYKKELTFWRNTIRKVLYELPDGDKKADKLI GTVTSSLKTYGTVEKNEHDYESLKVAAALLNDSDKRS*" gene 548710..549651 /gene="yddM" /locus_tag="BSU_05030" /old_locus_tag="BSU05030" S_feature 549652..549910 /Source="Nicolas_S_feature" /locus_tag="new_549652_549910" /HighExp="HPh, S1, Gly, LoTm, LPh, MG 120, GM-0.1, aero, S2, M9-exp" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.80510899999999996" /TUshortSig="SigD" /TUshortPSig="0.994" /TUlongSig="NA" /TUlongPSig="NA" /label="S174" S_feature complement(549923..550239) /Source="Nicolas_S_feature" /locus_tag="new_549923_550239_c" /HighExp="Diami, dia15, dia5, HPh, Etha, H2O2, Cold, LPh, C90, Paraq" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S175" downshifts 549952 /Source="Nicolas_upshifts" /id="D238" /incds=0 /nref=3 /ntot=115 /MaxReadThrough="0.144629999999999" /MaxDrop="3.58923" /score="4.45688042" /energy="-12.2" /TU="NA" /idTUdmin="U389" /TUdmin=84 /isTUend="FALSE" downshifts complement(549984) /Source="Nicolas_upshifts" /id="D239" /incds=0 /nref=3 /ntot=21 /MaxReadThrough="2.31925" /MaxDrop="3.67068" /score="-2.66780619" /energy="-18.7" /TU="NA" /idTUdmin="U391" /TUdmin=0 /isTUend="TRUE" CDS complement(550240..551259) /gene="yddN" /locus_tag="BSU_05040" /old_locus_tag="BSU05040" /EC_number="1.14.14.-" /function="16.8: Protect" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 9836433; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative alkanal monooxygenase" /protein_id="NP_388385.1" /db_xref="EnsemblGenomes-Gn:BSU05040" /db_xref="EnsemblGenomes-Tr:CAB12311" /db_xref="GOA:P96651" /db_xref="InterPro:IPR011251" /db_xref="InterPro:IPR019949" /db_xref="InterPro:IPR036661" /db_xref="SubtiList:BG12121" /db_xref="UniProtKB/Swiss-Prot:P96651" /translation="MKKFDISVLSVAPLRQGETMKQGIDSAVSLAKAVDNMGYKRIWF AEHHNHDAYASAATVSIVQHILANTKDIRVGSGGIMLPNHSPLIVAEQFGTLETLYPN RVDLALGRAPGTDQKTADVIRRSNHNGVFFFEREVNDILRFVGDKSVQGEVRAYPGIG THVPVFVLGSSTDSAEIAAKLGLPYAFGAQFSPHSMEEALSIYRENFQPSSYLQEPYV IACINVIAAESIDEASFISASHLQVYIDIYTNNLSKLIPPTENFLESLSQFELEILHS RLGYTIMGDRETIRRELIDFQQMYHADELIVLSNIYELSKEIQSYEILKQVVDELFKK RMEQL*" gene complement(550240..551259) /gene="yddN" /locus_tag="BSU_05040" /old_locus_tag="BSU05040" promotor_-10 complement(550935..550954) /Source="Nicolas_upshift_promotors" /id="U391" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.983016983016983" /psig="0.999000999001" /xcortree=1980 /SigmaFactorBS="ttccccattaatcgtagcggagcaatttggaaCACTTGAAac attatatccaaaTCGTGTAGATTTGGCATTAGgacgcgcacccggaacggatcaaaaa a" /listShort="S175" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(550948) /Source="Nicolas_upshifts" /id="U391" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.983016983016983" /psig="0.999000999001" /xcortree=1980 /SigmaFactorBS="ttccccattaatcgtagcggagcaatttggaaCACTTGAAac attatatccaaaTCGTGTAGATTTGGCATTAGgacgcgcacccggaacggatcaaaaa a" /listShort="S175" /GFF_Attribute="listLong" promotor_-35 complement(550969..550976) /Source="Nicolas_upshift_promotors" /id="U391" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.983016983016983" /psig="0.999000999001" /xcortree=1980 /SigmaFactorBS="ttccccattaatcgtagcggagcaatttggaaCACTTGAAac attatatccaaaTCGTGTAGATTTGGCATTAGgacgcgcacccggaacggatcaaaaa a" /listShort="S175" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 551048..551052 /Source="Nicolas_upshift_promotors" /id="U392" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.994005994005994" /psig=1 /xcortree=2543 /SigmaFactorBS="ttggcaacataataccccctgaacctacgcgaatgTCTTTtg tatttgctaatataTGTTGTACAATTGATACGGTtgctgcacttgcataagcgtcgtg a" /listShort="S176, lrpA, S177" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 551069..551088 /Source="Nicolas_upshift_promotors" /id="U392" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.994005994005994" /psig=1 /xcortree=2543 /SigmaFactorBS="ttggcaacataataccccctgaacctacgcgaatgTCTTTtg tatttgctaatataTGTTGTACAATTGATACGGTtgctgcacttgcataagcgtcgtg a" /listShort="S176, lrpA, S177" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 551073 /Source="Nicolas_upshifts" /id="U392" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.994005994005994" /psig=1 /xcortree=2543 /SigmaFactorBS="ttggcaacataataccccctgaacctacgcgaatgTCTTTtg tatttgctaatataTGTTGTACAATTGATACGGTtgctgcacttgcataagcgtcgtg a" /listShort="S176, lrpA, S177" /GFF_Attribute="listLong" S_feature 551074..551518 /Source="Nicolas_S_feature" /locus_tag="new_551074_551518" /HighExp="dia15, dia5, H2O2, G180, G135, Paraq, HPh, LBGexp, Lbexp, G150" /AntisenseName="yddN" /AntisenseCor="0.70327972625798696" /AntisenseRegPval="-40.700000000000003" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S176" CDS 551519..551929 /gene="lrpA" /locus_tag="BSU_05050" /old_locus_tag="BSU05050" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11902725, 12675791, 17223133" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11902725, 12675791, 17223133; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator (Lrp/AsnC family)" /protein_id="NP_388386.1" /db_xref="EnsemblGenomes-Gn:BSU05050" /db_xref="EnsemblGenomes-Tr:CAB12312" /db_xref="GOA:P96652" /db_xref="InterPro:IPR000485" /db_xref="InterPro:IPR011008" /db_xref="InterPro:IPR019887" /db_xref="InterPro:IPR019888" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12122" /db_xref="UniProtKB/Swiss-Prot:P96652" /translation="MIDEIDKKILDELSKNSRLTMKKLGEKVHLTAPATASRVVKLID NGIIKGCSIEVNQVKLGFSIHAFLNIYIEKIHHQPYLAFIETQDNYVINNYKVSGDGC YLLECKFPSNEVLDQFLNDLNKHANYKVSIVIGK*" gene 551519..551929 /gene="lrpA" /locus_tag="BSU_05050" /old_locus_tag="BSU05050" S_feature 551930..551999 /Source="Nicolas_S_feature" /locus_tag="new_551930_551999" /HighExp="dia15, dia5, H2O2, HPh, G180, G135, LBGtran, Paraq, dia0, Lbexp" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S177" downshifts 551956 /Source="Nicolas_upshifts" /id="D240" /incds=0 /nref=45 /ntot=194 /MaxReadThrough="2.99689" /MaxDrop="3.6808" /score="-1.98969146" /energy="-15.7" /TU="U392" /idTUdmin="U392" /TUdmin="-350" /isTUend="FALSE" CDS complement(552052..552501) /gene="lrpB" /locus_tag="BSU_05060" /old_locus_tag="BSU05060" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11902725, 12675791, 17223133" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11902725, 12675791, 17223133; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator (Lrp/AsnC family)" /protein_id="NP_388387.1" /db_xref="EnsemblGenomes-Gn:BSU05060" /db_xref="EnsemblGenomes-Tr:CAB12313" /db_xref="GOA:P96653" /db_xref="InterPro:IPR000485" /db_xref="InterPro:IPR011008" /db_xref="InterPro:IPR019887" /db_xref="InterPro:IPR019888" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12123" /db_xref="UniProtKB/Swiss-Prot:P96653" /translation="MQIDSIDFQILQLLNKNARIQWKEIGEKIHMTGQAVGNRIKKME DNGIIKAYSIVVDELKMGFSFTAFVFFFMNAYMHDDLLKFIATRNEISEAHRVSGDAC YLLKVTVHSQEVLNHLLNDLLKYGNYQLYLSIKEVKKHYNTSLMSDE*" gene complement(552052..552501) /gene="lrpB" /locus_tag="BSU_05060" /old_locus_tag="BSU05060" CDS 552616..553158 /gene="yddQ" /locus_tag="BSU_05070" /old_locus_tag="BSU05070" /EC_number="3.-.-.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative hydrolase" /protein_id="NP_388388.1" /db_xref="EnsemblGenomes-Gn:BSU05070" /db_xref="EnsemblGenomes-Tr:CAB12314" /db_xref="GOA:P96654" /db_xref="InterPro:IPR000868" /db_xref="InterPro:IPR036380" /db_xref="SubtiList:BG12124" /db_xref="UniProtKB/Swiss-Prot:P96654" /translation="MTTALLVIDIQNDYFPNGKMALTNPEKAAQNAAKLLSHFRNTGA PVFHVQHITEGNIAHFFHPNTEGVEIHESVRPLEKETVIVKHMPNSFFNTDLNGKLQE EGVKELVVCGMMSHMCIDATVRSAVEHGYVCQVVEDACATTTLQIEDKIVPAEHVHYA FMAALNGVYATVKTTEAFLK*" gene 552616..553158 /gene="yddQ" /locus_tag="BSU_05070" /old_locus_tag="BSU05070" promotor_-35 553631..553635 /Source="Nicolas_upshift_promotors" /id="U393" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.96003996003996" /psig="0.998001998001998" /xcortree=2688 /SigmaFactorBS="agtcaaagagttaaaacacttttttttatcTATGTattcgaa cactgctgaTATTATACACTTAACTCTGTcgatctaagacaaataaaaaaagaaagtg a" /listShort="yddR" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 553652..553671 /Source="Nicolas_upshift_promotors" /id="U393" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.96003996003996" /psig="0.998001998001998" /xcortree=2688 /SigmaFactorBS="agtcaaagagttaaaacacttttttttatcTATGTattcgaa cactgctgaTATTATACACTTAACTCTGTcgatctaagacaaataaaaaaagaaagtg a" /listShort="yddR" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 553661 /Source="Nicolas_upshifts" /id="U393" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.96003996003996" /psig="0.998001998001998" /xcortree=2688 /SigmaFactorBS="agtcaaagagttaaaacacttttttttatcTATGTattcgaa cactgctgaTATTATACACTTAACTCTGTcgatctaagacaaataaaaaaagaaagtg a" /listShort="yddR" /GFF_Attribute="listLong" CDS 553711..554475 /gene="yddR" /locus_tag="BSU_05080" /old_locus_tag="BSU05080" /EC_number="3.-.-.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative metal-dependent hydrolase" /protein_id="NP_388389.1" /db_xref="EnsemblGenomes-Gn:BSU05080" /db_xref="EnsemblGenomes-Tr:CAB12315" /db_xref="GOA:P96655" /db_xref="InterPro:IPR001279" /db_xref="InterPro:IPR036866" /db_xref="SubtiList:BG12125" /db_xref="UniProtKB/Swiss-Prot:P96655" /translation="MNITQIRNATIVVKYANKKFLIDPMLAEKGTYATFPETIRQDLF NPLVSLPTSIDNILDGVDAVIVTHLHLDHFDDVAKNVLPKNIKMFVQNEADAKEVKAS GFKNVEVLHQDTVFEGIQLVKTKGEHGRGEELLNLMGDVCGLVFKHPSEKVLYVAGDT VWYDAIEDEIHTHQPEIIVVNGGDNQRLDLGSLIMGKEDIYEVHKAAPHAKIISVHME AVNHWTLSREELKNFSKEKGFSSNILVPEDGESYTF*" gene 553711..554475 /gene="yddR" /locus_tag="BSU_05080" /old_locus_tag="BSU05080" CDS 554669..555979 /gene="yddS" /locus_tag="BSU_05090" /old_locus_tag="BSU05090" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative permease" /protein_id="NP_388390.1" /db_xref="EnsemblGenomes-Gn:BSU05090" /db_xref="EnsemblGenomes-Tr:CAB12316" /db_xref="GOA:P96656" /db_xref="InterPro:IPR005828" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12126" /db_xref="UniProtKB/Swiss-Prot:P96656" /translation="MVMTKKDTNISTQQPLWLQGYIDSPEKQNQLYKKTLKILIFSQI FGGAGLGAGITVGALLAQDMIGSENVAGIPTALFTFGSAVAALLIGASSQRFGRRAGL AGGFLIGGLGAIGVIIAALINSVALLFVSLLIYGAGMASNLQVRYAGTDLANEKQRAT AASMALVSTTLGAVVGPNLVNTMGEFADSIGVPNLAGPFIMSGAAFIIAGIILLIFLR PDPLFVSTAIANAEKKDDKVQIGGSLKNPAIDKKGIMVGAVIMILAQLIMTAIMTMTP VHMGHHGHGLSEVGLVIGLHIAAMYLPSPLTGLLVDKFGRTTMAIASGATLLAAGLVA AIAPADSLSLLILALVLLGVGWNFGLLTGTALIIDSTHPSLRAKTQGTFDVLLALSGA AGGALSGMVVAHSSYTILSISGAVLSLLLIPVVIWYFRRIQEKA*" gene 554669..555979 /gene="yddS" /locus_tag="BSU_05090" /old_locus_tag="BSU05090" S_feature 556002..556561 /Source="Nicolas_S_feature" /locus_tag="new_556002_556561" /HighExp="S8, C30, Cold, BMM, C90, GM 25, MG 15, M/G, LPh, S7" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S178" CDS 556562..556738 /gene="ydzM" /locus_tag="BSU_05099" /old_locus_tag="BSU05099" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="conserved phage protein of unknown function" /protein_id="YP_003097682.1" /db_xref="EnsemblGenomes-Gn:BSU05099" /db_xref="EnsemblGenomes-Tr:CAX52553" /db_xref="GOA:Q9K3A9" /db_xref="UniProtKB/Swiss-Prot:Q9K3A9" /translation="MNNKKNIFDIVMYIIFGVLSLFLVAKTDYGTGVLVFVAILYLAV IAYKIKQVFSNSDS*" gene 556562..556738 /gene="ydzM" /locus_tag="BSU_05099" /old_locus_tag="BSU05099" CDS 556763..557449 /gene="yddT" /locus_tag="BSU_05100" /old_locus_tag="BSU05100" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type h : extrachromosomal origin" /codon_start=1 /transl_table=11 /product="putative exported phage protein" /protein_id="NP_388391.1" /db_xref="EnsemblGenomes-Gn:BSU05100" /db_xref="EnsemblGenomes-Tr:CAB12317" /db_xref="SubtiList:BG12127" /db_xref="UniProtKB/Swiss-Prot:P96657" /translation="MRKKRVITCVMAASLTLGSLLPAGYASAKEDSKTTPSYEELALH YKMKSEKISSNGKLVEIEYVSGNETHKVQMNGNNHTVKVDGIEQKGLNFEYDENVAKR TNYENNNLKSNEFTTQAAKPKKGYHYVGTLSGHTKAAKNALSVTMSLVGIVPGLGWGS KAATILFSYWAKEQIPDAYYKYDLYEKGAMTDSWYQYATVQFFEDKAHKKKMGKPWTS TPAKVDLPNS*" gene 556763..557449 /gene="yddT" /locus_tag="BSU_05100" /old_locus_tag="BSU05100" promotor_-35 557791..557795 /Source="Nicolas_upshift_promotors" /id="U394" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.383616383616384" /psig="0.999000999001" /xcortree=2778 /SigmaFactorBS="gaaaggtttaagattagatattgaaaaattttaTATATtttc aataaaatacTGGTACTATAATAAATGTATacagattgtatggagatgtaattaatta a" /listShort="ydzN, ydeA" /listLong="S179, cspC" /label="promotor_-35" promotor_-10 557810..557829 /Source="Nicolas_upshift_promotors" /id="U394" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.383616383616384" /psig="0.999000999001" /xcortree=2778 /SigmaFactorBS="gaaaggtttaagattagatattgaaaaattttaTATATtttc aataaaatacTGGTACTATAATAAATGTATacagattgtatggagatgtaattaatta a" /listShort="ydzN, ydeA" /listLong="S179, cspC" /label="promotor_-10" upshifts 557818 /Source="Nicolas_upshifts" /id="U394" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.383616383616384" /psig="0.999000999001" /xcortree=2778 /SigmaFactorBS="gaaaggtttaagattagatattgaaaaattttaTATATtttc aataaaatacTGGTACTATAATAAATGTATacagattgtatggagatgtaattaatta a" /listShort="ydzN, ydeA" /listLong="S179, cspC" CDS 557873..558058 /gene="ydzN" /locus_tag="BSU_05109" /old_locus_tag="BSU05109" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_003097683.1" /db_xref="EnsemblGenomes-Gn:BSU05109" /db_xref="EnsemblGenomes-Tr:CAX52554" /db_xref="GOA:C0H3V7" /db_xref="UniProtKB/Swiss-Prot:C0H3V7" /translation="MRWSKWFNVFCIVALGSIYGYKLFTNQEVSTTRLIIASVIVLWN IVGLFSKESVKQAQQAN*" gene 557873..558058 /gene="ydzN" /locus_tag="BSU_05109" /old_locus_tag="BSU05109" downshifts 558057 /Source="Nicolas_upshifts" /id="D241" /incds=0 /nref=9 /ntot=125 /MaxReadThrough="3.39785" /MaxDrop="3.7067" /score="-6.31330934" /energy="-12.8" /TU="U394" /idTUdmin="U394" /TUdmin="-1068" /isTUend="FALSE" CDS 558408..559001 /gene="sufLC" /locus_tag="BSU_05110" /old_locus_tag="BSU05110" /experiment="publication(s) with functional evidences, PMID:24330391" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 24330391; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="glyoxalase III homolog, deglycase" /protein_id="NP_388392.1" /db_xref="EnsemblGenomes-Gn:BSU05110" /db_xref="EnsemblGenomes-Tr:CAB12318" /db_xref="GOA:P96658" /db_xref="InterPro:IPR002818" /db_xref="InterPro:IPR029062" /db_xref="PDB:3F5D" /db_xref="SubtiList:BG12128" /db_xref="UniProtKB/Swiss-Prot:P96658" /translation="MKKALFLILDQYADWEGVYLASALNQREDWSVHTVSLDPIVSSI GGFKTSVDYIIGLEPANFNLLVMIGGDSWSNDNKKLLHFVKTAFQKNIPIAAICGAVD FLAKNGLLNNHSHTGNFVYLWKDYKQYKPISSFVEKQAVRDKNLVTANGTAPIEFTNL ILEMIDFDTPENIEKMMYMNRYGFYHFCDKYGNPFVD*" gene 558408..559001 /gene="sufLC" /locus_tag="BSU_05110" /old_locus_tag="BSU05110" promotor_-35 559114..559121 /Source="Nicolas_upshift_promotors" /id="U395" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.561438561438561" /psig=1 /xcortree=3090 /SigmaFactorBS="aagtttaacaaataatgccatcaatattAATTTGCAgttatt tccgattCCTGATATAATAAAGAAGAAttatttttgttcggtgtaaaggatagtatga a" /listShort="S179, cspC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 559135..559154 /Source="Nicolas_upshift_promotors" /id="U395" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.561438561438561" /psig=1 /xcortree=3090 /SigmaFactorBS="aagtttaacaaataatgccatcaatattAATTTGCAgttatt tccgattCCTGATATAATAAAGAAGAAttatttttgttcggtgtaaaggatagtatga a" /listShort="S179, cspC" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 559146..559263 /Source="Nicolas_S_feature" /locus_tag="new_559146_559263" /HighExp="B60, LoTm, T5.0H, T3.30H, M9-stat, BI, BC, C90, T3.0H, Cold" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="SigA" /TUlongPSig="0.999" /label="S179" upshifts 559146 /Source="Nicolas_upshifts" /id="U395" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.561438561438561" /psig=1 /xcortree=3090 /SigmaFactorBS="aagtttaacaaataatgccatcaatattAATTTGCAgttatt tccgattCCTGATATAATAAAGAAGAAttatttttgttcggtgtaaaggatagtatga a" /listShort="S179, cspC" /GFF_Attribute="listLong" downshifts complement(559181) /Source="Nicolas_upshifts" /id="D242" /incds=0 /nref=10 /ntot=93 /MaxReadThrough="1.86628" /MaxDrop="4.19111" /score="25.1917407" /energy="-12.9" /TU="NA" /idTUdmin="U396" /TUdmin=328 /isTUend="FALSE" CDS 559264..559464 /gene="cspC" /locus_tag="BSU_05120" /old_locus_tag="BSU05120" /function="16.6: Maintain" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:9379903, 9914312, 9920884, 10517332, 11591689, 12427936" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9379903, 9914312, 9920884, 10517332, 11591689, 12427936; Product type f : factor" /codon_start=1 /transl_table=11 /product="cold-shock protein" /protein_id="NP_388393.1" /db_xref="EnsemblGenomes-Gn:BSU05120" /db_xref="EnsemblGenomes-Tr:CAB12319" /db_xref="GOA:P39158" /db_xref="InterPro:IPR002059" /db_xref="InterPro:IPR011129" /db_xref="InterPro:IPR012156" /db_xref="InterPro:IPR012340" /db_xref="InterPro:IPR019844" /db_xref="SubtiList:BG11024" /db_xref="UniProtKB/Swiss-Prot:P39158" /translation="MEQGTVKWFNAEKGFGFIERENGDDVFVHFSAIQSDGFKSLDEG QKVSFDVEQGARGAQAANVQKA*" gene 559264..559464 /gene="cspC" /locus_tag="BSU_05120" /old_locus_tag="BSU05120" S_feature complement(559362..560150) /Source="Nicolas_S_feature" /locus_tag="new_559362_560150_c" /HighExp="LoTm, B60, Cold, M9-stat, LPhT, B36, Sw, BC, S8, Salt" /AntisenseName="cspC" /AntisenseCor="0.39074308987975698" /AntisenseRegPval="-10.5" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S180" downshifts 559367 /Source="Nicolas_upshifts" /id="D243" /incds=1 /nref=19 /ntot=179 /MaxReadThrough="8.05368" /MaxDrop="3.4464" /score="27.3387234" /energy="-11.3" /TU="U395" /idTUdmin="U394" /TUdmin=242 /isTUend="FALSE" downshifts 559468 /Source="Nicolas_upshifts" /id="D244" /incds=0 /nref=65 /ntot=246 /MaxReadThrough="5.78621" /MaxDrop="5.83905" /score="27.3387234" /energy="-11.3" /TU="U395" /idTUdmin="U394" /TUdmin=343 /isTUend="FALSE" misc_RNA complement(559532..559610) /gene="sncZ" /locus_tag="BSU_misc_RNA_66" /product="putative small conserved untranslated RNA" /experiment="publication(s) with functional evidences, PMID:20525796" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 20525796; Product type n: RNA" gene complement(559532..559610) /gene="sncZ" /locus_tag="BSU_misc_RNA_66" CDS complement(560151..560612) /gene="cdnL" /locus_tag="BSU_05130" /old_locus_tag="BSU05130" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 26849219; Product type r : regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator for repair and outgrowth of heat damaged spores" /protein_id="NP_388394.1" /db_xref="EnsemblGenomes-Gn:BSU05130" /db_xref="EnsemblGenomes-Tr:CAB12320" /db_xref="InterPro:IPR003711" /db_xref="InterPro:IPR036101" /db_xref="SubtiList:BG12129" /db_xref="UniProtKB/Swiss-Prot:P96659" /translation="MFQIGDNIVYPMHGAGIIEAIEEKEFLEEKQQYYVIRMSISNMT VMIPTSKILSSNIRPVTDILALKHIMHIFQHGESDRLLPWKQRYKINTDKIKTGEIQE GAEVVRDLMRMKKEKALNASEKKMLDNAYEFLISELEVIKGITEKQIKSFG*" gene complement(560151..560612) /gene="cdnL" /locus_tag="BSU_05130" /old_locus_tag="BSU05130" S_feature 560621..561166 /Source="Nicolas_S_feature" /locus_tag="new_560621_561166" /HighExp="Cold, G135, S8, G180, LoTm, S7, G150, HPh, Paraq, Oxctl" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S181" upshifts complement(560664) /Source="Nicolas_upshifts" /id="U396" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.756243756243756" /psig=1 /xcortree=427 /SigmaFactorBS="ttcaaaaaagtTATTGACAtcaaaaattcgatcaTGTTATTA TTAAAATTTTGAtattacacctccatatatggtaatcttaagaaggataccatatatg g" /listShort="ydeB, S180" /GFF_Attribute="listLong" promotor_-10 complement(560671..560690) /Source="Nicolas_upshift_promotors" /id="U396" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.756243756243756" /psig=1 /xcortree=427 /SigmaFactorBS="ttcaaaaaagtTATTGACAtcaaaaattcgatcaTGTTATTA TTAAAATTTTGAtattacacctccatatatggtaatcttaagaaggataccatatatg g" /listShort="ydeB, S180" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(560706..560713) /Source="Nicolas_upshift_promotors" /id="U396" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.756243756243756" /psig=1 /xcortree=427 /SigmaFactorBS="ttcaaaaaagtTATTGACAtcaaaaattcgatcaTGTTATTA TTAAAATTTTGAtattacacctccatatatggtaatcttaagaaggataccatatatg g" /listShort="ydeB, S180" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 561133 /Source="Nicolas_upshifts" /id="D245" /incds=0 /nref=7 /ntot=141 /MaxReadThrough="0.289110000000001" /MaxDrop="4.3701" /score="26.1823933" /energy="-9.5" /TU="NA" /idTUdmin="U395" /TUdmin=864 /isTUend="FALSE" CDS complement(561180..561416) /gene="ydzE" /locus_tag="BSU_05140" /old_locus_tag="BSU05140" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative permease" /protein_id="NP_388395.1" /db_xref="EnsemblGenomes-Gn:BSU05140" /db_xref="EnsemblGenomes-Tr:CAB12321" /db_xref="GOA:O31493" /db_xref="InterPro:IPR000620" /db_xref="SubtiList:BG12808" /db_xref="UniProtKB/Swiss-Prot:O31493" /translation="MYLGIVSTACAFLLWNHGLQLLNASSGGLFFFFQPLVGTLLGWI LLGEQIGGTFWIGSFLILSGVLLVIKEKEKEVKS*" gene complement(561180..561416) /gene="ydzE" /locus_tag="BSU_05140" /old_locus_tag="BSU05140" CDS complement(561514..562389) /gene="ydeC" /locus_tag="BSU_05150" /old_locus_tag="BSU05150" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10704478; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (AraC/XylS family)" /protein_id="NP_388396.1" /db_xref="EnsemblGenomes-Gn:BSU05150" /db_xref="EnsemblGenomes-Tr:CAB12322" /db_xref="GOA:P96660" /db_xref="InterPro:IPR003313" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR014710" /db_xref="InterPro:IPR018060" /db_xref="InterPro:IPR018062" /db_xref="InterPro:IPR020449" /db_xref="SubtiList:BG12130" /db_xref="UniProtKB/Swiss-Prot:P96660" /translation="MKNFVIDQNLKELTEHRTVELPVACYKTTINQNINGYIPLHWHD EIQFVLILKGIALFQINEEKIEVHEGDGLFINSGYLHMAEEKEGSDCTYICLNVSPHF VLSQELYSSYVQPYMFSTNLPYLFLAGNQQWAKNILDAVKKINQLIQQKTSLYEIDIT MQLTLMWKNLVVNGFQLEYDQSEMIKSHRMKQMLNWIHLHYVEKITLEDIAKAGQLSR SECCRYFKRMLNKTPLRYVMDYRIQKSLLLLQHPESNVTEVSYQVGFNSTSYFISKFQ QAMNMTPLSYKKMNS*" gene complement(561514..562389) /gene="ydeC" /locus_tag="BSU_05150" /old_locus_tag="BSU05150" CDS 562502..563461 /gene="ydeD" /locus_tag="BSU_05160" /old_locus_tag="BSU05160" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative permease" /protein_id="NP_388397.1" /db_xref="EnsemblGenomes-Gn:BSU05160" /db_xref="EnsemblGenomes-Tr:CAB12323" /db_xref="GOA:P96661" /db_xref="InterPro:IPR000620" /db_xref="SubtiList:BG12131" /db_xref="UniProtKB/Swiss-Prot:P96661" /translation="MNTSNRRMGLFYVITGATCWGIGGTVAKKLFQEYQIDVNWLVTT RLLTAGMLLLMLQLFRKDRSQVIEVWKHKASAGQLLIFGLLGMLAVQYTYMASIQHGN AAVATLLQYLSPVIVIIYTLLRKQTVLTKQDIITVVLALVGCFFLLTNGSMSQLSVPA AAVVWGVLSGFAAAFYTLYAVGLLNKFDSLVVVGWAMIIGGFALGFIHPPWQLDFQRL TAEAYAYILFVILFGTMIAFWFFIKSLESLSPKETSLLGSLEPLSAVVTTVVWLKAPF GSFQWIGAICIIGITLILALHKEPSMESEKSILKIRNHANRDI*" gene 562502..563461 /gene="ydeD" /locus_tag="BSU_05160" /old_locus_tag="BSU05160" upshifts complement(562523) /Source="Nicolas_upshifts" /id="U397" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.555444555444555" /psig="0.808191808191808" /xcortree=1969 /SigmaFactorBS="tggctactgtgcctccaatcccccaacatgtcgccccTGTGA TAACATAGAACAATCccattcttctattggaagtattcatacatgactcctcactaat a" /listShort="ydeC" /GFF_Attribute="listLong" misc_feature complement(562527..562546) /Source="Nicolas_upshift_promotors" /id="U397" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.555444555444555" /psig="0.808191808191808" /xcortree=1969 /SigmaFactorBS="tggctactgtgcctccaatcccccaacatgtcgccccTGTGA TAACATAGAACAATCccattcttctattggaagtattcatacatgactcctcactaat a" /listShort="ydeC" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" CDS complement(563614..564486) /gene="ydeE" /locus_tag="BSU_05170" /old_locus_tag="BSU05170" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (AraC/XylS family)" /protein_id="NP_388398.1" /db_xref="EnsemblGenomes-Gn:BSU05170" /db_xref="EnsemblGenomes-Tr:CAB12324" /db_xref="GOA:P96662" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR010499" /db_xref="InterPro:IPR011256" /db_xref="InterPro:IPR018060" /db_xref="InterPro:IPR018062" /db_xref="InterPro:IPR020449" /db_xref="InterPro:IPR029442" /db_xref="SubtiList:BG12132" /db_xref="UniProtKB/Swiss-Prot:P96662" /translation="MDLLKSMNRALKYIEENLTNDIDFQEAAKLAFCSEYHFKRMFSF LAGISLSEYIRRRRLTLAAFELKDSNVKVIDIAIKYGYNSPDSFARAFQNLHGINPSK ARFNGHSLKAYPRMTFQLTIKGGNEMNYRIEEKEAFRIVGIKKRVPIIFKGINPEIAS MWESLDEKAINKLKELSNVAPSGLISASTNFSEGRTEENGELDHYIGAATTKRCPDNF SRLEVPASTWAVFESIGPFPDTLQEVWGRIYSEWFPSSNYEQIEGPEILWNEHKDVTS PSFKSEIWIPITKK*" gene complement(563614..564486) /gene="ydeE" /locus_tag="BSU_05170" /old_locus_tag="BSU05170" promotor_-10 complement(564579..564584) /Source="Nicolas_upshift_promotors" /id="U398" /multdbtbs="-" /comp="M3" /sig="Sig-" /pcomp="0.380619380619381" /psig="0.432567432567433" /xcortree=1464 /SigmaFactorBS="cttttattgatgcctttttatgaacagcatgcttcaataaaa cctgtacaaatacaagtgaatcACtTACTTTatttcatataagtcatcctgcaaaact g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(564586..564587) /Source="Nicolas_upshift_promotors" /id="U398" /multdbtbs="-" /comp="M3" /sig="Sig-" /pcomp="0.380619380619381" /psig="0.432567432567433" /xcortree=1464 /SigmaFactorBS="cttttattgatgcctttttatgaacagcatgcttcaataaaa cctgtacaaatacaagtgaatcACtTACTTTatttcatataagtcatcctgcaaaact g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" upshifts complement(564591) /Source="Nicolas_upshifts" /id="U398" /multdbtbs="-" /comp="M3" /sig="Sig-" /pcomp="0.380619380619381" /psig="0.432567432567433" /xcortree=1464 /SigmaFactorBS="cttttattgatgcctttttatgaacagcatgcttcaataaaa cctgtacaaatacaagtgaatcACtTACTTTatttcatataagtcatcctgcaaaact g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 564660..564666 /Source="Nicolas_upshift_promotors" /id="U399" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.408591408591409" /psig="0.98101898101898" /xcortree=1860 /SigmaFactorBS="attgaagcatgctgttcataaaaaggcatcaataaaagaaag ttatAATTGTCttataaacggcacATTCATATAATTGAGTGAAAaaggatgcgtatca t" /listShort="ydeF" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 564674 /Source="Nicolas_upshifts" /id="U399" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.408591408591409" /psig="0.98101898101898" /xcortree=1860 /SigmaFactorBS="attgaagcatgctgttcataaaaaggcatcaataaaagaaag ttatAATTGTCttataaacggcacATTCATATAATTGAGTGAAAaaggatgcgtatca t" /listShort="ydeF" /GFF_Attribute="listLong" promotor_-10 564680..564699 /Source="Nicolas_upshift_promotors" /id="U399" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.408591408591409" /psig="0.98101898101898" /xcortree=1860 /SigmaFactorBS="attgaagcatgctgttcataaaaaggcatcaataaaagaaag ttatAATTGTCttataaacggcacATTCATATAATTGAGTGAAAaaggatgcgtatca t" /listShort="ydeF" /GFF_Attribute="listLong" /label="promotor_-10" CDS 564713..566101 /gene="ydeF" /locus_tag="BSU_05180" /old_locus_tag="BSU05180" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15223311, 28348215; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative PLP-dependent transcriptional regulator" /protein_id="NP_388399.2" /db_xref="EnsemblGenomes-Gn:BSU05180" /db_xref="EnsemblGenomes-Tr:CAB12325" /db_xref="GOA:P96663" /db_xref="InterPro:IPR000524" /db_xref="InterPro:IPR004839" /db_xref="InterPro:IPR015421" /db_xref="InterPro:IPR015422" /db_xref="InterPro:IPR015424" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12133" /db_xref="UniProtKB/Swiss-Prot:P96663" /translation="MPINSFENYPMSWKPSIDKAEKPIYKALAGQLEQDILNGVLLPG TKLPPQRELADYLDLNVSTISKAFKVCELKGLLSATVGSGTFVSYDALSNAYLLEDTK PTHLIEMGAILPDHASYEPLLYQLKNMVHEEDYEKWFSYGRAGESLWQKDAAVKLIQR GGFETSVDHILFANGGQNAIAATLASLCKPGDRIGVDHHTYPGLKTVASLLSVQIVPI KSENDEMSPESLEYACKNENIKGLYLIPDYHNPTTSFMSVENRRMVADIVKKYNLFVI EDASYHLLNKNPLPALASFAPQQVIHIASLSKSLAPGLRLAYVAVPRQYKEPISKALY NLNITVSPLLAELTARTIVSNQFEVLIESHREQTIRRNQLVNRYVAGYTCLGVETGIF RWLLLPGKMSGAEFEELAARLGVQVYAAERFVVGNSCPERAVRVSVCAPKTLEELEQG LMILRRLLDDLT*" gene 564713..566101 /gene="ydeF" /locus_tag="BSU_05180" /old_locus_tag="BSU05180" downshifts 566077 /Source="Nicolas_upshifts" /id="D246" /incds=0 /nref=2 /ntot=61 /MaxReadThrough="0.91547" /MaxDrop="3.65963" /score="12.298375" /energy="-12.2" /TU="NA" /idTUdmin="U399" /TUdmin=176 /isTUend="FALSE" CDS 566211..567503 /gene="ydeG" /locus_tag="BSU_05190" /old_locus_tag="BSU05190" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative permease" /protein_id="NP_388400.1" /db_xref="EnsemblGenomes-Gn:BSU05190" /db_xref="EnsemblGenomes-Tr:CAB12326" /db_xref="GOA:P96664" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12134" /db_xref="UniProtKB/Swiss-Prot:P96664" /translation="MMLDKDSVKAIDVQTASLQSYISSPEKQKSLYKRTLFVVSISQI FGGAGLAAGVTVGALIAQQMLGTDAFAGLPSALFTLGSAGSALIVGRLSQRYGRRTGL SAGFMIGGLGAIGVIMAAIINSIFLLFISLLIYGAGTATNLQARYAGTDLANHKQRAT AVSITMVFTTFGAVAGPSLVNVMGDFALSIGVPSLAGPFILAAAAYMLAGVVLFIMLR PDPLVIARTIEAANEEPGDKGHLAATEHTENKKGIIVGATVMVLTQIVMVAIMTMTPV HMRHHGHDLGAVGLVIGFHIGAMYLPSLVTGVLVDRLGRTAMAISSGTTLLLAGVIAA FAPGESMILLVIALSLLGLGWNFGLISGTALIVDSTDTATRAKTQGTVDVLIALSGAA GGALSGMIVAGSSYLALSLIGGILSLLLIPVVVWSRGR*" gene 566211..567503 /gene="ydeG" /locus_tag="BSU_05190" /old_locus_tag="BSU05190" promotor_-35 567512..567518 /Source="Nicolas_upshift_promotors" /id="U400" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.737262737262737" /psig=1 /xcortree=2927 /SigmaFactorBS="gtggtatggtctaggggccgctaaagggtaggATTGTTTaat ttacattaattTGTTATATTGTTAGATAAAGtatattgcagcatctaatattctaacg a" /listShort="S182, ydeH" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 567533..567552 /Source="Nicolas_upshift_promotors" /id="U400" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.737262737262737" /psig=1 /xcortree=2927 /SigmaFactorBS="gtggtatggtctaggggccgctaaagggtaggATTGTTTaat ttacattaattTGTTATATTGTTAGATAAAGtatattgcagcatctaatattctaacg a" /listShort="S182, ydeH" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 567540 /Source="Nicolas_upshifts" /id="U400" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.737262737262737" /psig=1 /xcortree=2927 /SigmaFactorBS="gtggtatggtctaggggccgctaaagggtaggATTGTTTaat ttacattaattTGTTATATTGTTAGATAAAGtatattgcagcatctaatattctaacg a" /listShort="S182, ydeH" /GFF_Attribute="listLong" S_feature 567551..567661 /Source="Nicolas_S_feature" /locus_tag="new_567551_567661" /HighExp="LoTm, T4.0H, T3.30H, T2.30H, T3.0H, T2.0H, T1.30H, T5.0H, T1.0H, T-0.40H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S182" CDS 567662..568108 /gene="ydeH" /locus_tag="BSU_05200" /old_locus_tag="BSU05200" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral inner membrane protein" /protein_id="NP_388401.1" /db_xref="EnsemblGenomes-Gn:BSU05200" /db_xref="EnsemblGenomes-Tr:CAB12327" /db_xref="GOA:P96665" /db_xref="SubtiList:BG12135" /db_xref="UniProtKB/Swiss-Prot:P96665" /translation="MNHIKWLSDLKKAGLLALGKGVITLLKRFSLVIVTLMMSIVVVL AAAKESPGDHVISFDEPIILMISIGIVVFLLIPPLVMSFFGNLVVRIISGVYQCFIVF TFLGLIPIGFLIPNGFLTILVSIAGTLVSIASVAVTLCIGKNKKDI*" gene 567662..568108 /gene="ydeH" /locus_tag="BSU_05200" /old_locus_tag="BSU05200" downshifts 568137 /Source="Nicolas_upshifts" /id="D247" /incds=0 /nref=200 /ntot=251 /MaxReadThrough="2.56495" /MaxDrop="6.50538" /score="-1.7193297" /energy="-4.5" /TU="NA" /idTUdmin="U400" /TUdmin="-8" /isTUend="TRUE" promotor_-35 568188..568195 /Source="Nicolas_upshift_promotors" /id="U401" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.921078921078921" /psig="0.99100899100899" /xcortree=2390 /SigmaFactorBS="tacaaaaagagaaggcttgtgggccttctttttttgtTGTTG CATcatccccactttgaGCTTAATCTATTGAATAATAagagaaggaacctatagaaga a" /listShort="ydeI" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 568210..568229 /Source="Nicolas_upshift_promotors" /id="U401" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.921078921078921" /psig="0.99100899100899" /xcortree=2390 /SigmaFactorBS="tacaaaaagagaaggcttgtgggccttctttttttgtTGTTG CATcatccccactttgaGCTTAATCTATTGAATAATAagagaaggaacctatagaaga a" /listShort="ydeI" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 568211 /Source="Nicolas_upshifts" /id="U401" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.921078921078921" /psig="0.99100899100899" /xcortree=2390 /SigmaFactorBS="tacaaaaagagaaggcttgtgggccttctttttttgtTGTTG CATcatccccactttgaGCTTAATCTATTGAATAATAagagaaggaacctatagaaga a" /listShort="ydeI" /GFF_Attribute="listLong" CDS 568345..568938 /gene="ydeI" /locus_tag="BSU_05210" /old_locus_tag="BSU05210" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 16390439" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388402.1" /db_xref="EnsemblGenomes-Gn:BSU05210" /db_xref="EnsemblGenomes-Tr:CAB12328" /db_xref="InterPro:IPR014922" /db_xref="InterPro:IPR016786" /db_xref="SubtiList:BG12136" /db_xref="UniProtKB/Swiss-Prot:P96666" /translation="MTNSRTNPKVDEFLSKAKKWKEEFEKLRTIILDCELTEDFKWMH PCYTYHNKNIVLIHGFKEYCALLFHKGVLLQDTDGILIQQTENVQAARQIRFTNVQEI NELENILKAYIHEAIEVEKAGLKVDVNKNIELNIPEELQNKFDEIPALKIAFEALTPG RQRAYTLYFSQAKQSKTRESRVEKYVQKILDGKGLKD*" gene 568345..568938 /gene="ydeI" /locus_tag="BSU_05210" /old_locus_tag="BSU05210" downshifts 568981 /Source="Nicolas_upshifts" /id="D248" /incds=0 /nref=2 /ntot=40 /MaxReadThrough="1.63432" /MaxDrop="2.96785" /score="2.93671425" /energy="-6.9" /TU="NA" /idTUdmin="U401" /TUdmin=0 /isTUend="TRUE" downshifts complement(569057) /Source="Nicolas_upshifts" /id="D249" /incds=0 /nref=1 /ntot=64 /MaxReadThrough="2.19009" /MaxDrop="2.9369" /score="-1.28013562" /energy="-6.9" /TU="NA" /idTUdmin="U403" /TUdmin=0 /isTUend="TRUE" promotor_-35 569070..569077 /Source="Nicolas_upshift_promotors" /id="U402" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.707292707292707" /psig="0.996003996003996" /xcortree=378 /SigmaFactorBS="tcttaggacaacattcacttactgctgaaatgcttctaaCAT TGTATgccactagacagcgTTATAAAATATTAATGCAACacctagaaatctatccaat g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 569091 /Source="Nicolas_upshifts" /id="U402" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.707292707292707" /psig="0.996003996003996" /xcortree=378 /SigmaFactorBS="tcttaggacaacattcacttactgctgaaatgcttctaaCAT TGTATgccactagacagcgTTATAAAATATTAATGCAACacctagaaatctatccaat g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 569092..569111 /Source="Nicolas_upshift_promotors" /id="U402" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.707292707292707" /psig="0.996003996003996" /xcortree=378 /SigmaFactorBS="tcttaggacaacattcacttactgctgaaatgcttctaaCAT TGTATgccactagacagcgTTATAAAATATTAATGCAACacctagaaatctatccaat g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" CDS complement(569290..569949) /gene="ydeJ" /locus_tag="BSU_05220" /old_locus_tag="BSU05220" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type lp: lipoprotein" /codon_start=1 /transl_table=11 /product="putative lipoprotein" /protein_id="NP_388403.1" /db_xref="EnsemblGenomes-Gn:BSU05220" /db_xref="EnsemblGenomes-Tr:CAB12329" /db_xref="GOA:P96667" /db_xref="SubtiList:BG12137" /db_xref="UniProtKB/Swiss-Prot:P96667" /translation="MKKRRKICYCNTALLLMILLAGCTDSKDGEAQQPSNQASAVQTD EKHTEPEESTKIRKDEAEPITESEESATKAANDTSSAEEKSKEDNVLAAYSSEKIEYA RVWLQLGPNQEIDELNVRHIAAGEPINPNDDTSASYPENVTQLAGSRLVDGSVTYHGN GDGTIHVYNVPLRWDSADDIEKGVMREVTESIIKNRKTVYVDTGDDEKIKRLIDIMMI H*" gene complement(569290..569949) /gene="ydeJ" /locus_tag="BSU_05220" /old_locus_tag="BSU05220" promotor_-10 complement(569998..570017) /Source="Nicolas_upshift_promotors" /id="U403" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.987012987012987" /psig="0.997002997002997" /xcortree=3174 /SigmaFactorBS="agatcgtttcctcttcttaaacagttttcaaTATCATcctat ctattcCATGGTAATATTTAGATACAtaaacttatatatgaagctgacctgaattaat a" /listShort="ydeJ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(570005) /Source="Nicolas_upshifts" /id="U403" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.987012987012987" /psig="0.997002997002997" /xcortree=3174 /SigmaFactorBS="agatcgtttcctcttcttaaacagttttcaaTATCATcctat ctattcCATGGTAATATTTAGATACAtaaacttatatatgaagctgacctgaattaat a" /listShort="ydeJ" /GFF_Attribute="listLong" promotor_-35 complement(570029..570034) /Source="Nicolas_upshift_promotors" /id="U403" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.987012987012987" /psig="0.997002997002997" /xcortree=3174 /SigmaFactorBS="agatcgtttcctcttcttaaacagttttcaaTATCATcctat ctattcCATGGTAATATTTAGATACAtaaacttatatatgaagctgacctgaattaat a" /listShort="ydeJ" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(570371..571234) /gene="ydeK" /locus_tag="BSU_05230" /old_locus_tag="BSU05230" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative permease" /protein_id="NP_388404.1" /db_xref="EnsemblGenomes-Gn:BSU05230" /db_xref="EnsemblGenomes-Tr:CAB12330" /db_xref="GOA:P96668" /db_xref="InterPro:IPR000620" /db_xref="SubtiList:BG12138" /db_xref="UniProtKB/Swiss-Prot:P96668" /translation="MNKTTNGWINGFIGVLIFSGSLPATRLAVSDFDPLFLTVCRAAI AGVLAGGLLLIFRQQHPAKRDLISLLVVAFGVVIGFPLLTALALQHVTSAHAIVFIGL LPLATAVFGVLRGGERPRPVFWIFSAAGSLLVAGFALIQGGGSSPLGDAYMLASIVVC GLGYAEGAKLSRRLGNWQVISWALVLSLPLMLPLSFFFTPDSWSAIGVPALLSLAYVS LFSMLIGFVFWYRGLAQGGIAAVGQLQLLQPFFGLLLASVILHEKVGWALVAVNIAVI MCVAAARRFAK*" gene complement(570371..571234) /gene="ydeK" /locus_tag="BSU_05230" /old_locus_tag="BSU05230" promotor_-35 571277..571283 /Source="Nicolas_upshift_promotors" /id="U404" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.548451548451548" /psig="0.97002997002997" /xcortree=639 /SigmaFactorBS="ctttcttgttcattgtctgtatttTCTTAACaaaaccagcag ctaAGGATTACAATGACTATAAActggaattggccttttataaacagccagttttcat a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 571298..571317 /Source="Nicolas_upshift_promotors" /id="U404" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.548451548451548" /psig="0.97002997002997" /xcortree=639 /SigmaFactorBS="ctttcttgttcattgtctgtatttTCTTAACaaaaccagcag ctaAGGATTACAATGACTATAAActggaattggccttttataaacagccagttttcat a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-10 complement(571299..571318) /Source="Nicolas_upshift_promotors" /id="U405" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.811188811188811" /psig="0.997002997002997" /xcortree=412 /SigmaFactorBS="cgttgttctcctaactggtatgcatttttttatgaaaactgg cTGTTTATAaaaggccaattccaGTTTATAGTCATTGTAATCCttagctgctggtttt g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 571313 /Source="Nicolas_upshifts" /id="U404" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.548451548451548" /psig="0.97002997002997" /xcortree=639 /SigmaFactorBS="ctttcttgttcattgtctgtatttTCTTAACaaaaccagcag ctaAGGATTACAATGACTATAAActggaattggccttttataaacagccagttttcat a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" upshifts complement(571323) /Source="Nicolas_upshifts" /id="U405" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.811188811188811" /psig="0.997002997002997" /xcortree=412 /SigmaFactorBS="cgttgttctcctaactggtatgcatttttttatgaaaactgg cTGTTTATAaaaggccaattccaGTTTATAGTCATTGTAATCCttagctgctggtttt g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(571333..571340) /Source="Nicolas_upshift_promotors" /id="U405" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.811188811188811" /psig="0.997002997002997" /xcortree=412 /SigmaFactorBS="cgttgttctcctaactggtatgcatttttttatgaaaactgg cTGTTTATAaaaggccaattccaGTTTATAGTCATTGTAATCCttagctgctggtttt g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 571389..572780 /gene="ydeL" /locus_tag="BSU_05240" /old_locus_tag="BSU05240" /function="16.3: Control" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15223311, 28348215; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative PLP-dependent transcriptional regulator" /protein_id="NP_388405.1" /db_xref="EnsemblGenomes-Gn:BSU05240" /db_xref="EnsemblGenomes-Tr:CAB12331" /db_xref="GOA:P96669" /db_xref="InterPro:IPR000524" /db_xref="InterPro:IPR004839" /db_xref="InterPro:IPR015421" /db_xref="InterPro:IPR015422" /db_xref="InterPro:IPR015424" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12139" /db_xref="UniProtKB/Swiss-Prot:P96669" /translation="MDITPFLNRTLDIPLYQQLYRYFKENMHRGRIQKGMKLPSKRLL ANQLSISQTTVERAYEQLAAEGYIVSKPRSGWFADYHDSDFAYDRMPSTTPIQQEAEE NKQWIDFHYGNVDSSYFPFSAWRKSMVNSLDQYGHELYRPGHVLGEFELRTLIAEYLY QSRGVHCGPEQVIIGAGNPILLQILCQVFEPNISIGYEDPGYPRARKIFEANRMNIVP IPVDDEGICIQKIKEQQPNLVYVTPSHQFTLGTIMTINRRIQLLKWAAENQSFIIEDD YDGEFRYTGQPVPSLQGLDQHNRVIYMGTFSKSLLPSLRISYMILPSPLLKKGHEITS LYKQTVSCHSQLTLAEFIKNGEWQKHINRMRKLYRKKRAIVLEAVQRELGEHVRIRGE NSGLRILLDVYLPFGEKELIEKAKKHGVKIYPVSLSYQHHPPTKTVSLGFAGVSESDI REGIKKLKAAWKI*" gene 571389..572780 /gene="ydeL" /locus_tag="BSU_05240" /old_locus_tag="BSU05240" promotor_-35 572908..572915 /Source="Nicolas_upshift_promotors" /id="U406" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.984015984015984" /psig="0.999000999001" /xcortree=2260 /SigmaFactorBS="gatacgtctgtttagcgaaaaacagaatTTTTTATTtgctcc tcacAGTGCTAAAATAAACAAAATagacaattgaaaaaatagaggtgtaagaatgaag t" /listShort="ydeM, S183" /listLong="ydeO" /label="promotor_-35" promotor_-10 572926..572945 /Source="Nicolas_upshift_promotors" /id="U406" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.984015984015984" /psig="0.999000999001" /xcortree=2260 /SigmaFactorBS="gatacgtctgtttagcgaaaaacagaatTTTTTATTtgctcc tcacAGTGCTAAAATAAACAAAATagacaattgaaaaaatagaggtgtaagaatgaag t" /listShort="ydeM, S183" /listLong="ydeO" /label="promotor_-10" upshifts 572940 /Source="Nicolas_upshifts" /id="U406" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.984015984015984" /psig="0.999000999001" /xcortree=2260 /SigmaFactorBS="gatacgtctgtttagcgaaaaacagaatTTTTTATTtgctcc tcacAGTGCTAAAATAAACAAAATagacaattgaaaaaatagaggtgtaagaatgaag t" /listShort="ydeM, S183" /listLong="ydeO" CDS 572974..573399 /gene="ydeM" /locus_tag="BSU_05250" /old_locus_tag="BSU05250" /function="16.11: Scavenge (Catabolism)" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 1556068, 26349822; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative dehydratase" /protein_id="NP_388406.1" /db_xref="EnsemblGenomes-Gn:BSU05250" /db_xref="EnsemblGenomes-Tr:CAB12332" /db_xref="InterPro:IPR002539" /db_xref="InterPro:IPR029069" /db_xref="SubtiList:BG12140" /db_xref="UniProtKB/Swiss-Prot:P96670" /translation="MKLDEFTIGQVFKTKSLKVSKDDIMRFAGEFDPQYMHVDEEKAS KGRFNGIIASGIQTLAISFKLWIEEGFYGDDIIAGTEMNHMTFIKPVYPDDELFTIVE VLDKQPKRNELGILTVLLSTYNQKEVKVFEGELSVLIKR*" gene 572974..573399 /gene="ydeM" /locus_tag="BSU_05250" /old_locus_tag="BSU05250" S_feature 573400..574654 /Source="Nicolas_S_feature" /locus_tag="new_573400_574654" /HighExp="G135, H2O2, G150, HiOs, G180, Cold, Paraq, UNK1, MG 15, LBGexp" /AntisenseName="ydeN" /AntisenseCor="0.40423774227585801" /AntisenseRegPval="-11.3" /CDS_PredictionProba="0.127641" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S183" CDS complement(573452..574024) /gene="ydeN" /locus_tag="BSU_05260" /old_locus_tag="BSU05260" /EC_number="3.-.-.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15159570; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative alpha/beta hydrolase" /protein_id="NP_388407.1" /db_xref="EnsemblGenomes-Gn:BSU05260" /db_xref="EnsemblGenomes-Tr:CAB12333" /db_xref="GOA:P96671" /db_xref="InterPro:IPR010662" /db_xref="InterPro:IPR029058" /db_xref="PDB:1UXO" /db_xref="SubtiList:BG12141" /db_xref="UniProtKB/Swiss-Prot:P96671" /translation="MTKQVYIIHGYRASSTNHWFPWLKKRLLADGVQADILNMPNPLQ PRLEDWLDTLSLYQHTLHENTYLVAHSLGCPAILRFLEHLQLRKQLGGIILVSGFAKS LPTLQMLDEFTQGSFDHQKIIESAKHRAVIASKDDQIVPFSFSKDLAQQIDAALYEVQ HGGHFLEDEGFTSLPIVYDVLTSYFSKETR*" gene complement(573452..574024) /gene="ydeN" /locus_tag="BSU_05260" /old_locus_tag="BSU05260" downshifts complement(573457) /Source="Nicolas_upshifts" /id="D250" /incds=0 /nref=16 /ntot=160 /MaxReadThrough="1.96868" /MaxDrop="3.80195" /score="2.50673989" /energy="-11.3" /TU="NA" /idTUdmin="U407" /TUdmin=0 /isTUend="TRUE" S_feature complement(574025..574105) /Source="Nicolas_S_feature" /locus_tag="new_574025_574105_c" /HighExp="dia15, dia5, Diami, Etha, LPhT, Lbtran, Heat, H2O2, Sw, T4.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.955" /TUlongSig="NA" /TUlongPSig="NA" /label="S184" CDS complement(574106..574435) /gene="ydzF" /locus_tag="BSU_05270" /old_locus_tag="BSU05270" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator" /protein_id="NP_388408.1" /db_xref="EnsemblGenomes-Gn:BSU05270" /db_xref="EnsemblGenomes-Tr:CAB12334" /db_xref="GOA:O31494" /db_xref="InterPro:IPR002577" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12809" /db_xref="UniProtKB/Swiss-Prot:O31494" /translation="MNSLCRSKQAPFEYTLSLIGGKWKMRILYELGCEKTMRYGELKR AMPFITHKMLSAQLKELQTDGLIHRSEVSHTPLKVEYSLSDRGRSLYPLIDEMCKWGM AQGGPHM*" gene complement(574106..574435) /gene="ydzF" /locus_tag="BSU_05270" /old_locus_tag="BSU05270" misc_feature complement(574452..574471) /Source="Nicolas_upshift_promotors" /id="U407" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.416583416583417" /psig="0.955044955044955" /xcortree=1959 /SigmaFactorBS="cctttcacttcagatcgtgaatcgccctcaaacttcaacacc gaaaatcctaatttatTCTGATATGATACTTAAAAAaggaggtttgattacaatgaat a" /listShort="ydzF, S184, ydeN" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(574469) /Source="Nicolas_upshifts" /id="U407" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.416583416583417" /psig="0.955044955044955" /xcortree=1959 /SigmaFactorBS="cctttcacttcagatcgtgaatcgccctcaaacttcaacacc gaaaatcctaatttatTCTGATATGATACTTAAAAAaggaggtttgattacaatgaat a" /listShort="ydzF, S184, ydeN" /GFF_Attribute="listLong" misc_feature 574643..574662 /Source="Nicolas_upshift_promotors" /id="U408" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.78021978021978" /psig=1 /xcortree=2345 /SigmaFactorBS="agttactttatttaaaaaaacgcatgtttttagctgaaaata tctatTATGGTATATTTAAATATAAagaaatatttgagaaatgaggaatggtatgaat a" /listShort="ydeO" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 574656 /Source="Nicolas_upshifts" /id="U408" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.78021978021978" /psig=1 /xcortree=2345 /SigmaFactorBS="agttactttatttaaaaaaacgcatgtttttagctgaaaata tctatTATGGTATATTTAAATATAAagaaatatttgagaaatgaggaatggtatgaat a" /listShort="ydeO" /GFF_Attribute="listLong" CDS 574690..575562 /gene="ydeO" /locus_tag="BSU_05280" /old_locus_tag="BSU05280" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral inner membrane protein" /protein_id="NP_388409.1" /db_xref="EnsemblGenomes-Gn:BSU05280" /db_xref="EnsemblGenomes-Tr:CAB12335" /db_xref="GOA:P96672" /db_xref="InterPro:IPR003740" /db_xref="InterPro:IPR019264" /db_xref="SubtiList:BG12142" /db_xref="UniProtKB/Swiss-Prot:P96672" /translation="MNTPKKHKKFKAKMILQIIMVIIGGIIAAYGLETVLIPNSVSDG GVTGLSIVGSQLFNLPLGILIAVINIPFVWLGYKQIGKSFALLSIIGIVSLAAGTSFF HHTPAIIEGDTLLITVVGGIILGFGMGLALRNGGALDGIDMLAVLLSRKLPFGTSDLI LFLNLFVFIFVSTVFGLQGALLSVIAYYIASKVIHVVEEGLSGSKTFQIITTQPELMV ETIRDQLGRSATYKEAYGGFSHEKFKEITCVINRLEETKLKEIINDIDKTAFVTVYDV AEVKGSNFRNLNHH*" gene 574690..575562 /gene="ydeO" /locus_tag="BSU_05280" /old_locus_tag="BSU05280" downshifts 575449 /Source="Nicolas_upshifts" /id="D251" /incds=1 /nref=7 /ntot=181 /MaxReadThrough="3.84278" /MaxDrop="2.68681" /score="15.0132064" /energy="-12.2" /TU="U408" /idTUdmin="U408" /TUdmin="-198" /isTUend="FALSE" downshifts 575647 /Source="Nicolas_upshifts" /id="D252" /incds=0 /nref=54 /ntot=208 /MaxReadThrough="1.19842" /MaxDrop="3.77294" /score="15.0132064" /energy="-12.2" /TU="NA" /idTUdmin="U408" /TUdmin=0 /isTUend="TRUE" CDS complement(575712..576098) /gene="ydeP" /locus_tag="BSU_05290" /old_locus_tag="BSU05290" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator" /protein_id="NP_388410.1" /db_xref="EnsemblGenomes-Gn:BSU05290" /db_xref="EnsemblGenomes-Tr:CAB12336" /db_xref="GOA:P96673" /db_xref="InterPro:IPR002577" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12143" /db_xref="UniProtKB/Swiss-Prot:P96673" /translation="MRNRKLGIDYSSDDFEGCPVETTLDIIGGKWKGILLYHLIDGKK RFNEFRKLYPKITQRMLTLQLRELERDGVIHREVYKQVPPKVEYSLTEFGRTLEPVIL HMKDWGEKYKDRIDKLEAARKAEDKI*" gene complement(575712..576098) /gene="ydeP" /locus_tag="BSU_05290" /old_locus_tag="BSU05290" downshifts complement(575724) /Source="Nicolas_upshifts" /id="D253" /incds=0 /nref=29 /ntot=191 /MaxReadThrough="0.85093" /MaxDrop="4.4837" /score="-9.3516261" /energy="-12.9" /TU="NA" /idTUdmin="U409" /TUdmin="-1" /isTUend="TRUE" S_feature complement(576099..576163) /Source="Nicolas_S_feature" /locus_tag="new_576099_576163_c" /HighExp="Diami, dia5, Salt, dia15, Etha, Heat, G180, HiOs, LBGexp, HiTm" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S185" promotor_-35 576151..576158 /Source="Nicolas_upshift_promotors" /id="U410" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.67032967032967" /psig="0.936063936063936" /xcortree=1790 /SigmaFactorBS="agtatactttttgatactatatacattcaatgtgcgTACTTT TTatattttaatataCATCATATAATGATGTCACAtctaaggaatgaaaggaatggat c" /listShort="ydeQ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(576152..576171) /Source="Nicolas_upshift_promotors" /id="U409" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.568431568431568" /psig="0.999000999001" /xcortree=1896 /SigmaFactorBS="gttttcatatgatccattcctttcattccttaGATGTGACat cattatatgatgTATATTAAAATATAAAAAGTacgcacattgaatgtatatagtatca a" /listShort="S185, ydeP" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(576165) /Source="Nicolas_upshifts" /id="U409" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.568431568431568" /psig="0.999000999001" /xcortree=1896 /SigmaFactorBS="gttttcatatgatccattcctttcattccttaGATGTGACat cattatatgatgTATATTAAAATATAAAAAGTacgcacattgaatgtatatagtatca a" /listShort="S185, ydeP" /GFF_Attribute="listLong" promotor_-10 576172..576191 /Source="Nicolas_upshift_promotors" /id="U410" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.67032967032967" /psig="0.936063936063936" /xcortree=1790 /SigmaFactorBS="agtatactttttgatactatatacattcaatgtgcgTACTTT TTatattttaatataCATCATATAATGATGTCACAtctaaggaatgaaaggaatggat c" /listShort="ydeQ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 576175 /Source="Nicolas_upshifts" /id="U410" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.67032967032967" /psig="0.936063936063936" /xcortree=1790 /SigmaFactorBS="agtatactttttgatactatatacattcaatgtgcgTACTTT TTatattttaatataCATCATATAATGATGTCACAtctaaggaatgaaaggaatggat c" /listShort="ydeQ" /GFF_Attribute="listLong" promotor_-35 complement(576186..576193) /Source="Nicolas_upshift_promotors" /id="U409" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.568431568431568" /psig="0.999000999001" /xcortree=1896 /SigmaFactorBS="gttttcatatgatccattcctttcattccttaGATGTGACat cattatatgatgTATATTAAAATATAAAAAGTacgcacattgaatgtatatagtatca a" /listShort="S185, ydeP" /GFF_Attribute="listLong" /label="promotor_-35" CDS 576209..576802 /gene="ydeQ" /locus_tag="BSU_05300" /old_locus_tag="BSU05300" /EC_number="1.6.99.-" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative NAD(P)H oxidoreductase involved in regulating potassium efflux" /protein_id="NP_388411.1" /db_xref="EnsemblGenomes-Gn:BSU05300" /db_xref="EnsemblGenomes-Tr:CAB12337" /db_xref="GOA:P96674" /db_xref="InterPro:IPR003680" /db_xref="InterPro:IPR029039" /db_xref="SubtiList:BG12144" /db_xref="UniProtKB/Swiss-Prot:P96674" /translation="MDHMKTLVLVVHPNIESSRINKKWKEAVLSEPDVTVHDLYEKYR DQPIDVEFEQQQLLAHDRIVFQFPLYWYSSPPLLKQWFDEVFTFGWAHGPGGNKLKGK EWVTAMSIGSPEHSYQAGGYNLFSISELTKPFQASAHLVGMTYLPSFAEYRANTISDQ EIAESANRYVKHITNIELNPKVRLQRYLKQLESVDLT*" gene 576209..576802 /gene="ydeQ" /locus_tag="BSU_05300" /old_locus_tag="BSU05300" CDS complement(576946..578133) /gene="ydeR" /locus_tag="BSU_05310" /old_locus_tag="BSU05310" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative efflux transporter" /protein_id="NP_388412.1" /db_xref="EnsemblGenomes-Gn:BSU05310" /db_xref="EnsemblGenomes-Tr:CAB12338" /db_xref="GOA:P96675" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12145" /db_xref="UniProtKB/Swiss-Prot:P96675" /translation="MANGNKQAGQRISPSLTLLLATACGIIVANLYYAQPLVGLISKA IGLSPSGAGLIVTLTQIGYVAGLLFLVPLGDIIENKKLIVVSLLLSAAALTLTAFVKH GTLFLAAAFFVGLGSIAAQVLVPFASYLASDAARGRVVGNVMSGLLLGIMLSRPISSL VADIWGWNAIFALSAVVSVILAIVLSKVLPARKPTANTNYTALLGSMWKLLRTTPVLR RRAIYHAFVFGAFSLFWTTVPLLLSGPDFHFSQKAIALYALVGIAGAVTAPIGGRLAD RGLTRLATGIALGVVVVSLLLPLMIQSSSPVGITVLVAAAILLDMGVSANLVLSQRAI FSLAPEIRSRLNGLFMAIFFLGGAIGSSIGGWAYASGGWSTALWIGIAFPVIALLYFI TEK*" gene complement(576946..578133) /gene="ydeR" /locus_tag="BSU_05310" /old_locus_tag="BSU05310" promotor_-35 578269..578273 /Source="Nicolas_upshift_promotors" /id="U411" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.605394605394605" /psig="0.999000999001" /xcortree=2381 /SigmaFactorBS="aaaaataatatactaaacgttcagttttgtaaatggatttct GTTTTctttttttattcaaTTTAAGTATACTGAACGTATagtttatattgcgggaagg a" /listShort="ydeS, ydzO" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 578287 /Source="Nicolas_upshifts" /id="U411" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.605394605394605" /psig="0.999000999001" /xcortree=2381 /SigmaFactorBS="aaaaataatatactaaacgttcagttttgtaaatggatttct GTTTTctttttttattcaaTTTAAGTATACTGAACGTATagtttatattgcgggaagg a" /listShort="ydeS, ydzO" /GFF_Attribute="listLong" promotor_-10 578288..578307 /Source="Nicolas_upshift_promotors" /id="U411" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.605394605394605" /psig="0.999000999001" /xcortree=2381 /SigmaFactorBS="aaaaataatatactaaacgttcagttttgtaaatggatttct GTTTTctttttttattcaaTTTAAGTATACTGAACGTATagtttatattgcgggaagg a" /listShort="ydeS, ydzO" /GFF_Attribute="listLong" /label="promotor_-10" CDS 578337..578933 /gene="ydeS" /locus_tag="BSU_05320" /old_locus_tag="BSU05320" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15944459; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (TetR/AcrR family)" /protein_id="NP_388413.1" /db_xref="EnsemblGenomes-Gn:BSU05320" /db_xref="EnsemblGenomes-Tr:CAB12339" /db_xref="GOA:P96676" /db_xref="InterPro:IPR001647" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR011075" /db_xref="InterPro:IPR036271" /db_xref="SubtiList:BG12146" /db_xref="UniProtKB/Swiss-Prot:P96676" /translation="MQSKRGRPRDEGTHKAILSAAYDLLLEKGFDAVTVDKIAERAKV SKATIYKWWSNKAAVIMDSFLSTATDRLPVPDTGSSVQDIVTHATNLARFLTSREGTV IKELIGAGQLDEKLAEEYRTRFFQPRRLQAKGLLEKGIQKGELRENLDIEVSIDLIYG PIFYRLLITGDEVNDSYVRDLVMNAFKGVQATSATESM*" gene 578337..578933 /gene="ydeS" /locus_tag="BSU_05320" /old_locus_tag="BSU05320" CDS 579047..579232 /gene="ydzO" /locus_tag="BSU_05329" /old_locus_tag="BSU05329" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_003097684.1" /db_xref="EnsemblGenomes-Gn:BSU05329" /db_xref="EnsemblGenomes-Tr:CAX52555" /db_xref="UniProtKB/Swiss-Prot:C0H3V9" /translation="MSKKKSFNREYITSYYYIPFHRLEQGFYTSMEYRKVGVFKQQGK IDGHYVGVMAMEKILAM*" gene 579047..579232 /gene="ydzO" /locus_tag="BSU_05329" /old_locus_tag="BSU05329" downshifts 579211 /Source="Nicolas_upshifts" /id="D254" /incds=0 /nref=5 /ntot=123 /MaxReadThrough="1.06987" /MaxDrop="2.89833" /score="-5.04743481" /energy="-6.3" /TU="NA" /idTUdmin="U411" /TUdmin=0 /isTUend="TRUE" promotor_-35 579344..579347 /Source="Nicolas_upshift_promotors" /id="U412" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.356643356643357" /psig="0.99000999000999" /xcortree=2480 /SigmaFactorBS="tctatgaccactcccataactgaaatagtctaatatttatac cagaagggATTGtttatataaataaaAGTTTATATAATGACGGGGGcgctaaggaaac g" /listShort="S186, aseR, ydfA, ydzS, ydzS" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 579354..579540 /Source="Nicolas_S_feature" /locus_tag="new_579354_579540" /HighExp="LBGstat, G180, LBGexp, G135, Paraq, G150, Oxctl, dia0, Diami, H2O2" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.99" /TUlongSig="NA" /TUlongPSig="NA" /label="S186" upshifts 579354 /Source="Nicolas_upshifts" /id="U412" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.356643356643357" /psig="0.99000999000999" /xcortree=2480 /SigmaFactorBS="tctatgaccactcccataactgaaatagtctaatatttatac cagaagggATTGtttatataaataaaAGTTTATATAATGACGGGGGcgctaaggaaac g" /listShort="S186, aseR, ydfA, ydzS, ydzS" /GFF_Attribute="listLong" promotor_-10 579362..579381 /Source="Nicolas_upshift_promotors" /id="U412" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.356643356643357" /psig="0.99000999000999" /xcortree=2480 /SigmaFactorBS="tctatgaccactcccataactgaaatagtctaatatttatac cagaagggATTGtttatataaataaaAGTTTATATAATGACGGGGGcgctaaggaaac g" /listShort="S186, aseR, ydfA, ydzS, ydzS" /GFF_Attribute="listLong" /label="promotor_-10" CDS 579541..579876 /gene="aseR" /locus_tag="BSU_05330" /old_locus_tag="BSU05330" /function="16.3: Control" /function="16.12: Sense" /experiment="publication(s) with functional evidences, PMID:15948947, 16430705" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15948947, 16430705; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator (metals sensing ArsR-SmtB repressors family)" /protein_id="NP_388414.1" /db_xref="EnsemblGenomes-Gn:BSU05330" /db_xref="EnsemblGenomes-Tr:CAB12340" /db_xref="GOA:P96677" /db_xref="InterPro:IPR001845" /db_xref="InterPro:IPR011991" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12147" /db_xref="UniProtKB/Swiss-Prot:P96677" /translation="MTIDVAAMTRCLKTLSDQTRLIMMRLFLEQEYCVCQLVDMFEMS QPAISQHLRKLKNAGFVNEDRRGQWRYYSINGSCPEFDTLQLILHQIDQEDELLNHIK QKKTQACCQ*" gene 579541..579876 /gene="aseR" /locus_tag="BSU_05330" /old_locus_tag="BSU05330" CDS 579889..581196 /gene="arsF" /locus_tag="BSU_05340" /old_locus_tag="BSU05340" /function="16.1: Circulate" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12950922, 14970228, 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="arsenite/antimonite/H+ antiporter" /protein_id="NP_388415.1" /db_xref="EnsemblGenomes-Gn:BSU05340" /db_xref="EnsemblGenomes-Tr:CAB12341" /db_xref="GOA:P96678" /db_xref="InterPro:IPR000802" /db_xref="SubtiList:BG12148" /db_xref="UniProtKB/Swiss-Prot:P96678" /translation="MTSMILAVFIFLLTLVLVIWQPKNLSIGWSACGGAVLALIAGVV NFHDVLTVTGIVWNATLAFVAIILISLILDNIGFFEWAALHMAKAAKGYGVRMFVYVS LLGAIVAALFANDGAALILTPIVLAMVRALHFNEKLVFPFIIASGFIADTTSLPFVVS NLVNIVSADYFHITFIDYASRMVVPYLFSLLASIIVLYLFFRKSIPKRYDLTEVKKPV EAIKDQNMFRLSWYILGLLLIGYFASEFFSIPVSVVAGSIAIIFLIAAQKSPAVHTKK VVKEAPWAIVFFSIGMYVVVYGVRNAGLTDVLSDVIQAAADQGLFAGTIGMGFIAAIL SSIMNNLPTVMIDALAIAGTDTHGMMREALIYANVIGSDLGPKITPIGSLATLLWLHV LSHKGMKISWGTYFKTGIILTIPTLLITLVGLYIWLLIIHSCF*" gene 579889..581196 /gene="arsF" /locus_tag="BSU_05340" /old_locus_tag="BSU05340" CDS 581228..581332 /gene="ydzSn" /locus_tag="BSU_05343" /old_locus_tag="BSU05343" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /pseudo /codon_start=1 /transl_table=11 /product="conserved hypothetical protein; N-terminal part of ydzS" /translation="CTGNSCRSQMAEGWGRKYLGAKWNVYSAGIEAQG*" gene 581228..581332 /gene="ydzSn" /locus_tag="BSU_05343" /old_locus_tag="BSU05343" /pseudo CDS 581341..581454 /gene="ydzSc" /locus_tag="BSU_05344" /old_locus_tag="BSU05344" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /pseudo /codon_start=1 /transl_table=11 /product="conserved hypothetical protein; C-terminal part of ydzS" /translation="AVKAMKEAGIDISNQTSEKFDDPAKAHGTEEVFPKGP*" gene 581341..581454 /gene="ydzSc" /locus_tag="BSU_05344" /old_locus_tag="BSU05344" /pseudo promotor_-35 581640..581648 /Source="Nicolas_upshift_promotors" /id="U413" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.987012987012987" /psig="0.987012987012987" /xcortree=429 /SigmaFactorBS="cagggaagttatttagctggtgacAGAGGAAAAttgatttgt gAACAGAATCATGAAGGAGAcggtgttttaaaggagttgtctgttttgcaggaattaa c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 581659..581677 /Source="Nicolas_upshift_promotors" /id="U413" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.987012987012987" /psig="0.987012987012987" /xcortree=429 /SigmaFactorBS="cagggaagttatttagctggtgacAGAGGAAAAttgatttgt gAACAGAATCATGAAGGAGAcggtgttttaaaggagttgtctgttttgcaggaattaa c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 581676 /Source="Nicolas_upshifts" /id="U413" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.987012987012987" /psig="0.987012987012987" /xcortree=429 /SigmaFactorBS="cagggaagttatttagctggtgacAGAGGAAAAttgatttgt gAACAGAATCATGAAGGAGAcggtgttttaaaggagttgtctgttttgcaggaattaa c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS 581694..582479 /gene="ydfB" /locus_tag="BSU_05350" /old_locus_tag="BSU05350" /function="16.6: Maintain" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12793527; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative acetyltransferase" /protein_id="NP_388416.1" /db_xref="EnsemblGenomes-Gn:BSU05350" /db_xref="EnsemblGenomes-Tr:CAB12342" /db_xref="GOA:P96679" /db_xref="InterPro:IPR000182" /db_xref="InterPro:IPR016181" /db_xref="InterPro:IPR027365" /db_xref="SubtiList:BG12149" /db_xref="UniProtKB/Swiss-Prot:P96679" /translation="MSVLQELTKKKYSSLKTMFDDKYCPTFVYSILDQTIPGAVYADD QTFPKSFFIGTESGIYFIAGDQGNRDFHDFIAGYYEEQVKSSKRFTLFSSSDTWDSVL KPILKDDLNQMRRAAFSYQPKSFKKTLQLPKGLVLKRIDEDIISHSTAFNSAYYEEYW NSVSQFASKGFGFAVLHGNHVVSECTSIFLGHNRAEMDIYTLEEYRGLGLAYCVANRF IAFCMENGIVPSWDCDICNNSSIALAAKLGFKTVTEYTIYYSG*" gene 581694..582479 /gene="ydfB" /locus_tag="BSU_05350" /old_locus_tag="BSU05350" downshifts 581741 /Source="Nicolas_upshifts" /id="D255" /incds=0 /nref=3 /ntot=24 /MaxReadThrough="2.67554" /MaxDrop="5.08398" /score="39.1565399" /energy="-19.2" /TU="NA" /idTUdmin="U413" /TUdmin=0 /isTUend="TRUE" downshifts 582489 /Source="Nicolas_upshifts" /id="D256" /incds=0 /nref=2 /ntot=90 /MaxReadThrough="0.161840000000001" /MaxDrop="3.51451" /score="-0.169292431" /energy="-13.6" /TU="NA" /idTUdmin="U413" /TUdmin=748 /isTUend="FALSE" CDS complement(582536..583456) /gene="ydfC" /locus_tag="BSU_05360" /old_locus_tag="BSU05360" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative aminoacid exporter" /protein_id="NP_388417.1" /db_xref="EnsemblGenomes-Gn:BSU05360" /db_xref="EnsemblGenomes-Tr:CAB12343" /db_xref="GOA:P96680" /db_xref="InterPro:IPR000620" /db_xref="SubtiList:BG12150" /db_xref="UniProtKB/Swiss-Prot:P96680" /translation="MRKKTVQIMISHSLMIGLWASAFPGIRAGLEGYTPEHLALFRLL IGSMALLLFAVLTQMRLPDLKDIPAIFLLGFLGFAFYHILLNIGEKTVSAGVASLLVT TAPIFSAMLSRLFYKEHFGFTKWLGSMISLLGVLLIAFGAGDFTYSMSGILVILLAAF SESIYFVFQARYIKKYGFIPFVTFTIWGGTIPMLVFLPGLGEEMMNASISATLSIVYL GLLPTVIPYFALAYVTSFVGASEATLSLYVTPALALIISWLWIGEIPTLLSLLGGVVT VGGVCFTYLKVNKMNKIFITHFSAKRVKKL*" gene complement(582536..583456) /gene="ydfC" /locus_tag="BSU_05360" /old_locus_tag="BSU05360" CDS 583589..585037 /gene="ydfD" /locus_tag="BSU_05370" /old_locus_tag="BSU05370" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15223311, 28348215; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative PLP-dependent transcriptional regulator" /protein_id="NP_388418.1" /db_xref="EnsemblGenomes-Gn:BSU05370" /db_xref="EnsemblGenomes-Tr:CAB12344" /db_xref="GOA:P96681" /db_xref="InterPro:IPR000524" /db_xref="InterPro:IPR004839" /db_xref="InterPro:IPR015421" /db_xref="InterPro:IPR015422" /db_xref="InterPro:IPR015424" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12151" /db_xref="UniProtKB/Swiss-Prot:P96681" /translation="MSFPEEKKMKKLPKYRQIVHFIKEKIGNGEWPIGSKIPSQRTLA KDFQVNRSTVITALEELMADGLIEGTMGKGTVVINNTWTLMAKNSAPDWDQYVTSGIQ MPSRKIVQEINQSESNTDLIQLSKGELSAEIFPLAVMKEMMGKVSQHMEAFGYEEPKG YLPLREALSNYLKTIGINVSSSSILIVSGALQALQLISMGLLQRGSTVYLDQPSYLYS LHVFQSAGMKLTGLPMDNEGLLPENVHLTRGERGRAILYTNPCFHNPTGILMSKKRRE EILAVSENTQLPIIEDDIYRELWIDEIPPYPIKTIDKNGHVLYIGSLSKTLSPGLRIG WIVGPEPVIERLSDIKMQTDYGSSSLSQRVAAEWFTSGHYQQHVEKVRQQLKVRRELA LSALETHLKEVATWNIPKGGFFVWIKILPSISMKLLYTKALSKGILINLGSIYAQEKG NYIRLSYAYASLEDLQKGIYELGLMIKELASR*" gene 583589..585037 /gene="ydfD" /locus_tag="BSU_05370" /old_locus_tag="BSU05370" CDS complement(585155..585778) /gene="ydfE" /locus_tag="BSU_05380" /old_locus_tag="BSU05380" /function="16.8: Protect" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative flavoprotein" /protein_id="NP_388419.1" /db_xref="EnsemblGenomes-Gn:BSU05380" /db_xref="EnsemblGenomes-Tr:CAB12345" /db_xref="GOA:P96682" /db_xref="InterPro:IPR002563" /db_xref="InterPro:IPR012349" /db_xref="SubtiList:BG12152" /db_xref="UniProtKB/Swiss-Prot:P96682" /translation="MDIKKQDTRRFKEIKPKIMYYGTSTFLLTTLNEDGTTNISPMSS SWALGHYIILGVGLGGKAIDNLERHKECVINLPGPDLWENVERISSYSGKKSIPPLKK QIGFTYKKEKYEAAGLTPLQSKTVSPTRIKECPIQIEAEVKHIRLPEYESSFAIVETQ ALHFHAEESIILDENHINPSKWSPLIYNFRHYFGLGREVGKTFRSET*" gene complement(585155..585778) /gene="ydfE" /locus_tag="BSU_05380" /old_locus_tag="BSU05380" promotor_-10 complement(585802..585821) /Source="Nicolas_upshift_promotors" /id="U414" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.398601398601399" /psig="0.999000999001" /xcortree=2726 /SigmaFactorBS="atattaggattcatgattttcctccttacattcatatttCGA TGATagttgaaatgttaaTCCTTTACAATATAAATGTAagcgtgacaaggaggaaaaa a" /listShort="ydfE" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 585810..585817 /Source="Nicolas_upshift_promotors" /id="U415" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.815184815184815" /psig=1 /xcortree=2389 /SigmaFactorBS="tccaacgttttttcctccttgtcacgcttacatttaTATTGT AAaggattaacatttcAACTATCATCGAAATATGAAtgtaaggaggaaaatcatgaat c" /listShort="ydfF" /GFF_Attribute="listLong" /label="promotor_-35" upshifts complement(585821) /Source="Nicolas_upshifts" /id="U414" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.398601398601399" /psig="0.999000999001" /xcortree=2726 /SigmaFactorBS="atattaggattcatgattttcctccttacattcatatttCGA TGATagttgaaatgttaaTCCTTTACAATATAAATGTAagcgtgacaaggaggaaaaa a" /listShort="ydfE" /GFF_Attribute="listLong" promotor_-10 585832..585851 /Source="Nicolas_upshift_promotors" /id="U415" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.815184815184815" /psig=1 /xcortree=2389 /SigmaFactorBS="tccaacgttttttcctccttgtcacgcttacatttaTATTGT AAaggattaacatttcAACTATCATCGAAATATGAAtgtaaggaggaaaatcatgaat c" /listShort="ydfF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 585834 /Source="Nicolas_upshifts" /id="U415" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.815184815184815" /psig=1 /xcortree=2389 /SigmaFactorBS="tccaacgttttttcctccttgtcacgcttacatttaTATTGT AAaggattaacatttcAACTATCATCGAAATATGAAtgtaaggaggaaaatcatgaat c" /listShort="ydfF" /GFF_Attribute="listLong" promotor_-35 complement(585836..585842) /Source="Nicolas_upshift_promotors" /id="U414" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.398601398601399" /psig="0.999000999001" /xcortree=2726 /SigmaFactorBS="atattaggattcatgattttcctccttacattcatatttCGA TGATagttgaaatgttaaTCCTTTACAATATAAATGTAagcgtgacaaggaggaaaaa a" /listShort="ydfE" /GFF_Attribute="listLong" /label="promotor_-35" CDS 585868..586548 /gene="ydfF" /locus_tag="BSU_05390" /old_locus_tag="BSU05390" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator" /protein_id="NP_388420.1" /db_xref="EnsemblGenomes-Gn:BSU05390" /db_xref="EnsemblGenomes-Tr:CAB12346" /db_xref="GOA:P96683" /db_xref="InterPro:IPR001845" /db_xref="InterPro:IPR011991" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12153" /db_xref="UniProtKB/Swiss-Prot:P96683" /translation="MNPNIAKISSLLSDPSRSSILLSLMDGRIHPAGELAYLANIKPQ TASFHLNKLLEAKLISVEKHGRHRYYRLADSDAANVIEQLLHIAPKAKVKSLKESKEK KDLHFARTCYDHLAGYVGVQMAHSLVEQGMLKKVDLNFEVTSEGALFFSKLGINEEQQ RNKRRAFARCCLDWSERQHHIAGALGNALLVRMLEEEWIVRMPKTRAIRITQSGKIAF EKHLNVKI*" gene 585868..586548 /gene="ydfF" /locus_tag="BSU_05390" /old_locus_tag="BSU05390" downshifts 586581 /Source="Nicolas_upshifts" /id="D257" /incds=0 /nref=113 /ntot=245 /MaxReadThrough="0.50202" /MaxDrop="4.24716" /score="-7.74889591" /energy="-4.5" /TU="U415" /idTUdmin="U415" /TUdmin="-22" /isTUend="TRUE" CDS complement(586628..587071) /gene="ydfG" /locus_tag="BSU_05400" /old_locus_tag="BSU05400" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388421.1" /db_xref="EnsemblGenomes-Gn:BSU05400" /db_xref="EnsemblGenomes-Tr:CAB12347" /db_xref="GOA:P96684" /db_xref="InterPro:IPR003779" /db_xref="InterPro:IPR004675" /db_xref="InterPro:IPR029032" /db_xref="SubtiList:BG12154" /db_xref="UniProtKB/Swiss-Prot:P96684" /translation="MSQRVSYYEIAPEGMKIMMDMEKYTKQSSINRTTRELIKIRVSQ MNGCAFCIDMHTSDARKMGETEQRIYCLHAWNECDFYSPEEKAALELSEHITLIPSKR VPDELYHRVREHYDEEQYVDLVLIINQINSWNRISIAMGNRAASK*" gene complement(586628..587071) /gene="ydfG" /locus_tag="BSU_05400" /old_locus_tag="BSU05400" downshifts complement(586633) /Source="Nicolas_upshifts" /id="D258" /incds=0 /nref=10 /ntot=187 /MaxReadThrough="1.76648" /MaxDrop="3.73786" /score="0.225628164" /energy="-10.8" /TU="NA" /idTUdmin="U416" /TUdmin=2 /isTUend="TRUE" promotor_-10 complement(587094..587113) /Source="Nicolas_upshift_promotors" /id="U416" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.96903096903097" /psig=1 /xcortree=2022 /SigmaFactorBS="gcttctttccaaaagacgctgaaacagctgtcattcaaaccg caCATTGGTAaaatgatcaatacCGGGATACAATCTAGGTATTctatggaaaggagtc t" /listShort="ydfG" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(587118) /Source="Nicolas_upshifts" /id="U416" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.96903096903097" /psig=1 /xcortree=2022 /SigmaFactorBS="gcttctttccaaaagacgctgaaacagctgtcattcaaaccg caCATTGGTAaaatgatcaatacCGGGATACAATCTAGGTATTctatggaaaggagtc t" /listShort="ydfG" /GFF_Attribute="listLong" promotor_-35 complement(587127..587134) /Source="Nicolas_upshift_promotors" /id="U416" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.96903096903097" /psig=1 /xcortree=2022 /SigmaFactorBS="gcttctttccaaaagacgctgaaacagctgtcattcaaaccg caCATTGGTAaaatgatcaatacCGGGATACAATCTAGGTATTctatggaaaggagtc t" /listShort="ydfG" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(587157..587336) /gene="ydzP" /locus_tag="BSU_05408" /old_locus_tag="BSU05408" /function="18: Unknown function" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_003097685.1" /db_xref="EnsemblGenomes-Gn:BSU05408" /db_xref="EnsemblGenomes-Tr:CAX52558" /db_xref="GOA:C0H3W0" /db_xref="UniProtKB/Swiss-Prot:C0H3W0" /translation="MNMYWFLGALLYFLIGTYIFIRVTRDSQSGSWILLALAAPLIIA GYPYFYSKKLLSKRR*" gene complement(587157..587336) /gene="ydzP" /locus_tag="BSU_05408" /old_locus_tag="BSU05408" CDS complement(587333..587476) /gene="ydzQ" /locus_tag="BSU_05409" /old_locus_tag="BSU05409" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_003097686.1" /db_xref="EnsemblGenomes-Gn:BSU05409" /db_xref="EnsemblGenomes-Tr:CAX52559" /db_xref="UniProtKB/Swiss-Prot:C0H3W1" /translation="MKSIDLTILSLKRKGIRTEKVLKNQNPDRLSHMTDKNAQPKSKE KEE*" gene complement(587333..587476) /gene="ydzQ" /locus_tag="BSU_05409" /old_locus_tag="BSU05409" promotor_-35 587427..587429 /Source="Nicolas_upshift_promotors" /id="U417" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.649350649350649" /psig="0.998001998001998" /xcortree=2487 /SigmaFactorBS="tctgattttttaataccttttcggtcCGGattccttttctct ttAATGATAAAATTGTGAGATCaatcgatttcaatgatgatcattccttcaatgaata g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 587445..587464 /Source="Nicolas_upshift_promotors" /id="U417" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.649350649350649" /psig="0.998001998001998" /xcortree=2487 /SigmaFactorBS="tctgattttttaataccttttcggtcCGGattccttttctct ttAATGATAAAATTGTGAGATCaatcgatttcaatgatgatcattccttcaatgaata g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 587461 /Source="Nicolas_upshifts" /id="U417" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.649350649350649" /psig="0.998001998001998" /xcortree=2487 /SigmaFactorBS="tctgattttttaataccttttcggtcCGGattccttttctct ttAATGATAAAATTGTGAGATCaatcgatttcaatgatgatcattccttcaatgaata g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS 587744..588967 /gene="ydfH" /locus_tag="BSU_05410" /old_locus_tag="BSU05410" /function="16.3: Control" /function="16.12: Sense" /experiment="publication(s) with functional evidences, PMID:11717295, 15941986" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11717295, 15941986; Product type rc: receptor" /codon_start=1 /transl_table=11 /product="two-component sensor histidine kinase [YdfI]" /protein_id="NP_388422.1" /db_xref="EnsemblGenomes-Gn:BSU05410" /db_xref="EnsemblGenomes-Tr:CAB12348" /db_xref="GOA:P96685" /db_xref="InterPro:IPR003594" /db_xref="InterPro:IPR011712" /db_xref="InterPro:IPR036890" /db_xref="SubtiList:BG12155" /db_xref="UniProtKB/Swiss-Prot:P96685" /translation="MLIRNPFKDKYYSHDRRALNMLALRVPGLAFILMIYIASIVLQF VSGGWSILLLYAFTILIAIFALLHWHSYRWVKKRVILYFAVQGLITFALANLMTGFFI LVIIGLYAFLIGQIIGMADRRRTFLILYLLLLLVINSAYHLHKGEVLHFIVIAAPIMI VIITYAATFFAQVDEKIKAQLTLERLELAHQQVEQLTLQNERQRMARDLHDTLAQGLV SLNMQLDAIHVHLAKGNTERAKEIIQQSMKRVKSTIADARSAIDDLRSKSEEIGVLKE RITSLMDHFIESTGMACLLDYRLHQVLDVRTAENCYYIIGECMTNAAKHAEAKTIWIS IWDDEKGRLHLTVKDNGKGFDVEKGKKKRGHYGLLGIQERVRAINGQFNIKSTKLKGT QIEITVPIQGEMQDE*" gene 587744..588967 /gene="ydfH" /locus_tag="BSU_05410" /old_locus_tag="BSU05410" CDS 588960..589601 /gene="ydfI" /locus_tag="BSU_05420" /old_locus_tag="BSU05420" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11717295, 15941986" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11717295, 15941986; Product type r: regulator" /codon_start=1 /transl_table=11 /product="two-component response regulator [YdfH]" /protein_id="NP_388423.1" /db_xref="EnsemblGenomes-Gn:BSU05420" /db_xref="EnsemblGenomes-Tr:CAB12349" /db_xref="GOA:P96686" /db_xref="InterPro:IPR000792" /db_xref="InterPro:IPR001789" /db_xref="InterPro:IPR011006" /db_xref="InterPro:IPR016032" /db_xref="InterPro:IPR036388" /db_xref="SubtiList:BG12156" /db_xref="UniProtKB/Swiss-Prot:P96686" /translation="MNKVLIVDDHLVVREGLKLLIETNDQYTIIGEAENGKVAVRLAD ELEPDIILMDLYMPEMSGLEAIKQIKEKHDTPIIILTTYNEDHLMIEGIELGAKGYLL KDTSSETLFHTMDAAIRGNVLLQPDILKRLQEIQFERMKKQRNETQLTEKEVIVLKAI AKGLKSKAIAFDLGVSERTVKSRLTSIYNKLGANSRTEAVTIAMQKGILTIDN*" gene 588960..589601 /gene="ydfI" /locus_tag="BSU_05420" /old_locus_tag="BSU05420" downshifts 589595 /Source="Nicolas_upshifts" /id="D259" /incds=0 /nref=5 /ntot=147 /MaxReadThrough="1.15378" /MaxDrop="2.65603" /score="8.33575703" /energy="-6.4" /TU="NA" /idTUdmin="U419" /TUdmin="-176" /isTUend="FALSE" promotor_-10 complement(589628..589647) /Source="Nicolas_upshift_promotors" /id="U418" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.796203796203796" /psig="0.999000999001" /xcortree=1843 /SigmaFactorBS="tcctttcaacacattgcttgatcacattctttctcattgtaG TTGACAAtgaaatgaaaaaaACGTACATTCGGGCATGTACgtttgggcaattttcaaa t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(589649) /Source="Nicolas_upshifts" /id="U418" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.796203796203796" /psig="0.999000999001" /xcortree=1843 /SigmaFactorBS="tcctttcaacacattgcttgatcacattctttctcattgtaG TTGACAAtgaaatgaaaaaaACGTACATTCGGGCATGTACgtttgggcaattttcaaa t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(589661..589668) /Source="Nicolas_upshift_promotors" /id="U418" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.796203796203796" /psig="0.999000999001" /xcortree=1843 /SigmaFactorBS="tcctttcaacacattgcttgatcacattctttctcattgtaG TTGACAAtgaaatgaaaaaaACGTACATTCGGGCATGTACgtttgggcaattttcaaa t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 589709..589714 /Source="Nicolas_upshift_promotors" /id="U419" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.833166833166833" /psig="0.833166833166833" /xcortree=1016 /SigmaFactorBS="actacaatgagaaagaatgtgatcaagcaatgtgttgaaagg AGATTAtcatgtcaaaaatgTTATATACATTAGGAGGATgggttgctcgcaatcgcat a" /listShort="ydfJ" /GFF_Attribute="listLong" /label="promotor_-35" CDS 589717..591891 /gene="ydfJ" /locus_tag="BSU_05430" /old_locus_tag="BSU05430" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15941986; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative proton metabolite efflux transporter" /protein_id="NP_388424.1" /db_xref="EnsemblGenomes-Gn:BSU05430" /db_xref="EnsemblGenomes-Tr:CAB12350" /db_xref="GOA:P96687" /db_xref="InterPro:IPR000731" /db_xref="InterPro:IPR004869" /db_xref="SubtiList:BG12157" /db_xref="UniProtKB/Swiss-Prot:P96687" /translation="MSKMLYTLGGWVARNRIKAICAWIVVLVAAIGLAVTLKPSFSED MSIPDTPSEKAMDVIQKEFPHGPDKGSIRVIFGAGDGEKLTGKPAKKAIEDTFKEISK DDSVDSIASPFVTGTIAKDGTVAYADIQYKSSADDIKDYSIKHLKDSLKMADDEGLQT ELSGDVPGAEMEIGGVSEIVGIILAFVVLAITFGSLLIAGLPILTALIGLGVSIGLVL IGTQVFDIASVSLSLAGMIGLAVGIDYALFIFTKHRQFLGEGIQKNESIARAVGTAGS AVVFAGLTVIVALCGLTVVNIPFMSAMGLTAGLSVLMAVLASITLVPAVLSIAGKRMI PKSNKKIEKQSTETNVWGRFVTKNPIMLSVCSILILIVISIPSMHLELGLPDAGMKAK DNPDRRAYDLLAEGFGEGFNGQLTIVADATNATENKAEAFADAVKEIKGLDHVASVTP AMPNKEGNFAIITVVPETGPNDVTTKDLVHDVRSLSDKNGVDLLVTGSTAVNIDISDR LNDAIPVFAVLIVGFAFVLLTIVFRSLLVPLVAVAGFMLTMTATLGICVFVLQDGNLI DFFKIPEKGPILAFLPILSIGILFGLAMDYQVFLVSRMREEYVKTNNPVQAIQAGLKH SGPVVTAAGLIMIFVFAGFIFAGEASIKANGLALSFGVLFDAFIVRMTLIPSVMKLMG NAAWYLPKWLDKIIPNVDIEGHQLTKEIQPEIDHEQKKQISV*" gene 589717..591891 /gene="ydfJ" /locus_tag="BSU_05430" /old_locus_tag="BSU05430" upshifts 589727 /Source="Nicolas_upshifts" /id="U419" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.833166833166833" /psig="0.833166833166833" /xcortree=1016 /SigmaFactorBS="actacaatgagaaagaatgtgatcaagcaatgtgttgaaagg AGATTAtcatgtcaaaaatgTTATATACATTAGGAGGATgggttgctcgcaatcgcat a" /listShort="ydfJ" /GFF_Attribute="listLong" promotor_-10 589729..589747 /Source="Nicolas_upshift_promotors" /id="U419" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.833166833166833" /psig="0.833166833166833" /xcortree=1016 /SigmaFactorBS="actacaatgagaaagaatgtgatcaagcaatgtgttgaaagg AGATTAtcatgtcaaaaatgTTATATACATTAGGAGGATgggttgctcgcaatcgcat a" /listShort="ydfJ" /GFF_Attribute="listLong" /label="promotor_-10" misc_feature complement(590793..590811) /Source="Nicolas_upshift_promotors" /id="U420" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.763236763236763" /psig="0.763236763236763" /xcortree=1205 /SigmaFactorBS="atgcatagatgggatactaatgacgatcaaaatcagaatgct GCATACACTTAGCATGATAggatttttggtgacaaagcgtccccagacatttgtttca g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(590793) /Source="Nicolas_upshifts" /id="U420" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.763236763236763" /psig="0.763236763236763" /xcortree=1205 /SigmaFactorBS="atgcatagatgggatactaatgacgatcaaaatcagaatgct GCATACACTTAGCATGATAggatttttggtgacaaagcgtccccagacatttgtttca g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" S_feature complement(591895..592302) /Source="Nicolas_S_feature" /locus_tag="new_591895_592302_c" /HighExp="Paraq, H2O2, Oxctl, aero, LBGexp, dia15, GM 150, M/G, ferm, nit" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S187" promotor_-35 591912..591916 /Source="Nicolas_upshift_promotors" /id="U421" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.986013986013986" /psig=1 /xcortree=3115 /SigmaFactorBS="aacaaaagaaacaaatcagtgtgtaatagaaaaagcagatct tttaTGATCtgctcttttgctTATGGTAGTATTTAGAAGATgaagtcggcagttaaaa g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 591926 /Source="Nicolas_upshifts" /id="U421" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.986013986013986" /psig=1 /xcortree=3115 /SigmaFactorBS="aacaaaagaaacaaatcagtgtgtaatagaaaaagcagatct tttaTGATCtgctcttttgctTATGGTAGTATTTAGAAGATgaagtcggcagttaaaa g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 591929..591948 /Source="Nicolas_upshift_promotors" /id="U421" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.986013986013986" /psig=1 /xcortree=3115 /SigmaFactorBS="aacaaaagaaacaaatcagtgtgtaatagaaaaagcagatct tttaTGATCtgctcttttgctTATGGTAGTATTTAGAAGATgaagtcggcagttaaaa g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" downshifts complement(591940) /Source="Nicolas_upshifts" /id="D260" /incds=0 /nref=22 /ntot=134 /MaxReadThrough="-0.100210000000001" /MaxDrop="3.637" /score="4.29161871" /energy="-8.8" /TU="NA" /idTUdmin="U422" /TUdmin="-3" /isTUend="TRUE" CDS complement(592303..593205) /gene="cesA" /locus_tag="BSU_05440" /old_locus_tag="BSU05440" /EC_number="3.1.1.1" /function="16.8: Protect" /function="16.6: Maintain" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:7765103, 22248594, 24418394" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7765103, 22248594, 24418394; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="carboxylesterase NP" /protein_id="NP_388425.1" /db_xref="EnsemblGenomes-Gn:BSU05440" /db_xref="EnsemblGenomes-Tr:CAB12351" /db_xref="GOA:P96688" /db_xref="InterPro:IPR000073" /db_xref="InterPro:IPR029058" /db_xref="PDB:2R11" /db_xref="SubtiList:BG11957" /db_xref="UniProtKB/Swiss-Prot:P96688" /translation="MSNHSSSIPELSDNGIRYYQTYNESLSLWPVRCKSFYISTRFGQ THVIASGPEDAPPLVLLHGALFSSTMWYPNIADWSSKYRTYAVDIIGDKNKSIPENVS GTRTDYANWLLDVFDNLGIEKSHMIGLSLGGLHTMNFLLRMPERVKSAAILSPAETFL PFHHDFYKYALGLTASNGVETFLNWMMNDQNVLHPIFVKQFKAGVMWQDGSRNPNPNA DGFPYVFTDEELRSARVPILLLLGEHEVIYDPHSALHRASSFVPDIEAEVIKNAGHVL SMEQPTYVNERVMRFFNAETGISR*" gene complement(592303..593205) /gene="cesA" /locus_tag="BSU_05440" /old_locus_tag="BSU05440" S_feature complement(593206..593301) /Source="Nicolas_S_feature" /locus_tag="new_593206_593301_c" /HighExp="nit, ferm, aero, LoTm, M/G, GM 150, Diami, Paraq, dia15, LBGexp" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S188" promotor_-10 complement(593281..593300) /Source="Nicolas_upshift_promotors" /id="U422" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.834165834165834" /psig=1 /xcortree=2448 /SigmaFactorBS="tcaataatctgtttcaatcgtttttttccttttcatcttgGA TTTGACgtctaataacaacTGTATTATATTGTAAATAAAgtctgttatatcaaaatca g" /listShort="S188, nap, S187" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(593301) /Source="Nicolas_upshifts" /id="U422" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.834165834165834" /psig=1 /xcortree=2448 /SigmaFactorBS="tcaataatctgtttcaatcgtttttttccttttcatcttgGA TTTGACgtctaataacaacTGTATTATATTGTAAATAAAgtctgttatatcaaaatca g" /listShort="S188, nap, S187" /GFF_Attribute="listLong" promotor_-35 complement(593314..593321) /Source="Nicolas_upshift_promotors" /id="U422" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.834165834165834" /psig=1 /xcortree=2448 /SigmaFactorBS="tcaataatctgtttcaatcgtttttttccttttcatcttgGA TTTGACgtctaataacaacTGTATTATATTGTAAATAAAgtctgttatatcaaaatca g" /listShort="S188, nap, S187" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(593407..594096) /gene="ydfK" /locus_tag="BSU_05450" /old_locus_tag="BSU05450" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10200972, 15849754, 16850406; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral inner membrane protein" /protein_id="NP_388426.1" /db_xref="EnsemblGenomes-Gn:BSU05450" /db_xref="EnsemblGenomes-Tr:CAB12352" /db_xref="GOA:P96689" /db_xref="InterPro:IPR007563" /db_xref="SubtiList:BG12158" /db_xref="UniProtKB/Swiss-Prot:P96689" /translation="MFGTIFNTVMIIAGSIIGGIFKKGIKDEYQDILMQAMGFAAVAL GINAITQHLPDSKYPILFIVSLAIGGLLGQIINLELRFNKLVNKFSKSNLAEGLSTAV LLFCIGSLSILGPVEAALHGDYTYLLTNGMLDGITSIVLASTFGFGIAAAALVLFSWQ GSIYLFAQVMESAINTDLINEITIVGGILILSSGLSILGIKKFKTLNLLPSLLIPPVV IFVIHAFGLRF*" gene complement(593407..594096) /gene="ydfK" /locus_tag="BSU_05450" /old_locus_tag="BSU05450" CDS complement(594186..594998) /gene="ydfL" /locus_tag="BSU_05460" /old_locus_tag="BSU05460" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator of efflux transporter" /protein_id="NP_388427.1" /db_xref="EnsemblGenomes-Gn:BSU05460" /db_xref="EnsemblGenomes-Tr:CAB12353" /db_xref="GOA:P96690" /db_xref="InterPro:IPR000551" /db_xref="InterPro:IPR009061" /db_xref="InterPro:IPR010499" /db_xref="InterPro:IPR011256" /db_xref="InterPro:IPR029442" /db_xref="SubtiList:BG12159" /db_xref="UniProtKB/Swiss-Prot:P96690" /translation="MKEFFSIGEVSKLFNVKISALRYYDEIGLLKPEYKDEQTNYRYY STQQFERLDTIKYLRALGLPINKLLDFYNSQNTNTLLHLLKSQQVEIDRKKKELERIE RKISRRITHIEDAVNMPLHQISKIKLPAMRVAYLQHEYVLGHDIEHSLAELRTHLNVN EDIFIGKIGLSISAANVKAKQFDKYSSIFMILEDENEKTSSEIIFPSREYLQIRFKGS HPEAEPYYKKLLAYMKEHHYEVAGDSIEITLIDYGITNNLDNYVTEILLPIK*" gene complement(594186..594998) /gene="ydfL" /locus_tag="BSU_05460" /old_locus_tag="BSU05460" promotor_-10 complement(595027..595046) /Source="Nicolas_upshift_promotors" /id="U423" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.911088911088911" /psig="0.998001998001998" /xcortree=1898 /SigmaFactorBS="tttttagaaggagttttttctttatgctgcaAACTTTACctt tagtactcgccgTACTATATAATGTGTGTATAtcaatcataggacagaaaggttgtta g" /listShort="ydfL" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(595040) /Source="Nicolas_upshifts" /id="U423" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.911088911088911" /psig="0.998001998001998" /xcortree=1898 /SigmaFactorBS="tttttagaaggagttttttctttatgctgcaAACTTTACctt tagtactcgccgTACTATATAATGTGTGTATAtcaatcataggacagaaaggttgtta g" /listShort="ydfL" /GFF_Attribute="listLong" promotor_-35 complement(595062..595069) /Source="Nicolas_upshift_promotors" /id="U423" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.911088911088911" /psig="0.998001998001998" /xcortree=1898 /SigmaFactorBS="tttttagaaggagttttttctttatgctgcaAACTTTACctt tagtactcgccgTACTATATAATGTGTGTATAtcaatcataggacagaaaggttgtta g" /listShort="ydfL" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(595109..596002) /gene="mneP" /locus_tag="BSU_05470" /old_locus_tag="BSU05470" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:27748968" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 27748968; Product type t: transporter" /codon_start=1 /transl_table=11 /product="primary Mn(II) efflux pump" /protein_id="NP_388428.2" /db_xref="EnsemblGenomes-Gn:BSU05470" /db_xref="EnsemblGenomes-Tr:CAB12354" /db_xref="GOA:C0SP78" /db_xref="InterPro:IPR002524" /db_xref="InterPro:IPR027469" /db_xref="InterPro:IPR027470" /db_xref="InterPro:IPR036837" /db_xref="SubtiList:BG12160" /db_xref="UniProtKB/Swiss-Prot:C0SP78" /translation="MASEREQISRKVALIALIANLILMAGKVFFGLVGDSEAVFADGI HSAADVVASIAVLAVIGISNKPPDQDHPFGHGKAEVISEAIVGIILVIVSVYILIEAI LSFVKGPSVPQYSALFAALISYVAKEILYRYSIKQGKKWNSKAIIAIAYDHKGDIVAS LAAFIGVLLAIIGNSRGWSYLLYADAIASAIVAYLIFKISMELIRPSVDVLMEKSVDP ELIEEYKAVIFQCDQVKRIDRIRAREHGHYKLLDVRLSLDHDLTIKQGHDIAREIRNE IKRQFSDVEEVLIHVNPYFEE*" gene complement(595109..596002) /gene="mneP" /locus_tag="BSU_05470" /old_locus_tag="BSU05470" downshifts complement(595129) /Source="Nicolas_upshifts" /id="D261" /incds=0 /nref=23 /ntot=121 /MaxReadThrough="1.07979" /MaxDrop="4.0938" /score="12.079524" /energy="-6.2" /TU="NA" /idTUdmin="U424" /TUdmin="-2" /isTUend="TRUE" S_feature complement(596003..596095) /Source="Nicolas_S_feature" /locus_tag="new_596003_596095_c" /HighExp="LPh, HPh, LPhT, UNK1, MG t5, MG 5, MG 15, BMM, GM 120, Fru" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S189" promotor_-10 complement(596076..596095) /Source="Nicolas_upshift_promotors" /id="U424" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.756243756243756" /psig=1 /xcortree=1748 /SigmaFactorBS="caccttatttattagtaaacaggaaacaacgttgcTATAGAC CcactcgaaattgaatTGGTATGATAAACAAAGTGAttacacaggaaaggatacggag a" /listShort="S189, ydfM" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(596093) /Source="Nicolas_upshifts" /id="U424" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.756243756243756" /psig=1 /xcortree=1748 /SigmaFactorBS="caccttatttattagtaaacaggaaacaacgttgcTATAGAC CcactcgaaattgaatTGGTATGATAAACAAAGTGAttacacaggaaaggatacggag a" /listShort="S189, ydfM" /GFF_Attribute="listLong" promotor_-35 complement(596111..596118) /Source="Nicolas_upshift_promotors" /id="U424" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.756243756243756" /psig=1 /xcortree=1748 /SigmaFactorBS="caccttatttattagtaaacaggaaacaacgttgcTATAGAC CcactcgaaattgaatTGGTATGATAAACAAAGTGAttacacaggaaaggatacggag a" /listShort="S189, ydfM" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 596284..596291 /Source="Nicolas_upshift_promotors" /id="U425" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.988011988011988" /psig=1 /xcortree=3024 /SigmaFactorBS="agtgaaaaatttccacctaattttcaaaaaccTATTGACAtg agaagatctgtaTTTTACTATTATCTCATATTcaagatattttaatttgagatatttg g" /listShort="ydfN, ydfO, S190, ydfP" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 596306..596325 /Source="Nicolas_upshift_promotors" /id="U425" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.988011988011988" /psig=1 /xcortree=3024 /SigmaFactorBS="agtgaaaaatttccacctaattttcaaaaaccTATTGACAtg agaagatctgtaTTTTACTATTATCTCATATTcaagatattttaatttgagatatttg g" /listShort="ydfN, ydfO, S190, ydfP" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 596312 /Source="Nicolas_upshifts" /id="U425" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.988011988011988" /psig=1 /xcortree=3024 /SigmaFactorBS="agtgaaaaatttccacctaattttcaaaaaccTATTGACAtg agaagatctgtaTTTTACTATTATCTCATATTcaagatattttaatttgagatatttg g" /listShort="ydfN, ydfO, S190, ydfP" /GFF_Attribute="listLong" CDS 596478..597098 /gene="ydfN" /locus_tag="BSU_05480" /old_locus_tag="BSU05480" /EC_number="1.-.-.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 17407181; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative oxidoreductase" /protein_id="NP_388429.1" /db_xref="EnsemblGenomes-Gn:BSU05480" /db_xref="EnsemblGenomes-Tr:CAB12355" /db_xref="GOA:P96692" /db_xref="InterPro:IPR000415" /db_xref="InterPro:IPR029479" /db_xref="PDB:3BEM" /db_xref="SubtiList:BG12161" /db_xref="UniProtKB/Swiss-Prot:P96692" /translation="MAEFTHLVNERRSASNFLSGHPITKEDLNEMFELVALAPSAFNL QHTKYVTVLDQDVKEKLKQAANGQYKVVSSSAVLLVLGDKQAYQQAADIYEGLKVLGI LNKQEYDHMVQDTVSFYENRGEQFKRDEAIRNASLSAMMFMLSAKEKGWDTCPMIGFD AEAVKRILNIDDQFEVVMMITIGKEKTESRRPRGYRKPVNEFVEYM*" gene 596478..597098 /gene="ydfN" /locus_tag="BSU_05480" /old_locus_tag="BSU05480" promotor_-35 596822..596828 /Source="Nicolas_upshift_promotors" /id="U426" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp="0.993006993006993" /psig="0.993006993006993" /xcortree=151 /SigmaFactorBS="tattggggatattaaataagcaagagtatgaccacatggtgc aagacacCGTTTCGttttatgaaaacaGGGGAGAACAATTTAAGAGagatgaggcgat a" /listShort="ydfO, S190, ydfP" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 596833 /Source="Nicolas_upshifts" /id="U426" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp="0.993006993006993" /psig="0.993006993006993" /xcortree=151 /SigmaFactorBS="tattggggatattaaataagcaagagtatgaccacatggtgc aagacacCGTTTCGttttatgaaaacaGGGGAGAACAATTTAAGAGagatgaggcgat a" /listShort="ydfO, S190, ydfP" /GFF_Attribute="listLong" promotor_-10 596842..596860 /Source="Nicolas_upshift_promotors" /id="U426" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp="0.993006993006993" /psig="0.993006993006993" /xcortree=151 /SigmaFactorBS="tattggggatattaaataagcaagagtatgaccacatggtgc aagacacCGTTTCGttttatgaaaacaGGGGAGAACAATTTAAGAGagatgaggcgat a" /listShort="ydfO, S190, ydfP" /GFF_Attribute="listLong" /label="promotor_-10" CDS 597114..598052 /gene="ydfO" /locus_tag="BSU_05490" /old_locus_tag="BSU05490" /EC_number="1.13.11.-" /function="16.8: Protect" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 17407181; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative dioxygenase" /protein_id="NP_388430.1" /db_xref="EnsemblGenomes-Gn:BSU05490" /db_xref="EnsemblGenomes-Tr:CAB12356" /db_xref="GOA:P96693" /db_xref="InterPro:IPR004360" /db_xref="InterPro:IPR029068" /db_xref="PDB:3OAJ" /db_xref="SubtiList:BG12162" /db_xref="UniProtKB/Swiss-Prot:P96693" /translation="MAKKTMGIHHITAIVGHPQENTDFYAGVLGLRLVKQTVNFDDPG TYHLYFGNEGGKPGTIITFFPWAGARQGVIGDGQVGVTSYVVPKGAMAFWEKRLEKFN VPYTKIERFGEQYVEFDDPHGLHLEIVEREEGEANTWTFGEVTPDVAIKGFGGATLLS EQPDKTADLLENIMGLERVGKEGDFVRYRSAGDIGNVIDLKLTPIGRGQMGAGTVHHI AWRANDDEDQLDWQRYIASHGYGVTPVRDRNYFNAIYFREHGEILFEIATDPPGFAHD ETQETMGEKLMLPVQYEPHRTQIEQGLLPFEVRELD*" gene 597114..598052 /gene="ydfO" /locus_tag="BSU_05490" /old_locus_tag="BSU05490" promotor_-35 598040..598043 /Source="Nicolas_upshift_promotors" /id="U427" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.658341658341658" /psig="0.658341658341658" /xcortree=729 /SigmaFactorBS="caaattgaacaagggctgctgccgtttgaagtaagAGAGtta gattgatttgaCACATAAAAAATAAAGAAACatatattcaattgatgattgctggatg g" /listShort="S190, ydfP" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 598058..598077 /Source="Nicolas_upshift_promotors" /id="U427" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.658341658341658" /psig="0.658341658341658" /xcortree=729 /SigmaFactorBS="caaattgaacaagggctgctgccgtttgaagtaagAGAGtta gattgatttgaCACATAAAAAATAAAGAAACatatattcaattgatgattgctggatg g" /listShort="S190, ydfP" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 598065..598153 /Source="Nicolas_S_feature" /locus_tag="new_598065_598153" /HighExp="Etha, BT, S6, S7, S8, G/S, GM 10, Gly, GM 15, B36" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigK, SigB, SigA" /TUshortPSig="0.658, 0.993, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S190" upshifts 598065 /Source="Nicolas_upshifts" /id="U427" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.658341658341658" /psig="0.658341658341658" /xcortree=729 /SigmaFactorBS="caaattgaacaagggctgctgccgtttgaagtaagAGAGtta gattgatttgaCACATAAAAAATAAAGAAACatatattcaattgatgattgctggatg g" /listShort="S190, ydfP" /GFF_Attribute="listLong" CDS 598154..598543 /gene="ydfP" /locus_tag="BSU_05500" /old_locus_tag="BSU05500" /EC_number="1.-.-.-" /function="16.8: Protect" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15306018, 15849754, 16850406, 17407181; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative membrane bound oxidoreductase" /protein_id="NP_388431.1" /db_xref="EnsemblGenomes-Gn:BSU05500" /db_xref="EnsemblGenomes-Tr:CAB12357" /db_xref="GOA:P96694" /db_xref="InterPro:IPR032808" /db_xref="SubtiList:BG12163" /db_xref="UniProtKB/Swiss-Prot:P96694" /translation="MEDAGLLLIRIMIGVVFLFYGTQKLFGWFGGYGIKGTGQWFESI GVKPGNVAAALSGLGELVSGILFILGVFLPLGAAIITIIMLGAIVKVHGAKGFANGAG GFEYNLVLIAVSIGVALIGSGAYALHF*" gene 598154..598543 /gene="ydfP" /locus_tag="BSU_05500" /old_locus_tag="BSU05500" downshifts 598534 /Source="Nicolas_upshifts" /id="D262" /incds=0 /nref=3 /ntot=91 /MaxReadThrough="1.0642" /MaxDrop="3.85597" /score="-8.69038499" /energy="-9.3" /TU="NA" /idTUdmin="U427" /TUdmin=29 /isTUend="FALSE" misc_feature 598657..598676 /Source="Nicolas_upshift_promotors" /id="U428" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.665334665334665" /psig="0.946053946053946" /xcortree=2048 /SigmaFactorBS="cattttcggcaagcttgcaggtactctgcaaagcaaaaaagc ggatatcataaatataAATCTGTATAGTGAATGATAcgtattgatgagcttggtcatg a" /listShort="S191, ydfQ" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" S_feature 598659..598728 /Source="Nicolas_S_feature" /locus_tag="new_598659_598728" /HighExp="Diami, dia5, H2O2, dia15, Etha, S8, Paraq, Salt, LPhT, G180" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.946" /TUlongSig="NA" /TUlongPSig="NA" /label="S191" upshifts 598659 /Source="Nicolas_upshifts" /id="U428" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.665334665334665" /psig="0.946053946053946" /xcortree=2048 /SigmaFactorBS="cattttcggcaagcttgcaggtactctgcaaagcaaaaaagc ggatatcataaatataAATCTGTATAGTGAATGATAcgtattgatgagcttggtcatg a" /listShort="S191, ydfQ" /GFF_Attribute="listLong" CDS 598729..599067 /gene="ydfQ" /locus_tag="BSU_05510" /old_locus_tag="BSU05510" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15937154; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative thioredoxin or thiol-disulfide isomerase" /protein_id="NP_388432.1" /db_xref="EnsemblGenomes-Gn:BSU05510" /db_xref="EnsemblGenomes-Tr:CAB12358" /db_xref="GOA:P96695" /db_xref="InterPro:IPR013766" /db_xref="InterPro:IPR036249" /db_xref="SubtiList:BG12164" /db_xref="UniProtKB/Swiss-Prot:P96695" /translation="MKEMTGLHSLVSIENFIKQHKFSFIYISRPGCTVCHAVLPQLRI VLDQFPNIKLGHINADDVAEVAGRFSVFTVPVLLLFIDGTEFLREARFVHFEQLEQKL KRVYRLYEGE*" gene 598729..599067 /gene="ydfQ" /locus_tag="BSU_05510" /old_locus_tag="BSU05510" downshifts 599055 /Source="Nicolas_upshifts" /id="D263" /incds=0 /nref=9 /ntot=28 /MaxReadThrough="1.76745" /MaxDrop="4.78737" /score="17.861178" /energy="-6" /TU="NA" /idTUdmin="U428" /TUdmin=0 /isTUend="TRUE" CDS complement(599107..599343) /gene="ydzH" /locus_tag="BSU_05520" /old_locus_tag="BSU05520" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein, sporulation-related" /protein_id="NP_388433.1" /db_xref="EnsemblGenomes-Gn:BSU05520" /db_xref="EnsemblGenomes-Tr:CAB12359" /db_xref="InterPro:IPR019618" /db_xref="SubtiList:BG12810" /db_xref="UniProtKB/Swiss-Prot:O31496" /translation="MRSQINISNLTINGMTQNANTDIGQNLQNSHTANSKNYGVNFTL GDYSPSHSIIISASCDNDTSDQGQVDNPSSPSEE*" gene complement(599107..599343) /gene="ydzH" /locus_tag="BSU_05520" /old_locus_tag="BSU05520" downshifts complement(599131) /Source="Nicolas_upshifts" /id="D264" /incds=0 /nref=1 /ntot=10 /MaxReadThrough="3.87679" /MaxDrop="2.5881" /score="9.38580075" /energy="-6" /TU="NA" /idTUdmin="U430" /TUdmin=418 /isTUend="FALSE" promotor_-35 599155..599161 /Source="Nicolas_upshift_promotors" /id="U429" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.722277722277722" /psig="0.722277722277722" /xcortree=1208 /SigmaFactorBS="aagggttatcaacctgcccttgatcactTGTATCAttatcac aacttgcTGAAATAATAATtgaatgagaaggagagtaatctcctaatgtgaaattcac t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 599176..599187 /Source="Nicolas_upshift_promotors" /id="U429" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.722277722277722" /psig="0.722277722277722" /xcortree=1208 /SigmaFactorBS="aagggttatcaacctgcccttgatcactTGTATCAttatcac aacttgcTGAAATAATAATtgaatgagaaggagagtaatctcctaatgtgaaattcac t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 599187 /Source="Nicolas_upshifts" /id="U429" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.722277722277722" /psig="0.722277722277722" /xcortree=1208 /SigmaFactorBS="aagggttatcaacctgcccttgatcactTGTATCAttatcac aacttgcTGAAATAATAATtgaatgagaaggagagtaatctcctaatgtgaaattcac t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" S_feature complement(599344..599505) /Source="Nicolas_S_feature" /locus_tag="new_599344_599505_c" /HighExp="BT, B36, S8, S7, G135, S5, S6, G180, Pyr, LBGstat" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S192" S_feature complement(599509..599874) /Source="Nicolas_S_feature" /locus_tag="new_599509_599874_c" /HighExp="BT, B36, S8, S7, S6, G/S, S5, Pyr, B60, S4" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigK, SigGF, SigK" /TUshortPSig="0.994, 0.989, 0.997" /TUlongSig="NA" /TUlongPSig="NA" /label="S193" downshifts complement(599549) /Source="Nicolas_upshifts" /id="D265" /incds=0 /nref=26 /ntot=52 /MaxReadThrough="2.64253" /MaxDrop="4.6761" /score="8.29803249" /energy="-12.4" /TU="NA" /idTUdmin="U430" /TUdmin=0 /isTUend="TRUE" CDS complement(599875..600105) /gene="ydzR" /locus_tag="BSU_05529" /old_locus_tag="BSU05529" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 19383706, 20709900" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein, sporulation-related" /protein_id="YP_003097687.1" /db_xref="EnsemblGenomes-Gn:BSU05529" /db_xref="EnsemblGenomes-Tr:CAX52560" /db_xref="InterPro:IPR019618" /db_xref="UniProtKB/Swiss-Prot:C0H3W2" /translation="MMKFPVYIHSISGNSVFNNGFAVSISPFSVSKTTEGSGGSNTGL VFESNALSQTSSANQAQNVTYAIQELLSKLLA*" gene complement(599875..600105) /gene="ydzR" /locus_tag="BSU_05529" /old_locus_tag="BSU05529" downshifts 600089 /Source="Nicolas_upshifts" /id="D266" /incds=0 /nref=1 /ntot=4 /MaxReadThrough="1.08051" /MaxDrop="3.36374" /score="17.861178" /energy="-6" /TU="NA" /idTUdmin="U428" /TUdmin=1034 /isTUend="FALSE" promotor_-10 complement(600126..600145) /Source="Nicolas_upshift_promotors" /id="U430" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=1432 /SigmaFactorBS="ggtttttgtctcttactgaaagtttttgccgttttGTTTAAG CAActgctgctcacacACCATATTGTATAAACAGTCataacagagaggagagatgaat g" /listShort="ydzR, S193" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(600143) /Source="Nicolas_upshifts" /id="U430" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=1432 /SigmaFactorBS="ggtttttgtctcttactgaaagtttttgccgttttGTTTAAG CAActgctgctcacacACCATATTGTATAAACAGTCataacagagaggagagatgaat g" /listShort="ydzR, S193" /GFF_Attribute="listLong" S_feature complement(600145..600228) /Source="Nicolas_S_feature" /locus_tag="new_600145_600228_c" /HighExp="S8, S5, S7, S6, S4, nit, ferm, BT, Pyr, G/S" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigGF, SigK" /TUshortPSig="0.989, 0.997" /TUlongSig="NA" /TUlongPSig="NA" /label="S194" promotor_-35 complement(600159..600168) /Source="Nicolas_upshift_promotors" /id="U430" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=1432 /SigmaFactorBS="ggtttttgtctcttactgaaagtttttgccgttttGTTTAAG CAActgctgctcacacACCATATTGTATAAACAGTCataacagagaggagagatgaat g" /listShort="ydzR, S193" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(600229..600906) /gene="ydfR" /locus_tag="BSU_05530" /old_locus_tag="BSU05530" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved membrane protein of unknown function" /protein_id="NP_388434.1" /db_xref="EnsemblGenomes-Gn:BSU05530" /db_xref="EnsemblGenomes-Tr:CAB12360" /db_xref="GOA:P96696" /db_xref="InterPro:IPR007353" /db_xref="InterPro:IPR023090" /db_xref="SubtiList:BG12165" /db_xref="UniProtKB/Swiss-Prot:P96696" /translation="MNRLPFGYIKLRLAGRKANPMTNLIHHWSGGSMNFTWESLVLIV AGVILLRISGRKSIAQMTSTQTVVMISIGTIIVQPIIEYSLFKTLIAAAIFTSTLIVM EWIQMKSNTIEKMLTGKAKIVIENGQLHIENLKKMRLTADQLEMQLRLHGVTAIQDVK IATLEANGQLGIELTDDAKPLTVRDLKKLIHPDFINKDGQAQSGNQNIFDEVGKKNKK NVPKKLH*" gene complement(600229..600906) /gene="ydfR" /locus_tag="BSU_05530" /old_locus_tag="BSU05530" promotor_-10 complement(600877..600888) /Source="Nicolas_upshift_promotors" /id="U431" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.98901098901099" /psig="0.98901098901099" /xcortree=782 /SigmaFactorBS="taatatatccatctataccaaaaatattgttcggttcaggac AGAATGAaccgactgcctttcGGATATATTAAAttgcgattggccggaagaaaagcca a" /listShort="ydfR, S194, ydzR, S193" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(600891) /Source="Nicolas_upshifts" /id="U431" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.98901098901099" /psig="0.98901098901099" /xcortree=782 /SigmaFactorBS="taatatatccatctataccaaaaatattgttcggttcaggac AGAATGAaccgactgcctttcGGATATATTAAAttgcgattggccggaagaaaagcca a" /listShort="ydfR, S194, ydzR, S193" /GFF_Attribute="listLong" promotor_-35 complement(600903..600909) /Source="Nicolas_upshift_promotors" /id="U431" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.98901098901099" /psig="0.98901098901099" /xcortree=782 /SigmaFactorBS="taatatatccatctataccaaaaatattgttcggttcaggac AGAATGAaccgactgcctttcGGATATATTAAAttgcgattggccggaagaaaagcca a" /listShort="ydfR, S194, ydzR, S193" /GFF_Attribute="listLong" /label="promotor_-35" S_feature complement(600907..601740) /Source="Nicolas_S_feature" /locus_tag="new_600907_601740_c" /HighExp="S6, S8, S7, S5, BT, B36, G/S, Pyr, nit, B60" /AntisenseName="ydfS" /AntisenseCor="0.65823831974361602" /AntisenseRegPval="-34.1" /CDS_PredictionProba="NA" /TUshortSig="SigK" /TUshortPSig="0.997" /TUlongSig="NA" /TUlongPSig="NA" /label="S195" promotor_-35 600922..600927 /Source="Nicolas_upshift_promotors" /id="U432" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.944055944055944" /psig="0.944055944055944" /xcortree=781 /SigmaFactorBS="ccgaaaggcagtcggttcattctgtcctgaaccgaACAATAt ttttggtatagatGGATATATTAAGccaaacaatgatagcaacaggagttttttggcc g" /listShort="ydfS" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 600942..600953 /Source="Nicolas_upshift_promotors" /id="U432" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.944055944055944" /psig="0.944055944055944" /xcortree=781 /SigmaFactorBS="ccgaaaggcagtcggttcattctgtcctgaaccgaACAATAt ttttggtatagatGGATATATTAAGccaaacaatgatagcaacaggagttttttggcc g" /listShort="ydfS" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 600947 /Source="Nicolas_upshifts" /id="U432" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.944055944055944" /psig="0.944055944055944" /xcortree=781 /SigmaFactorBS="ccgaaaggcagtcggttcattctgtcctgaaccgaACAATAt ttttggtatagatGGATATATTAAGccaaacaatgatagcaacaggagttttttggcc g" /listShort="ydfS" /GFF_Attribute="listLong" CDS 601019..601726 /gene="ydfS" /locus_tag="BSU_05540" /old_locus_tag="BSU05540" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388435.1" /db_xref="EnsemblGenomes-Gn:BSU05540" /db_xref="EnsemblGenomes-Tr:CAB12361" /db_xref="GOA:P96697" /db_xref="InterPro:IPR007353" /db_xref="InterPro:IPR023090" /db_xref="SubtiList:BG12166" /db_xref="UniProtKB/Swiss-Prot:P96697" /translation="MIELEVVIRTVASFGLLLIAERILGKQTISQMTIFDFIAAITLG AIAAGLAYNTSIKPHNMAISFSIFVLTIFLISFLSIKNRKLRKFFAGDPTVLIQNGKI LESNMRKMRYTLDYLNQQLREKEIFNIEEVLFAILETNGQLTVLRKPQFRHVTKQDLM IAVNQEQRLPIELIMDGEIIENNLKQNRLTESWLLEELRKRDIKVKETVYAVLLGNGD IYVDQYKDHISVPMDKE*" gene 601019..601726 /gene="ydfS" /locus_tag="BSU_05540" /old_locus_tag="BSU05540" CDS complement(601741..602172) /gene="cotP" /locus_tag="BSU_05550" /old_locus_tag="BSU05550" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:11150673" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11150673; Product type s: structure" /codon_start=1 /transl_table=11 /product="spore coat protein" /protein_id="NP_388436.1" /db_xref="EnsemblGenomes-Gn:BSU05550" /db_xref="EnsemblGenomes-Tr:CAB12362" /db_xref="GOA:P96698" /db_xref="InterPro:IPR002068" /db_xref="InterPro:IPR008978" /db_xref="InterPro:IPR031107" /db_xref="SubtiList:BG12167" /db_xref="UniProtKB/Swiss-Prot:P96698" /translation="MDFEKIRKWLEITNEYKQSDFWTNVLKYKAPEHFFDSEASTFVY DFYQDEEYNFIIVEMPGVYEEELTIRLLSKTQLLIKGTITPVFPAEMEVLRERYYGEI ERIIQLPEAAETHLLQIQLLNGLLHISYPRQVETVAFNKGL*" gene complement(601741..602172) /gene="cotP" /locus_tag="BSU_05550" /old_locus_tag="BSU05550" CDS complement(602185..602427) /gene="ydgA" /locus_tag="BSU_05560" /old_locus_tag="BSU05560" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein; putative germination protein" /protein_id="NP_388437.1" /db_xref="EnsemblGenomes-Gn:BSU05560" /db_xref="EnsemblGenomes-Tr:CAB12363" /db_xref="InterPro:IPR019618" /db_xref="SubtiList:BG12168" /db_xref="UniProtKB/Swiss-Prot:P96699" /translation="MPYQINIANIKINGVTQNGNIDVGPTVHNSHTANSKYFGANFSL GDLSPTSSLLNTGNIDSDVSDQDQIGNPSAPISNQI*" gene complement(602185..602427) /gene="ydgA" /locus_tag="BSU_05560" /old_locus_tag="BSU05560" CDS complement(602441..602713) /gene="ydgB" /locus_tag="BSU_05570" /old_locus_tag="BSU05570" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein; putative germination protein" /protein_id="NP_388438.1" /db_xref="EnsemblGenomes-Gn:BSU05570" /db_xref="EnsemblGenomes-Tr:CAB12364" /db_xref="InterPro:IPR019618" /db_xref="SubtiList:BG12169" /db_xref="UniProtKB/Swiss-Prot:P96700" /translation="MPSTVINLYYLKINSISGNGSITIGEAAYNSPTNNQKSQGTNSS FGDTSPTESVMENFLNDPDVNDQTSIGNSDTSNVNAPPIAPPPILD*" gene complement(602441..602713) /gene="ydgB" /locus_tag="BSU_05570" /old_locus_tag="BSU05570" promotor_-10 complement(602735..602754) /Source="Nicolas_upshift_promotors" /id="U433" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=1305 /SigmaFactorBS="gatagagttttgcccgtaaatgCAAGGAACAAttgggtgcag cggCGCATAATGTACTGTACAGAaagatggaagggtgtgatgggatgccgtctacagt a" /listShort="ydgB, ydgA, cotP, S195, ydfR, S194, ydzR, S193" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(602739) /Source="Nicolas_upshifts" /id="U433" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=1305 /SigmaFactorBS="gatagagttttgcccgtaaatgCAAGGAACAAttgggtgcag cggCGCATAATGTACTGTACAGAaagatggaagggtgtgatgggatgccgtctacagt a" /listShort="ydgB, ydgA, cotP, S195, ydfR, S194, ydzR, S193" /GFF_Attribute="listLong" promotor_-35 complement(602768..602777) /Source="Nicolas_upshift_promotors" /id="U433" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=1305 /SigmaFactorBS="gatagagttttgcccgtaaatgCAAGGAACAAttgggtgcag cggCGCATAATGTACTGTACAGAaagatggaagggtgtgatgggatgccgtctacagt a" /listShort="ydgB, ydgA, cotP, S195, ydfR, S194, ydzR, S193" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 602932..602939 /Source="Nicolas_upshift_promotors" /id="U434" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.786213786213786" /psig="0.997002997002997" /xcortree=1917 /SigmaFactorBS="gaagctggcaaacaggatcagtttgaaatAATTGACAatgaa gctaatgccaTGAAATAATACTCGTGAGTAacattactcgtgggtattatttttgggg t" /listShort="ydgC, ydgD, S196, ydgE, S197" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 602955..602974 /Source="Nicolas_upshift_promotors" /id="U434" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.786213786213786" /psig="0.997002997002997" /xcortree=1917 /SigmaFactorBS="gaagctggcaaacaggatcagtttgaaatAATTGACAatgaa gctaatgccaTGAAATAATACTCGTGAGTAacattactcgtgggtattatttttgggg t" /listShort="ydgC, ydgD, S196, ydgE, S197" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 602963 /Source="Nicolas_upshifts" /id="U434" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.786213786213786" /psig="0.997002997002997" /xcortree=1917 /SigmaFactorBS="gaagctggcaaacaggatcagtttgaaatAATTGACAatgaa gctaatgccaTGAAATAATACTCGTGAGTAacattactcgtgggtattatttttgggg t" /listShort="ydgC, ydgD, S196, ydgE, S197" /GFF_Attribute="listLong" CDS 603012..603599 /gene="ydgC" /locus_tag="BSU_05580" /old_locus_tag="BSU05580" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator" /protein_id="NP_388439.1" /db_xref="EnsemblGenomes-Gn:BSU05580" /db_xref="EnsemblGenomes-Tr:CAB12365" /db_xref="GOA:P96701" /db_xref="InterPro:IPR001647" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR036271" /db_xref="SubtiList:BG12170" /db_xref="UniProtKB/Swiss-Prot:P96701" /translation="MKSKGVESRKRLLKAAANEFSVRGFHDAKVSEIVKKAGFTQPSF YLYFQSKEAIFAELITDFHSRVRKLTESLLLENGLNTEDVSKRVLLAVETVFQFLDED KDLTKIGFFLNPEAKQMKKDLAMVLKENLEAEQRLGYFHSELDMETVAECLVGMIEHL TESFLLTGIKDPASLAAEVVNLLIYGMLPKGNDVR*" gene 603012..603599 /gene="ydgC" /locus_tag="BSU_05580" /old_locus_tag="BSU05580" CDS 603596..603940 /gene="ydgD" /locus_tag="BSU_05590" /old_locus_tag="BSU05590" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388440.1" /db_xref="EnsemblGenomes-Gn:BSU05590" /db_xref="EnsemblGenomes-Tr:CAB12366" /db_xref="GOA:P96702" /db_xref="InterPro:IPR032808" /db_xref="SubtiList:BG12171" /db_xref="UniProtKB/Swiss-Prot:P96702" /translation="MISIMMKVSLAVFMLAGGIIKVSRVPFQVEHWRHYQYPLWFLTV TGILEIAGALAMTAGIWNRYAAIGAGVLFVVLMAGAIHAHMFRARQSVIMAIQAMICL IVSIMIIMGSYT*" gene 603596..603940 /gene="ydgD" /locus_tag="BSU_05590" /old_locus_tag="BSU05590" S_feature 603941..604102 /Source="Nicolas_S_feature" /locus_tag="new_603941_604102" /HighExp="Salt, Diami, dia15, dia5, aero, H2O2, SMMPr, Etha, Lbtran, LBGstat" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.997" /TUlongSig="NA" /TUlongPSig="NA" /label="S196" CDS 604103..604576 /gene="ydgE" /locus_tag="BSU_05600" /old_locus_tag="BSU05600" /EC_number="2.3.1.-" /function="16.11: Scavenge (Catabolism)" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative N-acetyltransferase" /protein_id="NP_388441.1" /db_xref="EnsemblGenomes-Gn:BSU05600" /db_xref="EnsemblGenomes-Tr:CAB12367" /db_xref="GOA:P96703" /db_xref="InterPro:IPR000182" /db_xref="InterPro:IPR016181" /db_xref="SubtiList:BG12172" /db_xref="UniProtKB/Swiss-Prot:P96703" /translation="MAFTLEDMTEEEFEAFRGMSVQNFAKQNITSGTWTEKEAFEKSE QAYENMIPNGRDSSNHYFWNITNDQGERMGWLWLYADPLHPQKEAFIYSFGLYEAFRG KGLAQLALQTLDERARELGAERLALHVFAHNETAVYLYQKMGYAMTNIRMRKQLC*" gene 604103..604576 /gene="ydgE" /locus_tag="BSU_05600" /old_locus_tag="BSU05600" S_feature 604577..605269 /Source="Nicolas_S_feature" /locus_tag="new_604577_605269" /HighExp="Salt, H2O2, dia15, aero, T-2.40H, Diami, T-3.40H, T-1.40H, T-4.40H, T-0.40H" /AntisenseName="vmlR" /AntisenseCor="-7.1224465259194999E-2" /AntisenseRegPval="-0.6" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.997" /TUlongSig="NA" /TUlongPSig="NA" /label="S197" downshifts complement(604719) /Source="Nicolas_upshifts" /id="D267" /incds=0 /nref=4 /ntot=88 /MaxReadThrough="0.39199" /MaxDrop="3.39645" /score="18.2783449" /energy="-8.8" /TU="NA" /idTUdmin="U436" /TUdmin=0 /isTUend="TRUE" CDS complement(604736..606379) /gene="vmlR" /locus_tag="BSU_05610" /old_locus_tag="BSU05610" /function="16.1: Circulate" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:16109936, 22226636, 24687494, 25891423" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16109936, 22226636, 24687494, 25891423; Product type t: transporter" /codon_start=1 /transl_table=11 /product="ATP-binding cassette efflux transporter" /protein_id="NP_388442.1" /db_xref="EnsemblGenomes-Gn:BSU05610" /db_xref="EnsemblGenomes-Tr:CAB12368" /db_xref="GOA:P39115" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR032781" /db_xref="SubtiList:BG10767" /db_xref="UniProtKB/Swiss-Prot:P39115" /translation="MKEIVTLTNVSYEVKDQTVFKHVNASVQQGDIIGIIGKNGAGKS TLLHLIHNDLAPAQGQILRKDIKLALVEQETAAYSFADQTPAEKKLLEKWHVPLRDFH QLSGGEKLKARLAKGLSEDADLLLLDEPTNHLDEKSLQFLIQQLKHYNGTVILVSHDR YFLDEAATKIWSLEDQTLIEFKGNYSGYMKFREKKRLTQQREYEKQQKMVERIEAQMN GLASWSEKAHAQSTKKEGFKEYHRVKAKRTDAQIKSKQKRLEKELEKAKAEPVTPEYT VRFSIDTTHKTGKRFLEVQNVTKAFGERTLFKNANFTIQHGEKVAIIGPNGSGKTTLL NIILGQETAEGSVWVSPSANIGYLTQEVFDLPLEQTPEELFENETFKARGHVQNLMRH LGFTAAQWTEPIKHMSMGERVKIKLMAYILEEKDVLILDEPTNHLDLPSREQLEETLS QYSGTLLAVSHDRYFLEKTTNSKLVISNNGIEKQLNDVPSERNEREELRLKLETERQE VLGKLSFMTPNDKGYKELDQAFNELTKRIKELDHQDKKD*" gene complement(604736..606379) /gene="vmlR" /locus_tag="BSU_05610" /old_locus_tag="BSU05610" S_feature complement(606414..606611) /Source="Nicolas_S_feature" /locus_tag="new_606414_606611_c" /HighExp="BC, Sw, B60, B36, LoTm, S7, HiOs, S4, BI, M9-stat" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S198" promotor_-35 606428..606430 /Source="Nicolas_upshift_promotors" /id="U435" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.433566433566434" /psig="0.494505494505494" /xcortree=34 /SigmaFactorBS="gctttaaagggagaataaaaaaatcctcccaaatgtgTTGga aggattagccgtgcCTGTGCATGATCAAATAAGctattttttataaatagcagtgtcg t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 606447..606465 /Source="Nicolas_upshift_promotors" /id="U435" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.433566433566434" /psig="0.494505494505494" /xcortree=34 /SigmaFactorBS="gctttaaagggagaataaaaaaatcctcccaaatgtgTTGga aggattagccgtgcCTGTGCATGATCAAATAAGctattttttataaatagcagtgtcg t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 606451 /Source="Nicolas_upshifts" /id="U435" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.433566433566434" /psig="0.494505494505494" /xcortree=34 /SigmaFactorBS="gctttaaagggagaataaaaaaatcctcccaaatgtgTTGga aggattagccgtgcCTGTGCATGATCAAATAAGctattttttataaatagcagtgtcg t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" downshifts complement(606457) /Source="Nicolas_upshifts" /id="D268" /incds=0 /nref=210 /ntot=265 /MaxReadThrough="3.59768" /MaxDrop="6.27457" /score="29.5863709" /energy="-11.8" /TU="U436" /idTUdmin="U437" /TUdmin=242 /isTUend="FALSE" downshifts 606577 /Source="Nicolas_upshifts" /id="D269" /incds=0 /nref=35 /ntot=150 /MaxReadThrough="1.71902" /MaxDrop="4.95368" /score="-7.23582918" /energy="-13.3" /TU="NA" /idTUdmin="U435" /TUdmin="-2" /isTUend="TRUE" promotor_-10 complement(606603..606622) /Source="Nicolas_upshift_promotors" /id="U436" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.717282717282717" /psig=1 /xcortree=414 /SigmaFactorBS="atgagagcaggagtttttttgatgaaaatgaccTTTGCTTTt gaatttaaaggTATGCTATAGTGTTTGTAATcaaaacaagaagggatgatgggtggac a" /listShort="S198, vmlR" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(606615) /Source="Nicolas_upshifts" /id="U436" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.717282717282717" /psig=1 /xcortree=414 /SigmaFactorBS="atgagagcaggagtttttttgatgaaaatgaccTTTGCTTTt gaatttaaaggTATGCTATAGTGTTTGTAATcaaaacaagaagggatgatgggtggac a" /listShort="S198, vmlR" /GFF_Attribute="listLong" promotor_-35 complement(606635..606642) /Source="Nicolas_upshift_promotors" /id="U436" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.717282717282717" /psig=1 /xcortree=414 /SigmaFactorBS="atgagagcaggagtttttttgatgaaaatgaccTTTGCTTTt gaatttaaaggTATGCTATAGTGTTTGTAATcaaaacaagaagggatgatgggtggac a" /listShort="S198, vmlR" /GFF_Attribute="listLong" /label="promotor_-35" downshifts complement(606698) /Source="Nicolas_upshifts" /id="D270" /incds=0 /nref=92 /ntot=203 /MaxReadThrough="2.22553" /MaxDrop="5.71399" /score="18.9878298" /energy="-13.3" /TU="NA" /idTUdmin="U437" /TUdmin=1 /isTUend="TRUE" CDS complement(606699..608075) /gene="ydgF" /locus_tag="BSU_05620" /old_locus_tag="BSU05620" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16109936, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative amino acid permease" /protein_id="NP_388443.1" /db_xref="EnsemblGenomes-Gn:BSU05620" /db_xref="EnsemblGenomes-Tr:CAB12369" /db_xref="GOA:P96704" /db_xref="InterPro:IPR002293" /db_xref="InterPro:IPR004840" /db_xref="InterPro:IPR004841" /db_xref="SubtiList:BG12173" /db_xref="UniProtKB/Swiss-Prot:P96704" /translation="MTDDMTKDNINQQTLQRGLKNRHIQLIAIGGAIGTGLFLGSGKS IHFAGPSILFAYMITGIICFLIMRSLGELLLSNLNYHSFVDFVQDYLGDMAAFITGWT YWFCWISIAMADLTAVGLYTQYWLPGVPQWVPGLIALIILLIMNLATVKLFGELEFWF ALIKVIAILALIVIGLVMIFKGFSTSSGVSSFTNLWSHGGLFPNGMHGFILSFQMVVF AFVGIELVGLTAGETENPEKVIPKAINNIPVRVLLFYIGALLVIMSIYPWDIINPSES PFVQVFVAVGIVGAASIINFVVLTSAASACNSAVFSTSRMVYSLAKDHNAPESMAKLT QRKVPRNALFFSAIVILIGVTLNYIMPEGVFTLITSISTVCFIYIWGITVICHMKYRK TRPELAKTNKFKLPLYPFTNYLILAFLAFVLVVLALAQDTRVSLFVTPVWFILLIVIY KVRKAKHQ*" gene complement(606699..608075) /gene="ydgF" /locus_tag="BSU_05620" /old_locus_tag="BSU05620" misc_feature complement(608125..608144) /Source="Nicolas_upshift_promotors" /id="U437" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.897102897102897" /psig=1 /xcortree=1890 /SigmaFactorBS="aatcacattaaaattcttttcatcaatccttttttagtaaaa aagatagaaattttAGTGTTATAATAATCATTAAaaatagattgctgactcaataaac a" /listShort="ydgF" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(608140) /Source="Nicolas_upshifts" /id="U437" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.897102897102897" /psig=1 /xcortree=1890 /SigmaFactorBS="aatcacattaaaattcttttcatcaatccttttttagtaaaa aagatagaaattttAGTGTTATAATAATCATTAAaaatagattgctgactcaataaac a" /listShort="ydgF" /GFF_Attribute="listLong" CDS complement(608246..608764) /gene="dinB" /locus_tag="BSU_05630" /old_locus_tag="BSU05630" /function="16.8: Protect" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); PubMedId: 1847907, 3110138, 12644484, 16267290, 22059487; Product type r: regulator" /codon_start=1 /transl_table=11 /product="nuclease inhibitor" /protein_id="NP_388444.1" /db_xref="EnsemblGenomes-Gn:BSU05630" /db_xref="EnsemblGenomes-Tr:CAB12370" /db_xref="GOA:Q02886" /db_xref="InterPro:IPR007837" /db_xref="InterPro:IPR034660" /db_xref="SubtiList:BG10539" /db_xref="UniProtKB/Swiss-Prot:Q02886" /translation="MSDFAFKLYEYNVWANQQIFNRLKELPKEIYHQEIQSVFPSISH VLSHVYLSDLGWIEVFSGKTLSDALALAEQLKEQTEAKEIEEMEDLFLRLSERYILFL QQKEQLNKPLQIQNPSSGIMKTTVSELLPHVVNHGTYHRGNITAMLRQAGYASAPTDY GLYLFMTKTEKA*" gene complement(608246..608764) /gene="dinB" /locus_tag="BSU_05630" /old_locus_tag="BSU05630" downshifts complement(608260) /Source="Nicolas_upshifts" /id="D271" /incds=0 /nref=35 /ntot=176 /MaxReadThrough="2.77148" /MaxDrop="6.32316" /score="16.2748201" /energy="-15" /TU="NA" /idTUdmin="U438" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(608790..608809) /Source="Nicolas_upshift_promotors" /id="U438" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.839160839160839" /psig=1 /xcortree=1506 /SigmaFactorBS="tcctctaaactatatatgtcaacaaattttattttcgagcaC TCTacataagaactcatgTTCGTGTATAATGAAAGCTAtacacacgaaagggggaatt t" /listShort="dinB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(608809) /Source="Nicolas_upshifts" /id="U438" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.839160839160839" /psig=1 /xcortree=1506 /SigmaFactorBS="tcctctaaactatatatgtcaacaaattttattttcgagcaC TCTacataagaactcatgTTCGTGTATAATGAAAGCTAtacacacgaaagggggaatt t" /listShort="dinB" /GFF_Attribute="listLong" promotor_-35 complement(608825..608828) /Source="Nicolas_upshift_promotors" /id="U438" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.839160839160839" /psig=1 /xcortree=1506 /SigmaFactorBS="tcctctaaactatatatgtcaacaaattttattttcgagcaC TCTacataagaactcatgTTCGTGTATAATGAAAGCTAtacacacgaaagggggaatt t" /listShort="dinB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 608846..608853 /Source="Nicolas_upshift_promotors" /id="U439" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.528471528471528" /psig="0.97002997002997" /xcortree=2440 /SigmaFactorBS="gagtgctcgaaaataaaattTGTTGACAtatatagtttagag GAATAAACTAATTGACATTGaacataaagtttagcggggtaaactataatgaggaggg g" /listShort="ydgG, ydgH" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 608868..608887 /Source="Nicolas_upshift_promotors" /id="U439" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.528471528471528" /psig="0.97002997002997" /xcortree=2440 /SigmaFactorBS="gagtgctcgaaaataaaattTGTTGACAtatatagtttagag GAATAAACTAATTGACATTGaacataaagtttagcggggtaaactataatgaggaggg g" /listShort="ydgG, ydgH" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 608886 /Source="Nicolas_upshifts" /id="U439" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.528471528471528" /psig="0.97002997002997" /xcortree=2440 /SigmaFactorBS="gagtgctcgaaaataaaattTGTTGACAtatatagtttagag GAATAAACTAATTGACATTGaacataaagtttagcggggtaaactataatgaggaggg g" /listShort="ydgG, ydgH" /GFF_Attribute="listLong" CDS 608933..609391 /gene="ydgG" /locus_tag="BSU_05640" /old_locus_tag="BSU05640" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (MarR family)" /protein_id="NP_388445.1" /db_xref="EnsemblGenomes-Gn:BSU05640" /db_xref="EnsemblGenomes-Tr:CAB12371" /db_xref="GOA:P96705" /db_xref="InterPro:IPR000835" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12174" /db_xref="UniProtKB/Swiss-Prot:P96705" /translation="MNEQKLCQAINLFVEVLLEGTEFVHREINQDVFKHISREQADLL KILKVKGPTSPGSLAMYQNVHKSAISNRLKKLLEKGLVQWDDCPEKSDRRSKLINITP SGEHILEELDSAIFNALKPLIDDIDEEHLHSIIEIFTILKSKFKGGDSAE*" gene 608933..609391 /gene="ydgG" /locus_tag="BSU_05640" /old_locus_tag="BSU05640" CDS 609388..612045 /gene="ydgH" /locus_tag="BSU_05650" /old_locus_tag="BSU05650" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15941986; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative membrane component" /protein_id="NP_388446.1" /db_xref="EnsemblGenomes-Gn:BSU05650" /db_xref="EnsemblGenomes-Tr:CAB12372" /db_xref="GOA:P96706" /db_xref="InterPro:IPR000731" /db_xref="InterPro:IPR004869" /db_xref="SubtiList:BG12175" /db_xref="UniProtKB/Swiss-Prot:P96706" /translation="MRAIIKFKWAIAAIVLALTVVLSLFSPNLTELANQKGQAQLPAD AVSERANAILKQAGEDNNSISVVFTLDNAIKKETENQLRIIIDKIKKIDGVEEVTSPL SAEKEVKDQLMSKDKKTVLMPVTITGSDKKAEKIADEIYQIVPDDLTAYITGASLINQ DFAHSSEEGLKKTEVITVCLIIGLLLIVFRSVVTPFIPIVVVGFSYLISQSILGILVY NVDFPISTFTQTFLVAILFGIGTDYCILLLTRFREELANGHDKKEAALIAYRTGGKTL FISGFAVLIGFSALGFAKFAIFQSAVGVAVGVGILMIILYTLLPLFMVTLGEKLFWPS KKVLSHSDNKLWAFLGRHSVARPFLFIVITVVITLPFILTYDDQISFDSTAEISSDYK SIKALEAIKDGFGEGKAFPINVVVKGDKDLTTADTIPYLGNISKAIEKVDHVDSVMTI TQPTGKKIKDLYIDNQLGSVSDGLDKTVKGIADVQSGLTDIENGLNQMAGQTGSASNG GSGGSLGDAADGLGKINQQLQLVSKQISQTGNTAQTVQQLTAISGQLGQIQTGLEQAN QQLSGQQAQAGTLTESLKKLSEGVKSANEGLTKVSDGITASSDILEDMSKSPTVRDTG IFIPDQVMKDKDFKKSIDQYSFADGKGVQLSVVLDSNPYSEQAITTINQIKKAVANEV DGTPLENAQIVYGGVTSMNADLKELSTTDFSRTMVIMIIGLFIVLTILFRSMIMPIYM IASLLLTYYTSISITELIFVNGLGNAGVSWAVPFFSFVILIALGVDYSIFLLDRFKEE VHLGIEQGVVRSMSKMGSVIITAAIILAGTFAAMMPSGVNTLMQVASVIIIGLLLYGL VILPLFIPAIIATFGEGNWWPFGRKKGKE*" gene 609388..612045 /gene="ydgH" /locus_tag="BSU_05650" /old_locus_tag="BSU05650" downshifts 612166 /Source="Nicolas_upshifts" /id="D272" /incds=0 /nref=3 /ntot=27 /MaxReadThrough="0.245049999999999" /MaxDrop="4.45167" /score="13.780898" /energy="-13.9" /TU="NA" /idTUdmin="U439" /TUdmin=22 /isTUend="TRUE" CDS complement(612191..612820) /gene="ydgI" /locus_tag="BSU_05660" /old_locus_tag="BSU05660" /EC_number="1.-.-.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 26415543; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="nitroreductase of unidentified specificity (reduces 5-(aziridin-1-yl)-2,4-dinitrobenzamide prodrug)" /protein_id="NP_388447.1" /db_xref="EnsemblGenomes-Gn:BSU05660" /db_xref="EnsemblGenomes-Tr:CAB12385" /db_xref="GOA:P96707" /db_xref="InterPro:IPR000415" /db_xref="InterPro:IPR029479" /db_xref="SubtiList:BG12176" /db_xref="UniProtKB/Swiss-Prot:P96707" /translation="MIKTNDFMEIMKGRRSIRNYDPAVKISKEEMTEILEEATTAPSS VNAQPWRFLVIDSPEGKEKLAPLASFNQTQVTTSSAVIAVFADMNNADYLEEIYSKAV ELGYMPQEVKDRQIAALTAHFEKLPAQVNRETILIDGGLVSMQLMLTARAHGYDTNPI GGYDKENIAETFGLDKERYVPVMLLSIGKAADEGYASYRLPIDTIAEWK*" gene complement(612191..612820) /gene="ydgI" /locus_tag="BSU_05660" /old_locus_tag="BSU05660" downshifts complement(612195) /Source="Nicolas_upshifts" /id="D273" /incds=0 /nref=21 /ntot=184 /MaxReadThrough="2.66406" /MaxDrop="6.06581" /score="21.7451043" /energy="-16.6" /TU="NA" /idTUdmin="U440" /TUdmin=3 /isTUend="TRUE" CDS complement(612836..613330) /gene="ydgJ" /locus_tag="BSU_05670" /old_locus_tag="BSU05670" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (MarR family)" /protein_id="NP_388448.1" /db_xref="EnsemblGenomes-Gn:BSU05670" /db_xref="EnsemblGenomes-Tr:CAB12386" /db_xref="GOA:P96708" /db_xref="InterPro:IPR000835" /db_xref="InterPro:IPR001845" /db_xref="InterPro:IPR011991" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12177" /db_xref="UniProtKB/Swiss-Prot:P96708" /translation="MTCQSLIYQLIVLTGKKGWVLASFCSEEAEILYQLQGVNKVIGV KFEACTGISQSRLELLTLLYHADEISQSDLQKKVNIDSAAVTRHLKQLESKGMVSRRR KPEDNRITLVRLTDQGRERIESSKKEKERFMKEMLANVSAEERRLLIDVLARMRNNIN NIEA*" gene complement(612836..613330) /gene="ydgJ" /locus_tag="BSU_05670" /old_locus_tag="BSU05670" promotor_-10 complement(613322..613341) /Source="Nicolas_upshift_promotors" /id="U440" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.633366633366633" /psig=1 /xcortree=1967 /SigmaFactorBS="ttatgcgctgggaggttgttcaaaagtgcaaatggCTTGCAa gatgaaatcaatcgTTGTATATTAATTGACGTGTcaatcattgatatatcaattaata g" /listShort="ydgJ, ydgI" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(613337) /Source="Nicolas_upshifts" /id="U440" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.633366633366633" /psig=1 /xcortree=1967 /SigmaFactorBS="ttatgcgctgggaggttgttcaaaagtgcaaatggCTTGCAa gatgaaatcaatcgTTGTATATTAATTGACGTGTcaatcattgatatatcaattaata g" /listShort="ydgJ, ydgI" /GFF_Attribute="listLong" promotor_-35 complement(613357..613362) /Source="Nicolas_upshift_promotors" /id="U440" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.633366633366633" /psig=1 /xcortree=1967 /SigmaFactorBS="ttatgcgctgggaggttgttcaaaagtgcaaatggCTTGCAa gatgaaatcaatcgTTGTATATTAATTGACGTGTcaatcattgatatatcaattaata g" /listShort="ydgJ, ydgI" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 613528..613530 /Source="Nicolas_upshift_promotors" /id="U441" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.786213786213786" /psig=1 /xcortree=2606 /SigmaFactorBS="ttcggaatatcactttgccggcccgtgctcaagcggCTTtca caggctgaaagtTATGATACAATATACAAATGtttcacagcttcaatccatagttgga g" /listShort="S199, ydgK" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 613546..613565 /Source="Nicolas_upshift_promotors" /id="U441" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.786213786213786" /psig=1 /xcortree=2606 /SigmaFactorBS="ttcggaatatcactttgccggcccgtgctcaagcggCTTtca caggctgaaagtTATGATACAATATACAAATGtttcacagcttcaatccatagttgga g" /listShort="S199, ydgK" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 613552..613640 /Source="Nicolas_S_feature" /locus_tag="new_613552_613640" /HighExp="H2O2, G180, G135, Diami, Paraq, Oxctl, G150, LBGexp, LPh, HPh" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S199" upshifts 613552 /Source="Nicolas_upshifts" /id="U441" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.786213786213786" /psig=1 /xcortree=2606 /SigmaFactorBS="ttcggaatatcactttgccggcccgtgctcaagcggCTTtca caggctgaaagtTATGATACAATATACAAATGtttcacagcttcaatccatagttgga g" /listShort="S199, ydgK" /GFF_Attribute="listLong" CDS 613641..614849 /gene="ydgK" /locus_tag="BSU_05680" /old_locus_tag="BSU05680" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative efflux transporter" /protein_id="NP_388449.1" /db_xref="EnsemblGenomes-Gn:BSU05680" /db_xref="EnsemblGenomes-Tr:CAB12387" /db_xref="GOA:P96709" /db_xref="InterPro:IPR004812" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12178" /db_xref="UniProtKB/Swiss-Prot:P96709" /translation="MLHNPTGKERLALAFLLGMLAILGPLNIDMYLPSFPEIAKDLSA SASLVQLSLTACLVGLTIGQLIVGPVSDAQGRRKPLLICIFLFALSSLFCALSPNITT LVAARFLQGFTASAGLVLSRAIVRDVFTGRELSKFFSLLMVITAVAPMVAPMTGGAIL LLPFATWHTIFHVLMIIGFLLVLLIALRLKETLPLEKRIPSSIGTSVKTMGSLLKDRS FMGYALTVGFIHGGSFAYVSGTPFVYQDIYGVSPQVFSILFGINGLAIISGSFIIGRF GGIIHEKSLLRIAVITAMIATAVLLTMTMIHGPLATLVISIFIYMITIGMVLTSTFTL AMEKQGHRAGSASALLGMLPLLLGSIVSPLVGINETTAVPMGAIMFVTAVIGSLAFFG LTKERVGQNS*" gene 613641..614849 /gene="ydgK" /locus_tag="BSU_05680" /old_locus_tag="BSU05680" downshifts 614828 /Source="Nicolas_upshifts" /id="D274" /incds=0 /nref=23 /ntot=112 /MaxReadThrough="0.507390000000001" /MaxDrop="3.27202" /score="25.806679" /energy="-7.5" /TU="NA" /idTUdmin="U441" /TUdmin=0 /isTUend="TRUE" CDS complement(614885..615622) /gene="ydhB" /locus_tag="BSU_05690" /old_locus_tag="BSU05690" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral inner membrane protein" /protein_id="NP_388450.2" /db_xref="EnsemblGenomes-Gn:BSU05690" /db_xref="EnsemblGenomes-Tr:CAB12388" /db_xref="GOA:O05493" /db_xref="InterPro:IPR002781" /db_xref="SubtiList:BG12179" /db_xref="UniProtKB/Swiss-Prot:O05493" /translation="MLIILVMFLLGIILGFIGAGGAGFVIALLTLLFHIPIHTALGTS LAGMAFTSLSGAYSHYREGNIQMKIGLIVGGFAAVGSFFGAKLTSFIPADLLHYLTAG MLFLSAILILIRLFILKEKAQVNQSTLSTYTRAVILGIAAGVLSGTFGIGSAPFIQIG LMIMLNLSIRHSVGTTMLVIIPLAVGGGIGYITEGFVDYVLLVKVLVGTMCGAYVGAK FTNLMPKVVLKSAIFLTPAIAGLLLLF*" gene complement(614885..615622) /gene="ydhB" /locus_tag="BSU_05690" /old_locus_tag="BSU05690" S_feature complement(615623..615761) /Source="Nicolas_S_feature" /locus_tag="new_615623_615761_c" /HighExp="T0.30H, T1.30H, T1.0H, T-0.40H, T2.0H, T0.0H, LBGstat, T2.30H, T-1.10H, T-1.40H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.108111" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S200" promotor_-10 complement(615749..615768) /Source="Nicolas_upshift_promotors" /id="U442" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.773226773226773" /psig="0.999000999001" /xcortree=1711 /SigmaFactorBS="atataacagatggtaatgggaagcaacaaactGCCTTGTCag atccctgaattTGAGGTACGATATGTTTGCTgaacgacggtcgacggactactggcaa c" /listShort="S200, ydhB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(615761) /Source="Nicolas_upshifts" /id="U442" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.773226773226773" /psig="0.999000999001" /xcortree=1711 /SigmaFactorBS="atataacagatggtaatgggaagcaacaaactGCCTTGTCag atccctgaattTGAGGTACGATATGTTTGCTgaacgacggtcgacggactactggcaa c" /listShort="S200, ydhB" /GFF_Attribute="listLong" promotor_-35 complement(615782..615789) /Source="Nicolas_upshift_promotors" /id="U442" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.773226773226773" /psig="0.999000999001" /xcortree=1711 /SigmaFactorBS="atataacagatggtaatgggaagcaacaaactGCCTTGTCag atccctgaattTGAGGTACGATATGTTTGCTgaacgacggtcgacggactactggcaa c" /listShort="S200, ydhB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 615793..615800 /Source="Nicolas_upshift_promotors" /id="U443" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.947052947052947" /psig="0.999000999001" /xcortree=1978 /SigmaFactorBS="atcgtacctcaaattcagggatctgacaaggcagtTTGTTGC TtcccattaccatcTGTTATATGATTTTGATGAAgaaaagcccttgaatatattcaaa a" /listShort="ydhC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 615814..615833 /Source="Nicolas_upshift_promotors" /id="U443" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.947052947052947" /psig="0.999000999001" /xcortree=1978 /SigmaFactorBS="atcgtacctcaaattcagggatctgacaaggcagtTTGTTGC TtcccattaccatcTGTTATATGATTTTGATGAAgaaaagcccttgaatatattcaaa a" /listShort="ydhC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 615818 /Source="Nicolas_upshifts" /id="U443" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.947052947052947" /psig="0.999000999001" /xcortree=1978 /SigmaFactorBS="atcgtacctcaaattcagggatctgacaaggcagtTTGTTGC TtcccattaccatcTGTTATATGATTTTGATGAAgaaaagcccttgaatatattcaaa a" /listShort="ydhC" /GFF_Attribute="listLong" CDS 615871..616545 /gene="ydhC" /locus_tag="BSU_05700" /old_locus_tag="BSU05700" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (GntR family)" /protein_id="NP_388451.1" /db_xref="EnsemblGenomes-Gn:BSU05700" /db_xref="EnsemblGenomes-Tr:CAB12389" /db_xref="GOA:O05494" /db_xref="InterPro:IPR000485" /db_xref="InterPro:IPR000524" /db_xref="InterPro:IPR008920" /db_xref="InterPro:IPR011711" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12180" /db_xref="UniProtKB/Swiss-Prot:O05494" /translation="MDDFKLDKPTPYYLQFYNQLKKMIFNGTFKPGERINETQLAKSF GVSRSPIREAMRLLEKDGLLKADDRNGFSITSLTAKDVDEIYKIRIPLEQLAVELVID EADEEELTILEKQLEETEKAIHNGTEDTEIIRLNQKFHELLVDFSHNRHLKNLLEHVN DLIHFCRILNYTGDHRAETILREHRRIFEEVKKKNKEAAKQHVLAHFNHDCEHLKHVL EEGKEN*" gene 615871..616545 /gene="ydhC" /locus_tag="BSU_05700" /old_locus_tag="BSU05700" promotor_-35 616604..616609 /Source="Nicolas_upshift_promotors" /id="U444" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.992007992007992" /psig="0.992007992007992" /xcortree=1131 /SigmaFactorBS="agcagaacccttggtatttttttatgtattcacCACATAtct aagaggccccgtTAATAAGATTTTATGATGGtttgactaacgaataatgggggttaaa t" /listShort="ydhD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 616625..616643 /Source="Nicolas_upshift_promotors" /id="U444" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.992007992007992" /psig="0.992007992007992" /xcortree=1131 /SigmaFactorBS="agcagaacccttggtatttttttatgtattcacCACATAtct aagaggccccgtTAATAAGATTTTATGATGGtttgactaacgaataatgggggttaaa t" /listShort="ydhD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 616631 /Source="Nicolas_upshifts" /id="U444" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.992007992007992" /psig="0.992007992007992" /xcortree=1131 /SigmaFactorBS="agcagaacccttggtatttttttatgtattcacCACATAtct aagaggccccgtTAATAAGATTTTATGATGGtttgactaacgaataatgggggttaaa t" /listShort="ydhD" /GFF_Attribute="listLong" CDS 616672..617934 /gene="spoL" /locus_tag="BSU_05710" /old_locus_tag="BSU05710" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 11011148, 12177332; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="spore cortex lytic enzyme" /protein_id="NP_388452.2" /db_xref="EnsemblGenomes-Gn:BSU05710" /db_xref="EnsemblGenomes-Tr:CAB12390" /db_xref="GOA:O05495" /db_xref="InterPro:IPR001223" /db_xref="InterPro:IPR011583" /db_xref="InterPro:IPR017853" /db_xref="InterPro:IPR018392" /db_xref="InterPro:IPR036779" /db_xref="PDB:3CZ8" /db_xref="SubtiList:BG12181" /db_xref="UniProtKB/Swiss-Prot:O05495" /translation="MFIHIVGPGDSLFSIGRRYGASVDQIRGVNGLDETNIVPGQALL IPLYVYTVQPRDTLTAIAAKAFVPLERLRAANPGISPNALQAGAKITIPSISNYIAGT LSFYVLRNPDLDRELINDYAPYSSSISIFEYHIAPNGDIANQLNDAAAIETTWQRRVT PLATITNLTSGGFSTEIVHQVLNNPTARTNLVNNIYDLVSTRGYGGVTIDFEQVSAAD RDLFTGFLRQLRDRLQAGGYVLTIAVPAKTSDNIPWLRGYDYGGIGAVVNYMFIMAYD WHHAGSEPGPVAPITEIRRTIEFTIAQVPSRKIIIGVPLYGYDWIIPYQPGTVASAIS NQNAIERAMRYQAPIQYSAEYQSPFFRYSDQQGRTHEVWFEDVRSMSRKMQIVREYRL QAIGAWQLTLGFTPGPWLLRKFFTIRKV*" gene 616672..617934 /gene="spoL" /locus_tag="BSU_05710" /old_locus_tag="BSU05710" downshifts 617908 /Source="Nicolas_upshifts" /id="D275" /incds=0 /nref=33 /ntot=81 /MaxReadThrough="2.3134" /MaxDrop="5.20337" /score="15.7593331" /energy="-7.1" /TU="NA" /idTUdmin="U444" /TUdmin=0 /isTUend="TRUE" promotor_-35 618006..618013 /Source="Nicolas_upshift_promotors" /id="U445" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.612387612387612" /psig="0.999000999001" /xcortree=1616 /SigmaFactorBS="taagtccagagcagcagaatagttcattcatttgtACCTTGC AtgggttgtgttccCATTTTACGATTAGTAGTAGtctgatcaaacaaagagtcagaat a" /listShort="ydhE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 618027..618046 /Source="Nicolas_upshift_promotors" /id="U445" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.612387612387612" /psig="0.999000999001" /xcortree=1616 /SigmaFactorBS="taagtccagagcagcagaatagttcattcatttgtACCTTGC AtgggttgtgttccCATTTTACGATTAGTAGTAGtctgatcaaacaaagagtcagaat a" /listShort="ydhE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 618031 /Source="Nicolas_upshifts" /id="U445" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.612387612387612" /psig="0.999000999001" /xcortree=1616 /SigmaFactorBS="taagtccagagcagcagaatagttcattcatttgtACCTTGC AtgggttgtgttccCATTTTACGATTAGTAGTAGtctgatcaaacaaagagtcagaat a" /listShort="ydhE" /GFF_Attribute="listLong" CDS 618095..619282 /gene="ydhE" /locus_tag="BSU_05720" /old_locus_tag="BSU05720" /function="18.1: Enzymes of unknown specificity" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 20639339; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative glycosyltransferase" /protein_id="NP_388453.2" /db_xref="EnsemblGenomes-Gn:BSU05720" /db_xref="EnsemblGenomes-Tr:CAB12391" /db_xref="GOA:O05496" /db_xref="InterPro:IPR002213" /db_xref="InterPro:IPR006326" /db_xref="SubtiList:BG12182" /db_xref="UniProtKB/Swiss-Prot:O05496" /translation="MKTVLILNFPAEGHVNPTLGITKAFSDKGYDVHYISTEKYKKRL EAAGATVHLHRDLLRTTPIHVGSPNGILDFVKIHIKTSLDILQIVKDLSKSIQFDFVY YDKFGAGELVRDYLDIPGVSSSASFLFGEEHLKILPLHPESGAPLELDQECEDLLAKM KETYGVAPKNLVQFMNNKGELNVVYTSRYFQPESDRFGDECLFIGPSFPKRAEKTDFP IEQLKDEKVIYISMGTVLDHTEDFFNLCIDAFSGFNGKVVIAAGEKADLTKLKQAPEN FIIAPYVPQLEVLEQSDVFITHGGMNSVNEGIHFSVPLVVMPHDKDQPMVAQRLSELH AGYVISKDEVNAQILKQAVDEVLRNDQYTAGIKKINQSFKECMDMEEVMERIDELIRQ KNK*" gene 618095..619282 /gene="ydhE" /locus_tag="BSU_05720" /old_locus_tag="BSU05720" downshifts 619294 /Source="Nicolas_upshifts" /id="D276" /incds=0 /nref=17 /ntot=224 /MaxReadThrough="1.77672" /MaxDrop="5.25325" /score="-6.36206618" /energy="-12.6" /TU="NA" /idTUdmin="U445" /TUdmin=1 /isTUend="TRUE" CDS complement(619321..620031) /gene="ydhF" /locus_tag="BSU_05730" /old_locus_tag="BSU05730" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10913081, 11557812; Product type lp: lipoprotein" /codon_start=1 /transl_table=11 /product="putative phosphate-starvation lipoprotein" /protein_id="NP_388454.1" /db_xref="EnsemblGenomes-Gn:BSU05730" /db_xref="EnsemblGenomes-Tr:CAB12392" /db_xref="InterPro:IPR029050" /db_xref="InterPro:IPR029051" /db_xref="SubtiList:BG12183" /db_xref="UniProtKB/Swiss-Prot:O05497" /translation="MRRILSILVFAIMLAGCSSNASTEKQHAGGEKTVKAEPQSTSSQ KDSTDDYQPNSQVTDDRTLHKVGQTFSDDKGKAVLKDIKQVNKTYKIGDVELTVKEMK LIHLRPDYSMIDYFHELTHDEEFDFVKVFVDIKNTSTKKVNVAPIALMKTNTGETFDW NKDIYLEELNGELEGGAEKSGNLGFIVNASSGHAHDKAADAEKKTKEIKWIEITTSDV FDHNHKKISDAQKIKIKF*" gene complement(619321..620031) /gene="ydhF" /locus_tag="BSU_05730" /old_locus_tag="BSU05730" downshifts complement(619347) /Source="Nicolas_upshifts" /id="D277" /incds=0 /nref=11 /ntot=36 /MaxReadThrough="4.05808" /MaxDrop="4.7318" /score="13.7192471" /energy="-12.6" /TU="NA" /idTUdmin="U446" /TUdmin=0 /isTUend="TRUE" CDS complement(620097..621485) /gene="phoB" /locus_tag="BSU_05740" /old_locus_tag="BSU05740" /EC_number="3.1.3.1" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:9335276, 10913081, 16030210, 16491025, 26382712, 27226549" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9335276, 10913081, 16030210, 16491025, 26382712, 27226549; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="alkaline phosphatase III (promiscuous, heptaprenylglyceryl phosphate is a substrate)" /protein_id="NP_388455.2" /db_xref="EnsemblGenomes-Gn:BSU05740" /db_xref="EnsemblGenomes-Tr:CAB12393" /db_xref="GOA:P19405" /db_xref="InterPro:IPR001952" /db_xref="InterPro:IPR017849" /db_xref="InterPro:IPR017850" /db_xref="InterPro:IPR018299" /db_xref="SubtiList:BG10697" /db_xref="UniProtKB/Swiss-Prot:P19405" /translation="MKKFPKKLLPIAVLSSIAFSSLASGSVPEASAQEKKKGNQDEIK NVIVLIGDGMGVSYTSAYRYLKDNKKTKVVEPTAFDQYLVGQQTTYPDDPEQNVTDSA AAATAMSAGIKTYNNAIAVDNDGSEAKTVLEAAKEKGKATGLVATSEITHATPASFGS HDHSRKNMNSIADDYFDEMVNGKHKIDVLLGGGKSNFDRKDRNLIKEFKKAGYSYVDD RKDMLKNKDSQVLGLFADGGLPKKIDRTKDIPSLKDMTNTAIKKLNKDKDGFFLMVEG SQIDWAGHDNDIVGAMSEMEDFEQAYKAAIDFAKKDKHTLVVATADHSTGGYSIGADG IYNWFSEPIKAAKRTPDFMAEKIADGADVEKTLKTYIDQKKLALTKAEIQSVEEAAKS KEVLDIDNAIENIFNKRSHTGWTTGGHTGEDVPVYAYGPSSETFAGQIDNTEIAKNVF KALQYNIKINDK*" gene complement(620097..621485) /gene="phoB" /locus_tag="BSU_05740" /old_locus_tag="BSU05740" promotor_-10 complement(621542..621559) /Source="Nicolas_upshift_promotors" /id="U446" /multdbtbs="SigA" /comp="M6" /sig="Sig-" /pcomp="0.982017982017982" /psig="0.011988011988012" /xcortree=9 /SigmaFactorBS="ggtgccagttcattattcttgtaaatccaaTCTTTAAAatcg atTAATACTAGCTTAACAGTttaaaaatataattgggttgtcattgagattcatctat a" /listShort="phoB, ydhF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(621543) /Source="Nicolas_upshifts" /id="U446" /multdbtbs="SigA" /comp="M6" /sig="Sig-" /pcomp="0.982017982017982" /psig="0.011988011988012" /xcortree=9 /SigmaFactorBS="ggtgccagttcattattcttgtaaatccaaTCTTTAAAatcg atTAATACTAGCTTAACAGTttaaaaatataattgggttgtcattgagattcatctat a" /listShort="phoB, ydhF" /GFF_Attribute="listLong" S_feature complement(621545..621613) /Source="Nicolas_S_feature" /locus_tag="new_621545_621613_c" /HighExp="S6, S4, S5, S3, S7, LoTm, S8, T5.0H, B36, B60" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S201" promotor_-35 complement(621566..621573) /Source="Nicolas_upshift_promotors" /id="U446" /multdbtbs="SigA" /comp="M6" /sig="Sig-" /pcomp="0.982017982017982" /psig="0.011988011988012" /xcortree=9 /SigmaFactorBS="ggtgccagttcattattcttgtaaatccaaTCTTTAAAatcg atTAATACTAGCTTAACAGTttaaaaatataattgggttgtcattgagattcatctat a" /listShort="phoB, ydhF" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(621603..621621) /Source="Nicolas_upshift_promotors" /id="U447" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1157 /SigmaFactorBS="tattcctccaatttatttctttagtactatcgctctttcCTT CTAaaacttctcataaaaGAATAACCATTATTTAAGGgtgccagttcattattcttgt a" /listShort="S201, phoB, ydhF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(621621) /Source="Nicolas_upshifts" /id="U447" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1157 /SigmaFactorBS="tattcctccaatttatttctttagtactatcgctctttcCTT CTAaaacttctcataaaaGAATAACCATTATTTAAGGgtgccagttcattattcttgt a" /listShort="S201, phoB, ydhF" /GFF_Attribute="listLong" promotor_-35 complement(621637..621642) /Source="Nicolas_upshift_promotors" /id="U447" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1157 /SigmaFactorBS="tattcctccaatttatttctttagtactatcgctctttcCTT CTAaaacttctcataaaaGAATAACCATTATTTAAGGgtgccagttcattattcttgt a" /listShort="S201, phoB, ydhF" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 621690..621697 /Source="Nicolas_upshift_promotors" /id="U448" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.642357642357642" /psig="0.997002997002997" /xcortree=1887 /SigmaFactorBS="tagtactaaagaaataaattggaggaatagatactggCCGTG GATaggcggactgaaaTCTGCTATAGTCGCATAGAAgcaacccgcttacatcttgaac a" /listShort="S202, ydhG" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 621711..621730 /Source="Nicolas_upshift_promotors" /id="U448" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.642357642357642" /psig="0.997002997002997" /xcortree=1887 /SigmaFactorBS="tagtactaaagaaataaattggaggaatagatactggCCGTG GATaggcggactgaaaTCTGCTATAGTCGCATAGAAgcaacccgcttacatcttgaac a" /listShort="S202, ydhG" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 621713..621846 /Source="Nicolas_S_feature" /locus_tag="new_621713_621846" /HighExp="Diami, dia15, H2O2, Paraq, Oxctl, HPh, G180, G135, LPh, Cold" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.997" /TUlongSig="NA" /TUlongPSig="NA" /label="S202" upshifts 621713 /Source="Nicolas_upshifts" /id="U448" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.642357642357642" /psig="0.997002997002997" /xcortree=1887 /SigmaFactorBS="tagtactaaagaaataaattggaggaatagatactggCCGTG GATaggcggactgaaaTCTGCTATAGTCGCATAGAAgcaacccgcttacatcttgaac a" /listShort="S202, ydhG" /GFF_Attribute="listLong" CDS 621847..622218 /gene="fra" /locus_tag="BSU_05750" /old_locus_tag="BSU05750" /function="16.10: Respire" /experiment="publication(s) with functional evidences, PMID:20087498, 21744456, 25826316" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 20087498, 21744456, 25826316; Product type f: factor" /codon_start=1 /transl_table=11 /product="frataxin; iron/sulfur chaperone" /protein_id="NP_388456.1" /db_xref="EnsemblGenomes-Gn:BSU05750" /db_xref="EnsemblGenomes-Tr:CAB12394" /db_xref="GOA:Q797E6" /db_xref="InterPro:IPR014922" /db_xref="PDB:2OC6" /db_xref="SubtiList:BG12184" /db_xref="UniProtKB/Swiss-Prot:Q797E6" /translation="MDVFSEYLAGIADPFHRERTEEVLTWIKNKYPNLHTEIKWNQPM FTDHGTFIIGFSVSKKHLAVAPEKVTIAHVEDDIVKAGYDYTEQLIRIPWNGPVDYTL LEKMIEFNILDKADCSTFWRK*" gene 621847..622218 /gene="fra" /locus_tag="BSU_05750" /old_locus_tag="BSU05750" downshifts 622197 /Source="Nicolas_upshifts" /id="D278" /incds=0 /nref=9 /ntot=150 /MaxReadThrough="2.88587" /MaxDrop="3.59127" /score="28.8500849" /energy="-8.1" /TU="NA" /idTUdmin="U448" /TUdmin=0 /isTUend="TRUE" downshifts complement(622292) /Source="Nicolas_upshifts" /id="D279" /incds=0 /nref=9 /ntot=187 /MaxReadThrough="1.63268" /MaxDrop="2.98181" /score="0.51805655" /energy="-13" /TU="NA" /idTUdmin="U450" /TUdmin=2 /isTUend="TRUE" CDS complement(622293..622790) /gene="ydhH" /locus_tag="BSU_05760" /old_locus_tag="BSU05760" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388457.1" /db_xref="EnsemblGenomes-Gn:BSU05760" /db_xref="EnsemblGenomes-Tr:CAB12395" /db_xref="GOA:O05500" /db_xref="InterPro:IPR032545" /db_xref="SubtiList:BG12185" /db_xref="UniProtKB/Swiss-Prot:O05500" /translation="MSSHYKYPLIFTAFLLIAFCLIFFSYHLIHHVRLEYPNWQGESK DQNWEAVFTKNEDAPNEYSGKLYWIGDTIEIDNTYLESLIVKKDDEVLLSSDTEIPMH DYAGGTFSDGSAKEKSVSFLERLDEHELEGHDITIEVKWKQGNHYSASQLTLNEKTLF DEKQQ*" gene complement(622293..622790) /gene="ydhH" /locus_tag="BSU_05760" /old_locus_tag="BSU05760" CDS complement(622808..623290) /gene="ydhI" /locus_tag="BSU_05770" /old_locus_tag="BSU05770" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative acetyltransferase" /protein_id="NP_388458.1" /db_xref="EnsemblGenomes-Gn:BSU05770" /db_xref="EnsemblGenomes-Tr:CAB12396" /db_xref="GOA:O05501" /db_xref="InterPro:IPR000182" /db_xref="InterPro:IPR016181" /db_xref="SubtiList:BG12186" /db_xref="UniProtKB/Swiss-Prot:O05501" /translation="MMIIIPNNEIAKHMLTDFFAKHWGTPEMAISSGIFRCDELDGFA AVNESGEIIGCITYTIDGKDCEIISLDSMIENKGIGTALLQQVEEKAKHAHCQRIKLI TTNDNVNAIAFYQKRGYQFAAVFPNAVEKARRLKPEIPEVAENGILIRDEILFSKVID *" gene complement(622808..623290) /gene="ydhI" /locus_tag="BSU_05770" /old_locus_tag="BSU05770" promotor_-35 622963..622970 /Source="Nicolas_upshift_promotors" /id="U449" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.767232767232767" /psig=1 /xcortree=2430 /SigmaFactorBS="gaattgatagcctctcttttgataaaacgctatcgCATTTAC AttatcattcgttgTGATAAGCTTTATTCGTTGAcaatgtgcatgtttagccttctct t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 622984..623003 /Source="Nicolas_upshift_promotors" /id="U449" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.767232767232767" /psig=1 /xcortree=2430 /SigmaFactorBS="gaattgatagcctctcttttgataaaacgctatcgCATTTAC AttatcattcgttgTGATAAGCTTTATTCGTTGAcaatgtgcatgtttagccttctct t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 622988 /Source="Nicolas_upshifts" /id="U449" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.767232767232767" /psig=1 /xcortree=2430 /SigmaFactorBS="gaattgatagcctctcttttgataaaacgctatcgCATTTAC AttatcattcgttgTGATAAGCTTTATTCGTTGAcaatgtgcatgtttagccttctct t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 complement(623319..623338) /Source="Nicolas_upshift_promotors" /id="U450" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.619380619380619" /psig="0.994005994005994" /xcortree=2264 /SigmaFactorBS="atatcgctgatttccatgccgtcacctcaacatCTATttttt ttgttatatATTGTTTATATTGATAGTACatatgcaatctttcaatagaggagtgtta t" /listShort="ydhI, ydhH" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(623329) /Source="Nicolas_upshifts" /id="U450" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.619380619380619" /psig="0.994005994005994" /xcortree=2264 /SigmaFactorBS="atatcgctgatttccatgccgtcacctcaacatCTATttttt ttgttatatATTGTTTATATTGATAGTACatatgcaatctttcaatagaggagtgtta t" /listShort="ydhI, ydhH" /GFF_Attribute="listLong" promotor_-35 complement(623353..623356) /Source="Nicolas_upshift_promotors" /id="U450" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.619380619380619" /psig="0.994005994005994" /xcortree=2264 /SigmaFactorBS="atatcgctgatttccatgccgtcacctcaacatCTATttttt ttgttatatATTGTTTATATTGATAGTACatatgcaatctttcaatagaggagtgtta t" /listShort="ydhI, ydhH" /GFF_Attribute="listLong" /label="promotor_-35" CDS 623373..624350 /gene="ydhJ" /locus_tag="BSU_05780" /old_locus_tag="BSU05780" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative metal-dependent phosphohydrolase" /protein_id="NP_388459.1" /db_xref="EnsemblGenomes-Gn:BSU05780" /db_xref="EnsemblGenomes-Tr:CAB12397" /db_xref="GOA:O05502" /db_xref="InterPro:IPR003607" /db_xref="InterPro:IPR006674" /db_xref="SubtiList:BG12187" /db_xref="UniProtKB/Swiss-Prot:O05502" /translation="MEISDIIYGQHHIDGVLEELIKSAPVQRLKGIYQGGASFLVNRK WNVTRYEHSIGVMLLIKKLGGTIEEQIAGLLHDVSHTAFSHVVDVVFENQAEDYHENI FQQVIVHSEIPDILQKHGYHTEELLSDDSRWTLLEQPAPELCADRTDYTLRDMYRYGH INLHEAQTFLDHLIVRNGRMFPDSIEAAEWFVSVYYKEVIDFFLNPVNVYGYEYLARA LKAALRHDVISAEDLLKTDQEVLNILRASKNEEVLSLLTSIHPGIQVIEDDIQYDFHQ KKKMRLIDPSIFLDDKWIKSSGVSEKVRKMGEAAYQKAKKGVYIKILKQ*" gene 623373..624350 /gene="ydhJ" /locus_tag="BSU_05780" /old_locus_tag="BSU05780" downshifts 624330 /Source="Nicolas_upshifts" /id="D280" /incds=0 /nref=2 /ntot=92 /MaxReadThrough="2.31799" /MaxDrop="3.19063" /score="28.8500849" /energy="-8.1" /TU="NA" /idTUdmin="U451" /TUdmin="-770" /isTUend="FALSE" promotor_-35 624377..624383 /Source="Nicolas_upshift_promotors" /id="U451" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=176 /SigmaFactorBS="agtaattgccgcctgacagcggctttttttaTGTTTGGcttt gcaaacaaagGGGAATAGGACAAACTGCGggaacgctttatgagaatatcagcgtatt t" /listShort="ydhK" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 624398..624416 /Source="Nicolas_upshift_promotors" /id="U451" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=176 /SigmaFactorBS="agtaattgccgcctgacagcggctttttttaTGTTTGGcttt gcaaacaaagGGGAATAGGACAAACTGCGggaacgctttatgagaatatcagcgtatt t" /listShort="ydhK" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 624406 /Source="Nicolas_upshifts" /id="U451" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=176 /SigmaFactorBS="agtaattgccgcctgacagcggctttttttaTGTTTGGcttt gcaaacaaagGGGAATAGGACAAACTGCGggaacgctttatgagaatatcagcgtatt t" /listShort="ydhK" /GFF_Attribute="listLong" promotor_-35 624442..624449 /Source="Nicolas_upshift_promotors" /id="U452" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.434565434565435" /psig="0.98001998001998" /xcortree=1765 /SigmaFactorBS="ataggacaaactgcgggaacgctttatgagaatatcagcgTA TTTACAtaccgttcgggggTATAGTATTATCGAGAGGGCatgttttcattgtctgcgg g" /listShort="ydhK" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 624462 /Source="Nicolas_upshifts" /id="U452" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.434565434565435" /psig="0.98001998001998" /xcortree=1765 /SigmaFactorBS="ataggacaaactgcgggaacgctttatgagaatatcagcgTA TTTACAtaccgttcgggggTATAGTATTATCGAGAGGGCatgttttcattgtctgcgg g" /listShort="ydhK" /GFF_Attribute="listLong" promotor_-10 624463..624482 /Source="Nicolas_upshift_promotors" /id="U452" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.434565434565435" /psig="0.98001998001998" /xcortree=1765 /SigmaFactorBS="ataggacaaactgcgggaacgctttatgagaatatcagcgTA TTTACAtaccgttcgggggTATAGTATTATCGAGAGGGCatgttttcattgtctgcgg g" /listShort="ydhK" /GFF_Attribute="listLong" /label="promotor_-10" CDS 624492..625109 /gene="ydhK" /locus_tag="BSU_05790" /old_locus_tag="BSU05790" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="NP_388460.1" /db_xref="EnsemblGenomes-Gn:BSU05790" /db_xref="EnsemblGenomes-Tr:CAB12398" /db_xref="InterPro:IPR011438" /db_xref="PDB:2KY9" /db_xref="PDB:4FIB" /db_xref="PDB:4MDW" /db_xref="SubtiList:BG12188" /db_xref="UniProtKB/Swiss-Prot:O05503" /translation="MSAGKSYRKKMKQRRMNMKISKYALGILMLSLVFVLSACGNNNS TKESTHDNHSDSSTHEEMDHSGSADVPEGLQESKNPKYKVGSQVIINTSHMKGMKGAE ATVTGAYDTTAYVVSYTPTNGGQRVDHHKWVIQEEIKDAGDKTLQPGDQVILEASHMK GMKGATAEIDSAEKTTVYMVDYTSTTSGEKVKNHKWVTEDELSAK*" gene 624492..625109 /gene="ydhK" /locus_tag="BSU_05790" /old_locus_tag="BSU05790" downshifts 625096 /Source="Nicolas_upshifts" /id="D281" /incds=0 /nref=62 /ntot=212 /MaxReadThrough="1.07295" /MaxDrop="7.27889" /score="30.3859931" /energy="-11.4" /TU="U452" /idTUdmin="U451" /TUdmin="-4" /isTUend="TRUE" CDS complement(625125..626291) /gene="pbuE" /locus_tag="BSU_05800" /old_locus_tag="BSU05800" /function="16.8: Protect" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:12923093, 15849754, 16850406, 17935948, 25573585" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12923093, 15849754, 16850406, 17935948, 25573585; Product type t : transporter" /codon_start=1 /transl_table=11 /product="hypoxanthine efflux transporter" /protein_id="NP_388461.2" /db_xref="EnsemblGenomes-Gn:BSU05800" /db_xref="EnsemblGenomes-Tr:CAB12399" /db_xref="GOA:Q797E3" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12189" /db_xref="UniProtKB/Swiss-Prot:Q797E3" /translation="MNFKVFLLAASTIAVGLVELIVGGILPQIANDLDISIVSAGQLI SVFALGYAVSGPLLLALTAKIERKRLYLIALFVFFLSNLVAYFSPNFATLMVSRVLAA MSTGLIVVLSLTIAPKIVAPEYRARAIGIIFMGFSSAIALGVPLGILISDSFGWRILF LGIGLLALISMLIISIFFERIPAEKMIPFREQLKTIGNLKIASSHLVTMFTLAGHYTL YAYFAPFLEETLHLSSFWVSICYFLFGISAVCGGPFGGALSDRLGSFKSILLVTGSFA IIMFLLPLSTSSMIFFLPVMVIWGLLSWSLAPAQQSYLIEIAPDSSDIQQSFNTSALQ VGIALGSAIGGVVLDQTGTVVSTAWCGGSIVIIAVLFAFISLTRPVQTAKKSSL*" gene complement(625125..626291) /gene="pbuE" /locus_tag="BSU_05800" /old_locus_tag="BSU05800" downshifts complement(625154) /Source="Nicolas_upshifts" /id="D282" /incds=0 /nref=40 /ntot=58 /MaxReadThrough="2.22188" /MaxDrop="4.89202" /score="36.362851" /energy="-12.4" /TU="NA" /idTUdmin="U453" /TUdmin=0 /isTUend="TRUE" misc_RNA complement(626346..626446) /gene="aswA" /locus_tag="BSU_misc_RNA_8" /product="adenine riboswitch" /experiment="publication(s) with functional evidences, PMID:14718920, 16201765, 19603494, 20022916, 21283784, 23087247, 25573585" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14718920, 16201765, 19603494, 20022916, 21283784, 23087247, 25573585; Product type n: RNA" gene complement(626346..626446) /gene="aswA" /locus_tag="BSU_misc_RNA_8" downshifts complement(626387) /Source="Nicolas_upshifts" /id="D283" /incds=0 /nref=38 /ntot=127 /MaxReadThrough="5.85661" /MaxDrop="6.06248" /score="33.0784595" /energy="-19.4" /TU="U453" /idTUdmin="U453" /TUdmin="-1233" /isTUend="FALSE" promotor_-10 complement(626456..626475) /Source="Nicolas_upshift_promotors" /id="U453" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.95104895104895" /psig=1 /xcortree=2453 /SigmaFactorBS="tatttttttccggttcaccgttttataaatttttcTATGGaa gattcattcataaTGTGGTACACTCATCAACGGaaacgaatcaattaaatagctatta t" /listShort="NA, pbuE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(626470) /Source="Nicolas_upshifts" /id="U453" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.95104895104895" /psig=1 /xcortree=2453 /SigmaFactorBS="tatttttttccggttcaccgttttataaatttttcTATGGaa gattcattcataaTGTGGTACACTCATCAACGGaaacgaatcaattaaatagctatta t" /listShort="NA, pbuE" /GFF_Attribute="listLong" promotor_-35 complement(626491..626495) /Source="Nicolas_upshift_promotors" /id="U453" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.95104895104895" /psig=1 /xcortree=2453 /SigmaFactorBS="tatttttttccggttcaccgttttataaatttttcTATGGaa gattcattcataaTGTGGTACACTCATCAACGGaaacgaatcaattaaatagctatta t" /listShort="NA, pbuE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 626554..626561 /Source="Nicolas_upshift_promotors" /id="U454" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.85914085914086" /psig="0.999000999001" /xcortree=1575 /SigmaFactorBS="aaaaaaatatgattatatttattttataaaagTATAGACAtt taaaattaaatGACTATAATAATCAATGTAAgcgttttaataacaggggggatagcag t" /listShort="gmuB, gmuA, gmuC, gmuD, S203, gmuR, gmuE, gmuF, gmuG" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 626575..626594 /Source="Nicolas_upshift_promotors" /id="U454" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.85914085914086" /psig="0.999000999001" /xcortree=1575 /SigmaFactorBS="aaaaaaatatgattatatttattttataaaagTATAGACAtt taaaattaaatGACTATAATAATCAATGTAAgcgttttaataacaggggggatagcag t" /listShort="gmuB, gmuA, gmuC, gmuD, S203, gmuR, gmuE, gmuF, gmuG" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 626582 /Source="Nicolas_upshifts" /id="U454" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.85914085914086" /psig="0.999000999001" /xcortree=1575 /SigmaFactorBS="aaaaaaatatgattatatttattttataaaagTATAGACAtt taaaattaaatGACTATAATAATCAATGTAAgcgttttaataacaggggggatagcag t" /listShort="gmuB, gmuA, gmuC, gmuD, S203, gmuR, gmuE, gmuF, gmuG" /GFF_Attribute="listLong" CDS 626622..626933 /gene="gmuB" /locus_tag="BSU_05810" /old_locus_tag="BSU05810" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 18177310; Product type t : transporter" /codon_start=1 /transl_table=11 /product="oligo-alpha-mannoside phosphotransferase system enzyme IIB" /protein_id="NP_388462.1" /db_xref="EnsemblGenomes-Gn:BSU05810" /db_xref="EnsemblGenomes-Tr:CAB12400" /db_xref="GOA:O05505" /db_xref="InterPro:IPR003501" /db_xref="InterPro:IPR013012" /db_xref="InterPro:IPR036095" /db_xref="SubtiList:BG12190" /db_xref="UniProtKB/Swiss-Prot:O05505" /translation="MKKILLACSSGMSTSLLVTKMKEYAQSIGEEAEIWAVGQDKAKE DMRKADAVLIGPQMSFLKSELQKEADQYNIQVEVIDMMAYGMADGKKAYEQALSLMVN Q*" gene 626622..626933 /gene="gmuB" /locus_tag="BSU_05810" /old_locus_tag="BSU05810" CDS 626933..627265 /gene="gmuA" /locus_tag="BSU_05820" /old_locus_tag="BSU05820" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; Product type t: transporter" /codon_start=1 /transl_table=11 /product="oligo-alpha-mannoside phosphotransferase system enzyme IIA" /protein_id="NP_388463.2" /db_xref="EnsemblGenomes-Gn:BSU05820" /db_xref="EnsemblGenomes-Tr:CAB12401" /db_xref="GOA:O05506" /db_xref="InterPro:IPR003188" /db_xref="InterPro:IPR036542" /db_xref="SubtiList:BG12191" /db_xref="UniProtKB/Swiss-Prot:O05506" /translation="MEQMKITNLTDEQISFQLILHSGNARSCIIQSLRAYKEGKKDEA DALIAKAEQDLSAAHDIHFQMIQKESGGEATAFSLLLMHAEDHLMSTLSMKELVKEML DLFKTKNI*" gene 626933..627265 /gene="gmuA" /locus_tag="BSU_05820" /old_locus_tag="BSU05820" CDS 627284..628612 /gene="gmuC" /locus_tag="BSU_05830" /old_locus_tag="BSU05830" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 15849754, 16850406, 18177310; Product type t: transporter" /codon_start=1 /transl_table=11 /product="oligo-alpha-mannoside phosphotransferase system enzyme IIC" /protein_id="NP_388464.1" /db_xref="EnsemblGenomes-Gn:BSU05830" /db_xref="EnsemblGenomes-Tr:CAB12402" /db_xref="GOA:O05507" /db_xref="InterPro:IPR003352" /db_xref="InterPro:IPR004501" /db_xref="InterPro:IPR004796" /db_xref="SubtiList:BG12192" /db_xref="UniProtKB/Swiss-Prot:O05507" /translation="MFEKISQFLVPIAGRLNNNRYLQVLRDAFMLAFPLTIFGSIFVV LTNLPFLNKIMNASMLTSFQSHFGIASTATMGIMSVFVVFGIGYYLSKSYQVEAVFGG AIALVSFLLLTPFIIQPETGDAITGVIPVDRLGAKGMFLGMITAFLSGEIYRRIVQKN LTIKMPAGVPPAVAKSFAALIPAFITLTVFLLINVMVTLFFKTNMHDVIYHAIQAPLV GLGSGIIPTLIAVFFIQILWFFGLHGQIIINSVMDPIWNTLQVENLSAYTAGKEIPHI ISKPFMEIYTVGMGGTGMTLAIVFTILIFMKSRQMKQVSKLGLAPGIFNVNEPIIFGL PIVMNPIIIVPWVLAPMVVTLVTYLAMSAGLVPPPTGVTVPWTVPLFINGIMATNSIM GGVMQLINLLIVFVIWFPFLKAMDKLNLAKEKEQAVQETAAQQNDNSIKM*" gene 627284..628612 /gene="gmuC" /locus_tag="BSU_05830" /old_locus_tag="BSU05830" CDS 628630..630027 /gene="gmuD" /locus_tag="BSU_05840" /old_locus_tag="BSU05840" /EC_number="3.2.1.86" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:14652714, 15139916, 18177310" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14652714, 15139916, 18177310; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="mannoside-phospho-beta-d-glucosidase" /protein_id="NP_388465.1" /db_xref="EnsemblGenomes-Gn:BSU05840" /db_xref="EnsemblGenomes-Tr:CAB12403" /db_xref="GOA:O05508" /db_xref="InterPro:IPR001360" /db_xref="InterPro:IPR017853" /db_xref="InterPro:IPR018120" /db_xref="SubtiList:BG12193" /db_xref="UniProtKB/Swiss-Prot:O05508" /translation="MAHTEQYRFPKDFWWGSSASATQMEGAADRDGKGQNIWDYWFEK EPHRFFDHVGPADTSQFYDNYKEDIRLMKELGHNSFRMSISWSRLIPNGTGEINDKAA DFYNNVIDELIANGIEPFVNLFHFDMPMALQKIGGWVNRETVDAYENYARTCFRLFGG RVKKWFTHNEPIVPVEGGYLYDFHYPNKVDFKEAVQVGFHTMLSSARAIQAYREMKQD GKIGIILNLTPSYPRSSHPADVKAGEIADAFFNRSFLDPSVKGEFPKELVDILKHEGF MPDYNAEDLDIIKKNTVDLLGVNYYQPRRVKAKEHLPNPDAPFLPDRYFDPYVMPGRK MNPHRGWEIYEKGVYDILINLKENYGNIECFISENGMGVEGEERFRDEQGIIQDDYRI EFIKEHLKWIHRAIQEGSNVKGYHLWTFMDNWSWTNAYKNRYGFVSVNLEKDGERTVK KSGKWFKEVAEHSGF*" gene 628630..630027 /gene="gmuD" /locus_tag="BSU_05840" /old_locus_tag="BSU05840" S_feature 630028..630114 /Source="Nicolas_S_feature" /locus_tag="new_630028_630114" /HighExp="G150, T0.30H, T1.0H, M40t90, T1.30H, Mt0, M0t90, Lbexp, dia0, T2.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S203" promotor_-35 630092..630099 /Source="Nicolas_upshift_promotors" /id="U455" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.74025974025974" /psig="0.997002997002997" /xcortree=640 /SigmaFactorBS="aatcatcataacgaatagagatgacgaaaatccgcaACATTG ATgaaatagggaaaaGAACTTATGATATCCGTAAAagcttatgtgatatcaaacagct g" /listShort="gmuR, gmuE, gmuF, gmuG" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 630113..630132 /Source="Nicolas_upshift_promotors" /id="U455" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.74025974025974" /psig="0.997002997002997" /xcortree=640 /SigmaFactorBS="aatcatcataacgaatagagatgacgaaaatccgcaACATTG ATgaaatagggaaaaGAACTTATGATATCCGTAAAagcttatgtgatatcaaacagct g" /listShort="gmuR, gmuE, gmuF, gmuG" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 630116 /Source="Nicolas_upshifts" /id="U455" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.74025974025974" /psig="0.997002997002997" /xcortree=640 /SigmaFactorBS="aatcatcataacgaatagagatgacgaaaatccgcaACATTG ATgaaatagggaaaaGAACTTATGATATCCGTAAAagcttatgtgatatcaaacagct g" /listShort="gmuR, gmuE, gmuF, gmuG" /GFF_Attribute="listLong" CDS 630170..630883 /gene="gmuR" /locus_tag="BSU_05850" /old_locus_tag="BSU05850" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:18177310" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 18177310; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator (GntR family)" /protein_id="NP_388466.1" /db_xref="EnsemblGenomes-Gn:BSU05850" /db_xref="EnsemblGenomes-Tr:CAB12404" /db_xref="GOA:O05509" /db_xref="InterPro:IPR000524" /db_xref="InterPro:IPR011663" /db_xref="InterPro:IPR028978" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12194" /db_xref="UniProtKB/Swiss-Prot:O05509" /translation="MNKYEIIANEMRNRIKNNVYPIDQPIPDEVSLAKEFNSSRMTMK RALDNLVAEGLLFRKRGHGTFIIQSAIQDDHVHVVSNEILGLTNLLKDKKIKSKVIQF EVQFPTEEVAAHLSIDQKTPVYYVVRLRIVEGEPYVLEKTYMPTHLIPGINDDVLHDS IYNHITNVLQLKIAGTHRKIRACKSDHIDQQHLGCKQDDPILEVEHVGFLDTGIPFEY SFSRHRHDKFVVTSVNIRR*" gene 630170..630883 /gene="gmuR" /locus_tag="BSU_05850" /old_locus_tag="BSU05850" CDS 630912..631811 /gene="gmuE" /locus_tag="BSU_05860" /old_locus_tag="BSU05860" /EC_number="2.7.1.4" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:15018644, 18177310, 21185308" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15018644, 18177310, 21185308; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="ROK fructokinase; glucomannan utilization protein E" /protein_id="NP_388467.1" /db_xref="EnsemblGenomes-Gn:BSU05860" /db_xref="EnsemblGenomes-Tr:CAB12405" /db_xref="GOA:O05510" /db_xref="InterPro:IPR000600" /db_xref="PDB:1XC3" /db_xref="PDB:3LM9" /db_xref="PDB:3OHR" /db_xref="SubtiList:BG12195" /db_xref="UniProtKB/Swiss-Prot:O05510" /translation="MLGGIEAGGTKFVCAVGREDGTIIDRIEFPTKMPDETIEKVIQY FSQFSLQAIGIGSFGPVDNDKTSQTYGTITATPKAGWRHYPFLQTVKNEMKIPVGFST DVNAAALGEFLFGEAKGLDSCLYITIGTGIGAGAIVEGRLLQGLSHPEMGHIYIRRHP DDVYQGKCPYHGDCFEGLASGPAIEARWGKKAADLSDIAQVWELEGYYIAQALAQYIL ILAPKKIILGGGVMQQKQVFSYIYQYVPKIMNSYLDFSELSDDISDYIVPPRLGSNAG IIGTLVLAHQALQAEAASGEVRS*" gene 630912..631811 /gene="gmuE" /locus_tag="BSU_05860" /old_locus_tag="BSU05860" CDS 631808..632755 /gene="gmuF" /locus_tag="BSU_05870" /old_locus_tag="BSU05870" /EC_number="5.3.1.8" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); PubMedId: 10704478, 18177310, 3017192; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="phosphohexomutase; cupin family" /protein_id="NP_388468.1" /db_xref="EnsemblGenomes-Gn:BSU05870" /db_xref="EnsemblGenomes-Tr:CAB12406" /db_xref="GOA:O05511" /db_xref="InterPro:IPR001250" /db_xref="InterPro:IPR011051" /db_xref="InterPro:IPR014628" /db_xref="InterPro:IPR014710" /db_xref="SubtiList:BG12196" /db_xref="UniProtKB/Swiss-Prot:O05511" /translation="MTHPLFLEPVFKERLWGGTKLRDAFGYAIPSQKTGECWAVSAHA HGSSSVKNGPLAGKTLDQVWKDHPEIFGFPDGKVFPLLVKLLDANMDLSVQVHPDDDY AKLHENGDLGKTECWYIIDCKDDAELILGHHASTKEEFKQRIESGDWNGLLRRIKIKP GDFFYVPSGTLHALCKGTLVLEIQQNSDTTYRVYDYDRCNDQGQKRTLHIEKAMEVIT IPHIDKVHTPEVKEVGNAEIIVYVQSDYFSVYKWKISGRAAFPSYQTYLLGSVLSGSG RIINNGIQYECNAGSHFILPAHFGEFTIEGTCEFMISHP*" gene 631808..632755 /gene="gmuF" /locus_tag="BSU_05870" /old_locus_tag="BSU05870" CDS 632774..633862 /gene="gmuG" /locus_tag="BSU_05880" /old_locus_tag="BSU05880" /EC_number="3.2.1.78" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:2694961, 7727534, 18177310, 28101462, 25355936" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 2694961, 7727534, 18177310, 28101462, 25355936; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="exported mannan endo-1,4-beta-mannosidase" /protein_id="NP_388469.2" /db_xref="EnsemblGenomes-Gn:BSU05880" /db_xref="EnsemblGenomes-Tr:CAB12407" /db_xref="GOA:O05512" /db_xref="InterPro:IPR000805" /db_xref="InterPro:IPR016714" /db_xref="InterPro:IPR017853" /db_xref="InterPro:IPR022790" /db_xref="PDB:2WHK" /db_xref="PDB:3CBW" /db_xref="SubtiList:BG12197" /db_xref="UniProtKB/Swiss-Prot:O05512" /translation="MFKKHTISLLIIFLLASAVLAKPIEAHTVSPVNPNAQQTTKTVM NWLAHLPNRTENRVLSGAFGGYSHDTFSMAEADRIRSATGQSPAIYGCDYARGWLETA NIEDSIDVSCNGDLMSYWKNGGIPQISLHLANPAFQSGHFKTPITNDQYKKILDSSTV EGKRLNAMLSKIADGLQELENQGVPVLFRPLHEMNGEWFWWGLTSYNQKDNERISLYK QLYKKIYHYMTDTRGLDHLIWVYSPDANRDFKTDFYPGASYVDIVGLDAYFQDAYSIN GYDQLTALNKPFAFTEVGPQTANGSFDYSLFINAIKQKYPKTIYFLAWNDEWSAAVNK GASALYHDSWTLNKGEIWNGDSLTPIVE*" gene 632774..633862 /gene="gmuG" /locus_tag="BSU_05880" /old_locus_tag="BSU05880" downshifts 633856 /Source="Nicolas_upshifts" /id="D284" /incds=0 /nref=1 /ntot=17 /MaxReadThrough="1.56881" /MaxDrop="2.87204" /score="7.63230089" /energy="-5.4" /TU="NA" /idTUdmin="U454" /TUdmin=0 /isTUend="TRUE" CDS complement(633923..634651) /gene="ydhUc" /locus_tag="BSU_05890" /old_locus_tag="BSU05890" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function; Product type e : enzyme" /pseudo /codon_start=1 /transl_table=11 /product="Mn catalase fragment; C-terminal part of YhdU" /db_xref="SubtiList:BG12198" /translation="FFQSSNFRGKQKQYRDLLRGIFLEEIAHVELVQNTINALLDESG GEGVGSQGTDQAPLDEAVKHANPHHYIIGAQSSLPVDAGGNPWNGSWVYNHGNLITDL LDNLLLESTGVLQKTRIYEMSSNQTFRETLAFLIVRDNAHQNAFAKALETLGVEWAKL LPVPNYDINKYPECRKYVELGYHNTHFNFRLDETRISEIYQGKSPSRNGGELQVIDPP AGFPVPVLPEIPNEHSPGLGDMNA*" gene complement(633923..634651) /gene="ydhUc" /locus_tag="BSU_05890" /old_locus_tag="BSU05890" /pseudo downshifts complement(633973) /Source="Nicolas_upshifts" /id="D285" /incds=0 /nref=13 /ntot=37 /MaxReadThrough="1.1517" /MaxDrop="5.0503" /score="0.317473754" /energy="-17.6" /TU="NA" /idTUdmin="U456" /TUdmin=3 /isTUend="TRUE" CDS complement(634582..634776) /gene="ydhUn" /locus_tag="BSU_05899" /old_locus_tag="BSU05899" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function; Product type e : enzyme" /pseudo /codon_start=1 /transl_table=11 /product="Mn catalase fragment; N-terminal part of YhdU" /translation="MYYYKEELINIIKPDKPDPAAAKVLQEILGGHYGEMRTMMQFFS KALISEESRNSTAICFAAFF*" gene complement(634582..634776) /gene="ydhUn" /locus_tag="BSU_05899" /old_locus_tag="BSU05899" /pseudo promotor_-10 complement(634809..634820) /Source="Nicolas_upshift_promotors" /id="U456" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=907 /SigmaFactorBS="ttattttcttctttcacgccttcccatgcttatcatgTATAT ATtttatctcatcttACAAATAATATAagaaaatctcttaagaagaaatgaggcgtgt t" /listShort="ydhU, ydhU" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(634817) /Source="Nicolas_upshifts" /id="U456" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=907 /SigmaFactorBS="ttattttcttctttcacgccttcccatgcttatcatgTATAT ATtttatctcatcttACAAATAATATAagaaaatctcttaagaagaaatgaggcgtgt t" /listShort="ydhU, ydhU" /GFF_Attribute="listLong" promotor_-35 complement(634834..634840) /Source="Nicolas_upshift_promotors" /id="U456" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=907 /SigmaFactorBS="ttattttcttctttcacgccttcccatgcttatcatgTATAT ATtttatctcatcttACAAATAATATAagaaaatctcttaagaagaaatgaggcgtgt t" /listShort="ydhU, ydhU" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 634895..634902 /Source="Nicolas_upshift_promotors" /id="U457" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.998001998001998" /psig=1 /xcortree=2625 /SigmaFactorBS="cgtgaaagaagaaaataaaaaaatacaggaaaagtGTTGACC AaataaaacaggcaTGGTATATTATTAAACGTCGctgatgaacagcgtgaaacaaaac a" /listShort="S204, trnE-Arg, trnE-Gly, rrnE-16S" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 634916..634935 /Source="Nicolas_upshift_promotors" /id="U457" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.998001998001998" /psig=1 /xcortree=2625 /SigmaFactorBS="cgtgaaagaagaaaataaaaaaatacaggaaaagtGTTGACC AaataaaacaggcaTGGTATATTATTAAACGTCGctgatgaacagcgtgaaacaaaac a" /listShort="S204, trnE-Arg, trnE-Gly, rrnE-16S" /GFF_Attribute="listLong" /label="promotor_-10" promotor_no_box 634918..635018 /Source="Nicolas_upshift_promotors" /id="U458" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.604395604395604" /psig="0.0919080919080919" /xcortree=1636 /SigmaFactorBS="gtatattattaaacgtcgctgatgaacagcgtgaaacaaaac agaaaaacaaaaaagttttcctaaggtgtttacaagattttaaaaatgtgtataataa g" /listShort="S204, trnE-Arg, trnE-Gly, rrnE-16S" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts 634920 /Source="Nicolas_upshifts" /id="U457" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.998001998001998" /psig=1 /xcortree=2625 /SigmaFactorBS="cgtgaaagaagaaaataaaaaaatacaggaaaagtGTTGACC AaataaaacaggcaTGGTATATTATTAAACGTCGctgatgaacagcgtgaaacaaaac a" /listShort="S204, trnE-Arg, trnE-Gly, rrnE-16S" /GFF_Attribute="listLong" downshifts complement(634966) /Source="Nicolas_upshifts" /id="D286" /incds=0 /nref=1 /ntot=54 /MaxReadThrough="2.24619" /MaxDrop="4.20389" /score="11.9939391" /energy="-9" /TU="NA" /idTUdmin="U456" /TUdmin="-990" /isTUend="FALSE" upshifts 634978 /Source="Nicolas_upshifts" /id="U458" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.604395604395604" /psig="0.0919080919080919" /xcortree=1636 /SigmaFactorBS="gtatattattaaacgtcgctgatgaacagcgtgaaacaaaac agaaaaacaaaaaagttttcctaaggtgtttacaagattttaaaaatgtgtataataa g" /listShort="S204, trnE-Arg, trnE-Gly, rrnE-16S" /GFF_Attribute="listLong" promotor_-35 634986..634993 /Source="Nicolas_upshift_promotors" /id="U459" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.418581418581419" /psig="0.96003996003996" /xcortree=1634 /SigmaFactorBS="aaaaacaaaaaagttttcctaaggTGTTTACAagattttaaa aatGTGTATAATAAGAAAAGTCGaattgaaaaagattcgaaaaaacattaaaaaactt c" /listShort="S204, trnE-Arg, trnE-Gly, rrnE-16S" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 635007..635026 /Source="Nicolas_upshift_promotors" /id="U459" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.418581418581419" /psig="0.96003996003996" /xcortree=1634 /SigmaFactorBS="aaaaacaaaaaagttttcctaaggTGTTTACAagattttaaa aatGTGTATAATAAGAAAAGTCGaattgaaaaagattcgaaaaaacattaaaaaactt c" /listShort="S204, trnE-Arg, trnE-Gly, rrnE-16S" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 635022..635109 /Source="Nicolas_S_feature" /locus_tag="new_635022_635109" /HighExp="LBGstat, C30, Cold, Heat, Oxctl, T-1.10H, T-0.40H, T-1.40H, UNK1, BMM" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, Sig-, SigA" /TUshortPSig="0.96, 0.0919, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S204" upshifts 635022 /Source="Nicolas_upshifts" /id="U459" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.418581418581419" /psig="0.96003996003996" /xcortree=1634 /SigmaFactorBS="aaaaacaaaaaagttttcctaaggTGTTTACAagattttaaa aatGTGTATAATAAGAAAAGTCGaattgaaaaagattcgaaaaaacattaaaaaactt c" /listShort="S204, trnE-Arg, trnE-Gly, rrnE-16S" /GFF_Attribute="listLong" tRNA 635110..635186 /gene="trnE-Arg" /locus_tag="BSU_tRNA_79" /product="tRNA-Arg" /inference="profile:tRNAscan:1.23" /note="Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 635110..635186 /gene="trnE-Arg" /locus_tag="BSU_tRNA_79" tRNA 635200..635273 /gene="trnE-Gly" /locus_tag="BSU_tRNA_80" /product="tRNA-Gly" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Gly(UCC); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 635200..635273 /gene="trnE-Gly" /locus_tag="BSU_tRNA_80" rRNA 635433..636987 /gene="rrnE-16S" /locus_tag="BSU_rRNA_30" /product="ribosomal RNA-16S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 635433..636987 /gene="rrnE-16S" /locus_tag="BSU_rRNA_30" rRNA 637155..640082 /gene="rrnE-23S" /locus_tag="BSU_rRNA_12" /product="ribosomal RNA-23S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 637155..640082 /gene="rrnE-23S" /locus_tag="BSU_rRNA_12" rRNA 640138..640254 /gene="rrnE-5S" /locus_tag="BSU_rRNA_13" /product="ribosomal RNA-5S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 640138..640254 /gene="rrnE-5S" /locus_tag="BSU_rRNA_13" tRNA 640268..640344 /gene="trnE-Met" /locus_tag="BSU_tRNA_21" /product="tRNA-Met" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Met(CAU); Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 640268..640344 /gene="trnE-Met" /locus_tag="BSU_tRNA_21" tRNA 640405..640481 /gene="trnE-Asp" /locus_tag="BSU_tRNA_22" /product="tRNA-Asp" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Asp(GUC); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 640405..640481 /gene="trnE-Asp" /locus_tag="BSU_tRNA_22" downshifts 640478 /Source="Nicolas_upshifts" /id="D287" /incds=0 /nref=38 /ntot=211 /MaxReadThrough="6.00554" /MaxDrop="5.14761" /score="7.63230089" /energy="-5.4" /TU="NA" /idTUdmin="U460" /TUdmin="-3784" /isTUend="FALSE" promotor_-35 640582..640586 /Source="Nicolas_upshift_promotors" /id="U460" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.942057942057942" /psig=1 /xcortree=2461 /SigmaFactorBS="tggtgtcatagccaagctttctttatatcgggaacaTCTTGg atattccagcaaaaTTCGATAAACTAGGAAGAGCacaaataggcataagcagggttga a" /listShort="thiL, ydiB, ydiC, rimI, gcp" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 640602..640621 /Source="Nicolas_upshift_promotors" /id="U460" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.942057942057942" /psig=1 /xcortree=2461 /SigmaFactorBS="tggtgtcatagccaagctttctttatatcgggaacaTCTTGg atattccagcaaaaTTCGATAAACTAGGAAGAGCacaaataggcataagcagggttga a" /listShort="thiL, ydiB, ydiC, rimI, gcp" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 640606 /Source="Nicolas_upshifts" /id="U460" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.942057942057942" /psig=1 /xcortree=2461 /SigmaFactorBS="tggtgtcatagccaagctttctttatatcgggaacaTCTTGg atattccagcaaaaTTCGATAAACTAGGAAGAGCacaaataggcataagcagggttga a" /listShort="thiL, ydiB, ydiC, rimI, gcp" /GFF_Attribute="listLong" CDS 640662..641639 /gene="thiL" /locus_tag="BSU_05900" /old_locus_tag="BSU05900" /EC_number="2.7.4.16" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 16291685, 26443755; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="thiamine-monophosphate kinase" /protein_id="NP_388471.1" /db_xref="EnsemblGenomes-Gn:BSU05900" /db_xref="EnsemblGenomes-Tr:CAB12409" /db_xref="GOA:O05514" /db_xref="InterPro:IPR006283" /db_xref="InterPro:IPR010918" /db_xref="InterPro:IPR016188" /db_xref="InterPro:IPR036676" /db_xref="InterPro:IPR036921" /db_xref="SubtiList:BG10693" /db_xref="UniProtKB/Swiss-Prot:O05514" /translation="MDEFDLIHSITPRTIHHSSVDVGIGDDAALYTAKHGVQEIVCVD TMVEDVHFKLHYSSPEDIGYKALAVNISDIAAMGGIPKFYLVSLAVPSKWTESEIKAM YEGMNELAKLYHMDLIGGDTVSTADKLVVTVTVIGEIEKGQACLRSLAKPNDIVFVTG EIGSSAAGLSLLLEETNPQNSSVETDYFIHRHKRPEPRVSVGRLCSIFKRAALNDVSD GLASELNEIAEASCVSIEIVESMLPIHSDLPKLHPNWKEWALFGGEDFELTGTVSNEE WEVLKQECAALHLPITKIGYVREKTKSKVILKTDQTSMILEKKGYNHFK*" gene 640662..641639 /gene="thiL" /locus_tag="BSU_05900" /old_locus_tag="BSU05900" CDS 641654..642130 /gene="tsaE" /locus_tag="BSU_05910" /old_locus_tag="BSU05910" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12682299, 17005971, 19246765, 19376873, 19578062, 20701780, 20824107, 21183954, 21285948, 22378793, 23072323" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 17005971, 19246765, 19376873, 19578062, 20701780, 20824107, 21183954, 21285948, 22378793, 23072323; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="tRNA(NNU) t(6)A37 threonylcarbamoyladenosine modification; ADP binding protein" /protein_id="NP_388472.1" /db_xref="EnsemblGenomes-Gn:BSU05910" /db_xref="EnsemblGenomes-Tr:CAB12410" /db_xref="GOA:O05515" /db_xref="InterPro:IPR003442" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG12199" /db_xref="UniProtKB/Swiss-Prot:O05515" /translation="MKQLKWRTVNPEETKAIAKLTAAFAKPGDVLTLEGDLGAGKTTF TKGFAEGLGITRIVNSPTFTIIKEYNDGVLPLYHMDVYRMEDESEDLGLDEYFHGQGV CLVEWAHLIEEQLPQERLQIVIKRAGDDEREITFTAVGNRYEMLCEELSRHDNISN*" gene 641654..642130 /gene="tsaE" /locus_tag="BSU_05910" /old_locus_tag="BSU05910" CDS 642111..642800 /gene="tsaB" /locus_tag="BSU_05920" /old_locus_tag="BSU05920" /function="16.2: Construct biomass (Anabolism)" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:12682299, 17005971, 20944216, 19376873, 19578062, 20701780, 20824107, 21183954, 21285948, 22378793, 23072323" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 17005971, 20944216, 19376873, 19578062, 20701780, 20824107, 21183954, 21285948, 22378793, 23072323; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="tRNA(NNU) t(6)A37 threonylcarbamoyladenosine modification; protease involved in TsaD function" /protein_id="NP_388473.1" /db_xref="EnsemblGenomes-Gn:BSU05920" /db_xref="EnsemblGenomes-Tr:CAB12411" /db_xref="GOA:O05516" /db_xref="InterPro:IPR000905" /db_xref="InterPro:IPR022496" /db_xref="SubtiList:BG12200" /db_xref="UniProtKB/Swiss-Prot:O05516" /translation="MTILAIDTSNYTLGIALLREDTVIAEYITYLKKNHSVRAMPAVH SLLNDCDMAPQDLSKIVVAKGPGSYTGVRIGVTLAKTLAWSLDIPISAVSSLETLAAN GRHFDGLISPIFDARRGQVYTGLYQYKNGLLEQVVPDQNVMLADWLEMLKEKDRPVLF LGHDTSLHKQMIEDVLGTKGFIGTAAQHNPRPSELAFLGKEKEAADVHGLVPDYLRLA EAEAKWIESQK*" gene 642111..642800 /gene="tsaB" /locus_tag="BSU_05920" /old_locus_tag="BSU05920" CDS 642810..643265 /gene="rimI" /locus_tag="BSU_05930" /old_locus_tag="BSU05930" /EC_number="2.3.1.267" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 2828880; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="ribosomal protein S18 alanine N-acetyltransferase" /protein_id="NP_388474.1" /db_xref="EnsemblGenomes-Gn:BSU05930" /db_xref="EnsemblGenomes-Tr:CAB12412" /db_xref="GOA:O05517" /db_xref="InterPro:IPR000182" /db_xref="InterPro:IPR006464" /db_xref="InterPro:IPR016181" /db_xref="SubtiList:BG12201" /db_xref="UniProtKB/Swiss-Prot:O05517" /translation="MKTKAAVRNMRLEDIDHVYEIEASSFTSPWTKDSFYHELLENPY AHYLVIEKDGHLAGYCGIWIVMDDAQITNIAIKPEYRGQSLGETLFRSAVELCKEKDA RRLSLEVRVSNHPAQGLYKKFGMQPGGIRKNYYTDNGEDALIMWVTINE*" gene 642810..643265 /gene="rimI" /locus_tag="BSU_05930" /old_locus_tag="BSU05930" CDS 643258..644298 /gene="tsaD" /locus_tag="BSU_05940" /old_locus_tag="BSU05940" /function="16.2: Construct biomass (Anabolism)" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 11073929, 12682299, 9743119, 20824107, 21625506, 21873492, 19376873, 19578062, 20701780, 20824107, 21183954, 21285948, 22378793; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="tRNA(NNU) t(6)A37 threonylcarbamoyladenosine modification; glycation binding protein" /protein_id="NP_388475.1" /db_xref="EnsemblGenomes-Gn:BSU05940" /db_xref="EnsemblGenomes-Tr:CAB12413" /db_xref="GOA:O05518" /db_xref="InterPro:IPR000905" /db_xref="InterPro:IPR017860" /db_xref="InterPro:IPR017861" /db_xref="InterPro:IPR022450" /db_xref="SubtiList:BG12202" /db_xref="UniProtKB/Swiss-Prot:O05518" /translation="MSEQKDMYVLGIETSCDETAAAIVKNGKEIISNVVASQIESHKR FGGVVPEIASRHHVEQITLVIEEAFRKAGMTYSDIDAIAVTEGPGLVGALLIGVNAAK ALSFAYNIPLVGVHHIAGHIYANRLVEDIVFPALALVVSGGHTELVYMKEHGSFEVIG ETLDDAAGEAYDKVARTMGLPYPGGPQIDKLAEKGNDNIPLPRAWLEEGSYNFSFSGL KSAVINTLHNASQKGQEIAPEDLSASFQNSVIDVLVTKTARAAKEYDVKQVLLAGGVA ANRGLRAALEKEFAQHEGITLVIPPLALCTDNAAMIAAAGTIAFEKGIRGAYDMNGQP GLELTSYQSLTR*" gene 643258..644298 /gene="tsaD" /locus_tag="BSU_05940" /old_locus_tag="BSU05940" downshifts 644262 /Source="Nicolas_upshifts" /id="D288" /incds=0 /nref=39 /ntot=222 /MaxReadThrough="3.15518" /MaxDrop="4.65228" /score="3.97936019" /energy="-10.1" /TU="NA" /idTUdmin="U460" /TUdmin=0 /isTUend="TRUE" CDS complement(644528..646456) /gene="ydiF" /locus_tag="BSU_05950" /old_locus_tag="BSU05950" /function="16.8: Protect" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 11916677, 16109936, 24389466; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative energy-sensing inhibitor of translation" /protein_id="NP_388476.2" /db_xref="EnsemblGenomes-Gn:BSU05950" /db_xref="EnsemblGenomes-Tr:CAB12414" /db_xref="GOA:O05519" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR032524" /db_xref="InterPro:IPR032781" /db_xref="SubtiList:BG12203" /db_xref="UniProtKB/Swiss-Prot:O05519" /translation="MMILQVNQLSKSFGADTILNNIKLEVRNRDRIAIVGRNGAGKST LLKIIAGQLSYEKGEIIKPKDITMGYLAQHTGLDSKLTIKEELLTVFDHLKAMEKEMR AMEEKMAAADPGELESIMKTYDRLQQEFKDKGGYQYEADVRSVLHGLGFSHFDDSTQV QSLSGGQKTRLALGKLLLTQPDLLILDEPTNHLDIDTLTWLEHYLQGYSGAILIVSHD RYFLDKVVNQVYEVSRAESKKYHGNYSAYLDQKAAQYEKDLKMYEKQQDEIAKLQDFV DRNLARASTTKRAQSRRKQLERMDVMSKPLGDEKSANFHFDITKQSGNEVLRVQDLTI SYENQPPLLTEVSFMLTRGESAALVGPNGIGKSTLLKTLIDTLKPDQGTISYGSNVSV GYYDQEQAELTSSKRVLDELWDEYPGLPEKEIRTCLGNFLFSGDDVLKPVHSLSGGEK ARLALAKLMLQKANFLILDEPTNHLDLDSKEVLENALIDYPGTLLFVSHDRYFINRIA TRVLELSSSHIEEYLGDYDYYTEKKTEQLELEKMNQQEETDKTPATVKSDSKRSYEEE KEWKKKERQRLRRIEEIETTVQTIEENISRNDELLCDPEVYQDHEKVQAIHADNEKLN QELESLLSEWEELSTEED*" gene complement(644528..646456) /gene="ydiF" /locus_tag="BSU_05950" /old_locus_tag="BSU05950" downshifts complement(644545) /Source="Nicolas_upshifts" /id="D289" /incds=0 /nref=170 /ntot=266 /MaxReadThrough="1.32926" /MaxDrop="5.81869" /score="16.702581" /energy="-12.6" /TU="NA" /idTUdmin="U463" /TUdmin="-9" /isTUend="TRUE" misc_feature 646208..646227 /Source="Nicolas_upshift_promotors" /id="U461" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.821178821178821" /psig="0.98901098901099" /xcortree=2080 /SigmaFactorBS="tccttttccattgcttttaagtggtcaaaaacagtcagcagc tcttctttTATGGTAAGCTTAGAATCCAagccagtatgctgggcgagatatcccattg t" /listShort="S205, S206, moaC, rex, tatAY, tatCY" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 646218 /Source="Nicolas_upshifts" /id="U461" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.821178821178821" /psig="0.98901098901099" /xcortree=2080 /SigmaFactorBS="tccttttccattgcttttaagtggtcaaaaacagtcagcagc tcttctttTATGGTAAGCTTAGAATCCAagccagtatgctgggcgagatatcccattg t" /listShort="S205, S206, moaC, rex, tatAY, tatCY" /GFF_Attribute="listLong" S_feature 646220..646409 /Source="Nicolas_S_feature" /locus_tag="new_646220_646409" /HighExp="Diami, H2O2, dia5, Paraq, G135, G180, G150, Cold, dia15, BC" /AntisenseName="ydiF" /AntisenseCor="0.47406689574609401" /AntisenseRegPval="-15.8" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.989" /TUlongSig="NA" /TUlongPSig="NA" /label="S205" promotor_-35 646374..646381 /Source="Nicolas_upshift_promotors" /id="U462" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.93006993006993" /psig="0.997002997002997" /xcortree=2055 /SigmaFactorBS="ctacaatggcgatgcgatcacgaTTTCTGACttccagcttta taTTGTTTAAAATAGTATCAGCaccaaatgatttggacagctgattaacttgtaagat c" /listShort="S206, moaC, rex, tatAY, tatCY" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 646395..646414 /Source="Nicolas_upshift_promotors" /id="U462" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.93006993006993" /psig="0.997002997002997" /xcortree=2055 /SigmaFactorBS="ctacaatggcgatgcgatcacgaTTTCTGACttccagcttta taTTGTTTAAAATAGTATCAGCaccaaatgatttggacagctgattaacttgtaagat c" /listShort="S206, moaC, rex, tatAY, tatCY" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 646411..646581 /Source="Nicolas_S_feature" /locus_tag="new_646411_646581" /HighExp="Diami, dia5, dia15, H2O2, Etha, G180, G150, Oxctl, Mt0, Paraq" /AntisenseName="ydiF" /AntisenseCor="0.63697451027099605" /AntisenseRegPval="-31.3" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.997, 0.989" /TUlongSig="NA" /TUlongPSig="NA" /label="S206" upshifts 646411 /Source="Nicolas_upshifts" /id="U462" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.93006993006993" /psig="0.997002997002997" /xcortree=2055 /SigmaFactorBS="ctacaatggcgatgcgatcacgaTTTCTGACttccagcttta taTTGTTTAAAATAGTATCAGCaccaaatgatttggacagctgattaacttgtaagat c" /listShort="S206, moaC, rex, tatAY, tatCY" /GFF_Attribute="listLong" promotor_-10 complement(646476..646495) /Source="Nicolas_upshift_promotors" /id="U463" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.891108891108891" /psig="0.999000999001" /xcortree=2085 /SigmaFactorBS="tttcttctctatgtcttatatggccaatgtatTGTTTGCTga cttctggttcaTAAGCTACACTTAACTTATTatagcagaggtgaaataatatgatgat c" /listShort="ydiF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(646488) /Source="Nicolas_upshifts" /id="U463" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.891108891108891" /psig="0.999000999001" /xcortree=2085 /SigmaFactorBS="tttcttctctatgtcttatatggccaatgtatTGTTTGCTga cttctggttcaTAAGCTACACTTAACTTATTatagcagaggtgaaataatatgatgat c" /listShort="ydiF" /GFF_Attribute="listLong" promotor_-35 complement(646509..646516) /Source="Nicolas_upshift_promotors" /id="U463" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.891108891108891" /psig="0.999000999001" /xcortree=2085 /SigmaFactorBS="tttcttctctatgtcttatatggccaatgtatTGTTTGCTga cttctggttcaTAAGCTACACTTAACTTATTatagcagaggtgaaataatatgatgat c" /listShort="ydiF" /GFF_Attribute="listLong" /label="promotor_-35" CDS 646582..647094 /gene="moaC" /locus_tag="BSU_05960" /old_locus_tag="BSU05960" /EC_number="4.6.1.17" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 10903949, 16632608, 18607082, 20606263, 25941396, 26575208; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="molybdenum cofactor biosynthesis protein C" /protein_id="NP_388477.1" /db_xref="EnsemblGenomes-Gn:BSU05960" /db_xref="EnsemblGenomes-Tr:CAB12415" /db_xref="GOA:O05520" /db_xref="InterPro:IPR002820" /db_xref="InterPro:IPR023045" /db_xref="InterPro:IPR036522" /db_xref="SubtiList:BG12204" /db_xref="UniProtKB/Swiss-Prot:O05520" /translation="MNGFSHFNEQGRAQMVDISEKSSTVRTAAAVSSVHMKNEVYEKI QSHDIGKGDVLAVAQVAGIMAAKQTSNIIPMCHPLSLSGVDISFDWKIKEAEVILHIK AQVKTKGSTGVEMEALTSASVCALTVYDMCKALDKGMVIGPTFLLEKTGGKNGDFKRE LSEYNLEDQK*" gene 646582..647094 /gene="moaC" /locus_tag="BSU_05960" /old_locus_tag="BSU05960" CDS 647091..647738 /gene="rex" /locus_tag="BSU_05970" /old_locus_tag="BSU05970" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:15231791, 16207915, 17015645, 17322317, 18485070, 21402078, 23046954, 26735940" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15231791, 16207915, 17015645, 17322317, 18485070, 21402078, 23046954, 26735940; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcription repressor of cydABCD and yjlC-ndh expression" /protein_id="NP_388478.1" /db_xref="EnsemblGenomes-Gn:BSU05970" /db_xref="EnsemblGenomes-Tr:CAB12416" /db_xref="GOA:O05521" /db_xref="InterPro:IPR003781" /db_xref="InterPro:IPR009718" /db_xref="InterPro:IPR022876" /db_xref="InterPro:IPR036291" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="PDB:2VT2" /db_xref="PDB:2VT3" /db_xref="SubtiList:BG12205" /db_xref="UniProtKB/Swiss-Prot:O05521" /translation="MNKDQSKIPQATAKRLPLYYRFLKNLHASGKQRVSSAELSDAVK VDSATIRRDFSYFGALGKKGYGYNVDYLLSFFRKTLDQDEMTDVILIGVGNLGTAFLH YNFTKNNNTKISMAFDINESKIGTEVGGVPVYNLDDLEQHVKDESVAILTVPAVAAQS ITDRLVALGIKGILNFTPARLNVPEHIRIHHIDLAVELQSLVYFLKHYSVLEEIE*" gene 647091..647738 /gene="rex" /locus_tag="BSU_05970" /old_locus_tag="BSU05970" promotor_no_box 647568..647668 /Source="Nicolas_upshift_promotors" /id="U464" /multdbtbs="-" /comp="M2" /sig="Sig-" /pcomp="0.386613386613387" /psig="0.386613386613387" /xcortree=511 /SigmaFactorBS="tccattacagacagattggtcgcattaggaatcaagggaatc cttaattttacgccggcccgtttgaatgtgccggaacacattcgaattcatcatatag a" /listShort="tatAY, tatCY" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts 647628 /Source="Nicolas_upshifts" /id="U464" /multdbtbs="-" /comp="M2" /sig="Sig-" /pcomp="0.386613386613387" /psig="0.386613386613387" /xcortree=511 /SigmaFactorBS="tccattacagacagattggtcgcattaggaatcaagggaatc cttaattttacgccggcccgtttgaatgtgccggaacacattcgaattcatcatatag a" /listShort="tatAY, tatCY" /GFF_Attribute="listLong" CDS 647760..647933 /gene="tatAY" /locus_tag="BSU_05980" /old_locus_tag="BSU05980" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15187182, 19049517, 22041895, 22544248, 24652282, 26239117, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15187182, 19049517, 22041895, 22544248, 24652282, 26239117, 22720735; Product type t: transporter" /codon_start=1 /transl_table=11 /product="component of the twin-arginine pre-protein translocation pathway" /protein_id="NP_388479.1" /db_xref="EnsemblGenomes-Gn:BSU05980" /db_xref="EnsemblGenomes-Tr:CAB12417" /db_xref="GOA:O05522" /db_xref="InterPro:IPR003369" /db_xref="InterPro:IPR006312" /db_xref="SubtiList:BG12206" /db_xref="UniProtKB/Swiss-Prot:O05522" /translation="MPIGPGSLAVIAIVALIIFGPKKLPELGKAAGDTLREFKNATKG LTSDEEEKKKEDQ*" gene 647760..647933 /gene="tatAY" /locus_tag="BSU_05980" /old_locus_tag="BSU05980" CDS 647940..648704 /gene="tatCY" /locus_tag="BSU_05990" /old_locus_tag="BSU05990" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:11007775, 15187182, 15849754, 16850406, 19049517, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11007775, 15187182, 15849754, 16850406, 19049517, 22720735; Product type t : transporter" /codon_start=1 /transl_table=11 /product="component of the twin-arginine pre-protein translocation pathway" /protein_id="NP_388480.1" /db_xref="EnsemblGenomes-Gn:BSU05990" /db_xref="EnsemblGenomes-Tr:CAB12418" /db_xref="GOA:O05523" /db_xref="InterPro:IPR002033" /db_xref="InterPro:IPR019820" /db_xref="SubtiList:BG12207" /db_xref="UniProtKB/Swiss-Prot:O05523" /translation="MTRMKVNQMSLLEHIAELRKRLLIVALAFVVFFIAGFFLAKPII VYLQETDEAKQLTLNAFNLTDPLYVFMQFAFIIGIVLTSPVILYQLWAFVSPGLYEKE RKVTLSYIPVSILLFLAGLSFSYYILFPFVVDFMKRISQDLNVNQVIGINEYFHFLLQ LTIPFGLLFQMPVILMFLTRLGIVTPMFLAKIRKYAYFTLLVIAALITPPELLSHMMV TVPLLILYEISILISKAAYRKAQKSSAADRDVSSGQ*" gene 647940..648704 /gene="tatCY" /locus_tag="BSU_05990" /old_locus_tag="BSU05990" downshifts 648684 /Source="Nicolas_upshifts" /id="D290" /incds=0 /nref=151 /ntot=251 /MaxReadThrough="4.01237" /MaxDrop="6.80817" /score="19.4098216" /energy="-12.7" /TU="NA" /idTUdmin="U461" /TUdmin=0 /isTUend="TRUE" CDS complement(648742..648933) /gene="ydiK" /locus_tag="BSU_06000" /old_locus_tag="BSU06000" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388481.1" /db_xref="EnsemblGenomes-Gn:BSU06000" /db_xref="EnsemblGenomes-Tr:CAB12419" /db_xref="GOA:O05524" /db_xref="InterPro:IPR025426" /db_xref="SubtiList:BG12208" /db_xref="UniProtKB/Swiss-Prot:O05524" /translation="MRNPVVWGMIYFAVGCIFTYLAASSPGSMWSFYSILLMVFAAYN ISISFKMFAFSFKIKKNQK*" gene complement(648742..648933) /gene="ydiK" /locus_tag="BSU_06000" /old_locus_tag="BSU06000" downshifts complement(648759) /Source="Nicolas_upshifts" /id="D291" /incds=0 /nref=211 /ntot=258 /MaxReadThrough="0.81338" /MaxDrop="6.43897" /score="25.5376889" /energy="-12.7" /TU="NA" /idTUdmin="U467" /TUdmin="-21" /isTUend="TRUE" CDS complement(648930..649664) /gene="ydiL" /locus_tag="BSU_06010" /old_locus_tag="BSU06010" /EC_number="3.4.-.-" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative membrane protease" /protein_id="NP_388482.1" /db_xref="EnsemblGenomes-Gn:BSU06010" /db_xref="EnsemblGenomes-Tr:CAB12420" /db_xref="GOA:O05525" /db_xref="InterPro:IPR003675" /db_xref="SubtiList:BG12209" /db_xref="UniProtKB/Swiss-Prot:O05525" /translation="MRKQYWFIILTYIIMQFSALIAIPLLFKFGYAGGQPTDENMLHA QGLWSVISFIACLVVVLLILRTVPKETLRNGQKDSIGLSILWAIAGFFIALFSQGIAG SIEYYVFGIGRESENTQAILDVIQAVPLMIIVSSIVGPILEEIIFRKIIFGALYEKTN FFFAGLISSVIFGIVHADLKHLLLYTAMGFTFAFLYARTKRIWVPIFAHLMMNTFVVI MQLEPVRNYLEQQSTQMQLIIGGLFL*" gene complement(648930..649664) /gene="ydiL" /locus_tag="BSU_06010" /old_locus_tag="BSU06010" promotor_-35 649322..649327 /Source="Nicolas_upshift_promotors" /id="U465" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.952047952047952" /psig="0.952047952047952" /xcortree=1034 /SigmaFactorBS="tgcctgaatgacatccagaatcgcttgtgtattttctgATTC TCttccgatgccaaaaACATAATATTCAATAGAGCctgctattccttgagagaaaagg g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 649342..649360 /Source="Nicolas_upshift_promotors" /id="U465" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.952047952047952" /psig="0.952047952047952" /xcortree=1034 /SigmaFactorBS="tgcctgaatgacatccagaatcgcttgtgtattttctgATTC TCttccgatgccaaaaACATAATATTCAATAGAGCctgctattccttgagagaaaagg g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 649344 /Source="Nicolas_upshifts" /id="U465" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.952047952047952" /psig="0.952047952047952" /xcortree=1034 /SigmaFactorBS="tgcctgaatgacatccagaatcgcttgtgtattttctgATTC TCttccgatgccaaaaACATAATATTCAATAGAGCctgctattccttgagagaaaagg g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 649663..649664 /Source="Nicolas_upshift_promotors" /id="U466" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.508491508491508" /psig="0.237762237762238" /xcortree=1461 /SigmaFactorBS="aaaataataaaccaatactgttttctcAAatggtatgtACTC CTTTGTTAAGTgggtttcgttcatctacagctattgtaacataatcggtacgggggtg a" /listShort="S207" /listLong="S208, groES, groEL, S209, S210, ydiM, S211, ydzU, ydzV, S212, S213, ydiO, ydiP" /label="promotor_-35" promotor_-10 649674..649688 /Source="Nicolas_upshift_promotors" /id="U466" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.508491508491508" /psig="0.237762237762238" /xcortree=1461 /SigmaFactorBS="aaaataataaaccaatactgttttctcAAatggtatgtACTC CTTTGTTAAGTgggtttcgttcatctacagctattgtaacataatcggtacgggggtg a" /listShort="S207" /listLong="S208, groES, groEL, S209, S210, ydiM, S211, ydzU, ydzV, S212, S213, ydiO, ydiP" /label="promotor_-10" upshifts 649696 /Source="Nicolas_upshifts" /id="U466" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.508491508491508" /psig="0.237762237762238" /xcortree=1461 /SigmaFactorBS="aaaataataaaccaatactgttttctcAAatggtatgtACTC CTTTGTTAAGTgggtttcgttcatctacagctattgtaacataatcggtacgggggtg a" /listShort="S207" /listLong="S208, groES, groEL, S209, S210, ydiM, S211, ydzU, ydzV, S212, S213, ydiO, ydiP" promotor_-10 complement(649701..649720) /Source="Nicolas_upshift_promotors" /id="U467" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.671328671328671" /psig=1 /xcortree=2332 /SigmaFactorBS="tcacgcttacatcattcttttccgctcccttttccgttagct TTTTCAcccccgtaccgatTATGTTACAATAGCTGTAGAtgaacgaaacccacttaac a" /listShort="ydiL, ydiK" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 649718..649826 /Source="Nicolas_S_feature" /locus_tag="new_649718_649826" /HighExp="S4, S5, H2O2, S3, S8, S6, Diami, Oxctl, G180, dia15" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="Sig-" /TUshortPSig="0.238" /TUlongSig="NA" /TUlongPSig="NA" /label="S207" upshifts complement(649721) /Source="Nicolas_upshifts" /id="U467" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.671328671328671" /psig=1 /xcortree=2332 /SigmaFactorBS="tcacgcttacatcattcttttccgctcccttttccgttagct TTTTCAcccccgtaccgatTATGTTACAATAGCTGTAGAtgaacgaaacccacttaac a" /listShort="ydiL, ydiK" /GFF_Attribute="listLong" promotor_-35 complement(649734..649739) /Source="Nicolas_upshift_promotors" /id="U467" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.671328671328671" /psig=1 /xcortree=2332 /SigmaFactorBS="tcacgcttacatcattcttttccgctcccttttccgttagct TTTTCAcccccgtaccgatTATGTTACAATAGCTGTAGAtgaacgaaacccacttaac a" /listShort="ydiL, ydiK" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 649800..649806 /Source="Nicolas_upshift_promotors" /id="U468" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.495504495504495" /psig="0.999000999001" /xcortree=2363 /SigmaFactorBS="tgatgtaagcgtgaaaaattttttatcttatcACTTGAAatt ggaagggagaTTCTTTATTATAAGAATTGTgttagcactctttagtgctgagtgctaa a" /listShort="S208, groES, groEL, S209, S210, ydiM, S211, ydzU, ydzV, S212, S213, ydiO, ydiP" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 649820..649839 /Source="Nicolas_upshift_promotors" /id="U468" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.495504495504495" /psig="0.999000999001" /xcortree=2363 /SigmaFactorBS="tgatgtaagcgtgaaaaattttttatcttatcACTTGAAatt ggaagggagaTTCTTTATTATAAGAATTGTgttagcactctttagtgctgagtgctaa a" /listShort="S208, groES, groEL, S209, S210, ydiM, S211, ydzU, ydzV, S212, S213, ydiO, ydiP" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 649828..649902 /Source="Nicolas_S_feature" /locus_tag="new_649828_649902" /HighExp="HiTm, Etha, dia15, Heat, C90, dia5, LoTm, Lbexp, H2O2, S1" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="Sig-" /TUlongPSig="0.238" /label="S208" upshifts 649828 /Source="Nicolas_upshifts" /id="U468" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.495504495504495" /psig="0.999000999001" /xcortree=2363 /SigmaFactorBS="tgatgtaagcgtgaaaaattttttatcttatcACTTGAAatt ggaagggagaTTCTTTATTATAAGAATTGTgttagcactctttagtgctgagtgctaa a" /listShort="S208, groES, groEL, S209, S210, ydiM, S211, ydzU, ydzV, S212, S213, ydiO, ydiP" /GFF_Attribute="listLong" CDS 649903..650187 /gene="groES" /locus_tag="BSU_06020" /old_locus_tag="BSU06020" /function="16.6: Maintain" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:11407116, 17031040, 9303302" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11407116, 17031040, 9303302; Product type f: factor" /codon_start=1 /transl_table=11 /product="chaperonin small subunit" /protein_id="NP_388483.2" /db_xref="EnsemblGenomes-Gn:BSU06020" /db_xref="EnsemblGenomes-Tr:CAB12421" /db_xref="GOA:P28599" /db_xref="InterPro:IPR011032" /db_xref="InterPro:IPR018369" /db_xref="InterPro:IPR020818" /db_xref="InterPro:IPR037124" /db_xref="SubtiList:BG10422" /db_xref="UniProtKB/Swiss-Prot:P28599" /translation="MLKPLGDRVVIELVESEEKTASGIVLPDSAKEKPQEGKIVAAGS GRVLESGERVALEVKEGDRIIFSKYAGTEVKYEGTEYLILRESDILAVIG*" gene 649903..650187 /gene="groES" /locus_tag="BSU_06020" /old_locus_tag="BSU06020" CDS 650234..651868 /gene="groEL" /locus_tag="BSU_06030" /old_locus_tag="BSU06030" /function="16.6: Maintain" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:9303302, 11407116, 17031040, 17420574, 22268681" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9303302, 11407116, 17031040, 17420574, 22268681; Product type f: factor" /codon_start=1 /transl_table=11 /product="chaperonin large subunit" /protein_id="NP_388484.1" /db_xref="EnsemblGenomes-Gn:BSU06030" /db_xref="EnsemblGenomes-Tr:CAB12422" /db_xref="GOA:P28598" /db_xref="InterPro:IPR001844" /db_xref="InterPro:IPR002423" /db_xref="InterPro:IPR018370" /db_xref="InterPro:IPR027409" /db_xref="InterPro:IPR027410" /db_xref="InterPro:IPR027413" /db_xref="SubtiList:BG10423" /db_xref="UniProtKB/Swiss-Prot:P28598" /translation="MAKEIKFSEEARRAMLRGVDALADAVKVTLGPKGRNVVLEKKFG SPLITNDGVTIAKEIELEDAFENMGAKLVAEVASKTNDVAGDGTTTATVLAQAMIREG LKNVTAGANPVGVRKGMEQAVAVAIENLKEISKPIEGKESIAQVAAISAADEEVGSLI AEAMERVGNDGVITIEESKGFTTELEVVEGMQFDRGYASPYMVTDSDKMEAVLDNPYI LITDKKITNIQEILPVLEQVVQQGKPLLLIAEDVEGEALATLVVNKLRGTFNAVAVKA PGFGDRRKAMLEDIAVLTGGEVITEDLGLDLKSTQIAQLGRASKVVVTKENTTIVEGA GETDKISARVTQIRAQVEETTSEFDREKLQERLAKLAGGVAVIKVGAATETELKERKL RIEDALNSTRAAVEEGIVSGGGTALVNVYNKVAAVEAEGDAQTGINIVLRALEEPIRQ IAHNAGLEGSVIVERLKNEEIGVGFNAATGEWVNMIEKGIVDPTKVTRSALQNAASVA AMFLTTEAVVADKPEENGGGAGMPDMGGMGGMGGMM*" gene 650234..651868 /gene="groEL" /locus_tag="BSU_06030" /old_locus_tag="BSU06030" S_feature 651869..651961 /Source="Nicolas_S_feature" /locus_tag="new_651869_651961" /HighExp="HiTm, Etha, dia15, Heat, Diami, dia5, C90, S1, S2, H2O2" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="Sig-" /TUlongPSig="0.238" /label="S209" downshifts 651918 /Source="Nicolas_upshifts" /id="D292" /incds=0 /nref=228 /ntot=267 /MaxReadThrough="6.24882" /MaxDrop="5.77437" /score="-6.71161833" /energy="-16.3" /TU="U468" /idTUdmin="U466" /TUdmin=2112 /isTUend="FALSE" CDS complement(651956..652084) /gene="ydzTc" /locus_tag="BSU_06033" /old_locus_tag="BSU06033" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /pseudo /codon_start=1 /transl_table=11 /product="hypothetical protein; putative integrase (fragment); C-terminal part of YdzT; defective prophage 3" /translation="EAGVGIKEIQQQFGHSDINTTMDIYAHMTANMEKRSPNSLVN*" gene complement(651956..652084) /gene="ydzTc" /locus_tag="BSU_06033" /old_locus_tag="BSU06033" /pseudo S_feature 651963..653431 /Source="Nicolas_S_feature" /locus_tag="new_651963_653431" /HighExp="H2O2, Heat, dia15, Diami, S1, G135, G150, S2, G180, dia5" /AntisenseName="ydzT" /AntisenseCor="-2.9485116084752801E-2" /AntisenseRegPval="-0.2" /CDS_PredictionProba="0.23100000000000001" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="Sig-" /TUlongPSig="0.238" /label="S210" CDS complement(652087..652245) /gene="ydzT" /locus_tag="BSU_06034" /old_locus_tag="BSU06034" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /pseudo /codon_start=1 /transl_table=11 /product="hypothetical protein; putative integrase (fragment); internal part of YdzT" /db_xref="PSEUDO:CAX52563.1" /translation="MIYQDSSFIFEREDGHPQLRKVIETRLKRLLKKAGIKRMSPPTL LGIPIPPY*" gene complement(652087..652245) /gene="ydzT" /locus_tag="BSU_06034" /old_locus_tag="BSU06034" /pseudo CDS complement(652290..652418) /gene="ydzT" /locus_tag="BSU_06036" /old_locus_tag="BSU06036" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /pseudo /codon_start=1 /transl_table=11 /product="hypothetical protein; putative integrase (fragment); internal part of YdzT" /db_xref="PSEUDO:CAX52564.1" /translation="MISQVTKTLYTPNNQIEKYQLLTPKTTGSVDIVRIDETMSIY*" gene complement(652290..652418) /gene="ydzT" /locus_tag="BSU_06036" /old_locus_tag="BSU06036" /pseudo CDS complement(652511..652720) /gene="ydzT" /locus_tag="BSU_06037" /old_locus_tag="BSU06037" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function; Product type e : enzyme" /pseudo /codon_start=1 /transl_table=11 /product="hypothetical protein; putative integrase (fragment); internal part of YdzT" /db_xref="PSEUDO:CAX52565.1" /translation="MYEDRTLELNEQYSHNCLGGIHACGRMIFRKAKTQGIIKMNPTG DFQLPKKQQSIGKRGADTFSKARSI*" gene complement(652511..652720) /gene="ydzT" /locus_tag="BSU_06037" /old_locus_tag="BSU06037" /pseudo CDS complement(652713..653018) /gene="ydzTn" /locus_tag="BSU_06038" /old_locus_tag="BSU06038" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /pseudo /codon_start=1 /transl_table=11 /product="hypothetical protein; putative integrase (fragment); N-terminal part of YdzT; defective prophage 3" /db_xref="PSEUDO:CAX52566.1" /translation="MELSYLLGIDPLTKKRLEISKGRFKTKKEAPVAARHVELQNDNG TFIKESDMPFKTFAKGWLKIYNRSGVKISSVRASEKKMMHFIAVLGQYPISKTQKNV* " gene complement(652713..653018) /gene="ydzTn" /locus_tag="BSU_06038" /old_locus_tag="BSU06038" /pseudo CDS 653432..653812 /gene="ydiM" /locus_tag="BSU_06040" /old_locus_tag="BSU06040" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein; prophage 3 region" /protein_id="NP_388485.1" /db_xref="EnsemblGenomes-Gn:BSU06040" /db_xref="EnsemblGenomes-Tr:CAB12423" /db_xref="SubtiList:BG12785" /db_xref="UniProtKB/Swiss-Prot:O34672" /translation="MLSDNNFVSETLENVQYLLPGAKVIKLRGYSRAHKVYTIAKSPV EKWKVAAGLSGSEIAILIRKGHWIGASIPAGGIVIDIDDSKQGELVKGLLDAQNFHCH CIRTLMGGSLFLRITNMGKRKLNK*" gene 653432..653812 /gene="ydiM" /locus_tag="BSU_06040" /old_locus_tag="BSU06040" S_feature 653813..654070 /Source="Nicolas_S_feature" /locus_tag="new_653813_654070" /HighExp="H2O2, dia15, S1, Heat, G150, Diami, G135, G180, S2, Etha" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.1454" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="Sig-" /TUlongPSig="0.238" /label="S211" CDS 654071..654343 /gene="ydzU" /locus_tag="BSU_06048" /old_locus_tag="BSU06048" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein; prophage 3 region" /protein_id="YP_003097688.1" /db_xref="EnsemblGenomes-Gn:BSU06048" /db_xref="EnsemblGenomes-Tr:CAX52567" /db_xref="UniProtKB/Swiss-Prot:C0H3W7" /translation="MKAWKVEPYEISKAMELIYKYLLLDKKDFSLEEFYKLTIYAIKW KLEQAQFPLYLESTKKSHQNVIPQPFKIKGNVLYKTVIKNSGDFEE*" gene 654071..654343 /gene="ydzU" /locus_tag="BSU_06048" /old_locus_tag="BSU06048" CDS 654333..654692 /gene="ydzV" /locus_tag="BSU_06049" /old_locus_tag="BSU06049" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function; Product type h : extrachromosomal origin" /pseudo /codon_start=1 /transl_table=11 /product="conserved hypothetical protein; phage terminase (fragment); defective prophage 3" /db_xref="PSEUDO:CAX52568.1" /translation="MKNSSSWRVGVIHPFKKLSNIERNSVHYELASNDNGREKKDIVP ASVISPSGSCFSLADNGLVEKEGQKMKLTERQRRFCDFFTETRNTTEATRLAGNKGKN LNRVASQNLSKLDIQTI*" gene 654333..654692 /gene="ydzV" /locus_tag="BSU_06049" /old_locus_tag="BSU06049" /pseudo S_feature 654693..655136 /Source="Nicolas_S_feature" /locus_tag="new_654693_655136" /HighExp="H2O2, dia15, S1, G180, G135, G150, Heat, Diami, S2, Etha" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="Sig-" /TUlongPSig="0.238" /label="S212" CDS 654978..655193 /gene="ydiN" /locus_tag="BSU_06050" /old_locus_tag="BSU06050" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /pseudo /codon_start=1 /transl_table=11 /product="putative N-terminus of restriction enzyme; defective prophage 3" /db_xref="PSEUDO:SOX90546.1" /translation="MIKFSVILGMIRCSLTHITTKNTVNALKRMIYPKQKPSFFHEFK VLYKLLKKFCIKGIMIKNIRSCMGYFL*" gene 654978..655193 /gene="ydiN" /locus_tag="BSU_06050" /old_locus_tag="BSU06050" /pseudo promotor_-35 655123..655129 /Source="Nicolas_upshift_promotors" /id="U469" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.428571428571429" /psig="0.997002997002997" /xcortree=1874 /SigmaFactorBS="agcaaaaaccttcattctttcatgaatttaaagtattatata agcTACTGAAaaagttttgtataAAAGGTATAATGATAAAGAAcattcgttcttgtat g" /listShort="S213, ydiO, ydiP" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 655138..655222 /Source="Nicolas_S_feature" /locus_tag="new_655138_655222" /HighExp="Diami, H2O2, dia5, dia15, Salt, M40t45, G180, G150, G135, M40t90" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.997, 0.999" /TUlongSig="Sig-" /TUlongPSig="0.238" /label="S213" upshifts 655138 /Source="Nicolas_upshifts" /id="U469" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.428571428571429" /psig="0.997002997002997" /xcortree=1874 /SigmaFactorBS="agcaaaaaccttcattctttcatgaatttaaagtattatata agcTACTGAAaaagttttgtataAAAGGTATAATGATAAAGAAcattcgttcttgtat g" /listShort="S213, ydiO, ydiP" /GFF_Attribute="listLong" promotor_-10 655143..655162 /Source="Nicolas_upshift_promotors" /id="U469" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.428571428571429" /psig="0.997002997002997" /xcortree=1874 /SigmaFactorBS="agcaaaaaccttcattctttcatgaatttaaagtattatata agcTACTGAAaaagttttgtataAAAGGTATAATGATAAAGAAcattcgttcttgtat g" /listShort="S213, ydiO, ydiP" /GFF_Attribute="listLong" /label="promotor_-10" CDS 655223..656506 /gene="bsuMA" /locus_tag="BSU_06060" /old_locus_tag="BSU06060" /EC_number="2.1.1.37" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:11751814, 12682299, 16014871, 16267290" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11751814, 12682299, 16014871, 16267290; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="DNA-methyltransferase (cytosine-specific); prophage 3 region" /protein_id="NP_388487.1" /db_xref="EnsemblGenomes-Gn:BSU06060" /db_xref="EnsemblGenomes-Tr:CAB12425" /db_xref="GOA:O34939" /db_xref="InterPro:IPR001525" /db_xref="InterPro:IPR029063" /db_xref="SubtiList:BG12787" /db_xref="UniProtKB/Swiss-Prot:O34939" /translation="MTNFILNENKQLSLAIEDENIENFYIDGTDLVRKIIRRSGSGVT SRVPVLSTQDLENKNLHELYDESWLRMKNRPNTELTTESINIADLFSGCGGLSLGVWE ACRALGINPRFSFACDLNEAALSVYEKNFSPDFSLNESIEKHINGELGAPLTVEEQRI KDKVKKIDFILAGPPCQGHSDLNNHTRRKDPRNALLMRVSRVIELFQPSSVLVENVPG IIHDKSGSFKEFKNHLKTQGYYFDEIVLNAEKLGVSQARRRYFIFASKTPVSSLNQIN EFYSTNSRPISWAISDLVENVGDDIFNTASEHSLENKRRIEYLFENNLFELPNSERPD CHRLKPHSYKSVYGRMYWDRPAPTITRGFGSTGQGRFVHSLLKRTITPHEAARIQFFP DFFNFGDLRRRQYQDVIGNAVPSKLSYLLALHQLR*" gene 655223..656506 /gene="bsuMA" /locus_tag="BSU_06060" /old_locus_tag="BSU06060" CDS 656528..657697 /gene="bsuMB" /locus_tag="BSU_06070" /old_locus_tag="BSU06070" /EC_number="2.1.1.37" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:11751814, 16267290" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11751814, 16267290; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="DNA-methyltransferase (cytosine-specific); defective prophage 3" /protein_id="NP_388488.1" /db_xref="EnsemblGenomes-Gn:BSU06070" /db_xref="EnsemblGenomes-Tr:CAB12426" /db_xref="GOA:O34680" /db_xref="InterPro:IPR001525" /db_xref="InterPro:IPR018117" /db_xref="InterPro:IPR029063" /db_xref="InterPro:IPR031303" /db_xref="SubtiList:BG12788" /db_xref="UniProtKB/Swiss-Prot:O34680" /translation="MKVVSLFSGIGGIELGLHQSGHTTEIFCEVDPLAKAVLSKNFPG VKIEDDINEIRELPSCDLVAAGFPCQDLSQAGGKEGIDGSRSGLVKKLFELIEKKEHA NRPPWILIENVPYMLRLNRGKAMSYLTSVLSELGYTWAYRTVDARCFGLPQRRHRVIL LASLFEDPKDVIFSQDHSEPDLDGKPSVVDHSNYYGFYWTEGLRGVGWAREAVPPIKC GSSVGIASPPAVWSPYEDIVGTINIRDAERLQGFPEDWTNITTETGKDIKEGARWRLV GNAVSVRVSKWIGENLSQPKGSISDFEGELVTKTWPSAAWGYGDKKYKVPVSKWVANT EQIAISEFLNHPLKPLSARALNGFLGRAARCTNVNYSDEFINSLERCKDRQLQKV*" gene 656528..657697 /gene="bsuMB" /locus_tag="BSU_06070" /old_locus_tag="BSU06070" downshifts 657703 /Source="Nicolas_upshifts" /id="D293" /incds=0 /nref=237 /ntot=257 /MaxReadThrough="2.10319" /MaxDrop="7.17612" /score="34.7238204" /energy="-15.1" /TU="NA" /idTUdmin="U468" /TUdmin=0 /isTUend="TRUE" downshifts complement(657777) /Source="Nicolas_upshifts" /id="D294" /incds=0 /nref=26 /ntot=183 /MaxReadThrough="2.48582" /MaxDrop="4.12737" /score="11.0887998" /energy="-15.6" /TU="NA" /idTUdmin="U471" /TUdmin=2 /isTUend="TRUE" CDS complement(657793..658062) /gene="ydzWc" /locus_tag="BSU_06073" /old_locus_tag="BSU06073" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function; Product type e : enzyme" /pseudo /codon_start=1 /transl_table=11 /product="putative phosphoglucomutase; C-terminal part of YdzW; defective prophage 3" /db_xref="PSEUDO:CAX52569.1" /translation="MNLASFGSVKVTTVEDYLTGIERLWKALRNSWAFHSQMFLNVFL KSDPWMCLRLSGTEPKIKFYFRVDESLAETRNPQRIEKEFMELVE*" gene complement(657793..658062) /gene="ydzWc" /locus_tag="BSU_06073" /old_locus_tag="BSU06073" /pseudo CDS complement(658019..658189) /gene="ydzWmc" /locus_tag="BSU_06074" /old_locus_tag="BSU06074" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function; Product type e : enzyme" /pseudo /codon_start=1 /transl_table=11 /product="putative phosphoglucomutase; internal part of YdzW" /translation="MSLYEALLSIEEYGYFQEGLRSLTLKGKEGAELIQQTLAAFRSE FGQLWFRQGYHC*" gene complement(658019..658189) /gene="ydzWmc" /locus_tag="BSU_06074" /old_locus_tag="BSU06074" /pseudo CDS complement(658120..658605) /gene="ydzWmb" /locus_tag="BSU_06076" /old_locus_tag="BSU06076" /EC_number="5.4.2.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function; Product type e : enzyme" /pseudo /codon_start=1 /transl_table=11 /product="putative phosphoglucomutase; internal part of YdzW" /translation="LIATDPDADRLGIAVKNENGEYTVLTGNQTEPLLLHYILTQIKK KGTLPSNGIVLKTIVTSELGREVATSFRVETIGVLTGFKFIARKINGYYKTGEHNFLF GYEESYGYLIGDFVRDKDAVQTDVLAVEVCAYYKKKGFHYTKLSLVLKNMATFRKACA H*" gene complement(658120..658605) /gene="ydzWmb" /locus_tag="BSU_06076" /old_locus_tag="BSU06076" /pseudo promotor_-35 658470..658473 /Source="Nicolas_upshift_promotors" /id="U470" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.563436563436563" /psig="0.997002997002997" /xcortree=3091 /SigmaFactorBS="aatcgttttaagaacgatcccattagatggaagtgttcCTTT cttttttatttgggTTAAGATATAGTGGAGCAGAagtggctcggtttgatttccggtt a" /listShort="S214" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 658488..658507 /Source="Nicolas_upshift_promotors" /id="U470" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.563436563436563" /psig="0.997002997002997" /xcortree=3091 /SigmaFactorBS="aatcgttttaagaacgatcccattagatggaagtgttcCTTT cttttttatttgggTTAAGATATAGTGGAGCAGAagtggctcggtttgatttccggtt a" /listShort="S214" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 658492 /Source="Nicolas_upshifts" /id="U470" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.563436563436563" /psig="0.997002997002997" /xcortree=3091 /SigmaFactorBS="aatcgttttaagaacgatcccattagatggaagtgttcCTTT cttttttatttgggTTAAGATATAGTGGAGCAGAagtggctcggtttgatttccggtt a" /listShort="S214" /GFF_Attribute="listLong" S_feature 658495..658899 /Source="Nicolas_S_feature" /locus_tag="new_658495_658899" /HighExp="Cold, LoTm, C30, T0.30H, HPh, Gly, S0, LPh, UNK1, T1.0H" /AntisenseName="ydzW" /AntisenseCor="0.298083403528066" /AntisenseRegPval="-6.2" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.997" /TUlongSig="NA" /TUlongPSig="NA" /label="S214" CDS complement(658615..658758) /gene="ydzW" /locus_tag="BSU_06077" /old_locus_tag="BSU06077" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function; Product type e : enzyme" /pseudo /codon_start=1 /transl_table=11 /product="putative phosphomannomutase; internal part of YdzW" /db_xref="PSEUDO:CAX52572.1" /translation="MALAAMNYKHVAVGKEQEQPALCFPLSPVQMLKNMPRLSWPSGK AAN*" gene complement(658615..658758) /gene="ydzW" /locus_tag="BSU_06077" /old_locus_tag="BSU06077" /pseudo CDS complement(658813..659010) /gene="ydzW" /locus_tag="BSU_06078" /old_locus_tag="BSU06078" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function; Product type e : enzyme" /pseudo /codon_start=1 /transl_table=11 /product="putative phosphoglucomutase; internal part of YdzW" /translation="FAVRHLHGFAGIVVTASHNPPEYNGYKVYGPDGGQLPPSKGPDQ NIAQRWTRHTLNYFRKLKYLR*" gene complement(658813..659010) /gene="ydzW" /locus_tag="BSU_06078" /old_locus_tag="BSU06078" /pseudo CDS complement(658968..659129) /gene="ydzWma" /locus_tag="BSU_06079" /old_locus_tag="BSU06079" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function; Product type e : enzyme" /pseudo /codon_start=1 /transl_table=11 /product="putative phosphomannomutase; internal part of YdzW" /translation="DIYTLRKVSAGLAAFIMEAARTLASSAYVFESLRPTTVLSLQYV TFMVLPVLL*" gene complement(658968..659129) /gene="ydzWma" /locus_tag="BSU_06079" /old_locus_tag="BSU06079" /pseudo CDS complement(659114..659221) /gene="ydzWn" /locus_tag="BSU_06083" /old_locus_tag="BSU06083" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function; Product type e : enzyme" /pseudo /codon_start=1 /transl_table=11 /product="putative phosphomannomutase; N-terminal part of YdzW; defective prophage 3" /translation="MRKTWKMLFIRNLGYGTGGMRGEIGAGTNRMTSIR*" gene complement(659114..659221) /gene="ydzWn" /locus_tag="BSU_06083" /old_locus_tag="BSU06083" /pseudo S_feature complement(659222..659341) /Source="Nicolas_S_feature" /locus_tag="new_659222_659341_c" /HighExp="LoTm, T4.0H, BC, T5.0H, M9-stat, T3.30H, S2, T3.0H, Sw, B60" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.993, 0.977" /TUlongSig="NA" /TUlongPSig="NA" /label="S215" promotor_-10 complement(659332..659351) /Source="Nicolas_upshift_promotors" /id="U471" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.321678321678322" /psig="0.993006993006993" /xcortree=2932 /SigmaFactorBS="caagagcactcgatttatgtcagaaagtcgtCGTTcgaaaac ctctagacTATATTATAATGAACAATAAtgttattttattgtaggtcaatcataggct g" /listShort="S215, ydzW, ydzW, ydzW, ydzW, ydzW, ydzW, ydzW" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(659341) /Source="Nicolas_upshifts" /id="U471" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.321678321678322" /psig="0.993006993006993" /xcortree=2932 /SigmaFactorBS="caagagcactcgatttatgtcagaaagtcgtCGTTcgaaaac ctctagacTATATTATAATGAACAATAAtgttattttattgtaggtcaatcataggct g" /listShort="S215, ydzW, ydzW, ydzW, ydzW, ydzW, ydzW, ydzW" /GFF_Attribute="listLong" S_feature complement(659343..659558) /Source="Nicolas_S_feature" /locus_tag="new_659343_659558_c" /HighExp="LBGstat, T0.30H, M9-stat, T1.0H, T1.30H, Lbtran, T2.0H, LBGtran, T2.30H, Diami" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.11296" /TUshortSig="SigA" /TUshortPSig="0.977" /TUlongSig="NA" /TUlongPSig="NA" /label="S216" promotor_-35 complement(659367..659370) /Source="Nicolas_upshift_promotors" /id="U471" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.321678321678322" /psig="0.993006993006993" /xcortree=2932 /SigmaFactorBS="caagagcactcgatttatgtcagaaagtcgtCGTTcgaaaac ctctagacTATATTATAATGAACAATAAtgttattttattgtaggtcaatcataggct g" /listShort="S215, ydzW, ydzW, ydzW, ydzW, ydzW, ydzW, ydzW" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 659535..659541 /Source="Nicolas_upshift_promotors" /id="U473" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.857142857142857" /psig=1 /xcortree=2344 /SigmaFactorBS="taccaattcgatatttgaattggtctctcaaacaaTTCCATC ctctttatttatTATGATACAATTATATTAATtagaaaatacatacatattagcttgt g" /listShort="ydiR, ydiS, ydjA, S217, S218, ydjB, S219, ydjC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(659544..659563) /Source="Nicolas_upshift_promotors" /id="U472" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.458541458541459" /psig="0.977022977022977" /xcortree=3186 /SigmaFactorBS="tttacccccataaaatcacacaagctaatatgtatgtATTTt ctaattaatataaTTGTATCATAATAAATAAAGaggatggaattgtttgagagaccaa t" /listShort="S216, S215, ydzW, ydzW, ydzW, ydzW, ydzW, ydzW" /listLong="ydzW" /label="promotor_-10" promotor_-10 659554..659573 /Source="Nicolas_upshift_promotors" /id="U473" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.857142857142857" /psig=1 /xcortree=2344 /SigmaFactorBS="taccaattcgatatttgaattggtctctcaaacaaTTCCATC ctctttatttatTATGATACAATTATATTAATtagaaaatacatacatattagcttgt g" /listShort="ydiR, ydiS, ydjA, S217, S218, ydjB, S219, ydjC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(659558) /Source="Nicolas_upshifts" /id="U472" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.458541458541459" /psig="0.977022977022977" /xcortree=3186 /SigmaFactorBS="tttacccccataaaatcacacaagctaatatgtatgtATTTt ctaattaatataaTTGTATCATAATAAATAAAGaggatggaattgtttgagagaccaa t" /listShort="S216, S215, ydzW, ydzW, ydzW, ydzW, ydzW, ydzW" /listLong="ydzW" upshifts 659560 /Source="Nicolas_upshifts" /id="U473" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.857142857142857" /psig=1 /xcortree=2344 /SigmaFactorBS="taccaattcgatatttgaattggtctctcaaacaaTTCCATC ctctttatttatTATGATACAATTATATTAATtagaaaatacatacatattagcttgt g" /listShort="ydiR, ydiS, ydjA, S217, S218, ydjB, S219, ydjC" /GFF_Attribute="listLong" promotor_-35 complement(659578..659581) /Source="Nicolas_upshift_promotors" /id="U472" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.458541458541459" /psig="0.977022977022977" /xcortree=3186 /SigmaFactorBS="tttacccccataaaatcacacaagctaatatgtatgtATTTt ctaattaatataaTTGTATCATAATAAATAAAGaggatggaattgtttgagagaccaa t" /listShort="S216, S215, ydzW, ydzW, ydzW, ydzW, ydzW, ydzW" /listLong="ydzW" /label="promotor_-35" CDS 659623..660564 /gene="bsuRA" /locus_tag="BSU_06090" /old_locus_tag="BSU06090" /EC_number="3.1.21.4" /function="16.8: Protect" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:11751814, 15728999" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11751814, 15728999; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="type-2 restriction enzyme BsuMI component BsuRA (YdiR); prophage region 3" /protein_id="NP_388490.1" /db_xref="EnsemblGenomes-Gn:BSU06090" /db_xref="EnsemblGenomes-Tr:CAB12428" /db_xref="GOA:O35025" /db_xref="SubtiList:BG12790" /db_xref="UniProtKB/Swiss-Prot:O35025" /translation="MTFIKRLEDAYETLLGNYPAGVSSTSTSKYNEIRKIVSEAFLIG ENEVYVTGTSRRISNLDTRFAQGNQRNKHTRMAVAFISIPSVDDSELDELIIRTRNSA ITTSSKFCNGEERGTIFDGILLFLVFEGETKVYPLAFLVFENDFELKEKAEELIPGIE LKEYPRANQSPAQENNKSAKNEDEESAKSYVVFLDIEEDGSIVEFVEDKDKTYRIGDM IWTASHTNGSSAITRRLEVIEVVENLVVCKIKHKYNEPVDKNSLLKFVNIEQDLISFL DLHPNVQNGSEGFVSGDIVDENATTSSDDLPEDFENN*" gene 659623..660564 /gene="bsuRA" /locus_tag="BSU_06090" /old_locus_tag="BSU06090" CDS 660596..661627 /gene="bsuRB" /locus_tag="BSU_06100" /old_locus_tag="BSU06100" /EC_number="3.1.21.4" /function="16.8: Protect" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:11751814" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11751814; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="type-2 restriction enzyme BsuMI component BsuRB (YdiS); prophage region 3" /protein_id="NP_388491.1" /db_xref="EnsemblGenomes-Gn:BSU06100" /db_xref="EnsemblGenomes-Tr:CAB12429" /db_xref="GOA:O34885" /db_xref="InterPro:IPR011704" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG12791" /db_xref="UniProtKB/Swiss-Prot:O34885" /translation="MEISKQTSDLLLSLEKKKGTLPKFSVLRSIPRNRIIYGAPGTGK SNYLEREVGKIFGDNPYVFTRVTFFPGYTYGQFIGAYKPVPIYKKLSGEEEIFSSNFR DKMENFEPMIDYQFVPGPFIDVLIKALKNRYTNFILIIEEINRANAASVFGDIFQLLD RNKNGESDYPVTFGPDIMNYLARNGIKDEMIKLPSNFFIWATMNNADQGVLPLDTAFK RRWSFEYLELEKYRKAVDSWKLSLRYKGHNKVIMWNDFRDIINKRLKGKVPEDKLLGP FFLKESELWNQNVFKNKLLYYLKEDVFKHNPTIDFLNASTFSELIEKYDGSDNIFTFD IDDSSFVSD*" gene 660596..661627 /gene="bsuRB" /locus_tag="BSU_06100" /old_locus_tag="BSU06100" CDS 661630..663027 /gene="bsuRC" /locus_tag="BSU_06110" /old_locus_tag="BSU06110" /EC_number="3.1.21.4" /function="16.5: Explore" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:11751814" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11751814; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="type-2 restriction enzyme BsuMI component BsuRC (YdjA); prophage region 3" /protein_id="NP_388492.1" /db_xref="EnsemblGenomes-Gn:BSU06110" /db_xref="EnsemblGenomes-Tr:CAB12430" /db_xref="GOA:O34303" /db_xref="InterPro:IPR018579" /db_xref="SubtiList:BG12792" /db_xref="UniProtKB/Swiss-Prot:O34303" /translation="MDKSSKFFFEDQKYNKERIVRVLGGNLALLKSKGILYEDSSGDL IFNYVGVISNGRNVIFILPKYCNRHLDEHSKRTLFNKLLKIFKKYSGLNKSRESDYFV SELDSDEVSDFMIADYLLNDFSLNGYYQKKFTEYEIDGEGIIDWSKTVNEITPVFSKG VPYYFSTYNEVVQKDEYHLIVKIHKWALSKYFNDFGVILGFTGLEFDKSCDGMKILDY ADFFGSVINKEIVNTYVDRDVKLLKALKTAIDREENQFSKRPTLSLYGTKYFHRVWEE VCKTVFSHVNEYVKKISRPNWINFTDIEVNKEKKTLEPDIIKAFEYRSKEYFLILDAK YYNINFDGKKLEGNPGVEDITKQLLYDKALEKLSRGKTKHNAFLFPSSNSTNTFKVFG SVDFDFLDIAAVTLVYISAEQVYNLYLENKTFSTDDLFKFVSEINKSKKRHSVITSTL YGNMFLFTKRLSDKN*" gene 661630..663027 /gene="bsuRC" /locus_tag="BSU_06110" /old_locus_tag="BSU06110" S_feature 663028..663224 /Source="Nicolas_S_feature" /locus_tag="new_663028_663224" /HighExp="Lbtran, C90, M40t45, HPh, M0t45, LBGtran, aero, Lbstat, BI, Mt0" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S217" downshifts 663181 /Source="Nicolas_upshifts" /id="D295" /incds=0 /nref=3 /ntot=131 /MaxReadThrough="5.36465" /MaxDrop="3.0162" /score="7.16368756" /energy="-18.1" /TU="U473" /idTUdmin="U473" /TUdmin="-1364" /isTUend="FALSE" downshifts 663243 /Source="Nicolas_upshifts" /id="D296" /incds=0 /nref=5 /ntot=69 /MaxReadThrough="4.58628" /MaxDrop="3.49698" /score="7.16368756" /energy="-18.1" /TU="U473" /idTUdmin="U473" /TUdmin="-1302" /isTUend="FALSE" S_feature 663288..663600 /Source="Nicolas_S_feature" /locus_tag="new_663288_663600" /HighExp="dia15, Diami, H2O2, Paraq, dia5, LBGstat, G180, Oxctl, LBGexp, HPh" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S218" CDS 663601..663936 /gene="ydjB" /locus_tag="BSU_06120" /old_locus_tag="BSU06120" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein; prophage region 3" /protein_id="NP_388493.1" /db_xref="EnsemblGenomes-Gn:BSU06120" /db_xref="EnsemblGenomes-Tr:CAB12431" /db_xref="SubtiList:BG12793" /db_xref="UniProtKB/Swiss-Prot:O34778" /translation="MLNIKSDRIMTSDPQKFTVDGVRFFQQYLNKIRPDAMEIDNLII NSDIIKEDLIVHVSKMIDRLALYDLHRKRSIDKHFSAAFTVDINDREEFYSANIADVS IDLNESSGV*" gene 663601..663936 /gene="ydjB" /locus_tag="BSU_06120" /old_locus_tag="BSU06120" S_feature 663937..664318 /Source="Nicolas_S_feature" /locus_tag="new_663937_664318" /HighExp="H2O2, dia15, G135, Paraq, G180, G150, Diami, Oxctl, LBGexp, HPh" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S219" CDS 664319..664669 /gene="ydjC" /locus_tag="BSU_06130" /old_locus_tag="BSU06130" /function="18: Unknown function" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein; prophage region 3" /protein_id="NP_388494.1" /db_xref="EnsemblGenomes-Gn:BSU06130" /db_xref="EnsemblGenomes-Tr:CAB12432" /db_xref="InterPro:IPR029058" /db_xref="SubtiList:BG12794" /db_xref="UniProtKB/Swiss-Prot:O34715" /translation="MVSIFYANRLSYSIWNTIPGKYIREELEQNGVTYNELIKYWDIT DPSQALPKVNKDNVLLISAKHDQYIDLKDADYLWESWGRPTRYVYNCGHSGIVLCRKK LANDTLSFIREKLV*" gene 664319..664669 /gene="ydjC" /locus_tag="BSU_06130" /old_locus_tag="BSU06130" downshifts 664545 /Source="Nicolas_upshifts" /id="D297" /incds=1 /nref=1 /ntot=71 /MaxReadThrough="1.89703" /MaxDrop="2.58458" /score="-4.72838456" /energy="-13.9" /TU="NA" /idTUdmin="U473" /TUdmin=0 /isTUend="TRUE" CDS complement(664775..667264) /gene="gutR" /locus_tag="BSU_06140" /old_locus_tag="BSU06140" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11118449, 11390381, 12897001" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11118449, 11390381, 12897001; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator of the glucitol operon" /protein_id="NP_388495.1" /db_xref="EnsemblGenomes-Gn:BSU06140" /db_xref="EnsemblGenomes-Tr:CAB12433" /db_xref="GOA:P39143" /db_xref="InterPro:IPR002182" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR011990" /db_xref="InterPro:IPR013026" /db_xref="InterPro:IPR019734" /db_xref="InterPro:IPR024123" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG10178" /db_xref="UniProtKB/Swiss-Prot:P39143" /translation="MAELENRKQFAQMLAPGVKTLKLHPDYKVRRKKNEKTGQSYIDK IALQLGVSPNTIKSWIGQMGANYIPGRIDDGKLFGMIWIILEKTDLDIEWLTDLLEAT TIPVIKPALPVWAASCLKKAKILRKDGLFGAPSEGEIENVVKRLFHDRPGQETNALTE QPITHNLPSRWSGRFIGRSFDMEAIRQWMLSPSPVCLITGWAGMGKTTIALEAAYSCV DDTSVWPAFNSIIWVSADWKGLSFSDFLNTIAYQLGRKEQIDKSINVKRFVVRNALAN YTREKPILLIVDSIDTAERDIHEFITSLPQGVKVLLTARENVKQTYRESFGEMTAIQL SGLDQTDAHEFFQQEVHHCLQTCNLPRKREKLEQLLHLSSDLKNEFISATAGNPKAMA LSIAYMSDDDIPAQQLIHELGKAGYSLLELFEFLFGRTWDRCNEDTRKLWQTLCFFSK PPDEKSLAAAAGLDARRFHYAMEQMRSYALIQPERSQGRTQYLAHQTVVAYGEQHLSE QHEYEKEARNRWAHYYIDYAETHLKREQPNSIYWSYLLGRNLDQMKQEWPNILKVIQW ASETEQKEILIELITRISHFLSRINLPLRIEYGRKAADAAHHLGQHTREAYFRIDTSG WALMEVNDLDGALQQIEAGLKILEQSDAHDAYDLKVWGHALKARLFLKDGQQEKAETI LNEIENQPISPTIQHRVLLVRGDLSFARGYHVEAIQLYEAANEISSTYGGEKTIEAYF NLGVAYVKCDQFEKAEEAFEQMLYDKHNANQVELIYYHYGMAQLLYRKGEKTKAVESN QKAIRLIDSWEPAIGIRGEVERLARATKENE*" gene complement(664775..667264) /gene="gutR" /locus_tag="BSU_06140" /old_locus_tag="BSU06140" downshifts complement(664797) /Source="Nicolas_upshifts" /id="D298" /incds=0 /nref=56 /ntot=209 /MaxReadThrough="0.69715" /MaxDrop="4.256" /score="0.285109352" /energy="-13.9" /TU="NA" /idTUdmin="U474" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(667278..667297) /Source="Nicolas_upshift_promotors" /id="U474" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.573426573426573" /psig="0.995004995004995" /xcortree=2305 /SigmaFactorBS="ctttcctgctgtataaaaggacagcggcactgtacttttatt ttttCATATACAaaaaacgctggatTGATAAAATAGTACTAATAGgaggtgcaggctt a" /listShort="gutR" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(667304) /Source="Nicolas_upshifts" /id="U474" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.573426573426573" /psig="0.995004995004995" /xcortree=2305 /SigmaFactorBS="ctttcctgctgtataaaaggacagcggcactgtacttttatt ttttCATATACAaaaaacgctggatTGATAAAATAGTACTAATAGgaggtgcaggctt a" /listShort="gutR" /GFF_Attribute="listLong" promotor_-35 complement(667311..667318) /Source="Nicolas_upshift_promotors" /id="U474" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.573426573426573" /psig="0.995004995004995" /xcortree=2305 /SigmaFactorBS="ctttcctgctgtataaaaggacagcggcactgtacttttatt ttttCATATACAaaaaacgctggatTGATAAAATAGTACTAATAGgaggtgcaggctt a" /listShort="gutR" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 667367..667368 /Source="Nicolas_upshift_promotors" /id="U475" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.481518481518482" /psig="0.848151848151848" /xcortree=335 /SigmaFactorBS="aataaaagtacagtgccgctgtccttttatacagcaggaaag gcTGttgaacgtgttaaaaAGCAGATAAAATGGGGGCAGtaacagagaaaacaaaaat g" /listShort="S220, gutB, gutP, ydjE" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 667383..667465 /Source="Nicolas_S_feature" /locus_tag="new_667383_667465" /HighExp="Lbstat, BI, M40t90, Mt0, M0t90, dia5, dia0, Lbexp, Lbtran, LBGtran" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.848" /TUlongSig="NA" /TUlongPSig="NA" /label="S220" upshifts 667383 /Source="Nicolas_upshifts" /id="U475" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.481518481518482" /psig="0.848151848151848" /xcortree=335 /SigmaFactorBS="aataaaagtacagtgccgctgtccttttatacagcaggaaag gcTGttgaacgtgttaaaaAGCAGATAAAATGGGGGCAGtaacagagaaaacaaaaat g" /listShort="S220, gutB, gutP, ydjE" /GFF_Attribute="listLong" promotor_-10 667384..667403 /Source="Nicolas_upshift_promotors" /id="U475" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.481518481518482" /psig="0.848151848151848" /xcortree=335 /SigmaFactorBS="aataaaagtacagtgccgctgtccttttatacagcaggaaag gcTGttgaacgtgttaaaaAGCAGATAAAATGGGGGCAGtaacagagaaaacaaaaat g" /listShort="S220, gutB, gutP, ydjE" /GFF_Attribute="listLong" /label="promotor_-10" CDS 667466..668527 /gene="gutB" /locus_tag="BSU_06150" /old_locus_tag="BSU06150" /EC_number="1.1.1.14" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:1460002, 8195086, 8195087, 12897001, 19784641" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1460002, 8195086, 8195087, 12897001, 19784641; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="glucitol (sorbitol) dehydrogenase" /protein_id="NP_388496.1" /db_xref="EnsemblGenomes-Gn:BSU06150" /db_xref="EnsemblGenomes-Tr:CAB12434" /db_xref="GOA:Q06004" /db_xref="InterPro:IPR002328" /db_xref="InterPro:IPR011032" /db_xref="InterPro:IPR013149" /db_xref="InterPro:IPR013154" /db_xref="InterPro:IPR020843" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG10177" /db_xref="UniProtKB/Swiss-Prot:Q06004" /translation="MTHTVPQNMKAAVMHNTREIKIETLPVPDINHDEVLIKVMAVGI CGSDLHYYTNGRIGNYVVEKPFILGHECAGEIAAVGSSVDQFKVGDRVAVEPGVTCGR CEACKEGRYNLCPDVQFLATPPVDGAFVQYIKMRQDFVFLIPDSLSYEEAALIEPFSV GIHAAARTKLQPGSTIAIMGMGPVGLMAVAAAKAFGAGTIIVTDLEPLRLEAAKKMGA THIINIREQDALEEIKTITNDRGVDVAWETAGNPAALQSALASVRRGGKLAIVGLPSQ NEIPLNVPFIADNEIDIYGIFRYANTYPKGIEFLASGIVDTKHLVTDQYSLEQTQDAM ERALQFKNECLKVMVYPNR*" gene 667466..668527 /gene="gutB" /locus_tag="BSU_06150" /old_locus_tag="BSU06150" CDS 668601..669992 /gene="gutP" /locus_tag="BSU_06160" /old_locus_tag="BSU06160" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); PubMedId: 12897001, 22720735; Product type t: transporter" /codon_start=1 /transl_table=11 /product="H+-glucitol symporter; prophage region 3" /protein_id="NP_388497.1" /db_xref="EnsemblGenomes-Gn:BSU06160" /db_xref="EnsemblGenomes-Tr:CAB12435" /db_xref="GOA:O34368" /db_xref="InterPro:IPR001927" /db_xref="InterPro:IPR018043" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12795" /db_xref="UniProtKB/Swiss-Prot:O34368" /translation="MIGTEKVTALKAKHQSKSSTGLSWFERIGYGFGDMSYNIIFQFV NAYLLFYYTDVGGIQPAVIATLFLVVRVLDAIFDPIMGLILDKTNTRWGKARPYLLWV AFPFALFTFLCFTTPHFGETGNMVYAYVTYILLGMSFSMQTIPVNSLTGRMTNSVEER TVLTTTRMILVYIGILLSISCATPLATAIGGEDQAFGFQMTALIYAAVSIVLNLFSFF TVRERIQPKKRKKQGIKKTLSVLFKNKPLLMLISSFLAFAIGFNIKLSTMVYYFTYNV NHKEFVFMGTVLFFGAALISNLFIPFFSEKWGRKQVMIITAALSLISYAGLHFTPYSS IPLIFIWLFASGFFTTPLNTLAWGMVADCVDYAEWKTGIRADGVVISSMSFINKLGVA LAGSFSAIYLGIAGYVANTDQTVASLNAIKNMNALIPGFFILLSIILIAFYPLTEKRY KHIISELEQRSAR*" gene 668601..669992 /gene="gutP" /locus_tag="BSU_06160" /old_locus_tag="BSU06160" promotor_-35 670019..670026 /Source="Nicolas_upshift_promotors" /id="U476" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.871128871128871" /psig="0.997002997002997" /xcortree=489 /SigmaFactorBS="cgagataaatagatgtaaaatttttaatattcaaTGTTGTAT ttatggcaaaaagTAATATACTGAGACTGTAATctagactttataaatgagtgtgata a" /listShort="ydjE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 670040..670059 /Source="Nicolas_upshift_promotors" /id="U476" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.871128871128871" /psig="0.997002997002997" /xcortree=489 /SigmaFactorBS="cgagataaatagatgtaaaatttttaatattcaaTGTTGTAT ttatggcaaaaagTAATATACTGAGACTGTAATctagactttataaatgagtgtgata a" /listShort="ydjE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 670045 /Source="Nicolas_upshifts" /id="U476" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.871128871128871" /psig="0.997002997002997" /xcortree=489 /SigmaFactorBS="cgagataaatagatgtaaaatttttaatattcaaTGTTGTAT ttatggcaaaaagTAATATACTGAGACTGTAATctagactttataaatgagtgtgata a" /listShort="ydjE" /GFF_Attribute="listLong" CDS 670087..671049 /gene="ydjE" /locus_tag="BSU_06170" /old_locus_tag="BSU06170" /EC_number="2.7.1.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 26483775, 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative sugar kinase (ribokinase family); prophage region 3" /protein_id="NP_388498.1" /db_xref="EnsemblGenomes-Gn:BSU06170" /db_xref="EnsemblGenomes-Tr:CAB12436" /db_xref="GOA:O34768" /db_xref="InterPro:IPR002173" /db_xref="InterPro:IPR011611" /db_xref="InterPro:IPR029056" /db_xref="SubtiList:BG12796" /db_xref="UniProtKB/Swiss-Prot:O34768" /translation="MRSHSVVCIGELLIDFFCTDVDVDLMEGRQFLKSAGGAPANVSA AIAKLGGDAAFSGKVGKDPFGYFLKRTLDAVHVDTSMLVMDEKAPTTLAFVSLKQNGE RDFVFNRGADALFTLEDIDQEKLNEAKILHFGSATALLSDPFCSAYLRLMSIAKDNGQ FISFDPNYREDLWRGRVSEFVSVAKKAIAVSDFVKVSDEELEIISGVKDHEKGVAILH EIGANIVAVTLGKSGTLLSNGKDREIIPSIPVTSIDSTGAGDAFVGAALYQLANTDQI QSVDADFVKLREIVAFANKVGALVCTKIGAIDALPSLDEIGVSL*" gene 670087..671049 /gene="ydjE" /locus_tag="BSU_06170" /old_locus_tag="BSU06170" downshifts 671034 /Source="Nicolas_upshifts" /id="D299" /incds=0 /nref=86 /ntot=213 /MaxReadThrough="2.99546" /MaxDrop="4.52045" /score="16.4550614" /energy="-14" /TU="NA" /idTUdmin="U475" /TUdmin="-1" /isTUend="TRUE" promotor_-35 671174..671183 /Source="Nicolas_upshift_promotors" /id="U477" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=1663 /SigmaFactorBS="agttgtatattttttgtttgaaatgtcattttttattaaaaa agTGAAACTTTTaacgataataaaTAGTATATGTAACAAGggttaccgaattagcttt a" /listShort="pspA, S221, ydjG, ydjH, ydjI" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 671190 /Source="Nicolas_upshifts" /id="U477" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=1663 /SigmaFactorBS="agttgtatattttttgtttgaaatgtcattttttattaaaaa agTGAAACTTTTaacgataataaaTAGTATATGTAACAAGggttaccgaattagcttt a" /listShort="pspA, S221, ydjG, ydjH, ydjI" /GFF_Attribute="listLong" promotor_-10 671196..671211 /Source="Nicolas_upshift_promotors" /id="U477" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=1663 /SigmaFactorBS="agttgtatattttttgtttgaaatgtcattttttattaaaaa agTGAAACTTTTaacgataataaaTAGTATATGTAACAAGggttaccgaattagcttt a" /listShort="pspA, S221, ydjG, ydjH, ydjI" /GFF_Attribute="listLong" /label="promotor_-10" CDS 671245..671928 /gene="pspA" /locus_tag="BSU_06180" /old_locus_tag="BSU06180" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:11454200" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11454200; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage shock protein A homolog regulator; prophage region 3" /protein_id="NP_388499.1" /db_xref="EnsemblGenomes-Gn:BSU06180" /db_xref="EnsemblGenomes-Tr:CAB12437" /db_xref="GOA:P54617" /db_xref="InterPro:IPR007157" /db_xref="SubtiList:BG12797" /db_xref="UniProtKB/Swiss-Prot:P54617" /translation="MSIIGRFKDIMSANINALLDKAENPEKMVDQYLRNMNSDLAKVK AETAAVMAEEQRAKREYHECQADMEKMESYAMKALQAGNESDARKFLERKTSLESKLS ELQAANQIAATNAAQMRKMHDKLVSDIGELEARKNMIKAKWAVAKTQERMNKLGASVS STSQSMSAFGRMEDKVNKALDQANAMAELNSAPQDDMADLSAKYDTGGSSQVDDELAA LKAKMMLDK*" gene 671245..671928 /gene="pspA" /locus_tag="BSU_06180" /old_locus_tag="BSU06180" S_feature 671929..671993 /Source="Nicolas_S_feature" /locus_tag="new_671929_671993" /HighExp="Salt, S0, aero, T-0.40H, T-1.40H, SMMPr, T-1.10H, T0.0H, Cold, GM 120" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigWXY" /TUshortPSig="0.996" /TUlongSig="NA" /TUlongPSig="NA" /label="S221" CDS 671994..673019 /gene="ydjG" /locus_tag="BSU_06190" /old_locus_tag="BSU06190" /function="16.5: Explore" /function="16.9: Replicate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type h : extrachromosomal origin" /codon_start=1 /transl_table=11 /product="putative phage replication protein; prophage region 3" /protein_id="NP_388500.1" /db_xref="EnsemblGenomes-Gn:BSU06190" /db_xref="EnsemblGenomes-Tr:CAB12438" /db_xref="GOA:O34434" /db_xref="InterPro:IPR013137" /db_xref="SubtiList:BG12798" /db_xref="UniProtKB/Swiss-Prot:O34434" /translation="MIISYKCPNCGSDMAFDSETGSLSCSSCGRQDNIESLPKENIAA RFSDDEAKEYQCKNCGAVLITEAETTATTCSFCGGAAILADRLSGHLAPAKVIPFTIS KQEAEQAFRKWCKKGLLTPRGFMSADRIKSITGMYIPFWMFDLNSEVQVRANCTRVHQ YEEGDYICTETEHFEAFRDINLDYLKIPVDASEKMKDELMDKLEPYSYEELKDFQTAY LAGYIAEKYNYTDEELFPRAKEKISSYIDSYIHSTFSGYTSVNVRDKHIHTKNVNSFY VLLPVWMVSYDYERAEHIFAMNGQTGKVVGKPPISRGKVAAWFSGIAGGTFLALKLVS LMMGGGF*" gene 671994..673019 /gene="ydjG" /locus_tag="BSU_06190" /old_locus_tag="BSU06190" CDS 673019..673783 /gene="ydjH" /locus_tag="BSU_06200" /old_locus_tag="BSU06200" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein; prophage region 3" /protein_id="NP_388501.1" /db_xref="EnsemblGenomes-Gn:BSU06200" /db_xref="EnsemblGenomes-Tr:CAB12439" /db_xref="GOA:O35004" /db_xref="InterPro:IPR007621" /db_xref="SubtiList:BG12799" /db_xref="UniProtKB/Swiss-Prot:O35004" /translation="MRGFFGKAIFVVLAVFIMMPLLGIEAVRASELQQHVYDRAHLLS KAEIGKLESLSAKLGAKRDTDFIIITTKSTNGEDIADYTGDFYDRYGKGSTAILTIDM TNREVFIAGFKKAEQYLDNSRLNSIRNTISSDLSNENYFEAFETYIQLSYKDMGIKPG VNPDNIFFTWWFQLIAAIAVGGIAVSIMLYHAGGKVTVNGSTYMDQRTSDVIDQYDTY IRTTVTRERKPSDKDSGSDGGVTKGGTSYSGSRGSF*" gene 673019..673783 /gene="ydjH" /locus_tag="BSU_06200" /old_locus_tag="BSU06200" CDS 673814..674785 /gene="ydjI" /locus_tag="BSU_06210" /old_locus_tag="BSU06210" /function="16.5: Explore" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 22720735; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="putative phage protein" /protein_id="NP_388502.1" /db_xref="EnsemblGenomes-Gn:BSU06210" /db_xref="EnsemblGenomes-Tr:CAB12440" /db_xref="InterPro:IPR033880" /db_xref="InterPro:IPR036013" /db_xref="SubtiList:BG12800" /db_xref="UniProtKB/Swiss-Prot:O34789" /translation="MSFFRNQLANVVEWEEFRDDMIFYKWNNREIKKGSRLIIRPGQD AVFLNNGRVEGVFQDDGDYDIESEIIPFLSTLKGFKFGFNSGMRAEVLFVNTKEFTVR WGTKQAINIPAAGMPGGMPIRANGTFNFKVQDYISLIDKIAGVKDQYFVEDIKTRIIS ILDQLLMKWITREGKDMFNLQANAFDIAKGIQEDLDMQLISDGMTVTGFQIMSFNYPQ EVQDMITKNASYGMVGDVNRYQQISMTDGMASGKMSGSGAASDMAGMMMGMNMANQMM NQMNQNQQAQSSGPQSTGSGSKPNFCPNCGTKTGEANFCPNCGQKLV*" gene 673814..674785 /gene="ydjI" /locus_tag="BSU_06210" /old_locus_tag="BSU06210" downshifts 674775 /Source="Nicolas_upshifts" /id="D300" /incds=0 /nref=180 /ntot=247 /MaxReadThrough="2.71622" /MaxDrop="5.81579" /score="16.72046" /energy="-11.1" /TU="U477" /idTUdmin="U477" /TUdmin="-44" /isTUend="FALSE" downshifts 674819 /Source="Nicolas_upshifts" /id="D301" /incds=0 /nref=1 /ntot=2 /MaxReadThrough="2.13813" /MaxDrop="3.25329" /score="16.72046" /energy="-11.1" /TU="NA" /idTUdmin="U477" /TUdmin=0 /isTUend="TRUE" CDS complement(674832..675857) /gene="ydjJ" /locus_tag="BSU_06220" /old_locus_tag="BSU06220" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative membrane associated potassium channel; prophage region 3" /protein_id="NP_388503.1" /db_xref="EnsemblGenomes-Gn:BSU06220" /db_xref="EnsemblGenomes-Tr:CAB12441" /db_xref="GOA:O34733" /db_xref="InterPro:IPR013099" /db_xref="SubtiList:BG12801" /db_xref="UniProtKB/Swiss-Prot:O34733" /translation="MNEGYIIAGLLLLTAGMIDFLWTTLWLESGAGPITRCLSAWLWK GCRKISGDHAKVLSMAGPLLLCLTLVIWISLFWSGWVLIYSSDPHSLMETQSKEPASW SDRIYFSGYVMFTLGNGDLAPNGGLWKLVTIIETAQGLLTITFSVTYLISVLSAVNQK RSFAQSVLSLGHDGTEIVHNAWNGKDFHDIDFLLVAASSELGKLTAQHNAFPILHFYH STQHQESSIIAVAVLDEALTIFKYGIPEQYQPNQLHIKEARSSIKNYLDTVHTAYIHP AEQAPPEPDISKLQQSGIPALSKQTFQIAVNSIKERRQLLLGIIQAGARKWPVQEQAI GNAYSPK*" gene complement(674832..675857) /gene="ydjJ" /locus_tag="BSU_06220" /old_locus_tag="BSU06220" promotor_-10 complement(675889..675908) /Source="Nicolas_upshift_promotors" /id="U478" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=251 /SigmaFactorBS="ccacctatttttctctgtaaaatcaaacattcgttcaatTGT TTCAgactcaggataaaAGGAAATAGAGAAGAAAATAaaagaaggctgacttaaggga g" /listShort="ydjJ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(675907) /Source="Nicolas_upshifts" /id="U478" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=251 /SigmaFactorBS="ccacctatttttctctgtaaaatcaaacattcgttcaatTGT TTCAgactcaggataaaAGGAAATAGAGAAGAAAATAaaagaaggctgacttaaggga g" /listShort="ydjJ" /GFF_Attribute="listLong" promotor_-35 complement(675922..675928) /Source="Nicolas_upshift_promotors" /id="U478" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=251 /SigmaFactorBS="ccacctatttttctctgtaaaatcaaacattcgttcaatTGT TTCAgactcaggataaaAGGAAATAGAGAAGAAAATAaaagaaggctgacttaaggga g" /listShort="ydjJ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 676117..676124 /Source="Nicolas_upshift_promotors" /id="U479" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.999000999001" /psig=1 /xcortree=323 /SigmaFactorBS="tgattttccttttatagagtaaaaaattttcagaaatttaTA TTGACTgaaagcgtttttatAATTATGATAATATCAGATAtaacaaaaatgtcactat a" /listShort="S222, iolT" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 676137 /Source="Nicolas_upshifts" /id="U479" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.999000999001" /psig=1 /xcortree=323 /SigmaFactorBS="tgattttccttttatagagtaaaaaattttcagaaatttaTA TTGACTgaaagcgtttttatAATTATGATAATATCAGATAtaacaaaaatgtcactat a" /listShort="S222, iolT" /GFF_Attribute="listLong" S_feature 676139..676441 /Source="Nicolas_S_feature" /locus_tag="new_676139_676441" /HighExp="M0t90, M40t90, Lbtran, T0.30H, BI, T1.0H, M9-stat, S1, T1.30H, S0" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.28450700000000001" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S222" promotor_-10 676139..676158 /Source="Nicolas_upshift_promotors" /id="U479" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.999000999001" /psig=1 /xcortree=323 /SigmaFactorBS="tgattttccttttatagagtaaaaaattttcagaaatttaTA TTGACTgaaagcgtttttatAATTATGATAATATCAGATAtaacaaaaatgtcactat a" /listShort="S222, iolT" /GFF_Attribute="listLong" /label="promotor_-10" CDS 676442..677863 /gene="iolT" /locus_tag="BSU_06230" /old_locus_tag="BSU06230" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:11807058, 15849754, 16850406, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11807058, 15849754, 16850406, 22720735; Product type t: transporter" /codon_start=1 /transl_table=11 /product="myo-inositol transporter" /protein_id="NP_388504.1" /db_xref="EnsemblGenomes-Gn:BSU06230" /db_xref="EnsemblGenomes-Tr:CAB12442" /db_xref="GOA:O34718" /db_xref="InterPro:IPR003663" /db_xref="InterPro:IPR005828" /db_xref="InterPro:IPR005829" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12802" /db_xref="UniProtKB/Swiss-Prot:O34718" /translation="MNKQGNQMSFLRTIILVSTFGGLLFGYDTGVLNGALPYMGEPDQ LNLNAFTEGLVTSSLLFGAALGAVFGGRMSDFNGRRKNILFLAVIFFISTIGCTFAPN VTVMIISRFVLGIAVGGASVTVPAYLAEMSPVESRGRMVTQNELMIVSGQLLAFVFNA ILGTTMGDNSHVWRFMLVIASLPALFLFFGMIRMPESPRWLVSKGRKEDALRVLKKIR DEKRAAAELQEIEFAFKKEDQLEKATFKDLSVPWVRRIVFIGLGIAIVQQITGVNSIM YYGTEILRNSGFQTEAALIGNIANGVISVLATFVGIWLLGRVGRRPMLMTGLIGTTTA LLLIGIFSLVLEGSPALPYVVLSLTVTFLAFQQGAISPVTWLMLSEIFPLRLRGLGMG VTVFCLWMVNFAVSFTFPILLAAIGLSTTFFIFVGLGICSVLFVKRFLPETKGLSLEQ LEENFRAYDHSGAKKDSGAEVIG*" gene 676442..677863 /gene="iolT" /locus_tag="BSU_06230" /old_locus_tag="BSU06230" downshifts 677855 /Source="Nicolas_upshifts" /id="D302" /incds=0 /nref=11 /ntot=24 /MaxReadThrough="2.82455" /MaxDrop="8.02371" /score="11.3880907" /energy="-11.2" /TU="NA" /idTUdmin="U479" /TUdmin=0 /isTUend="TRUE" downshifts complement(677911) /Source="Nicolas_upshifts" /id="D303" /incds=0 /nref=242 /ntot=272 /MaxReadThrough="1.00274" /MaxDrop="9.32541" /score="13.6781112" /energy="-11.2" /TU="NA" /idTUdmin="U482" /TUdmin="-2" /isTUend="TRUE" CDS complement(677911..678951) /gene="bdhA" /locus_tag="BSU_06240" /old_locus_tag="BSU06240" /EC_number="1.1.1.4" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:12469342, 18820069, 24525333, 26428232, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12469342, 18820069, 24525333, 26428232, 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="acetoin reductase/2,3-butanediol dehydrogenase" /protein_id="NP_388505.1" /db_xref="EnsemblGenomes-Gn:BSU06240" /db_xref="EnsemblGenomes-Tr:CAB12443" /db_xref="GOA:O34788" /db_xref="InterPro:IPR002328" /db_xref="InterPro:IPR011032" /db_xref="InterPro:IPR013149" /db_xref="InterPro:IPR013154" /db_xref="InterPro:IPR020843" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG12803" /db_xref="UniProtKB/Swiss-Prot:O34788" /translation="MKAARWHNQKDIRIEHIEEPKTEPGKVKIKVKWCGICGSDLHEY LGGPIFIPVDKPHPLTNETAPVTMGHEFSGEVVEVGEGVENYKVGDRVVVEPIFATHG HQGAYNLDEQMGFLGLAGGGGGFSEYVSVDEELLFKLPDELSYEQGALVEPSAVALYA VRSSKLKAGDKAAVFGCGPIGLLVIEALKAAGATDIYAVELSPERQQKAEELGAIIVD PSKTDDVVAEIAERTGGGVDVAFEVTGVPVVLRQAIQSTTIAGETVIVSIWEKGAEIH PNDIVIKERTVKGIIGYRDIFPAVLSLMKEGYFSADKLVTKKIVLDDLIEEGFGALIK EKSQVKILVRPN*" gene complement(677911..678951) /gene="bdhA" /locus_tag="BSU_06240" /old_locus_tag="BSU06240" promotor_-35 678491..678500 /Source="Nicolas_upshift_promotors" /id="U480" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1246 /SigmaFactorBS="agtttgcttgagcggacagcgtatagagcaactgcaGAAGGT TCAAcgagcgcgccttgTTCATATGATAATTCATCAGgaagtttgaacaaaagctctt c" /listShort="S223" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 678514..678533 /Source="Nicolas_upshift_promotors" /id="U480" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1246 /SigmaFactorBS="agtttgcttgagcggacagcgtatagagcaactgcaGAAGGT TCAAcgagcgcgccttgTTCATATGATAATTCATCAGgaagtttgaacaaaagctctt c" /listShort="S223" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 678515..679050 /Source="Nicolas_S_feature" /locus_tag="new_678515_679050" /HighExp="C30, Gly, S6, C90, S8, BT, S7, Sw, Fru, Lbstat" /AntisenseName="bdhA" /AntisenseCor="-0.174163895138467" /AntisenseRegPval="-2.4" /CDS_PredictionProba="NA" /TUshortSig="SigK" /TUshortPSig="0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S223" upshifts 678515 /Source="Nicolas_upshifts" /id="U480" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1246 /SigmaFactorBS="agtttgcttgagcggacagcgtatagagcaactgcaGAAGGT TCAAcgagcgcgccttgTTCATATGATAATTCATCAGgaagtttgaacaaaagctctt c" /listShort="S223" /GFF_Attribute="listLong" S_feature complement(678952..679246) /Source="Nicolas_S_feature" /locus_tag="new_678952_679246_c" /HighExp="Lbtran, BI, T1.0H, M40t90, LBGstat, LoTm, T0.30H, LPhT, Lbstat, ferm" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.99" /TUlongSig="NA" /TUlongPSig="NA" /label="S224" misc_feature 679051..679070 /Source="Nicolas_upshift_promotors" /id="U481" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.866133866133866" /psig="0.994005994005994" /xcortree=1752 /SigmaFactorBS="accggtcaatatgaactgttcacaaaatcgccatttttaaaa ccaaaaaagaaatgaaaTTTTTATATAATATAATCTAcgtttttttgaaaaaaagaaa c" /listShort="S225" /listLong="ydjM, ydjN" /label="promotor_single_box" /note="Geneious type: promotor_single_box" S_feature 679052..679349 /Source="Nicolas_S_feature" /locus_tag="new_679052_679349" /HighExp="G180, Paraq, Oxctl, H2O2, G135, G150, MG 5, C30, UNK1, MG 15" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.994" /TUlongSig="NA" /TUlongPSig="NA" /label="S225" upshifts 679052 /Source="Nicolas_upshifts" /id="U481" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.866133866133866" /psig="0.994005994005994" /xcortree=1752 /SigmaFactorBS="accggtcaatatgaactgttcacaaaatcgccatttttaaaa ccaaaaaagaaatgaaaTTTTTATATAATATAATCTAcgtttttttgaaaaaaagaaa c" /listShort="S225" /listLong="ydjM, ydjN" misc_feature complement(679241..679255) /Source="Nicolas_upshift_promotors" /id="U482" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.598401598401598" /psig="0.99000999000999" /xcortree=3201 /SigmaFactorBS="tacaaagtcaaaaaagttacctctgctaaaataaaccatgga agattatccTATTATAATAGCAGTattagagttataattattgatagagtagttgtcg c" /listShort="S224, bdhA" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(679246) /Source="Nicolas_upshifts" /id="U482" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.598401598401598" /psig="0.99000999000999" /xcortree=3201 /SigmaFactorBS="tacaaagtcaaaaaagttacctctgctaaaataaaccatgga agattatccTATTATAATAGCAGTattagagttataattattgatagagtagttgtcg c" /listShort="S224, bdhA" /GFF_Attribute="listLong" promotor_-35 679329 /Source="Nicolas_upshift_promotors" /id="U483" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.462537462537463" /psig="0.998001998001998" /xcortree=3034 /SigmaFactorBS="cttttttgactttgtaacattactgtaaggatattgaaAtaa aaaatagctggttgaTCGTGTATAATCTTCCTAGAtgttaacaaacagggggacgaaa t" /listShort="ydjM, ydjN" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 679348..679367 /Source="Nicolas_upshift_promotors" /id="U483" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.462537462537463" /psig="0.998001998001998" /xcortree=3034 /SigmaFactorBS="cttttttgactttgtaacattactgtaaggatattgaaAtaa aaaatagctggttgaTCGTGTATAATCTTCCTAGAtgttaacaaacagggggacgaaa t" /listShort="ydjM, ydjN" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 679351 /Source="Nicolas_upshifts" /id="U483" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.462537462537463" /psig="0.998001998001998" /xcortree=3034 /SigmaFactorBS="cttttttgactttgtaacattactgtaaggatattgaaAtaa aaaatagctggttgaTCGTGTATAATCTTCCTAGAtgttaacaaacagggggacgaaa t" /listShort="ydjM, ydjN" /GFF_Attribute="listLong" CDS 679390..679761 /gene="walM" /locus_tag="BSU_06250" /old_locus_tag="BSU06250" /experiment="publication(s) with functional evidences, PMID:17581128, 20487291" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 17581128, 20487291; Product type f: factor" /codon_start=1 /transl_table=11 /product="protein involved in cell wall metabolism" /protein_id="NP_388506.1" /db_xref="EnsemblGenomes-Gn:BSU06250" /db_xref="EnsemblGenomes-Tr:CAB12444" /db_xref="InterPro:IPR009009" /db_xref="InterPro:IPR036908" /db_xref="SubtiList:BG11036" /db_xref="UniProtKB/Swiss-Prot:P40775" /translation="MLKKVILAAFILVGSTLGAFSFSSDASAKHVNGNITWYNGVGKK GSSGKKLGHWDCATKIGFDVPRNGTKIRAYAKAKPKKVITVYKNDVGRMPNAVLDVSP KAFKALGYPLSKGKVAGHYSY*" gene 679390..679761 /gene="walM" /locus_tag="BSU_06250" /old_locus_tag="BSU06250" downshifts 679747 /Source="Nicolas_upshifts" /id="D304" /incds=0 /nref=5 /ntot=52 /MaxReadThrough="5.74148" /MaxDrop="2.8439" /score="-1.55787542" /energy="-7.4" /TU="U483" /idTUdmin="U481" /TUdmin=418 /isTUend="FALSE" CDS 679827..680873 /gene="ydjN" /locus_tag="BSU_06260" /old_locus_tag="BSU06260" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative membrane protein" /protein_id="NP_388507.1" /db_xref="EnsemblGenomes-Gn:BSU06260" /db_xref="EnsemblGenomes-Tr:CAB12445" /db_xref="InterPro:IPR011659" /db_xref="InterPro:IPR015943" /db_xref="SubtiList:BG12804" /db_xref="UniProtKB/Swiss-Prot:O34353" /translation="MKKRIILLLAVIIAAAAAGVAFYVAKDKGHEKAADVSVNTESGD ELLVSITDTDLLTKYYENDKVIHEEKLTSYPAFALDQKQQVLYYTGNNEQNEMRLFKL DLKSHKKTMLYKGAESADSLFLSKDRSTIYFRLGKADESNFRIAAFDLKTKKYKNLYP AANDQDDTVSSFFYNQKNDSFALLHYSVEEDYKKTDEANEKGIDPEPTTIHFAEGRQN KFNELKSLNQFISDIAVSDDDKRILFTSYTQKGTEQTASIQMLNADTKKYESIISNQK SFKLLIDAQPQFSKDGKNIYFLAEAKGAKKLKDETGREAKVRTIYSYSLENKTFKKVW ENPNGIINSFFVIN*" gene 679827..680873 /gene="ydjN" /locus_tag="BSU_06260" /old_locus_tag="BSU06260" downshifts 680847 /Source="Nicolas_upshifts" /id="D305" /incds=0 /nref=41 /ntot=177 /MaxReadThrough="1.73572" /MaxDrop="4.49184" /score="21.8200083" /energy="-13.9" /TU="NA" /idTUdmin="U483" /TUdmin=0 /isTUend="TRUE" CDS complement(680907..681065) /gene="ydzJ" /locus_tag="BSU_06269" /old_locus_tag="BSU06269" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_003097689.1" /db_xref="EnsemblGenomes-Gn:BSU06269" /db_xref="EnsemblGenomes-Tr:CAX52576" /db_xref="GOA:O24817" /db_xref="UniProtKB/Swiss-Prot:O24817" /translation="MISNQQQKDLKKRAAFKKLNVAMNSYVELLFLSVPLIHIFKWLG SLALHLIH*" gene complement(680907..681065) /gene="ydzJ" /locus_tag="BSU_06269" /old_locus_tag="BSU06269" downshifts complement(680923) /Source="Nicolas_upshifts" /id="D306" /incds=0 /nref=23 /ntot=155 /MaxReadThrough="0.7906" /MaxDrop="3.61386" /score="9.10659473" /energy="-10.1" /TU="NA" /idTUdmin="U487" /TUdmin=0 /isTUend="TRUE" S_feature complement(681122..681254) /Source="Nicolas_S_feature" /locus_tag="new_681122_681254_c" /HighExp="LoTm, S8, S5, S6, S4, B36, S7, Cold, B60, Salt" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigEF, SigWXY" /TUshortPSig="0.994, 1, 1" /TUlongSig="SigK" /TUlongPSig="0.994" /label="S226" downshifts complement(681165) /Source="Nicolas_upshifts" /id="D307" /incds=0 /nref=57 /ntot=272 /MaxReadThrough="3.03092" /MaxDrop="6.46708" /score="5.41743429" /energy="-8.4" /TU="U484,U486,U487" /idTUdmin="U484" /TUdmin="-22" /isTUend="TRUE" CDS complement(681255..681464) /gene="ydjO" /locus_tag="BSU_06270" /old_locus_tag="BSU06270" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 28197687" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388508.1" /db_xref="EnsemblGenomes-Gn:BSU06270" /db_xref="EnsemblGenomes-Tr:CAB12446" /db_xref="InterPro:IPR025916" /db_xref="SubtiList:BG12805" /db_xref="UniProtKB/Swiss-Prot:O34759" /translation="MSYYNKRNQEPLPKEDVSTWECTKEDCNGWTRKNFASSDTPLCP LCGSKMVDGIRSLVNLQNNSQTKTS*" gene complement(681255..681464) /gene="ydjO" /locus_tag="BSU_06270" /old_locus_tag="BSU06270" promotor_-10 complement(681497..681516) /Source="Nicolas_upshift_promotors" /id="U484" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.66033966033966" /psig="0.994005994005994" /xcortree=586 /SigmaFactorBS="tggggttattggaaagtcataaagaaaaaggaattAggagat tagggaaaagTATGAGACAATAGGAAATGTgcagtaaaatacatgagggaagaagtga c" /listShort="ydjO, S226" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(681508) /Source="Nicolas_upshifts" /id="U484" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.66033966033966" /psig="0.994005994005994" /xcortree=586 /SigmaFactorBS="tggggttattggaaagtcataaagaaaaaggaattAggagat tagggaaaagTATGAGACAATAGGAAATGTgcagtaaaatacatgagggaagaagtga c" /listShort="ydjO, S226" /GFF_Attribute="listLong" promotor_-35 complement(681533) /Source="Nicolas_upshift_promotors" /id="U484" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.66033966033966" /psig="0.994005994005994" /xcortree=586 /SigmaFactorBS="tggggttattggaaagtcataaagaaaaaggaattAggagat tagggaaaagTATGAGACAATAGGAAATGTgcagtaaaatacatgagggaagaagtga c" /listShort="ydjO, S226" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(681547..682362) /gene="ydjP" /locus_tag="BSU_06280" /old_locus_tag="BSU06280" /function="16.11: Scavenge (Catabolism)" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 9987136; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative aminoacrylate hydrolase" /protein_id="NP_388509.1" /db_xref="EnsemblGenomes-Gn:BSU06280" /db_xref="EnsemblGenomes-Tr:CAB12447" /db_xref="GOA:O34592" /db_xref="InterPro:IPR000073" /db_xref="InterPro:IPR029058" /db_xref="SubtiList:BG12806" /db_xref="UniProtKB/Swiss-Prot:O34592" /translation="MPYIILEDQTRLYYETHGSGTPILFIHGVLMSGQFFHKQFSVLS ANYQCIRLDLRGHGESDKVLHGHTISQYARDIREFLNAMELDHVVLAGWSMGAFVVWD YLNQFGNDNIQAAVIIDQSASDYQWEGWEHGPFDFDGLKTAMHAIQTDPLPFYESFIQ NMFAEPPAETETEWMLAEILKQPAAISSTILFNQTAADYRGTLQNINVPALLCFGEDK KFFSTAAGEHLRSNIPNATLVTFPKSSHCPFLEEPDAFNSTLLSFLDGVIGKS*" gene complement(681547..682362) /gene="ydjP" /locus_tag="BSU_06280" /old_locus_tag="BSU06280" promotor_-35 682189..682198 /Source="Nicolas_upshift_promotors" /id="U485" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=1434 /SigmaFactorBS="tgggaaatggtgtggccgtgaagcactttgtcagattcGCCG TGTCCTctaagatcaagaCGAATACATTGATAATTGGCagaaagcaccgaaaattgtt t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 682211..682230 /Source="Nicolas_upshift_promotors" /id="U485" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=1434 /SigmaFactorBS="tgggaaatggtgtggccgtgaagcactttgtcagattcGCCG TGTCCTctaagatcaagaCGAATACATTGATAATTGGCagaaagcaccgaaaattgtt t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 682211 /Source="Nicolas_upshifts" /id="U485" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=1434 /SigmaFactorBS="tgggaaatggtgtggccgtgaagcactttgtcagattcGCCG TGTCCTctaagatcaagaCGAATACATTGATAATTGGCagaaagcaccgaaaattgtt t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS complement(682375..683364) /gene="yeaA" /locus_tag="BSU_06290" /old_locus_tag="BSU06290" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388510.1" /db_xref="EnsemblGenomes-Gn:BSU06290" /db_xref="EnsemblGenomes-Tr:CAB12448" /db_xref="InterPro:IPR025062" /db_xref="SubtiList:BG12210" /db_xref="UniProtKB/Swiss-Prot:O34803" /translation="MLTHDLHEKTKHYISIYAELKTKLKWKVSHDQILMLISSAYIVN KREFDFQRFYDLSSYIKSNIGSFSTLNSHHRFTVASILDIHFQHEAKQTFQTFIDVYN EMVKLGYKRDMFTYLSALILLTGKSETTNQKEQMNMGLAVYQQMKKNHYFLTSTQNVP LAVLLGENGKGLQALQKAETCYQLLAANGFKKGQYLHQVSHILALQSEKEPEMLVSAC KQIYQSITESVKKTKDYHYPDLALLTFLEEPDIKTVLCITDELNQEKAFKWQKEMNFK IAVSLYLSEHMEKNLLMESGLYTAIETVIQAQQAAATAAIISSTAASHTHDGN*" gene complement(682375..683364) /gene="yeaA" /locus_tag="BSU_06290" /old_locus_tag="BSU06290" promotor_-10 complement(683229..683247) /Source="Nicolas_upshift_promotors" /id="U486" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1147 /SigmaFactorBS="aattaaaatggaaagtttcacacgatcagATATTAatgctca tttcttctGCATATATTGTGAATAAAAgagagtttgattttcagcgcttttatgattt g" /listShort="ydjP, ydjO, S226" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(683237) /Source="Nicolas_upshifts" /id="U486" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1147 /SigmaFactorBS="aattaaaatggaaagtttcacacgatcagATATTAatgctca tttcttctGCATATATTGTGAATAAAAgagagtttgattttcagcgcttttatgattt g" /listShort="ydjP, ydjO, S226" /GFF_Attribute="listLong" promotor_-35 complement(683263..683268) /Source="Nicolas_upshift_promotors" /id="U486" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1147 /SigmaFactorBS="aattaaaatggaaagtttcacacgatcagATATTAatgctca tttcttctGCATATATTGTGAATAAAAgagagtttgattttcagcgcttttatgattt g" /listShort="ydjP, ydjO, S226" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(683386..683401) /Source="Nicolas_upshift_promotors" /id="U487" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1666 /SigmaFactorBS="aaataacccgacaaacttgcctctagcaggcaagttttttct ttaTGAAACCTTTggccctatttaTCGTATTACGTAAAAAcaacaaaaggagctgctt t" /listShort="yeaA, ydjP, ydjO, S226, ydzJ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(683407) /Source="Nicolas_upshifts" /id="U487" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1666 /SigmaFactorBS="aaataacccgacaaacttgcctctagcaggcaagttttttct ttaTGAAACCTTTggccctatttaTCGTATTACGTAAAAAcaacaaaaggagctgctt t" /listShort="yeaA, ydjP, ydjO, S226, ydzJ" /GFF_Attribute="listLong" promotor_-35 complement(683413..683422) /Source="Nicolas_upshift_promotors" /id="U487" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1666 /SigmaFactorBS="aaataacccgacaaacttgcctctagcaggcaagttttttct ttaTGAAACCTTTggccctatttaTCGTATTACGTAAAAAcaacaaaaggagctgctt t" /listShort="yeaA, ydjP, ydjO, S226, ydzJ" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(683462..685003) /gene="cotA" /locus_tag="BSU_06300" /old_locus_tag="BSU06300" /EC_number="1.3.3.5" /function="16.6: Maintain" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:11514528, 12637519, 16391148, 17242517, 18031270, 19933362, 22112278, 25259857, 27050268" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11514528, 12637519, 16391148, 17242517, 18031270, 19933362, 22112278, 25259857, 27050268; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="outer spore coat copper-dependent promiscuous laccase" /protein_id="NP_388511.1" /db_xref="EnsemblGenomes-Gn:BSU06300" /db_xref="EnsemblGenomes-Tr:CAB12449" /db_xref="GOA:P07788" /db_xref="InterPro:IPR001117" /db_xref="InterPro:IPR008972" /db_xref="InterPro:IPR011706" /db_xref="InterPro:IPR011707" /db_xref="PDB:1GSK" /db_xref="PDB:1OF0" /db_xref="PDB:1W6L" /db_xref="PDB:1W6W" /db_xref="PDB:1W8E" /db_xref="PDB:2BHF" /db_xref="PDB:2WSD" /db_xref="PDB:2X87" /db_xref="PDB:2X88" /db_xref="PDB:3ZDW" /db_xref="PDB:4A66" /db_xref="PDB:4A67" /db_xref="PDB:4A68" /db_xref="PDB:4AKO" /db_xref="PDB:4AKP" /db_xref="PDB:4AKQ" /db_xref="PDB:4Q89" /db_xref="PDB:4Q8B" /db_xref="PDB:4YVN" /db_xref="PDB:4YVU" /db_xref="SubtiList:BG10490" /db_xref="UniProtKB/Swiss-Prot:P07788" /translation="MTLEKFVDALPIPDTLKPVQQSKEKTYYEVTMEECTHQLHRDLP PTRLWGYNGLFPGPTIEVKRNENVYVKWMNNLPSTHFLPIDHTIHHSDSQHEEPEVKT VVHLHGGVTPDDSDGYPEAWFSKDFEQTGPYFKREVYHYPNQQRGAILWYHDHAMALT RLNVYAGLVGAYIIHDPKEKRLKLPSDEYDVPLLITDRTINEDGSLFYPSAPENPSPS LPNPSIVPAFCGETILVNGKVWPYLEVEPRKYRFRVINASNTRTYNLSLDNGGDFIQI GSDGGLLPRSVKLNSFSLAPAERYDIIIDFTAYEGESIILANSAGCGGDVNPETDANI MQFRVTKPLAQKDESRKPKYLASYPSVQHERIQNIRTLKLAGTQDEYGRPVLLLNNKR WHDPVTETPKVGTTEIWSIINPTRGTHPIHLHLVSFRVLDRRPFDIARYQESGELSYT GPAVPPPPSEKGWKDTIQAHAGEVLRIAATFGPYSGRYVWHCHILEHEDYDMMRPMDI TDPHK*" gene complement(683462..685003) /gene="cotA" /locus_tag="BSU_06300" /old_locus_tag="BSU06300" downshifts complement(683475) /Source="Nicolas_upshifts" /id="D308" /incds=0 /nref=46 /ntot=93 /MaxReadThrough="2.97674" /MaxDrop="5.60726" /score="22.3755425" /energy="-9.1" /TU="U488" /idTUdmin="U488" /TUdmin="-66" /isTUend="FALSE" promotor_-10 complement(685034..685053) /Source="Nicolas_upshift_promotors" /id="U488" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=1297 /SigmaFactorBS="tcttcttcgggcgggctgcagcacgaagatttTTTGTAACCA tcacgtccttattGTCATTAACTATAGTACCAAtttggaaaatttagataaggacaga t" /listShort="cotA" /listLong="yeaA, ydjP, ydjO, S226" /label="promotor_-10" upshifts complement(685048) /Source="Nicolas_upshifts" /id="U488" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=1297 /SigmaFactorBS="tcttcttcgggcgggctgcagcacgaagatttTTTGTAACCA tcacgtccttattGTCATTAACTATAGTACCAAtttggaaaatttagataaggacaga t" /listShort="cotA" /listLong="yeaA, ydjP, ydjO, S226" promotor_-35 complement(685067..685076) /Source="Nicolas_upshift_promotors" /id="U488" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=1297 /SigmaFactorBS="tcttcttcgggcgggctgcagcacgaagatttTTTGTAACCA tcacgtccttattGTCATTAACTATAGTACCAAtttggaaaatttagataaggacaga t" /listShort="cotA" /listLong="yeaA, ydjP, ydjO, S226" /label="promotor_-35" CDS complement(685155..686564) /gene="gabP" /locus_tag="BSU_06310" /old_locus_tag="BSU06310" /function="16.1: Circulate" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:15849754, 16547045, 16850406, 8951816, 9677314, 24142252" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15849754, 16547045, 16850406, 8951816, 9677314, 24142252; Product type t : transporter" /codon_start=1 /transl_table=11 /product="gamma-aminobutyrate (GABA) permease; proline permease" /protein_id="NP_388512.2" /db_xref="EnsemblGenomes-Gn:BSU06310" /db_xref="EnsemblGenomes-Tr:CAB12450" /db_xref="GOA:P46349" /db_xref="InterPro:IPR002293" /db_xref="InterPro:IPR004840" /db_xref="InterPro:IPR004841" /db_xref="InterPro:IPR011265" /db_xref="SubtiList:BG11328" /db_xref="UniProtKB/Swiss-Prot:P46349" /translation="MNQSQSGLKKELKTRHMTMISIAGVIGAGLFVGSGSVIHSTGPG AVVSYALAGLLVIFIMRMLGEMSAVNPTSGSFSQYAHDAIGPWAGFTIGWLYWFFWVI VIAIEAIAGAGIIQYWFHDIPLWLTSLILTIVLTLTNVYSVKSFGEFEYWFSLIKVVT IIAFLIVGFAFIFGFAPGSEPVGFSNLTGKGGFFPEGISSVLLGIVVVIFSFMGTEIV AIAAGETSNPIESVTKATRSVVWRIIVFYVGSIAIVVALLPWNSANILESPFVAVLEH IGVPAAAQIMNFIVLTAVLSCLNSGLYTTSRMLYSLAERNEAPRRFMKLSKKGVPVQA IVAGTFFSYIAVVMNYFSPDTVFLFLVNSSGAIALLVYLVIAVSQLKMRKKLEKTNPE ALKIKMWLFPFLTYLTIIAICGILVSMAFIDSMRDELLLTGVITGIVLISYLVFRKRK VSEKAAANPVTQQQPDILP*" gene complement(685155..686564) /gene="gabP" /locus_tag="BSU_06310" /old_locus_tag="BSU06310" downshifts complement(685169) /Source="Nicolas_upshifts" /id="D309" /incds=0 /nref=124 /ntot=216 /MaxReadThrough="3.22899" /MaxDrop="5.0359" /score="18.985683" /energy="-13.5" /TU="U489" /idTUdmin="U489" /TUdmin="-110" /isTUend="FALSE" CDS complement(686602..686889) /gene="ydzX" /locus_tag="BSU_06319" /old_locus_tag="BSU06319" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_003097690.1" /db_xref="EnsemblGenomes-Gn:BSU06319" /db_xref="EnsemblGenomes-Tr:CAX52577" /db_xref="UniProtKB/Swiss-Prot:C0H3X2" /translation="MIHPPQKNSDEGTLFLSSNLFAPPKIPSNPRTPVLLAFYRIVNI TQNHTANKKRNIFSTHSLKAQTKHYKFEISWYIFLHEFSTNCIFMIEFQLS*" gene complement(686602..686889) /gene="ydzX" /locus_tag="BSU_06319" /old_locus_tag="BSU06319" misc_feature complement(686605..686624) /Source="Nicolas_upshift_promotors" /id="U489" /multdbtbs="SigA,SigA" /comp="M14" /sig="SigA" /pcomp="0.447552447552448" /psig="0.996003996003996" /xcortree=2898 /SigmaFactorBS="tttgaaataagctggtatattttcttacacgaattttcgaca aactgtatatttaTGATAGAGTTTCAATTATCAtaatattcagtaatgattgcatttt a" /listShort="gabP" /listLong="cotA" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(686619) /Source="Nicolas_upshifts" /id="U489" /multdbtbs="SigA,SigA" /comp="M14" /sig="SigA" /pcomp="0.447552447552448" /psig="0.996003996003996" /xcortree=2898 /SigmaFactorBS="tttgaaataagctggtatattttcttacacgaattttcgaca aactgtatatttaTGATAGAGTTTCAATTATCAtaatattcagtaatgattgcatttt a" /listShort="gabP" /listLong="cotA" promotor_-35 686895..686902 /Source="Nicolas_upshift_promotors" /id="U490" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.748251748251748" /psig="0.999000999001" /xcortree=1749 /SigmaFactorBS="cgtcactatttttctgtggcgggtgaatcatgtttcTGTAGA CCcactgcggatcagctTTGTAAGATAATAATAGGAAaatgtgagcgagaggaggttt t" /listShort="yeaB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 686918..686937 /Source="Nicolas_upshift_promotors" /id="U490" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.748251748251748" /psig="0.999000999001" /xcortree=1749 /SigmaFactorBS="cgtcactatttttctgtggcgggtgaatcatgtttcTGTAGA CCcactgcggatcagctTTGTAAGATAATAATAGGAAaatgtgagcgagaggaggttt t" /listShort="yeaB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 686919 /Source="Nicolas_upshifts" /id="U490" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.748251748251748" /psig="0.999000999001" /xcortree=1749 /SigmaFactorBS="cgtcactatttttctgtggcgggtgaatcatgtttcTGTAGA CCcactgcggatcagctTTGTAAGATAATAATAGGAAaatgtgagcgagaggaggttt t" /listShort="yeaB" /GFF_Attribute="listLong" CDS 686962..687834 /gene="mneS" /locus_tag="BSU_06320" /old_locus_tag="BSU06320" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:27748968" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 27748968; Product type t: transporter" /codon_start=1 /transl_table=11 /product="secondary Mn(II) exporter, promiscuous" /protein_id="NP_388513.1" /db_xref="EnsemblGenomes-Gn:BSU06320" /db_xref="EnsemblGenomes-Tr:CAB12451" /db_xref="GOA:P46348" /db_xref="InterPro:IPR002524" /db_xref="InterPro:IPR027469" /db_xref="InterPro:IPR027470" /db_xref="InterPro:IPR036837" /db_xref="SubtiList:BG11329" /db_xref="UniProtKB/Swiss-Prot:P46348" /translation="MERYDELKKGESGALVSIAAYLVLSAIKLIIGYLFHSEALTADG LNNTTDIIASVAVLIGLRISQKPPDEDHPYGHFRAETIASLIASFIMMVVGLQVLFSA GESIFSAKQETPDMIAAWTAAGGAVLMLIVYRYNKRLAKKVKSQALLAAAADNKSDAF VSIGTFIGIVAAQFHLAWIDTVTAFVIGLLICKTAWDIFKESSHSLTDGFDIKDISAY KQTIEKISGVSRLKDIKARYLGSTVHVDVVVEVSADLNITESHDIANEIERRMKEEHA IDYSHVHMEPLEQK*" gene 686962..687834 /gene="mneS" /locus_tag="BSU_06320" /old_locus_tag="BSU06320" downshifts 687799 /Source="Nicolas_upshifts" /id="D310" /incds=0 /nref=2 /ntot=88 /MaxReadThrough="1.72291" /MaxDrop="2.86431" /score="24.8167732" /energy="-10.2" /TU="U490" /idTUdmin="U490" /TUdmin="-22" /isTUend="TRUE" downshifts complement(688074) /Source="Nicolas_upshifts" /id="D311" /incds=0 /nref=1 /ntot=3 /MaxReadThrough="0.65827" /MaxDrop="3.33542" /score="-0.424989042" /energy="-12.9" /TU="NA" /idTUdmin="U489" /TUdmin="-3015" /isTUend="FALSE" misc_feature 688128..688147 /Source="Nicolas_upshift_promotors" /id="U491" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.932067932067932" /psig=1 /xcortree=2248 /SigmaFactorBS="ctttattggtaacaatttgctagaatcgtttttttatacaga ttgcttttTGTGGTAAAGTTAGGTTACAttatgatgaattttgtagatgactaggagg a" /listShort="yeaC, yeaD, yebA" /listLong="S227, guaA" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 688138 /Source="Nicolas_upshifts" /id="U491" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.932067932067932" /psig=1 /xcortree=2248 /SigmaFactorBS="ctttattggtaacaatttgctagaatcgtttttttatacaga ttgcttttTGTGGTAAAGTTAGGTTACAttatgatgaattttgtagatgactaggagg a" /listShort="yeaC, yeaD, yebA" /listLong="S227, guaA" CDS 688184..689146 /gene="yeaC" /locus_tag="BSU_06330" /old_locus_tag="BSU06330" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 21907250, 26933057; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative MoxR-like ATPase" /protein_id="NP_388514.2" /db_xref="EnsemblGenomes-Gn:BSU06330" /db_xref="EnsemblGenomes-Tr:CAB12452" /db_xref="GOA:P94474" /db_xref="InterPro:IPR011703" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG12211" /db_xref="UniProtKB/Swiss-Prot:P94474" /translation="MAYQEDLHPLLGKAVEHINRVMVGKRDIAILSLAALLAKGHVLL EDVPGVGKTMMVRALAKSIGADFKRIQFTPDLLPSDVTGVSIYNAKTMEFEYRPGPIM GNIVLADEINRTSPKTQSALLEAMEEGSVTVDGHTMQLADPFFVMATQNPVEYEGTYP LPEAQLDRFLFKLRMGYPSFNEELDVLSLQEKSHPIETLEPVIAKEDFIFLQREVQNV RADDSIKEYIVEIVQKTRQHPSVQLGVSPRGSIALMKAAQAYALLHHRDYVIPDDIQY LAPFTLPHRMMLHPEAKFEGIQAEAIVREIMSAVKVPVQRSAVR*" gene 688184..689146 /gene="yeaC" /locus_tag="BSU_06330" /old_locus_tag="BSU06330" CDS 689146..690342 /gene="yeaD" /locus_tag="BSU_06340" /old_locus_tag="BSU06340" /function="18: Unknown function" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388515.2" /db_xref="EnsemblGenomes-Gn:BSU06340" /db_xref="EnsemblGenomes-Tr:CAB12453" /db_xref="InterPro:IPR002881" /db_xref="InterPro:IPR036465" /db_xref="SubtiList:BG12212" /db_xref="UniProtKB/Swiss-Prot:P94475" /translation="MNKKWQWLVYGWKLIILTLLTAAVFSYAMFQGGFVSWFLFYAFL PFVLYAGLLALYPLRSFQASRQMDKTQLHAGDRLGVTVTLRRKLPFPLMYMVIEDCLP EGIESLNRDGAAAKRLVFPWFKRSMTMSYELARVPRGEHHFHSVRVRTGDVLGLIEKT AFFELDDTLFVYPFYQRFSYQVNERHQEDGVSGSSPIHQHHSSVAASVRNYQPGDRFA ALDWKTSARRSQLMTKEFEPSRSKNLFLLMDRFSSDAFEEVVSVTASILHSVLKNGAG AGLASIGKEKNIFPIQEGDQHFKHMLRHLAIAHCDAADPISRYAREELGKPSVRQADQ VVVTGQLTEDMLHLAEIGGGRVTVILAKEKDAELSQAENVMIERMMKRQIRVRIMRGG RVSRVV*" gene 689146..690342 /gene="yeaD" /locus_tag="BSU_06340" /old_locus_tag="BSU06340" CDS 690364..692577 /gene="yebA" /locus_tag="BSU_06350" /old_locus_tag="BSU06350" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388516.2" /db_xref="EnsemblGenomes-Gn:BSU06350" /db_xref="EnsemblGenomes-Tr:CAB12454" /db_xref="GOA:P94476" /db_xref="InterPro:IPR002931" /db_xref="InterPro:IPR025403" /db_xref="InterPro:IPR036985" /db_xref="SubtiList:BG12213" /db_xref="UniProtKB/Swiss-Prot:P94476" /translation="MPHDDHKGSRLSLLLFYFLAFLLLWEWLRPLDSFTETKHTGFFS VFIGLTFLLTFFRMRWFVTVPFCVIFTLISIHILFYQGSIFDLSWVSSFLQDVYLNIT LIQSGQWNDMIPSFRTLLFFVLLWLLVYLLHYWVIYQRRILFFFLMTVAYITILDTFT PYDATFAVIRIVLIGFFMLGLLYLERIKLMERITLPKTSVLKWFLPLSVLVLAATGFG LAAPKSEPAWPDPVPFLKKITHQDRVSAGESKIGYGNHDESLGGPFQQDATPVFTWQG KERTYFRVETKDTYTGKGWIETDTGMSYQLSNGKVENLWFDHKVATERRTVRVKVDKH YGYNHLMYPIGAETIQPKQAVSLEMNGNTEQISPISEQAGEIRNMGNYTVTYNSPVYK LDELRKVKVRKNSEEYTFSDRYMQLPDSLPERVRTLAIKLTQDHDNMFDKVKAVEDYL GSNAFTYETENVTIPKNDEDYVDQFLFETKMGYCDNFSSAMVVLLRSAGIPARWVKGY TSGEYKEAGNKNGSIYEVTNNNAHSWVEVYFPEQGWVTFEPTKGFTNPAQFTSSDTKD SGSDSSSSPKKAKEKQKEEKKQPQKEEKQKEKREPAVSKKPSASHTNAGAGLYAALAV LAVLLVAAVLLYVFRSLWIPVFAVRKLKRRSDQHAFFEAYGALLKQLKRKGLPKRDSE TLRDYAKRIDEKYDIEDMSKLTLSYERALYRNEDSSALWNDSRELWENLIKRRWS*" gene 690364..692577 /gene="yebA" /locus_tag="BSU_06350" /old_locus_tag="BSU06350" promotor_-35 692572..692579 /Source="Nicolas_upshift_promotors" /id="U492" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.912087912087912" /psig="0.999000999001" /xcortree=2555 /SigmaFactorBS="aaatttaattaaaagaagatggTCTTGACCgcttatcgacgt gtTGTTAGAATTAGTGAATATTatcggagtctgggagcgagttggcctgactccggca a" /listShort="S227, guaA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 692594..692613 /Source="Nicolas_upshift_promotors" /id="U492" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.912087912087912" /psig="0.999000999001" /xcortree=2555 /SigmaFactorBS="aaatttaattaaaagaagatggTCTTGACCgcttatcgacgt gtTGTTAGAATTAGTGAATATTatcggagtctgggagcgagttggcctgactccggca a" /listShort="S227, guaA" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 692610..692739 /Source="Nicolas_S_feature" /locus_tag="new_692610_692739" /HighExp="G180, Oxctl, G135, LBGexp, G150, Paraq, C30, LPh, MG 25, C90" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.63292099999999996" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="SigA" /TUlongPSig=1 /label="S227" upshifts 692610 /Source="Nicolas_upshifts" /id="U492" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.912087912087912" /psig="0.999000999001" /xcortree=2555 /SigmaFactorBS="aaatttaattaaaagaagatggTCTTGACCgcttatcgacgt gtTGTTAGAATTAGTGAATATTatcggagtctgggagcgagttggcctgactccggca a" /listShort="S227, guaA" /GFF_Attribute="listLong" CDS 692740..694281 /gene="guaA" /locus_tag="BSU_06360" /old_locus_tag="BSU06360" /EC_number="6.3.5.2" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 1312531, 21856856; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="GMP synthetase" /protein_id="NP_388517.2" /db_xref="EnsemblGenomes-Gn:BSU06360" /db_xref="EnsemblGenomes-Tr:CAB12455" /db_xref="GOA:P29727" /db_xref="InterPro:IPR001674" /db_xref="InterPro:IPR004739" /db_xref="InterPro:IPR014729" /db_xref="InterPro:IPR017926" /db_xref="InterPro:IPR022310" /db_xref="InterPro:IPR022955" /db_xref="InterPro:IPR025777" /db_xref="InterPro:IPR029062" /db_xref="SubtiList:BG10647" /db_xref="UniProtKB/Swiss-Prot:P29727" /translation="MTKLVNEMILVLDFGSQYNQLITRRIREFGVYSELHPHTLTAEE IKKMNPKGIILSGGPNSVYDENSFRCDEKIFELDIPVLGICYGMQLMTHYLGGKVEAA SQREYGKANIRIEGTPDLFRDLPNEQVVWMSHGDLVVEVPEGFTVDATSHHCPNSAMS KADKKWYGVQFHPEVRHSEYGNDLLKNFVFGVCECEGEWSMENFIEIEMQKIRETVGD KQVLCALSGGVDSSVVAVLIHKAIGDQLTCIFVDHGLLRKGEAEGVMKTFSEGFNMNV IKVDAKDRFLNKLKGVSDPEQKRKIIGNEFIYVFDDEADKLKGIDYLAQGTLYTDIIE SGTATAQTIKSHHNVGGLPEDMQFELIEPLNTLFKDEVRALGTELGIPDEIVWRQPFP GPGLGIRVLGEVTEEKLEIVRESDAILREEIANHGLERDIWQYFTVLPDIRSVGVMGD ARTYDYTIGIRAVTSIDGMTSDWARIPWDVLEVISTRIVNEVKHINRVVYDITSKPPA TIEWE*" gene 692740..694281 /gene="guaA" /locus_tag="BSU_06360" /old_locus_tag="BSU06360" downshifts 694267 /Source="Nicolas_upshifts" /id="D312" /incds=0 /nref=247 /ntot=268 /MaxReadThrough="2.12151" /MaxDrop="7.3702" /score="22.5795134" /energy="-18.5" /TU="NA" /idTUdmin="U492" /TUdmin=0 /isTUend="TRUE" promotor_-35 694388..694392 /Source="Nicolas_upshift_promotors" /id="U493" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.767232767232767" /psig=1 /xcortree=2631 /SigmaFactorBS="cgattttgcgcgactattgttcgctttttgTATTGttttttc aaaatgaaCTTGGTACAATAGACACAGAaatcaaataagatgaattcgtataatcgcg g" /listShort="NA, pbuG" /listLong="S228, yebC" /label="promotor_-35" promotor_-10 694408..694427 /Source="Nicolas_upshift_promotors" /id="U493" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.767232767232767" /psig=1 /xcortree=2631 /SigmaFactorBS="cgattttgcgcgactattgttcgctttttgTATTGttttttc aaaatgaaCTTGGTACAATAGACACAGAaatcaaataagatgaattcgtataatcgcg g" /listShort="NA, pbuG" /listLong="S228, yebC" /label="promotor_-10" upshifts 694418 /Source="Nicolas_upshifts" /id="U493" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.767232767232767" /psig=1 /xcortree=2631 /SigmaFactorBS="cgattttgcgcgactattgttcgctttttgTATTGttttttc aaaatgaaCTTGGTACAATAGACACAGAaatcaaataagatgaattcgtataatcgcg g" /listShort="NA, pbuG" /listLong="S228, yebC" misc_RNA 694425..694527 /gene="gswC" /locus_tag="BSU_misc_RNA_9" /product="guanine riboswitch" /experiment="publication(s) with functional evidences, PMID:12787499, 15549109, 18072940, 19603494, 20022916, 20200045, 20204714, 21439477, 25023436, 27941758" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12787499, 15549109, 18072940, 19603494, 20022916, 20200045, 20204714, 21439477, 25023436, 27941758; Product type n: RNA" gene 694425..694527 /gene="gswC" /locus_tag="BSU_misc_RNA_9" downshifts 694553 /Source="Nicolas_upshifts" /id="D313" /incds=0 /nref=11 /ntot=56 /MaxReadThrough="8.01916" /MaxDrop="4.7859" /score="24.3821572" /energy="-11.3" /TU="U493" /idTUdmin="U492" /TUdmin=286 /isTUend="FALSE" CDS 694662..695984 /gene="pbuG" /locus_tag="BSU_06370" /old_locus_tag="BSU06370" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:3110131, 11591660, 12923093, 15849754, 16850406, 19446032" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 3110131, 11591660, 12923093, 15849754, 16850406, 19446032; Product type t : transporter" /codon_start=1 /transl_table=11 /product="hypoxanthine/guanine permease" /protein_id="NP_388518.1" /db_xref="EnsemblGenomes-Gn:BSU06370" /db_xref="EnsemblGenomes-Tr:CAB12456" /db_xref="GOA:O34987" /db_xref="InterPro:IPR006043" /db_xref="InterPro:IPR026033" /db_xref="SubtiList:BG12811" /db_xref="UniProtKB/Swiss-Prot:O34987" /translation="MKTFFQFDELGTSYRNEIIGGLTTFLSMAYILFVNPITLALESV KDFPEALRIDQGAVFTATALASAAGCILMGLIARYPIAIAPGMGLNAFFAFSVVLGMG ISWQAALSGVFISGLIFVALSLTGFREKIINAIPPELKLAVGAGIGLFITFVGLQGSG IITANPSTLVTIGNIHSGPVLLTIFGVIVTVILMVLRVNAGVFIGMLLTAVAGMIFGL VPVPTQIIGSVPSLAPTFGQAWIHLPDIFSVQMLIVILTFLFVGFFDTAGTLVAVATQ AGLMKENKLPRAGRALLADSSSIVIGAVLGTSTTTSYVESSSGVAAGARSGFAAIVTG ILFLLATFFSPLLSVVTSNVTAPALIIVGALMVAPLGKIAWDKFEVAVPAFLTMIMMP LTYSIATGIAIGFIFYPITMVCKGKAKEVHPIMYGLFVVFILYFIFLK*" gene 694662..695984 /gene="pbuG" /locus_tag="BSU_06370" /old_locus_tag="BSU06370" downshifts 695962 /Source="Nicolas_upshifts" /id="D314" /incds=0 /nref=47 /ntot=153 /MaxReadThrough="4.18958" /MaxDrop="4.86237" /score="42.0241443" /energy="-13.4" /TU="U493" /idTUdmin="U493" /TUdmin="-86" /isTUend="FALSE" downshifts 696005 /Source="Nicolas_upshifts" /id="D315" /incds=0 /nref=1 /ntot=29 /MaxReadThrough="3.09696" /MaxDrop="3.87785" /score="42.0241443" /energy="-13.4" /TU="U493" /idTUdmin="U493" /TUdmin="-43" /isTUend="FALSE" promotor_-35 696034..696043 /Source="Nicolas_upshift_promotors" /id="U494" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1642 /SigmaFactorBS="aaccagctgcactggcagctggtttttttgttgcaaaagaTA AAACCATTtcatacgatataCCGTCATGTAGATGTGccgccatgctttacttaaatgg a" /listShort="S228, yebC" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 696054..696194 /Source="Nicolas_S_feature" /locus_tag="new_696054_696194" /HighExp="T1.30H, T1.0H, T2.0H, T0.30H, B60, T2.30H, T-0.40H, T0.0H, T3.0H, T-1.10H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigWXY" /TUshortPSig="0.998" /TUlongSig="SigA" /TUlongPSig=1 /label="S228" upshifts 696054 /Source="Nicolas_upshifts" /id="U494" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1642 /SigmaFactorBS="aaccagctgcactggcagctggtttttttgttgcaaaagaTA AAACCATTtcatacgatataCCGTCATGTAGATGTGccgccatgctttacttaaatgg a" /listShort="S228, yebC" /GFF_Attribute="listLong" promotor_-10 696056..696071 /Source="Nicolas_upshift_promotors" /id="U494" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1642 /SigmaFactorBS="aaccagctgcactggcagctggtttttttgttgcaaaagaTA AAACCATTtcatacgatataCCGTCATGTAGATGTGccgccatgctttacttaaatgg a" /listShort="S228, yebC" /GFF_Attribute="listLong" /label="promotor_-10" CDS 696195..696998 /gene="yebC" /locus_tag="BSU_06380" /old_locus_tag="BSU06380" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406, 22720735; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral inner membrane protein" /protein_id="NP_388519.2" /db_xref="EnsemblGenomes-Gn:BSU06380" /db_xref="EnsemblGenomes-Tr:CAB12457" /db_xref="GOA:O34341" /db_xref="SubtiList:BG12812" /db_xref="UniProtKB/Swiss-Prot:O34341" /translation="MTEERKETFEEEINQSERIDADEEPLSRMSRKASRQSKQKQKQK QKPRQERGESTVKDKLASVWAAINRYCGFAFSILKSPAKTVVTDGFSHYKYGLISMLI FSIIFSIGNWFQLKASWNRPLGFGERHHAFYDGFLVVLVYLLIFFAVMVFAIWAVSRY MMKQKVTFREAAAVLGSLLVPVIAVSILWLIFAIVNIPMLTVLFTVLILFSIFFIIAL YVQRVYQAAQDAPIDYIYCVFAVVAIALLFTAVTWPFISEYITASLIPL*" gene 696195..696998 /gene="yebC" /locus_tag="BSU_06380" /old_locus_tag="BSU06380" downshifts 696983 /Source="Nicolas_upshifts" /id="D316" /incds=0 /nref=218 /ntot=263 /MaxReadThrough="1.47691" /MaxDrop="7.03926" /score="33.0377004" /energy="-10.7" /TU="NA" /idTUdmin="U494" /TUdmin=0 /isTUend="TRUE" promotor_-35 697066..697073 /Source="Nicolas_upshift_promotors" /id="U495" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.524475524475524" /psig=1 /xcortree=527 /SigmaFactorBS="tgtcacactttttacaaatatatctaaaaaacaTAGTTGATt tgtaggattaacCCGTGTATGATGGGGAAAATgctgaaaacgtccagcgcaaaaacct t" /listShort="S229, yebD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 697087..697106 /Source="Nicolas_upshift_promotors" /id="U495" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.524475524475524" /psig=1 /xcortree=527 /SigmaFactorBS="tgtcacactttttacaaatatatctaaaaaacaTAGTTGATt tgtaggattaacCCGTGTATGATGGGGAAAATgctgaaaacgtccagcgcaaaaacct t" /listShort="S229, yebD" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 697093..697156 /Source="Nicolas_S_feature" /locus_tag="new_697093_697156" /HighExp="B60, S2, S7, S8, Lbstat, nit, S4, BC, BT, M0t90" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S229" upshifts 697093 /Source="Nicolas_upshifts" /id="U495" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.524475524475524" /psig=1 /xcortree=527 /SigmaFactorBS="tgtcacactttttacaaatatatctaaaaaacaTAGTTGATt tgtaggattaacCCGTGTATGATGGGGAAAATgctgaaaacgtccagcgcaaaaacct t" /listShort="S229, yebD" /GFF_Attribute="listLong" CDS 697157..697324 /gene="yebD" /locus_tag="BSU_06390" /old_locus_tag="BSU06390" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="NP_388520.3" /db_xref="EnsemblGenomes-Gn:BSU06390" /db_xref="EnsemblGenomes-Tr:CAB12458" /db_xref="InterPro:IPR025072" /db_xref="SubtiList:BG12813" /db_xref="UniProtKB/Swiss-Prot:O34904" /translation="MADVLRRAINQKKQFLKTKLLLSEFYQGRGEQLADYTLSELEKE YKSLQKMKKEI*" gene 697157..697324 /gene="yebD" /locus_tag="BSU_06390" /old_locus_tag="BSU06390" downshifts 697331 /Source="Nicolas_upshifts" /id="D317" /incds=0 /nref=64 /ntot=163 /MaxReadThrough="2.85884" /MaxDrop="5.66286" /score="29.2645456" /energy="-9" /TU="NA" /idTUdmin="U495" /TUdmin="-2" /isTUend="TRUE" promotor_-35 697375..697381 /Source="Nicolas_upshift_promotors" /id="U496" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.966033966033966" /psig="0.966033966033966" /xcortree=744 /SigmaFactorBS="aggtgagtctgctgaaaagcgggcttttttgttttgATTTTG AaaaggcgagaaagaGGGTAAACTACTACTGTTCaacacataaaagcgtgtcgaaata t" /listShort="S230, yebE, yebG, NA, S231" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 697396..697414 /Source="Nicolas_upshift_promotors" /id="U496" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.966033966033966" /psig="0.966033966033966" /xcortree=744 /SigmaFactorBS="aggtgagtctgctgaaaagcgggcttttttgttttgATTTTG AaaaggcgagaaagaGGGTAAACTACTACTGTTCaacacataaaagcgtgtcgaaata t" /listShort="S230, yebE, yebG, NA, S231" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 697399..697485 /Source="Nicolas_S_feature" /locus_tag="new_697399_697485" /HighExp="Etha, Gly, M9-stat, Sw, B60, S4, S6, LPhT, S3, S8" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigB" /TUshortPSig="0.966" /TUlongSig="NA" /TUlongPSig="NA" /label="S230" upshifts 697399 /Source="Nicolas_upshifts" /id="U496" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.966033966033966" /psig="0.966033966033966" /xcortree=744 /SigmaFactorBS="aggtgagtctgctgaaaagcgggcttttttgttttgATTTTG AaaaggcgagaaagaGGGTAAACTACTACTGTTCaacacataaaagcgtgtcgaaata t" /listShort="S230, yebE, yebG, NA, S231" /GFF_Attribute="listLong" promotor_-35 697464..697471 /Source="Nicolas_upshift_promotors" /id="U497" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.876123876123876" /psig="0.999000999001" /xcortree=2463 /SigmaFactorBS="cgtgtcgaaatattttgcttaagcttacgggcgaagcTGATT GTAaacggctcatttcTCTAGTAGAATATGAATGCTttgtgcaagctgaagagtaggg g" /listShort="yebE, yebG" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 697485..697504 /Source="Nicolas_upshift_promotors" /id="U497" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.876123876123876" /psig="0.999000999001" /xcortree=2463 /SigmaFactorBS="cgtgtcgaaatattttgcttaagcttacgggcgaagcTGATT GTAaacggctcatttcTCTAGTAGAATATGAATGCTttgtgcaagctgaagagtaggg g" /listShort="yebE, yebG" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 697487 /Source="Nicolas_upshifts" /id="U497" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.876123876123876" /psig="0.999000999001" /xcortree=2463 /SigmaFactorBS="cgtgtcgaaatattttgcttaagcttacgggcgaagcTGATT GTAaacggctcatttcTCTAGTAGAATATGAATGCTttgtgcaagctgaagagtaggg g" /listShort="yebE, yebG" /GFF_Attribute="listLong" CDS 697538..698092 /gene="yebE" /locus_tag="BSU_06400" /old_locus_tag="BSU06400" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388521.2" /db_xref="EnsemblGenomes-Gn:BSU06400" /db_xref="EnsemblGenomes-Tr:CAB12459" /db_xref="GOA:O34624" /db_xref="InterPro:IPR019264" /db_xref="InterPro:IPR022930" /db_xref="SubtiList:BG12814" /db_xref="UniProtKB/Swiss-Prot:O34624" /translation="MMQTILSNGIAMVLIILIINIVYVSFFTIRMILTLKGQRYLAAG ISTIEILVYVTGLSLVLDNLDQIQNVIAYALGYGLGVIVGMKIEEKLALGYIMVNVIT KELDLDLPKQLREKGYGVTNWVAGGLEGDRTALQILTPRRYELQLYDTIKTLDSKAFI IAYEPKTIHGGFWVKAVKKRRIKE*" gene 697538..698092 /gene="yebE" /locus_tag="BSU_06400" /old_locus_tag="BSU06400" CDS 698092..698289 /gene="yebG" /locus_tag="BSU_06410" /old_locus_tag="BSU06410" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388523.1" /db_xref="EnsemblGenomes-Gn:BSU06410" /db_xref="EnsemblGenomes-Tr:CAB12461" /db_xref="InterPro:IPR025930" /db_xref="SubtiList:BG12816" /db_xref="UniProtKB/Swiss-Prot:O34700" /translation="MAKPKKKKFEVTEQQTIDAVLQQMKEEGYLPVRRMEEPIFMEKK ENGSIQIVPCGKKIVFEGKLI*" gene 698092..698289 /gene="yebG" /locus_tag="BSU_06410" /old_locus_tag="BSU06410" downshifts 698279 /Source="Nicolas_upshifts" /id="D318" /incds=0 /nref=2 /ntot=91 /MaxReadThrough="2.80904" /MaxDrop="2.65424" /score="17.462689" /energy="-17.6" /TU="U496" /idTUdmin="U497" /TUdmin=0 /isTUend="TRUE" promotor_-35 698335..698342 /Source="Nicolas_upshift_promotors" /id="U498" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.97902097902098" /psig=1 /xcortree=2428 /SigmaFactorBS="attagtagaatgaatttttgtatcgttcgataatatCGTTGA CAttatccatgtccgtTGTTAAGATAAACATGAAATcaaaacacgacctcatataatc t" /listShort="NA, S231, purE, purK, purB, purC, purS, purQ, purL, purF, S232, purM, purN, purH, purD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 698357..698376 /Source="Nicolas_upshift_promotors" /id="U498" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.97902097902098" /psig=1 /xcortree=2428 /SigmaFactorBS="attagtagaatgaatttttgtatcgttcgataatatCGTTGA CAttatccatgtccgtTGTTAAGATAAACATGAAATcaaaacacgacctcatataatc t" /listShort="NA, S231, purE, purK, purB, purC, purS, purQ, purL, purF, S232, purM, purN, purH, purD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 698359 /Source="Nicolas_upshifts" /id="U498" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.97902097902098" /psig=1 /xcortree=2428 /SigmaFactorBS="attagtagaatgaatttttgtatcgttcgataatatCGTTGA CAttatccatgtccgtTGTTAAGATAAACATGAAATcaaaacacgacctcatataatc t" /listShort="NA, S231, purE, purK, purB, purC, purS, purQ, purL, purF, S232, purM, purN, purH, purD" /GFF_Attribute="listLong" misc_RNA 698369..698471 /gene="gswD" /locus_tag="BSU_misc_RNA_10" /product="guanine riboswitch" /experiment="publication(s) with functional evidences, PMID:12787499, 15549109, 18072940, 19603494, 20022916, 20200045, 20204714, 21439477, 25023436, 27941758" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12787499, 15549109, 18072940, 19603494, 20022916, 20200045, 20204714, 21439477, 25023436, 27941758; Product type n: RNA" gene 698369..698471 /gene="gswD" /locus_tag="BSU_misc_RNA_10" S_feature 698472..698611 /Source="Nicolas_S_feature" /locus_tag="new_698472_698611" /HighExp="MG 10, MG 15, MG t5, BMM, MG 25, MG 5, HPh, GM 45, GM 90, M9-exp" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigB" /TUshortPSig="1, 0.966" /TUlongSig="NA" /TUlongPSig="NA" /label="S231" CDS 698612..699100 /gene="purE" /locus_tag="BSU_06420" /old_locus_tag="BSU06420" /EC_number="5.4.99.18" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 12787499, 16138311, 9683488; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="N5-carboxyaminoimidazole ribonucleotide mutase" /protein_id="NP_388524.1" /db_xref="EnsemblGenomes-Gn:BSU06420" /db_xref="EnsemblGenomes-Tr:CAB12462" /db_xref="GOA:P12044" /db_xref="InterPro:IPR000031" /db_xref="InterPro:IPR024694" /db_xref="InterPro:IPR033747" /db_xref="InterPro:IPR035893" /db_xref="SubtiList:BG10700" /db_xref="UniProtKB/Swiss-Prot:P12044" /translation="MQPLVGIIMGSTSDWETMKHACDILDELNVPYEKKVVSAHRTPD FMFEYAETARERGIKVIIAGAGGAAHLPGMTAAKTTLPVIGVPVQSKALNGMDSLLSI VQMPGGVPVATTSIGKAGAVNAGLLAAQILSAFDEDLARKLDERRENTKQTVLESSDQ LV*" gene 698612..699100 /gene="purE" /locus_tag="BSU_06420" /old_locus_tag="BSU06420" CDS 699093..700235 /gene="purK" /locus_tag="BSU_06430" /old_locus_tag="BSU06430" /EC_number="6.3.4.18" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 8998996, 9683488, 21931218, 25372694; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="N5-carboxyaminoimidazole ribonucleotide synthase" /protein_id="NP_388525.2" /db_xref="EnsemblGenomes-Gn:BSU06430" /db_xref="EnsemblGenomes-Tr:CAB12463" /db_xref="GOA:P12045" /db_xref="InterPro:IPR003135" /db_xref="InterPro:IPR005875" /db_xref="InterPro:IPR006115" /db_xref="InterPro:IPR011054" /db_xref="InterPro:IPR011761" /db_xref="InterPro:IPR013815" /db_xref="InterPro:IPR016185" /db_xref="SubtiList:BG10701" /db_xref="UniProtKB/Swiss-Prot:P12045" /translation="MSKQIIYPGAVIGIIGGGQLGKMMAVSAKQMGYKVAVVDPVKDS PCGQVADVEITAHYNDREAIRKLAEISDIITYEFENIDYDALHWLKDHAYLPQGSELL LITQNRETEKKAIQSAGCEVAPYSIVKTKNELKQAVQELRLPAVLKTCRGGYDGKGQF VIKEEAQMEQAAALLEHGTCILESWVSFKMELSVIVVRSVNGEISTFPTAENIHHNNI LFQSIVPARVEKGIQQKAADLAVKLADELNLVGPLAVEMFLTEDGELLVNELAPRPHN SGHYTLDLCETSQFEQHIRAVCGLPLGKTDLLKPGMMVNLLGDEVKLVEEDPELLKEA KLYIYGKHEIKKGRKMGHITFMKQPEDEWIQEITNKWMNRDGGQAE*" gene 699093..700235 /gene="purK" /locus_tag="BSU_06430" /old_locus_tag="BSU06430" CDS 700232..701527 /gene="purB" /locus_tag="BSU_06440" /old_locus_tag="BSU06440" /EC_number="4.3.2.2" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 9622500, 9683488, 9890879, 11063569, 12787499; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="adenylosuccinate lyase" /protein_id="NP_388526.1" /db_xref="EnsemblGenomes-Gn:BSU06440" /db_xref="EnsemblGenomes-Tr:CAB12464" /db_xref="GOA:P12047" /db_xref="InterPro:IPR000362" /db_xref="InterPro:IPR004769" /db_xref="InterPro:IPR008948" /db_xref="InterPro:IPR019468" /db_xref="InterPro:IPR020557" /db_xref="InterPro:IPR022761" /db_xref="InterPro:IPR024083" /db_xref="PDB:1F1O" /db_xref="SubtiList:BG10702" /db_xref="UniProtKB/Swiss-Prot:P12047" /translation="MIERYSRPEMSAIWTDENRFQAWLEVEILACEAWAELGVIPKED VKVMRENASFDINRILEIEKDTRHDVVAFTRAVSESLGEERKWVHYGLTSTDVVDTAL SYLLKQANDILLKDLERFVDIIKEKAKEHKYTVMMGRTHGVHAEPTTFGLKLALWHEE MKRNLERFKQAKAGIEVGKISGAVGTYANIDPFVEQYVCEKLGLKAAPISTQTLQRDR HADYMATLALIATSIEKFAVEIRGLQKSETREVEEFFAKGQKGSSAMPHKRNPIGSEN MTGMARVIRGYMMTAYENVPLWHERDISHSSAERIILPDATIALNYMLNRFSNIVKNL TVFPENMKRNMDRTLGLIYSQRVLLALIDTGLTREEAYDTVQPKAMEAWEKQVPFREL VEAEEKITSRLSPEKIADCFDYNYHLKNVDLIFERLGLA*" gene 700232..701527 /gene="purB" /locus_tag="BSU_06440" /old_locus_tag="BSU06440" promotor_-10 complement(700537..700556) /Source="Nicolas_upshift_promotors" /id="U499" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.791208791208791" /psig="0.993006993006993" /xcortree=1708 /SigmaFactorBS="tttcgctttttcttttataatgtcaacaaatctctcaagaTC CTTGAGcaaaatatcgtttgCCTGTTTTAATAAGTAGGAAagagccgtatcaacaacg t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(700558) /Source="Nicolas_upshifts" /id="U499" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.791208791208791" /psig="0.993006993006993" /xcortree=1708 /SigmaFactorBS="tttcgctttttcttttataatgtcaacaaatctctcaagaTC CTTGAGcaaaatatcgtttgCCTGTTTTAATAAGTAGGAAagagccgtatcaacaacg t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(700571..700578) /Source="Nicolas_upshift_promotors" /id="U499" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.791208791208791" /psig="0.993006993006993" /xcortree=1708 /SigmaFactorBS="tttcgctttttcttttataatgtcaacaaatctctcaagaTC CTTGAGcaaaatatcgtttgCCTGTTTTAATAAGTAGGAAagagccgtatcaacaacg t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 701601..702326 /gene="purC" /locus_tag="BSU_06450" /old_locus_tag="BSU06450" /EC_number="6.3.2.6" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 2495272, 9683488, 10784038, 12787499, 26118696; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="phosphoribosylaminoimidazole succinocarboxamide synthetase" /protein_id="NP_388527.1" /db_xref="EnsemblGenomes-Gn:BSU06450" /db_xref="EnsemblGenomes-Tr:CAB12465" /db_xref="GOA:P12046" /db_xref="InterPro:IPR001636" /db_xref="InterPro:IPR018236" /db_xref="InterPro:IPR028923" /db_xref="InterPro:IPR033934" /db_xref="SubtiList:BG10703" /db_xref="UniProtKB/Swiss-Prot:P12046" /translation="MNIVKNELLYEGKAKKIYKTDDENTLYVVYKDSATAFNGEKKAE ISGKGRLNNEISSLIFKHLHAKGINNHFIERISETEQLIKKVTIVPLEVVVRNVVAGS MSKRLGIPEGTELEQPIIEFYYKDDALGDPLITEDHIWLLKAATPEQVETIKSITTIV NEELQSIFDDCHVRLIDFKLEFGLDAEGQVLLADEISPDTCRLWDKETNEKLDKDLFR RNLGSLTDAYEEIFNRLGGIHHV*" gene 701601..702326 /gene="purC" /locus_tag="BSU_06450" /old_locus_tag="BSU06450" CDS 702319..702573 /gene="purS" /locus_tag="BSU_06460" /old_locus_tag="BSU06460" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:10784038, 12787499" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10784038, 12787499; Product type f: factor" /codon_start=1 /transl_table=11 /product="factor required for phosphoribosylformylglycinamidine synthetase activity" /protein_id="NP_388528.1" /db_xref="EnsemblGenomes-Gn:BSU06460" /db_xref="EnsemblGenomes-Tr:CAB12466" /db_xref="GOA:P12049" /db_xref="InterPro:IPR003850" /db_xref="InterPro:IPR036604" /db_xref="PDB:1T4A" /db_xref="PDB:1TWJ" /db_xref="SubtiList:BG10704" /db_xref="UniProtKB/Swiss-Prot:P12049" /translation="MYKVKVYVSLKESVLDPQGSAVQHALHSMTYNEVQDVRIGKYME LTIEKSDRDLDVLVKEMCEKLLANTVIEDYRYEVEEVVAQ*" gene 702319..702573 /gene="purS" /locus_tag="BSU_06460" /old_locus_tag="BSU06460" CDS 702570..703253 /gene="purQ" /locus_tag="BSU_06470" /old_locus_tag="BSU06470" /EC_number="6.3.5.3" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12787499, 15301530, 15301532, 10784038, 9683488" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12787499, 15301530, 15301532, 10784038, 9683488; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="phosphoribosylformylglycinamidine synthetase subunit I" /protein_id="NP_388529.1" /db_xref="EnsemblGenomes-Gn:BSU06470" /db_xref="EnsemblGenomes-Tr:CAB12467" /db_xref="GOA:P12041" /db_xref="InterPro:IPR010075" /db_xref="InterPro:IPR017926" /db_xref="InterPro:IPR029062" /db_xref="SubtiList:BG10706" /db_xref="UniProtKB/Swiss-Prot:P12041" /translation="MKFAVIVLPGSNCDIDMYHAVKDELGHEVEYVWHEETSLDGFDG VLIPGGFSYGDYLRCGAIARFANIMPAVKQAAAEGKPVLGVCNGFQILQELGLLPGAM RRNKDLKFICRPVELIVQNDETLFTASYEKGESITIPVAHGEGNFYCDDETLATLKEN NQIAFTYGSNINGSVSDIAGVVNEKGNVLGMMPHPERAVDELLGSADGLKLFQSIVKN WRETHVTTA*" gene 702570..703253 /gene="purQ" /locus_tag="BSU_06470" /old_locus_tag="BSU06470" CDS 703237..705465 /gene="purL" /locus_tag="BSU_06480" /old_locus_tag="BSU06480" /EC_number="6.3.5.3" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12787499, 15301532, 10784038, 9683488, 21671997" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12787499, 15301532, 10784038, 9683488, 21671997; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="phosphoribosylformylglycinamidine synthetase subunit II" /protein_id="NP_388530.2" /db_xref="EnsemblGenomes-Gn:BSU06480" /db_xref="EnsemblGenomes-Tr:CAB12468" /db_xref="GOA:P12042" /db_xref="InterPro:IPR010074" /db_xref="InterPro:IPR010918" /db_xref="InterPro:IPR016188" /db_xref="InterPro:IPR036676" /db_xref="InterPro:IPR036921" /db_xref="SubtiList:BG10705" /db_xref="UniProtKB/Swiss-Prot:P12042" /translation="MSLLLEPSKEQIKEEKLYQQMGVSDDEFALIESILGRLPNYTEI GIFSVMWSEHCSYKNSKPILRKFPTSGERVLQGPGEGAGIVDIGDNQAVVFKIESHNH PSALEPYQGAATGVGGIIRDVFSMGARPIAVLNSLRFGELTSPRVKYLFEEVVAGIAG YGNCIGIPTVGGEVQFDSSYEGNPLVNAMCVGLINHEDIKKGQAKGVGNTVMYVGAKT GRDGIHGATFASEEMSDSSEEKRSAVQVGDPFMEKLLLEACLEVIQCDALVGIQDMGA AGLTSSSAEMASKAGSGIEMNLDLIPQRETGMTAYEMMLSESQERMLLVIERGREQEI IDIFDKYDLEAVSVGHVTDDKMLRLTHKGEVVCELPVDALAEEAPVYHKPSQEPAYYR EFLETDVPAPQIEDANEMLKALLQQPTIASKEWVYDQYDYMVRTNTVVAPGSDAGVLR IRGTKKALAMTTDCNARYLYLDPEVGGKIAVAEAARNIICSGAEPLAVTDNLNFGNPE KPEIFWQIEKAADGISEACNVLSTPVIGGNVSLYNESNGTAIYPTPVIGMVGLIEDTA HITTQHFKQAGDLVYVIGETKPEFAGSELQKMTEGRIYGKAPQIDLDVELSRQKALLD AIKKGFVQSAHDVSEGGLGVAIAESVMTTENLGANVTVEGEAALLFSESQSRFVVSVK KEHQAAFEATVKDAVHIGEVTADGILAIQNQDGQQMIHAQTKELERVWKGAIPCLLKS KA*" gene 703237..705465 /gene="purL" /locus_tag="BSU_06480" /old_locus_tag="BSU06480" downshifts complement(703485) /Source="Nicolas_upshifts" /id="D319" /incds=1 /nref=1 /ntot=47 /MaxReadThrough="0.69202" /MaxDrop="3.99287" /score="-6.56256716" /energy="-16.7" /TU="NA" /idTUdmin="U499" /TUdmin="-3147" /isTUend="FALSE" CDS 705441..706871 /gene="purF" /locus_tag="BSU_06490" /old_locus_tag="BSU06490" /EC_number="2.4.2.14" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:9683488, 10049369, 12787499, 16321950, 17981983" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9683488, 10049369, 12787499, 16321950, 17981983; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="glutamine phosphoribosylpyrophosphate amidotransferase" /protein_id="NP_388531.2" /db_xref="EnsemblGenomes-Gn:BSU06490" /db_xref="EnsemblGenomes-Tr:CAB12469" /db_xref="GOA:P00497" /db_xref="InterPro:IPR000836" /db_xref="InterPro:IPR005854" /db_xref="InterPro:IPR017932" /db_xref="InterPro:IPR029055" /db_xref="InterPro:IPR029057" /db_xref="InterPro:IPR035584" /db_xref="PDB:1AO0" /db_xref="PDB:1GPH" /db_xref="SubtiList:BG10707" /db_xref="UniProtKB/Swiss-Prot:P00497" /translation="MLAEIKGLNEECGVFGIWGHEEAPQITYYGLHSLQHRGQEGAGI VATDGEKLTAHKGQGLITEVFQNGELSKVKGKGAIGHVRYATAGGGGYENVQPLLFRS QNNGSLALAHNGNLVNATQLKQQLENQGSIFQTSSDTEVLAHLIKRSGHFTLKDQIKN SLSMLKGAYAFLIMTETEMIVALDPNGLRPLSIGMMGDAYVVASETCAFDVVGATYLR EVEPGEMLIINDEGMKSERFSMNINRSICSMEYIYFSRPDSNIDGINVHSARKNLGKM LAQESAVEADVVTGVPDSSISAAIGYAEATGIPYELGLIKNRYVGRTFIQPSQALREQ GVRMKLSAVRGVVEGKRVVMVDDSIVRGTTSRRIVTMLREAGATEVHVKISSPPIAHP CFYGIDTSTHEELIASSHSVEEIRQEIGADTLSFLSVEGLLKGIGRKYDDSNCGQCLA CFTGKYPTEIYQDTVLPHVKEAVLTK*" gene 705441..706871 /gene="purF" /locus_tag="BSU_06490" /old_locus_tag="BSU06490" S_feature 706872..706972 /Source="Nicolas_S_feature" /locus_tag="new_706872_706972" /HighExp="MG 15, MG 25, MG 10, MG 5, aero, S0, MG t5, Gly, LPh, GM 90" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S232" CDS 706973..708013 /gene="purM" /locus_tag="BSU_06500" /old_locus_tag="BSU06500" /EC_number="6.3.3.1" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 9683488, 10508786, 12787499, 16321950; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="phosphoribosylaminoimidazole synthetase" /protein_id="NP_388532.2" /db_xref="EnsemblGenomes-Gn:BSU06500" /db_xref="EnsemblGenomes-Tr:CAB12470" /db_xref="GOA:P12043" /db_xref="InterPro:IPR004733" /db_xref="InterPro:IPR010918" /db_xref="InterPro:IPR016188" /db_xref="InterPro:IPR036676" /db_xref="InterPro:IPR036921" /db_xref="SubtiList:BG10708" /db_xref="UniProtKB/Swiss-Prot:P12043" /translation="MSEAYKNAGVDIEAGYEAVKRMKKHVERTKRLGVMGSLGGFGGM FDLSELSYQKPVLISGTDGVGTKLKLAFSMDKHDTIGVDAVAMCVNDVLAQGAEPLFF LDYLAVGKADPVKIEQIVQGVAEGCEQSGSALVGGETAEMPGLYTADEYDIAGFSVGV AEKDEIVTGEKIEEGHLLIGLSSSGLHSNGFSLVRKVLLDDAELDLDTTYEPFERPLG EELLEPTRIYVKPVLAAVKSGKIDGMAHVTGGGFIENIPRMLPEGLSAEIDHGSWPIP PIFSFLQEYGKLKEEDMFNVFNMGIGFVLAVKEEHLTDVIGTLESHGEKAYLIGRVKK GEGVTFGGAALS*" gene 706973..708013 /gene="purM" /locus_tag="BSU_06500" /old_locus_tag="BSU06500" CDS 708010..708597 /gene="purN" /locus_tag="BSU_06510" /old_locus_tag="BSU06510" /EC_number="2.1.2.2" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 9683488, 10569930, 12787499, 19574646; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="phosphoribosylglycinamide formyltransferase" /protein_id="NP_388533.2" /db_xref="EnsemblGenomes-Gn:BSU06510" /db_xref="EnsemblGenomes-Tr:CAB12471" /db_xref="GOA:P12040" /db_xref="InterPro:IPR001555" /db_xref="InterPro:IPR002376" /db_xref="InterPro:IPR004607" /db_xref="InterPro:IPR036477" /db_xref="SubtiList:BG10709" /db_xref="UniProtKB/Swiss-Prot:P12040" /translation="MKKFAVFASGNGSNFEAIVTRLKEENWDASAALLVCDKPQAKVI ERAEAFHIPSFAFEPKSYENKAAFEQAIIEQLRLHEVELIALAGYMRLIGDTLLQAYG GKIINIHPSLLPAFPGIDAVGQAFRAGVKVAGITVHYVDEGMDTGPIIAQKAIEIDEH DTLETIEQRIHKLEHKWYPSVIKQLLGLNNRGEKA*" gene 708010..708597 /gene="purN" /locus_tag="BSU_06510" /old_locus_tag="BSU06510" misc_feature 708020..708034 /Source="Nicolas_upshift_promotors" /id="U500" /multdbtbs="-" /comp="M18" /sig="SigL" /pcomp="0.52947052947053" /psig="0.52947052947053" /xcortree=2706 /SigmaFactorBS="aaaaaaggtgaaggcgtcacattcggcggtgcggcactttca tgaaaaagtTTGCGGTATTTGCATcaggaaacggttcaaacttcgaagccatcgtcac g" /listShort="purN, purH, purD" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 708029 /Source="Nicolas_upshifts" /id="U500" /multdbtbs="-" /comp="M18" /sig="SigL" /pcomp="0.52947052947053" /psig="0.52947052947053" /xcortree=2706 /SigmaFactorBS="aaaaaaggtgaaggcgtcacattcggcggtgcggcactttca tgaaaaagtTTGCGGTATTTGCATcaggaaacggttcaaacttcgaagccatcgtcac g" /listShort="purN, purH, purD" /GFF_Attribute="listLong" promotor_-10 complement(708296..708314) /Source="Nicolas_upshift_promotors" /id="U501" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1204 /SigmaFactorBS="tccaggaaacgccggaagaagcgatgggTGAATGttaatgat ttttcccCCATATGCTTGAAGGAGCGtatcaccgatcagcctcatatagccggcaaga g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(708303) /Source="Nicolas_upshifts" /id="U501" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1204 /SigmaFactorBS="tccaggaaacgccggaagaagcgatgggTGAATGttaatgat ttttcccCCATATGCTTGAAGGAGCGtatcaccgatcagcctcatatagccggcaaga g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(708330..708335) /Source="Nicolas_upshift_promotors" /id="U501" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1204 /SigmaFactorBS="tccaggaaacgccggaagaagcgatgggTGAATGttaatgat ttttcccCCATATGCTTGAAGGAGCGtatcaccgatcagcctcatatagccggcaaga g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 708594..710132 /gene="purH" /locus_tag="BSU_06520" /old_locus_tag="BSU06520" /EC_number="2.1.2.3" /EC_number="3.5.4.10" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12787499, 1937050, 9683488; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="fused phosphoribosylaminoimidazole carboxy formyl formyltransferase; inosine-monophosphate cyclohydrolase" /protein_id="NP_388534.2" /db_xref="EnsemblGenomes-Gn:BSU06520" /db_xref="EnsemblGenomes-Tr:CAB12472" /db_xref="GOA:P12048" /db_xref="InterPro:IPR002695" /db_xref="InterPro:IPR011607" /db_xref="InterPro:IPR016193" /db_xref="InterPro:IPR024051" /db_xref="InterPro:IPR036914" /db_xref="SubtiList:BG10710" /db_xref="UniProtKB/Swiss-Prot:P12048" /translation="MTIKRALISVSDKTNLVPFVKELTELGVEVISTGGTKKLLQENG VDVIGISEVTGFPEIMDGRLKTLHPNIHGGLLAVRGNEEHMAQINEHGIQPIDLVVVN LYPFKETISKEDVTYEEAIENIDIGGPGMLRAASKNHQDVTVIVDPADYSPVLNQIKE EGSVSLQKKRELAAKVFRHTAAYDALIADYLTNVVGEKEPEQFTVTFEKKQSLRYGEN PHQEATFYQTALPVKGSIAQAEQLHGKELSYNNIKDADAAVQIVREFTEPAAVAVKHM NPCGVGTGKTIAEAFDRAFEADKTSIFGGIIALNREVDKATAEALHNIFLEIIIAPSF SQEALDVLTAKKNLRLLTLDVSAAVQKEKQLTSVQGGLLIQDLDMHGFDDAEISIPTK REPNEQEWEDLKLAWKVVKHVKSNAIVLAKDNMTVGVGAGQMNRVGSAKIAIEQAGEK AKGSALGSDAYFPMPDTVEEAAKAGVTAIIQPGGSIRDEDSIKKADEYGIAMVFTGIR HFKH*" gene 708594..710132 /gene="purH" /locus_tag="BSU_06520" /old_locus_tag="BSU06520" CDS 710148..711416 /gene="purD" /locus_tag="BSU_06530" /old_locus_tag="BSU06530" /EC_number="6.3.4.13" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:9683488, 12787499, 16321950" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9683488, 12787499, 16321950; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="phosphoribosylglycinamide synthetase" /protein_id="NP_388535.1" /db_xref="EnsemblGenomes-Gn:BSU06530" /db_xref="EnsemblGenomes-Tr:CAB12473" /db_xref="GOA:P12039" /db_xref="InterPro:IPR000115" /db_xref="InterPro:IPR011054" /db_xref="InterPro:IPR011761" /db_xref="InterPro:IPR013815" /db_xref="InterPro:IPR016185" /db_xref="InterPro:IPR020559" /db_xref="InterPro:IPR020560" /db_xref="InterPro:IPR020561" /db_xref="InterPro:IPR020562" /db_xref="InterPro:IPR037123" /db_xref="PDB:2XCL" /db_xref="PDB:2XD4" /db_xref="SubtiList:BG10711" /db_xref="UniProtKB/Swiss-Prot:P12039" /translation="MNVLIIGKGGREHTLAWKAAQSSLVENVFAAPGNDGMAASAQLV NIEESDHAGLVSFAKQNQVGLTIVGPEVPLIEGLVDEFEKAGLHVFGPSKAAAIIEGS KQFAKDLMKKYDIPTAEYETFTSFDEAKAYVQEKGAPIVIKADGLAAGKGVTVAMTEE EAIACLHDFLEDEKFGDASASVVIEEYLSGEEFSLMAFVKGEKVYPMVIAQDHKRAFD GDKGPNTGGMGAYSPVPQISEETVRHAVETIVKPAAKAMVQEGRSFTGVLYAGLMLTE NGSKVIEFNARFGDPETQVVLPRMESDLVQVLLDLLDDKEVDLRWKDTAAVSVVLASE GYPESYAKGTPIGSLAAETEQVVVFHAGTKAEGGEFVTNGGRVANVTAFDETFEAARD RVYKAVDEIFKPGLFFRKDIGARALKAAQK*" gene 710148..711416 /gene="purD" /locus_tag="BSU_06530" /old_locus_tag="BSU06530" downshifts 711401 /Source="Nicolas_upshifts" /id="D320" /incds=0 /nref=140 /ntot=249 /MaxReadThrough="2.77191" /MaxDrop="5.90939" /score="30.0999687" /energy="-11.4" /TU="NA" /idTUdmin="U500" /TUdmin=6 /isTUend="TRUE" CDS complement(711456..711875) /gene="yezC" /locus_tag="BSU_06540" /old_locus_tag="BSU06540" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (Lrp/AsnC family)" /protein_id="NP_388536.2" /db_xref="EnsemblGenomes-Gn:BSU06540" /db_xref="EnsemblGenomes-Tr:CAB12474" /db_xref="GOA:O31497" /db_xref="InterPro:IPR000485" /db_xref="InterPro:IPR011008" /db_xref="InterPro:IPR011991" /db_xref="InterPro:IPR019885" /db_xref="InterPro:IPR019887" /db_xref="InterPro:IPR019888" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12874" /db_xref="UniProtKB/Swiss-Prot:O31497" /translation="MDDTDLQILSHLQRNGRLTMVELGKLVGLSSPSAAERVRKLEDK GVITGYSANICYEKLNKHVTAFILMEPKSCKHYAAFATSHPDVAENHRITGMYSYVTK VVTESVHTLEDFIDTSMAHGKPTTLVVLSSSSCHPAF*" gene complement(711456..711875) /gene="yezC" /locus_tag="BSU_06540" /old_locus_tag="BSU06540" misc_feature complement(711945..711964) /Source="Nicolas_upshift_promotors" /id="U502" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.99000999000999" /psig="0.999000999001" /xcortree=3125 /SigmaFactorBS="ccccctctctgattgatggctttattatagaaaaaataagac ggcatccaTATGCTACAATGAAGTTAAAtcaacagcattaccttacgatcaaaggaat t" /listShort="yezC" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(711954) /Source="Nicolas_upshifts" /id="U502" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.99000999000999" /psig="0.999000999001" /xcortree=3125 /SigmaFactorBS="ccccctctctgattgatggctttattatagaaaaaataagac ggcatccaTATGCTACAATGAAGTTAAAtcaacagcattaccttacgatcaaaggaat t" /listShort="yezC" /GFF_Attribute="listLong" CDS 712019..713293 /gene="yecA" /locus_tag="BSU_06550" /old_locus_tag="BSU06550" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406, 26319875, 27723097, 24678831; Product type t : transporter" /codon_start=1 /transl_table=11 /product="putative amino acid exporter" /protein_id="NP_388537.2" /db_xref="EnsemblGenomes-Gn:BSU06550" /db_xref="EnsemblGenomes-Tr:CAB12475" /db_xref="GOA:O34560" /db_xref="InterPro:IPR002293" /db_xref="SubtiList:BG12817" /db_xref="UniProtKB/Swiss-Prot:O34560" /translation="MLPELQRSITWIQGTALTIGAVLGCGILILPSVTADTAGPASLF VWVFMSFLSFFLVGTLARLVKIAPSAGGITAYVQLAFQKKAGAILGWIMLGSVPIGVP IIALTGAHYVSYITEAADWQITLIAGCMLAISILLHMRGIQLSANISTLVICVIVFLL VTSIAVSLPHVTIAEFKPFLPHGWSAAGSVSVMIFFSFVGWEMITPLAEEFHRPEKDV PLSLFLAASCVAGLYIMLSFVTVGTHSYGENGEIASLAMLISKGAGESGVYVTVCLAL FITFATIHANIAGFSRMVYALAREGHIPVFFGKLSATKRTPIRVLTAMAAVFGLVLAA HGLFQIDLTTLLKGPSAAFIASYICTMAAALKLLGRRDIGWWMALGAFVACAVIYSFS GWALLYPAVLAAAGYFYMKTKGGHKKKLDHVL*" gene 712019..713293 /gene="yecA" /locus_tag="BSU_06550" /old_locus_tag="BSU06550" downshifts 713242 /Source="Nicolas_upshifts" /id="D321" /incds=0 /nref=4 /ntot=64 /MaxReadThrough="0.796809999999999" /MaxDrop="2.92696" /score="1.68718502" /energy="-14.2" /TU="NA" /idTUdmin="U498" /TUdmin=1825 /isTUend="FALSE" CDS complement(713308..713535) /gene="yezF" /locus_tag="BSU_06559" /old_locus_tag="BSU06559" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_003097691.1" /db_xref="EnsemblGenomes-Gn:BSU06559" /db_xref="EnsemblGenomes-Tr:CAX52578" /db_xref="GOA:C0H3X3" /db_xref="InterPro:IPR021309" /db_xref="UniProtKB/Swiss-Prot:C0H3X3" /translation="MKPNISLINAVFRIACGLTIMSAASAKFTKKPWCRMHLFYIFMG AMKAGSGILRFCPVTYMFQHSDSGNNEHQNG*" gene complement(713308..713535) /gene="yezF" /locus_tag="BSU_06559" /old_locus_tag="BSU06559" downshifts complement(713319) /Source="Nicolas_upshifts" /id="D322" /incds=0 /nref=29 /ntot=46 /MaxReadThrough="0.14199" /MaxDrop="6.82335" /score="34.1397958" /energy="-13.9" /TU="NA" /idTUdmin="U504" /TUdmin=0 /isTUend="TRUE" S_feature complement(713536..713956) /Source="Nicolas_S_feature" /locus_tag="new_713536_713956_c" /HighExp="S8, S7, S5, S6, S4, ferm, nit, BT, Pyr, T5.0H" /AntisenseName="yerA" /AntisenseCor="0.38264258041500998" /AntisenseRegPval="-10.1" /CDS_PredictionProba="NA" /TUshortSig="SigGF" /TUshortPSig="0.996" /TUlongSig="NA" /TUlongPSig="NA" /label="S233" promotor_-35 713603..713608 /Source="Nicolas_upshift_promotors" /id="U503" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.59040959040959" /psig=1 /xcortree=1592 /SigmaFactorBS="aaaagttttttaatcgaaccttcaaaaatttgtaacgttttt atCGTGCGtgatgaggaaggaTGTGATACCATGAGTCTAATacatgtaaaggagagta t" /listShort="yerA, yerB, yerC" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 713619 /Source="Nicolas_upshifts" /id="U503" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.59040959040959" /psig=1 /xcortree=1592 /SigmaFactorBS="aaaagttttttaatcgaaccttcaaaaatttgtaacgttttt atCGTGCGtgatgaggaaggaTGTGATACCATGAGTCTAATacatgtaaaggagagta t" /listShort="yerA, yerB, yerC" /GFF_Attribute="listLong" promotor_-10 713622..713641 /Source="Nicolas_upshift_promotors" /id="U503" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.59040959040959" /psig=1 /xcortree=1592 /SigmaFactorBS="aaaagttttttaatcgaaccttcaaaaatttgtaacgttttt atCGTGCGtgatgaggaaggaTGTGATACCATGAGTCTAATacatgtaaaggagagta t" /listShort="yerA, yerB, yerC" /GFF_Attribute="listLong" /label="promotor_-10" CDS 713664..715406 /gene="yerA" /locus_tag="BSU_06560" /old_locus_tag="BSU06560" /EC_number="3.5.4.2" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 23109554; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative adenine deaminase YerA" /protein_id="NP_388538.1" /db_xref="EnsemblGenomes-Gn:BSU06560" /db_xref="EnsemblGenomes-Tr:CAB12476" /db_xref="GOA:O34909" /db_xref="InterPro:IPR006679" /db_xref="InterPro:IPR006680" /db_xref="InterPro:IPR011059" /db_xref="InterPro:IPR026912" /db_xref="InterPro:IPR032466" /db_xref="SubtiList:BG12829" /db_xref="UniProtKB/Swiss-Prot:O34909" /translation="MSERTFNWKNKDIRAQVDVVDSKLLPTLLLRNALVLNPYVKQWL KKNIWIYQDRIVYVGHELPNRAEEIHTIDCEGKYIVPGYIEPHAHPFQIYNPQTLAEY VSQYGTTTFVNDNLFLLLQSGKKKALTILNELKKQPVQYFWWSRYDLQTEVLNEDHVL PFDVRKQWIEHPDVIQGGEMTGWPRLVDGDDLMLHCMQATKKQRKRIEGHFPGASDKT LTKMKLFGADCDHEAMTGDEVMRRLELGYYVSLRNSSIRPDVRKILQELHEKGFRYYD HFFYTTDGATPNFYKGGMTNELIRIALEEGVPAIDAYNMASFNIAKYYQMDDYLGVVG PGRLASLNILEDPLNPNPVTVLSKGTILRENGCDLKAFTKTDWHKGGLVPLELSYDMT MDDLQFSMPMGVKMRNAVIMEPYMIEIDNSMEQLSFDHDESYLTMLDRHGKWRVNTMI KGFASSVQGFVSSFTTTGDIVAIGKNKADMLLAFARMKEIGGGIVLAENGNILHEIPL ALCGCASSEAYEDVLEKEQKLRDLLTERGYEFCDPIYTLLFLQSTHLPYIRITPRGIF DVMKKTVLFPSIMR*" gene 713664..715406 /gene="yerA" /locus_tag="BSU_06560" /old_locus_tag="BSU06560" promotor_-10 complement(713941..713952) /Source="Nicolas_upshift_promotors" /id="U504" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=923 /SigmaFactorBS="aaaaataagttatcattcacgaatgtcgttgttccgtattga gaCACATATtccgccagtgtttGGGGATTATATAtttgaaaaggatgtgcgtgcggtt c" /listShort="S233, yezF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(713956) /Source="Nicolas_upshifts" /id="U504" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=923 /SigmaFactorBS="aaaaataagttatcattcacgaatgtcgttgttccgtattga gaCACATATtccgccagtgtttGGGGATTATATAtttgaaaaggatgtgcgtgcggtt c" /listShort="S233, yezF" /GFF_Attribute="listLong" promotor_-35 complement(713966..713972) /Source="Nicolas_upshift_promotors" /id="U504" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=923 /SigmaFactorBS="aaaaataagttatcattcacgaatgtcgttgttccgtattga gaCACATATtccgccagtgtttGGGGATTATATAtttgaaaaggatgtgcgtgcggtt c" /listShort="S233, yezF" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 713987 /Source="Nicolas_upshifts" /id="D323" /incds=1 /nref=13 /ntot=109 /MaxReadThrough="7.92321" /MaxDrop="3.44855" /score="1.68718502" /energy="-14.2" /TU="U503" /idTUdmin="U498" /TUdmin=2570 /isTUend="FALSE" promotor_-35 715380..715386 /Source="Nicolas_upshift_promotors" /id="U505" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.4995004995005" /psig="0.996003996003996" /xcortree=2171 /SigmaFactorBS="cgcattacgccaagaggaatattcgacgtcatgaaaaaaact GTACTCTttccatcgataaTGCGTTAAAATATAAAAGAGcagggagccgacatatgaa a" /listShort="yerB, yerC" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 715398 /Source="Nicolas_upshifts" /id="U505" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.4995004995005" /psig="0.996003996003996" /xcortree=2171 /SigmaFactorBS="cgcattacgccaagaggaatattcgacgtcatgaaaaaaact GTACTCTttccatcgataaTGCGTTAAAATATAAAAGAGcagggagccgacatatgaa a" /listShort="yerB, yerC" /GFF_Attribute="listLong" promotor_-10 715399..715418 /Source="Nicolas_upshift_promotors" /id="U505" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.4995004995005" /psig="0.996003996003996" /xcortree=2171 /SigmaFactorBS="cgcattacgccaagaggaatattcgacgtcatgaaaaaaact GTACTCTttccatcgataaTGCGTTAAAATATAAAAGAGcagggagccgacatatgaa a" /listShort="yerB, yerC" /GFF_Attribute="listLong" /label="promotor_-10" CDS 715433..716428 /gene="yerB" /locus_tag="BSU_06570" /old_locus_tag="BSU06570" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12073041; Product type lp: lipoprotein" /codon_start=1 /transl_table=11 /product="putative lipoprotein" /protein_id="NP_388539.1" /db_xref="EnsemblGenomes-Gn:BSU06570" /db_xref="EnsemblGenomes-Tr:CAB12477" /db_xref="GOA:O34968" /db_xref="InterPro:IPR021416" /db_xref="InterPro:IPR023158" /db_xref="InterPro:IPR035328" /db_xref="PDB:2PSB" /db_xref="SubtiList:BG12830" /db_xref="UniProtKB/Swiss-Prot:O34968" /translation="MKKWMTVCALCFVFFLLVSCQQKDAVPDTAKKLKAPLTGLKTEQ KVTERRPVAVVVNNHPKARPQSGLSKADIVIEALAEGQITRFLAIFQSQMPETVGPVR SAREYFVTLSNGFDSIFVHHGWSPGAKKQLESGAADYMNGLDFDGSLFWRADFSKPPH NSYTSYDYIKKAAEQKGYKLKQETNPLLFQTSDAKPANESYNVRVDYGTNNVTNLVEY NYDKKAEFYTRSSDGVITTDRETGKPVAMQNIFIVEASHHIIDQDGRRDIDLESGGKG LLFQHGNVIETDWKQVNGRIVPVKDGKWLPFVPGKTWINIVPDLDAASISKGEGV*" gene 715433..716428 /gene="yerB" /locus_tag="BSU_06570" /old_locus_tag="BSU06570" CDS 716431..716745 /gene="yerC" /locus_tag="BSU_06580" /old_locus_tag="BSU06580" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); PubMedId: 23504016, 26735940; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional repressor-histidine operons" /protein_id="NP_388540.1" /db_xref="EnsemblGenomes-Gn:BSU06580" /db_xref="EnsemblGenomes-Tr:CAB12478" /db_xref="GOA:Q7BVT7" /db_xref="InterPro:IPR000831" /db_xref="InterPro:IPR010921" /db_xref="InterPro:IPR013368" /db_xref="SubtiList:BG12831" /db_xref="UniProtKB/Swiss-Prot:Q7BVT7" /translation="MQIDKLRGKELDQLFNSILSLKDLEECYRFFDDLCTINEIQSLA QRLEVARMLREGNTYHKIETETGASTATISRVKRCLNYGNDAYEMALDRVKETETESS SK*" gene 716431..716745 /gene="yerC" /locus_tag="BSU_06580" /old_locus_tag="BSU06580" downshifts 716608 /Source="Nicolas_upshifts" /id="D324" /incds=1 /nref=1 /ntot=25 /MaxReadThrough="7.1005" /MaxDrop="2.3494" /score="10.9674476" /energy="-15.8" /TU="U503,U505" /idTUdmin="U503" /TUdmin="-374" /isTUend="FALSE" downshifts 716750 /Source="Nicolas_upshifts" /id="D325" /incds=0 /nref=78 /ntot=262 /MaxReadThrough="3.58776" /MaxDrop="5.59364" /score="10.9674476" /energy="-15.8" /TU="U503,U505" /idTUdmin="U503" /TUdmin="-232" /isTUend="FALSE" CDS complement(716780..718357) /gene="yerD" /locus_tag="BSU_06590" /old_locus_tag="BSU06590" /EC_number="1.4.1.13" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15805528, 17114254, 19948795; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative osmotic shock glutamate synthase subunit (flavoprotein subunit, ferredoxin-dependent)" /protein_id="NP_388541.1" /db_xref="EnsemblGenomes-Gn:BSU06590" /db_xref="EnsemblGenomes-Tr:CAB12479" /db_xref="GOA:O34849" /db_xref="InterPro:IPR002932" /db_xref="InterPro:IPR013785" /db_xref="InterPro:IPR024188" /db_xref="InterPro:IPR027283" /db_xref="SubtiList:BG12832" /db_xref="UniProtKB/Swiss-Prot:O34849" /translation="METIIIALIAFIIGIIAIPIVLFAWIYIKDEKQQEHSILRNYPV IGRFRYILEKIGPELRQYLYSNDNEEQPFSRKEYEQTVISGKYKSRMMGFGSVRDFDK PGYYIRNAMFPKQREEMHVNQTPKIETQIYKMDADNLFKRKEHAEHIKADPYFLHPDD VQVIGEHTCEKPFYVKGLVGQSAMSYGSLGERAVTALSKGLHLAGGTWMNTGEGGLSE YHLKGGADIICQIGPGLFGVRKRNGEFSWEEFKRKSRIDQIKAFELKLAQGAKTRGGH VDGAKVSEEVADIRNVEPGKSIDSPNRFYEFSNPPEMLDFIEKLRDVGQKPVGIKLVA GHPEELHELFSHMQKSGKHPDFITIDGSEGGTGASFYELADTVGLPIMTALPIVDTLL KQYGLRSQLKIFASGKLLTPDKIAVALALGADFVNIARGMMFSVGCIRALVCHTNTCP AGVATTDPKLQKALSVEEKQHRVCNYVISLREGLFNLAAAAGINSPIHFSKEHVVYRK EDGSIINIDNLIHQFVS*" gene complement(716780..718357) /gene="yerD" /locus_tag="BSU_06590" /old_locus_tag="BSU06590" downshifts complement(716794) /Source="Nicolas_upshifts" /id="D326" /incds=0 /nref=7 /ntot=24 /MaxReadThrough="2.99325" /MaxDrop="5.6389" /score="34.8793815" /energy="-15.8" /TU="U506" /idTUdmin="U506" /TUdmin="-88" /isTUend="FALSE" promotor_-10 complement(718371..718390) /Source="Nicolas_upshift_promotors" /id="U506" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=244 /SigmaFactorBS="ggcaggagcacacatttttcaccagattccttctgctatTGT TTGGaaagtgttctactgTGGAAATGGTTACATAAAAAgggaggctgagagatggaaa c" /listShort="yerD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(718390) /Source="Nicolas_upshifts" /id="U506" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=244 /SigmaFactorBS="ggcaggagcacacatttttcaccagattccttctgctatTGT TTGGaaagtgttctactgTGGAAATGGTTACATAAAAAgggaggctgagagatggaaa c" /listShort="yerD" /GFF_Attribute="listLong" promotor_-35 complement(718405..718411) /Source="Nicolas_upshift_promotors" /id="U506" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=244 /SigmaFactorBS="ggcaggagcacacatttttcaccagattccttctgctatTGT TTGGaaagtgttctactgTGGAAATGGTTACATAAAAAgggaggctgagagatggaaa c" /listShort="yerD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 718554..718557 /Source="Nicolas_upshift_promotors" /id="U507" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.95004995004995" /psig=1 /xcortree=2610 /SigmaFactorBS="aaaacacctttttcagtgaataacgagattaacggctttttc cGTTTttccgcgctatgtgaaTTTGTTATAATGTTTAAATGgtaacaaacgaatggag g" /listShort="pcrB, pcrA, ligA, yerH, S234, yerI" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 718571 /Source="Nicolas_upshifts" /id="U507" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.95004995004995" /psig=1 /xcortree=2610 /SigmaFactorBS="aaaacacctttttcagtgaataacgagattaacggctttttc cGTTTttccgcgctatgtgaaTTTGTTATAATGTTTAAATGgtaacaaacgaatggag g" /listShort="pcrB, pcrA, ligA, yerH, S234, yerI" /GFF_Attribute="listLong" promotor_-10 718574..718593 /Source="Nicolas_upshift_promotors" /id="U507" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.95004995004995" /psig=1 /xcortree=2610 /SigmaFactorBS="aaaacacctttttcagtgaataacgagattaacggctttttc cGTTTttccgcgctatgtgaaTTTGTTATAATGTTTAAATGgtaacaaacgaatggag g" /listShort="pcrB, pcrA, ligA, yerH, S234, yerI" /GFF_Attribute="listLong" /label="promotor_-10" CDS 718622..719308 /gene="pcrB" /locus_tag="BSU_06600" /old_locus_tag="BSU06600" /function="16.13: Shape" /function="16.2: Construct biomass (Anabolism)" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:16377641, 21761520, 21214173, 27226549" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16377641, 21761520, 21214173, 27226549; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="heptaprenylglyceryl-phosphate synthase" /protein_id="NP_388542.1" /db_xref="EnsemblGenomes-Gn:BSU06600" /db_xref="EnsemblGenomes-Tr:CAB12480" /db_xref="GOA:O34790" /db_xref="InterPro:IPR008205" /db_xref="PDB:1VIZ" /db_xref="PDB:3VZX" /db_xref="PDB:3VZY" /db_xref="PDB:3VZZ" /db_xref="PDB:3W00" /db_xref="SubtiList:BG12833" /db_xref="UniProtKB/Swiss-Prot:O34790" /translation="MYDVTEWKHVFKLDPNKDLPDEQLEILCESGTDAVIIGGSDGVT EDNVLRMMSKVRRFLVPCVLEVSAIEAIVPGFDLYFIPSVLNSKNADWIVGMHQKAMK EYGELMSMEEIVAEGYCIANPDCKAAALTEADADLNMDDIVAYARVSELLQLPIFYLE YSGVLGDIEAVKKTKAVLETSTLFYGGGIKDAETAKQYAEHADVIVVGNAVYEDFDRA LKTVAAVKGE*" gene 718622..719308 /gene="pcrB" /locus_tag="BSU_06600" /old_locus_tag="BSU06600" CDS 719370..721589 /gene="pcrA" /locus_tag="BSU_06610" /old_locus_tag="BSU06610" /EC_number="3.6.4.12" /function="16.6: Maintain" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12073041, 12682299, 14594837, 16267290, 26070154; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="ATP-dependent DNA helicase" /protein_id="NP_388543.1" /db_xref="EnsemblGenomes-Gn:BSU06610" /db_xref="EnsemblGenomes-Tr:CAB12481" /db_xref="GOA:O34580" /db_xref="InterPro:IPR000212" /db_xref="InterPro:IPR005751" /db_xref="InterPro:IPR014016" /db_xref="InterPro:IPR014017" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR034739" /db_xref="SubtiList:BG12834" /db_xref="UniProtKB/Swiss-Prot:O34580" /translation="MNYISNQLLSGLNPVQQEAVKTTDGPLLLMAGAGSGKTRVLTHR IAYLMAEKHVAPWNILAITFTNKAAREMKERVESILGPGADDIWISTFHSMCVRILRR DIDRIGINRNFSILDTADQLSVIKGILKERNLDPKKFDPRSILGTISSAKNELTEPEE FSKVAGGYYDQVVSDVYADYQKKLLKNQSLDFDDLIMTTIKLFDRVPEVLEFYQRKFQ YIHVDEYQDTNRAQYMLVKQLAERFQNLCVVGDSDQSIYRWRGADITNILSFEKDYPN ASVILLEQNYRSTKRILRAANEVIKNNSNRKPKNLWTENDEGIKISYYRGDNEFGEGQ FVAGKIHQLHSTGKRKLSDIAILYRTNAQSRVIEETLLKAGLNYNIVGGTKFYDRKEI KDILAYLRLVSNPDDDISFTRIVNVPKRGVGATSLEKIASYAAINGLSFFQAIQQVDF IGVSAKAANALDSFRQMIENLTNMQDYLSITELTEEILDKTEYREMLKAEKSIEAQSR LENIDEFLSVTKNFEQKSEDKTLVAFLTDLALIADIDQLDQKEEESGGKDAITLMTLH AAKGLEFPVVFLMGLEEGVFPHSRSLMEEAEMEEERRLAYVGITRAEQELYLTNAKMR TLFGRTNMNPESRFIAEIPDDLLENLNEKKETRATSARKMQPRRGPVSRPVSYASKTG GDTLNWAVGDKAGHKKWGTGTVVSVKGEGEGTELDIAFPSPVGVKRLLAAFAPIEKQ* " gene 719370..721589 /gene="pcrA" /locus_tag="BSU_06610" /old_locus_tag="BSU06610" CDS 721613..723619 /gene="ligA" /locus_tag="BSU_06620" /old_locus_tag="BSU06620" /EC_number="6.5.1.2" /function="16.6: Maintain" /function="16.9: Replicate" /experiment="publication(s) with functional evidences, PMID:164915, 11095673, 12682299, 16267290" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 164915, 11095673, 12682299, 16267290; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="DNA ligase (NAD-dependent)" /protein_id="NP_388544.1" /db_xref="EnsemblGenomes-Gn:BSU06620" /db_xref="EnsemblGenomes-Tr:CAB12482" /db_xref="GOA:O31498" /db_xref="InterPro:IPR001357" /db_xref="InterPro:IPR001679" /db_xref="InterPro:IPR003583" /db_xref="InterPro:IPR004149" /db_xref="InterPro:IPR004150" /db_xref="InterPro:IPR010994" /db_xref="InterPro:IPR012340" /db_xref="InterPro:IPR013839" /db_xref="InterPro:IPR013840" /db_xref="InterPro:IPR018239" /db_xref="InterPro:IPR033136" /db_xref="InterPro:IPR036420" /db_xref="SubtiList:BG12835" /db_xref="UniProtKB/Swiss-Prot:O31498" /translation="MDKETAKQRAEELRRTINKYSYEYYTLDEPSVPDAEYDRLMQEL IAIEEEHPDLRTPDSPTQRVGGAVLEAFQKVTHGTPMLSLGNAFNADDLRDFDRRVRQ SVGDDVAYNVELKIDGLAVSLRYEDGYFVRGATRGDGTTGEDITENLKTIRNIPLKMN RELSIEVRGEAYMPKRSFEALNEERIKNEEEPFANPRNAAAGSLRQLDPKIAAKRNLD IFVYSIAELDEMGVETQSQGLDFLDELGFKTNQERKKCGSIEEVITLIDELQAKRADL PYEIDGIVIKVDSLDQQEELGFTAKSPRWAIAYKFPAEEVVTKLLDIELNVGRTGVIT PTAILEPVKVAGTTVSRASLHNEDLIKEKDIRILDKVVVKKAGDIIPEVVNVLVDQRT GEEKEFSMPTECPECGSELVRIEGEVALRCINPECPAQIREGLIHFVSRNAMNIDGLG ERVITQLFEENLVRNVADLYKLTKERVIQLERMGEKSTENLISSIQKSKENSLERLLF GLGIRFIGSKAAKTLAMHFESLENLKKASKEELLAVDEIGEKMADAVITYFHKEEMLE LLNELQELGVNTLYKGPKKVKAEDSDSYFAGKTIVLTGKLEELSRNEAKAQIEALGGK LTGSVSKNTDLVIAGEAAGSKLTKAQELNIEVWNEEQLMGELKK*" gene 721613..723619 /gene="ligA" /locus_tag="BSU_06620" /old_locus_tag="BSU06620" CDS 723635..724825 /gene="yerH" /locus_tag="BSU_06630" /old_locus_tag="BSU06630" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 16267290; Product type lp: lipoprotein" /codon_start=1 /transl_table=11 /product="putative lipoprotein" /protein_id="NP_388545.1" /db_xref="EnsemblGenomes-Gn:BSU06630" /db_xref="EnsemblGenomes-Tr:CAB12483" /db_xref="GOA:O34629" /db_xref="InterPro:IPR011426" /db_xref="SubtiList:BG12836" /db_xref="UniProtKB/Swiss-Prot:O34629" /translation="MKKTLALAATAAVLMLSACSSGFGGEKEEEITQKTAKSSEKAIV PKYNISDSYYKMVLPFKAGKARGLTTEQLNTRLDIDEFETGLMRLAQDSFSTDDYLFQ EGQYLDEDTVLSWLARKKTGSDLKKAEKEDKNFKNEGLNPALPSSGSTEEKNESSPIY LASMLEHDYLVRKDKNSIQLGGVMIGLALNSVYYYREKTGDPQKEVEIKDSTLRQQGE KIAQEVINRLRKKDNLKNVPITVALYKQASKTSIVPGNFIAKTEVKAGSTDISNWDDI NEKYVFYPADTTTAEKYPDDTEVFKRFKNSIEEYFPNYTGVVGTALYENDEMKKMKID IPMQFYGKSEVVAFTQFLTGEVMDYYSKSSVDVEVNITSSDGQEAVIIRNAGDKEPTV HIYD*" gene 723635..724825 /gene="yerH" /locus_tag="BSU_06630" /old_locus_tag="BSU06630" misc_feature complement(723830..723834) /Source="Nicolas_upshift_promotors" /id="U508" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.986013986013986" /psig="0.000999000999001" /xcortree=36 /SigmaFactorBS="atcagccctgtttcaaattcgtcaatgtccagccttgtattc agctgttccgttgttaagCCGCGcgctttgcctgccttaaacggcagcaccattttgt a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(723834) /Source="Nicolas_upshifts" /id="U508" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.986013986013986" /psig="0.000999000999001" /xcortree=36 /SigmaFactorBS="atcagccctgtttcaaattcgtcaatgtccagccttgtattc agctgttccgttgttaagCCGCGcgctttgcctgccttaaacggcagcaccattttgt a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" misc_feature 724862..724881 /Source="Nicolas_upshift_promotors" /id="U509" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.971028971028971" /psig=1 /xcortree=3168 /SigmaFactorBS="tcacatttatgactgatagaaaacccttgtgccatattggca caagggttttTATGTTACAATTAACAGGAAaagggaaaatattttcacttctgccgaa a" /listShort="S234, yerI" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" S_feature 724870..724986 /Source="Nicolas_S_feature" /locus_tag="new_724870_724986" /HighExp="LoTm, B60, Lbstat, B36, BI, M9-stat, T1.30H, ferm, T3.30H, M40t90" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="1, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S234" upshifts 724870 /Source="Nicolas_upshifts" /id="U509" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.971028971028971" /psig=1 /xcortree=3168 /SigmaFactorBS="tcacatttatgactgatagaaaacccttgtgccatattggca caagggttttTATGTTACAATTAACAGGAAaagggaaaatattttcacttctgccgaa a" /listShort="S234, yerI" /GFF_Attribute="listLong" downshifts complement(724934) /Source="Nicolas_upshifts" /id="D327" /incds=0 /nref=2 /ntot=118 /MaxReadThrough="1.21197" /MaxDrop="3.77048" /score="18.5253059" /energy="-17.7" /TU="NA" /idTUdmin="U511" /TUdmin=1122 /isTUend="FALSE" CDS 724987..725997 /gene="yerI" /locus_tag="BSU_06640" /old_locus_tag="BSU06640" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative kinase" /protein_id="NP_388546.1" /db_xref="EnsemblGenomes-Gn:BSU06640" /db_xref="EnsemblGenomes-Tr:CAB12484" /db_xref="InterPro:IPR002575" /db_xref="InterPro:IPR011009" /db_xref="SubtiList:BG12837" /db_xref="UniProtKB/Swiss-Prot:O34640" /translation="MLDVHKDIKKIFHEEQVLAEAAARYGFSKDQVRFLADAENYVYE CMKDNQPYILKITHTIRRSSDYMMGEMEWLRHLAIGGISVAKPLPSLNGKDVEAVPDG NGGSFLLRVYEKAPGQKVDESDWNETLFYELGRYTGSMHSLTKSYKLSNPAFKRQEWD EEEQLKLRKYVPEDQIKVFQQADSLMNELRRLPKSQDNYGLVHADLHHGNFNWDHGKI TAFDFDDIGYNWFVNDISILLYNVLWYPVVPYDDKAAFTEEFMTHFMKGYWEENELDP AWLMIIPDFLRLRHMLIYGLLHQMFDLNTIGEEEKEMLAGFRRDIENGTPITAFDFSA LV*" gene 724987..725997 /gene="yerI" /locus_tag="BSU_06640" /old_locus_tag="BSU06640" promotor_no_box complement(725004..725104) /Source="Nicolas_upshift_promotors" /id="U510" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.993006993006993" /psig=0 /xcortree=53 /SigmaFactorBS="tttccgcatcagccagaaaacgcacctgatcttttgagaaac cgtatctcgctgcagcttctgccaaaacctgctcttcatgaaatatttttttgatatc t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts complement(725044) /Source="Nicolas_upshifts" /id="U510" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.993006993006993" /psig=0 /xcortree=53 /SigmaFactorBS="tttccgcatcagccagaaaacgcacctgatcttttgagaaac cgtatctcgctgcagcttctgccaaaacctgctcttcatgaaatatttttttgatatc t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" downshifts 725980 /Source="Nicolas_upshifts" /id="D328" /incds=0 /nref=137 /ntot=253 /MaxReadThrough="3.07041" /MaxDrop="5.10987" /score="12.7441524" /energy="-17" /TU="NA" /idTUdmin="U507" /TUdmin=0 /isTUend="TRUE" S_feature 726024..726828 /Source="Nicolas_S_feature" /locus_tag="new_726024_726828" /HighExp="B60, B36, LoTm, M9-stat, Cold, T1.30H, T0.30H, ferm, Lbstat, LBGstat" /AntisenseName="sapB" /AntisenseCor="-0.57665624439942198" /AntisenseRegPval="-24.5" /CDS_PredictionProba="NA" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S235" CDS complement(726035..726733) /gene="sapB" /locus_tag="BSU_06650" /old_locus_tag="BSU06650" /function="16.1: Circulate" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 410907, 9043134, 14708580, 27350030, 28181542; Product type t : transporter" /codon_start=1 /transl_table=11 /product="putative magnesium transporter" /protein_id="NP_388547.1" /db_xref="EnsemblGenomes-Gn:BSU06650" /db_xref="EnsemblGenomes-Tr:CAB12485" /db_xref="GOA:Q45514" /db_xref="InterPro:IPR003416" /db_xref="SubtiList:BG11845" /db_xref="UniProtKB/Swiss-Prot:Q45514" /translation="MLLSWYIDPDILLKLGIATLIGMVIGLERELKNKPLGLKTCIVI AVSSCMLTIVSINAAYHFPKYYRIMMDPLRLPAQIISGVGFIGAGVILRKSNDVISGL TTSAMIWGAAGLGLATGAGFYKEAFASLLFILISVEFLPWVVRKIGPDRLQEKDIRIR MSLSDKDKMTEILKEMKRRDIKAHSVRIDDLGEKDFPIMEVKVRVHKNRYTTDVYYDI KAIEGVVGVKCDTL*" gene complement(726035..726733) /gene="sapB" /locus_tag="BSU_06650" /old_locus_tag="BSU06650" downshifts complement(726056) /Source="Nicolas_upshifts" /id="D329" /incds=0 /nref=26 /ntot=129 /MaxReadThrough="2.5379" /MaxDrop="3.83708" /score="20.8493264" /energy="-16.2" /TU="NA" /idTUdmin="U511" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(726753..726771) /Source="Nicolas_upshift_promotors" /id="U511" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.684315684315684" /psig="0.684315684315684" /xcortree=1465 /SigmaFactorBS="aagccatcaagcgcagcttggtggcttttgtgctcttgtttt GCTATAaatactgtgagaaaaTCATATTTATTTAAAAACAccatagagaagggggaag t" /listShort="sapB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(726774) /Source="Nicolas_upshifts" /id="U511" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.684315684315684" /psig="0.684315684315684" /xcortree=1465 /SigmaFactorBS="aagccatcaagcgcagcttggtggcttttgtgctcttgtttt GCTATAaatactgtgagaaaaTCATATTTATTTAAAAACAccatagagaagggggaag t" /listShort="sapB" /GFF_Attribute="listLong" promotor_-35 complement(726787..726792) /Source="Nicolas_upshift_promotors" /id="U511" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.684315684315684" /psig="0.684315684315684" /xcortree=1465 /SigmaFactorBS="aagccatcaagcgcagcttggtggcttttgtgctcttgtttt GCTATAaatactgtgagaaaaTCATATTTATTTAAAAACAccatagagaagggggaag t" /listShort="sapB" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(726840..728318) /gene="opuE" /locus_tag="BSU_06660" /old_locus_tag="BSU06660" /function="16.8: Protect" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:9701821, 11902719, 14996799, 15849754, 16850406, 17183215, 22685134" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9701821, 11902719, 14996799, 15849754, 16850406, 17183215, 22685134; Product type t: transporter" /codon_start=1 /transl_table=11 /product="proline transporter" /protein_id="NP_388548.1" /db_xref="EnsemblGenomes-Gn:BSU06660" /db_xref="EnsemblGenomes-Tr:CAB12486" /db_xref="GOA:O06493" /db_xref="InterPro:IPR001734" /db_xref="InterPro:IPR011851" /db_xref="InterPro:IPR018212" /db_xref="SubtiList:BG12641" /db_xref="UniProtKB/Swiss-Prot:O06493" /translation="MSIEIIISLGIYFIAMLLIGWYAFKKTTDINDYMLGGRGLGPFV TALSAGAADMSGWMLMGVPGAMFATGLSTLWLALGLTIGAYSNYLLLAPRLRAYTEAA DDAITIPDFFDKRFQHSSSLLKIVSALIIMIFFTLYTSSGMVSGGRLFESAFGADYKL GLFLTTAVVVLYTLFGGFLAVSLTDFVQGAIMFAALVLVPIVAFTHVGGVAPTFHEID AVNPHLLDIFKGASVISIISYLAWGLGYYGQPHIIVRFMAIKDIKDLKPARRIGMSWM IITVLGSVLTGLIGVAYAHKFGVAVKDPEMIFIIFSKILFHPLITGFLLSAILAAIMS SISSQLLVTASAVTEDLYRSFFRRKASDKELVMIGRLSVLVIAVIAVLLSLNPNSTIL DLVGYAWAGFGSAFGPAILLSLYWKRMNEWGALAAMIVGAATVLIWITTGLAKSTGVY EIIPGFILSMIAGIIVSMITKRPAKASYRLFGVMEKLLKRKK*" gene complement(726840..728318) /gene="opuE" /locus_tag="BSU_06660" /old_locus_tag="BSU06660" downshifts complement(726854) /Source="Nicolas_upshifts" /id="D330" /incds=0 /nref=43 /ntot=142 /MaxReadThrough="5.35634" /MaxDrop="4.34381" /score="9.43100511" /energy="-13.8" /TU="U512,U513" /idTUdmin="U511" /TUdmin="-798" /isTUend="FALSE" upshifts complement(727706) /Source="Nicolas_upshifts" /id="U512" /multdbtbs="-" /comp="M18" /sig="Sig-" /pcomp="0.475524475524476" /psig="0.475524475524476" /xcortree=138 /SigmaFactorBS="gacttcgtgcagggtgcgatcatgtttgcagcactagtgctt gtGCCGATCGTTGCTTttacccatgtgggcggcgttgctccgactttccatgaaatcg a" /listShort="sapB" /GFF_Attribute="listLong" misc_feature complement(727709..727722) /Source="Nicolas_upshift_promotors" /id="U512" /multdbtbs="-" /comp="M18" /sig="Sig-" /pcomp="0.475524475524476" /psig="0.475524475524476" /xcortree=138 /SigmaFactorBS="gacttcgtgcagggtgcgatcatgtttgcagcactagtgctt gtGCCGATCGTTGCTTttacccatgtgggcggcgttgctccgactttccatgaaatcg a" /listShort="sapB" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" S_feature complement(728319..728449) /Source="Nicolas_S_feature" /locus_tag="new_728319_728449_c" /HighExp="Salt, HiOs, Etha, Gly, MG 25, MG 45, M9-exp, MG t5, MG 15, GM 5" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigB" /TUshortPSig="0.954" /TUlongSig="NA" /TUlongPSig="NA" /label="S236" promotor_-10 complement(728440..728458) /Source="Nicolas_upshift_promotors" /id="U513" /multdbtbs="SigA,SigB" /comp="M11" /sig="SigB" /pcomp="0.954045954045954" /psig="0.954045954045954" /xcortree=137 /SigmaFactorBS="tttgcaacggtatttccagcttatgatcaaTGTTTCAtcgct tgaatggccGGGAATACTTTGTTAGGTTaagttaccaagtgcacccgcaaaagaattt c" /listShort="S236, opuE, sapB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(728449) /Source="Nicolas_upshifts" /id="U513" /multdbtbs="SigA,SigB" /comp="M11" /sig="SigB" /pcomp="0.954045954045954" /psig="0.954045954045954" /xcortree=137 /SigmaFactorBS="tttgcaacggtatttccagcttatgatcaaTGTTTCAtcgct tgaatggccGGGAATACTTTGTTAGGTTaagttaccaagtgcacccgcaaaagaattt c" /listShort="S236, opuE, sapB" /GFF_Attribute="listLong" promotor_-35 complement(728473..728479) /Source="Nicolas_upshift_promotors" /id="U513" /multdbtbs="SigA,SigB" /comp="M11" /sig="SigB" /pcomp="0.954045954045954" /psig="0.954045954045954" /xcortree=137 /SigmaFactorBS="tttgcaacggtatttccagcttatgatcaaTGTTTCAtcgct tgaatggccGGGAATACTTTGTTAGGTTaagttaccaagtgcacccgcaaaagaattt c" /listShort="S236, opuE, sapB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 728580..728583 /Source="Nicolas_upshift_promotors" /id="U514" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.88011988011988" /psig="0.999000999001" /xcortree=2562 /SigmaFactorBS="ttcaaaaaataattaaagtaaaaatattcagaaaaatatttc GTTTctccttctcctcatttTAGTATAAAATATATAGGGTattgtttcgaaaacacag g" /listShort="S237, gatC, gatA, gatB" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 728598..728731 /Source="Nicolas_S_feature" /locus_tag="new_728598_728731" /HighExp="G180, G150, LBGexp, Oxctl, Paraq, dia0, G135, Lbexp, H2O2, LBGtran" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S237" upshifts 728598 /Source="Nicolas_upshifts" /id="U514" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.88011988011988" /psig="0.999000999001" /xcortree=2562 /SigmaFactorBS="ttcaaaaaataattaaagtaaaaatattcagaaaaatatttc GTTTctccttctcctcatttTAGTATAAAATATATAGGGTattgtttcgaaaacacag g" /listShort="S237, gatC, gatA, gatB" /GFF_Attribute="listLong" promotor_-10 728600..728619 /Source="Nicolas_upshift_promotors" /id="U514" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.88011988011988" /psig="0.999000999001" /xcortree=2562 /SigmaFactorBS="ttcaaaaaataattaaagtaaaaatattcagaaaaatatttc GTTTctccttctcctcatttTAGTATAAAATATATAGGGTattgtttcgaaaacacag g" /listShort="S237, gatC, gatA, gatB" /GFF_Attribute="listLong" /label="promotor_-10" CDS 728732..729022 /gene="gatC" /locus_tag="BSU_06670" /old_locus_tag="BSU06670" /EC_number="6.3.5.7" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:9342321, 11445070, 12682299, 25005615" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9342321, 11445070, 12682299, 25005615; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="glutamyl-tRNA(Gln) amidotransferase (subunit C)" /protein_id="NP_388549.1" /db_xref="EnsemblGenomes-Gn:BSU06670" /db_xref="EnsemblGenomes-Tr:CAB12487" /db_xref="GOA:O06492" /db_xref="InterPro:IPR003837" /db_xref="InterPro:IPR036113" /db_xref="SubtiList:BG12838" /db_xref="UniProtKB/Swiss-Prot:O06492" /translation="MSRISIEEVKHVAHLARLAITEEEAKMFTEQLDSIISFAEELNE VNTDNVEPTTHVLKMKNVMREDEAGKGLPVEDVMKNAPDHKDGYIRVPSILD*" gene 728732..729022 /gene="gatC" /locus_tag="BSU_06670" /old_locus_tag="BSU06670" CDS 729038..730495 /gene="gatA" /locus_tag="BSU_06680" /old_locus_tag="BSU06680" /EC_number="6.3.5.7" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:11445070, 12682299, 9342321" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11445070, 12682299, 9342321; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="glutamyl-tRNA(Gln) amidotransferase (subunit A)" /protein_id="NP_388550.1" /db_xref="EnsemblGenomes-Gn:BSU06680" /db_xref="EnsemblGenomes-Tr:CAB12488" /db_xref="GOA:O06491" /db_xref="InterPro:IPR000120" /db_xref="InterPro:IPR004412" /db_xref="InterPro:IPR020556" /db_xref="InterPro:IPR023631" /db_xref="InterPro:IPR036928" /db_xref="SubtiList:BG12839" /db_xref="UniProtKB/Swiss-Prot:O06491" /translation="MSLFDHKITELKQLIHKKEIKISDLVDESYKRIQAVDDKVQAFL ALDEERARAYAKELDEAVDGRSEHGLLFGMPIGVKDNIVTKGLRTTCSSKILENFDPI YDATVVQRLQDAEAVTIGKLNMDEFAMGSSTENSAYKLTKNPWNLDTVPGGSSGGSAA AVAAGEVPFSLGSDTGGSIRQPASFCGVVGLKPTYGRVSRYGLVAFASSLDQIGPITR TVEDNAFLLQAISGVDKMDSTSANVDVPDFLSSLTGDIKGLKIAVPKEYLGEGVGKEA RESVLAALKVLEGLGATWEEVSLPHSKYALATYYLLSSSEASANLARFDGIRYGYRTD NADNLIDLYKQTRAEGFGNEVKRRIMLGTFALSSGYYDAYYKKAQKVRTLIKKDFEDV FEKYDVIVGPTTPTPAFKIGENTKDPLTMYANDILTIPVNLAGVPGISVPCGLADGLP LGLQIIGKHFDESTVYRVAHAFEQATDHHKAKPEL*" gene 729038..730495 /gene="gatA" /locus_tag="BSU_06680" /old_locus_tag="BSU06680" CDS 730509..731939 /gene="gatB" /locus_tag="BSU_06690" /old_locus_tag="BSU06690" /EC_number="6.3.5.7" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:11445070, 12682299, 9342321" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11445070, 12682299, 9342321; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="glutamyl-tRNA(Gln) amidotransferase (subunit B)" /protein_id="NP_388551.2" /db_xref="EnsemblGenomes-Gn:BSU06690" /db_xref="EnsemblGenomes-Tr:CAB12489" /db_xref="GOA:O30509" /db_xref="InterPro:IPR003789" /db_xref="InterPro:IPR004413" /db_xref="InterPro:IPR006075" /db_xref="InterPro:IPR014746" /db_xref="InterPro:IPR017958" /db_xref="InterPro:IPR017959" /db_xref="InterPro:IPR018027" /db_xref="InterPro:IPR023168" /db_xref="SubtiList:BG12840" /db_xref="UniProtKB/Swiss-Prot:O30509" /translation="MNFETVIGLEVHVELKTKSKIFSSSPTPFGAEANTQTSVIDLGY PGVLPVLNKEAVEFAMKAAMALNCEIATDTKFDRKNYFYPDNPKAYQISQFDKPIGEN GWIEIEVGGKTKRIGITRLHLEEDAGKLTHTGDGYSLVDFNRQGTPLVEIVSEPDIRT PEEAYAYLEKLKSIIQYTGVSDCKMEEGSLRCDANISLRPIGQEEFGTKTELKNLNSF AFVQKGLEHEEKRQEQVLLSGGVIQQETRRYDEATKKTILMRVKEGSDDYRYFPEPDL VELYIDDEWKERVKASIPELPDERRKRYIEELGLPAYDAMVLTLTKEMADFFEETVQK GAEAKQASNWLMGEVSAYLNAEQKELADVALTPEGLAGMIKLIEKGTISSKIAKKVFK ELIEKGGDAEKIVKEKGLVQISDEGVLLKLVTEALDNNPQSIEDFKNGKDRAIGFLVG QIMKASKGQANPPMVNKILLEEIKKR*" gene 730509..731939 /gene="gatB" /locus_tag="BSU_06690" /old_locus_tag="BSU06690" downshifts 731920 /Source="Nicolas_upshifts" /id="D331" /incds=0 /nref=257 /ntot=266 /MaxReadThrough="1.62334" /MaxDrop="8.77378" /score="26.1218607" /energy="-9.6" /TU="NA" /idTUdmin="U514" /TUdmin=0 /isTUend="TRUE" CDS complement(731954..732823) /gene="yerO" /locus_tag="BSU_06700" /old_locus_tag="BSU06700" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (TetR/AcrR family)" /protein_id="NP_388552.1" /db_xref="EnsemblGenomes-Gn:BSU06700" /db_xref="EnsemblGenomes-Tr:CAB12490" /db_xref="GOA:O31500" /db_xref="InterPro:IPR001647" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR023772" /db_xref="SubtiList:BG12841" /db_xref="UniProtKB/Swiss-Prot:O31500" /translation="MNEKKERIIKTSIRLFAKKGFAATTIQEIASECGISKGAFYLHF KSKEALLLSACEYYIGMSMNKMKNIEEDLAGKPPKEVLKKQIGAQFEDFRDHKDFIVL LLTENIIPENQEIKQYFYKVTMETDKLYRNALLVSYGEGIERYVADLSIMARGIVHSY MNVMVFNGELNIDAEEISAFIIERLDDLVQGLSRSALNPIVSKDIFNPMPAGKDQLLE DIQKVKENSTLPEDITVSLDVIEEELTQDKPRKPIIKGMLSNLAGTNDKEVERLRALI LSLSQFDHKKSSL*" gene complement(731954..732823) /gene="yerO" /locus_tag="BSU_06700" /old_locus_tag="BSU06700" downshifts complement(731996) /Source="Nicolas_upshifts" /id="D332" /incds=0 /nref=122 /ntot=211 /MaxReadThrough="2.21801" /MaxDrop="4.89305" /score="32.2694333" /energy="-11.4" /TU="NA" /idTUdmin="U517" /TUdmin=0 /isTUend="TRUE" promotor_-35 732613..732618 /Source="Nicolas_upshift_promotors" /id="U515" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.822177822177822" /psig="0.822177822177822" /xcortree=1398 /SigmaFactorBS="ccttaggcggctttccggcgagatcttCTTCTAtatttttca ttttgtTCATAGACATACCGATATAatattcacaggcagataacagcagcgcttcttt c" /GFF_Attribute="listShort" /listLong="swrC" /label="promotor_-35" promotor_-10 732634..732652 /Source="Nicolas_upshift_promotors" /id="U515" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.822177822177822" /psig="0.822177822177822" /xcortree=1398 /SigmaFactorBS="ccttaggcggctttccggcgagatcttCTTCTAtatttttca ttttgtTCATAGACATACCGATATAatattcacaggcagataacagcagcgcttcttt c" /GFF_Attribute="listShort" /listLong="swrC" /label="promotor_-10" upshifts 732646 /Source="Nicolas_upshifts" /id="U515" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.822177822177822" /psig="0.822177822177822" /xcortree=1398 /SigmaFactorBS="ccttaggcggctttccggcgagatcttCTTCTAtatttttca ttttgtTCATAGACATACCGATATAatattcacaggcagataacagcagcgcttcttt c" /GFF_Attribute="listShort" /listLong="swrC" S_feature complement(732824..732898) /Source="Nicolas_S_feature" /locus_tag="new_732824_732898_c" /HighExp="C30, S1, T3.0H, T4.0H, Salt, T5.0H, T2.0H, T3.30H, MG 150, T2.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S238" promotor_-35 732876..732883 /Source="Nicolas_upshift_promotors" /id="U516" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.679320679320679" /psig="0.998001998001998" /xcortree=3014 /SigmaFactorBS="taatccttgaaaaatttagtaaaattttctggtatatgAGTT GACGttgttgcgttataacGTTTAGTATTATATAGAATGaccagtcagtcaataaaaa a" /listShort="swrC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(732892..732911) /Source="Nicolas_upshift_promotors" /id="U517" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.995004995004995" /psig=1 /xcortree=3036 /SigmaFactorBS="acgtggttcatcatatcctccattacatttttTATTGACTga ctggtcattctaTATAATACTAAACGTTATAAcgcaacaacgtcaactcatataccag a" /listShort="S238, yerO" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 732898 /Source="Nicolas_upshifts" /id="U516" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.679320679320679" /psig="0.998001998001998" /xcortree=3014 /SigmaFactorBS="taatccttgaaaaatttagtaaaattttctggtatatgAGTT GACGttgttgcgttataacGTTTAGTATTATATAGAATGaccagtcagtcaataaaaa a" /listShort="swrC" /GFF_Attribute="listLong" promotor_-10 732899..732918 /Source="Nicolas_upshift_promotors" /id="U516" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.679320679320679" /psig="0.998001998001998" /xcortree=3014 /SigmaFactorBS="taatccttgaaaaatttagtaaaattttctggtatatgAGTT GACGttgttgcgttataacGTTTAGTATTATATAGAATGaccagtcagtcaataaaaa a" /listShort="swrC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(732905) /Source="Nicolas_upshifts" /id="U517" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.995004995004995" /psig=1 /xcortree=3036 /SigmaFactorBS="acgtggttcatcatatcctccattacatttttTATTGACTga ctggtcattctaTATAATACTAAACGTTATAAcgcaacaacgtcaactcatataccag a" /listShort="S238, yerO" /GFF_Attribute="listLong" promotor_-35 complement(732926..732933) /Source="Nicolas_upshift_promotors" /id="U517" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.995004995004995" /psig=1 /xcortree=3036 /SigmaFactorBS="acgtggttcatcatatcctccattacatttttTATTGACTga ctggtcattctaTATAATACTAAACGTTATAAcgcaacaacgtcaactcatataccag a" /listShort="S238, yerO" /GFF_Attribute="listLong" /label="promotor_-35" CDS 732955..736113 /gene="srfP" /locus_tag="BSU_06710" /old_locus_tag="BSU06710" /function="16.1: Circulate" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:11709341, 15066026, 15941986, 25366377" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11709341, 15066026, 15941986, 25366377; Product type t: transporter" /codon_start=1 /transl_table=11 /product="surfactin exporter involved in surfactin self-resistance" /protein_id="NP_388553.2" /db_xref="EnsemblGenomes-Gn:BSU06710" /db_xref="EnsemblGenomes-Tr:CAB12491" /db_xref="GOA:O31501" /db_xref="InterPro:IPR001036" /db_xref="InterPro:IPR027463" /db_xref="SubtiList:BG12842" /db_xref="UniProtKB/Swiss-Prot:O31501" /translation="MNHVINFVLKNKFAVWLMTIIVTAAGLYAGMNMKQESIPDVNMP YLTISTTYPGATPSQVADEVTKPVEQAVQNLDGVSVVTSTSYENASSVMIEYDYEKDM DKAKTEAAEALENVNLPDDAKDPEISRYSLNSFPILTLSVSSDKDNLQELTKQVEDSL VSKLEGIEGVASVQVSGQQVEEVEFSFKEDKLKEYGLDEDTVKQVIQGSDVTTPLGLY TFGNEEKSVVVSGDIETIKDLKNMRIPTASASSAGSSAASQAGAQSAQAAQSAQAAAQ VQQSASTAVPTVKLSDIATIKDVKKAESVSRTNGKDSIGINIVKANDANTVEVADDVK AELKKFKEDHKGFNYSATLDMAEPITQSVDTMLSKAIFGAIFAIVIILLFLRDIKSTL ISVVSIPLSLLIALLVLQQLDITLNIMTLGAMTVAIGRVVDDSIVVIENIYRRMRLKD EPLRGKALVREATKEMFKPIMSSTIVTIAVFLPLALVGGQIGELFIPFALTIVFALAA SLVISITLVPMLAHSLFKKSLTGAPIKAKEHKPGRLANIYKKVLNWALSHKWITSIIA VLMLLGSLFLVPLIGASYLPSEEEKTMQLTYSPEPGETKKEAENEAEKAEKILLDRKH VDTVQYSLGSGSPLAGGDSNGALFYIKYESDTPDFDKEKDNVLKEIQKQSDRGEWKSQ DFSSSGNNNELTYYVYGDSENDIKDTVKDIEKIMKDEKDLKNVNSGLSSTYDEYTFVA DQEKLSKLGLTASQISQALMSQTSQEPLTTVKKDGKELDVNIKTEKDEYKSVKDLENK KITSATGQEVKIGDVAKVKEGSTSDTVSKRDGKVYADVTGEVTSDNVTAVSAAIQKKI DKLDHPDNVSIDTGGVSADIADSFTKLGLAMLAAIAIVYLVLVITFGGALAPFAILFS LPFTVIGALVGLYVSGETISLNAMIGMLMLIGIVVTNAIVLIDRVIHKEAEGLSTREA LLEAGSTRLRPILMTAIATIGALIPLALGFEGGSQVISKGLGVTVIGGLISSTLLTLL IVPIVYEVLAKFRKKKPGTEEE*" gene 732955..736113 /gene="srfP" /locus_tag="BSU_06710" /old_locus_tag="BSU06710" downshifts 736100 /Source="Nicolas_upshifts" /id="D333" /incds=0 /nref=76 /ntot=243 /MaxReadThrough="3.70478" /MaxDrop="4.6624" /score="-3.65521193" /energy="-12.7" /TU="U516" /idTUdmin="U516" /TUdmin="-110" /isTUend="FALSE" promotor_-35 736352..736355 /Source="Nicolas_upshift_promotors" /id="U518" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.758241758241758" /psig="0.999000999001" /xcortree=2594 /SigmaFactorBS="tgtgcgttttcacctgtaagattatgtacattttGTTGcgat ttttttaactCATAGTATAATTAAAGGTTGttagtgtaaaaatggatcggatactctt a" /listShort="dagK, S239, yefA, S240, S241, yefC, S242, yeeA, yeeB, S243, yeeC, S244" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 736370..736389 /Source="Nicolas_upshift_promotors" /id="U518" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.758241758241758" /psig="0.999000999001" /xcortree=2594 /SigmaFactorBS="tgtgcgttttcacctgtaagattatgtacattttGTTGcgat ttttttaactCATAGTATAATTAAAGGTTGttagtgtaaaaatggatcggatactctt a" /listShort="dagK, S239, yefA, S240, S241, yefC, S242, yeeA, yeeB, S243, yeeC, S244" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 736378 /Source="Nicolas_upshifts" /id="U518" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.758241758241758" /psig="0.999000999001" /xcortree=2594 /SigmaFactorBS="tgtgcgttttcacctgtaagattatgtacattttGTTGcgat ttttttaactCATAGTATAATTAAAGGTTGttagtgtaaaaatggatcggatactctt a" /listShort="dagK, S239, yefA, S240, S241, yefC, S242, yeeA, yeeB, S243, yeeC, S244" /GFF_Attribute="listLong" CDS 736436..737347 /gene="dagK" /locus_tag="BSU_06720" /old_locus_tag="BSU06720" /EC_number="2.7.1.107" /function="16.6: Maintain" /function="16.2: Construct biomass (Anabolism)" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:10220166, 12682299, 17535816, 22224599, 24700682" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10220166, 12682299, 17535816, 22224599, 24700682; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="diacylglycerol kinase" /protein_id="NP_388554.1" /db_xref="EnsemblGenomes-Gn:BSU06720" /db_xref="EnsemblGenomes-Tr:CAB12492" /db_xref="GOA:O31502" /db_xref="InterPro:IPR001206" /db_xref="InterPro:IPR005218" /db_xref="InterPro:IPR016064" /db_xref="InterPro:IPR017438" /db_xref="SubtiList:BG12843" /db_xref="UniProtKB/Swiss-Prot:O31502" /translation="MKRARIIYNPTSGREIFKKHLAQVLQKFEQAGYETSTHATTCAG DATHAAKEAALREFDLIIAAGGDGTINEVVNGLAPLDNRPTLGVIPVGTTNDFARALG IPREDILKAADTVINGVARPIDIGQVNGQYFINIAGGGRLTELTYDVPSKLKTMLGQL AYYLKGMEMLPSLRPTEVEIEYDGKLFQGEIMLFLVTLTNSVGGFEKLAPDSSLNDGM FDLMILKKANLAEFIRVATMALRGEHINDQHIIYTKANRVKVNVSEKMQLNLDGEYGG MLPGEFVNLYRHIHVVMPKEKAEQLDD*" gene 736436..737347 /gene="dagK" /locus_tag="BSU_06720" /old_locus_tag="BSU06720" S_feature 737348..737602 /Source="Nicolas_S_feature" /locus_tag="new_737348_737602" /HighExp="H2O2, Oxctl, Paraq, G180, Cold, C30, G150, G135, Heat, LBGstat" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S239" CDS 737603..738982 /gene="rlmCD" /locus_tag="BSU_06730" /old_locus_tag="BSU06730" /EC_number="2.1.1.189" /EC_number="2.1.1.190" /function="16.8: Protect" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:21824914" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 21824914; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="methyltransferase of m5U747 and m5U1939 in 23S RNA" /protein_id="NP_388555.1" /db_xref="EnsemblGenomes-Gn:BSU06730" /db_xref="EnsemblGenomes-Tr:CAB12493" /db_xref="GOA:O31503" /db_xref="InterPro:IPR001566" /db_xref="InterPro:IPR002792" /db_xref="InterPro:IPR010280" /db_xref="InterPro:IPR012340" /db_xref="InterPro:IPR029063" /db_xref="InterPro:IPR030390" /db_xref="InterPro:IPR030391" /db_xref="SubtiList:BG12826" /db_xref="UniProtKB/Swiss-Prot:O31503" /translation="MKMKPPVEKNEYYDVTFEDLTHEGAGVAKVQGFPIFVPNALPEE KAQIKVTRVKKGFAFGRLIELKEESPHRTDAPCPIYKQCGGCQLQHMTYEGQLLFKQK QVKDVLERIGKLDLSKVTVHPTLGMEDPWNYRNKAQVPVGEREGGLVAGFYQQRSHDI IDMSACLIQQSKNDEAVQAVKDICANYGVKAYNEERHKGWLRHIMVRYGVVTGEMMIV FITRTSDFPHKAKIIEDITAQFPHVKSIVQNINPNKTNVIFGNETNVIWGEEYIYDLI GDVKFAISARSFYQVNPEQTKVLYDKALEYAELQGEETVIDAYCGIGTISLFLAKQAK KVYGVEIVPEAIEDAKRNAELNGNTNAEFAVGEAETVIPKWYEEGITADTLVVDPPRK GCDEALLRTIVEMKPKRVVYVSCNPGTLARDLRVLEDGGYVTREVQPVDMFPHTNHVE CCVLIKLKE*" gene 737603..738982 /gene="rlmCD" /locus_tag="BSU_06730" /old_locus_tag="BSU06730" S_feature 738983..739575 /Source="Nicolas_S_feature" /locus_tag="new_738983_739575" /HighExp="Cold, H2O2, G135, G150, Oxctl, G180, C30, Paraq, LPh, HPh" /AntisenseName="yefB" /AntisenseCor="0.24913678485492899" /AntisenseRegPval="-4.4000000000000004" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S240" CDS complement(738995..739897) /gene="yefB" /locus_tag="BSU_06740" /old_locus_tag="BSU06740" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 1779754, 1762151; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="putative site-specific recombinase / invertase; HGT island" /protein_id="NP_388556.1" /db_xref="EnsemblGenomes-Gn:BSU06740" /db_xref="EnsemblGenomes-Tr:CAB12494" /db_xref="GOA:O34574" /db_xref="InterPro:IPR011109" /db_xref="InterPro:IPR025827" /db_xref="SubtiList:BG12827" /db_xref="UniProtKB/Swiss-Prot:O34574" /translation="MYNEGVTSPSQLARKKNATDKWHGSSIRKILENPHYTGTLQQCR EYRPSVTSKRRRSVNLENQIIIEKSHEPIIPLEDFLIVQEILITRKRRRPQAEVHLFT NTAVCKDCRRSMHFKKNRKGYVCGSYNKHGLKACSDHYVSEIDLTDKVITNLNKIYLK FSKENYFKELSEKALKYKEKIESKIIEINEKLNDKKRDKSNLVISLANGVISKEDYQL AINITNEDISNFETTLHQLSKDLEFQKIEKEIIDFKKSLDKFMKEGTLTPEMLHLLVD EIEVHANGTIEINYRFREPTVPSA*" gene complement(738995..739897) /gene="yefB" /locus_tag="BSU_06740" /old_locus_tag="BSU06740" downshifts 739532 /Source="Nicolas_upshifts" /id="D334" /incds=1 /nref=1 /ntot=30 /MaxReadThrough="4.70474" /MaxDrop="2.82299" /score="-8.81916201" /energy="-8.8" /TU="U518" /idTUdmin="U516" /TUdmin=3322 /isTUend="FALSE" S_feature 739577..739877 /Source="Nicolas_S_feature" /locus_tag="new_739577_739877" /HighExp="H2O2, Cold, G180, G135, G150, Paraq, Oxctl, C30, LPh, LBGexp" /AntisenseName="yefB" /AntisenseCor="0.202214664414261" /AntisenseRegPval="-3.1" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S241" CDS 739878..740213 /gene="yefC" /locus_tag="BSU_06750" /old_locus_tag="BSU06750" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative resolvase; HGT island" /protein_id="NP_388557.2" /db_xref="EnsemblGenomes-Gn:BSU06750" /db_xref="EnsemblGenomes-Tr:CAB12495" /db_xref="GOA:O35034" /db_xref="InterPro:IPR006119" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR036162" /db_xref="SubtiList:BG12828" /db_xref="UniProtKB/Swiss-Prot:O35034" /translation="MTPSLYNPLAIASKPFPAIYSEKILIFTIFSAFAEFERDMIVER TQEGKMLAKQNPDFREGRPKKFTKQQINHALTLLENHSYKQVEDMTGISVSTLVRAKK KKAAEAING*" gene 739878..740213 /gene="yefC" /locus_tag="BSU_06750" /old_locus_tag="BSU06750" S_feature 740214..740287 /Source="Nicolas_S_feature" /locus_tag="new_740214_740287" /HighExp="G180, H2O2, G150, Cold, G135, Paraq, Oxctl, C30, LPh, dia0" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S242" CDS 740288..742927 /gene="yeeA" /locus_tag="BSU_06760" /old_locus_tag="BSU06760" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative restriction type II methylase; HGT island" /protein_id="NP_388558.1" /db_xref="EnsemblGenomes-Gn:BSU06760" /db_xref="EnsemblGenomes-Tr:CAB12496" /db_xref="GOA:O31504" /db_xref="InterPro:IPR029063" /db_xref="SubtiList:BG12818" /db_xref="UniProtKB/Swiss-Prot:O31504" /translation="MALIDLEDKIAEIVNREDHSDFLYELLGVYDVPRATITRLKKGN QNLTKRVGEVHLKNKVWFKEAKKGKLFDALIDIEQQVEYLSAKPRYLLVTDYDGVLAK DTKTLEALDVKFEELPQYFDFFLAWKGIEKVEFEKENPADIKAAERFARIYDVLRKEN NIIETNRGLDLFLIRLLFCFFAEDTDIFKRNSFTNLIKTLTEEDGSNLNKLFADLFIV LDKNERDDVPSYLKEFPYVNGQLFTEPHTELEFSAKSRKLIIECGELLNWAKINPDIF GSMIQAVASEESRSYLGMHYTSVPNIMKVIKPLFLDKLNQSFLDAYDDYTKLENLLTR IGKIKFFDPACGSGNFLIITYKELRRMEINIIKRLQELLGEYLYVPSVTLSQFYGIEI EDFAHDVAKLSLWIAEHQMNEELKNEVHNAVRPTLPLHTAGDIRCANAIRVEWTEVCP AQGSEEVYVFGNPPYLGSKKQNKEHKSDMLSIFGKVKNGKMLDYISAWFYFGAKYAST TNAKVAFVSTNSVTQGEQVSILWNELFKFGIQINFAYKSFKWANNAKNNAAVIVVIVG FGPLDTKVNKYLFVDETKKLVSNISPYLTDGENILVSSRTKPISDLPKLHFGNMPNDG GGLLFTITEYTDAINKYPELVPYFKKFIGSVEFINGGLRYCLWLNEAKYEKIKSNPLI QERISISKNHREKSTDKGTNKLALTPWKFRDTHETTNYSIVVPSVSSENRFYIPMGLA GADTILSNLIYVIYDAEIYLLGILMSRMHMTWVKAVAGRLKTDYRYSAGLCYNTFPIP ELSTRRKNEIEEAILEILDLREEQGGTLAELYNPSTMPIELKVAHEKLDGIVERAYRQ KQFESDEERLEVLLKLYQEMTER*" gene 740288..742927 /gene="yeeA" /locus_tag="BSU_06760" /old_locus_tag="BSU06760" CDS 742939..744738 /gene="yeeB" /locus_tag="BSU_06770" /old_locus_tag="BSU06770" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative DNA helicase / endonuclease; HGT island" /protein_id="NP_388559.2" /db_xref="EnsemblGenomes-Gn:BSU06770" /db_xref="EnsemblGenomes-Tr:CAB12497" /db_xref="GOA:O34469" /db_xref="InterPro:IPR014001" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG12819" /db_xref="UniProtKB/Swiss-Prot:O34469" /translation="MENIIEINYNQTGKSKKTNEYGMREMQARAFEKRNSQYLLVKAP PASGKSRALMFIGLDKLINQGLRKVIVAVPERSIGSSFKNTDLKSYGFFENWKVDPRN NLTVGGDNSKVKSFVRFMESDDQVLICTHSTLRFAFEKIDDKAFDNCLLAIDEFHHVS ADVNSRLGELLRSIIHNSSAHIVAMTGSYFRGDSVPILLPEDEELFDKVTYSYYEQLD GYEYLKGFGIGYHFYQGQYTSAINEVLDTNKKTIVHIPNVNSGESTKDKYDEVGKILD MIGEVEYQDDDTGIIYVKRHSDGKTLKIADLVDDQVGRENVVAYLRNIEALDDLDIII ALGMAKEGFDWPFCEHTLTVGYRGSLTEIVQIIGRCTRDSYNKTYAQFTNLIAMPDAK DEVVTYTVNTMLKAISASLLMEQVLTPDFKFKRRRNESEKSSTTGELFVKGLKEPSTE NVKKIIENDINDLKAKIMQDSQVQKTFSGEVDPKVLNKVLIPKVIQKVYPNLSDEEIE EVRQHVVLDTVMKGAKSEVVGSKEFIRMADKFINIEDLDINLIDSINPFQKAFEVLSK ELNSPVLKLIQETIDAKRINFDEDELVFIWPKV*" gene 742939..744738 /gene="yeeB" /locus_tag="BSU_06770" /old_locus_tag="BSU06770" promotor_-10 complement(743179..743194) /Source="Nicolas_upshift_promotors" /id="U519" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1689 /SigmaFactorBS="cagttaaattatttctaggatcaactttccaattttcaaAGA AACCATAactttttaaatCCGTATTTTTAAATGAagaacctatagagcgttcaggtac a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(743194) /Source="Nicolas_upshifts" /id="U519" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1689 /SigmaFactorBS="cagttaaattatttctaggatcaactttccaattttcaaAGA AACCATAactttttaaatCCGTATTTTTAAATGAagaacctatagagcgttcaggtac a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(743206..743215) /Source="Nicolas_upshift_promotors" /id="U519" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1689 /SigmaFactorBS="cagttaaattatttctaggatcaactttccaattttcaaAGA AACCATAactttttaaatCCGTATTTTTAAATGAagaacctatagagcgttcaggtac a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 744739..744850 /Source="Nicolas_S_feature" /locus_tag="new_744739_744850" /HighExp="Cold, G180, G135, G150, H2O2, Paraq, HPh, LPh, Oxctl, BMM" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S243" CDS 744851..745999 /gene="yeeC" /locus_tag="BSU_06780" /old_locus_tag="BSU06780" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein; HGT island" /protein_id="NP_388560.2" /db_xref="EnsemblGenomes-Gn:BSU06780" /db_xref="EnsemblGenomes-Tr:CAB12498" /db_xref="InterPro:IPR018306" /db_xref="SubtiList:BG12820" /db_xref="UniProtKB/Swiss-Prot:O34352" /translation="MASNRYHSINEIMESQLFYQITTPPKKTQKAQYDPEVEKFLEII EFVKENGREPQKVPTDLTERSLASRLIGIRKDPDRMEYLKEYDEIGLLEVRSKELTIP KISSIDDILKSGLSALLGDNLNNDITRSIFDTSSLQKVTTMPEYVAKRKKIKDFGKFE ELFKKCHKEITEGKRKILTFKNEQDIQSNSFYILKGVLLYVEDVGERKKAKGKTNARL RCIFENGTESDMLLRSLSAELYKHGRRVTDNEDTLLDNVREDDVSTGFIYVLKSLSTD PQISSIKNLYKIGFTTGSVENRIRNAENQSTYLYAPVEIVTTYQVFNMNASKFETAIH HALANNNLDVSILGANGKMLVPKEWFVVTLEDLQAVIDEIVMMVHLYD*" gene 744851..745999 /gene="yeeC" /locus_tag="BSU_06780" /old_locus_tag="BSU06780" S_feature 746000..747189 /Source="Nicolas_S_feature" /locus_tag="new_746000_747189" /HighExp="Cold, G135, H2O2, G180, G150, LPh, C30, HPh, BMM, Paraq" /AntisenseName="yeeD" /AntisenseCor="-0.41772847620445203" /AntisenseRegPval="-12.1" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S244" CDS complement(746261..746566) /gene="yeeD" /locus_tag="BSU_06790" /old_locus_tag="BSU06790" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein; HGT island" /protein_id="NP_388561.1" /db_xref="EnsemblGenomes-Gn:BSU06790" /db_xref="EnsemblGenomes-Tr:CAB12499" /db_xref="SubtiList:BG12821" /db_xref="UniProtKB/Swiss-Prot:O34950" /translation="MTVRKELIKQINLTITVIKTINQKNPTPMVKNILKRYEEAKEFI LQSSDGKFEEDLSKVRNKLDTLTRAYLESANDYMNPMLKEMHKTEKLLKEYDETTQS* " gene complement(746261..746566) /gene="yeeD" /locus_tag="BSU_06790" /old_locus_tag="BSU06790" CDS complement(746633..746839) /gene="yezA" /locus_tag="BSU_06800" /old_locus_tag="BSU06800" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="hypothetical protein; HGT island" /protein_id="NP_388562.1" /db_xref="EnsemblGenomes-Gn:BSU06800" /db_xref="EnsemblGenomes-Tr:CAB12500" /db_xref="GOA:O31505" /db_xref="InterPro:IPR000290" /db_xref="InterPro:IPR035900" /db_xref="SubtiList:BG12872" /db_xref="UniProtKB/Swiss-Prot:O31505" /translation="MDKLTKEELIFLVKELMNPTLDDEKVSEYLDLLEKNVPYPAPSD LIFWSNEDYTAEQVVKIALNYKDE*" gene complement(746633..746839) /gene="yezA" /locus_tag="BSU_06800" /old_locus_tag="BSU06800" CDS complement(747079..747534) /gene="yezG" /locus_tag="BSU_06811" /old_locus_tag="BSU06811" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein; HGT island" /protein_id="YP_003097692.1" /db_xref="EnsemblGenomes-Gn:BSU06811" /db_xref="EnsemblGenomes-Tr:CAX52579" /db_xref="InterPro:IPR006728" /db_xref="InterPro:IPR036170" /db_xref="UniProtKB/Swiss-Prot:C0H3X4" /translation="MQDLYQLIGEKLNDIIPGEWTKIYLYAEVLDDSTMVLFHFRTPE NNQIIYSQDIPSHYNVSKDIFKTLLRELRELFEELRTEHRNNNDDVWTNLTLTLDRSG EFQLDYNYDDILASELDGYERIAIWEYKNLGILPEDEDDKEFVISYLGL*" gene complement(747079..747534) /gene="yezG" /locus_tag="BSU_06811" /old_locus_tag="BSU06811" downshifts complement(747092) /Source="Nicolas_upshifts" /id="D335" /incds=0 /nref=41 /ntot=213 /MaxReadThrough="4.42275" /MaxDrop="5.23695" /score="10.2582155" /energy="-11.7" /TU="U520,U521" /idTUdmin="U520" /TUdmin="-529" /isTUend="FALSE" CDS complement(747554..749563) /gene="yeeF" /locus_tag="BSU_06812" /old_locus_tag="BSU06812" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type h : extrachromosomal origin" /codon_start=1 /transl_table=11 /product="putative nucleic acid binding protein; HGT island" /protein_id="NP_388563.2" /db_xref="EnsemblGenomes-Gn:BSU06812" /db_xref="EnsemblGenomes-Tr:CAB12501" /db_xref="GOA:O31506" /db_xref="InterPro:IPR006829" /db_xref="SubtiList:BG12822" /db_xref="UniProtKB/Swiss-Prot:O31506" /translation="MKVFEAKTLLSEATDRAKEYKELRTQMVNLRKALKGVADLSDSE FSGKGASNIKAFYHDHVGVADQWIDYIDMKIAFFNSIAGAAEDKGLSDAYIEESFLEH ELANANKKSKSIMSEQKKAMKDILNDIDDILPLDLFSTETFKDELADANDKRKKTLEK LDALDEDLKTEYALSEPNEQFIKSDFQKLQEATGKGKNATPIHYNAKAYRESDIHKKK GDIEKRTEAYLKIKKEEAKEREIEKLKERLKNYDYADADEFYEMAKTIGYENLTAEQQ RYFTQIENTRELEAGFKGVAVGLYDSGKDAVVGLWDMVTDPGGTVEAITGAMAHPIKT YEAISAAIEESYQKDMVNGDTYSRARWVSYAVGTVVTSIVGTKGVGAVSKTGTAAKVT TKVKTAASKSATAQKAITVSKQTVDHIKQKVNTGIEVSKKHVKTKLNQIGDLTLADIL PYHPRHDLVPAGVPYNAVNGVTLKEGLQKFAKVILPKPYGTSSSGRRTPAPHVPPVTV KYGEHFARWSRKKVLKPNIIYKTKEGYTYTTDNYGRITSVKADLQLGEAKRNQYAQTN AGKPQDRKPDDDGGHLIATQFKGSGQFDNIVPMNSQINRSGGKWYEMEQEWAKALSKK PPKKVAVQIEPVYSGDSLRPSYFDVTYKIGSRKEISVSIKNQPGG*" gene complement(747554..749563) /gene="yeeF" /locus_tag="BSU_06812" /old_locus_tag="BSU06812" promotor_-10 complement(747921..747940) /Source="Nicolas_upshift_promotors" /id="U520" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.98101898101898" /psig="0.999000999001" /xcortree=2752 /SigmaFactorBS="aatatcatctacaaaacaaaagaaggctacACGTACacgact gacaacTATGGTAGAATTACAAGTGTcaaagcagacttgcagctgggagaagcgaaac g" /listShort="yezG, yezA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(747928) /Source="Nicolas_upshifts" /id="U520" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.98101898101898" /psig="0.999000999001" /xcortree=2752 /SigmaFactorBS="aatatcatctacaaaacaaaagaaggctacACGTACacgact gacaacTATGGTAGAATTACAAGTGTcaaagcagacttgcagctgggagaagcgaaac g" /listShort="yezG, yezA" /GFF_Attribute="listLong" promotor_-35 complement(747953..747958) /Source="Nicolas_upshift_promotors" /id="U520" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.98101898101898" /psig="0.999000999001" /xcortree=2752 /SigmaFactorBS="aatatcatctacaaaacaaaagaaggctacACGTACacgact gacaacTATGGTAGAATTACAAGTGTcaaagcagacttgcagctgggagaagcgaaac g" /listShort="yezG, yezA" /GFF_Attribute="listLong" /label="promotor_-35" misc_feature complement(749590..749609) /Source="Nicolas_upshift_promotors" /id="U521" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.976023976023976" /psig="0.994005994005994" /xcortree=2985 /SigmaFactorBS="atgactcatttttccaccaaaacacgttctcacccccacctt atcccgaccCGTGGTAAAATTTTGATATTgagcgaacaaaagaagggaaatggtcatg a" /listShort="yeeF, yezG, yezA, yeeD" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(749600) /Source="Nicolas_upshifts" /id="U521" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.976023976023976" /psig="0.994005994005994" /xcortree=2985 /SigmaFactorBS="atgactcatttttccaccaaaacacgttctcacccccacctt atcccgaccCGTGGTAAAATTTTGATATTgagcgaacaaaagaagggaaatggtcatg a" /listShort="yeeF, yezG, yezA, yeeD" /GFF_Attribute="listLong" CDS 749775..750797 /gene="yeeG" /locus_tag="BSU_06820" /old_locus_tag="BSU06820" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative phage receptor protein" /protein_id="NP_388564.2" /db_xref="EnsemblGenomes-Gn:BSU06820" /db_xref="EnsemblGenomes-Tr:CAB12502" /db_xref="GOA:O31507" /db_xref="InterPro:IPR015943" /db_xref="SubtiList:BG12823" /db_xref="UniProtKB/Swiss-Prot:O31507" /translation="MTKKRITFGLLVLMVCVILFVLYVQLRNKDSIPVQSSAIHPEED RIFFIYSNPFIKESVLLSTSTGERFNRRTFKVADVPYIQTKSYASTDLVLLAEHEPFY YTLEKDVIKEHPLSDPFAFWYEGKDVTIEAYNVDTTGNEIHINDRKTKKEYTLTLPPL VTMGASDENFIYIIQSMSIYVIDRKTEEMIETLSLASYADQFADSEEFIVASSDHKLT VIEKGTWKTTYIAYPEDLEYADTVYYDKESGSFYVAYEDKEGGANLLEYGEDFSIHTY SLKFPYMEAKFKGNLLYIVAQEEHKKGIGGYVGVFDIHSKEMLYQFDLPEEQVKVQDF VVVDNK*" gene 749775..750797 /gene="yeeG" /locus_tag="BSU_06820" /old_locus_tag="BSU06820" promotor_-35 750897..750904 /Source="Nicolas_upshift_promotors" /id="U522" /multdbtbs="SigA" /comp="M17" /sig="SigA" /pcomp="0.466533466533467" /psig="0.997002997002997" /xcortree=2961 /SigmaFactorBS="caaattgacaggatgaaaaaacaatttcttccttctatATTG TTTTcaaaatttgggatTGATAGAATATGACATATCTcatagagaaggagggaagccg t" /listShort="rapH, phrH, S245, yeeI" /listLong="yeeK" /label="promotor_-35" promotor_-10 750918..750937 /Source="Nicolas_upshift_promotors" /id="U522" /multdbtbs="SigA" /comp="M17" /sig="SigA" /pcomp="0.466533466533467" /psig="0.997002997002997" /xcortree=2961 /SigmaFactorBS="caaattgacaggatgaaaaaacaatttcttccttctatATTG TTTTcaaaatttgggatTGATAGAATATGACATATCTcatagagaaggagggaagccg t" /listShort="rapH, phrH, S245, yeeI" /listLong="yeeK" /label="promotor_-10" upshifts 750919 /Source="Nicolas_upshifts" /id="U522" /multdbtbs="SigA" /comp="M17" /sig="SigA" /pcomp="0.466533466533467" /psig="0.997002997002997" /xcortree=2961 /SigmaFactorBS="caaattgacaggatgaaaaaacaatttcttccttctatATTG TTTTcaaaatttgggatTGATAGAATATGACATATCTcatagagaaggagggaagccg t" /listShort="rapH, phrH, S245, yeeI" /listLong="yeeK" CDS 750959..752089 /gene="rapH" /locus_tag="BSU_06830" /old_locus_tag="BSU06830" /EC_number="3.1.-.-" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:16553878, 21908671" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16553878, 21908671; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="response regulator aspartate phosphatase" /protein_id="NP_388565.2" /db_xref="EnsemblGenomes-Gn:BSU06830" /db_xref="EnsemblGenomes-Tr:CAB12503" /db_xref="GOA:Q59HN8" /db_xref="InterPro:IPR011990" /db_xref="InterPro:IPR013026" /db_xref="InterPro:IPR019734" /db_xref="PDB:3Q15" /db_xref="SubtiList:BG11031" /db_xref="UniProtKB/Swiss-Prot:Q59HN8" /translation="MSQAIPSSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQME EDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELLETIETPQKKLTGLLKYYSL FFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMY HILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRF IAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQ KAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIE ACARSAAAVFESSCHFEQAAAFYRKVLKAQEDILKGECLYAY*" gene 750959..752089 /gene="rapH" /locus_tag="BSU_06830" /old_locus_tag="BSU06830" CDS 752079..752252 /gene="phrH" /locus_tag="BSU_06839" /old_locus_tag="BSU06839" /experiment="publication(s) with functional evidences, PMID:16553878, 21908671" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16553878, 21908671; Product type r: regulator" /codon_start=1 /transl_table=11 /product="hexapeptide (TDRNTT) inhibitor of regulatory cascade" /protein_id="YP_003097693.1" /db_xref="EnsemblGenomes-Gn:BSU06839" /db_xref="EnsemblGenomes-Tr:CAX52580" /db_xref="GOA:Q59HN7" /db_xref="UniProtKB/Swiss-Prot:Q59HN7" /translation="MPIKKKVMMCLAVTLVFGSMSFPTLTNSGGFKESTDRNTTYIDH SPYKLSDQKKALS*" gene 752079..752252 /gene="phrH" /locus_tag="BSU_06839" /old_locus_tag="BSU06839" downshifts 752207 /Source="Nicolas_upshifts" /id="D336" /incds=0 /nref=3 /ntot=66 /MaxReadThrough="5.5891" /MaxDrop="2.9063" /score="14.5772672" /energy="-7.6" /TU="U522" /idTUdmin="U522" /TUdmin="-901" /isTUend="FALSE" S_feature 752253..752357 /Source="Nicolas_S_feature" /locus_tag="new_752253_752357" /HighExp="S2, G/S, T2.30H, GM 150, T3.0H, T2.0H, S1, T-4.40H, T-2.40H, T3.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.997" /TUlongSig="NA" /TUlongPSig="NA" /label="S245" promotor_-35 752324..752331 /Source="Nicolas_upshift_promotors" /id="U523" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.93006993006993" /psig="0.999000999001" /xcortree=1934 /SigmaFactorBS="cattccttctatttctaacgcaagaCACTCGAAacaaccaaa ccattTGAGGTATAATGGATAAAGTgaataacagtatttagattgatatatatgaaag a" /listShort="yeeI, yeeK" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 752346..752365 /Source="Nicolas_upshift_promotors" /id="U523" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.93006993006993" /psig="0.999000999001" /xcortree=1934 /SigmaFactorBS="cattccttctatttctaacgcaagaCACTCGAAacaaccaaa ccattTGAGGTATAATGGATAAAGTgaataacagtatttagattgatatatatgaaag a" /listShort="yeeI, yeeK" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 752359 /Source="Nicolas_upshifts" /id="U523" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.93006993006993" /psig="0.999000999001" /xcortree=1934 /SigmaFactorBS="cattccttctatttctaacgcaagaCACTCGAAacaaccaaa ccattTGAGGTATAATGGATAAAGTgaataacagtatttagattgatatatatgaaag a" /listShort="yeeI, yeeK" /GFF_Attribute="listLong" CDS 752412..753131 /gene="yeeI" /locus_tag="BSU_06840" /old_locus_tag="BSU06840" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative DNA integrase or transcriptional regulator" /protein_id="NP_388566.3" /db_xref="EnsemblGenomes-Gn:BSU06840" /db_xref="EnsemblGenomes-Tr:CAB12504" /db_xref="GOA:O31509" /db_xref="InterPro:IPR002876" /db_xref="InterPro:IPR017856" /db_xref="InterPro:IPR026562" /db_xref="InterPro:IPR026564" /db_xref="InterPro:IPR029072" /db_xref="SubtiList:BG12824" /db_xref="UniProtKB/Swiss-Prot:O31509" /translation="MGRKWNNIKEKKASKDANTSRIYAKFGREIYVAAKQGEPDPESN QALKVVLERAKTYSVPKNIIERAIEKAKGGAEENYDELRYEGFGPNGSMIIVDALTNN VNRTAPEVRAAFGKNGGNMGVSGSVAYMFDATAVIGVEGKTADEALEILMEADVDVRD ILEEDDSAIVYAEPDQFHAVQEAFKNAGVEEFTVAELTMLAQSEVTLPDDAKEQFEKL IDALEDLEDVQQVYHNVDLGE*" gene 752412..753131 /gene="yeeI" /locus_tag="BSU_06840" /old_locus_tag="BSU06840" downshifts complement(752414) /Source="Nicolas_upshifts" /id="D337" /incds=0 /nref=3 /ntot=70 /MaxReadThrough="1.42969" /MaxDrop="3.99424" /score="-5.23712559" /energy="-7.6" /TU="NA" /idTUdmin="U520" /TUdmin="-5851" /isTUend="FALSE" promotor_-35 752989..752996 /Source="Nicolas_upshift_promotors" /id="U524" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.844155844155844" /psig="0.903096903096903" /xcortree=3101 /SigmaFactorBS="gtttaaaaacgcgggtgtcgaggaatttaCAGTAGCGgagct gacaatgcTTGCGCAAAGTGAAGTAACGcttccggatgatgcaaaggaacagtttgaa a" /listShort="yeeK" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 753010..753029 /Source="Nicolas_upshift_promotors" /id="U524" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.844155844155844" /psig="0.903096903096903" /xcortree=3101 /SigmaFactorBS="gtttaaaaacgcgggtgtcgaggaatttaCAGTAGCGgagct gacaatgcTTGCGCAAAGTGAAGTAACGcttccggatgatgcaaaggaacagtttgaa a" /listShort="yeeK" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 753020 /Source="Nicolas_upshifts" /id="U524" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.844155844155844" /psig="0.903096903096903" /xcortree=3101 /SigmaFactorBS="gtttaaaaacgcgggtgtcgaggaatttaCAGTAGCGgagct gacaatgcTTGCGCAAAGTGAAGTAACGcttccggatgatgcaaaggaacagtttgaa a" /listShort="yeeK" /GFF_Attribute="listLong" downshifts 753113 /Source="Nicolas_upshifts" /id="D338" /incds=0 /nref=223 /ntot=271 /MaxReadThrough="4.94236" /MaxDrop="5.19148" /score="31.0415099" /energy="-11.4" /TU="U523,U524" /idTUdmin="U522" /TUdmin=5 /isTUend="TRUE" promotor_-35 753200..753209 /Source="Nicolas_upshift_promotors" /id="U525" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1279 /SigmaFactorBS="tcccggaaattgttttagctgtatgtaggcggccGCCTATAC GAtctataagatattCTCATACTCTGGACTGTAACctatgtgaaggagagagtaaata t" /listShort="yeeK" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 753223..753242 /Source="Nicolas_upshift_promotors" /id="U525" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1279 /SigmaFactorBS="tcccggaaattgttttagctgtatgtaggcggccGCCTATAC GAtctataagatattCTCATACTCTGGACTGTAACctatgtgaaggagagagtaaata t" /listShort="yeeK" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 753226 /Source="Nicolas_upshifts" /id="U525" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1279 /SigmaFactorBS="tcccggaaattgttttagctgtatgtaggcggccGCCTATAC GAtctataagatattCTCATACTCTGGACTGTAACctatgtgaaggagagagtaaata t" /listShort="yeeK" /GFF_Attribute="listLong" promotor_-10 complement(753230..753248) /Source="Nicolas_upshift_promotors" /id="U526" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.935064935064935" /psig="0.935064935064935" /xcortree=1214 /SigmaFactorBS="aatgaccaaaaccaggtccgccatacatatgtcttgtatcaG TCATAtttactctctccttcACATAGGTTACAGTCCAGAgtatgagaatatcttatag a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(753250) /Source="Nicolas_upshifts" /id="U526" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.935064935064935" /psig="0.935064935064935" /xcortree=1214 /SigmaFactorBS="aatgaccaaaaccaggtccgccatacatatgtcttgtatcaG TCATAtttactctctccttcACATAGGTTACAGTCCAGAgtatgagaatatcttatag a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(753264..753269) /Source="Nicolas_upshift_promotors" /id="U526" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.935064935064935" /psig="0.935064935064935" /xcortree=1214 /SigmaFactorBS="aatgaccaaaaccaggtccgccatacatatgtcttgtatcaG TCATAtttactctctccttcACATAGGTTACAGTCCAGAgtatgagaatatcttatag a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 753265..753702 /gene="cotK" /locus_tag="BSU_06850" /old_locus_tag="BSU06850" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:10714992, 19060142, 19933362" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10714992, 19060142, 19933362; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="spore inner coat protein" /protein_id="NP_388567.2" /db_xref="EnsemblGenomes-Gn:BSU06850" /db_xref="EnsemblGenomes-Tr:CAB12505" /db_xref="GOA:O31510" /db_xref="SubtiList:BG12825" /db_xref="UniProtKB/Swiss-Prot:O31510" /translation="MTDTRHMYGGPGFGHYQGFGIGHPGYGMQSTGYPGYGMYGGHPG YGMQGYPDHGIHGGVGGYPGYGGYGGYPSGGYGGSPGTGSYPSMHHENDGHHHYYHHH HDGKDNLHHHHHHVGKDNHHHHHDGHYGHHHHHMGHWGKDGYK*" gene 753265..753702 /gene="cotK" /locus_tag="BSU_06850" /old_locus_tag="BSU06850" downshifts complement(753272) /Source="Nicolas_upshifts" /id="D339" /incds=0 /nref=1 /ntot=4 /MaxReadThrough="1.62645" /MaxDrop="3.26146" /score="-5.23712559" /energy="-7.6" /TU="NA" /idTUdmin="U520" /TUdmin="-6709" /isTUend="FALSE" downshifts 753702 /Source="Nicolas_upshifts" /id="D340" /incds=0 /nref=82 /ntot=208 /MaxReadThrough="2.37564" /MaxDrop="8.21113" /score="17.7046271" /energy="-9" /TU="U525" /idTUdmin="U523" /TUdmin=0 /isTUend="TRUE" promotor_-35 753762..753769 /Source="Nicolas_upshift_promotors" /id="U527" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.938061938061938" /psig="0.999000999001" /xcortree=2200 /SigmaFactorBS="cttgcagatcaagagtgtttttttagctttttTCTTGACTgt tcagtctggaaaaTGGTAACATTTGTTTCAGGAggtgatcattttttggggaggaata a" /listShort="yezE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 753785..753804 /Source="Nicolas_upshift_promotors" /id="U527" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.938061938061938" /psig="0.999000999001" /xcortree=2200 /SigmaFactorBS="cttgcagatcaagagtgtttttttagctttttTCTTGACTgt tcagtctggaaaaTGGTAACATTTGTTTCAGGAggtgatcattttttggggaggaata a" /listShort="yezE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 753790 /Source="Nicolas_upshifts" /id="U527" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.938061938061938" /psig="0.999000999001" /xcortree=2200 /SigmaFactorBS="cttgcagatcaagagtgtttttttagctttttTCTTGACTgt tcagtctggaaaaTGGTAACATTTGTTTCAGGAggtgatcattttttggggaggaata a" /listShort="yezE" /GFF_Attribute="listLong" CDS 753817..754401 /gene="yezE" /locus_tag="BSU_06860" /old_locus_tag="BSU06860" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (TetR family)" /protein_id="YP_054572.1" /db_xref="EnsemblGenomes-Gn:BSU06860" /db_xref="EnsemblGenomes-Tr:CAE01448" /db_xref="GOA:Q7WY76" /db_xref="InterPro:IPR001647" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR036271" /db_xref="SubtiList:BG14194" /db_xref="UniProtKB/Swiss-Prot:Q7WY76" /translation="MGRNKEFDTALVLHRAIEVFGEYGYEGTSLQDLLSHLGIARQSL YDTYGTKRDLFLSAVKSYLEGKNAAVMERLEAPGSVKEAIRDIFQEGVNALRDPERAK ACYIINSAIEQIPHDPELARYFERQSKQLEDAFYHGLLRAKDQGELNGEDTDISALAR YLNQSRLSLTFIAKVTADMDRLQDHVDVSLSVLD*" gene 753817..754401 /gene="yezE" /locus_tag="BSU_06860" /old_locus_tag="BSU06860" downshifts 754382 /Source="Nicolas_upshifts" /id="D341" /incds=0 /nref=26 /ntot=216 /MaxReadThrough="2.43615" /MaxDrop="3.31193" /score="17.7046271" /energy="-9" /TU="NA" /idTUdmin="U527" /TUdmin="-2" /isTUend="TRUE" CDS 754480..754923 /gene="yesE" /locus_tag="BSU_06870" /old_locus_tag="BSU06870" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388568.1" /db_xref="EnsemblGenomes-Gn:BSU06870" /db_xref="EnsemblGenomes-Tr:CAB12506" /db_xref="InterPro:IPR009959" /db_xref="InterPro:IPR032710" /db_xref="PDB:1S5A" /db_xref="SubtiList:BG12844" /db_xref="UniProtKB/Swiss-Prot:O31511" /translation="MLMNEFEKACETLRKFMAYMLEKDMKSWTELWDENAVFEFPYAP EGSPKRIEGKAAIYDYIKDYPKQIHLSSFTAPTVYRSADSNTVIAEFQCDGHVIETGL PYRQSYISVIETRDGRIVRYRDYWNPLVVKEAFGGSFLQTEESGK*" gene 754480..754923 /gene="yesE" /locus_tag="BSU_06870" /old_locus_tag="BSU06870" CDS 754920..755780 /gene="yesF" /locus_tag="BSU_06880" /old_locus_tag="BSU06880" /EC_number="1.-.-.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 21494745; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative oxidoreductase" /protein_id="NP_388569.1" /db_xref="EnsemblGenomes-Gn:BSU06880" /db_xref="EnsemblGenomes-Tr:CAB12507" /db_xref="GOA:O31512" /db_xref="InterPro:IPR001509" /db_xref="InterPro:IPR008030" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG11808" /db_xref="UniProtKB/Swiss-Prot:O31512" /translation="MMKQNPILITGGTGTVGSRIASRLIKLGYRVRIASRKKGALADA EYVYFNWKYASSFTPALEQVKQIYLVAPVGVFDPAPYVLPFLKEAKRLGAKRVVMQSA SVVSENGPVFGALHQAVREFPEWTVLRPSYFMQNFINVQHRMSIQTEGRITTASGEGK LGFIDADDIAETAVRALIDDVPHQTHHILTGPEALSYAEAAEIIGAAAGRRVEHVSIS RSELQHKMEAGGLPADYAHFMAKLDEAISHGAEHRVTDTVKRVTGKEPRSLSEFAAAH AAYWTSFWTE*" gene 754920..755780 /gene="yesF" /locus_tag="BSU_06880" /old_locus_tag="BSU06880" promotor_-35 755842..755847 /Source="Nicolas_upshift_promotors" /id="U528" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.993006993006993" /psig="0.993006993006993" /xcortree=1097 /SigmaFactorBS="ccgaaggtcttcttattgaaaaagctaagtcgtgttttaGTC ATAatcatgcctcctgccTCATACCTATTAAGGTCATtgtttttgagaaaggaggagc c" /listShort="cotJA, cotJB, cotJC, S246, yesJ, yesK" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 755863..755881 /Source="Nicolas_upshift_promotors" /id="U528" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.993006993006993" /psig="0.993006993006993" /xcortree=1097 /SigmaFactorBS="ccgaaggtcttcttattgaaaaagctaagtcgtgttttaGTC ATAatcatgcctcctgccTCATACCTATTAAGGTCATtgtttttgagaaaggaggagc c" /listShort="cotJA, cotJB, cotJC, S246, yesJ, yesK" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 755863 /Source="Nicolas_upshifts" /id="U528" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.993006993006993" /psig="0.993006993006993" /xcortree=1097 /SigmaFactorBS="ccgaaggtcttcttattgaaaaagctaagtcgtgttttaGTC ATAatcatgcctcctgccTCATACCTATTAAGGTCATtgtttttgagaaaggaggagc c" /listShort="cotJA, cotJB, cotJC, S246, yesJ, yesK" /GFF_Attribute="listLong" promotor_-10 complement(755885..755899) /Source="Nicolas_upshift_promotors" /id="U529" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp=1 /psig=0 /xcortree=707 /SigmaFactorBS="ggcgtatatgatttgacaggcgtaaacggctgcatatccTTC ATtccggctCCTCCTTTCTCAAAAacaatgaccttaataggtatgaggcaggaggcat g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(755890) /Source="Nicolas_upshifts" /id="U529" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp=1 /psig=0 /xcortree=707 /SigmaFactorBS="ggcgtatatgatttgacaggcgtaaacggctgcatatccTTC ATtccggctCCTCCTTTCTCAAAAacaatgaccttaataggtatgaggcaggaggcat g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(755907..755911) /Source="Nicolas_upshift_promotors" /id="U529" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp=1 /psig=0 /xcortree=707 /SigmaFactorBS="ggcgtatatgatttgacaggcgtaaacggctgcatatccTTC ATtccggctCCTCCTTTCTCAAAAacaatgaccttaataggtatgaggcaggaggcat g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 755907..756155 /gene="cotJA" /locus_tag="BSU_06890" /old_locus_tag="BSU06890" /function="16.5: Explore" /function="16.13: Shape" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:9364920" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9364920; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="component of the inner spore coat" /protein_id="NP_388570.1" /db_xref="EnsemblGenomes-Gn:BSU06890" /db_xref="EnsemblGenomes-Tr:CAB12508" /db_xref="InterPro:IPR020256" /db_xref="SubtiList:BG11799" /db_xref="UniProtKB/Swiss-Prot:Q45536" /translation="MKDMQPFTPVKSYTPFHSRFDPCPPIGKKYYRTPPNLYMTFQPE HMEQFSPMEALRKGTLWKDLYDFYENPYRGGDAHGKKG*" gene 755907..756155 /gene="cotJA" /locus_tag="BSU_06890" /old_locus_tag="BSU06890" CDS 756139..756402 /gene="cotJB" /locus_tag="BSU_06900" /old_locus_tag="BSU06900" /function="16.13: Shape" /function="16.8: Protect" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:9364920" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9364920; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="component of the inner spore coat" /protein_id="NP_388571.2" /db_xref="EnsemblGenomes-Gn:BSU06900" /db_xref="EnsemblGenomes-Tr:CAB12509" /db_xref="InterPro:IPR016571" /db_xref="InterPro:IPR024207" /db_xref="SubtiList:BG11800" /db_xref="UniProtKB/Swiss-Prot:Q45537" /translation="MAKKVDAEYYRQLEQIQAADFVLVELSLYLNTHPHDEDALKQFN QYSGYSRHLKRQFESSYGPLLQFGNSPAGKDWDWGKGPWPWQV*" gene 756139..756402 /gene="cotJB" /locus_tag="BSU_06900" /old_locus_tag="BSU06900" CDS 756417..756986 /gene="cotJC" /locus_tag="BSU_06910" /old_locus_tag="BSU06910" /EC_number="1.11.1.6" /function="16.8: Protect" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:7768848, 9364920" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7768848, 9364920; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="enzyme component of the inner spore coat" /protein_id="NP_388572.1" /db_xref="EnsemblGenomes-Gn:BSU06910" /db_xref="EnsemblGenomes-Tr:CAB12510" /db_xref="InterPro:IPR007760" /db_xref="InterPro:IPR009078" /db_xref="InterPro:IPR012347" /db_xref="SubtiList:BG11801" /db_xref="UniProtKB/Swiss-Prot:Q45538" /translation="MWVYEKKLQYPVKVSTCNPTLAKYLIEQYGGADGELAAALRYLN QRYTIPDKVIGLLTDIGTEEFAHLEMIATMVYKLTKDATPEQLREAGLGDHYVNHDSA LFYHNAAGVPFTASYIQAKGDPIADLYEDIAAEEKARATYQWLIDISDDPDLNDSLRF LREREIVHSMRFREAVEILKEERDKKKIF*" gene 756417..756986 /gene="cotJC" /locus_tag="BSU_06910" /old_locus_tag="BSU06910" S_feature 756987..757065 /Source="Nicolas_S_feature" /locus_tag="new_756987_757065" /HighExp="S4, S5, S3, S7, S6, B36, LoTm, BT, T5.0H, S8" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig="0.993" /TUlongSig="NA" /TUlongPSig="NA" /label="S246" promotor_-35 757038..757043 /Source="Nicolas_upshift_promotors" /id="U530" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.518481518481518" /psig="0.999000999001" /xcortree=3085 /SigmaFactorBS="tcatacacccttttacatacagagaaaatggTCTGTTtttgc agtttggtcTGCATTATAATCAAGGTGTGtgtgcaagcttactttttgattgggaggc c" /listShort="yesJ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 757058..757077 /Source="Nicolas_upshift_promotors" /id="U530" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.518481518481518" /psig="0.999000999001" /xcortree=3085 /SigmaFactorBS="tcatacacccttttacatacagagaaaatggTCTGTTtttgc agtttggtcTGCATTATAATCAAGGTGTGtgtgcaagcttactttttgattgggaggc c" /listShort="yesJ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 757067 /Source="Nicolas_upshifts" /id="U530" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.518481518481518" /psig="0.999000999001" /xcortree=3085 /SigmaFactorBS="tcatacacccttttacatacagagaaaatggTCTGTTtttgc agtttggtcTGCATTATAATCAAGGTGTGtgtgcaagcttactttttgattgggaggc c" /listShort="yesJ" /GFF_Attribute="listLong" CDS 757111..757653 /gene="yesJ" /locus_tag="BSU_06920" /old_locus_tag="BSU06920" /EC_number="2.3.1.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative acetyltransferase" /protein_id="NP_388573.1" /db_xref="EnsemblGenomes-Gn:BSU06920" /db_xref="EnsemblGenomes-Tr:CAB12511" /db_xref="GOA:O31513" /db_xref="InterPro:IPR000182" /db_xref="InterPro:IPR016181" /db_xref="SubtiList:BG11809" /db_xref="UniProtKB/Swiss-Prot:O31513" /translation="MTAFKIENETIADGFYACPAVYEDAESITGLLVRTAEWLRDRGS NQWSGLLKGQDIHDITGSIEKGHVFVFKKDEELAAVVMLLPAPSEWDRTLWGDDGHEE SIYLHRLAVSRRFAGQGLGARVLQWAETGIHFPEKTRIRLDCVADSDALHSFYRRMGY EFMGADASGYHLFEKEITAE*" gene 757111..757653 /gene="yesJ" /locus_tag="BSU_06920" /old_locus_tag="BSU06920" downshifts 757620 /Source="Nicolas_upshifts" /id="D342" /incds=0 /nref=104 /ntot=251 /MaxReadThrough="3.04389" /MaxDrop="4.5316" /score="8.56782582" /energy="-5.8" /TU="U528" /idTUdmin="U530" /TUdmin=2 /isTUend="TRUE" CDS 757676..757978 /gene="yesK" /locus_tag="BSU_06930" /old_locus_tag="BSU06930" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative membrane component" /protein_id="NP_388574.2" /db_xref="EnsemblGenomes-Gn:BSU06930" /db_xref="EnsemblGenomes-Tr:CAB12512" /db_xref="GOA:O31514" /db_xref="InterPro:IPR025434" /db_xref="SubtiList:BG12845" /db_xref="UniProtKB/Swiss-Prot:O31514" /translation="MSFSKREAGDVWSILFVTGIVTACLFAGVSVLMRMRFPDKSRPE WMLAGLIVLGVFAIWYSLVYVRGWEGAALGMLGFNVIFGAIAGYLIDKAIRRYRKR*" gene 757676..757978 /gene="yesK" /locus_tag="BSU_06930" /old_locus_tag="BSU06930" promotor_-35 758021..758029 /Source="Nicolas_upshift_promotors" /id="U531" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.895104895104895" /psig="0.895104895104895" /xcortree=362 /SigmaFactorBS="gccgtctctcaacaggtcgaaattttcacagaccgGCAGGAA TTttctttcgaaAGGAGAAATACATATTACTttaaaatgaaagcgttttccaaagcag g" /listShort="yesL, yesM" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 758040..758058 /Source="Nicolas_upshift_promotors" /id="U531" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.895104895104895" /psig="0.895104895104895" /xcortree=362 /SigmaFactorBS="gccgtctctcaacaggtcgaaattttcacagaccgGCAGGAA TTttctttcgaaAGGAGAAATACATATTACTttaaaatgaaagcgttttccaaagcag g" /listShort="yesL, yesM" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 758046 /Source="Nicolas_upshifts" /id="U531" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.895104895104895" /psig="0.895104895104895" /xcortree=362 /SigmaFactorBS="gccgtctctcaacaggtcgaaattttcacagaccgGCAGGAA TTttctttcgaaAGGAGAAATACATATTACTttaaaatgaaagcgttttccaaagcag g" /listShort="yesL, yesM" /GFF_Attribute="listLong" CDS 758093..758722 /gene="yesL" /locus_tag="BSU_06940" /old_locus_tag="BSU06940" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406, 25441682; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative permease or sensor of a three componentsystem for pectin and rhamnogalacturonan transport anddegradation" /protein_id="NP_388575.1" /db_xref="EnsemblGenomes-Gn:BSU06940" /db_xref="EnsemblGenomes-Tr:CAB12513" /db_xref="GOA:O31515" /db_xref="InterPro:IPR006938" /db_xref="SubtiList:BG12846" /db_xref="UniProtKB/Swiss-Prot:O31515" /translation="MLMIHSVANGLNHFCTWVMRLAYLNVLWILFSLAGLVVFGLMPA TAAMFTVAREWAKGNTDAPVFSVFFRTFKKEWRASQILGLIVVTAALFLFADMRIAAQ MDQPVLVNVFVSISLIFAFVVLYVFPVFSHFDVKIREVLSISFFIAFSRPAVTLLMAA GAVGVLCLVLFHVTFLLFFSGSLLSLILTKLSFKAFRSMDQRQEKEKAA*" gene 758093..758722 /gene="yesL" /locus_tag="BSU_06940" /old_locus_tag="BSU06940" CDS 758719..760452 /gene="yesM" /locus_tag="BSU_06950" /old_locus_tag="BSU06950" /function="16.3: Control" /function="16.12: Sense" /experiment="publication(s) with functional evidences, PMID:11717295, 23436677, 25441682" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11717295, 23436677, 25441682; Product type rc: receptor" /codon_start=1 /transl_table=11 /product="two-component sensor histidine kinase [YesN]" /protein_id="NP_388576.1" /db_xref="EnsemblGenomes-Gn:BSU06950" /db_xref="EnsemblGenomes-Tr:CAB12514" /db_xref="GOA:O31516" /db_xref="InterPro:IPR003594" /db_xref="InterPro:IPR003660" /db_xref="InterPro:IPR004358" /db_xref="InterPro:IPR005467" /db_xref="InterPro:IPR010559" /db_xref="InterPro:IPR033479" /db_xref="InterPro:IPR036890" /db_xref="SubtiList:BG12847" /db_xref="UniProtKB/Swiss-Prot:O31516" /translation="MKKRVAGWYRRMKIKDKLFVFLSLIMAVSFLFVYSGVQYAFHVY DEQIYRKSSEVLRMSSERIEDELKKIEDVSYEIITDEQIQRILSMQNRDDTYDQYQMK QELWDQLAGYASDEKYIDSIHVIDARGSEYSAGSSSSDLLQQEQEEVFKRAKAKSGRN LWMTLGGSDPVLISARQIRSYHQLSLNGLGMVLIQVNVKQMIRDVPKDWGDSVGDIMI ADQGGNLVYTAHASAHVPEAAKETLKHPGYDLIKKNGKRYFISYLQSSYQNWSYYNVI PFDQMFAKISFMKTVIGTCFLLFFCVVLLFGRKIANSITEPIEQLVTAMKSVQHSGIE AGVSLSLPEHTQDEAGMLNRHFTVMMKRINELMEENVEKQLIIKETELKALQAQINPH FLYNTLESINWLAKANQQKQISKMVESLGFLLRNSIHMKKDIVTIQEEADIVRHYMTI QRFRFEERLKFTLDIDDEVKHCLIPKLTLQPLAENAIQYALEPFTRPCAIRIQAKKAK GCVCITVEDNGPGMDGRILESTGGRGIGLWNIRERISLTFGEPYGLRIHSEHEKGTRI VITIPCRNEVV*" gene 758719..760452 /gene="yesM" /locus_tag="BSU_06950" /old_locus_tag="BSU06950" CDS 760452..761558 /gene="yesN" /locus_tag="BSU_06960" /old_locus_tag="BSU06960" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:25441682" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 25441682; Product type r: regulator" /codon_start=1 /transl_table=11 /product="two-component response regulator [YesM]" /protein_id="NP_388577.1" /db_xref="EnsemblGenomes-Gn:BSU06960" /db_xref="EnsemblGenomes-Tr:CAB12515" /db_xref="GOA:O31517" /db_xref="InterPro:IPR001789" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR011006" /db_xref="InterPro:IPR018060" /db_xref="SubtiList:BG12848" /db_xref="UniProtKB/Swiss-Prot:O31517" /translation="MYKILLADDERIILDGMAGIIEWESLGASLIGKAQNGHEAYEKI VHKQPHIVITDVKMPGMDGLELIKKVSAVSPSVQFIVLSGFGEFEYAKEAMKYGVKHY LLKPCNEQQIISSLEEIIAELKRQDVHKKKTAHLKHELDHIRSFAADQYLEGLIAGVA QLSPPPSLAGKKIRLLILKGEQSIDAAAREALGSALTAVCSSGEWTVLAVEENAAEKV AEVFADRKMAISQAGELRHAGQLFRDTAEASGDLHGSAVISKMIRLIADELGNPNLSL KWAAKDMLFMNPDYLGKLFKQETGEKFSQYVTRVRLEHAMKQMKIRRDVSVSEIAEEI GFGDNPKYFSLVFKKYTGLTPSEFRRKQGGASAG*" gene 760452..761558 /gene="yesN" /locus_tag="BSU_06960" /old_locus_tag="BSU06960" downshifts 761512 /Source="Nicolas_upshifts" /id="D343" /incds=0 /nref=4 /ntot=43 /MaxReadThrough="0.271749999999999" /MaxDrop="3.41261" /score="3.12085441" /energy="-10.3" /TU="NA" /idTUdmin="U531" /TUdmin=1408 /isTUend="FALSE" promotor_-35 761597..761600 /Source="Nicolas_upshift_promotors" /id="U532" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.882117882117882" /psig="0.992007992007992" /xcortree=356 /SigmaFactorBS="tctctgtttttttgactttcgccactgttttttgaGTGTttc gccctatccgaACGCTTTAAAATAAAATGTAagcacttacattaaaggggggattggt t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 761615..761634 /Source="Nicolas_upshift_promotors" /id="U532" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.882117882117882" /psig="0.992007992007992" /xcortree=356 /SigmaFactorBS="tctctgtttttttgactttcgccactgttttttgaGTGTttc gccctatccgaACGCTTTAAAATAAAATGTAagcacttacattaaaggggggattggt t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 761622 /Source="Nicolas_upshifts" /id="U532" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.882117882117882" /psig="0.992007992007992" /xcortree=356 /SigmaFactorBS="tctctgtttttttgactttcgccactgttttttgaGTGTttc gccctatccgaACGCTTTAAAATAAAATGTAagcacttacattaaaggggggattggt t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS 761662..762945 /gene="yesO" /locus_tag="BSU_06970" /old_locus_tag="BSU06970" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:16781735, 17449691, 25658435" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16781735, 17449691, 25658435; Product type lp: lipoprotein" /codon_start=1 /transl_table=11 /product="pectin degradation byproducts (rhamnose oligosaccharides)-binding lipoprotein" /protein_id="NP_388578.2" /db_xref="EnsemblGenomes-Gn:BSU06970" /db_xref="EnsemblGenomes-Tr:CAB12516" /db_xref="PDB:4R6K" /db_xref="SubtiList:BG12849" /db_xref="UniProtKB/Swiss-Prot:O31518" /translation="MKKICYVLLSLVCVFLFSGCSAGEEASGKKEDVTLRIAWWGGQP RHDYTTKVIELYEKKNPHVHIEAEFANWDDYWKKLAPMSAAGQLPDVIQMDTAYLAQY GKKNQLEDLTPYTKDGTIDVSSIDENMLSGGKIDNKLYGFTLGVNVLSVIANEDLLKK AGVSINQENWTWEDYEKLAYDLQEKAGVYGSNGMHPPDIFFPYYLRTKGERFYKEDGT GLAYQDDQLFVDYFERQLRLVKAKTSPTPDESAQIKGMEDDFIVKGKSAITWNYSNQY LGFARLTDSPLSLYLPPEQMQEKALTLKPSMLFSIPKSSEHKKEAAKFINFFVNNEEA NQLIKGERGVPVSDKVADAIKPKLNEEETNIVEYVETASKNISKADPPEPVGSAEVIK LLKDTSDQILYQKVSPEKAAKTFRKKANEILERNN*" gene 761662..762945 /gene="yesO" /locus_tag="BSU_06970" /old_locus_tag="BSU06970" CDS 762942..763871 /gene="rhgP" /locus_tag="BSU_06980" /old_locus_tag="BSU06980" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15849754, 16850406, 17449691" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15849754, 16850406, 17449691; Product type t: transporter" /codon_start=1 /transl_table=11 /product="rhamnogalacturonan permease" /protein_id="NP_388579.1" /db_xref="EnsemblGenomes-Gn:BSU06980" /db_xref="EnsemblGenomes-Tr:CAB12517" /db_xref="GOA:O31519" /db_xref="InterPro:IPR000515" /db_xref="InterPro:IPR035906" /db_xref="SubtiList:BG12850" /db_xref="UniProtKB/Swiss-Prot:O31519" /translation="MTGNGADAMKKSRSIRKDNLAGYAFISPFIIGFLCFTVIPMGAS LFLSFTSYDLFTAPKWIGLDNFKEMFTGDEKYWQSLKVTFTYVLAGVPLRLGFALFIA VILNNAAKGTAIYRTLFYLPSIIGGSVAVAIMWRNIFGNDGVINALLFFVGIDQKILW YQNPTSALWTLILLSVWQFGSSMLIFLAGLKNIPSSYLEAASVDGANRVQRFFKITLP ILTPIIFFNLVMQTISAFMTFTPAYIISKGEGGPLDGTLLYSLYLFQRAFNYFQMGYA SAMAWVMLVIVGLITLILFKTSSYWVHYESKEE*" gene 762942..763871 /gene="rhgP" /locus_tag="BSU_06980" /old_locus_tag="BSU06980" CDS 763875..764765 /gene="rhgQ" /locus_tag="BSU_06990" /old_locus_tag="BSU06990" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15849754, 16850406, 17449691" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15849754, 16850406, 17449691; Product type t: transporter" /codon_start=1 /transl_table=11 /product="rhamnogalacturonan permease" /protein_id="NP_388580.1" /db_xref="EnsemblGenomes-Gn:BSU06990" /db_xref="EnsemblGenomes-Tr:CAB12518" /db_xref="GOA:O31520" /db_xref="InterPro:IPR000515" /db_xref="InterPro:IPR035906" /db_xref="SubtiList:BG12851" /db_xref="UniProtKB/Swiss-Prot:O31520" /translation="MEPVNQPVREAPVFERKKAGRVSPKRILFHVFTATLAVLLLYPV IWLFVSSFKESASIFTTSHSLIPDPFILSNYAEGWKGIAGQPFLTFIKNSAIIVGLST IGAVMSSAVIAYGFARIPFKGKKFWFACMMGTLMLPHEVLMIPQYIMFAKLDWLNSFK PIVVPQFFGHAFFIFLMIQFIRTIPEELDEAARIDGCGRFACFWRIILPLIAPALATS AIFSFYWKWEELIQPLLYLNKPELYPVSLALKLFLDTESASNWGAMFAMSAVSLLPVI LVFFLFQKYIVQGISTTGLK*" gene 763875..764765 /gene="rhgQ" /locus_tag="BSU_06990" /old_locus_tag="BSU06990" CDS 764781..765815 /gene="rhgH" /locus_tag="BSU_07000" /old_locus_tag="BSU07000" /EC_number="3.2.1.172" /function="16.6: Maintain" /function="16.13: Shape" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1b: Function from experimental evidences in the studied species; PubMedId: 16781735, 17449691; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="rhamnogalacturonan hydrolase" /protein_id="NP_388581.1" /db_xref="EnsemblGenomes-Gn:BSU07000" /db_xref="EnsemblGenomes-Tr:CAB12519" /db_xref="GOA:O31521" /db_xref="InterPro:IPR008928" /db_xref="InterPro:IPR010905" /db_xref="SubtiList:BG12852" /db_xref="UniProtKB/Swiss-Prot:O31521" /translation="MAQLIFDEEKVTSVIDRIVKRTFQMDFAWDWPGGVAFYGVAEAY EATENEEYINLLKTWVDEQLEDGLPPLSINGVSIGHTLLFLHKVTGDDVYLETAAEMA EYVLHKAPRFGEGILQHTVNAAEYVFPEQAWADTLMMAGLFMLRIGRVMEREDYFEDG LRQFHGHEDVLQDPVTNLYYHAWDNKAQNHLSGIYWGRANGWAALTMAKALPLIEVTH PSFMIIDGSLRDQLSALVRLQDESGLWHTILDDPDSYLEVSASAGIASALMSSGKLYT KYVQKSLAAILDAVEEDGRVSRVSAGTAVMKNAEGYKQVPYKRIQGWGQGLALTFLAD VLKTKKRLYQ*" gene 764781..765815 /gene="rhgH" /locus_tag="BSU_07000" /old_locus_tag="BSU07000" CDS 765838..768123 /gene="rhgR" /locus_tag="BSU_07010" /old_locus_tag="BSU07010" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:16781735, 17449691, 19651770" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16781735, 17449691, 19651770; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator (AraC/XylS family)" /protein_id="NP_388582.1" /db_xref="EnsemblGenomes-Gn:BSU07010" /db_xref="EnsemblGenomes-Tr:CAB12520" /db_xref="GOA:O31522" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR014710" /db_xref="InterPro:IPR018060" /db_xref="InterPro:IPR018062" /db_xref="SubtiList:BG12853" /db_xref="UniProtKB/Swiss-Prot:O31522" /translation="MKKQPQQKERVSRWKGTYFKRNFVFILLIACIPGLLTGGAIYFL SIDKVEKELQRSHETQVAREVSRMDEKLGVLELALTQMAYDSSLMNGLAERDLEKDFT FSYQLTKKLFLLRDQQPLIEQASIFLNSPRPLVLSPEYSALTEQEALRKYRSLLASDH SIYWKRSGNQAMLIQLIPGAAEKPFGAIMLAVDPKEMESILQSLSPYPDGSALLLDQN REVLFHEGEKDFEKTLLHEIKKQPAENGHFQMEWKGKVYSVSFGEMNRMHQQWTFVSA APLSAITAPMVFLSKVIIVMLVICIGLAVCMTWYASKKIYRPIQHLLGLFTGGEKKTW QASGQDEFKWIEKRWQDLSLESRKLQQQLLRQTPHMKKSFLQHLLQSDFYYDNEESLR FRMEEAGWNIGGNVFHVLDLQVTGLRCEKSIFREGDEQLAVFTLTNIAEELAAKRVFQ LSILDIGRLSVTVLVMKTNSSDLKAYITELARQFGDVTGLCLTSTLSSKTERVTEIPS LFQDVKCGKSRRKFANRDQVIDLQADFPRDEQFAPYYPFELEKQIVQTIRLERKQEAK ELIDGCMKELSEKAAIDRHVHSALIQLFSRIQEDILHSGLNPSELFQHRNPFLDISEL REPNEAAAWLMDVVVTPYLSKLEGRKNRQQKQLAERVIAMIHEQYMADISLESCADAL GMNSYTLSKAFKQVTGINFIDYVTQIRIEKAKELLVNTNKKIHDVSEEVGYRHNYFNR IFKKQVGMPPGVFRQMYQETP*" gene 765838..768123 /gene="rhgR" /locus_tag="BSU_07010" /old_locus_tag="BSU07010" CDS 768137..768835 /gene="rhgT" /locus_tag="BSU_07020" /old_locus_tag="BSU07020" /EC_number="3.1.1.-" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:16781735, 17449691, 17957779" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16781735, 17449691, 17957779; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="rhamnogalacturonan acetylesterase" /protein_id="NP_388583.1" /db_xref="EnsemblGenomes-Gn:BSU07020" /db_xref="EnsemblGenomes-Tr:CAB12521" /db_xref="GOA:O31523" /db_xref="InterPro:IPR013830" /db_xref="InterPro:IPR036514" /db_xref="SubtiList:BG12854" /db_xref="UniProtKB/Swiss-Prot:O31523" /translation="MMKKPIQVFLAGDSTVSDCPPHEAPMAGWGQVFGQLFSEGVLVR NHAKGGASTNSFVEEGRLQAIAEHITQGDYLLIQFGHNDQKPRGTKPYSTFQQFLTLF ADTAREKGAHPVFVTSVQRRRFDENGRIEHTLGEYPDAMKALAKELDVPVIDLLAKTK VLYEAYGPEESKRLFVWFQPNEHPNYPDGIEDNTHFSEKGAMEVAKLVAEGIEELGLP LKDHLVSREGKEHV*" gene 768137..768835 /gene="rhgT" /locus_tag="BSU_07020" /old_locus_tag="BSU07020" CDS 768828..769490 /gene="yesU" /locus_tag="BSU_07030" /old_locus_tag="BSU07030" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 16781735, 17449691; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative enzyme" /protein_id="NP_388584.1" /db_xref="EnsemblGenomes-Gn:BSU07030" /db_xref="EnsemblGenomes-Tr:CAB12522" /db_xref="InterPro:IPR013320" /db_xref="InterPro:IPR015305" /db_xref="PDB:1OQ1" /db_xref="SubtiList:BG12855" /db_xref="UniProtKB/Swiss-Prot:O31524" /translation="MYKEGACLYRNPLRSKSDVKDWRMEGGGQISFDDHSLHLSHVQD EAHFVFWCPETFPDGIIVTWDFSPIEQPGLCMLFFAAAGIRGEDLFDPSLRKRTGTYP EYHSGDINALHLSYFRRKYAEERAFRTCNLRKSRGFHLAAMGADPLPSPDDADSPYRM KLIKDKGYVHFSINGLPILEWMDDGSTYGPVLTKGKIGFRQMAPMKAVYRDFAVHQAV RR*" gene 768828..769490 /gene="yesU" /locus_tag="BSU_07030" /old_locus_tag="BSU07030" CDS 769487..770113 /gene="yesV" /locus_tag="BSU_07040" /old_locus_tag="BSU07040" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406, 17449691; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral inner membrane component" /protein_id="NP_388585.1" /db_xref="EnsemblGenomes-Gn:BSU07040" /db_xref="EnsemblGenomes-Tr:CAB12523" /db_xref="InterPro:IPR006938" /db_xref="SubtiList:BG12856" /db_xref="UniProtKB/Swiss-Prot:O31525" /translation="MKTTVTDALYAGCEAVVKIAWLNGLWLLFTLLGGVLFGWAPSTA AMCAVIRKWLMGQKDVPIFSLFLDTYKKEFLKVNAIGLAFSALLLILSANYHYFSAST NWLSFAVTSCTLLAGLLYIIALMYVFPLYVHYQLPLRKYIPQALLFGAMRPLTTGCML IGCGFVLYLLYTLPGLIPFYGPCLFGLVLMFFALRGFQKTEAQHHQAG*" gene 769487..770113 /gene="yesV" /locus_tag="BSU_07040" /old_locus_tag="BSU07040" CDS 770234..772096 /gene="rhgW" /locus_tag="BSU_07050" /old_locus_tag="BSU07050" /EC_number="4.2.2.23" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:16781735, 17449691, 19193638" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16781735, 17449691, 19193638; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="rhamnogalacturonan endolyase" /protein_id="NP_388586.1" /db_xref="EnsemblGenomes-Gn:BSU07050" /db_xref="EnsemblGenomes-Tr:CAB12524" /db_xref="GOA:O31526" /db_xref="InterPro:IPR013783" /db_xref="InterPro:IPR034641" /db_xref="PDB:2Z8R" /db_xref="PDB:2Z8S" /db_xref="PDB:2ZUX" /db_xref="SubtiList:BG12857" /db_xref="UniProtKB/Swiss-Prot:O31526" /translation="MRRSCLMIRRRKRMFTAVTLLVLLVMGTSVCPVKAEGAARQMEA LNRGLVAVKTDGGIFVSWRFLGTENASVLFNVYRDGQKLNAAPVKTTNYVDKNGSAGS TYTVRAVVNGTEQPASEKASVWAQPYHSVPLDKPAGGTTPKGESYTYSANDASVGDVD GDGQYELILKWDPSNSKDNSQDGYTGDVLIDAYKLDGTKLWRINLGKNIRAGAHYTQF MVYDLDGDGKAEVAMKTADGTKDGTGKVIGNANADYRNEQGRVLSGPEYLTVFQGSTG KELVTANFEPARGNVSDWGDSYGNRVDRFLAGIAYLDGQRPSLIMTRGYYAKTMLVAY NFRDGKLSKLWTLDSSKSGNEAFAGQGNHNLSIADVDGDGKDEIIFGSMAVDHDGKGM YSTGLGHGDALHTGDLDPGRPGLEVFQVHEDKNAKYGLSFRDAATGKILWGVYAGKDV GRGMAADIDPRYPGQEVWANGSLYSAKGVKIGSGVPSSTNFGIWWDGDLLREQLDSNR IDKWDYQNGVSKNMLTASGAAANNGTKATPTLQADLLGDWREEVVWRTEDSSALRIYT TTIPTEHRLYTLMHDPVYRLGIAWQNIAYNQPPHTSFFLGDGMAEQPKPNMYTP*" gene 770234..772096 /gene="rhgW" /locus_tag="BSU_07050" /old_locus_tag="BSU07050" promotor_no_box 770274..770374 /Source="Nicolas_upshift_promotors" /id="U533" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.59040959040959" /psig="0.000999000999001" /xcortree=1487 /SigmaFactorBS="tgtttaccgctgttacgttgctggtcttgttggtgatgggaa cctctgtatgtcctgtgaaagctgaaggggcagcgcggcagatggaagcgctgaaccg g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts 770334 /Source="Nicolas_upshifts" /id="U533" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.59040959040959" /psig="0.000999000999001" /xcortree=1487 /SigmaFactorBS="tgtttaccgctgttacgttgctggtcttgttggtgatgggaa cctctgtatgtcctgtgaaagctgaaggggcagcgcggcagatggaagcgctgaaccg g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" upshifts complement(770872) /Source="Nicolas_upshifts" /id="U534" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.995004995004995" /psig="0.995004995004995" /xcortree=1380 /SigmaFactorBS="cattgccacttctgctttTCCGTCACCAtcaaggtcatacAC CATAAACTGGGTGTAGTGcgcgcccgctctgatgtttttgccgagattgatccgccat a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 complement(770873..770892) /Source="Nicolas_upshift_promotors" /id="U534" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.995004995004995" /psig="0.995004995004995" /xcortree=1380 /SigmaFactorBS="cattgccacttctgctttTCCGTCACCAtcaaggtcatacAC CATAAACTGGGTGTAGTGcgcgcccgctctgatgtttttgccgagattgatccgccat a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(770905..770914) /Source="Nicolas_upshift_promotors" /id="U534" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.995004995004995" /psig="0.995004995004995" /xcortree=1380 /SigmaFactorBS="cattgccacttctgctttTCCGTCACCAtcaaggtcatacAC CATAAACTGGGTGTAGTGcgcgcccgctctgatgtttttgccgagattgatccgccat a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 772142..773980 /gene="rhgX" /locus_tag="BSU_07060" /old_locus_tag="BSU07060" /EC_number="4.2.2.24" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:16781735, 17449691, 19193638" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16781735, 17449691, 19193638; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="rhamnogalacturonan exolyase" /protein_id="NP_388587.1" /db_xref="EnsemblGenomes-Gn:BSU07060" /db_xref="EnsemblGenomes-Tr:CAB12525" /db_xref="GOA:O31527" /db_xref="InterPro:IPR013517" /db_xref="InterPro:IPR013783" /db_xref="InterPro:IPR034641" /db_xref="PDB:2ZUY" /db_xref="SubtiList:BG12858" /db_xref="UniProtKB/Swiss-Prot:O31527" /translation="MKPKKRQMEYLTRGLIAVQTEQGVFVSWRFLGTDHETTAFHLYR DGKRITRDPIAESTNFLDQNGTADSVYQVAAVNKGREEKLSKKARVWQENVLEVPLAK PEGGVTPDGKPYTYSANDASVGDIDGDGEYEMILKWDPSNSKDNAHDGYTGEVLIDAY KLDGTFLWRINLGRNIRAGAHYTQFMVYDLDGDGKAEIAMKTADGTTDGKGHIIGDEQ ADFRNEQGRILSGPEYLTVFKGETGEALTTVEYEPPRGKLEDWGDGYGNRMDRFLAGT AYLDGERPSLVMARGYYTRTVLVAYDFRNGRLKKRWVFDSNQPGHEAYAGQGNHSLSV ADVDGDGKDEIIYGAMAVDHDGTGLYSTGLGHGDAMHVGDLDPSRKGLEVFQVHEDAT KPYGLSLRDAGTGEILWGVHAGTDVGRGMAAHIDPSYKGSLVWGIDPPGNDGMSYGLF TSKGEKISDKAPSSANFAIWWDGDLVRELLDHDWDGTIGRPKIEKWDAENGCLKTIFQ PAGVLSNNGTKGNPVLQANLFGDWREEVIWRTEDSSALRIYTTTHLTRHCFYTLMHDP VYRLGIAWQNTAYNQPPHTSFYLGTGMKKPPKPALYIAGSKAEAPL*" gene 772142..773980 /gene="rhgX" /locus_tag="BSU_07060" /old_locus_tag="BSU07060" CDS 774138..774791 /gene="yesY" /locus_tag="BSU_07070" /old_locus_tag="BSU07070" /EC_number="3.1.1.-" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:16781735, 17449691" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16781735, 17449691; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="rhamnogalacturonan acetylesterase" /protein_id="NP_388588.1" /db_xref="EnsemblGenomes-Gn:BSU07070" /db_xref="EnsemblGenomes-Tr:CAB12526" /db_xref="GOA:O31528" /db_xref="InterPro:IPR013830" /db_xref="InterPro:IPR036514" /db_xref="SubtiList:BG12859" /db_xref="UniProtKB/Swiss-Prot:O31528" /translation="MANHIYLAGDSTVQTYGDSTNQGGWGQFLGSHLPEHIQVINRAI GGRSSKTFVEEGRLQAILDVIEPDDWLFVQMGHNDASKNKPERYTEPYTTYKQYLKQY IAGAREKGAHPLLITPVARFHYENGVFLNDFPDYCIAMKQTAAEENVQLIDLMEKSLA FFTEKGEEKVYTYFMISEGINDYTHFTKKGANEMAKLVAKGIKELGLPLTESIIKER* " gene 774138..774791 /gene="yesY" /locus_tag="BSU_07070" /old_locus_tag="BSU07070" CDS 774799..776790 /gene="rhgZ" /locus_tag="BSU_07080" /old_locus_tag="BSU07080" /EC_number="3.2.1.67" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:16781735, 17056685, 17449691, 17485082" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16781735, 17056685, 17449691, 17485082; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="beta-galacturonidase" /protein_id="NP_388589.1" /db_xref="EnsemblGenomes-Gn:BSU07080" /db_xref="EnsemblGenomes-Tr:CAB12527" /db_xref="GOA:O31529" /db_xref="InterPro:IPR003476" /db_xref="InterPro:IPR013529" /db_xref="InterPro:IPR013738" /db_xref="InterPro:IPR013739" /db_xref="InterPro:IPR017853" /db_xref="InterPro:IPR029062" /db_xref="SubtiList:BG12860" /db_xref="UniProtKB/Swiss-Prot:O31529" /translation="MRKLYHGACYYPELWDEETIQQDIDIMREVGVNVVRIGEFAWSV MEPEEGKIDVGFFKEIIARLYDSGIETIMCTPTPTPPIWFSHGRPERMHANEKREIMG HGSRQHACTNNPYFRKKAAIITTAIAKELGRLPGLIGWQLDNEFKCHVAECMCETCLR LWHDWLKNRYGVIERLNEAWGTDVWSETYQTFEQVPQPGPAPFLHHASLRTMYQLFSM EMIASFADEQAKIIRCYSDAPITHNGSVMFSVDNERMFQNLDFASYDTYASQENASAF LLNCDLWRNLKQGRPFWILETSPSYAASLESSAYPHADGYLQAEAVSSYALGSQGFCY WLWRQQRSGSEISHGSVLSAWGEPTIGYQNVLAVERARKEIEPIILSTEPVQAEAAMT YSDRAKAFIKTEPHRGLRHRSLVTHFYERILNTGIHRDLIPEGAPLDGYRLLFTPFVP YLSSEFIKKASAFAEAGGIWITGPLTGGRTCEHTIHTDCGLGELEKTSGIKTLFTFPM NENVNTGKAFGITAPLGLWSAVFDTESGNTLGTVEAGPGAGHAFLTERNYGEGKIVML GSLPSGKEGDAMLEALVRHYAEEAVISSRSDVTPGTIVAPRIGENGLVWIVVNMDGKG GSVTLPESGTDLLTHRLEKAGRLAVGPHEYRVIQFDNHS*" gene 774799..776790 /gene="rhgZ" /locus_tag="BSU_07080" /old_locus_tag="BSU07080" CDS 776834..779407 /gene="yetA" /locus_tag="BSU_07090" /old_locus_tag="BSU07090" /EC_number="3.1.-.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative enzyme" /protein_id="NP_388590.2" /db_xref="EnsemblGenomes-Gn:BSU07090" /db_xref="EnsemblGenomes-Tr:CAB12528" /db_xref="SubtiList:BG12861" /db_xref="UniProtKB/Swiss-Prot:O31530" /translation="MKKIKWLSGQPKVTSGVTWGMPWKKGELKKGDRLALMNENAETR YVQSEPSAYWPDGSIKWTKHAAVFGGQENQSFTVHKREVPQPTESLSILETEHDIQVD TGALVCTIHKTGSDFIQSLQINGKPIAAGGRLVAIRETRKESAAKMVLLHERSVSFIK RAAIEQSGPVKAVVKIEGVHVLHKTYEEWLPFVIRLTFYAGLSEIGLVHTQLIDRSGK LEFVKGLGIEFDLFLEGEPYNRHFRFAGEKGMYKEPAQLFGTRKFNERYPLYEKQING EMLSPDEEHKEWFAHGTQNAVWDDVKIVQDSSDHYSLSKRTGKDYAWVGMLHGSRAKG LCYAGGKNGGVALGLRYFFEKYPSALEITGLAGSRPKMTIWLWPPDGEAMDLRHYTGN THVASAYEGFDEMRSDPTGIANTNEISLACFSHMPSDEVLNALADKWQAPPLIVCEPD VYYESKALGVWSIIDTSHPLKKELEEQLDAAFLFYKKEVEQRRWYGFWHYGDVMHTYD PIRHMWRYDLGGYAWQNNELVPTLWLWQAFFRSGREDIFRMAEAMTRHTSETDSFHLG EYAGLGSRHNVVHWGCGCKEARISMAGLHKFYYYLTGDDRTGDLLTEVKDADYALVKT DPMRAFYEKGKHPTHARTGPDWAAFCSNWLAEWERTENSEYLKKIETGINCLKRLPLR LLSGPTFEYDPATSMLHHMGDGIAGGYHMIIAFGAPQVWMELAELLDDWEWEDMLSEF GEFYTLSDEEKRKKSGGALHDGHFHWPMFAAGMTAYAARKKQDPHLAAKAWNLLLEDK LSHTPLPIKPERIETWTQLEELPWVTTNTVSQWCLNVIAALELIGDSLPAKKETSGKK G*" gene 776834..779407 /gene="yetA" /locus_tag="BSU_07090" /old_locus_tag="BSU07090" promotor_-10 complement(778156..778174) /Source="Nicolas_upshift_promotors" /id="U535" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.916083916083916" /psig="0.916083916083916" /xcortree=961 /SigmaFactorBS="tgtcaatgatgctccataccccgagtgcttttgaTTCGTAat agacgtccggctcGCATACAATGAGCGGGGGCgcctgccatttgtcagccagcgcatt g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(778169) /Source="Nicolas_upshifts" /id="U535" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.916083916083916" /psig="0.916083916083916" /xcortree=961 /SigmaFactorBS="tgtcaatgatgctccataccccgagtgcttttgaTTCGTAat agacgtccggctcGCATACAATGAGCGGGGGCgcctgccatttgtcagccagcgcatt g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(778190..778195) /Source="Nicolas_upshift_promotors" /id="U535" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.916083916083916" /psig="0.916083916083916" /xcortree=961 /SigmaFactorBS="tgtcaatgatgctccataccccgagtgcttttgaTTCGTAat agacgtccggctcGCATACAATGAGCGGGGGCgcctgccatttgtcagccagcgcatt g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 779529..781037 /gene="lplA" /locus_tag="BSU_07100" /old_locus_tag="BSU07100" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:7921237" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7921237; Product type lp: lipoprotein" /codon_start=1 /transl_table=11 /product="lipoprotein transporter binding protein for alpha-galacturonides" /protein_id="NP_388591.1" /db_xref="EnsemblGenomes-Gn:BSU07100" /db_xref="EnsemblGenomes-Tr:CAB12529" /db_xref="GOA:P37966" /db_xref="InterPro:IPR006059" /db_xref="SubtiList:BG10434" /db_xref="UniProtKB/Swiss-Prot:P37966" /translation="MKIRMRKKWMALPLAAMMIAGCSHSETSNSASGSKDTIKIMAPL LSPESPSDKSPSLKALEKYTGKEIKVTWVPDSSYNDKFNIVMASGEMPHAIVIKDKSA GFIKSVKAGAFWELSPYLKDYKNLSQADEKILKNSSVNGEVYGIYRTRDLIRACMIIR TDWLKNVGLDMPETLDDFYEVLKAFKEKDPDGNGKDDTYGMVVPKWMGLGNGSPWDVL QIWFGAPNRYGVENGKLIPDFTTKEYMDALTFFKKLYDEGLINKDFAVMDSAKWNDPV VKGKAGVIVDTGSRASQIQSAMEEADESNKDIIDIVGSLEGPNGKRTFPTSGYSGMIT IPKSSVKTEKELKEVLSFLDKMNDKEAQILTNNGVKGRNYELKDGVFTSLEKNNKSLL YEHEGLAQFSMSIPKSEYYIEDQKTKLFQHRKDIITEGEKIAVFNPAESLVSDVYTQK GAQLDNIILDARTQFIIGEIDEKGFDDAVELWKKSGGNELMKDLNKLYQSSK*" gene 779529..781037 /gene="lplA" /locus_tag="BSU_07100" /old_locus_tag="BSU07100" CDS 781092..782048 /gene="lplB" /locus_tag="BSU_07110" /old_locus_tag="BSU07110" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); PubMedId: 10869078, 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="ABC transporter (permease) for alpha-galacturonides" /protein_id="NP_388592.1" /db_xref="EnsemblGenomes-Gn:BSU07110" /db_xref="EnsemblGenomes-Tr:CAB12530" /db_xref="GOA:P39128" /db_xref="InterPro:IPR000515" /db_xref="InterPro:IPR035906" /db_xref="SubtiList:BG10435" /db_xref="UniProtKB/Swiss-Prot:P39128" /translation="METVPKKRDAPVLTAGKGISWMAALKRDKWLYLLLIPGLLYFLI FKYLPMWGVLIAFKDYSPYLGFWKSEWVGFDYFKDFFMNPDFFRLLRNTLMLASLDLL FAFPAPLILALLLNEVRKAVYKRCIQTFIYVPHFVSWTIVVSITFVFFTVDTGVINKL IMSLTGEQISFLSDADWFRPMIVMQSIWKETGWGTILFLAALATVDQEQYEAAIMDGA GRFRRMWHITLPAIRSTIIVLLILRIGSFLNLGFEQVYLMTNSLNRSVADIFDTYVYM MGITQGAYSYSTAVGLFKSVVGIILIFGANYIAKKFDQEGLF*" gene 781092..782048 /gene="lplB" /locus_tag="BSU_07110" /old_locus_tag="BSU07110" downshifts complement(781366) /Source="Nicolas_upshifts" /id="D344" /incds=1 /nref=1 /ntot=8 /MaxReadThrough="1.59638" /MaxDrop="4.19822" /score="13.9744253" /energy="-20.3" /TU="NA" /idTUdmin="U538" /TUdmin=2068 /isTUend="FALSE" promotor_no_box complement(781392..781492) /Source="Nicolas_upshift_promotors" /id="U536" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.544455544455544" /psig="0.002997002997003" /xcortree=1476 /SigmaFactorBS="ggtacgtaaataaaggtttggatacatcttttatacacggcc tttcttacctcattcaaaagcagagccaaaatgagaggcgcgggaaaggcaaacaaaa g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts complement(781432) /Source="Nicolas_upshifts" /id="U536" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.544455544455544" /psig="0.002997002997003" /xcortree=1476 /SigmaFactorBS="ggtacgtaaataaaggtttggatacatcttttatacacggcc tttcttacctcattcaaaagcagagccaaaatgagaggcgcgggaaaggcaaacaaaa g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS 782062..782949 /gene="lplC" /locus_tag="BSU_07120" /old_locus_tag="BSU07120" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); PubMedId: 10869078, 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="ABC transporter (permease) for alpha-galacturonides" /protein_id="NP_388593.1" /db_xref="EnsemblGenomes-Gn:BSU07120" /db_xref="EnsemblGenomes-Tr:CAB12531" /db_xref="GOA:P39129" /db_xref="InterPro:IPR000515" /db_xref="InterPro:IPR035906" /db_xref="SubtiList:BG10857" /db_xref="UniProtKB/Swiss-Prot:P39129" /translation="MAEIHTMHNTKAGRVFDVCNILFLGGVGAITILPFLYIIAGSFA TEAELAQRSFFIFPKTFTLDAYKYVFSTPTFLRSMGVSIFITVVGTAVQLFFTFTMAY PLAKRHVKGRNLLLNLVIFSMLFSGGMIPTYLVVKSLGLLDTYWALILPMAINPFNLI IIKNFFQQLPRELEESAKIDGCSEIGVFWRIALPLSKPVIATFALFYAVGIWNDFFHA LLYINDSAKWPLQMVLRQVTILSDLTATNGDTMQNAVPPEQGIKLAVIVIATLPILAV YPFLQKHFAKGMLIGSVKG*" gene 782062..782949 /gene="lplC" /locus_tag="BSU_07120" /old_locus_tag="BSU07120" promotor_-35 782696..782701 /Source="Nicolas_upshift_promotors" /id="U537" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.99100899100899" /psig="0.99100899100899" /xcortree=1069 /SigmaFactorBS="ttgcgacctttgcgctgttttatgcggtcgggatttGGAATG atttcttccacgctcTCTTATATATCAATGACAGtgcaaaatggccgctgcaaatggt g" /listShort="lplD, S248, yetF" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 782717..782735 /Source="Nicolas_upshift_promotors" /id="U537" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.99100899100899" /psig="0.99100899100899" /xcortree=1069 /SigmaFactorBS="ttgcgacctttgcgctgttttatgcggtcgggatttGGAATG atttcttccacgctcTCTTATATATCAATGACAGtgcaaaatggccgctgcaaatggt g" /listShort="lplD, S248, yetF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 782720 /Source="Nicolas_upshifts" /id="U537" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.99100899100899" /psig="0.99100899100899" /xcortree=1069 /SigmaFactorBS="ttgcgacctttgcgctgttttatgcggtcgggatttGGAATG atttcttccacgctcTCTTATATATCAATGACAGtgcaaaatggccgctgcaaatggt g" /listShort="lplD, S248, yetF" /GFF_Attribute="listLong" CDS 782958..784298 /gene="lplD" /locus_tag="BSU_07130" /old_locus_tag="BSU07130" /EC_number="3.2.1.67" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:23416295" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 23416295; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="alpha-galacturonidase" /protein_id="NP_388594.1" /db_xref="EnsemblGenomes-Gn:BSU07130" /db_xref="EnsemblGenomes-Tr:CAB12532" /db_xref="GOA:P39130" /db_xref="InterPro:IPR001088" /db_xref="InterPro:IPR015955" /db_xref="InterPro:IPR019802" /db_xref="InterPro:IPR022616" /db_xref="InterPro:IPR036291" /db_xref="PDB:3FEF" /db_xref="SubtiList:BG10858" /db_xref="UniProtKB/Swiss-Prot:P39130" /translation="MFHISTLDQIKIAYIGGGSQGWARSLMSDLSIDERMSGTVALYD LDFEAAQKNEVIGNHSGNGRWRYEAVSTLKKALSAADIVIISILPGSLDDMEVDVHLP ERCGIYQSVGDTVGPGGIIRGLRAVPIFAEIARAIRDYAPESWVINYTNPMSVCTRVL YKVFPGIKAIGCCHEVFGTQKLLAEMVTERLGIEVPRREDIRVNVLGINHFTWITKAS YRHIDLLPIFREFSAHYGESGYELEGECWRDSVFCSAHRVAFDLFETYGAIPAAGDRH LAEFLPGPYLKQPEVWKFHLTPISFRKQDRAEKRQETERLIVQQRGVAEKASGEEGVN IIAALLGLGELVTNVNMPNQGQVLNLPIQAIVETNAFITRNRVQPILSGALPKGVEML AARHISNQEAVADAGLTKDTGLAFQAFLNDPLVQIDRSDAEQLFNDMLQCIMQS*" gene 782958..784298 /gene="lplD" /locus_tag="BSU_07130" /old_locus_tag="BSU07130" S_feature complement(783392..785083) /Source="Nicolas_S_feature" /locus_tag="new_783392_785083_c" /HighExp="H2O2, dia15, Paraq, Lbexp, LBGexp, Salt, LPhT, GM 25, G150, dia0" /AntisenseName="yetF" /AntisenseCor="-0.25986434675098202" /AntisenseRegPval="-4.8" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="SigA" /TUlongPSig="0.993" /label="S247" S_feature 784299..784380 /Source="Nicolas_S_feature" /locus_tag="new_784299_784380" /HighExp="S5, S4, S6, S3, S7, S8, BT, LoTm, B36, G150" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig="0.991" /TUlongSig="NA" /TUlongPSig="NA" /label="S248" CDS 784381..785076 /gene="yetF" /locus_tag="BSU_07140" /old_locus_tag="BSU07140" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="conserved membrane protein" /protein_id="NP_388595.1" /db_xref="EnsemblGenomes-Gn:BSU07140" /db_xref="EnsemblGenomes-Tr:CAB12533" /db_xref="GOA:O31533" /db_xref="InterPro:IPR007353" /db_xref="InterPro:IPR023090" /db_xref="PDB:3C6F" /db_xref="SubtiList:BG12862" /db_xref="UniProtKB/Swiss-Prot:O31533" /translation="MGNYLSVAVELVCGLGILFIILKLLGKTQFSQITPFDFISALIL GELVGNAVYDHEIKIKEIIFASLLWGVLIYIIEFITQKMKSSRKFLEGEPNIVIRKGE LQYKVMKKNKIDINQLQSLLRQAGSFSIQEVEYAILETNGMVSVLPKSDFDKPTNKDL QIPSKSVSLPITLIIDGEIVRDNLKEAGVDEQWLKQELKKKNIDKTEDVLFAEWHKNK PLYTVTYEQSRST*" gene 784381..785076 /gene="yetF" /locus_tag="BSU_07140" /old_locus_tag="BSU07140" downshifts 785074 /Source="Nicolas_upshifts" /id="D345" /incds=0 /nref=2 /ntot=24 /MaxReadThrough="1.32891" /MaxDrop="3.45213" /score="-0.176154378" /energy="-7.1" /TU="NA" /idTUdmin="U537" /TUdmin=0 /isTUend="TRUE" CDS complement(785113..785439) /gene="hmoA" /locus_tag="BSU_07150" /old_locus_tag="BSU07150" /EC_number="1.14.14.18" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:20180905, 21764939, 21873409" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 20180905, 21764939, 21873409; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="heme-degrading monooxygenase" /protein_id="NP_388596.2" /db_xref="EnsemblGenomes-Gn:BSU07150" /db_xref="EnsemblGenomes-Tr:CAB12534" /db_xref="GOA:O31534" /db_xref="InterPro:IPR007138" /db_xref="InterPro:IPR011008" /db_xref="SubtiList:BG12863" /db_xref="UniProtKB/Swiss-Prot:O31534" /translation="MFVQLRKMTVKEGFADKVIERFSAEGIIEKQEGLIDVTVLEKNV RRGDEEVVVMIRWESEDHWKQWEKSDAHIAGHKANKGKPKPDYLISTEVSMYHVRAVK QGTYNQ*" gene complement(785113..785439) /gene="hmoA" /locus_tag="BSU_07150" /old_locus_tag="BSU07150" downshifts complement(785128) /Source="Nicolas_upshifts" /id="D346" /incds=0 /nref=194 /ntot=248 /MaxReadThrough="4.01189" /MaxDrop="6.29183" /score="9.23596913" /energy="-9.1" /TU="U538" /idTUdmin="U539" /TUdmin=0 /isTUend="TRUE" downshifts 785426 /Source="Nicolas_upshifts" /id="D347" /incds=1 /nref=1 /ntot=45 /MaxReadThrough="1.96802" /MaxDrop="3.46057" /score="-7.34187128" /energy="-5" /TU="NA" /idTUdmin="U537" /TUdmin=352 /isTUend="FALSE" promotor_-10 complement(785462..785481) /Source="Nicolas_upshift_promotors" /id="U538" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.604395604395604" /psig="0.999000999001" /xcortree=2117 /SigmaFactorBS="tgttgcgcacggcggttcgattccgccctgcgctttcTTTGA CATtgagaatgaatttcATTTACAATTATTCATATGTgagaatgattggagtgagaca a" /listShort="yetG, S247" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(785480) /Source="Nicolas_upshifts" /id="U538" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.604395604395604" /psig="0.999000999001" /xcortree=2117 /SigmaFactorBS="tgttgcgcacggcggttcgattccgccctgcgctttcTTTGA CATtgagaatgaatttcATTTACAATTATTCATATGTgagaatgattggagtgagaca a" /listShort="yetG, S247" /GFF_Attribute="listLong" promotor_-35 complement(785496..785503) /Source="Nicolas_upshift_promotors" /id="U538" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.604395604395604" /psig="0.999000999001" /xcortree=2117 /SigmaFactorBS="tgttgcgcacggcggttcgattccgccctgcgctttcTTTGA CATtgagaatgaatttcATTTACAATTATTCATATGTgagaatgattggagtgagaca a" /listShort="yetG, S247" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(785543..785905) /gene="yetH" /locus_tag="BSU_07160" /old_locus_tag="BSU07160" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative lyase/dioxygenase" /protein_id="NP_388597.1" /db_xref="EnsemblGenomes-Gn:BSU07160" /db_xref="EnsemblGenomes-Tr:CAB12535" /db_xref="InterPro:IPR004360" /db_xref="InterPro:IPR029068" /db_xref="SubtiList:BG12864" /db_xref="UniProtKB/Swiss-Prot:O31535" /translation="MIKQIGTVAVYVEDQQKAKQFWTEKVGFDIAADHPMGPEASWLE VAPKGAETRLVIYPKAMMKGSEQMKASIVFECEDIFGTYEKMKTNGVEFLGEPNQMEW GTFVQFKDEDGNVFLLKE*" gene complement(785543..785905) /gene="yetH" /locus_tag="BSU_07160" /old_locus_tag="BSU07160" promotor_-10 complement(785928..785947) /Source="Nicolas_upshift_promotors" /id="U539" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.431568431568432" /psig="0.993006993006993" /xcortree=2376 /SigmaFactorBS="ttttaataatcagccggtttcccggctgatttttttATGTTA CttcggccgtaaaCAGGTTATAGTATTATTATCttttcaacttggaggtttccctatg a" /listShort="yetH, yetG" /listLong="S247" /label="promotor_-10" upshifts complement(785942) /Source="Nicolas_upshifts" /id="U539" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.431568431568432" /psig="0.993006993006993" /xcortree=2376 /SigmaFactorBS="ttttaataatcagccggtttcccggctgatttttttATGTTA CttcggccgtaaaCAGGTTATAGTATTATTATCttttcaacttggaggtttccctatg a" /listShort="yetH, yetG" /listLong="S247" promotor_-35 complement(785960..785966) /Source="Nicolas_upshift_promotors" /id="U539" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.431568431568432" /psig="0.993006993006993" /xcortree=2376 /SigmaFactorBS="ttttaataatcagccggtttcccggctgatttttttATGTTA CttcggccgtaaaCAGGTTATAGTATTATTATCttttcaacttggaggtttccctatg a" /listShort="yetH, yetG" /listLong="S247" /label="promotor_-35" S_feature complement(785976..786536) /Source="Nicolas_S_feature" /locus_tag="new_785976_786536_c" /HighExp="S8, S6, S7, S5, BT, B36, G/S, B60, Pyr, nit" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.99999400000000005" /TUshortSig="SigK" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S249" downshifts complement(786008) /Source="Nicolas_upshifts" /id="D348" /incds=0 /nref=38 /ntot=47 /MaxReadThrough="0.395850000000001" /MaxDrop="8.2984" /score="45.4672528" /energy="-13.7" /TU="NA" /idTUdmin="U540" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(786519..786538) /Source="Nicolas_upshift_promotors" /id="U540" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1291 /SigmaFactorBS="ctctctgagagcattccagcttcatatccttaggcGAATGCA CCAataagagtccgccCGCATAAACTGCAATGTACAgtttacaatgagaaaggacgtt a" /listShort="S249" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(786536) /Source="Nicolas_upshifts" /id="U540" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1291 /SigmaFactorBS="ctctctgagagcattccagcttcatatccttaggcGAATGCA CCAataagagtccgccCGCATAAACTGCAATGTACAgtttacaatgagaaaggacgtt a" /listShort="S249" /GFF_Attribute="listLong" promotor_-35 complement(786552..786561) /Source="Nicolas_upshift_promotors" /id="U540" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1291 /SigmaFactorBS="ctctctgagagcattccagcttcatatccttaggcGAATGCA CCAataagagtccgccCGCATAAACTGCAATGTACAgtttacaatgagaaaggacgtt a" /listShort="S249" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 786624..786631 /Source="Nicolas_upshift_promotors" /id="U541" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.915084915084915" /psig="0.999000999001" /xcortree=2437 /SigmaFactorBS="ggaatgctctcagagagcagaatcatttgatttttctctagt ctTATTCACAattccgatttatCATTTTATAATGAAAGTGCTtctattacgaaaaagg a" /listShort="yetI, yetI" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 786640 /Source="Nicolas_upshifts" /id="U541" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.915084915084915" /psig="0.999000999001" /xcortree=2437 /SigmaFactorBS="ggaatgctctcagagagcagaatcatttgatttttctctagt ctTATTCACAattccgatttatCATTTTATAATGAAAGTGCTtctattacgaaaaagg a" /listShort="yetI, yetI" /GFF_Attribute="listLong" promotor_-10 786644..786663 /Source="Nicolas_upshift_promotors" /id="U541" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.915084915084915" /psig="0.999000999001" /xcortree=2437 /SigmaFactorBS="ggaatgctctcagagagcagaatcatttgatttttctctagt ctTATTCACAattccgatttatCATTTTATAATGAAAGTGCTtctattacgaaaaagg a" /listShort="yetI, yetI" /GFF_Attribute="listLong" /label="promotor_-10" CDS 786689..787270 /gene="yetI" /locus_tag="BSU_07170" /old_locus_tag="BSU07170" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function; PubMedId : 11157946; Product type r: regulator" /pseudo /codon_start=1 /transl_table=11 /product="putative paralog of RsbR; N-terminal part of YetI" /db_xref="SubtiList:BG12865" /translation="MNIDQLLYQYIIDNTADITEKWFSLRCQLKGELYSASHLSEETK TLLTEQHTFTNITIASAFLEDQTDFQENMTKWAQNVAKNRVEQDVQVHEVVEAISNSR ISFWDAVATFIKENQEIVTNEDADRWNRIVNQSFDKLIIEFSEQYQKFMLMRLTSQQE LISELGCPVISIADGIGILPLIGSIDTKRHRSF*" gene 786689..787270 /gene="yetI" /locus_tag="BSU_07170" /old_locus_tag="BSU07170" /pseudo CDS 787264..787560 /gene="yetI" /locus_tag="BSU_07180" /old_locus_tag="BSU07180" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function; PubMedId : 11157946; Product type r: regulator" /pseudo /codon_start=1 /transl_table=11 /product="putative paralog of RsbR; C-terminal part of YetI" /db_xref="GOA:O31537" /db_xref="InterPro:IPR002645" /db_xref="InterPro:IPR036513" /db_xref="PSEUDO:CAB12537.2" /db_xref="SubtiList:BG12873" /db_xref="UniProtKB/Swiss-Prot:O31537" /translation="MLETVPVRCVERKITSLVVDLSGVPIVDTMVAQQLYNLSKTLFL LGVKAVFSGIRPDVAQTSIQLGLDFSEYETYGTLKQALENMGVRCIVEELEENK*" gene 787264..787560 /gene="yetI" /locus_tag="BSU_07180" /old_locus_tag="BSU07180" /pseudo downshifts 787552 /Source="Nicolas_upshifts" /id="D349" /incds=0 /nref=114 /ntot=215 /MaxReadThrough="1.06939" /MaxDrop="4.8053" /score="16.356572" /energy="-21.2" /TU="NA" /idTUdmin="U541" /TUdmin="-8" /isTUend="TRUE" promotor_-35 787631..787638 /Source="Nicolas_upshift_promotors" /id="U542" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.603396603396603" /psig=1 /xcortree=1743 /SigmaFactorBS="atatgcctttttgatttgaacagaaatcaccATTGATTTatc gaaaaaaacaTAATATTATAATTCTTATAAgaatactgtgaattaaaacctattcaac a" /listShort="yezD, yetJ, yetK" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 787652..787671 /Source="Nicolas_upshift_promotors" /id="U542" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.603396603396603" /psig=1 /xcortree=1743 /SigmaFactorBS="atatgcctttttgatttgaacagaaatcaccATTGATTTatc gaaaaaaacaTAATATTATAATTCTTATAAgaatactgtgaattaaaacctattcaac a" /listShort="yezD, yetJ, yetK" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 787660 /Source="Nicolas_upshifts" /id="U542" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.603396603396603" /psig=1 /xcortree=1743 /SigmaFactorBS="atatgcctttttgatttgaacagaaatcaccATTGATTTatc gaaaaaaacaTAATATTATAATTCTTATAAgaatactgtgaattaaaacctattcaac a" /listShort="yezD, yetJ, yetK" /GFF_Attribute="listLong" CDS 787715..787882 /gene="yezD" /locus_tag="BSU_07190" /old_locus_tag="BSU07190" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388600.1" /db_xref="EnsemblGenomes-Gn:BSU07190" /db_xref="EnsemblGenomes-Tr:CAB12538" /db_xref="InterPro:IPR018743" /db_xref="SubtiList:BG12875" /db_xref="UniProtKB/Swiss-Prot:O31538" /translation="MVSKSTIDPEVIEKIISSLETLDFGTVQITVHDSQITQIEKIEK HRFSLKRKESK*" gene 787715..787882 /gene="yezD" /locus_tag="BSU_07190" /old_locus_tag="BSU07190" promotor_-35 787924..787931 /Source="Nicolas_upshift_promotors" /id="U543" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.985014985014985" /psig=1 /xcortree=2401 /SigmaFactorBS="taaagggcgtttgttttcattaaattctccttaaaaCATATA CAtatttcatccaatttTTATATAATAGACCTTTAAGatcattttttaggaggatttt t" /listShort="yetJ, yetK" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 787947..787966 /Source="Nicolas_upshift_promotors" /id="U543" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.985014985014985" /psig=1 /xcortree=2401 /SigmaFactorBS="taaagggcgtttgttttcattaaattctccttaaaaCATATA CAtatttcatccaatttTTATATAATAGACCTTTAAGatcattttttaggaggatttt t" /listShort="yetJ, yetK" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 787948 /Source="Nicolas_upshifts" /id="U543" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.985014985014985" /psig=1 /xcortree=2401 /SigmaFactorBS="taaagggcgtttgttttcattaaattctccttaaaaCATATA CAtatttcatccaatttTTATATAATAGACCTTTAAGatcattttttaggaggatttt t" /listShort="yetJ, yetK" /GFF_Attribute="listLong" CDS 787992..788636 /gene="calJ" /locus_tag="BSU_07200" /old_locus_tag="BSU07200" /function="7.4: Cations and iron carrying compounds" /experiment="publication(s) with functional evidences, PMID:15849754, 16850406, 16086852, 24904158" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15849754, 16850406, 16086852, 24904158; Product type t: transporter" /codon_start=1 /transl_table=11 /product="pH-sensitive calcium-leak permease (di-aspartyl pH sensor)" /protein_id="NP_388601.1" /db_xref="EnsemblGenomes-Gn:BSU07200" /db_xref="EnsemblGenomes-Tr:CAB12539" /db_xref="GOA:O31539" /db_xref="InterPro:IPR006214" /db_xref="PDB:4PGR" /db_xref="PDB:4PGS" /db_xref="PDB:4PGU" /db_xref="PDB:4PGV" /db_xref="PDB:4PGW" /db_xref="PDB:4TKQ" /db_xref="SubtiList:BG12866" /db_xref="UniProtKB/Swiss-Prot:O31539" /translation="MQATVHESKQSIMQRILTVFVFTLLIATVGLFIGQFVPVALMLP LSILEVAMIILAFWMRRRKAVGYAFVYTFAFVSGITLFPIVSHYASIAGAYVVLEAFG STFVIFAVLGTIGAKMKKDLSFLWSFLLVAVLALAVVGIFNIFSPLNSAAMMAYSVIG TIVFSLYILYDLNQIKHRHITEDLIPVMALSLYLDFINLFINLLRFFGILSSDD*" gene 787992..788636 /gene="calJ" /locus_tag="BSU_07200" /old_locus_tag="BSU07200" downshifts 788572 /Source="Nicolas_upshifts" /id="D350" /incds=1 /nref=1 /ntot=11 /MaxReadThrough="6.69003" /MaxDrop="2.5446" /score="-1.46791202" /energy="-10.7" /TU="U542,U543" /idTUdmin="U541" /TUdmin=1012 /isTUend="FALSE" downshifts 788616 /Source="Nicolas_upshifts" /id="D351" /incds=0 /nref=7 /ntot=127 /MaxReadThrough="5.33515" /MaxDrop="3.71552" /score="-1.46791202" /energy="-10.7" /TU="U542,U543" /idTUdmin="U542" /TUdmin="-990" /isTUend="FALSE" CDS 788636..789628 /gene="yetK" /locus_tag="BSU_07210" /old_locus_tag="BSU07210" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative efflux transporter" /protein_id="NP_388602.1" /db_xref="EnsemblGenomes-Gn:BSU07210" /db_xref="EnsemblGenomes-Tr:CAB12540" /db_xref="GOA:O31540" /db_xref="InterPro:IPR000620" /db_xref="SubtiList:BG12867" /db_xref="UniProtKB/Swiss-Prot:O31540" /translation="MKKRLSLDRRFLPYIKKAGGVLVKKQMGAYVSLAAAMAIVGSSV VVGKLMVERIPVFLSSGLRFLIASVVLLMLLFCIEKGFPALTKKDVFVLLVQSFTGVF LFSICLLYGVQYTTGTESGILTSTTPMLIGILSFFLLREKIEKKTLIGILLAVCGVMA INLFGAGSQDGTPHALFGNMLIIAAVIGEALFTLMAKLLSPHISALAISTFVSLFGFL FFLPFALFEASSFDYSVPTVLDWSYVLYYALFVTVLAFYLWYSGVTKVPAGVSGIFTS VLPVSAVILSGVILKEPFEFVHFIGIACVIGGIFVTVIKKKQPDAYPAAEEKTL*" gene 788636..789628 /gene="yetK" /locus_tag="BSU_07210" /old_locus_tag="BSU07210" downshifts 789562 /Source="Nicolas_upshifts" /id="D352" /incds=1 /nref=1 /ntot=18 /MaxReadThrough="4.14475" /MaxDrop="2.73453" /score="21.8095329" /energy="-10.7" /TU="U542,U543" /idTUdmin="U542" /TUdmin="-44" /isTUend="FALSE" downshifts 789606 /Source="Nicolas_upshifts" /id="D353" /incds=0 /nref=94 /ntot=214 /MaxReadThrough="0.120229999999999" /MaxDrop="4.45909" /score="21.8095329" /energy="-10.7" /TU="NA" /idTUdmin="U542" /TUdmin=0 /isTUend="TRUE" CDS complement(789652..790155) /gene="flvL" /locus_tag="BSU_07220" /old_locus_tag="BSU07220" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:19329649, 25209494" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 19329649, 25209494; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator (FlvL-flavonoids)" /protein_id="NP_388603.1" /db_xref="EnsemblGenomes-Gn:BSU07220" /db_xref="EnsemblGenomes-Tr:CAB12541" /db_xref="GOA:O31541" /db_xref="InterPro:IPR000835" /db_xref="InterPro:IPR023187" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12868" /db_xref="UniProtKB/Swiss-Prot:O31541" /translation="MELKHLPKYKHITEHAETYANIDAGSLELFLSLFDISKKMNHVM EHYFAGRGLSEGKFKILMLLFDAKDHRLSPTELAKRSNVTKATITGLLDGLARDGFVS RRHHTEDKRKISIELTTEGKARLEQFLPGHFSKISAVMENYSDEEKDMFVKMLGDLFE RLSVFKD*" gene complement(789652..790155) /gene="flvL" /locus_tag="BSU_07220" /old_locus_tag="BSU07220" promotor_-10 complement(790180..790199) /Source="Nicolas_upshift_promotors" /id="U544" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.739260739260739" /psig="0.952047952047952" /xcortree=3006 /SigmaFactorBS="aagaaaagctgtcaatcatctccaagccAAGTTGCGttatgg ttttcccTCCTTTATAATCGTGTCACAacgaatgtacgggagctaattgcgatggaat t" /listShort="yetL" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(790188) /Source="Nicolas_upshifts" /id="U544" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.739260739260739" /psig="0.952047952047952" /xcortree=3006 /SigmaFactorBS="aagaaaagctgtcaatcatctccaagccAAGTTGCGttatgg ttttcccTCCTTTATAATCGTGTCACAacgaatgtacgggagctaattgcgatggaat t" /listShort="yetL" /GFF_Attribute="listLong" promotor_-35 complement(790213..790220) /Source="Nicolas_upshift_promotors" /id="U544" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.739260739260739" /psig="0.952047952047952" /xcortree=3006 /SigmaFactorBS="aagaaaagctgtcaatcatctccaagccAAGTTGCGttatgg ttttcccTCCTTTATAATCGTGTCACAacgaatgtacgggagctaattgcgatggaat t" /listShort="yetL" /GFF_Attribute="listLong" /label="promotor_-35" CDS 790318..791427 /gene="flvM" /locus_tag="BSU_07230" /old_locus_tag="BSU07230" /EC_number="1.14.13.-" /function="16.11: Scavenge (Catabolism)" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 25209494; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative flavin-dependent hydroxylase/monooxygenase acting on salicylate derivatives" /protein_id="NP_388604.1" /db_xref="EnsemblGenomes-Gn:BSU07230" /db_xref="EnsemblGenomes-Tr:CAB12542" /db_xref="GOA:O06489" /db_xref="InterPro:IPR002938" /db_xref="InterPro:IPR036188" /db_xref="SubtiList:BG12869" /db_xref="UniProtKB/Swiss-Prot:O06489" /translation="MKHMLIAGGGIGGLSAAISLRKAGFSVTLCEAASENRKTGAGIL QPQNALAVLKELGVFEDCCKHGFQTEWFKTFDEQGNLLFQVSESFLDDSLPGRNNILR KTLNDILMKHAEAVGVDIKWGKKVVAYEETAESVTALCEDGEKMQADILAGFDGIHSV VRDKMLQKETEKEHLGMGAWRFYIELPDYTFEDATFMYRSGDTQIGVVPLAQHAGYVF VLQPCTSDYWDEEDTRFDRVKEILSGFRGLDFVTKHMSKQHPVIFNKLEQVAVQEPWH KGRVIIGGDAAHAGAPTLAQGAAMAIEDAIVLAEELQNHADHETALQAYYKRRAPRAL KVQNLSSEIVRRRLKGEPGAEELIGECYAVLREGY*" gene 790318..791427 /gene="flvM" /locus_tag="BSU_07230" /old_locus_tag="BSU07230" downshifts 791410 /Source="Nicolas_upshifts" /id="D354" /incds=0 /nref=7 /ntot=67 /MaxReadThrough="0.0953400000000002" /MaxDrop="5.1482" /score="13.261567" /energy="-12.6" /TU="NA" /idTUdmin="U542" /TUdmin=1804 /isTUend="FALSE" CDS complement(791462..792532) /gene="yetN" /locus_tag="BSU_07240" /old_locus_tag="BSU07240" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 22333191" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388605.1" /db_xref="EnsemblGenomes-Gn:BSU07240" /db_xref="EnsemblGenomes-Tr:CAB12543" /db_xref="InterPro:IPR025006" /db_xref="InterPro:IPR025012" /db_xref="SubtiList:BG12870" /db_xref="UniProtKB/Swiss-Prot:O06490" /translation="MDFEIRFLSFYVIQVEGKDEQANKQFKHFQTLDTGEFEESELKD FLDGELKKIVKRKADRHPQSEQVPTKIGHFIVEPGHELDSNPNYNMFNRARLAETKED FNELSEQFVRTYLDTSAVRGGVFLVASAVPRKYFDESFVFIMKCDFEPKVARISDASS LIKKVEMAITTKNMKSIQYPYMPEEGMVEEGELKIHQASHARYFEDFLKFVEYGESMP EIMKNQVMNMVQEHVYETFEDNSEELKQFEHDIEIWEASEKREIQERLDTHQVIEASA QIIEHTPEAQLKMKVGETEIKGLLADFGDSIHLAKVNGRYVALIEAETISFEKGSSPV EFYKPEGLHEVIERIRNKTEQD*" gene complement(791462..792532) /gene="yetN" /locus_tag="BSU_07240" /old_locus_tag="BSU07240" downshifts complement(791486) /Source="Nicolas_upshifts" /id="D355" /incds=0 /nref=45 /ntot=180 /MaxReadThrough="0.83729" /MaxDrop="4.28938" /score="0.323038441" /energy="-11.6" /TU="NA" /idTUdmin="U545" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(792563..792582) /Source="Nicolas_upshift_promotors" /id="U545" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.818181818181818" /psig="0.987012987012987" /xcortree=1835 /SigmaFactorBS="atttgactacatttccctttcatggtcatgattattccgttc tccCAATTGACgcatgatcgctgttTTTTCTATACTTGAGAAGCTgtacaatacgcga a" /listShort="yetN" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(792589) /Source="Nicolas_upshifts" /id="U545" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.818181818181818" /psig="0.987012987012987" /xcortree=1835 /SigmaFactorBS="atttgactacatttccctttcatggtcatgattattccgttc tccCAATTGACgcatgatcgctgttTTTTCTATACTTGAGAAGCTgtacaatacgcga a" /listShort="yetN" /GFF_Attribute="listLong" promotor_-35 complement(792597..792604) /Source="Nicolas_upshift_promotors" /id="U545" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.818181818181818" /psig="0.987012987012987" /xcortree=1835 /SigmaFactorBS="atttgactacatttccctttcatggtcatgattattccgttc tccCAATTGACgcatgatcgctgttTTTTCTATACTTGAGAAGCTgtacaatacgcga a" /listShort="yetN" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 792612..792618 /Source="Nicolas_upshift_promotors" /id="U546" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.976023976023976" /psig="0.976023976023976" /xcortree=728 /SigmaFactorBS="aaacagcgatcatgcgtcaattgggagaacGGAATAAtcatg accatgaaaGGGAAATGTAGTCAAATAGaaggcatttcatacggaaaggaatggttcg a" /listShort="yetO" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 792633..792651 /Source="Nicolas_upshift_promotors" /id="U546" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.976023976023976" /psig="0.976023976023976" /xcortree=728 /SigmaFactorBS="aaacagcgatcatgcgtcaattgggagaacGGAATAAtcatg accatgaaaGGGAAATGTAGTCAAATAGaaggcatttcatacggaaaggaatggttcg a" /listShort="yetO" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 792642 /Source="Nicolas_upshifts" /id="U546" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.976023976023976" /psig="0.976023976023976" /xcortree=728 /SigmaFactorBS="aaacagcgatcatgcgtcaattgggagaacGGAATAAtcatg accatgaaaGGGAAATGTAGTCAAATAGaaggcatttcatacggaaaggaatggttcg a" /listShort="yetO" /GFF_Attribute="listLong" CDS 792682..795867 /gene="cypD" /locus_tag="BSU_07250" /old_locus_tag="BSU07250" /EC_number="1.6.2.4" /EC_number="1.14.14.1" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 11574077, 2544578, 21048857, 26452461; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="bifunctional P-450/NADPH-P450 reductase 1" /protein_id="NP_388606.1" /db_xref="EnsemblGenomes-Gn:BSU07250" /db_xref="EnsemblGenomes-Tr:CAB12544" /db_xref="GOA:O08394" /db_xref="InterPro:IPR001094" /db_xref="InterPro:IPR001128" /db_xref="InterPro:IPR001433" /db_xref="InterPro:IPR001709" /db_xref="InterPro:IPR003097" /db_xref="InterPro:IPR008254" /db_xref="InterPro:IPR017927" /db_xref="InterPro:IPR017938" /db_xref="InterPro:IPR017972" /db_xref="InterPro:IPR023206" /db_xref="InterPro:IPR029039" /db_xref="InterPro:IPR036396" /db_xref="SubtiList:BG12871" /db_xref="UniProtKB/Swiss-Prot:O08394" /translation="MKETSPIPQPKTFGPLGNLPLIDKDKPTLSLIKLAEEQGPIFQI HTPAGTTIVVSGHELVKEVCDEERFDKSIEGALEKVRAFSGDGLFTSWTHEPNWRKAH NILMPTFSQRAMKDYHEKMVDIAVQLIQKWARLNPNEAVDVPGDMTRLTLDTIGLCGF NYRFNSYYRETPHPFINSMVRALDEAMHQMQRLDVQDKLMVRTKRQFRYDIQTMFSLV DSIIAERRANGDQDEKDLLARMLNVEDPETGEKLDDENIRFQIITFLIAGHETTSGLL SFATYFLLKHPDKLKKAYEEVDRVLTDAAPTYKQVLELTYIRMILNESLRLWPTAPAF SLYPKEDTVIGGKFPITTNDRISVLIPQLHRDRDAWGKDAEEFRPERFEHQDQVPHHA YKPFGNGQRACIGMQFALHEATLVLGMILKYFTLIDHENYELDIKQTLTLKPGDFHIS VQSRHQEAIHADVQAAEKAAPDEQKEKTEAKGASVIGLNNRPLLVLYGSDTGTAEGVA RELADTASLHGVRTKTAPLNDRIGKLPKEGAVVIVTSSYNGKPPSNAGQFVQWLQEIK PGELEGVHYAVFGCGDHNWASTYQYVPRFIDEQLAEKGATRFSARGEGDVSGDFEGQL DEWKKSMWADAIKAFGLELNENADKERSTLSLQFVRGLGESPLARSYEASHASIAENR ELQSADSDRSTRHIEIALPPDVEYQEGDHLGVLPKNSQTNVSRILHRFGLKGTDQVTL SASGRSAGHLPLGRPVSLHDLLSYSVEVQEAATRAQIRELASFTVCPPHRRELEELSA EGVYQEQILKKRISMLDLLEKYEACDMPFERFLELLRPLKPRYYSISSSPRVNPRQAS ITVGVVRGPAWSGRGEYRGVASNDLAERQAGDDVVMFIRTPESRFQLPKDPETPIIMV GPGTGVAPFRGFLQARDVLKREGKTLGEAHLYFGCRNDRDFIYRDELERFEKDGIVTV HTAFSRKEGMPKTYVQHLMADQADTLISILDRGGRLYVCGDGSKMAPDVEAALQKAYQ AVHGTGEQEAQNWLRHLQDTGMYAKDVWAGI*" gene 792682..795867 /gene="cypD" /locus_tag="BSU_07250" /old_locus_tag="BSU07250" downshifts 795854 /Source="Nicolas_upshifts" /id="D356" /incds=0 /nref=1 /ntot=9 /MaxReadThrough="2.31156" /MaxDrop="2.91666" /score="9.17315362" /energy="-9.8" /TU="NA" /idTUdmin="U546" /TUdmin=44 /isTUend="FALSE" promotor_-35 795917..795922 /Source="Nicolas_upshift_promotors" /id="U547" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.841158841158841" /psig="0.841158841158841" /xcortree=1029 /SigmaFactorBS="agtcctttcgaaaaaatgGTGATCgcgctaaacattgatGCA TACAATAACTTCAGTCcgccggaagggcgggctgtctgcaaaacctatttttcgtttt t" /listShort="S250, ltaSA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 795938..795956 /Source="Nicolas_upshift_promotors" /id="U547" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.841158841158841" /psig="0.841158841158841" /xcortree=1029 /SigmaFactorBS="agtcctttcgaaaaaatgGTGATCgcgctaaacattgatGCA TACAATAACTTCAGTCcgccggaagggcgggctgtctgcaaaacctatttttcgtttt t" /listShort="S250, ltaSA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 795959 /Source="Nicolas_upshifts" /id="U547" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.841158841158841" /psig="0.841158841158841" /xcortree=1029 /SigmaFactorBS="agtcctttcgaaaaaatgGTGATCgcgctaaacattgatGCA TACAATAACTTCAGTCcgccggaagggcgggctgtctgcaaaacctatttttcgtttt t" /listShort="S250, ltaSA" /GFF_Attribute="listLong" promotor_-35 795987..795990 /Source="Nicolas_upshift_promotors" /id="U548" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.803196803196803" /psig=1 /xcortree=2603 /SigmaFactorBS="acttcagtccgccggaagggcgggctgtctgcaaaacctATT TttcgtttttgctagttTATGTTATTCTTATACTCGGtatctatttcttttttcaaag g" /listShort="S250, ltaSA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 796007..796026 /Source="Nicolas_upshift_promotors" /id="U548" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.803196803196803" /psig=1 /xcortree=2603 /SigmaFactorBS="acttcagtccgccggaagggcgggctgtctgcaaaacctATT TttcgtttttgctagttTATGTTATTCTTATACTCGGtatctatttcttttttcaaag g" /listShort="S250, ltaSA" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 796008..796313 /Source="Nicolas_S_feature" /locus_tag="new_796008_796313" /HighExp="H2O2, Paraq, Oxctl, Cold, Heat, LBGexp, G180, G150, HPh, LBGstat" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigEF" /TUshortPSig="1, 0.841" /TUlongSig="NA" /TUlongPSig="NA" /label="S250" upshifts 796008 /Source="Nicolas_upshifts" /id="U548" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.803196803196803" /psig=1 /xcortree=2603 /SigmaFactorBS="acttcagtccgccggaagggcgggctgtctgcaaaacctATT TttcgtttttgctagttTATGTTATTCTTATACTCGGtatctatttcttttttcaaag g" /listShort="S250, ltaSA" /GFF_Attribute="listLong" CDS 796314..798233 /gene="ltaSA" /locus_tag="BSU_07260" /old_locus_tag="BSU07260" /function="16.1: Circulate" /function="16.13: Shape" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 11544192, 15187182, 17434969, 17483484, 21255105, 27002131; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="exported glycerol phosphate lipoteichoic acid synthetase and anion-binding protein" /protein_id="NP_388607.2" /db_xref="EnsemblGenomes-Gn:BSU07260" /db_xref="EnsemblGenomes-Tr:CAB12545" /db_xref="GOA:Q797B3" /db_xref="InterPro:IPR000917" /db_xref="InterPro:IPR012160" /db_xref="InterPro:IPR017849" /db_xref="InterPro:IPR017850" /db_xref="SubtiList:BG12980" /db_xref="UniProtKB/Swiss-Prot:Q797B3" /translation="MKKLFSYKLSFFVLAVILFWAKTYLSYKTEFNLGVKGTTQEILL IFNPFSSAVFFLGLALLAKGRKSAIIMLIIDFLMTFVLYANILFYRFFDDFLTFPNIK QSGNVGNMGDGIFSIMAGHDIFYFLDIIILIAVLIWRPELKEYKMKKRFASLVILSGI ALFFINLHYAEKDRPQLLTRTFDRNYIVKYLGLYNYTIYDGVQTAQTETQRAYASSDD LTSVENYTTSHYAKPNAEYFGSAKGKNIIKIHLESFQSFLIDYKLNGEEVTPFLNKLA HGGEDVTYFDNFFHQTGQGKTSDAELTMDNSIFGLPEGSAFVTKGENTYQSLPAILDQ KEGYTSAVLHGDYKSFWNRDQIYKHIGYDKFFDASTYDMSDENVINMGLKDKPFFTES IPKLESLKQPFYAHLITLTNHYPFNLDEKDASLKKATTGDNTVDSYFQTARYLDEALE QFFKELKEAGLYDNSVIMIYGDHNGISENHNRAMKEILGKEITDYQNAQNQRVPLMIR VPGKKGGVNHTYGGEIDVMPTLLHLEGIDSQKYINFGTDLFSKDHDDTVAFRNGDFVT PKYTSVDNIIYDTKTGEKLKANEETKNLKTRVNQQLSLSDSVLYKDLLRFHKLNDFKA VDPSDYHYGKEKEIK*" gene 796314..798233 /gene="ltaSA" /locus_tag="BSU_07260" /old_locus_tag="BSU07260" downshifts 798232 /Source="Nicolas_upshifts" /id="D357" /incds=0 /nref=103 /ntot=261 /MaxReadThrough="1.69168" /MaxDrop="7.8227" /score="37.7648461" /energy="-24" /TU="NA" /idTUdmin="U547" /TUdmin=2 /isTUend="TRUE" promotor_-35 798321..798330 /Source="Nicolas_upshift_promotors" /id="U549" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1421 /SigmaFactorBS="tttttttggttatacaaccaacttgaaaaaatagattccatT TGGTCACCAaggctggctttctCTCATATCATTACAGTAGATtttgaaaccggattga a" /listShort="S251, yfnH, yfnG, yfnF, yfnE, yfnD" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 798340..798468 /Source="Nicolas_S_feature" /locus_tag="new_798340_798468" /HighExp="BT, B36, S8, S7, G/S, Pyr, B60, S6, Glucon, MG 5" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigK" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S251" upshifts 798340 /Source="Nicolas_upshifts" /id="U549" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1421 /SigmaFactorBS="tttttttggttatacaaccaacttgaaaaaatagattccatT TGGTCACCAaggctggctttctCTCATATCATTACAGTAGATtttgaaaccggattga a" /listShort="S251, yfnH, yfnG, yfnF, yfnE, yfnD" /GFF_Attribute="listLong" promotor_-10 798344..798363 /Source="Nicolas_upshift_promotors" /id="U549" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1421 /SigmaFactorBS="tttttttggttatacaaccaacttgaaaaaatagattccatT TGGTCACCAaggctggctttctCTCATATCATTACAGTAGATtttgaaaccggattga a" /listShort="S251, yfnH, yfnG, yfnF, yfnE, yfnD" /GFF_Attribute="listLong" /label="promotor_-10" downshifts complement(798394) /Source="Nicolas_upshifts" /id="D358" /incds=0 /nref=2 /ntot=6 /MaxReadThrough="1.80969" /MaxDrop="4.63324" /score="20.6569889" /energy="-23.4" /TU="NA" /idTUdmin="U552" /TUdmin=4928 /isTUend="FALSE" CDS 798469..799233 /gene="spmH" /locus_tag="BSU_07270" /old_locus_tag="BSU07270" /EC_number="2.7.7.33" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:15634670, 16357223, 26577401" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15634670, 16357223, 26577401; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="glucose-1-phosphate cytidylyltransferase (sporulation)" /protein_id="NP_388608.1" /db_xref="EnsemblGenomes-Gn:BSU07270" /db_xref="EnsemblGenomes-Tr:CAB12546" /db_xref="GOA:O06486" /db_xref="InterPro:IPR005835" /db_xref="InterPro:IPR013446" /db_xref="InterPro:IPR029044" /db_xref="SubtiList:BG12979" /db_xref="UniProtKB/Swiss-Prot:O06486" /translation="MKAVILCGGKGTRMSEVTNDIPKPLAMIGGKPILWHIMKIYQYY GVNEFILLLGYKGEKIKEYFLDYEWKHNSLTLDSSTGEVQMLGQPETWKITFLETGVD TLTAGRILQAKDYIGDETFLLTYGDGLANINLFHLISYHQTKGAAATVTGIDKVSQFG TLTVEDGMAKTFSEKTSSDGIINGGFFVLSPKVFDYLPKDGNTMFEDEPLKNLAKDGE LAVYRHYGFWTAIDTYKNLLEVNKMWNQGQQVWKVW*" gene 798469..799233 /gene="spmH" /locus_tag="BSU_07270" /old_locus_tag="BSU07270" CDS 799240..800208 /gene="spmG" /locus_tag="BSU_07280" /old_locus_tag="BSU07280" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative CDP-sugar-dehydratase/epimerase" /protein_id="NP_388609.2" /db_xref="EnsemblGenomes-Gn:BSU07280" /db_xref="EnsemblGenomes-Tr:CAB12547" /db_xref="GOA:O06485" /db_xref="InterPro:IPR016040" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG12978" /db_xref="UniProtKB/Swiss-Prot:O06485" /translation="MSFWKNKNVFVTGCTGLLGSYLVKELIEQGANVTGLVRDHVPQS NLYQGEHIKKMNIVRGSLEDLAVIERALGEYEIDTVFHLAAQAIVGVANRNPISTFEA NILGTWNILEACRKHPLIKRVIVASSDKAYGDQENLPYDENMPLQGKHPYDVSKSCAD LISHTYFHTYGLPVCITRCGNLYGGGDLNFNRIIPQTIQLVLNGEAPEIRSDGTFVRD YFYIEDAVQAYLLLAEKMEENNLAGEAFNFSNEIQLTVLELVEKILKKMNSNLKPKVL NQGSNEIKHQYLSAEKARKLLNWTPAYTIDEGLEKTIEWYTEFFKK*" gene 799240..800208 /gene="spmG" /locus_tag="BSU_07280" /old_locus_tag="BSU07280" CDS 800232..801143 /gene="yfnF" /locus_tag="BSU_07290" /old_locus_tag="BSU07290" /EC_number="2.4.1.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative glycosyltransferase" /protein_id="NP_388610.1" /db_xref="EnsemblGenomes-Gn:BSU07290" /db_xref="EnsemblGenomes-Tr:CAB12548" /db_xref="InterPro:IPR005069" /db_xref="InterPro:IPR029044" /db_xref="SubtiList:BG12977" /db_xref="UniProtKB/Swiss-Prot:O06484" /translation="MTSAYCTVLSKGRLYQAVALFKSLEQVDQDSPIFILCMDEDTHR VLQKLKMKQLNLVPVAALENELLLKLKETRDQSEYCWTMKPIFLQAVLNSNPELERVT YIDGDLFFYADPSPIFENQPDCSVLLSRGDIVIPSFEKEQIDMLQRLLGRYNSGFISF KHDDAGTDCLEWWKERCLEECKNAPGEGKFGDQGYLDYMSELFPNVCDITTPGVNIGH WNYGQHTFSWKDGRIVLEDGSPLIFYHFSGYRIVSINEIKQIHETTRTDLPFVHELYQ ETLPHIIQHMQTLDPEFNGFASKDDNK*" gene 800232..801143 /gene="yfnF" /locus_tag="BSU_07290" /old_locus_tag="BSU07290" promotor_-35 801021..801030 /Source="Nicolas_upshift_promotors" /id="U550" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1259 /SigmaFactorBS="tcagcatcaatgaaatcaaacagattcatgaaacaACCCGCA CAGatctgccgtttgTGCATGAACTGTATCAAGAGacactgccgcatatcattcagca c" /listShort="yfnE, yfnD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 801043..801062 /Source="Nicolas_upshift_promotors" /id="U550" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1259 /SigmaFactorBS="tcagcatcaatgaaatcaaacagattcatgaaacaACCCGCA CAGatctgccgtttgTGCATGAACTGTATCAAGAGacactgccgcatatcattcagca c" /listShort="yfnE, yfnD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 801046 /Source="Nicolas_upshifts" /id="U550" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1259 /SigmaFactorBS="tcagcatcaatgaaatcaaacagattcatgaaacaACCCGCA CAGatctgccgtttgTGCATGAACTGTATCAAGAGacactgccgcatatcattcagca c" /listShort="yfnE, yfnD" /GFF_Attribute="listLong" CDS 801172..802350 /gene="yfnE" /locus_tag="BSU_07300" /old_locus_tag="BSU07300" /EC_number="2.4.1.-" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative glycosyltransferase (complex carbohydrate synthase)" /protein_id="NP_388611.1" /db_xref="EnsemblGenomes-Gn:BSU07300" /db_xref="EnsemblGenomes-Tr:CAB12549" /db_xref="GOA:O06483" /db_xref="InterPro:IPR001173" /db_xref="InterPro:IPR029044" /db_xref="SubtiList:BG12976" /db_xref="UniProtKB/Swiss-Prot:O06483" /translation="MKASVIIPAYNSKERLYNSLLSLNQQECDEEFEVIVADNGSEDG TLSMLESFQADFPLIFTRIKENRGIAYGRNQALRNARGDILIFHDSDMLAAKDLVAKH IKAHENEENLVVCGLFWKRIYSFYYERFEEEHKEQLAKLTGEMPKKDKQKLLEEADIK NGSFLDKSFDLDTDFIDVLKKILDEYGDDLKGYHMPWRFFITNNSSVKRKHVVDLGLF DEGIVRYGFEDYDLGIRLHQAGLTFRLRRDIVSVHQEHPSNCKSVDDIRANIAYMCDK YNNIRSLDVHLAFNGPFPPDMTNRIMADIQKLLESQKYDMLLNLFLELLHVVKERNID PDWRKKSPRVTAKSFDLQTVRKLLPKAKKKLGVNDFANALYALVNDLLHVDLRSLDVV *" gene 801172..802350 /gene="yfnE" /locus_tag="BSU_07300" /old_locus_tag="BSU07300" promotor_-35 801891..801897 /Source="Nicolas_upshift_promotors" /id="U551" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.383616383616384" /psig="0.913086913086913" /xcortree=307 /SigmaFactorBS="tcgggatcaggcttcatcaggccggATTGACCttcaggcttc gccgTGATATTGTCAGTGTTCATCaggaacatccaagcaattgtaagtctgtagacga t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 801912..801931 /Source="Nicolas_upshift_promotors" /id="U551" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.383616383616384" /psig="0.913086913086913" /xcortree=307 /SigmaFactorBS="tcgggatcaggcttcatcaggccggATTGACCttcaggcttc gccgTGATATTGTCAGTGTTCATCaggaacatccaagcaattgtaagtctgtagacga t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 801926 /Source="Nicolas_upshifts" /id="U551" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.383616383616384" /psig="0.913086913086913" /xcortree=307 /SigmaFactorBS="tcgggatcaggcttcatcaggccggATTGACCttcaggcttc gccgTGATATTGTCAGTGTTCATCaggaacatccaagcaattgtaagtctgtagacga t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS 802351..803286 /gene="yfnD" /locus_tag="BSU_07310" /old_locus_tag="BSU07310" /EC_number="2.4.1.-" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative glycosyltransferase (complex carbohydrate synthase)" /protein_id="NP_388612.1" /db_xref="EnsemblGenomes-Gn:BSU07310" /db_xref="EnsemblGenomes-Tr:CAB12550" /db_xref="InterPro:IPR005069" /db_xref="InterPro:IPR029044" /db_xref="SubtiList:BG12975" /db_xref="UniProtKB/Swiss-Prot:O31542" /translation="MSTFHFSTIVSRTHIFKLMPMIHSLHEHCDDFHLYVLCVDQKAY ELLQHVPWEHVTFVQLHEMEDPELLKAKSNRTFHEYCWTLKPAFLFHVMSKWDDAEYF AHMDTDLFFFSDPARIFAENPTASLYLTDHRNSPRFMSYYDRTGRFNTGFVGAGNTKE AYEAVWQWRQDCIEFCTVEMDTERKTYGDQRYVEKWPEQFKGVHVVKSIGANTALWNI ENYKVGQKDGRVYIDETPLIFYHFSGFTLVTEKEFNLCWYYRIEDEATIKMIYMPYIL NLKRWIDEIQSAFPDFADGFIPKHAVPDTHFIQLD*" gene 802351..803286 /gene="yfnD" /locus_tag="BSU_07310" /old_locus_tag="BSU07310" downshifts 803158 /Source="Nicolas_upshifts" /id="D359" /incds=1 /nref=1 /ntot=52 /MaxReadThrough="5.41459" /MaxDrop="2.6465" /score="34.8532284" /energy="-15.2" /TU="U549,U550" /idTUdmin="U549" /TUdmin="-110" /isTUend="FALSE" downshifts 803268 /Source="Nicolas_upshifts" /id="D360" /incds=0 /nref=2 /ntot=30 /MaxReadThrough="2.32849" /MaxDrop="5.65066" /score="34.8532284" /energy="-15.2" /TU="NA" /idTUdmin="U549" /TUdmin=0 /isTUend="TRUE" downshifts complement(803309) /Source="Nicolas_upshifts" /id="D361" /incds=0 /nref=158 /ntot=249 /MaxReadThrough="1.15199" /MaxDrop="4.97014" /score="32.9697757" /energy="-15.2" /TU="NA" /idTUdmin="U552" /TUdmin=13 /isTUend="TRUE" CDS complement(803317..804546) /gene="yfnC" /locus_tag="BSU_07320" /old_locus_tag="BSU07320" /function="16.1: Circulate" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative efflux transporter" /protein_id="NP_388613.1" /db_xref="EnsemblGenomes-Gn:BSU07320" /db_xref="EnsemblGenomes-Tr:CAB12551" /db_xref="GOA:O06481" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12974" /db_xref="UniProtKB/Swiss-Prot:O06481" /translation="MAIAAPLKEKTVQKPGTTVYPILIIIGICHMLNDSLQAVIPAMF PILERSMSLTFTQLGIIAFTLNMVSSVMQPVVGWYTDKRPRPYALPVGLTASMLGILG LAFAPSFITILCCVFFIGLGSAIFHPEGSRVAYMAAGTKRGLAQSIYQVGGNSGQAMA PLITALILVPLGQFGAVWFTLVAALAVMFLMYIAKWYASRLGSLAQKSGKQKKTAENT AITKSVVSALIIIIFLIFARSWYTSAIGNFYTFYAMDTYHVSIQQAQSYIFVFLLFGA IGTFLGGPLADRFGKRFVILGSLLCSAPLAIVLPFAGPVLAYGVLALIGLVLMSSFSV TVVYAQELVPGKIGTMSGLTVGLAFGMGAIGAVALGALIDAAGLTPTMIAIAFLPVLG ILAFLLPSDQKLREWHS*" gene complement(803317..804546) /gene="yfnC" /locus_tag="BSU_07320" /old_locus_tag="BSU07320" promotor_-10 complement(804575..804594) /Source="Nicolas_upshift_promotors" /id="U552" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.909090909090909" /psig="0.997002997002997" /xcortree=2717 /SigmaFactorBS="ggctgacggtatttctttcataagaatcttttttccTCTTGA TAaattcttcaccttatGAATAATATGGTGGTATGCTttggttatatatgtaaggagg a" /listShort="yfnC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(804593) /Source="Nicolas_upshifts" /id="U552" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.909090909090909" /psig="0.997002997002997" /xcortree=2717 /SigmaFactorBS="ggctgacggtatttctttcataagaatcttttttccTCTTGA TAaattcttcaccttatGAATAATATGGTGGTATGCTttggttatatatgtaaggagg a" /listShort="yfnC" /GFF_Attribute="listLong" promotor_-35 complement(804610..804617) /Source="Nicolas_upshift_promotors" /id="U552" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.909090909090909" /psig="0.997002997002997" /xcortree=2717 /SigmaFactorBS="ggctgacggtatttctttcataagaatcttttttccTCTTGA TAaattcttcaccttatGAATAATATGGTGGTATGCTttggttatatatgtaaggagg a" /listShort="yfnC" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(804657..805364) /gene="pynN" /locus_tag="BSU_07330" /old_locus_tag="BSU07330" /EC_number="3.1.3.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); Product type e: enzyme" /codon_start=1 /transl_table=11 /product="pyrimidine nucleotide phosphatase (promiscuous)" /protein_id="NP_388614.1" /db_xref="EnsemblGenomes-Gn:BSU07330" /db_xref="EnsemblGenomes-Tr:CAB12552" /db_xref="GOA:O06480" /db_xref="InterPro:IPR006439" /db_xref="InterPro:IPR011951" /db_xref="InterPro:IPR023198" /db_xref="InterPro:IPR023214" /db_xref="InterPro:IPR036412" /db_xref="PDB:3ED5" /db_xref="PDB:3I76" /db_xref="SubtiList:BG12973" /db_xref="UniProtKB/Swiss-Prot:O06480" /translation="MKRYRTLLFDVDDTILDFQAAEALALRLLFEDQNIPLTNDMKAQ YKTINQGLWRAFEEGKMTRDEVVNTRFSALLKEYGYEADGALLEQKYRRFLEEGHQLI DGAFDLISNLQQQFDLYIVTNGVSHTQYKRLRDSGLFPFFKDIFVSEDTGFQKPMKEY FNYVFERIPQFSAEHTLIIGDSLTADIKGGQLAGLDTCWMNPDMKPNVPEIIPTYEIR KLEELYHILNIENTVSC*" gene complement(804657..805364) /gene="pynN" /locus_tag="BSU_07330" /old_locus_tag="BSU07330" downshifts complement(804686) /Source="Nicolas_upshifts" /id="D362" /incds=0 /nref=25 /ntot=169 /MaxReadThrough="2.75071" /MaxDrop="4.28644" /score="1.09492978" /energy="-15.7" /TU="NA" /idTUdmin="U553" /TUdmin=0 /isTUend="TRUE" misc_feature complement(805387..805406) /Source="Nicolas_upshift_promotors" /id="U553" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.985014985014985" /psig="0.998001998001998" /xcortree=3118 /SigmaFactorBS="ttattaaacaaataatctcttttcagccggcggtgcctcacc cgccggctttttcctttttttaTGTGCTATACTTTGAATACAtatgagaaagggagac a" /listShort="yfnB" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(805410) /Source="Nicolas_upshifts" /id="U553" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.985014985014985" /psig="0.998001998001998" /xcortree=3118 /SigmaFactorBS="ttattaaacaaataatctcttttcagccggcggtgcctcacc cgccggctttttcctttttttaTGTGCTATACTTTGAATACAtatgagaaagggagac a" /listShort="yfnB" /GFF_Attribute="listLong" CDS complement(805456..806841) /gene="mtrA" /locus_tag="BSU_07340" /old_locus_tag="BSU07340" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:12022921, 15849754, 16850406, 17114254, 18632116" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12022921, 15849754, 16850406, 17114254, 18632116; Product type t : transporter" /codon_start=1 /transl_table=11 /product="methylthioribose permease" /protein_id="NP_388615.1" /db_xref="EnsemblGenomes-Gn:BSU07340" /db_xref="EnsemblGenomes-Tr:CAB12553" /db_xref="GOA:Q797A7" /db_xref="InterPro:IPR002293" /db_xref="SubtiList:BG12972" /db_xref="UniProtKB/Swiss-Prot:Q797A7" /translation="MSSLFRKKPLETLSAQSKSKSLARTLSAFDLTLLGIGCVIGTGI FVITGTVAATGAGPALIISFILAGLACALAAFCYAEFSSSIPISGSVYSYSYVTLGEL LAFLIGWDLMLEYVIALSAVATGWSSYFQSLLAGFNLHIPAALTGAPGSMAGAVFNLP AAVIILLITAIVSRGVKESTRFNNVIVLMKIAIILLFIIVGIGYVKPDNWSPFMPFGM KGVILSAATVFFAYLGFDAVSNASEEVKNPQKNMPVGIISALAVCTVLYIAVSLVLTG MMPYAKLNVGDPVSFALKFVGQDAVAGIISVGAIIGITTVMLALLYAQVRLTFAMSRD GLLPGLFAKVHPSFKTPFRNTWLTGIVAAGIAGFINLGTLAHLVNMGTLAAFTVISIA VIVLRKKHPEIKASFRVPFVPVVPIISAGICLWFMYSLPGVTWLSFVIWIAVGTLVYF LYSRKHSLLNK*" gene complement(805456..806841) /gene="mtrA" /locus_tag="BSU_07340" /old_locus_tag="BSU07340" downshifts complement(805478) /Source="Nicolas_upshifts" /id="D363" /incds=0 /nref=8 /ntot=91 /MaxReadThrough="3.68565" /MaxDrop="4.73728" /score="31.1617384" /energy="-15.4" /TU="U554" /idTUdmin="U554" /TUdmin="-770" /isTUend="FALSE" promotor_-10 complement(806890..806909) /Source="Nicolas_upshift_promotors" /id="U554" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.913086913086913" /psig=1 /xcortree=2397 /SigmaFactorBS="tgtttcgcttctatcatttaaagcagaaaaatatttTATTGA CTacgtcaaatttcgaCAATATAATACAACAAGAACtgcatataatgattagaatatt t" /listShort="yfnA, yfnB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(806907) /Source="Nicolas_upshifts" /id="U554" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.913086913086913" /psig=1 /xcortree=2397 /SigmaFactorBS="tgtttcgcttctatcatttaaagcagaaaaatatttTATTGA CTacgtcaaatttcgaCAATATAATACAACAAGAACtgcatataatgattagaatatt t" /listShort="yfnA, yfnB" /GFF_Attribute="listLong" promotor_-35 complement(806924..806931) /Source="Nicolas_upshift_promotors" /id="U554" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.913086913086913" /psig=1 /xcortree=2397 /SigmaFactorBS="tgtttcgcttctatcatttaaagcagaaaaatatttTATTGA CTacgtcaaatttcgaCAATATAATACAACAAGAACtgcatataatgattagaatatt t" /listShort="yfnA, yfnB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 807009..807016 /Source="Nicolas_upshift_promotors" /id="U555" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2800 /SigmaFactorBS="aacagcgttgtcgtatcataggatagtaatttttactaatcg tatATTCAATTttatgcaagatgaACCGATAGAAAAAATAGATtcgcccatattttga t" /listShort="yfmT, yfmS" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 807024 /Source="Nicolas_upshifts" /id="U555" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2800 /SigmaFactorBS="aacagcgttgtcgtatcataggatagtaatttttactaatcg tatATTCAATTttatgcaagatgaACCGATAGAAAAAATAGATtcgcccatattttga t" /listShort="yfmT, yfmS" /GFF_Attribute="listLong" promotor_-10 807030..807048 /Source="Nicolas_upshift_promotors" /id="U555" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2800 /SigmaFactorBS="aacagcgttgtcgtatcataggatagtaatttttactaatcg tatATTCAATTttatgcaagatgaACCGATAGAAAAAATAGATtcgcccatattttga t" /listShort="yfmT, yfmS" /GFF_Attribute="listLong" /label="promotor_-10" CDS 807091..808548 /gene="vdhT" /locus_tag="BSU_07350" /old_locus_tag="BSU07350" /EC_number="1.2.1.67" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1b: Function from experimental evidences in the studied species; PubMedId: 15033535, 26658822; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="vanillin dehydrogenase" /protein_id="NP_388616.1" /db_xref="EnsemblGenomes-Gn:BSU07350" /db_xref="EnsemblGenomes-Tr:CAB12554" /db_xref="GOA:O06478" /db_xref="InterPro:IPR015590" /db_xref="InterPro:IPR016161" /db_xref="InterPro:IPR016162" /db_xref="InterPro:IPR029510" /db_xref="SubtiList:BG12971" /db_xref="UniProtKB/Swiss-Prot:O06478" /translation="MFQYEELNKQFIGGKWQEGSSPNVLENKNPYTQKTFTTFRKATA DDVDEAYRAAALAKKKWDAVNPFEKRTILEKAVTYIEENEEAIIYLIMEELGGTRLKA AFEIGLVKNIIKEAATFPIRMEGKILPSTIDGKENRLYRVPAGVVGVISPFNFPFFLS MKSVAPALGAGNGVVLKPHEETPICGGTLIAKIFENAGIPAGLLNVVVTDIAEIGDSF VEHPVPRIISFTGSTKVGSYIGQLAMKHFKKPLLELGGNSAFIVLEDADIEYAVNAAV FSRFTHQGQICMSANRVLVHSSIYDKFLELYQAKVESLKVGDPMDPDTIIGPLINSRQ TDGLMKTVEQAIEEGAVPVKLGGFNGTIVEPTILKDVKPFMSIAKEELFGPVVSFMKF DSEDEAVDIANETPFGLSGAVHTSNLERGVAFAKRIETGMIHVNDTTINDEPNVAFGG EKQSGLGRLNGEWSLEEFTTLKWISVQHEKRSFPY*" gene 807091..808548 /gene="vdhT" /locus_tag="BSU_07350" /old_locus_tag="BSU07350" promotor_-10 complement(807884..807903) /Source="Nicolas_upshift_promotors" /id="U556" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1237 /SigmaFactorBS="ctgacatgcaaatctgcccttgatgtgtaaatcGGCTGAACA CcgccgcattgacCGCATATTCTATATCTGCATcctcaagtacgatgaaggcgctgtt c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(807898) /Source="Nicolas_upshifts" /id="U556" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1237 /SigmaFactorBS="ctgacatgcaaatctgcccttgatgtgtaaatcGGCTGAACA CcgccgcattgacCGCATATTCTATATCTGCATcctcaagtacgatgaaggcgctgtt c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(807916..807925) /Source="Nicolas_upshift_promotors" /id="U556" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1237 /SigmaFactorBS="ctgacatgcaaatctgcccttgatgtgtaaatcGGCTGAACA CcgccgcattgacCGCATATTCTATATCTGCATcctcaagtacgatgaaggcgctgtt c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 808562..809422 /gene="yfmS" /locus_tag="BSU_07360" /old_locus_tag="BSU07360" /function="16.5: Explore" /function="16.3: Control" /function="16.12: Sense" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15033535, 27899502; Product type rc: receptor" /codon_start=1 /transl_table=11 /product="chemotaxis sensory transducer (sensed target unknown)" /protein_id="NP_388617.1" /db_xref="EnsemblGenomes-Gn:BSU07360" /db_xref="EnsemblGenomes-Tr:CAB12555" /db_xref="GOA:O06477" /db_xref="InterPro:IPR004089" /db_xref="InterPro:IPR029151" /db_xref="SubtiList:BG12970" /db_xref="UniProtKB/Swiss-Prot:O06477" /translation="MELTINTEKETADILDAFIKVAPYLNSLVQDDITIGIYDTEKLL VNIPAKTFSLNVKAGDPLQEGDIITDAIRSNQKKTSMVPKELFGFPLIARAIPLHDEN GRVIGGVGLGTSLEESSKLHDVAESLSAVVEQTAAAISDISESINGFSTQMSGISSQA KKVSESAGEIADISVTVKGISDQSNLLGLNAAIEAARAGESGKGFSVVADEIRKLATH SKENVGQIDQITKKIHSLLKGLEESIESINQHTDGQAAAVEQISATMQEISGSAQHLA KMAEKALEEE*" gene 808562..809422 /gene="yfmS" /locus_tag="BSU_07360" /old_locus_tag="BSU07360" downshifts 809406 /Source="Nicolas_upshifts" /id="D364" /incds=0 /nref=208 /ntot=237 /MaxReadThrough="2.9987" /MaxDrop="6.02377" /score="31.9989755" /energy="-16.7" /TU="U555" /idTUdmin="U555" /TUdmin="-22" /isTUend="TRUE" promotor_-35 809490..809497 /Source="Nicolas_upshift_promotors" /id="U557" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.953046953046953" /psig=1 /xcortree=1991 /SigmaFactorBS="tatcctgcatttccatgaaattcgtctgacgtttTACTAGTT ttattccagcggcTGATTTAAAATGTACACATGaacttacgtgaggattgataggaac c" /listShort="yfmR, yfmQ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 809511..809530 /Source="Nicolas_upshift_promotors" /id="U557" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.953046953046953" /psig=1 /xcortree=1991 /SigmaFactorBS="tatcctgcatttccatgaaattcgtctgacgtttTACTAGTT ttattccagcggcTGATTTAAAATGTACACATGaacttacgtgaggattgataggaac c" /listShort="yfmR, yfmQ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 809516 /Source="Nicolas_upshifts" /id="U557" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.953046953046953" /psig=1 /xcortree=1991 /SigmaFactorBS="tatcctgcatttccatgaaattcgtctgacgtttTACTAGTT ttattccagcggcTGATTTAAAATGTACACATGaacttacgtgaggattgataggaac c" /listShort="yfmR, yfmQ" /GFF_Attribute="listLong" CDS 809557..811446 /gene="ettA" /locus_tag="BSU_07370" /old_locus_tag="BSU07370" /EC_number="3.6.3.-" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10715006, 16109936, 18848624, 19948254, 24389465, 24389466; Product type r : regulator" /codon_start=1 /transl_table=11 /product="putative energy-dependent translational throttleA" /protein_id="NP_388618.1" /db_xref="EnsemblGenomes-Gn:BSU07370" /db_xref="EnsemblGenomes-Tr:CAB12556" /db_xref="GOA:O06476" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR032524" /db_xref="InterPro:IPR032781" /db_xref="SubtiList:BG12969" /db_xref="UniProtKB/Swiss-Prot:O06476" /translation="MSILKAENLYKTYGDKTLFDHISFHIEENERIGLIGPNGTGKST LLKVIAGLESIEEGEITKSGSVQVEFLHQDPELPAGQTVLEHIYSGESAVMKTLREYE KALYELGKDPENEQRQKHLLAAQAKMDANNAWDANTLAKTVLSKLGVNDVTKPVNELS GGQKKRVAIAKNLIQPADLLILDEPTNHLDNETIEWLEGYLSQYPGAVMLVTHDRYFL NRVTNRIYELERGSLYTYKGNYEVFLEKRAEREAQAEQKETKRQNLLRRELAWLRRGA KARSTKQKARIDRVETLKEQTGPQSSGSLDFAIGSHRLGKQVIEAENVMIAYDGRMLV DRFNELVIPGERIGIIGPNGIGKTTLLNALAGRHTPDGGDITIGQTVRIGYYTQDHSE MNGELKVIDYIKETAEVVKTADGDMITAEQMLERFLFPRSMQQTYIRKLSGGEKRRLY LLQVLMQEPNVLFLDEPTNDLDTETLSVLEDYIDQFPGVVITVSHDRYFLDRVVDRLI VFEGNGVISRFQGSYSDYMEESKAKKAAPKPAAEEKTAEAEPKKKRKKLSYKDQLEWD GIEDKIAQLEEKHEQLEADIAAAGSDFGKIQELMAEQAKTAEELEAAMDRWTELSLMI EELES*" gene 809557..811446 /gene="ettA" /locus_tag="BSU_07370" /old_locus_tag="BSU07370" downshifts 811430 /Source="Nicolas_upshifts" /id="D365" /incds=0 /nref=2 /ntot=134 /MaxReadThrough="2.98669" /MaxDrop="2.72484" /score="30.3267801" /energy="-13.8" /TU="U557" /idTUdmin="U557" /TUdmin="-572" /isTUend="FALSE" misc_feature 811510..811529 /Source="Nicolas_upshift_promotors" /id="U558" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.5004995004995" /psig="0.99000999000999" /xcortree=1625 /SigmaFactorBS="gcagcaggccgcgctttttttcacataatggacaaaaacgaa ccggcctgctTATGTTAGGATAAAGTTGTGtgtcagcggcacatggaaaactaacgga g" /listShort="yfmQ" /listLong="yfmP, yfmO" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 811518 /Source="Nicolas_upshifts" /id="U558" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.5004995004995" /psig="0.99000999000999" /xcortree=1625 /SigmaFactorBS="gcagcaggccgcgctttttttcacataatggacaaaaacgaa ccggcctgctTATGTTAGGATAAAGTTGTGtgtcagcggcacatggaaaactaacgga g" /listShort="yfmQ" /listLong="yfmP, yfmO" CDS 811569..812015 /gene="yfmQ" /locus_tag="BSU_07380" /old_locus_tag="BSU07380" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 26483775" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388619.1" /db_xref="EnsemblGenomes-Gn:BSU07380" /db_xref="EnsemblGenomes-Tr:CAB12557" /db_xref="GOA:O06475" /db_xref="InterPro:IPR019723" /db_xref="SubtiList:BG12968" /db_xref="UniProtKB/Swiss-Prot:O06475" /translation="MTWAIVMLILMSLVKIVLTCLPTGVIEWLLGKFEVHAKLSDENA SLSLDGKRLEGAEKQKVIDQFNEAIFLEKYYIYPGDEERYLHPENGGTPLVIDTKKGK KDVKLFVYRYDDHIDVVKQYKKKVIAYRVLSESLQKESLSVAGSLA*" gene 811569..812015 /gene="yfmQ" /locus_tag="BSU_07380" /old_locus_tag="BSU07380" downshifts complement(811571) /Source="Nicolas_upshifts" /id="D366" /incds=0 /nref=48 /ntot=154 /MaxReadThrough="1.16717" /MaxDrop="4.57866" /score="0.689181271" /energy="-10.2" /TU="NA" /idTUdmin="U559" /TUdmin=1 /isTUend="TRUE" promotor_-10 complement(811655..811658) /Source="Nicolas_upshift_promotors" /id="U559" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.597402597402597" /psig="0.063936063936064" /xcortree=1597 /SigmaFactorBS="tttccatctagagagagactcgcattttcgtcactcagcttg gCGtgcacttcaaatttgccGAGCagccattctatgacgcctgtaggaagacaggtta a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(811660) /Source="Nicolas_upshifts" /id="U559" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.597402597402597" /psig="0.063936063936064" /xcortree=1597 /SigmaFactorBS="tttccatctagagagagactcgcattttcgtcactcagcttg gCGtgcacttcaaatttgccGAGCagccattctatgacgcctgtaggaagacaggtta a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(811676..811677) /Source="Nicolas_upshift_promotors" /id="U559" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.597402597402597" /psig="0.063936063936064" /xcortree=1597 /SigmaFactorBS="tttccatctagagagagactcgcattttcgtcactcagcttg gCGtgcacttcaaatttgccGAGCagccattctatgacgcctgtaggaagacaggtta a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 812002 /Source="Nicolas_upshifts" /id="D367" /incds=0 /nref=254 /ntot=267 /MaxReadThrough="3.12706" /MaxDrop="7.87026" /score="13.6774886" /energy="-8" /TU="U558" /idTUdmin="U557" /TUdmin=0 /isTUend="TRUE" promotor_-35 812078..812085 /Source="Nicolas_upshift_promotors" /id="U560" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.606393606393606" /psig="0.999000999001" /xcortree=2124 /SigmaFactorBS="gtcttttttattgttttttaaaacttaACGTTTACgttaagg ttcaaaAGGTGTATAATGGTAACAGAaacggcgaagggggatttaccttggaatggat g" /listShort="yfmP, yfmO" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 812099..812118 /Source="Nicolas_upshift_promotors" /id="U560" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.606393606393606" /psig="0.999000999001" /xcortree=2124 /SigmaFactorBS="gtcttttttattgttttttaaaacttaACGTTTACgttaagg ttcaaaAGGTGTATAATGGTAACAGAaacggcgaagggggatttaccttggaatggat g" /listShort="yfmP, yfmO" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 812111 /Source="Nicolas_upshifts" /id="U560" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.606393606393606" /psig="0.999000999001" /xcortree=2124 /SigmaFactorBS="gtcttttttattgttttttaaaacttaACGTTTACgttaagg ttcaaaAGGTGTATAATGGTAACAGAaacggcgaagggggatttaccttggaatggat g" /listShort="yfmP, yfmO" /GFF_Attribute="listLong" CDS 812140..812562 /gene="copP" /locus_tag="BSU_07390" /old_locus_tag="BSU07390" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:14663075" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14663075; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator (MerR family) of metal(copper) efflux transporter expression" /protein_id="NP_388620.1" /db_xref="EnsemblGenomes-Gn:BSU07390" /db_xref="EnsemblGenomes-Tr:CAB12558" /db_xref="GOA:O06474" /db_xref="InterPro:IPR000551" /db_xref="InterPro:IPR009061" /db_xref="SubtiList:BG12967" /db_xref="UniProtKB/Swiss-Prot:O06474" /translation="MEWMKIDQVAKRSGLTKRTIRFYEEIGLIPAPKRTDGGVRLYSE DDMEELEKVISTKEVLGFSLQELQHFMETSRQLELNKEGYLLSLDPKERKEKLEEIQE TLNHQLDLIDEKIRTFQSFKERLQGMKGKAERAIQSIE*" gene 812140..812562 /gene="copP" /locus_tag="BSU_07390" /old_locus_tag="BSU07390" downshifts 812398 /Source="Nicolas_upshifts" /id="D368" /incds=1 /nref=2 /ntot=135 /MaxReadThrough="4.24358" /MaxDrop="2.69696" /score="13.6774886" /energy="-8" /TU="U560" /idTUdmin="U558" /TUdmin=308 /isTUend="FALSE" CDS 812628..813818 /gene="copO" /locus_tag="BSU_07400" /old_locus_tag="BSU07400" /function="16.1: Circulate" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:14663075, 15849754, 16850406" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14663075, 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="metal (copper) efflux transporter" /protein_id="NP_388621.1" /db_xref="EnsemblGenomes-Gn:BSU07400" /db_xref="EnsemblGenomes-Tr:CAB12559" /db_xref="GOA:O06473" /db_xref="InterPro:IPR001958" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12966" /db_xref="UniProtKB/Swiss-Prot:O06473" /translation="MDKTTQVNQKTGLLSQPKAVWAVAFACVISFMGIGLVDPILPAI AAQLHASPSEVSLLFTSYLLVTGFMMFFSGAISSRIGAKWTLILGLIFIIVFAGLGGS SSSIAQLVGYRGGWGLGNALFISTALAVIVGVSVGGSAQAIILYEAALGLGISVGPLA GGELGSISWRAPFFGVSVLMFIALIAISFMLPKLPKPAKRVGVFDAMKALKYKGLLTM AVSAFLYNFGFFILLAYSPFVLDLDEHGLGYVFFGWGLLLAITSVFTAPLVHKALGTV RSLVVLFIAFAAILVIMGIWTDHQTLIITCIVVAGAVLGMVNTIMTTAVMGSAPVERS IASSAYSSVRFIGGALAPWIAGMLSEHFTASTPYTVGGIVVFVGMLVLLMGRKHLAGI KAGH*" gene 812628..813818 /gene="copO" /locus_tag="BSU_07400" /old_locus_tag="BSU07400" downshifts complement(813882) /Source="Nicolas_upshifts" /id="D369" /incds=0 /nref=1 /ntot=10 /MaxReadThrough="-0.0437700000000003" /MaxDrop="2.92105" /score="-8.93016606" /energy="-11.6" /TU="NA" /idTUdmin="U562" /TUdmin=528 /isTUend="FALSE" CDS 814109..814264 /gene="yfmN" /locus_tag="BSU_07410" /old_locus_tag="BSU07410" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="NP_388622.1" /db_xref="EnsemblGenomes-Gn:BSU07410" /db_xref="EnsemblGenomes-Tr:CAB12560" /db_xref="SubtiList:BG12965" /db_xref="UniProtKB/Swiss-Prot:O06472" /translation="MDKAKPDEYDQKCLETLYQYIHSVMKNSFSRSSGLPLGKMRRIL SCLPKES*" gene 814109..814264 /gene="yfmN" /locus_tag="BSU_07410" /old_locus_tag="BSU07410" CDS complement(814384..815940) /gene="ettM" /locus_tag="BSU_07420" /old_locus_tag="BSU07420" /EC_number="3.6.3.-" /function="16.7: Manage energy" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12486040, 16109936, 16684363, 22333191, 24389466; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative energy-sensing inhibitor of translation" /protein_id="NP_388623.2" /db_xref="EnsemblGenomes-Gn:BSU07420" /db_xref="EnsemblGenomes-Tr:CAB12571" /db_xref="GOA:O34512" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR032781" /db_xref="SubtiList:BG12964" /db_xref="UniProtKB/Swiss-Prot:O34512" /translation="MSILSVKDLSHGFGDRAIFNNVSFRLLKGEHVGLIGANGEGKST FMNIITGKLEPDEGKVEWSKNVRVGYLDQHTVLEKGKSIRDVLKDAFHYLFAMEEEMN EIYNKMGEADPDELEKLLEEVGVIQDALTNNDFYVIDSKVEEIARGLGLSDIGLERDV TDLSGGQRTKVLLAKLLLEKPEILLLDEPTNYLDEQHIEWLKRYLQEYENAFILISHD IPFLNSVINLIYHVENQELTRYVGDYHQFMEVYEVKKQQLEAAYKKQQQEVAELKDFV ARNKARVSTRNMAMSRQKKLDKMDMIELAAEKPKPEFHFKPARTSGKLIFETKDLVIG YDSPLSRPLNLRMERGQKIALYGANGIGKTTLLKSLLGEIQPLEGSVERGEHIYTGYF EQEVKETNNNTCIEEVWSEFPSYTQYEIRAALAKCGLTTKHIESRVSVLSGGEKAKVR LCKLINSETNLLVLDEPTNHLDADAKEELKRALKEYKGSILLISHEPDFYMDIATETW NCESWTTKVL*" gene complement(814384..815940) /gene="ettM" /locus_tag="BSU_07420" /old_locus_tag="BSU07420" downshifts complement(814408) /Source="Nicolas_upshifts" /id="D370" /incds=0 /nref=173 /ntot=264 /MaxReadThrough="0.35675" /MaxDrop="5.82627" /score="21.7805812" /energy="-12" /TU="NA" /idTUdmin="U562" /TUdmin=2 /isTUend="TRUE" promotor_-35 815770..815776 /Source="Nicolas_upshift_promotors" /id="U561" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=894 /SigmaFactorBS="tttttgaccattcgacttttccCTCATCAggttcaagctttc cGGTAATAATATTcatgaaggttgattttccttcaccgtttgcgccgatcaagccgac g" /listShort="yfmL" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 815791..815802 /Source="Nicolas_upshift_promotors" /id="U561" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=894 /SigmaFactorBS="tttttgaccattcgacttttccCTCATCAggttcaagctttc cGGTAATAATATTcatgaaggttgattttccttcaccgtttgcgccgatcaagccgac g" /listShort="yfmL" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 815808 /Source="Nicolas_upshifts" /id="U561" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=894 /SigmaFactorBS="tttttgaccattcgacttttccCTCATCAggttcaagctttc cGGTAATAATATTcatgaaggttgattttccttcaccgtttgcgccgatcaagccgac g" /listShort="yfmL" /GFF_Attribute="listLong" promotor_-10 complement(815990..816009) /Source="Nicolas_upshift_promotors" /id="U562" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.854145854145854" /psig="0.927072927072927" /xcortree=2609 /SigmaFactorBS="gcaatttttctttttctttcctataCCTTTcaacattccgaa tccTCCTTTATAATCAAAAGGGTgaatattacacgccgattgtgcgtgtttgataacg a" /listShort="yfmM" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(815994) /Source="Nicolas_upshifts" /id="U562" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.854145854145854" /psig="0.927072927072927" /xcortree=2609 /SigmaFactorBS="gcaatttttctttttctttcctataCCTTTcaacattccgaa tccTCCTTTATAATCAAAAGGGTgaatattacacgccgattgtgcgtgtttgataacg a" /listShort="yfmM" /GFF_Attribute="listLong" promotor_-35 complement(816025..816029) /Source="Nicolas_upshift_promotors" /id="U562" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.854145854145854" /psig="0.927072927072927" /xcortree=2609 /SigmaFactorBS="gcaatttttctttttctttcctataCCTTTcaacattccgaa tccTCCTTTATAATCAAAAGGGTgaatattacacgccgattgtgcgtgtttgataacg a" /listShort="yfmM" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 816050..816053 /Source="Nicolas_upshift_promotors" /id="U563" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.608391608391608" /psig=1 /xcortree=2547 /SigmaFactorBS="attcggaatgttgaaaggtataggaaagaaaaagaaaaATTG cgttccgggcgaggtTTTGAGATACTATGGAATAGatttcaggaattgaggagaacaa a" /listShort="yfmL" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 816069..816088 /Source="Nicolas_upshift_promotors" /id="U563" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.608391608391608" /psig=1 /xcortree=2547 /SigmaFactorBS="attcggaatgttgaaaggtataggaaagaaaaagaaaaATTG cgttccgggcgaggtTTTGAGATACTATGGAATAGatttcaggaattgaggagaacaa a" /listShort="yfmL" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 816072 /Source="Nicolas_upshifts" /id="U563" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.608391608391608" /psig=1 /xcortree=2547 /SigmaFactorBS="attcggaatgttgaaaggtataggaaagaaaaagaaaaATTG cgttccgggcgaggtTTTGAGATACTATGGAATAGatttcaggaattgaggagaacaa a" /listShort="yfmL" /GFF_Attribute="listLong" CDS 816113..817243 /gene="yfmL" /locus_tag="BSU_07430" /old_locus_tag="BSU07430" /EC_number="3.6.1.-" /function="16.6: Maintain" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 11976317; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative ATP-dependent RNA helicase" /protein_id="NP_388624.1" /db_xref="EnsemblGenomes-Gn:BSU07430" /db_xref="EnsemblGenomes-Tr:CAB12572" /db_xref="GOA:O34750" /db_xref="InterPro:IPR001650" /db_xref="InterPro:IPR011545" /db_xref="InterPro:IPR014001" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG12963" /db_xref="UniProtKB/Swiss-Prot:O34750" /translation="MTQTWPFLHNAQSFIQENWNASGFQKPTPVQEQAAQLIMDGKDV IAESPTGTGKTLAYALPVLERIKPEQKHPQAVILAPSRELVMQIFQVIQDWKAGSELR AASLIGGANVKKQVEKLKKHPHIIVGTPGRVFELIKAKKLKMHEVKTIVLDETDQLVL PEHRETMKQIIKTTLRDRQLLCFSATLKKETEDVLRELAQEPEVLKVQRSKAEAGKVK HQYLICDQRDKVKLLQKLSRLEGMQALVFVRDIGNLSVYAEKLAYHHVELGVLHSEAK KMERAKIIATFEDGEFPLLLATDIAARGLDIENLPYVIHADIPDEDGYVHRSGRTGRA GKEGNVLSLVTKLEESKLKKMAKKLGVELSEAVYAGGKLKTK*" gene 816113..817243 /gene="yfmL" /locus_tag="BSU_07430" /old_locus_tag="BSU07430" downshifts 817226 /Source="Nicolas_upshifts" /id="D371" /incds=0 /nref=43 /ntot=133 /MaxReadThrough="2.93747" /MaxDrop="4.41385" /score="23.4253604" /energy="-5.9" /TU="NA" /idTUdmin="U563" /TUdmin="-12" /isTUend="TRUE" CDS 817311..817757 /gene="yfmK" /locus_tag="BSU_07440" /old_locus_tag="BSU07440" /EC_number="2.3.1.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative acetyltransferase" /protein_id="NP_388625.1" /db_xref="EnsemblGenomes-Gn:BSU07440" /db_xref="EnsemblGenomes-Tr:CAB12573" /db_xref="GOA:O34536" /db_xref="InterPro:IPR000182" /db_xref="InterPro:IPR016181" /db_xref="SubtiList:BG12962" /db_xref="UniProtKB/Swiss-Prot:O34536" /translation="MASIDRFQVMQEPELKILEHWFENEDTRRRMDGMLLLDEWYARV NKDKHDTVIMAYDGQLPAGMVVIEFGEERTYIGLIVNPLYRLKGYGKQILQKLMTEPD FTSVREWVACIEEDNRISLACFQAAGFTLEDTEPDEDGFLTLILRN*" gene 817311..817757 /gene="yfmK" /locus_tag="BSU_07440" /old_locus_tag="BSU07440" CDS complement(817810..818829) /gene="yfmJ" /locus_tag="BSU_07450" /old_locus_tag="BSU07450" /EC_number="1.-.-.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative oxidoreductase" /protein_id="NP_388626.1" /db_xref="EnsemblGenomes-Gn:BSU07450" /db_xref="EnsemblGenomes-Tr:CAB12574" /db_xref="GOA:O34812" /db_xref="InterPro:IPR011032" /db_xref="InterPro:IPR013149" /db_xref="InterPro:IPR020843" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG12961" /db_xref="UniProtKB/Swiss-Prot:O34812" /translation="MTASQQQIQLARRPQGIPVHEDFRFETIPVPEPKQGEVLVKTLY VSVDPYMRGRMQDTKSYVEPFALDKALSGGVIAEVVSDGNHLKKGDIVIGNLSWQEFS AVSESALRKIDTSLAPASAYLGILGMTGLTAYFGLLDIGRPKEGETVVVSGAAGAVGS TVGQIAKIKGARVVGIAGSDEKIDYLKQELQFDEAINYKTADDIQKALQNACPDGVDV YFDNVGGPISDAVMNLLNEFARIPVCGAISSYNAESEADDMGPRVQSKLIKTKSLMQG FIVSDYSDRFSEGAKQLAEWLKAGKLHYEETITEGFENIPDAFLGLFKGENKGKQLIK VSDPS*" gene complement(817810..818829) /gene="yfmJ" /locus_tag="BSU_07450" /old_locus_tag="BSU07450" downshifts complement(817820) /Source="Nicolas_upshifts" /id="D372" /incds=0 /nref=183 /ntot=252 /MaxReadThrough="2.26899" /MaxDrop="5.73395" /score="20.8047206" /energy="-12.8" /TU="NA" /idTUdmin="U564" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(818850..818869) /Source="Nicolas_upshift_promotors" /id="U564" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.654345654345654" /psig=1 /xcortree=3180 /SigmaFactorBS="accttttttgtatgccagcttacctTTTGTATTtcctctcct gtcCATGTTACAGTGGTGTCAACcaagtgataggaggatgaaaatgacagcatctcag c" /listShort="yfmJ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(818854) /Source="Nicolas_upshifts" /id="U564" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.654345654345654" /psig=1 /xcortree=3180 /SigmaFactorBS="accttttttgtatgccagcttacctTTTGTATTtcctctcct gtcCATGTTACAGTGGTGTCAACcaagtgataggaggatgaaaatgacagcatctcag c" /listShort="yfmJ" /GFF_Attribute="listLong" S_feature complement(818856..819310) /Source="Nicolas_S_feature" /locus_tag="new_818856_819310_c" /HighExp="S2, S1, Pyr, T4.0H, T0.0H, T-2.40H, T3.30H, T-1.40H, T-0.40H, T2.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.996" /TUlongSig="NA" /TUlongPSig="NA" /label="S252" promotor_-35 complement(818882..818889) /Source="Nicolas_upshift_promotors" /id="U564" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.654345654345654" /psig=1 /xcortree=3180 /SigmaFactorBS="accttttttgtatgccagcttacctTTTGTATTtcctctcct gtcCATGTTACAGTGGTGTCAACcaagtgataggaggatgaaaatgacagcatctcag c" /listShort="yfmJ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 818948..818955 /Source="Nicolas_upshift_promotors" /id="U565" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.993006993006993" /psig="0.999000999001" /xcortree=1939 /SigmaFactorBS="atagatgagcttatgctttctacaagctctttTGTTTTAAaa gttctctttagTCATTTATCATTATTAGAAAacagaacagaaaaagagctcctgtaca c" /listShort="S253" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 818969..818988 /Source="Nicolas_upshift_promotors" /id="U565" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.993006993006993" /psig="0.999000999001" /xcortree=1939 /SigmaFactorBS="atagatgagcttatgctttctacaagctctttTGTTTTAAaa gttctctttagTCATTTATCATTATTAGAAAacagaacagaaaaagagctcctgtaca c" /listShort="S253" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 818976..820073 /Source="Nicolas_S_feature" /locus_tag="new_818976_820073" /HighExp="Etha, dia5, Diami, C30, dia15, T5.0H, S8, T3.0H, M0t90, LPhT" /AntisenseName="yfmI" /AntisenseCor="0.135213889213362" /AntisenseRegPval="-1.6" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S253" upshifts 818976 /Source="Nicolas_upshifts" /id="U565" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.993006993006993" /psig="0.999000999001" /xcortree=1939 /SigmaFactorBS="atagatgagcttatgctttctacaagctctttTGTTTTAAaa gttctctttagTCATTTATCATTATTAGAAAacagaacagaaaaagagctcctgtaca c" /listShort="S253" /GFF_Attribute="listLong" CDS complement(819311..820531) /gene="yfmI" /locus_tag="BSU_07460" /old_locus_tag="BSU07460" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative efflux transporter" /protein_id="NP_388627.1" /db_xref="EnsemblGenomes-Gn:BSU07460" /db_xref="EnsemblGenomes-Tr:CAB12575" /db_xref="GOA:O34440" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12960" /db_xref="UniProtKB/Swiss-Prot:O34440" /translation="MSKGYYSILFSQTTTNLGFSLYTMVVISFLFKMTNSTTIASMVT LISIIFRIFGSAILPLITIRLKLPLTIIISQLIQMLLLICLFYALLRTYSNQTLILVF IIISCISFFNGWFSPLKSAIIGEIISPDRRVKANGLLSTVDQTFQFVGWSLGGLIIAF LGEGYTIILTIFLLFTSLLSLLFCLPHGHANSVIREKNSPNKSIVSGWRYLFSQKKLR TIIIMDLIESWAGMIWIGSVSLAFVNEVLHKGESWWGFINGAYYLGSMIGGFIIYKLS ERFQNKLINFMLIGAVSYGSLTLIYGFISNSYLALILVLFMGPAYILRDLTQETLIQN ITTEQTRINIMSARSSLVQFIFMFSILAIGAISDFLGVRLVYVSAGILLLVSAIYGFS QLQFKKKVNKHISF*" gene complement(819311..820531) /gene="yfmI" /locus_tag="BSU_07460" /old_locus_tag="BSU07460" promotor_-10 complement(820568..820587) /Source="Nicolas_upshift_promotors" /id="U566" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.899100899100899" /psig="0.996003996003996" /xcortree=2925 /SigmaFactorBS="gtaaatagtttacaaggaaatttttTCTTTACTtttgttgtt ttaaggTGTTTAAATATGTTTAAGCTctttaccgagaaaaattattccaagggaggat a" /listShort="yfmI, S252, yfmJ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(820575) /Source="Nicolas_upshifts" /id="U566" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.899100899100899" /psig="0.996003996003996" /xcortree=2925 /SigmaFactorBS="gtaaatagtttacaaggaaatttttTCTTTACTtttgttgtt ttaaggTGTTTAAATATGTTTAAGCTctttaccgagaaaaattattccaagggaggat a" /listShort="yfmI, S252, yfmJ" /GFF_Attribute="listLong" promotor_-35 complement(820603..820610) /Source="Nicolas_upshift_promotors" /id="U566" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.899100899100899" /psig="0.996003996003996" /xcortree=2925 /SigmaFactorBS="gtaaatagtttacaaggaaatttttTCTTTACTtttgttgtt ttaaggTGTTTAAATATGTTTAAGCTctttaccgagaaaaattattccaagggaggat a" /listShort="yfmI, S252, yfmJ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 820629..820636 /Source="Nicolas_upshift_promotors" /id="U567" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.96903096903097" /psig=1 /xcortree=480 /SigmaFactorBS="ccttaaaacaacaaaagtaaagaaaaaatttccttgtaaacT ATTTACTtttattctatttatTGTTATTGTTTATTTAAGTTctctgactattctatca a" /listShort="S254, yfmG, S256, S257, S258, S259, yfmA, yflT" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 820648..820823 /Source="Nicolas_S_feature" /locus_tag="new_820648_820823" /HighExp="LoTm, T-1.10H, T-0.40H, S3, M9-stat, T0.0H, T-1.40H, BC, T2.0H, T5.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.98260400000000003" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S254" upshifts 820648 /Source="Nicolas_upshifts" /id="U567" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.96903096903097" /psig=1 /xcortree=480 /SigmaFactorBS="ccttaaaacaacaaaagtaaagaaaaaatttccttgtaaacT ATTTACTtttattctatttatTGTTATTGTTTATTTAAGTTctctgactattctatca a" /listShort="S254, yfmG, S256, S257, S258, S259, yfmA, yflT" /GFF_Attribute="listLong" promotor_-10 820651..820670 /Source="Nicolas_upshift_promotors" /id="U567" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.96903096903097" /psig=1 /xcortree=480 /SigmaFactorBS="ccttaaaacaacaaaagtaaagaaaaaatttccttgtaaacT ATTTACTtttattctatttatTGTTATTGTTTATTTAAGTTctctgactattctatca a" /listShort="S254, yfmG, S256, S257, S258, S259, yfmA, yflT" /GFF_Attribute="listLong" /label="promotor_-10" downshifts 820780 /Source="Nicolas_upshifts" /id="D373" /incds=0 /nref=34 /ntot=117 /MaxReadThrough="8.67835" /MaxDrop="8.45742" /score="4.02328636" /energy="-13.7" /TU="U567" /idTUdmin="U565" /TUdmin=748 /isTUend="FALSE" CDS 820867..822330 /gene="yfmG" /locus_tag="BSU_07480" /old_locus_tag="BSU07480" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative enzyme" /protein_id="NP_388629.1" /db_xref="EnsemblGenomes-Gn:BSU07480" /db_xref="EnsemblGenomes-Tr:CAB12577" /db_xref="InterPro:IPR005532" /db_xref="InterPro:IPR016187" /db_xref="SubtiList:BG12958" /db_xref="UniProtKB/Swiss-Prot:O34722" /translation="MTLLMQDHKSIYNKDIEILIEVEELITSVPENKKNDFKSLIDNR IMTLLNKIQHPVAAENVFGMCIAYPNTYIRYRLIDFVEKWVPYFSAVETIINLTQDPD DLVSFKAMDVCANHKIEESVAYLSSIIDDVRESISYPKKPVGLGAQKVLSTLLDIFGV EKHEELVMLKNYFDQNGILPNNFDFEEKIPQSLIEEFEKTEEDGMILIPGGFFEFGLN ENEIPDKTFNWKDAVPRQKVWLPPFFIDKYPVTNKDYDIFTEFIEENGHIFCHPNEPQ NKQHRRNTYWDDRYLDNHPVTGIDFYDAFAYARYKGKELPTEFQWEKAARGEKGNVWP WGDKFDPAKVQYAGSLYNEPITSLKSWRENLLKAHADKELNHLTSDIFEQNGESPYGV CGMIGGTWEWTRSELKTKRAFHPIFENVPFNSVNSFAVLKGGSFFSHPGLMFPSFRAK DIPFCRHNEMGIRCVKNIPVYKIRESINGPITNKAIY*" gene 820867..822330 /gene="yfmG" /locus_tag="BSU_07480" /old_locus_tag="BSU07480" S_feature complement(821232..822902) /Source="Nicolas_S_feature" /locus_tag="new_821232_822902_c" /HighExp="H2O2, C30, Salt, Lbstat, dia15, LPhT, dia5, Paraq, HiOs, Diami" /AntisenseName="yfmG" /AntisenseCor="-0.58045119682782798" /AntisenseRegPval="-24.9" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.998, 1" /TUlongSig="SigA" /TUlongPSig="0.996" /label="S255" S_feature 822331..822824 /Source="Nicolas_S_feature" /locus_tag="new_822331_822824" /HighExp="LoTm, T0.0H, T-1.40H, T-0.40H, T-2.40H, T-1.10H, Pyr, T-3.40H, SMMPr, T3.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S256" promotor_-35 822812..822817 /Source="Nicolas_upshift_promotors" /id="U568" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.982017982017982" /psig="0.982017982017982" /xcortree=758 /SigmaFactorBS="aaaagagtatctcgtatagaacataagaagaatgacgagttt tttaAGATTAtcatcaattatgtgaGAATAAAATATTATAAGGGaaaatgaaggctgt c" /listShort="S257" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 822826..826091 /Source="Nicolas_S_feature" /locus_tag="new_822826_826091" /HighExp="LoTm, Pyr, B36, T3.30H, T2.0H, T-0.40H, T2.30H, B60, T4.0H, T3.0H" /AntisenseName="yfmE" /AntisenseCor="-0.61640022790163695" /AntisenseRegPval="-28.8" /CDS_PredictionProba="NA" /TUshortSig="SigEF, SigA" /TUshortPSig="0.982, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S257" upshifts 822826 /Source="Nicolas_upshifts" /id="U568" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.982017982017982" /psig="0.982017982017982" /xcortree=758 /SigmaFactorBS="aaaagagtatctcgtatagaacataagaagaatgacgagttt tttaAGATTAtcatcaattatgtgaGAATAAAATATTATAAGGGaaaatgaaggctgt c" /listShort="S257" /GFF_Attribute="listLong" promotor_-10 822833..822851 /Source="Nicolas_upshift_promotors" /id="U568" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.982017982017982" /psig="0.982017982017982" /xcortree=758 /SigmaFactorBS="aaaagagtatctcgtatagaacataagaagaatgacgagttt tttaAGATTAtcatcaattatgtgaGAATAAAATATTATAAGGGaaaatgaaggctgt c" /listShort="S257" /GFF_Attribute="listLong" /label="promotor_-10" CDS complement(822903..823703) /gene="fecF" /locus_tag="BSU_07490" /old_locus_tag="BSU07490" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:16672620, 22194458" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16672620, 22194458; Product type t: transporter" /codon_start=1 /transl_table=11 /product="iron-dicitrate ABC transporter (ATP-binding protein)" /protein_id="NP_388630.1" /db_xref="EnsemblGenomes-Gn:BSU07490" /db_xref="EnsemblGenomes-Tr:CAB12578" /db_xref="GOA:O34510" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG12957" /db_xref="UniProtKB/Swiss-Prot:O34510" /translation="MGKLAADQLTLSYDSTVIIDGVDLKIEEGKITALIGANGCGKST ILKSLARLMAPKSGTVLLEGKDIHRQPSKEVAKKLAILPQSPQAPEGLTVEELCYFGR HPHKKLLSKHTQEDHDMVEWALEATGMIELKDRTLDALSGGQRQRAWISMALAQGTDL LLLDEPTTYLDISHQIEVLELLKKLNRDHGRTVVMVLHDLNQAAQYADYLISVLDGKI YNAGTPEDVFTQPFFREVFGLECCIMRSPIDQKPMCLPTGLCPKLRAK*" gene complement(822903..823703) /gene="fecF" /locus_tag="BSU_07490" /old_locus_tag="BSU07490" CDS complement(823716..824717) /gene="fecE" /locus_tag="BSU_07500" /old_locus_tag="BSU07500" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15849754, 16672620, 16850406, 22194458" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15849754, 16672620, 16850406, 22194458; Product type t: transporter" /codon_start=1 /transl_table=11 /product="iron-dicitrate ABC transporter (permease)" /protein_id="NP_388631.1" /db_xref="EnsemblGenomes-Gn:BSU07500" /db_xref="EnsemblGenomes-Tr:CAB12579" /db_xref="GOA:O34832" /db_xref="InterPro:IPR000522" /db_xref="InterPro:IPR035568" /db_xref="SubtiList:BG12956" /db_xref="UniProtKB/Swiss-Prot:O34832" /translation="MKKTTRKQKRPLLAILILAVILIVLSVISIGIGALYISPDAVVT NLLGLDHSFEFIIQQYRLPRIILAILAGAGLAAAGAILQGVIRNPLASPDVVGISKGS GLAAMAVILIFPESPVYVLPFSAFAGAAIIAVLLLMIARKKSIQPSSLALSGIALGAV CHAGMQYMMVKFPGDVNAALIWLTGSLWGRNWEEVKLLAPWLLILFPIVCILIPKLDL MSLGDELAQGLGENANRLRFILIFTAVALAGSCVAVVGSIGFIGLLAPHIARRLTGEK AKYLLPASALIGAIILLIADTLGRGIMPPVEIPAGILTAVIGAPYFLYLLKFEARKQ* " gene complement(823716..824717) /gene="fecE" /locus_tag="BSU_07500" /old_locus_tag="BSU07500" promotor_-10 complement(824303..824322) /Source="Nicolas_upshift_promotors" /id="U569" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.954045954045954" /psig="0.998001998001998" /xcortree=2068 /SigmaFactorBS="gagtcgccggtatacgtgcttccgttctccgCATTTGCCgga gccgccattatTGCTGTACTATTATTAATGAtagcccgaaaaaagagcattcagccct c" /listShort="yfmF, S255" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(824315) /Source="Nicolas_upshifts" /id="U569" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.954045954045954" /psig="0.998001998001998" /xcortree=2068 /SigmaFactorBS="gagtcgccggtatacgtgcttccgttctccgCATTTGCCgga gccgccattatTGCTGTACTATTATTAATGAtagcccgaaaaaagagcattcagccct c" /listShort="yfmF, S255" /GFF_Attribute="listLong" promotor_-35 complement(824337..824344) /Source="Nicolas_upshift_promotors" /id="U569" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.954045954045954" /psig="0.998001998001998" /xcortree=2068 /SigmaFactorBS="gagtcgccggtatacgtgcttccgttctccgCATTTGCCgga gccgccattatTGCTGTACTATTATTAATGAtagcccgaaaaaagagcattcagccct c" /listShort="yfmF, S255" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(824714..825715) /gene="fecD" /locus_tag="BSU_07510" /old_locus_tag="BSU07510" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:12354229, 15849754, 16672620, 16850406, 22194458" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12354229, 15849754, 16672620, 16850406, 22194458; Product type t : transporter" /codon_start=1 /transl_table=11 /product="iron-dicitrate ABC transporter (permease)" /protein_id="NP_388632.1" /db_xref="EnsemblGenomes-Gn:BSU07510" /db_xref="EnsemblGenomes-Tr:CAB12580" /db_xref="GOA:O34933" /db_xref="InterPro:IPR000522" /db_xref="InterPro:IPR035568" /db_xref="SubtiList:BG12955" /db_xref="UniProtKB/Swiss-Prot:O34933" /translation="MYHSAKRRSSSRLMMFIIALIIFIFGLGLNLSVGASDISIIDSL KYLFVWDGSKEQLIISTLRLPRTLIGVFVGASLAVAGALMQAMTRNPLASPQIFGVNA GASLFVVASLVILPASPYSSVIFAFAGAAAGGAIVYMIASSGGMTPVKLALSGMAVHL FLSSMTQAIIILNESGEDVLYWMTGAIDGSNWQDVITIAPFSVIGIGLALVFSGSVSV LGLGDETAKGLGQNMNGIRILISLIILILSGASVAVAGPIGFVGLLVPHIVRKLIGEH YQYVLPFSALFGAILLVYADVLARWIAFPYESPVGIVTAIIGTPFFLYLARKGRNLK* " gene complement(824714..825715) /gene="fecD" /locus_tag="BSU_07510" /old_locus_tag="BSU07510" misc_feature complement(825785..825804) /Source="Nicolas_upshift_promotors" /id="U570" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.664335664335664" /psig="0.701298701298701" /xcortree=1492 /SigmaFactorBS="acacttggacaagattcagaggcatcaagtctagtgaaacaa gcgccaaagatgtgcttaaaAAAGTGTATAATAAATAGGAcaaatgagaagcgagggg a" /listShort="yfmD" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" CDS complement(825787..826734) /gene="fecC" /locus_tag="BSU_07520" /old_locus_tag="BSU07520" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:12354229, 15849754, 16672620, 16850406, 22194458" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12354229, 15849754, 16672620, 16850406, 22194458; Product type t : transporter" /codon_start=1 /transl_table=11 /product="iron-dicitrate ABC transporter (binding lipoprotein)" /protein_id="NP_388633.1" /db_xref="EnsemblGenomes-Gn:BSU07520" /db_xref="EnsemblGenomes-Tr:CAB12581" /db_xref="GOA:O34348" /db_xref="InterPro:IPR002491" /db_xref="SubtiList:BG12954" /db_xref="UniProtKB/Swiss-Prot:O34348" /translation="MRTYSNKLIAIMSVLLLACLIVSGCSSSQNNNGSGKSESKDSRV IHDEEGKTTVSGTPKRVVVLELSFLDAVHNLGITPVGIADDNKKDMIKKLVGSSIDYT SVGTRSEPNLEVISSLKPDLIIADAERHKNIYKQLKKIAPTIELKSREATYDETIDSF TTIAKALNKEDEGKEKLAEHKKVINDLKAELPKDENRNIVLGVARADSFQLHTSSSYD GEIFKMLGFTHAVKSDNAYQEVSLEQLSKIDPDILFISANEGKTIVDEWKTNPLWKNL KAVKNGQVYDADRDTWTRFRGIKSSETSAKDVLKKVYNK*" gene complement(825787..826734) /gene="fecC" /locus_tag="BSU_07520" /old_locus_tag="BSU07520" downshifts complement(825806) /Source="Nicolas_upshifts" /id="D374" /incds=0 /nref=41 /ntot=211 /MaxReadThrough="4.92983" /MaxDrop="4.53674" /score="-3.64310934" /energy="-13.9" /TU="U570,U573,U574" /idTUdmin="U570" /TUdmin="-198" /isTUend="FALSE" upshifts complement(825806) /Source="Nicolas_upshifts" /id="U570" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.664335664335664" /psig="0.701298701298701" /xcortree=1492 /SigmaFactorBS="acacttggacaagattcagaggcatcaagtctagtgaaacaa gcgccaaagatgtgcttaaaAAAGTGTATAATAAATAGGAcaaatgagaagcgagggg a" /listShort="yfmD" /GFF_Attribute="listLong" promotor_-35 826061..826066 /Source="Nicolas_upshift_promotors" /id="U571" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=1066 /SigmaFactorBS="atctgacttcacagcgtgtgtaaagcctAGCATTttaaagat ttctccgTCATAGGATGATGATGTATgaagctggaaggaatccgctcttgcaacgccg a" /listShort="S258, S259" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 826082..826100 /Source="Nicolas_upshift_promotors" /id="U571" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=1066 /SigmaFactorBS="atctgacttcacagcgtgtgtaaagcctAGCATTttaaagat ttctccgTCATAGGATGATGATGTATgaagctggaaggaatccgctcttgcaacgccg a" /listShort="S258, S259" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 826093..826718 /Source="Nicolas_S_feature" /locus_tag="new_826093_826718" /HighExp="LoTm, B36, S5, S6, S4, S7, S8, S3, BT, B60" /AntisenseName="yfmC" /AntisenseCor="-0.52042999587715499" /AntisenseRegPval="-19.3" /CDS_PredictionProba="NA" /TUshortSig="SigEF, SigA" /TUshortPSig="0.997, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S258" upshifts 826093 /Source="Nicolas_upshifts" /id="U571" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=1066 /SigmaFactorBS="atctgacttcacagcgtgtgtaaagcctAGCATTttaaagat ttctccgTCATAGGATGATGATGTATgaagctggaaggaatccgctcttgcaacgccg a" /listShort="S258, S259" /GFF_Attribute="listLong" misc_feature 826714..826733 /Source="Nicolas_upshift_promotors" /id="U572" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.905094905094905" /psig="0.997002997002997" /xcortree=1855 /SigmaFactorBS="acagccggatacaatgaggcaggcgagcaataaaacactcat gatggcaatcaaCTTGTTAGAATAGGTGCGCAtgtcattcttccttttttcagattta g" /listShort="S259" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" S_feature 826720..827251 /Source="Nicolas_S_feature" /locus_tag="new_826720_827251" /HighExp="LoTm, B36, S5, S4, S7, S6, S8, B60, S3, BT" /AntisenseName="yfmB" /AntisenseCor="-6.4915194654100006E-2" /AntisenseRegPval="-0.5" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigEF, SigA" /TUshortPSig="0.997, 0.997, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S259" upshifts 826720 /Source="Nicolas_upshifts" /id="U572" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.905094905094905" /psig="0.997002997002997" /xcortree=1855 /SigmaFactorBS="acagccggatacaatgaggcaggcgagcaataaaacactcat gatggcaatcaaCTTGTTAGAATAGGTGCGCAtgtcattcttccttttttcagattta g" /listShort="S259" /GFF_Attribute="listLong" promotor_-10 complement(826776..826795) /Source="Nicolas_upshift_promotors" /id="U573" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.645354645354645" /psig=1 /xcortree=2102 /SigmaFactorBS="aaaacgcagctttctttactaaaaaaaTATTGACAtgataag ccatgcTATTATAGTGTTACATGTGAtaatgattctcattactaaatctgaaaaaagg a" /listShort="yfmC, yfmD, yfmE, yfmF, S255" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(826783) /Source="Nicolas_upshifts" /id="U573" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.645354645354645" /psig=1 /xcortree=2102 /SigmaFactorBS="aaaacgcagctttctttactaaaaaaaTATTGACAtgataag ccatgcTATTATAGTGTTACATGTGAtaatgattctcattactaaatctgaaaaaagg a" /listShort="yfmC, yfmD, yfmE, yfmF, S255" /GFF_Attribute="listLong" promotor_-35 complement(826809..826816) /Source="Nicolas_upshift_promotors" /id="U573" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.645354645354645" /psig=1 /xcortree=2102 /SigmaFactorBS="aaaacgcagctttctttactaaaaaaaTATTGACAtgataag ccatgcTATTATAGTGTTACATGTGAtaatgattctcattactaaatctgaaaaaagg a" /listShort="yfmC, yfmD, yfmE, yfmF, S255" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(826843..827211) /gene="yfmB" /locus_tag="BSU_07530" /old_locus_tag="BSU07530" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 25651892" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388634.1" /db_xref="EnsemblGenomes-Gn:BSU07530" /db_xref="EnsemblGenomes-Tr:CAB12582" /db_xref="InterPro:IPR021579" /db_xref="PDB:2EUC" /db_xref="SubtiList:BG12953" /db_xref="UniProtKB/Swiss-Prot:O34626" /translation="MQYFSPEQQYNAWIVSDLVKQIFHKRAGCSPGIHELAVFAEEHF HIDIDFVFSIIMNIGDIEFALTDEIEKKLSGYLSTLLPYVTADMFETSKANAHAFLSR RHGNAAYHLFVSDDAFMRKQ*" gene complement(826843..827211) /gene="yfmB" /locus_tag="BSU_07530" /old_locus_tag="BSU07530" S_feature complement(827212..827324) /Source="Nicolas_S_feature" /locus_tag="new_827212_827324_c" /HighExp="Etha, BC, Sw, M9-stat, T3.30H, T1.30H, T3.0H, T5.0H, T2.30H, T2.0H" /AntisenseName="yfmA" /AntisenseCor="5.8024036419347599E-2" /AntisenseRegPval="-0.5" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.996" /TUlongSig="NA" /TUlongPSig="NA" /label="S260" promotor_-10 complement(827313..827332) /Source="Nicolas_upshift_promotors" /id="U574" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.967032967032967" /psig="0.996003996003996" /xcortree=128 /SigmaFactorBS="gaacattgaagagaaaaacaggaggaatggtagTAGCTATTt gttttccgtcCATGGTAAAGTGATAGGAACgggacctattttcagaaaaatcaaaatt a" /listShort="S260, yfmB, yfmC, yfmD" /listLong="yfmE, yfmF, S255" /label="promotor_-10" upshifts complement(827324) /Source="Nicolas_upshifts" /id="U574" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.967032967032967" /psig="0.996003996003996" /xcortree=128 /SigmaFactorBS="gaacattgaagagaaaaacaggaggaatggtagTAGCTATTt gttttccgtcCATGGTAAAGTGATAGGAACgggacctattttcagaaaaatcaaaatt a" /listShort="S260, yfmB, yfmC, yfmD" /listLong="yfmE, yfmF, S255" promotor_-35 complement(827344..827351) /Source="Nicolas_upshift_promotors" /id="U574" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.967032967032967" /psig="0.996003996003996" /xcortree=128 /SigmaFactorBS="gaacattgaagagaaaaacaggaggaatggtagTAGCTATTt gttttccgtcCATGGTAAAGTGATAGGAACgggacctattttcagaaaaatcaaaatt a" /listShort="S260, yfmB, yfmC, yfmD" /listLong="yfmE, yfmF, S255" /label="promotor_-35" promotor_-35 827392..827398 /Source="Nicolas_upshift_promotors" /id="U575" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=221 /SigmaFactorBS="ctaccattcctcctgtttttctcttcaatgttctggaatcTG TTTCAggtacagacgatcGGGTATGAAAGAAATATAGaaaacatgaaggaggaatatc g" /listShort="yflT, S261, pel, yflS" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 827412..827430 /Source="Nicolas_upshift_promotors" /id="U575" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=221 /SigmaFactorBS="ctaccattcctcctgtttttctcttcaatgttctggaatcTG TTTCAggtacagacgatcGGGTATGAAAGAAATATAGaaaacatgaaggaggaatatc g" /listShort="yflT, S261, pel, yflS" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 827412 /Source="Nicolas_upshifts" /id="U575" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=221 /SigmaFactorBS="ctaccattcctcctgtttttctcttcaatgttctggaatcTG TTTCAggtacagacgatcGGGTATGAAAGAAATATAGaaaacatgaaggaggaatatc g" /listShort="yflT, S261, pel, yflS" /GFF_Attribute="listLong" CDS 827455..827802 /gene="yflT" /locus_tag="BSU_07550" /old_locus_tag="BSU07550" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 12089032; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="heat stress induced protein" /protein_id="NP_388636.1" /db_xref="EnsemblGenomes-Gn:BSU07550" /db_xref="EnsemblGenomes-Tr:CAB12584" /db_xref="InterPro:IPR025889" /db_xref="SubtiList:BG19020" /db_xref="UniProtKB/Swiss-Prot:P80241" /translation="MKPVVKEYTNDEQLMKDVEELQKMGVAKEDVYVLAHDDDRTERL ADNTNANTIGAKETGFKHAVGNIFNKKGDELRNKIHEIGFSEDEAAQFEKRLDEGKVL LFVTDNEKVKAWA*" gene 827455..827802 /gene="yflT" /locus_tag="BSU_07550" /old_locus_tag="BSU07550" downshifts complement(827456) /Source="Nicolas_upshifts" /id="D375" /incds=0 /nref=6 /ntot=28 /MaxReadThrough="1.00082" /MaxDrop="4.87687" /score="-3.31058364" /energy="-3.6" /TU="NA" /idTUdmin="U570" /TUdmin="-1848" /isTUend="FALSE" downshifts 827798 /Source="Nicolas_upshifts" /id="D376" /incds=0 /nref=56 /ntot=197 /MaxReadThrough="6.41566" /MaxDrop="7.61596" /score="-1.88723414" /energy="-5.6" /TU="U575" /idTUdmin="U567" /TUdmin=0 /isTUend="TRUE" S_feature 827843..827923 /Source="Nicolas_S_feature" /locus_tag="new_827843_827923" /HighExp="Etha, Salt, B36, LoTm, Heat, B60, M9-stat, S8, C30, LPhT" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigB" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S261" misc_feature 827924..827943 /Source="Nicolas_upshift_promotors" /id="U576" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.576423576423576" /psig="0.972027972027972" /xcortree=3242 /SigmaFactorBS="gattttgcagaatgccgcaataggatagcggaacattttcgg ttctgaatgtccctcaaTTTGCTATTATATTTTTGTGataaattggaataaaatctca c" /listShort="pel" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 827925 /Source="Nicolas_upshifts" /id="U576" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.576423576423576" /psig="0.972027972027972" /xcortree=3242 /SigmaFactorBS="gattttgcagaatgccgcaataggatagcggaacattttcgg ttctgaatgtccctcaaTTTGCTATTATATTTTTGTGataaattggaataaaatctca c" /listShort="pel" /GFF_Attribute="listLong" CDS 827993..829255 /gene="pelA" /locus_tag="BSU_07560" /old_locus_tag="BSU07560" /EC_number="4.2.2.2" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:8262178, 12823818, 27447541" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8262178, 12823818, 27447541; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="pectate lyase" /protein_id="NP_388637.1" /db_xref="EnsemblGenomes-Gn:BSU07560" /db_xref="EnsemblGenomes-Tr:CAB12585" /db_xref="GOA:P39116" /db_xref="InterPro:IPR002022" /db_xref="InterPro:IPR011050" /db_xref="InterPro:IPR012334" /db_xref="PDB:1BN8" /db_xref="PDB:2BSP" /db_xref="PDB:2NZM" /db_xref="PDB:2O04" /db_xref="PDB:2O0V" /db_xref="PDB:2O0W" /db_xref="PDB:2O17" /db_xref="PDB:2O1D" /db_xref="PDB:3KRG" /db_xref="PDB:5AMV" /db_xref="SubtiList:BG10840" /db_xref="UniProtKB/Swiss-Prot:P39116" /translation="MKKVMLATALFLGLTPAGANAADLGHQTLGSNDGWGAYSTGTTG GSKASSSNVYTVSNRNQLVSALGKETNTTPKIIYIKGTIDMNVDDNLKPLGLNDYKDP EYDLDKYLKAYDPSTWGKKEPSGTQEEARARSQKNQKARVMVDIPANTTIVGSGTNAK VVGGNFQIKSDNVIIRNIEFQDAYDYFPQWDPTDGSSGNWNSQYDNITINGGTHIWID HCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYNYYHDHDKSSIFGSSD SKTSDDGKLKITLHHNRYKNIVQRAPRVRFGQVHVYNNYYEGSTSSSSYPFSYAWGIG KSSKIYAQNNVIDVPGLSAAKTISVFSGGTALYDSGTLLNGTQINASAANGLSSSVGW TPSLHGSIDASANVKSNVINQAGAGKLN*" gene 827993..829255 /gene="pelA" /locus_tag="BSU_07560" /old_locus_tag="BSU07560" downshifts 829250 /Source="Nicolas_upshifts" /id="D377" /incds=0 /nref=139 /ntot=203 /MaxReadThrough="3.61256" /MaxDrop="5.92635" /score="1.82127533" /energy="-8.2" /TU="U575,U576" /idTUdmin="U576" /TUdmin="-176" /isTUend="FALSE" promotor_-35 829308..829311 /Source="Nicolas_upshift_promotors" /id="U577" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.879120879120879" /psig="0.984015984015984" /xcortree=1756 /SigmaFactorBS="gggtgctaacctttgtgttttttaattaattaaaATGTttat taacttagttAAGGAGTAGAATGGAAAAGGggatcggaaaacaagtatataggaggag a" /listShort="yflS" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 829326..829345 /Source="Nicolas_upshift_promotors" /id="U577" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.879120879120879" /psig="0.984015984015984" /xcortree=1756 /SigmaFactorBS="gggtgctaacctttgtgttttttaattaattaaaATGTttat taacttagttAAGGAGTAGAATGGAAAAGGggatcggaaaacaagtatataggaggag a" /listShort="yflS" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 829334 /Source="Nicolas_upshifts" /id="U577" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.879120879120879" /psig="0.984015984015984" /xcortree=1756 /SigmaFactorBS="gggtgctaacctttgtgttttttaattaattaaaATGTttat taacttagttAAGGAGTAGAATGGAAAAGGggatcggaaaacaagtatataggaggag a" /listShort="yflS" /GFF_Attribute="listLong" CDS 829382..830818 /gene="maeS" /locus_tag="BSU_07570" /old_locus_tag="BSU07570" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:12949159, 15849754, 16850406, 25651892, 28436820" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12949159, 15849754, 16850406, 25651892, 28436820; Product type t : transporter" /codon_start=1 /transl_table=11 /product="malate (2-oxoglutarate) transporter" /protein_id="NP_388638.1" /db_xref="EnsemblGenomes-Gn:BSU07570" /db_xref="EnsemblGenomes-Tr:CAB12586" /db_xref="GOA:O34726" /db_xref="InterPro:IPR001898" /db_xref="InterPro:IPR030676" /db_xref="SubtiList:BG12951" /db_xref="UniProtKB/Swiss-Prot:O34726" /translation="MASEKDAGKQSAVKLVPLLITVAVGLIIWFIPAPSGLEPKAWHL FAIFVATIIGFISKPLPMGAIAIFALAVTALTGTLSIEDTLSGFGNKTIWLIVIAFFI SRGFIKTGLGARISYVFVQKFGKKTLGLSYSLLFSDLILSPAIPSNTARAGGIIFPII RSLSETFGSSPANGTERKIGAFLLKTGFQGNLITSAMFLTAMAANPLIAKLAHDVAGV DLTWTSWAIAAIVPGLVSLIITPLVIYKLYPPEIKETPDAAKIATEKLKEMGPFKKSE LSMVIVFLLVLVLWIFGGSFNIDATTTALIGLAVLLLSQVLTWDDIKKEQGAWDTLTW FAALVMLANFLNELGMVSWFSNAMKSSVSGFSWIVAFIILIVVYYYSHYFFASATAHI SAMYSAFLAVVVAAGAPPLLAALSLAFISNLFGSTTHYGSGAAPVFFGAGYIPQGKWW SIGFILSIVHIIVWLVIGGLWWKVLGIW*" gene 829382..830818 /gene="maeS" /locus_tag="BSU_07570" /old_locus_tag="BSU07570" downshifts 830810 /Source="Nicolas_upshifts" /id="D378" /incds=0 /nref=56 /ntot=132 /MaxReadThrough="2.39993" /MaxDrop="5.36125" /score="40.3051497" /energy="-9.7" /TU="NA" /idTUdmin="U577" /TUdmin="-2" /isTUend="TRUE" misc_feature 830909..830928 /Source="Nicolas_upshift_promotors" /id="U578" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.997002997002997" /psig=1 /xcortree=2939 /SigmaFactorBS="tccttcgtaagaaaatggattttgaaaaatgagaaaattccc tgtgaaaAATGGTATGATCTAGGTAGAaaggacggctggtgctgtggtgaaaaagcgg t" /listShort="citS, citT, yflP" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 830920 /Source="Nicolas_upshifts" /id="U578" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.997002997002997" /psig=1 /xcortree=2939 /SigmaFactorBS="tccttcgtaagaaaatggattttgaaaaatgagaaaattccc tgtgaaaAATGGTATGATCTAGGTAGAaaggacggctggtgctgtggtgaaaaagcgg t" /listShort="citS, citT, yflP" /GFF_Attribute="listLong" CDS 830945..832573 /gene="citS" /locus_tag="BSU_07580" /old_locus_tag="BSU07580" /function="16.12: Sense" /experiment="publication(s) with functional evidences, PMID:10972810, 11717295, 12949159, 16842348" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10972810, 11717295, 12949159, 16842348; Product type rc: receptor" /codon_start=1 /transl_table=11 /product="two-component sensor histidine kinase" /protein_id="NP_388639.1" /db_xref="EnsemblGenomes-Gn:BSU07580" /db_xref="EnsemblGenomes-Tr:CAB12587" /db_xref="GOA:O34427" /db_xref="InterPro:IPR003594" /db_xref="InterPro:IPR004358" /db_xref="InterPro:IPR005467" /db_xref="InterPro:IPR016120" /db_xref="InterPro:IPR029151" /db_xref="InterPro:IPR035965" /db_xref="InterPro:IPR036890" /db_xref="SubtiList:BG12576" /db_xref="UniProtKB/Swiss-Prot:O34427" /translation="MVKKRFHFSLQTKIMGLIAALLVFVIGVLTITLAVQHTQGERRQ AEQLAVQTARTISYMPPVKELIERKDGHAAQTQEVIEQMKEQTGAFAIYVLNEKGDIR SASGKSGLKKLERSREILFGGSHVSETKADGRRVIRGSAPIIKEQKGYSQVIGSVSVD FLQTETEQSIKKHLRNLSVIAVLVLLLGFIGAAVLAKSIRKDTLGLEPHEIAALYRER NAMLFAIREGIIATNREGVVTMMNVSAAEMLKLPEPVIHLPIDDVMPGAGLMSVLEKG EMLPNQEVSVNDQVFIINTKVMNQGGQAYGIVVSFREKTELKKLIDTLTEVRKYSEDL RAQTHEFSNKLYAILGLLELGEYDEAIDLIKEEYAIQNEQHDLLFHNIHSQQVQAILL GKISKASEKKVKLVIDENSSLAPLPAHIGLSHLITIIGNLIDNAFEAVAEQSVKEVLF FITDMGHDIVIEVSDTGPGVPPEKIEAVFERGYSSKGMRRGYGLANVKDSVRELGGWI ELANQKTGGAVFTVFIPKEKQRGNPFDSHRDCGG*" gene 830945..832573 /gene="citS" /locus_tag="BSU_07580" /old_locus_tag="BSU07580" CDS 832545..833225 /gene="citT" /locus_tag="BSU_07590" /old_locus_tag="BSU07590" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:10972810, 11717295, 12949159, 16842348" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10972810, 11717295, 12949159, 16842348; Product type r: regulator" /codon_start=1 /transl_table=11 /product="two-component response regulator" /protein_id="NP_388640.1" /db_xref="EnsemblGenomes-Gn:BSU07590" /db_xref="EnsemblGenomes-Tr:CAB12588" /db_xref="GOA:O34534" /db_xref="InterPro:IPR001789" /db_xref="InterPro:IPR011006" /db_xref="InterPro:IPR013196" /db_xref="InterPro:IPR024187" /db_xref="InterPro:IPR028141" /db_xref="InterPro:IPR036388" /db_xref="SubtiList:BG12577" /db_xref="UniProtKB/Swiss-Prot:O34534" /translation="MIHIAIAEDDFRVAQIHERLIKQLDGFKIIGKAANAKETLALLK EHKADLLLLDIYMPDELGTALIPDIRSRFPEVDIMIITAATETRHLQEALRAGIAHYL IKPVTADKFRQVLLQYKEKRKLLMSQPEVSQSMIDHIFGNGVKTALPAEDLPTGINSI TLRKIKEALQTASEGLTAEELGEKMGASRTTARRYAEYLVSKEEARAELEYGIIGRPE RKYYLAAD*" gene 832545..833225 /gene="citT" /locus_tag="BSU_07590" /old_locus_tag="BSU07590" CDS 833228..834187 /gene="yflP" /locus_tag="BSU_07600" /old_locus_tag="BSU07600" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 11029430; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative tricarboxylate transporter component" /protein_id="NP_388641.2" /db_xref="EnsemblGenomes-Gn:BSU07600" /db_xref="EnsemblGenomes-Tr:CAB12589" /db_xref="GOA:O34439" /db_xref="InterPro:IPR005064" /db_xref="SubtiList:BG12950" /db_xref="UniProtKB/Swiss-Prot:O34439" /translation="MKKSIILLNILLIFMQGDIRQAAAPRLPDGPIEIVVPAEPSGGW DVTAQAIQSVLRQKQIVKDDVHIVYKSGGGGEKGWKYVNKSSKQTISMTSSLILSNDL LGQSKLKMSDFTPLAILSKEWQTVALPKGSALTNGKDVLNEINMHPGKVRIGFAPGFG NDDQLSFVRAADMYGIDPFDIQFSQYDSSEQLIQALIRHEIEAASMTLSEAKPYERNG DITLAAVTSDKRLPGFPNVPTWKEQGIPFVFSHWRGILGPKNMSEEEISYWDQALKKV TSSPEWKRKINEQDWESFYLNSRETKRFLEEQSAFYQSIMTGN*" gene 833228..834187 /gene="yflP" /locus_tag="BSU_07600" /old_locus_tag="BSU07600" downshifts 834156 /Source="Nicolas_upshifts" /id="D379" /incds=0 /nref=76 /ntot=211 /MaxReadThrough="1.1681" /MaxDrop="6.31244" /score="10.4510496" /energy="-6.5" /TU="NA" /idTUdmin="U578" /TUdmin=0 /isTUend="TRUE" promotor_-35 834279..834286 /Source="Nicolas_upshift_promotors" /id="U579" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.606393606393606" /psig="0.96003996003996" /xcortree=565 /SigmaFactorBS="aaaaaattaaaaatacaaaaaaaccaaatTATTTACTtgcgg ttggtttTCCCATACGATGGCAAAAAGgcaagacaaaaaggggagtaagggagaaaaa a" /listShort="S262, citM" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 834299..834318 /Source="Nicolas_upshift_promotors" /id="U579" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.606393606393606" /psig="0.96003996003996" /xcortree=565 /SigmaFactorBS="aaaaaattaaaaatacaaaaaaaccaaatTATTTACTtgcgg ttggtttTCCCATACGATGGCAAAAAGgcaagacaaaaaggggagtaagggagaaaaa a" /listShort="S262, citM" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 834310..834382 /Source="Nicolas_S_feature" /locus_tag="new_834310_834382" /HighExp="M9-stat, SMMPr, SMM, T0.0H, LoTm, T1.0H, Pyr, T1.30H, Cold, T2.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.96" /TUlongSig="NA" /TUlongPSig="NA" /label="S262" upshifts 834310 /Source="Nicolas_upshifts" /id="U579" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.606393606393606" /psig="0.96003996003996" /xcortree=565 /SigmaFactorBS="aaaaaattaaaaatacaaaaaaaccaaatTATTTACTtgcgg ttggtttTCCCATACGATGGCAAAAAGgcaagacaaaaaggggagtaagggagaaaaa a" /listShort="S262, citM" /GFF_Attribute="listLong" CDS 834383..835684 /gene="citM" /locus_tag="BSU_07610" /old_locus_tag="BSU07610" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:12427932, 12533460, 12906362, 12949159, 15849754, 16842348, 16850406, 24415722, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12427932, 12533460, 12906362, 12949159, 15849754, 16842348, 16850406, 24415722, 22720735; Product type t: transporter" /codon_start=1 /transl_table=11 /product="transporter of divalent metal ions/citrate complexes" /protein_id="NP_388642.1" /db_xref="EnsemblGenomes-Gn:BSU07610" /db_xref="EnsemblGenomes-Tr:CAB12590" /db_xref="GOA:P55069" /db_xref="InterPro:IPR004680" /db_xref="InterPro:IPR014738" /db_xref="SubtiList:BG11832" /db_xref="UniProtKB/Swiss-Prot:P55069" /translation="MLAILGFLMMLVFMALIMTKRLSVLTALVLTPIVFALIAGFGFT EVGDMMISGIQQVAPTAVMIMFAILYFGIMIDTGLFDPMVGKILSMVKGDPLKIVVGT AVLTMLVALDGDGSTTYMITTSAMLPLYLLLGIRPIILAGIAGVGMGIMNTIPWGGAT PRAASALGVDPAELTGPMIPVIASGMLCMVAVAYVLGKAERKRLGVIELKQPANANEP AAAVEDEWKRPKLWWFNLLLTLSLIGCLVSGKVSLTVLFVIAFCIALIVNYPNLEHQR QRIAAHSSNVLAIGSMIFAAGVFTGILTGTKMVDEMAISLVSMIPEQMGGLIPAIVAL TSGIFTFLMPNDAYFYGVLPILSETAVAYGVDKVEIARASIIGQPIHMLSPLVPSTHL LVGLVGVSIDDHQKFALKWAVLAVIVMTAIALLIGAISISV*" gene 834383..835684 /gene="citM" /locus_tag="BSU_07610" /old_locus_tag="BSU07610" promotor_-35 835681..835687 /Source="Nicolas_upshift_promotors" /id="U580" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=920 /SigmaFactorBS="ggctatcgctctattgatcggtgcgatctctatttccgtATG ATAAttcaggcgtaatgACACACACTAACggcatacaacattccggaggtgtcattat g" /listShort="yflN" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 835701..835712 /Source="Nicolas_upshift_promotors" /id="U580" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=920 /SigmaFactorBS="ggctatcgctctattgatcggtgcgatctctatttccgtATG ATAAttcaggcgtaatgACACACACTAACggcatacaacattccggaggtgtcattat g" /listShort="yflN" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 835702 /Source="Nicolas_upshifts" /id="U580" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=920 /SigmaFactorBS="ggctatcgctctattgatcggtgcgatctctatttccgtATG ATAAttcaggcgtaatgACACACACTAACggcatacaacattccggaggtgtcattat g" /listShort="yflN" /GFF_Attribute="listLong" CDS 835740..836534 /gene="yflN" /locus_tag="BSU_07620" /old_locus_tag="BSU07620" /EC_number="3.-.-.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10972810, 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative metal-dependent hydrolase" /protein_id="NP_388643.1" /db_xref="EnsemblGenomes-Gn:BSU07620" /db_xref="EnsemblGenomes-Tr:CAB12591" /db_xref="GOA:O34409" /db_xref="InterPro:IPR001279" /db_xref="InterPro:IPR036866" /db_xref="SubtiList:BG12949" /db_xref="UniProtKB/Swiss-Prot:O34409" /translation="MSDPYMPLTSVRSGAGFEAAKGVHGLTVQIANVYFIQLPSEPHS FVLIDAGMPQSAGVIVNEAKQRFGEGFQLKAIILTHGHFDHIGAIEEILEHWDVPVYI HSREMPYVTGKEDYPPARPDSKSGLVAKLSPLFPRHSIDISSHVQALPEDGSVPFLDE WMWIATPGHTPGHISLFRDDGRVLVAGDAVITVEQEKMADVLIQKQELHGPPAYFTPD TETAAESILKLAGLEPEALLTGHGIPMTGKNFRSDLTELANRLSSI*" gene 835740..836534 /gene="yflN" /locus_tag="BSU_07620" /old_locus_tag="BSU07620" downshifts 836510 /Source="Nicolas_upshifts" /id="D380" /incds=0 /nref=2 /ntot=25 /MaxReadThrough="0.0114999999999998" /MaxDrop="3.05232" /score="38.3109333" /energy="-11.8" /TU="NA" /idTUdmin="U580" /TUdmin=132 /isTUend="FALSE" promotor_-35 836589..836592 /Source="Nicolas_upshift_promotors" /id="U581" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.509490509490509" /psig="0.995004995004995" /xcortree=2378 /SigmaFactorBS="attgttttccaggaagttgcagaaaaatcATTTgtcttgccg cttaaAAACGATACAATGAAAAGCAtgaagtgatgtgaaggggagagtttgttggaag a" /listShort="nosA, S263, yflK" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 836607..836626 /Source="Nicolas_upshift_promotors" /id="U581" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.509490509490509" /psig="0.995004995004995" /xcortree=2378 /SigmaFactorBS="attgttttccaggaagttgcagaaaaatcATTTgtcttgccg cttaaAAACGATACAATGAAAAGCAtgaagtgatgtgaaggggagagtttgttggaag a" /listShort="nosA, S263, yflK" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 836620 /Source="Nicolas_upshifts" /id="U581" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.509490509490509" /psig="0.995004995004995" /xcortree=2378 /SigmaFactorBS="attgttttccaggaagttgcagaaaaatcATTTgtcttgccg cttaaAAACGATACAATGAAAAGCAtgaagtgatgtgaaggggagagtttgttggaag a" /listShort="nosA, S263, yflK" /GFF_Attribute="listLong" CDS 836653..837744 /gene="nosA" /locus_tag="BSU_07630" /old_locus_tag="BSU07630" /EC_number="1.14.13.39" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:11856757, 12220171, 16172391, 25643072, 25826316, 26062720" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11856757, 12220171, 16172391, 25643072, 25826316, 26062720; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="nitric-oxide synthase" /protein_id="NP_388644.2" /db_xref="EnsemblGenomes-Gn:BSU07630" /db_xref="EnsemblGenomes-Tr:CAB12592" /db_xref="GOA:O34453" /db_xref="InterPro:IPR004030" /db_xref="InterPro:IPR017142" /db_xref="InterPro:IPR036119" /db_xref="PDB:1M7V" /db_xref="PDB:1M7Z" /db_xref="PDB:2AMO" /db_xref="PDB:2AN0" /db_xref="PDB:2AN2" /db_xref="PDB:2FBZ" /db_xref="PDB:2FC1" /db_xref="PDB:2FC2" /db_xref="PDB:4D3I" /db_xref="PDB:4D3J" /db_xref="PDB:4D3K" /db_xref="PDB:4D3M" /db_xref="PDB:4D3N" /db_xref="PDB:4D3O" /db_xref="PDB:4D3T" /db_xref="PDB:4D3U" /db_xref="PDB:4D3V" /db_xref="PDB:4D7H" /db_xref="PDB:4D7I" /db_xref="PDB:4D7J" /db_xref="PDB:4LWA" /db_xref="PDB:4LWB" /db_xref="PDB:4UG5" /db_xref="PDB:4UG6" /db_xref="PDB:4UG7" /db_xref="PDB:4UG8" /db_xref="PDB:4UG9" /db_xref="PDB:4UGA" /db_xref="PDB:4UGB" /db_xref="PDB:4UGC" /db_xref="PDB:4UGD" /db_xref="PDB:4UGE" /db_xref="PDB:4UGF" /db_xref="PDB:4UGG" /db_xref="PDB:4UGH" /db_xref="PDB:4UGI" /db_xref="PDB:4UGJ" /db_xref="PDB:4UGK" /db_xref="PDB:4UGL" /db_xref="PDB:4UGM" /db_xref="PDB:4UGN" /db_xref="PDB:4UGO" /db_xref="PDB:4UGP" /db_xref="PDB:4UGQ" /db_xref="PDB:4UGR" /db_xref="PDB:4UGS" /db_xref="PDB:4UGT" /db_xref="PDB:4UGU" /db_xref="PDB:4UGV" /db_xref="PDB:4UGW" /db_xref="PDB:4UGX" /db_xref="PDB:4UGY" /db_xref="PDB:4UQR" /db_xref="PDB:4UQS" /db_xref="PDB:5G65" /db_xref="PDB:5G66" /db_xref="PDB:5G67" /db_xref="PDB:5G68" /db_xref="PDB:5G69" /db_xref="PDB:5G6A" /db_xref="PDB:5G6B" /db_xref="PDB:5G6C" /db_xref="PDB:5G6D" /db_xref="PDB:5G6E" /db_xref="PDB:5G6F" /db_xref="PDB:5G6G" /db_xref="PDB:5G6H" /db_xref="PDB:5G6I" /db_xref="PDB:5G6J" /db_xref="PDB:5G6K" /db_xref="PDB:5G6L" /db_xref="PDB:5G6M" /db_xref="PDB:5G6N" /db_xref="PDB:5G6O" /db_xref="PDB:5G6P" /db_xref="PDB:5G6Q" /db_xref="SubtiList:BG12948" /db_xref="UniProtKB/Swiss-Prot:O34453" /translation="MEEKEILWNEAKAFIAACYQELGKEEEVKDRLADIKSEIDLTGS YVHTKEELEHGAKMAWRNSNRCIGRLFWNSLNVIDRRDVRTKEEVRDALFHHIETATN NGKIRPTITIFPPEEKGEKQVEIWNHQLIRYAGYESDGERIGDPASCSLTAACEELGW RGERTDFDLLPLIFRMKGDEQPVWYELPRSLVIEVPITHPDIEAFSDLELKWYGVPII SDMKLEVGGIHYNAAPFNGWYMGTEIGARNLADEKRYDKLKKVASVIGIAADYNTDLW KDQALVELNKAVLHSYKKQGVSIVDHHTAASQFKRFEEQEEEAGRKLTGDWTWLIPPI SPAATHIFHRSYDNSIVKPNYFYQDKPYE*" gene 836653..837744 /gene="nosA" /locus_tag="BSU_07630" /old_locus_tag="BSU07630" CDS complement(837735..838010) /gene="acyP" /locus_tag="BSU_07640" /old_locus_tag="BSU07640" /EC_number="3.6.1.7" /function="16.11: Scavenge (Catabolism)" /function="16.8: Protect" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:20447399" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 20447399; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="acylphosphatase" /protein_id="NP_388645.1" /db_xref="EnsemblGenomes-Gn:BSU07640" /db_xref="EnsemblGenomes-Tr:CAB12593" /db_xref="GOA:O35031" /db_xref="InterPro:IPR001792" /db_xref="InterPro:IPR017968" /db_xref="InterPro:IPR020456" /db_xref="InterPro:IPR036046" /db_xref="PDB:2FHM" /db_xref="PDB:2HLT" /db_xref="PDB:2HLU" /db_xref="PDB:3BR8" /db_xref="SubtiList:BG12947" /db_xref="UniProtKB/Swiss-Prot:O35031" /translation="MLQYRIIVDGRVQGVGFRYFVQMEADKRKLAGWVKNRDDGRVEI LAEGPENALQSFVEAVKNGSPFSKVTDISVTESRSLEGHHRFSIVYS*" gene complement(837735..838010) /gene="acyP" /locus_tag="BSU_07640" /old_locus_tag="BSU07640" S_feature 837745..838076 /Source="Nicolas_S_feature" /locus_tag="new_837745_838076" /HighExp="C90, BI, Paraq, LBGexp, Oxctl, M0t45, G150, M40t45, G135, H2O2" /AntisenseName="yflL" /AntisenseCor="0.38657275217332299" /AntisenseRegPval="-10.3" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.995" /TUlongSig="NA" /TUlongPSig="NA" /label="S263" promotor_-10 complement(838024..838043) /Source="Nicolas_upshift_promotors" /id="U582" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.818181818181818" /psig="0.998001998001998" /xcortree=3152 /SigmaFactorBS="ctgaatagcgctcttgtttcatacaaacacatcCCCTTTACa ggttgtaaaatgaTTGATTATCATAAAAAGAAAaggtggtttttacatgcttcaatac c" /listShort="yflL" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(838038) /Source="Nicolas_upshifts" /id="U582" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.818181818181818" /psig="0.998001998001998" /xcortree=3152 /SigmaFactorBS="ctgaatagcgctcttgtttcatacaaacacatcCCCTTTACa ggttgtaaaatgaTTGATTATCATAAAAAGAAAaggtggtttttacatgcttcaatac c" /listShort="yflL" /GFF_Attribute="listLong" promotor_-35 complement(838058..838065) /Source="Nicolas_upshift_promotors" /id="U582" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.818181818181818" /psig="0.998001998001998" /xcortree=3152 /SigmaFactorBS="ctgaatagcgctcttgtttcatacaaacacatcCCCTTTACa ggttgtaaaatgaTTGATTATCATAAAAAGAAAaggtggtttttacatgcttcaatac c" /listShort="yflL" /GFF_Attribute="listLong" /label="promotor_-35" CDS 838077..838742 /gene="yflK" /locus_tag="BSU_07650" /old_locus_tag="BSU07650" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 11886751; Product type c: carrier" /codon_start=1 /transl_table=11 /product="putative sulfur carrier" /protein_id="NP_388646.1" /db_xref="EnsemblGenomes-Gn:BSU07650" /db_xref="EnsemblGenomes-Tr:CAB12594" /db_xref="GOA:O34542" /db_xref="InterPro:IPR005163" /db_xref="InterPro:IPR005302" /db_xref="InterPro:IPR011037" /db_xref="SubtiList:BG12946" /db_xref="UniProtKB/Swiss-Prot:O34542" /translation="MKQERYSVLSLNLGKPQTLEYDGKKIETGIMKRPAKSAVMLYRE NFEGDGQADLVNHGGPDKAVCVYPAEHYPFWEEFLSRPLSNAAFGENLTVAGLTEENV CIGDVFRLDEAVVQVSQPRQPCVKLAKKFGVKEMVLKVQQTGYTGFYFRVLEEGRVSP GANLELLSRGEKGISVQFANRINYHDAKNLTAIERILSEAALSESWRASFMKKKDRLL PVE*" gene 838077..838742 /gene="yflK" /locus_tag="BSU_07650" /old_locus_tag="BSU07650" CDS complement(838783..838920) /gene="yflJ" /locus_tag="BSU_07660" /old_locus_tag="BSU07660" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388647.1" /db_xref="EnsemblGenomes-Gn:BSU07660" /db_xref="EnsemblGenomes-Tr:CAB12595" /db_xref="InterPro:IPR022580" /db_xref="SubtiList:BG12945" /db_xref="UniProtKB/Swiss-Prot:O34345" /translation="MHYGSKGWYVAELKKQGITHHEGRKLQSYKTYFLANLLESKKKQ S*" gene complement(838783..838920) /gene="yflJ" /locus_tag="BSU_07660" /old_locus_tag="BSU07660" downshifts complement(838797) /Source="Nicolas_upshifts" /id="D381" /incds=0 /nref=136 /ntot=260 /MaxReadThrough="0.0927600000000002" /MaxDrop="8.10929" /score="29.8336543" /energy="-14.8" /TU="NA" /idTUdmin="U583" /TUdmin="-11" /isTUend="TRUE" S_feature complement(838921..839051) /Source="Nicolas_S_feature" /locus_tag="new_838921_839051_c" /HighExp="S4, S7, S8, S6, S5, S3, B36, BT, LoTm, B60" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigEF, SigA" /TUshortPSig="0.967, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S264" promotor_-10 complement(839037..839055) /Source="Nicolas_upshift_promotors" /id="U583" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.967032967032967" /psig="0.967032967032967" /xcortree=1134 /SigmaFactorBS="ttggcgttgtcatgatcaaactaaccggccattaaATCATAt tcggcttttgctccGCATATACATTCAGAAGAAcattcgtacatctagtgcgaaaggc t" /listShort="S264, yflJ" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 839047..839052 /Source="Nicolas_upshift_promotors" /id="U584" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1109 /SigmaFactorBS="gaaaactgagcctttcgcactagatgtacgaatgttcttctg aaTGTATAtgcggagcaaaagccGAATATGATTTAATGGCCGgttagtttgatcatga c" /listShort="S265" /GFF_Attribute="listLong" /label="promotor_-35" upshifts complement(839051) /Source="Nicolas_upshifts" /id="U583" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.967032967032967" /psig="0.967032967032967" /xcortree=1134 /SigmaFactorBS="ttggcgttgtcatgatcaaactaaccggccattaaATCATAt tcggcttttgctccGCATATACATTCAGAAGAAcattcgtacatctagtgcgaaaggc t" /listShort="S264, yflJ" /GFF_Attribute="listLong" S_feature 839062..840126 /Source="Nicolas_S_feature" /locus_tag="new_839062_840126" /HighExp="S8, S6, S5, S7, S4, S3, BT, B36, C90, T5.0H" /AntisenseName="mapB" /AntisenseCor="-0.26446079057314398" /AntisenseRegPval="-5" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S265" upshifts 839063 /Source="Nicolas_upshifts" /id="U584" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1109 /SigmaFactorBS="gaaaactgagcctttcgcactagatgtacgaatgttcttctg aaTGTATAtgcggagcaaaagccGAATATGATTTAATGGCCGgttagtttgatcatga c" /listShort="S265" /GFF_Attribute="listLong" promotor_-10 839068..839086 /Source="Nicolas_upshift_promotors" /id="U584" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1109 /SigmaFactorBS="gaaaactgagcctttcgcactagatgtacgaatgttcttctg aaTGTATAtgcggagcaaaagccGAATATGATTTAATGGCCGgttagtttgatcatga c" /listShort="S265" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(839071..839076) /Source="Nicolas_upshift_promotors" /id="U583" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.967032967032967" /psig="0.967032967032967" /xcortree=1134 /SigmaFactorBS="ttggcgttgtcatgatcaaactaaccggccattaaATCATAt tcggcttttgctccGCATATACATTCAGAAGAAcattcgtacatctagtgcgaaaggc t" /listShort="S264, yflJ" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(839077..839232) /gene="yflI" /locus_tag="BSU_07670" /old_locus_tag="BSU07670" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved membrane protein" /protein_id="NP_388648.1" /db_xref="EnsemblGenomes-Gn:BSU07670" /db_xref="EnsemblGenomes-Tr:CAB12596" /db_xref="GOA:O34905" /db_xref="SubtiList:BG12944" /db_xref="UniProtKB/Swiss-Prot:O34905" /translation="MWFIIFGIIFFIEGIIMTVYGVKKKNGMLTYIGIVFAIMTFGVV MIKLTGH*" gene complement(839077..839232) /gene="yflI" /locus_tag="BSU_07670" /old_locus_tag="BSU07670" S_feature complement(839233..839338) /Source="Nicolas_S_feature" /locus_tag="new_839233_839338_c" /HighExp="Etha, Salt, Diami, dia15, H2O2, Cold, G135, Paraq, LPhT, G150" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S266" CDS complement(839339..839653) /gene="yflH" /locus_tag="BSU_07680" /old_locus_tag="BSU07680" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 1070366, 1266368; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative enzyme" /protein_id="NP_388649.1" /db_xref="EnsemblGenomes-Gn:BSU07680" /db_xref="EnsemblGenomes-Tr:CAB12597" /db_xref="InterPro:IPR021637" /db_xref="PDB:3D0W" /db_xref="SubtiList:BG12943" /db_xref="UniProtKB/Swiss-Prot:O34306" /translation="MNRDQEKIQIENEMNAMHGTIKEDILKDFEEFKGYLKKQVNRGK KLGLDDGKLVKSAAILGDYLAKHEEPQNGEEMLLQELWSVADEDEKEHLAQLLVKLVD KQ*" gene complement(839339..839653) /gene="yflH" /locus_tag="BSU_07680" /old_locus_tag="BSU07680" S_feature complement(839654..839734) /Source="Nicolas_S_feature" /locus_tag="new_839654_839734_c" /HighExp="dia5, dia15, Diami, LBGtran, LPhT, H2O2, Etha, Lbtran, M40t45, M40t90" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigK" /TUshortPSig="1, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S267" CDS complement(839735..840484) /gene="mapB" /locus_tag="BSU_07690" /old_locus_tag="BSU07690" /EC_number="3.4.11.18" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:16207374" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16207374; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="methionine aminopeptidase B" /protein_id="NP_388650.1" /db_xref="EnsemblGenomes-Gn:BSU07690" /db_xref="EnsemblGenomes-Tr:CAB12598" /db_xref="GOA:O34484" /db_xref="InterPro:IPR000994" /db_xref="InterPro:IPR001714" /db_xref="InterPro:IPR002467" /db_xref="InterPro:IPR036005" /db_xref="SubtiList:BG12942" /db_xref="UniProtKB/Swiss-Prot:O34484" /translation="MIVTNDQELEGLKKIGRIVALAREEMKRKAEPGMSTKDLDLIGK AVLDEHGAVSAPEKEYDFPGVTCISVNDEVAHGIPSTSKILKAGDLVNIDISAEFGGF YSDTGISFVLGEGEERLHKLCQCAENAFQKGLQQAKAGKRQNQIGRAVYHEARSQGFT VIKTLTGHGIGRSLHEAPNHIMNYYDPFDNALFKNGTVIALEPFISTKAETIVEAGDG WTFKTPDKSMVAQVEHTIVITKDEPIILTKL*" gene complement(839735..840484) /gene="mapB" /locus_tag="BSU_07690" /old_locus_tag="BSU07690" promotor_-10 complement(840513..840532) /Source="Nicolas_upshift_promotors" /id="U585" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.786213786213786" /psig=1 /xcortree=1950 /SigmaFactorBS="cccgggggtatttcttttttcccaggtccgtgtgTTTCCTAT TtttaagacagtTGTGGTAAGCTTAATCTAGAttatttaaaaagaaagcgggaatgac a" /listShort="mapB, S267, yflH, S266, yflI, S264, yflJ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(840526) /Source="Nicolas_upshifts" /id="U585" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.786213786213786" /psig=1 /xcortree=1950 /SigmaFactorBS="cccgggggtatttcttttttcccaggtccgtgtgTTTCCTAT TtttaagacagtTGTGGTAAGCTTAATCTAGAttatttaaaaagaaagcgggaatgac a" /listShort="mapB, S267, yflH, S266, yflI, S264, yflJ" /GFF_Attribute="listLong" S_feature complement(840528..841664) /Source="Nicolas_S_feature" /locus_tag="new_840528_841664_c" /HighExp="S6, S8, S7, S5, BT, C30, Paraq, B36, G180, Pyr" /AntisenseName="nagP" /AntisenseCor="0.180776000778922" /AntisenseRegPval="-2.5" /CDS_PredictionProba="NA" /TUshortSig="SigK" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S268" promotor_-35 complement(840544..840552) /Source="Nicolas_upshift_promotors" /id="U585" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.786213786213786" /psig=1 /xcortree=1950 /SigmaFactorBS="cccgggggtatttcttttttcccaggtccgtgtgTTTCCTAT TtttaagacagtTGTGGTAAGCTTAATCTAGAttatttaaaaagaaagcgggaatgac a" /listShort="mapB, S267, yflH, S266, yflI, S264, yflJ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 840595..840596 /Source="Nicolas_upshift_promotors" /id="U586" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.493506493506494" /psig="0.995004995004995" /xcortree=1559 /SigmaFactorBS="gacctgggaaaaaagaaatacccccgggaaaattggTAtaga tcactagatatcttaTATGGTATATTTGAAAAAAAagggtatgagggggatgggtatg c" /listShort="nagP" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 840616..840635 /Source="Nicolas_upshift_promotors" /id="U586" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.493506493506494" /psig="0.995004995004995" /xcortree=1559 /SigmaFactorBS="gacctgggaaaaaagaaatacccccgggaaaattggTAtaga tcactagatatcttaTATGGTATATTTGAAAAAAAagggtatgagggggatgggtatg c" /listShort="nagP" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 840619 /Source="Nicolas_upshifts" /id="U586" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.493506493506494" /psig="0.995004995004995" /xcortree=1559 /SigmaFactorBS="gacctgggaaaaaagaaatacccccgggaaaattggTAtaga tcactagatatcttaTATGGTATATTTGAAAAAAAagggtatgagggggatgggtatg c" /listShort="nagP" /GFF_Attribute="listLong" CDS 840656..842014 /gene="nagP" /locus_tag="BSU_07700" /old_locus_tag="BSU07700" /function="16.11: Scavenge (Catabolism)" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); PubMedId: 15849754, 16850406, 8246840; Product type t: transporter" /codon_start=1 /transl_table=11 /product="phosphotransferase system (PTS) N-acetylglucosamine-specific enzyme IICB component" /protein_id="NP_388651.1" /db_xref="EnsemblGenomes-Gn:BSU07700" /db_xref="EnsemblGenomes-Tr:CAB12599" /db_xref="GOA:O34521" /db_xref="InterPro:IPR001996" /db_xref="InterPro:IPR003352" /db_xref="InterPro:IPR010974" /db_xref="InterPro:IPR013013" /db_xref="InterPro:IPR018113" /db_xref="InterPro:IPR036878" /db_xref="SubtiList:BG12941" /db_xref="UniProtKB/Swiss-Prot:O34521" /translation="MLSFLQKLGKSFMLPIAVLPAVGIILALGREDVFNIPFVYQAGT AVFDHLPLIFAIGIAIGISKDSNGAAGLSGAISYLMLDAATKTIDKTNNMAVFGGIIA GLIAGYTYNRFKDTKLPEYLGFFSGRRLVPILTAIITIILAGIFGVVWPPIQSCINSF GEWMLGLGGIGAGIFGLFNRLLIPLGLHHVLNNIFWFQFGEYNGVTGDLARFFAKDPT AGTYMTGFFPIMMFGLPAACLAMVVTAKPSKRKATAGMMIGFALTAFITGITEPIEFA FMFLSPLLYAVHAVLTGLSLFIVNWLGIRSGFSFSAGAIDYVLSYGIAEKPLLLLLVG ICYAAVYFIVFYVLIKALNLKTPGREDDDVDEVLDENTVQDVNENIMLKGLGGKENLQ TIDHCATRLRLTVKDTALVDEALLKKAGAKGVVKSGGQSVQVIIGPNVEFAAEELRAA VK*" gene 840656..842014 /gene="nagP" /locus_tag="BSU_07700" /old_locus_tag="BSU07700" promotor_-10 complement(841650..841669) /Source="Nicolas_upshift_promotors" /id="U587" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1378 /SigmaFactorBS="gcgtttttaaattcaaagccttaatcagtacaTAAAACACGA taaagtatactgcCGCATAGCATATACCTACCAaaagcagaagcagcggtttttccgc g" /listShort="S268, mapB, S267, yflH" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(841664) /Source="Nicolas_upshifts" /id="U587" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1378 /SigmaFactorBS="gcgtttttaaattcaaagccttaatcagtacaTAAAACACGA taaagtatactgcCGCATAGCATATACCTACCAaaagcagaagcagcggtttttccgc g" /listShort="S268, mapB, S267, yflH" /GFF_Attribute="listLong" promotor_-35 complement(841683..841692) /Source="Nicolas_upshift_promotors" /id="U587" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1378 /SigmaFactorBS="gcgtttttaaattcaaagccttaatcagtacaTAAAACACGA taaagtatactgcCGCATAGCATATACCTACCAaaagcagaagcagcggtttttccgc g" /listShort="S268, mapB, S267, yflH" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 841900 /Source="Nicolas_upshifts" /id="D382" /incds=1 /nref=1 /ntot=106 /MaxReadThrough="3.67421" /MaxDrop="3.12268" /score="44.7832762" /energy="-16.9" /TU="U586" /idTUdmin="U586" /TUdmin="-88" /isTUend="FALSE" downshifts 842010 /Source="Nicolas_upshifts" /id="D383" /incds=0 /nref=2 /ntot=87 /MaxReadThrough="2.54331" /MaxDrop="3.17508" /score="44.7832762" /energy="-16.9" /TU="NA" /idTUdmin="U586" /TUdmin=22 /isTUend="TRUE" CDS complement(842047..843996) /gene="ltaSB" /locus_tag="BSU_07710" /old_locus_tag="BSU07710" /function="16.1: Circulate" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:10658653, 21255105" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10658653, 21255105; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="enzyme responsible for polyglycerolphosphate LTAsynthesis" /protein_id="NP_388652.1" /db_xref="EnsemblGenomes-Gn:BSU07710" /db_xref="EnsemblGenomes-Tr:CAB12600" /db_xref="GOA:O34952" /db_xref="InterPro:IPR000917" /db_xref="InterPro:IPR012160" /db_xref="InterPro:IPR017849" /db_xref="InterPro:IPR017850" /db_xref="PDB:2W8D" /db_xref="SubtiList:BG12940" /db_xref="UniProtKB/Swiss-Prot:O34952" /translation="MKTFIKERGLAFFLIAVVLLWIKTYVGYVLNFNLGIDNTIQKIL LFVNPLSSSLFFLGFGLLFKKKLQQTAIIVIHFLMSFLLYANIVYYRFFNDFITIPVI MQAKTNGGQLGDSAFSLMRPTDAFYFIDTIILIILAIKVNKPAETSSKKSFRIIFASS ILVFLINLAVAESDRPELLTRSFDRNYLVKYLGTYNFTIYDAVQNIKSNSQRALADSS DVTEVENYMKANYDVPNNVYFGKAEGKNVIYVSLESLQSFIIDYKIDGKEVTPFLNKL AHDNETFYFDNFFHQTGQGKTSDAEFMMENSLYPLAQGSVFVNKAQNTLQSVPAILKS KNYTSATFHGNTQTFWNRNEMYKAEGIDKFFDSAYYDMNEENTKNYGMKDKPFFKESM PLLESLPQPFYTKFITLSNHFPFGMDEGDTDFPAGDFGDSVVDNYFQSAHYLDQSIEQ FFNDLKKDGLYDKSIIVMYGDHYGISENHNKAMAKVLGKDEITDYDNAQLQRVPLFIH AAGVKGEKVHKYAGDVDVAPTILHLLGVDTKDYLMSGSDILSKEHREVIPFRNGDFIS PKYTKISGKYYDTKTGKELDESEVDKSEDSLVKKELEMSDKIINGDLLRFYEPKGFKK VNPSDYDYTKHDEDSSETSKDNEDK*" gene complement(842047..843996) /gene="ltaSB" /locus_tag="BSU_07710" /old_locus_tag="BSU07710" downshifts complement(842064) /Source="Nicolas_upshifts" /id="D384" /incds=0 /nref=219 /ntot=250 /MaxReadThrough="1.71031" /MaxDrop="6.08461" /score="43.6427282" /energy="-15.9" /TU="NA" /idTUdmin="U589" /TUdmin=0 /isTUend="TRUE" promotor_-35 843106..843112 /Source="Nicolas_upshift_promotors" /id="U588" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=153 /SigmaFactorBS="acagagagttttccatcataaattcagcatcagaTGTTTTAc cttgtcccgtttggTGGAAAAAGTTATCAAAGTagaacgtttcgttatcatgtgccag t" /listShort="S269, yflD, yflB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 843128..843146 /Source="Nicolas_upshift_promotors" /id="U588" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=153 /SigmaFactorBS="acagagagttttccatcataaattcagcatcagaTGTTTTAc cttgtcccgtttggTGGAAAAAGTTATCAAAGTagaacgtttcgttatcatgtgccag t" /listShort="S269, yflD, yflB" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 843132..844096 /Source="Nicolas_S_feature" /locus_tag="new_843132_844096" /HighExp="Etha, Salt, Sw, Gly, C30, M9-stat, S8, B60, BC, S7" /AntisenseName="yflE" /AntisenseCor="-0.385555454026206" /AntisenseRegPval="-10.199999999999999" /CDS_PredictionProba="NA" /TUshortSig="SigB" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S269" upshifts 843132 /Source="Nicolas_upshifts" /id="U588" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=153 /SigmaFactorBS="acagagagttttccatcataaattcagcatcagaTGTTTTAc cttgtcccgtttggTGGAAAAAGTTATCAAAGTagaacgtttcgttatcatgtgccag t" /listShort="S269, yflD, yflB" /GFF_Attribute="listLong" S_feature complement(843997..844071) /Source="Nicolas_S_feature" /locus_tag="new_843997_844071_c" /HighExp="Paraq, H2O2, LBGexp, G150, G135, G180, Lbexp, C30, LPhT, BMM" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S270" promotor_-10 complement(844048..844067) /Source="Nicolas_upshift_promotors" /id="U589" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.956043956043956" /psig=1 /xcortree=2614 /SigmaFactorBS="gattcgacggcgtttttcgccactttctccctcatacgattt tcACTTTtctaatctgctgattCGTGTTATATTGGATACGTTcgttttttctatcgtt t" /listShort="S270, yflE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(844071) /Source="Nicolas_upshifts" /id="U589" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.956043956043956" /psig=1 /xcortree=2614 /SigmaFactorBS="gattcgacggcgtttttcgccactttctccctcatacgattt tcACTTTtctaatctgctgattCGTGTTATATTGGATACGTTcgttttttctatcgtt t" /listShort="S270, yflE" /GFF_Attribute="listLong" S_feature complement(844073..844595) /Source="Nicolas_S_feature" /locus_tag="new_844073_844595_c" /HighExp="S3, LoTm, S7, S4, S5, S8, S6, M9-stat, C30, Pyr" /AntisenseName="yflD" /AntisenseCor="0.24383322556613099" /AntisenseRegPval="-4.3" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S271" promotor_-35 complement(844083..844087) /Source="Nicolas_upshift_promotors" /id="U589" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.956043956043956" /psig=1 /xcortree=2614 /SigmaFactorBS="gattcgacggcgtttttcgccactttctccctcatacgattt tcACTTTtctaatctgctgattCGTGTTATATTGGATACGTTcgttttttctatcgtt t" /listShort="S270, yflE" /GFF_Attribute="listLong" /label="promotor_-35" CDS 844097..844234 /gene="yflD" /locus_tag="BSU_07720" /old_locus_tag="BSU07720" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="NP_388653.1" /db_xref="EnsemblGenomes-Gn:BSU07720" /db_xref="EnsemblGenomes-Tr:CAB12601" /db_xref="SubtiList:BG12939" /db_xref="UniProtKB/Swiss-Prot:O34489" /translation="MREKVAKNAVESTFRFDITKCKTRYLSRNKGIKWYIENCMIKYK V*" gene 844097..844234 /gene="yflD" /locus_tag="BSU_07720" /old_locus_tag="BSU07720" upshifts 844212 /Source="Nicolas_upshifts" /id="U590" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.895104895104895" /psig="0.952047952047952" /xcortree=589 /SigmaFactorBS="ccaaatgtaaaacaaggtatctttctagaaataaaggaataa aatggtacattgagaattgTATGATAAAATATAAGGTATagataaaaagaggtgaaat g" /listShort="yflB" /listLong="yflA, S272" misc_feature 844213..844232 /Source="Nicolas_upshift_promotors" /id="U590" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.895104895104895" /psig="0.952047952047952" /xcortree=589 /SigmaFactorBS="ccaaatgtaaaacaaggtatctttctagaaataaaggaataa aatggtacattgagaattgTATGATAAAATATAAGGTATagataaaaagaggtgaaat g" /listShort="yflB" /listLong="yflA, S272" /label="promotor_single_box" /note="Geneious type: promotor_single_box" CDS 844253..844645 /gene="yflB" /locus_tag="BSU_07735" /old_locus_tag="BSU07735" /function="18: Unknown function" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388655.2" /db_xref="EnsemblGenomes-Gn:BSU07735" /db_xref="EnsemblGenomes-Tr:CAB12603" /db_xref="InterPro:IPR018961" /db_xref="SubtiList:BG12937" /db_xref="UniProtKB/Swiss-Prot:O34887" /translation="MDFSHIVSEDKIKRAIKDGDFQNLPGMGKPLPKDDAAHLPESLR MGYRILKNAGMAEDEGALKKELMTIDHLIEKCYDEKEREQLIRKKSEKQLLLDKLVDK KGMFSKPASAFYKNKVYDRLGRNRPSSS*" gene 844253..844645 /gene="yflB" /locus_tag="BSU_07735" /old_locus_tag="BSU07735" promotor_-10 complement(844593..844611) /Source="Nicolas_upshift_promotors" /id="U591" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=999 /SigmaFactorBS="cgccatcctgcagacaagacaaatcagctggaagaaGGTCTG tttcgtccaagccggTCATATACTTTATTCTTATaaaaagcggatgctggctttgaaa a" /listShort="S271" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(844608) /Source="Nicolas_upshifts" /id="U591" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=999 /SigmaFactorBS="cgccatcctgcagacaagacaaatcagctggaagaaGGTCTG tttcgtccaagccggTCATATACTTTATTCTTATaaaaagcggatgctggctttgaaa a" /listShort="S271" /GFF_Attribute="listLong" promotor_-35 complement(844627..844632) /Source="Nicolas_upshift_promotors" /id="U591" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=999 /SigmaFactorBS="cgccatcctgcagacaagacaaatcagctggaagaaGGTCTG tttcgtccaagccggTCATATACTTTATTCTTATaaaaagcggatgctggctttgaaa a" /listShort="S271" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 844714..844720 /Source="Nicolas_upshift_promotors" /id="U592" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=234 /SigmaFactorBS="aaaagccatcctttttatgttccaagttctatgtcaaaaGGT TTATgtttttccatctatGGGAAATGATTCATAAACGaaaaaagggtgatgggatgga a" /listShort="yflA, S272" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 844735..844753 /Source="Nicolas_upshift_promotors" /id="U592" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=234 /SigmaFactorBS="aaaagccatcctttttatgttccaagttctatgtcaaaaGGT TTATgtttttccatctatGGGAAATGATTCATAAACGaaaaaagggtgatgggatgga a" /listShort="yflA, S272" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 844735 /Source="Nicolas_upshifts" /id="U592" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=234 /SigmaFactorBS="aaaagccatcctttttatgttccaagttctatgtcaaaaGGT TTATgtttttccatctatGGGAAATGATTCATAAACGaaaaaagggtgatgggatgga a" /listShort="yflA, S272" /GFF_Attribute="listLong" CDS 844770..846185 /gene="yflA" /locus_tag="BSU_07750" /old_locus_tag="BSU07750" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative aminoacid transporter" /protein_id="NP_388656.1" /db_xref="EnsemblGenomes-Gn:BSU07750" /db_xref="EnsemblGenomes-Tr:CAB12604" /db_xref="GOA:O34708" /db_xref="InterPro:IPR001463" /db_xref="SubtiList:BG12936" /db_xref="UniProtKB/Swiss-Prot:O34708" /translation="MERLLVWIEHISDWLWGPPLIILLTGTGLYFTILLKGFQFRYPL YIFKQTIGSVGKKPKGEGTVTPLQALTSALSSTIGAANIVGVPAAIMFGGPGAVFWMW LIALFAMAIKFSESVLAVHYREKNEQGEYVGGPMYYITKGLRMKWLGVFFSVALIVEL IPSIMVQGNSVSVSLAETFSFNKIYAGIGIAFLIGLVVIGGVKRIGKVTEFVVPLMAG AYAGAGLLIVLMNLSSVPAFFSLVFSNAFTSSSAVGGFAGAALAETVRWGFARGLYSN EAGMGTAPIAHAAAMTDHPVRQGFWSVIGIVIDTLIICTTTAFIVLASGVWTGKNASN DPAALTTAAFQHYFGSGGGYFVSVSLVFFVVSTIMVVIFYGVKQAEFLFGRLAGHVIK FVYLAAIIIGAAGGAKAIWGVLDLALVFIVVPNVIALLLLSRKVKALYTEFFTSEQYY LKDIRKTKQKPVYPTKEAKNS*" gene 844770..846185 /gene="yflA" /locus_tag="BSU_07750" /old_locus_tag="BSU07750" downshifts complement(844771) /Source="Nicolas_upshifts" /id="D385" /incds=0 /nref=4 /ntot=16 /MaxReadThrough="0.76492" /MaxDrop="4.20973" /score="43.6427282" /energy="-15.9" /TU="NA" /idTUdmin="U593" /TUdmin=22 /isTUend="TRUE" promotor_no_box complement(844797..844897) /Source="Nicolas_upshift_promotors" /id="U593" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.723276723276723" /psig="0.006993006993007" /xcortree=122 /SigmaFactorBS="ggatagcgaaattgaaaacctttcagcaaaatagtgaaatac aagcccgtccccgtcagcaggatgattagcggcggaccccacagccaatcagatatat g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts complement(844837) /Source="Nicolas_upshifts" /id="U593" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.723276723276723" /psig="0.006993006993007" /xcortree=122 /SigmaFactorBS="ggatagcgaaattgaaaacctttcagcaaaatagtgaaatac aagcccgtccccgtcagcaggatgattagcggcggaccccacagccaatcagatatat g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS complement(846182..847258) /gene="yfkT" /locus_tag="BSU_07760" /old_locus_tag="BSU07760" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10762253, 15849754, 16850406, 23625846; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative spore germination integral inner membrane transporter" /protein_id="NP_388657.1" /db_xref="EnsemblGenomes-Gn:BSU07760" /db_xref="EnsemblGenomes-Tr:CAB12605" /db_xref="GOA:O34573" /db_xref="InterPro:IPR004761" /db_xref="SubtiList:BG12935" /db_xref="UniProtKB/Swiss-Prot:O34573" /translation="MDKTSAYQGLFFGALYTLAVGLKHAPILMIESAKQNAWHSYILG VVIVIPALWLMHRLMKKHQDKNIYELLSDSSPIAGRIIILLFSLYFLLINAHDIRFFI NLINILFLPRTPMAVLGGVIIFVAICIAREGKETLTRMAQIFLFPFGILVLFLPFTLA TQIELQNLTPVFEGLIPYLQSGYYAFGTMGELIILPLLFSNRSVPLKYTIFAILLGAL LLAVMLFSSISVFGPNLTSTFFDPAYMVIRQIRITDFLDRSDLIIAAFWIPVIMVKIA GSLYIVVYGLSFLHSKIDPKAMYTPTGMFSVVCGFWFFLNTNQLIDFNRIKPIINVVI SLLLPLLIYLIIKSKALFGAKAKH*" gene complement(846182..847258) /gene="yfkT" /locus_tag="BSU_07760" /old_locus_tag="BSU07760" S_feature 846186..849552 /Source="Nicolas_S_feature" /locus_tag="new_846186_849552" /HighExp="Salt, Sw, Etha, LoTm, B36, Heat, LPhT, BC, T0.30H, H2O2" /AntisenseName="yfkR" /AntisenseCor="-1.3937740774571999E-3" /AntisenseRegPval=0 /CDS_PredictionProba="NA" /TUshortSig="SigB" /TUshortPSig=1 /TUlongSig="SigA" /TUlongPSig="0.952" /label="S272" CDS complement(847282..847482) /gene="yfkS" /locus_tag="BSU_07770" /old_locus_tag="BSU07770" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 23625846; Product type rc: receptor" /codon_start=1 /transl_table=11 /product="putative spore germination D protein" /protein_id="NP_388658.1" /db_xref="EnsemblGenomes-Gn:BSU07770" /db_xref="EnsemblGenomes-Tr:CAB12606" /db_xref="GOA:O35036" /db_xref="SubtiList:BG12934" /db_xref="UniProtKB/Swiss-Prot:O35036" /translation="MISYIVQTLIVCIAIYAYEWKNFRSANNLTKWAFSLLIAGSAFL WIYMRVNPLLPRLGHLFKYIPF*" gene complement(847282..847482) /gene="yfkS" /locus_tag="BSU_07770" /old_locus_tag="BSU07770" CDS complement(847498..848652) /gene="yfkR" /locus_tag="BSU_07780" /old_locus_tag="BSU07780" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10762253, 23625846; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative spore germination protein" /protein_id="NP_388659.1" /db_xref="EnsemblGenomes-Gn:BSU07780" /db_xref="EnsemblGenomes-Tr:CAB12607" /db_xref="GOA:O35028" /db_xref="InterPro:IPR008844" /db_xref="SubtiList:BG12933" /db_xref="UniProtKB/Swiss-Prot:O35028" /translation="MKKTIYKCVLPLLICILLTGCWDRTEINDIAFVVSSAIDKKKDQ YRVAMQIPLVGQLGGQTGGGGGTAGSKTWYVDSASGTTIREANNKLQTSLSRTINTSH RRTVIIGEDMARDGVAPVFDILTRNPQNRLTALILVSRGEARDILNTDVQLEQFPAEM IRELAIIATSRPVFLSRFMSDLVEIGSDPYAPVISASKTKPGGKGKSNLKIDGLAIFK KDRLMDIFKDEHMTAALMLLNQARQPEFIVDLPNQMGQASIQLQKSNASFHAAEKNGK LSMTIEIRAKGIIMENQSTYETRENDQYYIIQKALNRTIKKDVISTVHRLQKLKADPA GFQDRTIRSTATTKNLLKKEWEEVYKDMEVHVVPIVTIEQGGVLYKTISH*" gene complement(847498..848652) /gene="yfkR" /locus_tag="BSU_07780" /old_locus_tag="BSU07780" CDS complement(848633..850174) /gene="yfkQ" /locus_tag="BSU_07790" /old_locus_tag="BSU07790" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10762253, 23625846; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative spore germination protein" /protein_id="NP_388660.1" /db_xref="EnsemblGenomes-Gn:BSU07790" /db_xref="EnsemblGenomes-Tr:CAB12608" /db_xref="GOA:O34486" /db_xref="InterPro:IPR004995" /db_xref="SubtiList:BG12932" /db_xref="UniProtKB/Swiss-Prot:O34486" /translation="MNKRDKALQLIKELEDNQDRPISPNLKENLENLTLLTEGCSDIV FRQFDFGNGLCGFIVYIEGIVKSEHIQDHALRPFLMHLTDQIDEHEEALQNTLSISSV ALETSMSKVAASIIEGNAVLFADGHSKGLILNIKGGQRRSIEEPITESTIRGSREGFT ESLRVNTALVRFRVKTFQLKMISFKIGTKTKTDVVLAYIDGLADPKVIDKAKKRIKKI KIDAVLESGYIEEFIEDDTYSPFPQLQYTERPDTVAAQLLEGRFAIFTDNTPFVLTGP ITFWQLMQASEDYYERYLMSNLIRWLRYMFLFVALYLPAIYVAVITYHQDLMPTNLMF SVASAREPIPFPAIIEALIMEISFEALREAGVRLPKTIGQTVSILGALVIGTAAVEAG IVSAPMVIIVSLTGIASFTIPRFNLAISIRMLRFPLMFLASIFGIFGIMLGTIILVLH LCKLQSFGIPYLSGISPFKRDEVKDIFVRAPWWTMTRRPGTYSRGNGQKGAKREDPKD EENNI*" gene complement(848633..850174) /gene="yfkQ" /locus_tag="BSU_07790" /old_locus_tag="BSU07790" promotor_-10 complement(850224..850235) /Source="Nicolas_upshift_promotors" /id="U594" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=879 /SigmaFactorBS="aacacttttttatagcgctttcatcctagtctGGAATATatg aaacagacaaGGTTACCCTAAAagtcacaagcacttattgaatatgacattaaaaagc a" /listShort="yfkQ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(850227) /Source="Nicolas_upshifts" /id="U594" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=879 /SigmaFactorBS="aacacttttttatagcgctttcatcctagtctGGAATATatg aaacagacaaGGTTACCCTAAAagtcacaagcacttattgaatatgacattaaaaagc a" /listShort="yfkQ" /GFF_Attribute="listLong" promotor_-35 complement(850249..850255) /Source="Nicolas_upshift_promotors" /id="U594" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=879 /SigmaFactorBS="aacacttttttatagcgctttcatcctagtctGGAATATatg aaacagacaaGGTTACCCTAAAagtcacaagcacttattgaatatgacattaaaaagc a" /listShort="yfkQ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 850284..850291 /Source="Nicolas_upshift_promotors" /id="U595" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.99100899100899" /psig=1 /xcortree=1569 /SigmaFactorBS="tccagactaggatgaaagcgctataaaaaagTGTTGACTacc tgtatatacagGAATACAATATGATTATAAGttgtatatacaagttataaaaacggat a" /listShort="treP, treA, treR, yfkO" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 850306..850325 /Source="Nicolas_upshift_promotors" /id="U595" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.99100899100899" /psig=1 /xcortree=1569 /SigmaFactorBS="tccagactaggatgaaagcgctataaaaaagTGTTGACTacc tgtatatacagGAATACAATATGATTATAAGttgtatatacaagttataaaaacggat a" /listShort="treP, treA, treR, yfkO" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 850313 /Source="Nicolas_upshifts" /id="U595" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.99100899100899" /psig=1 /xcortree=1569 /SigmaFactorBS="tccagactaggatgaaagcgctataaaaaagTGTTGACTacc tgtatatacagGAATACAATATGATTATAAGttgtatatacaagttataaaaacggat a" /listShort="treP, treA, treR, yfkO" /GFF_Attribute="listLong" downshifts complement(850359) /Source="Nicolas_upshifts" /id="D386" /incds=0 /nref=1 /ntot=29 /MaxReadThrough="1.35091" /MaxDrop="3.57201" /score="22.8661179" /energy="-15.2" /TU="NA" /idTUdmin="U596" /TUdmin=0 /isTUend="TRUE" CDS 850367..851779 /gene="treP" /locus_tag="BSU_07800" /old_locus_tag="BSU07800" /EC_number="2.7.1.201" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15849754, 16850406, 8755887, 8917076, 8969503, 18977770" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15849754, 16850406, 8755887, 8917076, 8969503, 18977770; Product type t : transporter" /codon_start=1 /transl_table=11 /product="phosphotransferase system (PTS) trehalose-specific enzyme IIBC component" /protein_id="NP_388661.1" /db_xref="EnsemblGenomes-Gn:BSU07800" /db_xref="EnsemblGenomes-Tr:CAB12609" /db_xref="GOA:P39794" /db_xref="InterPro:IPR001996" /db_xref="InterPro:IPR003352" /db_xref="InterPro:IPR004719" /db_xref="InterPro:IPR011296" /db_xref="InterPro:IPR013013" /db_xref="InterPro:IPR018113" /db_xref="InterPro:IPR036878" /db_xref="SubtiList:BG11009" /db_xref="UniProtKB/Swiss-Prot:P39794" /translation="MGELNKSARQIVEAVGGAENIAAATHCVTRLRFALIDESKVDQE MLDQIDVVKGSFSTNGQFQVVIGQGTVNKVYAELVKETGIGESTKDEVKKASEKNMNP LQRAVKTLADIFIPILPAIVTAGLLMGINNILTAEGIFFSTKSIVQVYPQWADLANMI NLIAGTAFTFLPALIGWSAVKRFGGNPLLGIVLGVMLVHPDLLNAWGYGAAEQSGEIP VWNLFGLEVQKVGYQGQVLPILLASYMLAKIEVFLTKRTPEGIQLLVVAPITLLLTGF ASFIIIGPITFAIGNVLTSGLISVFGSFAALGGLLYGGFYSALVITGMHHTFLAVDLQ LIGSKLGGTFLWPMLALSNIAQGSAALAMMFIVKDEKQKGLSLTSGISAYLGITEPAI FGVNLRYRFPFIIAMVSSGLAGMYISSQGVLASSVGVGGVPGIFSIMSQYWGAFAIGM AIVLIVPFAGTYAYARFKHK*" gene 850367..851779 /gene="treP" /locus_tag="BSU_07800" /old_locus_tag="BSU07800" promotor_no_box complement(850385..850485) /Source="Nicolas_upshift_promotors" /id="U596" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.66033966033966" /psig="0.0889110889110889" /xcortree=1570 /SigmaFactorBS="ttgctttcatctattaaagcaaaacgcaaacgtgtaacacaa tgagttgccgctgcaatattttcagcaccgccgactgcttcgacaatctgacgtgccg a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts complement(850425) /Source="Nicolas_upshifts" /id="U596" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.66033966033966" /psig="0.0889110889110889" /xcortree=1570 /SigmaFactorBS="ttgctttcatctattaaagcaaaacgcaaacgtgtaacacaa tgagttgccgctgcaatattttcagcaccgccgactgcttcgacaatctgacgtgccg a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS 851850..853535 /gene="treA" /locus_tag="BSU_07810" /old_locus_tag="BSU07810" /EC_number="3.2.1.93" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:7651129, 7751281, 8755887, 8917076, 9701821, 26894535" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7651129, 7751281, 8755887, 8917076, 9701821, 26894535; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="trehalose-6-phosphate hydrolase" /protein_id="NP_388662.1" /db_xref="EnsemblGenomes-Gn:BSU07810" /db_xref="EnsemblGenomes-Tr:CAB12610" /db_xref="GOA:P39795" /db_xref="InterPro:IPR006047" /db_xref="InterPro:IPR012769" /db_xref="InterPro:IPR017853" /db_xref="InterPro:IPR032091" /db_xref="SubtiList:BG11010" /db_xref="UniProtKB/Swiss-Prot:P39795" /translation="MKTEQTPWWKKAVVYQIYPKSFNDTTGNGVGDLNGIIEKLDYLK TLQVDVLWLTPIYDSPQHDNGYDIRDYYSIYPEYGTMEDFERLVSEAHKRDLKVVMDL VVNHTSTEHKWFREAISSIDSPYRDFYIWKKPQENGSVPTNWESKFGGSAWELDEASG QYYLHLFDVTQADLNWENEEVRKHVYDMMHFWFEKGIDGFRLDVINLISKDQRFPNAE EGDGRSFYTDGPRVHEFLHEMNEKVFSHYDSMTVGEMSSTTVDHCIRYTNPDNKELDM TFSFHHLKVDYPNGEKWALAPFDFLKLKEILSDWQTGMHAGGGWNALFWCNHDQPRVV SRYGDDGAYRVKSAKMLATAIHMMQGTPYIYQGEELGMTNPKFTDISSYRDVESLNMY HAFKEKGMADQDITAILQAKSRDNSRTPVQWDATENGGFTTGTPWIPVAGNYREINAE AALRDQNSVFYHYQKLIQIRKMYDIVTEGTYEIIAKDDPNIFAYLRHGSNEKLLVINN FYGTEAAFTLPDSLAPDEWKAEVLLTNDEAREGLQNMTLRPYESIVYRLTKPC*" gene 851850..853535 /gene="treA" /locus_tag="BSU_07810" /old_locus_tag="BSU07810" promotor_-10 complement(852156..852171) /Source="Nicolas_upshift_promotors" /id="U597" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1694 /SigmaFactorBS="tacgggctgtctattgaagagatcgcctcgCGAAACCATTtg tgctctgttgACGTATGATTGACAACaagatccatgacgactttcaggtctcttttat g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(852163) /Source="Nicolas_upshifts" /id="U597" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1694 /SigmaFactorBS="tacgggctgtctattgaagagatcgcctcgCGAAACCATTtg tgctctgttgACGTATGATTGACAACaagatccatgacgactttcaggtctcttttat g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(852184..852193) /Source="Nicolas_upshift_promotors" /id="U597" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1694 /SigmaFactorBS="tacgggctgtctattgaagagatcgcctcgCGAAACCATTtg tgctctgttgACGTATGATTGACAACaagatccatgacgactttcaggtctcttttat g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 853508..853512 /Source="Nicolas_upshift_promotors" /id="U598" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.967032967032967" /psig=1 /xcortree=2516 /SigmaFactorBS="ggcttcagaacatgacgcttcgcccatatgagtccatTGTTT atcgtttaacgaaacCGTGTTAAACTAAGCTGGGTggtccataatgaaggtgaataaa t" /listShort="treR, yfkO" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 853528..853547 /Source="Nicolas_upshift_promotors" /id="U598" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.967032967032967" /psig=1 /xcortree=2516 /SigmaFactorBS="ggcttcagaacatgacgcttcgcccatatgagtccatTGTTT atcgtttaacgaaacCGTGTTAAACTAAGCTGGGTggtccataatgaaggtgaataaa t" /listShort="treR, yfkO" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 853531 /Source="Nicolas_upshifts" /id="U598" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.967032967032967" /psig=1 /xcortree=2516 /SigmaFactorBS="ggcttcagaacatgacgcttcgcccatatgagtccatTGTTT atcgtttaacgaaacCGTGTTAAACTAAGCTGGGTggtccataatgaaggtgaataaa t" /listShort="treR, yfkO" /GFF_Attribute="listLong" CDS 853556..854272 /gene="treR" /locus_tag="BSU_07820" /old_locus_tag="BSU07820" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:8755887, 9829827, 17705272" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8755887, 9829827, 17705272; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator (TreR-trehalose)" /protein_id="NP_388663.1" /db_xref="EnsemblGenomes-Gn:BSU07820" /db_xref="EnsemblGenomes-Tr:CAB12611" /db_xref="GOA:P39796" /db_xref="InterPro:IPR000524" /db_xref="InterPro:IPR011663" /db_xref="InterPro:IPR012770" /db_xref="InterPro:IPR028978" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="PDB:2OGG" /db_xref="SubtiList:BG11011" /db_xref="UniProtKB/Swiss-Prot:P39796" /translation="MKVNKFITIYKDIAQQIEGGRWKAEEILPSEHELTAQYGTSRET VRKALHMLAQNGYIQKIRGKGSVVLNREKMQFPVSGLVSFKELAQTLGKETKTTVHKF GLEPPSELIQKQLRANLDDDIWEVIRSRKIDGEHVILDKDYFFRKHVPHLTKEICENS IYEYIEGELGLSISYAQKEIVAEPCTDEDRELLDLRGYDHMVVVRNYVFLEDTSLFQY TESRHRLDKFRFVDFARRGK*" gene 853556..854272 /gene="treR" /locus_tag="BSU_07820" /old_locus_tag="BSU07820" downshifts 854265 /Source="Nicolas_upshifts" /id="D387" /incds=0 /nref=3 /ntot=115 /MaxReadThrough="6.58905" /MaxDrop="4.05981" /score="24.6748216" /energy="-11.1" /TU="U595,U598" /idTUdmin="U595" /TUdmin="-792" /isTUend="FALSE" promotor_-35 854347..854350 /Source="Nicolas_upshift_promotors" /id="U599" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.432567432567433" /psig="0.995004995004995" /xcortree=611 /SigmaFactorBS="caaaattgatactatccaacaaaaatgtgcgtACTTttactt tttatcataATGGCTACAATAGAGATGAGagtaatctaaaggagaggtgttttacatg g" /listShort="yfkO" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 854366..854385 /Source="Nicolas_upshift_promotors" /id="U599" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.432567432567433" /psig="0.995004995004995" /xcortree=611 /SigmaFactorBS="caaaattgatactatccaacaaaaatgtgcgtACTTttactt tttatcataATGGCTACAATAGAGATGAGagtaatctaaaggagaggtgttttacatg g" /listShort="yfkO" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 854375 /Source="Nicolas_upshifts" /id="U599" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.432567432567433" /psig="0.995004995004995" /xcortree=611 /SigmaFactorBS="caaaattgatactatccaacaaaaatgtgcgtACTTttactt tttatcataATGGCTACAATAGAGATGAGagtaatctaaaggagaggtgttttacatg g" /listShort="yfkO" /GFF_Attribute="listLong" CDS 854412..855077 /gene="hypO" /locus_tag="BSU_07830" /old_locus_tag="BSU07830" /EC_number="1.5.1.39" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:15252706, 20727918, 20862523, 22238377, 26415543" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15252706, 20727918, 20862523, 22238377, 26415543; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="NAD(P)H-flavin oxidoreductase (nitroreductase)" /protein_id="NP_388664.1" /db_xref="EnsemblGenomes-Gn:BSU07830" /db_xref="EnsemblGenomes-Tr:CAB12612" /db_xref="GOA:O34475" /db_xref="InterPro:IPR000415" /db_xref="InterPro:IPR029479" /db_xref="InterPro:IPR033878" /db_xref="SubtiList:BG12931" /db_xref="UniProtKB/Swiss-Prot:O34475" /translation="MADLKTQILDAYNFRHATKEFDPNKKVSDSDFEFILETGRLSPS SLGLEPWKFVVVQNPEFREKLREYTWGAQKQLPTASHFVLILARTAKDIKYNADYIKR HLKEVKQMPQDVYEGYLSKTEEFQKNDLHLLESDRTLFDWASKQTYIALGNMMTAAAQ IGVDSCPIEGFQYDHIHRILEEEGLLENGSFDISVMVAFGYRVRDPRPKTRSAVEDVV KWV*" gene 854412..855077 /gene="hypO" /locus_tag="BSU_07830" /old_locus_tag="BSU07830" downshifts 855058 /Source="Nicolas_upshifts" /id="D388" /incds=0 /nref=180 /ntot=269 /MaxReadThrough="0.70079" /MaxDrop="6.77615" /score="34.5750428" /energy="-16.9" /TU="NA" /idTUdmin="U595" /TUdmin=1 /isTUend="TRUE" CDS complement(855114..859502) /gene="yfkN" /locus_tag="BSU_07840" /old_locus_tag="BSU07840" /EC_number="3.1.4.16" /EC_number="3.1.3.5" /EC_number="3.1.3.6" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 14688230, 16291680, 21800427, 21906378, 25355936; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="exported 2',3'-cyclic-nucleotide 2'-phosphodiesterase, 2' (or 3') nucleotidase and 5' nucleotidase" /protein_id="NP_388665.1" /db_xref="EnsemblGenomes-Gn:BSU07840" /db_xref="EnsemblGenomes-Tr:CAB12613" /db_xref="GOA:O34313" /db_xref="InterPro:IPR004843" /db_xref="InterPro:IPR006146" /db_xref="InterPro:IPR006179" /db_xref="InterPro:IPR008334" /db_xref="InterPro:IPR029052" /db_xref="InterPro:IPR036907" /db_xref="PDB:3GVE" /db_xref="SubtiList:BG12930" /db_xref="UniProtKB/Swiss-Prot:O34313" /translation="MRIQKRRTHVENILRILLPPIMILSLILPTPPIHAEESAAPQVH LSILATTDIHANMMDYDYYSDKETADFGLARTAQLIQKHREQNPNTLLVDNGDLIQGN PLGEYAVKYQKDDIISGTKTHPIISVMNALKYDAGTLGNHEFNYGLDFLDGTIKGADF PIVNANVKTTSGENRYTPYVINEKTLIDENGNEQKVKVGYIGFVPPQIMTWDKKNLEG QVQVQDIVESANETIPKMKAEGADVIIALAHTGIEKQAQSSGAENAVFDLATKTKGID AIISGHQHGLFPSAEYAGVAQFNVEKGTINGIPVVMPSSWGKYLGVIDLKLEKADGSW KVADSKGSIESIAGNVTSRNETVTNTIQQTHQNTLEYVRKPVGKTEADINSFFAQVKD DPSIQIVTDAQKWYAEKEMKDTEYKNLPILSAGAPFKAGGRNGANYYTNIPAGDLAIK NVGDLYLYDNTVQIVKLTGSEVKDWLEMSAGQFNQIDPAKGGDQALLNENFRSYNFDV IDGVTYQVDVTKPAKYNENGKVINADSSRIINLSYEGKPISPSQEFLVVTNNYRASGG GGFPHLTSDKIVHGSAVENRQVLMDYIIEQKTVNPKADNNWSIAPVSGTNLTFESSLL AKPFADKADDVAYVGKSANEGYGVYKLQFDDDSNPDPPKDGLWDLTVMHTNDTHAHLD DAARRMTKINEVRSETNHNILLDAGDVFSGDLYFTKWNGLADLKMMNMMGYDAMTFGN HEFDKGPTVLSDFLSGNSATVDPANRYHFEAPEFPIVSANVDVSNEPKLKSFVKKPQT FTAGEKKEAGIHPYILLDVDGEKVAVFGLTTEDTATTSSPGKSIVFNDAFETAQNTVK AIQEEEKVNKIIALTHIGHNRDLELAKKVKGIDLIIGGHTHTLVDKMEVVNNEEPTIV AQAKEYGQFLGRVDVAFDEKGVVQTDKSNLSVLPIDEHTEENPEAKQELDQFKNELED VKNEKVGYTDVALDGQREHVRTKETNLGNFIADGMLAKAKEAAGARIAITNGGGIRAG IDKGDITLGEVLNVMPFGNTLYVADLTGKQIKEALEQGLSNVENGGGAFPQVAGIEYT FTLNNKPGHRVLEVKIESPNGDKVAINTDDTYRVATNNFVGAGGDGYSVFTEASHGED LGYVDYEIFTEQLKKLGNKVSPKVEGRIKEVFLPTKQKDGSWTLDEDKFAIYAKNANT PFVYYGIHEGSQEKPINLKVKKDQVKLLKERESDPSLTMFNYWYSMKMPMANLKTADT AIGIKSTGELDVSLSDVYDFTVKQKGKEIKSFKEPVQLSLRMFDIEEAHNPAIYHVDR KKKAFTKTGHGSVDDDMVTGYTNHFSEYTILNSGSNNKPPAFPSDQPTGGDDGNHGGG SDKPGGKQPTDGNGGNDTPPGTQPTNGSGGNGSGGSGTDGPAGGLLPDTATSMYSILL AGFLISALGTAMYLHQRRKQNRANQA*" gene complement(855114..859502) /gene="yfkN" /locus_tag="BSU_07840" /old_locus_tag="BSU07840" downshifts complement(855133) /Source="Nicolas_upshifts" /id="D389" /incds=0 /nref=155 /ntot=229 /MaxReadThrough="1.00159" /MaxDrop="7.08591" /score="22.8661179" /energy="-15.2" /TU="NA" /idTUdmin="U600" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(859535..859554) /Source="Nicolas_upshift_promotors" /id="U600" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.944055944055944" /psig="0.994005994005994" /xcortree=462 /SigmaFactorBS="actcatttttctcccttttacaataatcataaagaaacacCT ACaaatagttacaaaaTATTCTTACAATAGGAGCTGtaacacaaatttcgttgaaagg t" /listShort="yfkN" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(859552) /Source="Nicolas_upshifts" /id="U600" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.944055944055944" /psig="0.994005994005994" /xcortree=462 /SigmaFactorBS="actcatttttctcccttttacaataatcataaagaaacacCT ACaaatagttacaaaaTATTCTTACAATAGGAGCTGtaacacaaatttcgttgaaagg t" /listShort="yfkN" /GFF_Attribute="listLong" promotor_-35 complement(859569..859572) /Source="Nicolas_upshift_promotors" /id="U600" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.944055944055944" /psig="0.994005994005994" /xcortree=462 /SigmaFactorBS="actcatttttctcccttttacaataatcataaagaaacacCT ACaaatagttacaaaaTATTCTTACAATAGGAGCTGtaacacaaatttcgttgaaagg t" /listShort="yfkN" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 859679..859685 /Source="Nicolas_upshift_promotors" /id="U601" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=231 /SigmaFactorBS="tgggcatttatgcttatcgtttgtcacaatcgcggaaTGTTT ATtttagtgtggctgGGGTAGAGTGTTTTATGTAgacatataaagcgggaggttatga a" /listShort="yfkM, S273, yfkJ, yfkI, yfkH, S275" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 859699..859717 /Source="Nicolas_upshift_promotors" /id="U601" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=231 /SigmaFactorBS="tgggcatttatgcttatcgtttgtcacaatcgcggaaTGTTT ATtttagtgtggctgGGGTAGAGTGTTTTATGTAgacatataaagcgggaggttatga a" /listShort="yfkM, S273, yfkJ, yfkI, yfkH, S275" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 859702 /Source="Nicolas_upshifts" /id="U601" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=231 /SigmaFactorBS="tgggcatttatgcttatcgtttgtcacaatcgcggaaTGTTT ATtttagtgtggctgGGGTAGAGTGTTTTATGTAgacatataaagcgggaggttatga a" /listShort="yfkM, S273, yfkJ, yfkI, yfkH, S275" /GFF_Attribute="listLong" CDS 859745..860263 /gene="sufLB" /locus_tag="BSU_07850" /old_locus_tag="BSU07850" /function="16.6: Maintain" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:10220166, 12354229, 16181642, 17257049, 17933887, 24330391, 25283443, 25561404" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10220166, 12354229, 16181642, 17257049, 17933887, 24330391, 25283443, 25561404; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="general stress protein 18; deglycase" /protein_id="NP_388666.1" /db_xref="EnsemblGenomes-Gn:BSU07850" /db_xref="EnsemblGenomes-Tr:CAB12614" /db_xref="GOA:P80876" /db_xref="InterPro:IPR002818" /db_xref="InterPro:IPR006286" /db_xref="InterPro:IPR029062" /db_xref="SubtiList:BG12929" /db_xref="UniProtKB/Swiss-Prot:P80876" /translation="MGKKIAVVLTYYFEDSEYTEPAKAFKEAGHELTVIEKEKGKTVK GKQGTAEVTVDASIDDVNSSDFDALLIPGGFSPDQLRADDRFVQFTKAFMTDKKPVFA ICHGPQLLINAKALDGRKATGYTSIRVDMENAGADVVDKEVVVCQDQLVTSRTPDDIP AFNRESLALLEK*" gene 859745..860263 /gene="sufLB" /locus_tag="BSU_07850" /old_locus_tag="BSU07850" downshifts 860249 /Source="Nicolas_upshifts" /id="D390" /incds=0 /nref=35 /ntot=153 /MaxReadThrough="8.02255" /MaxDrop="6.97573" /score="42.2080398" /energy="-12.9" /TU="U601" /idTUdmin="U601" /TUdmin="-3542" /isTUend="FALSE" downshifts complement(860293) /Source="Nicolas_upshifts" /id="D391" /incds=0 /nref=22 /ntot=199 /MaxReadThrough="1.59285" /MaxDrop="3.61098" /score="31.1923457" /energy="-11.1" /TU="NA" /idTUdmin="U602" /TUdmin=10 /isTUend="TRUE" S_feature 860294..861944 /Source="Nicolas_S_feature" /locus_tag="new_860294_861944" /HighExp="Etha, S6, S8, S5, S7, Gly, Salt, LoTm, S4, Diami" /AntisenseName="yfkL" /AntisenseCor="-0.52109661167911703" /AntisenseRegPval="-19.399999999999999" /CDS_PredictionProba="NA" /TUshortSig="SigB" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S273" CDS complement(860303..861493) /gene="yfkL" /locus_tag="BSU_07860" /old_locus_tag="BSU07860" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 15849754, 16828913, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="efflux transporter" /protein_id="NP_388667.1" /db_xref="EnsemblGenomes-Gn:BSU07860" /db_xref="EnsemblGenomes-Tr:CAB12615" /db_xref="GOA:O34597" /db_xref="InterPro:IPR005829" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12928" /db_xref="UniProtKB/Swiss-Prot:O34597" /translation="MQTTSIKTASGMYINYFFLGMVNIILASNMSSLTKQWNTDPTGI SYVIAAIGFGKLLTYGISGVLSDKIGRKPLVVASAGIMAVFLVGIPLSPSYELAFVFA LLAGVANSAMDAGTYPALTELFPSASGSANVLVKAFMSVGAALLPLLITFLADHSMFY GFAFYLPAAVYLLNIIYLSTLSFPKKHKKPTNSGQQESPVFLSEPVFQKEGTALIIIG FTSTALFTVSQIWLPSYAQKAAGLAESASVQLLSYYSIGSLASVLLLAVLLNRWVKPV FITLLYPIITLCTLAVMLTVHIPVVLDITAFFLGFSTAGVFQITITLMTELFWKRKGT VTGIVATASSLASILLPIATGLIAKAGGIAHIFIFDFGIAVIGTAAAAFLYYRYKKLT GAQA*" gene complement(860303..861493) /gene="yfkL" /locus_tag="BSU_07860" /old_locus_tag="BSU07860" S_feature complement(861494..861585) /Source="Nicolas_S_feature" /locus_tag="new_861494_861585_c" /HighExp="C90, MG 10, BMM, MG-0.2, MG t5, MG 5, MG-0.1, UNK1, HPh, LPh" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.994" /TUlongSig="NA" /TUlongPSig="NA" /label="S274" CDS complement(861586..861801) /gene="yfkK" /locus_tag="BSU_07870" /old_locus_tag="BSU07870" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388668.1" /db_xref="EnsemblGenomes-Gn:BSU07870" /db_xref="EnsemblGenomes-Tr:CAB12616" /db_xref="InterPro:IPR009507" /db_xref="SubtiList:BG12927" /db_xref="UniProtKB/Swiss-Prot:O35019" /translation="MSSPNTETLTQMIEEISQKLNMLNVGVIKAEDFSDEKIEDLTYL HRMVMKKESFSPSEMQAIAQELASLRK*" gene complement(861586..861801) /gene="yfkK" /locus_tag="BSU_07870" /old_locus_tag="BSU07870" downshifts complement(861645) /Source="Nicolas_upshifts" /id="D392" /incds=0 /nref=1 /ntot=131 /MaxReadThrough="3.65318" /MaxDrop="2.45155" /score="16.183887" /energy="-11.6" /TU="U602" /idTUdmin="U602" /TUdmin="-1342" /isTUend="FALSE" promotor_-10 complement(861833..861852) /Source="Nicolas_upshift_promotors" /id="U602" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.593406593406593" /psig="0.994005994005994" /xcortree=3074 /SigmaFactorBS="tcacttttttggaatgaacagcctgcttttagaatagggTTt ttttctgatggaaTTCTGTTAGAATAAAACATAcctatattgcgcatagaaaggatgg a" /listShort="yfkK, S274, yfkL" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(861847) /Source="Nicolas_upshifts" /id="U602" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.593406593406593" /psig="0.994005994005994" /xcortree=3074 /SigmaFactorBS="tcacttttttggaatgaacagcctgcttttagaatagggTTt ttttctgatggaaTTCTGTTAGAATAAAACATAcctatattgcgcatagaaaggatgg a" /listShort="yfkK, S274, yfkL" /GFF_Attribute="listLong" promotor_-35 complement(861867..861868) /Source="Nicolas_upshift_promotors" /id="U602" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.593406593406593" /psig="0.994005994005994" /xcortree=3074 /SigmaFactorBS="tcacttttttggaatgaacagcctgcttttagaatagggTTt ttttctgatggaaTTCTGTTAGAATAAAACATAcctatattgcgcatagaaaggatgg a" /listShort="yfkK, S274, yfkL" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 861914..861921 /Source="Nicolas_upshift_promotors" /id="U603" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.82017982017982" /psig="0.994005994005994" /xcortree=134 /SigmaFactorBS="gctgttcattccaaaaaagtgaagacatCAGTTGAAaagaaa atgaacatCCTACTAAGATATTCATGAAggtttctttttagagaaataggggcaaaga a" /listShort="yfkJ, yfkI, yfkH, S275" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 861936..861955 /Source="Nicolas_upshift_promotors" /id="U603" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.82017982017982" /psig="0.994005994005994" /xcortree=134 /SigmaFactorBS="gctgttcattccaaaaaagtgaagacatCAGTTGAAaagaaa atgaacatCCTACTAAGATATTCATGAAggtttctttttagagaaataggggcaaaga a" /listShort="yfkJ, yfkI, yfkH, S275" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 861946 /Source="Nicolas_upshifts" /id="U603" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.82017982017982" /psig="0.994005994005994" /xcortree=134 /SigmaFactorBS="gctgttcattccaaaaaagtgaagacatCAGTTGAAaagaaa atgaacatCCTACTAAGATATTCATGAAggtttctttttagagaaataggggcaaaga a" /listShort="yfkJ, yfkI, yfkH, S275" /GFF_Attribute="listLong" CDS 862004..862474 /gene="yfkJ" /locus_tag="BSU_07880" /old_locus_tag="BSU07880" /EC_number="3.1.3.48" /function="16.8: Protect" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:15995210" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15995210; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="protein-tyrosine-phosphatase" /protein_id="NP_388669.1" /db_xref="EnsemblGenomes-Gn:BSU07880" /db_xref="EnsemblGenomes-Tr:CAB12617" /db_xref="GOA:O35016" /db_xref="InterPro:IPR017867" /db_xref="InterPro:IPR023485" /db_xref="InterPro:IPR036196" /db_xref="PDB:4ETM" /db_xref="SubtiList:BG12926" /db_xref="UniProtKB/Swiss-Prot:O35016" /translation="MISVLFVCLGNICRSPMAEAIFRDLAAKKGLEGKIKADSAGIGG WHIGNPPHEGTQEILRREGISFDGMLARQVSEQDLDDFDYIIAMDAENIGSLRSMAGF KNTSHIKRLLDYVEDSDLADVPDPYYTGNFEEVCQLIKTGCEQLLASIQKEKQL*" gene 862004..862474 /gene="yfkJ" /locus_tag="BSU_07880" /old_locus_tag="BSU07880" CDS 862492..862812 /gene="yfkI" /locus_tag="BSU_07890" /old_locus_tag="BSU07890" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 15995210" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388670.1" /db_xref="EnsemblGenomes-Gn:BSU07890" /db_xref="EnsemblGenomes-Tr:CAB12618" /db_xref="SubtiList:BG12925" /db_xref="UniProtKB/Swiss-Prot:O34418" /translation="MNNERLMLKGIFLGAAAGAALSLLHKPTRQACGMRWLTCKHKLS LYKSNPELLKNTVITKVDEAKKLARTLSKEVDFVNQQVKELKKTTPQVMELVQETKEH FSKK*" gene 862492..862812 /gene="yfkI" /locus_tag="BSU_07890" /old_locus_tag="BSU07890" CDS 862836..863663 /gene="rbn" /locus_tag="BSU_07900" /old_locus_tag="BSU07900" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 11222749, 12794188, 15849754, 16850406, 15764599; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative ribonuclease BN" /protein_id="NP_388671.1" /db_xref="EnsemblGenomes-Gn:BSU07900" /db_xref="EnsemblGenomes-Tr:CAB12619" /db_xref="GOA:O34437" /db_xref="InterPro:IPR017039" /db_xref="SubtiList:BG12924" /db_xref="UniProtKB/Swiss-Prot:O34437" /translation="MSFLKELFSRYTLHEGQSKSAELAYFFLLSLFPFLIFMLTLTAY LPLSTDDVLGVIEQYAPASAMSLVESITHQTLNNRNGGLLSFGIIAALWSASNGMNAI VRSLNHAYDVEENRSFIIVRLTSIFLTIAMVFTILVALLLPVFGREIGRLASDFVGAS DLFLSVWAAIRWGVSPLVLLIVFSALYVIAPNKKLSLRFVMPGAVFATIGWIIVSTLF SFYVSTFANYSATYGSIGGIIVLMIWFYLSGILIILGGEINALLHKRKKLPDENPYH* " gene 862836..863663 /gene="rbn" /locus_tag="BSU_07900" /old_locus_tag="BSU07900" promotor_-35 863642..863648 /Source="Nicolas_upshift_promotors" /id="U604" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.974025974025974" /psig="0.974025974025974" /xcortree=847 /SigmaFactorBS="acataaacgtaaaaagcttccTGATGAAaatccctaccatta GCGCACCCTATAaacgaacttcggttcaaaaagaagtcggggggatatcgtgatgacc a" /listShort="S275" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 863663..863674 /Source="Nicolas_upshift_promotors" /id="U604" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.974025974025974" /psig="0.974025974025974" /xcortree=847 /SigmaFactorBS="acataaacgtaaaaagcttccTGATGAAaatccctaccatta GCGCACCCTATAaacgaacttcggttcaaaaagaagtcggggggatatcgtgatgacc a" /listShort="S275" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 863681..863837 /Source="Nicolas_S_feature" /locus_tag="new_863681_863837" /HighExp="S8, Etha, S6, Salt, S7, S5, ferm, nit, BT, Sw" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.99976299999999996" /TUshortSig="SigGF, SigA, SigB" /TUshortPSig="0.974, 0.994, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S275" upshifts 863681 /Source="Nicolas_upshifts" /id="U604" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.974025974025974" /psig="0.974025974025974" /xcortree=847 /SigmaFactorBS="acataaacgtaaaaagcttccTGATGAAaatccctaccatta GCGCACCCTATAaacgaacttcggttcaaaaagaagtcggggggatatcgtgatgacc a" /listShort="S275" /GFF_Attribute="listLong" downshifts complement(863713) /Source="Nicolas_upshifts" /id="D393" /incds=0 /nref=1 /ntot=4 /MaxReadThrough="1.22239" /MaxDrop="3.61507" /score="-5.45682213" /energy="-3" /TU="NA" /idTUdmin="U606" /TUdmin=440 /isTUend="FALSE" downshifts 863812 /Source="Nicolas_upshifts" /id="D394" /incds=0 /nref=144 /ntot=253 /MaxReadThrough="1.4253" /MaxDrop="6.85849" /score="25.8200126" /energy="-17.9" /TU="NA" /idTUdmin="U603" /TUdmin="-1" /isTUend="TRUE" CDS complement(863862..865037) /gene="yfkF" /locus_tag="BSU_07910" /old_locus_tag="BSU07910" /function="16.1: Circulate" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative efflux transporter" /protein_id="NP_388672.1" /db_xref="EnsemblGenomes-Gn:BSU07910" /db_xref="EnsemblGenomes-Tr:CAB12620" /db_xref="GOA:O34929" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12923" /db_xref="UniProtKB/Swiss-Prot:O34929" /translation="MSRFHFFILVLLVSISGFSQGMLLPVISIIFETNGESAAINGLH ATGLYIGVLLASPFMEAPLRKLGFKPLIVMGGSIVILSLFGFIWLQSVWVWFLLRLFI GIGDHMLHFSTQTWVTSMSSKQNRGRNLSIYGLSFGLGFAAGPFMVPLVKLSPSLPFI VSGCISLFAWLFVFFLQNAYPETSPHETKSDNSFRRFYQAMLFGWVAFMPTFGYGFLE TALNGSFPVYALRLGISVDAVAIILPAFAIGSIIFQFPLGILSDKYGRRNVLLVILLT GALCFFIAGVFPSPYVIGGCFFIAGMAVGSTFTLGISYMTDLLPPHLLPAGNLLCGIT FSLGSILGPVAGGWYMQTFESANLFYFITLTLSSVWLALVLGKPKSWSPAETYSSSS* " gene complement(863862..865037) /gene="yfkF" /locus_tag="BSU_07910" /old_locus_tag="BSU07910" downshifts complement(863867) /Source="Nicolas_upshifts" /id="D395" /incds=0 /nref=1 /ntot=97 /MaxReadThrough="0.37084" /MaxDrop="3.28031" /score="3.2266059" /energy="-14.1" /TU="NA" /idTUdmin="U606" /TUdmin=286 /isTUend="FALSE" promotor_-35 864474..864480 /Source="Nicolas_upshift_promotors" /id="U605" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=204 /SigmaFactorBS="cctgataaaatcgcctgaaactattgtctgatttGGTTTCAt gaggactggtttccGGGTATGCATTTTGTAGAAagaaaacaaaaagccacgcaaacag a" /listShort="S276, yfkE, yfkD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 864496..864514 /Source="Nicolas_upshift_promotors" /id="U605" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=204 /SigmaFactorBS="cctgataaaatcgcctgaaactattgtctgatttGGTTTCAt gaggactggtttccGGGTATGCATTTTGTAGAAagaaaacaaaaagccacgcaaacag a" /listShort="S276, yfkE, yfkD" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 864500..865153 /Source="Nicolas_S_feature" /locus_tag="new_864500_865153" /HighExp="Etha, M9-stat, Salt, Sw, Gly, B60, Heat, LPhT, HiTm, T0.30H" /AntisenseName="yfkF" /AntisenseCor="-0.18505347560608301" /AntisenseRegPval="-2.6" /CDS_PredictionProba="NA" /TUshortSig="SigB" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S276" upshifts 864500 /Source="Nicolas_upshifts" /id="U605" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=204 /SigmaFactorBS="cctgataaaatcgcctgaaactattgtctgatttGGTTTCAt gaggactggtttccGGGTATGCATTTTGTAGAAagaaaacaaaaagccacgcaaacag a" /listShort="S276, yfkE, yfkD" /GFF_Attribute="listLong" promotor_-10 complement(865062..865081) /Source="Nicolas_upshift_promotors" /id="U606" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.74925074925075" /psig=1 /xcortree=3138 /SigmaFactorBS="gagggcaaatgtatagcgtgatataggcttttttcAGGTTGC CtgcttttggaaaaCGTTGTACGATCAACATAGAttccatataaggagaactgacacg a" /listShort="yfkF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(865077) /Source="Nicolas_upshifts" /id="U606" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.74925074925075" /psig=1 /xcortree=3138 /SigmaFactorBS="gagggcaaatgtatagcgtgatataggcttttttcAGGTTGC CtgcttttggaaaaCGTTGTACGATCAACATAGAttccatataaggagaactgacacg a" /listShort="yfkF" /GFF_Attribute="listLong" promotor_-35 complement(865095..865102) /Source="Nicolas_upshift_promotors" /id="U606" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.74925074925075" /psig=1 /xcortree=3138 /SigmaFactorBS="gagggcaaatgtatagcgtgatataggcttttttcAGGTTGC CtgcttttggaaaaCGTTGTACGATCAACATAGAttccatataaggagaactgacacg a" /listShort="yfkF" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 865143..865148 /Source="Nicolas_upshift_promotors" /id="U607" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.848151848151848" /psig="0.848151848151848" /xcortree=1179 /SigmaFactorBS="ggcaacctgaaaaaagcctatatcacgctatacatttgccct cgtgtaATCATGaaggtttttgtgaaGAATAAAAATAAAACAAGTcataaaaaaggag c" /listShort="yfkE" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 865155 /Source="Nicolas_upshifts" /id="U607" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.848151848151848" /psig="0.848151848151848" /xcortree=1179 /SigmaFactorBS="ggcaacctgaaaaaagcctatatcacgctatacatttgccct cgtgtaATCATGaaggtttttgtgaaGAATAAAAATAAAACAAGTcataaaaaaggag c" /listShort="yfkE" /GFF_Attribute="listLong" promotor_-10 865163..865181 /Source="Nicolas_upshift_promotors" /id="U607" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.848151848151848" /psig="0.848151848151848" /xcortree=1179 /SigmaFactorBS="ggcaacctgaaaaaagcctatatcacgctatacatttgccct cgtgtaATCATGaaggtttttgtgaaGAATAAAAATAAAACAAGTcataaaaaaggag c" /listShort="yfkE" /GFF_Attribute="listLong" /label="promotor_-10" CDS 865205..866260 /gene="chaA" /locus_tag="BSU_07920" /old_locus_tag="BSU07920" /function="16.8: Protect" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15849754, 16850406, 19543710, 23798403" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15849754, 16850406, 19543710, 23798403; Product type t: transporter" /codon_start=1 /transl_table=11 /product="H+/Ca2+ antiporter" /protein_id="NP_388673.1" /db_xref="EnsemblGenomes-Gn:BSU07920" /db_xref="EnsemblGenomes-Tr:CAB12621" /db_xref="GOA:O34840" /db_xref="InterPro:IPR004713" /db_xref="InterPro:IPR004798" /db_xref="InterPro:IPR004837" /db_xref="PDB:4KJR" /db_xref="PDB:4KJS" /db_xref="SubtiList:BG12922" /db_xref="UniProtKB/Swiss-Prot:O34840" /translation="MNRIFFILVAAGVPLSVIGSLMHWPSAVLFAVYCVTIIALASYM GRATESLSIIAGPRIGGLLNATFGNAVELIISLFALKEGLTGIVLASLTGSVLGNLLL VAGLSFFVGGLKYKRQEFNIHDARHNSGLLIFAIIVAFVIPEVFSVGMGNASKLNLSI GISIIMILLYVAALYFKLVTHRGVYQPNNAAQTEEEEEPEWSGKVATIVLFAATIVVA YISENLVHTFHSVAEQFGWSELFIGVIIVAIVGNAAEHASAIIMAFKNKMDIAVEIAV GSTLQIAMFVAPVLVICSIFFPTSMPLVFTLPELVAMVSAVLLMIAISNDGDSNWFEG ATLLAAYVIMAIGFFLL*" gene 865205..866260 /gene="chaA" /locus_tag="BSU_07920" /old_locus_tag="BSU07920" promotor_-35 866274..866280 /Source="Nicolas_upshift_promotors" /id="U608" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=931 /SigmaFactorBS="gatcggctttttccttctttaacctgaaaaaatgaTGGATAA caacaaagcgggatGAAAAGACTAAGggaaaatgccatagaaagagtgatatgatgaa a" /listShort="yfkD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 866295..866306 /Source="Nicolas_upshift_promotors" /id="U608" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=931 /SigmaFactorBS="gatcggctttttccttctttaacctgaaaaaatgaTGGATAA caacaaagcgggatGAAAAGACTAAGggaaaatgccatagaaagagtgatatgatgaa a" /listShort="yfkD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 866299 /Source="Nicolas_upshifts" /id="U608" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=931 /SigmaFactorBS="gatcggctttttccttctttaacctgaaaaaatgaTGGATAA caacaaagcgggatGAAAAGACTAAGggaaaatgccatagaaagagtgatatgatgaa a" /listShort="yfkD" /GFF_Attribute="listLong" CDS 866331..867125 /gene="yfkD" /locus_tag="BSU_07930" /old_locus_tag="BSU07930" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 19543710" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388674.1" /db_xref="EnsemblGenomes-Gn:BSU07930" /db_xref="EnsemblGenomes-Tr:CAB12622" /db_xref="InterPro:IPR025548" /db_xref="SubtiList:BG12921" /db_xref="UniProtKB/Swiss-Prot:O34579" /translation="MMKKLFHSTLIVLLFFSFFGVQPIHAKKQFKVPNSVASISKENT YPNASQDQPMLQPSKLAKELLDHSEVKIENPHLIKMLNESNISGTPLAVGYRATIFLG KWALGYESNETVANWEYKKINTNRADNRGGKETAEMHYAQEQQYRVKGGLTAKVPNAE DVKSMMMQKAMKKTNLPLAFETVIGAGTKRDQIYKVAPKKIGYLHAYAPAVNEKGKVT YGEVYLVLKGNKRKLVVKNVTSQGIGAWIPVQDHVTFGFQLSSLPR*" gene 866331..867125 /gene="yfkD" /locus_tag="BSU_07930" /old_locus_tag="BSU07930" downshifts 867113 /Source="Nicolas_upshifts" /id="D396" /incds=0 /nref=41 /ntot=100 /MaxReadThrough="0.82657" /MaxDrop="5.7252" /score="28.7014976" /energy="-9.5" /TU="NA" /idTUdmin="U605" /TUdmin=0 /isTUend="TRUE" CDS complement(867164..868006) /gene="mscC" /locus_tag="BSU_07940" /old_locus_tag="BSU07940" /function="16.1: Circulate" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:17665170, 18310427, 19252899" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 17665170, 18310427, 19252899; Product type t: transporter" /codon_start=1 /transl_table=11 /product="mechanosensitive ion channel" /protein_id="NP_388675.1" /db_xref="EnsemblGenomes-Gn:BSU07940" /db_xref="EnsemblGenomes-Tr:CAB12623" /db_xref="GOA:O35043" /db_xref="InterPro:IPR006685" /db_xref="InterPro:IPR010920" /db_xref="InterPro:IPR011014" /db_xref="SubtiList:BG12920" /db_xref="UniProtKB/Swiss-Prot:O35043" /translation="MRMKETLTEIFQNKIVDILLVAVILWIGVFIINRLVQLFFKRTD FIEEKKEKTIESLVRSVTQYTATIGFIFYVISLFVHDFGKILAGAGVAGIVIGFGAQS LIKDVLAGVFLIYERQLHKGDYVTVNNLFNGTVEEIGLRSLQIREWSGKLLTISNGEV RQIENYNIDFMRITESFLISFKEDPDRVYSVLEEACDMLNEELRDSLKRDEFGNPTEP FQIHGITALNKINRGVEFTVKGMVKDDDYFSASLAVRRVLVRQLYQNNVQMLEEAVRI ERTQ*" gene complement(867164..868006) /gene="mscC" /locus_tag="BSU_07940" /old_locus_tag="BSU07940" downshifts complement(867166) /Source="Nicolas_upshifts" /id="D397" /incds=0 /nref=58 /ntot=230 /MaxReadThrough="1.96922" /MaxDrop="4.8789" /score="23.5281308" /energy="-9.8" /TU="NA" /idTUdmin="U609" /TUdmin=1 /isTUend="TRUE" CDS complement(868007..869128) /gene="yfkA" /locus_tag="BSU_07955" /old_locus_tag="BSU07955" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative Fe-S oxidoreductase, radical SAM superfamily" /protein_id="NP_388677.2" /db_xref="EnsemblGenomes-Gn:BSU07955" /db_xref="EnsemblGenomes-Tr:CAB12625" /db_xref="GOA:O34400" /db_xref="InterPro:IPR007197" /db_xref="InterPro:IPR013785" /db_xref="InterPro:IPR014866" /db_xref="InterPro:IPR031004" /db_xref="InterPro:IPR034395" /db_xref="SubtiList:BG12918" /db_xref="UniProtKB/Swiss-Prot:O34400" /translation="MTQNTKLRPITPEFDPWEAYMDVDQYGDMQLTNVEFTTTTLCNM RCEHCAVGYTLQPKDPNALPIDLLLKRLEEIPRLRSISITGGEPMLSLKSVKEYVVPL LKYAHERGVRTQINSNLTLDIERYEWIIPYLDVLHISHNWGTVEDFAEIGFAMMDRKP TFEQRARYFEKMIENSRTLVDAGVMVSAETMLNKRTLPHIEHIHRQITEDMKCQRHEV HPMYPSDFASALESLSLKEMRQAIHRLLDIRDENTWMLFGTLPFYACSPDEDDQKLLR RLRAAKNVTVRNDPDGRSRLNVNIFDGNIIVTDFGDTPPLGNIQTDSLPSAYEKWRET KLAKELSCHCPNVRCLGPNVLVKNSYYQDTDFTKRQARS*" gene complement(868007..869128) /gene="yfkA" /locus_tag="BSU_07955" /old_locus_tag="BSU07955" promotor_-10 complement(869169..869188) /Source="Nicolas_upshift_promotors" /id="U609" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.942057942057942" /psig=1 /xcortree=2517 /SigmaFactorBS="atggtagctcattttttgccgtttttcaatcgccgcgctACT TGcgatcttggcaaatcAGGTCTAAAATTAACTGTTGgcagcgttagtatgcccattt a" /listShort="yfkA, yfkC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(869187) /Source="Nicolas_upshifts" /id="U609" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.942057942057942" /psig=1 /xcortree=2517 /SigmaFactorBS="atggtagctcattttttgccgtttttcaatcgccgcgctACT TGcgatcttggcaaatcAGGTCTAAAATTAACTGTTGgcagcgttagtatgcccattt a" /listShort="yfkA, yfkC" /GFF_Attribute="listLong" promotor_-35 complement(869204..869208) /Source="Nicolas_upshift_promotors" /id="U609" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.942057942057942" /psig=1 /xcortree=2517 /SigmaFactorBS="atggtagctcattttttgccgtttttcaatcgccgcgctACT TGcgatcttggcaaatcAGGTCTAAAATTAACTGTTGgcagcgttagtatgcccattt a" /listShort="yfkA, yfkC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 869216..869223 /Source="Nicolas_upshift_promotors" /id="U610" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.537462537462537" /psig=1 /xcortree=574 /SigmaFactorBS="ctgatttgccaagatcgcaagtagcgcggCGATTGAAaaacg gcaaaaaaTGAGCTACCATAATAAAAAAtgaatggaggaacagaatggggaacgccgt a" /listShort="yfjT, pdaA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 869237..869256 /Source="Nicolas_upshift_promotors" /id="U610" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.537462537462537" /psig=1 /xcortree=574 /SigmaFactorBS="ctgatttgccaagatcgcaagtagcgcggCGATTGAAaaacg gcaaaaaaTGAGCTACCATAATAAAAAAtgaatggaggaacagaatggggaacgccgt a" /listShort="yfjT, pdaA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 869247 /Source="Nicolas_upshifts" /id="U610" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.537462537462537" /psig=1 /xcortree=574 /SigmaFactorBS="ctgatttgccaagatcgcaagtagcgcggCGATTGAAaaacg gcaaaaaaTGAGCTACCATAATAAAAAAtgaatggaggaacagaatggggaacgccgt a" /listShort="yfjT, pdaA" /GFF_Attribute="listLong" CDS 869273..869458 /gene="yfjT" /locus_tag="BSU_07970" /old_locus_tag="BSU07970" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 22720735" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388678.1" /db_xref="EnsemblGenomes-Gn:BSU07970" /db_xref="EnsemblGenomes-Tr:CAB12626" /db_xref="SubtiList:BG12916" /db_xref="UniProtKB/Swiss-Prot:O35041" /translation="MGNAVNNKDQQIDYLKNRLDMFMNVIDSLDPEATDVEDIDRLIS MLDDLEAKYERFKKDWE*" gene 869273..869458 /gene="yfjT" /locus_tag="BSU_07970" /old_locus_tag="BSU07970" downshifts 869437 /Source="Nicolas_upshifts" /id="D398" /incds=0 /nref=15 /ntot=177 /MaxReadThrough="3.03457" /MaxDrop="3.24661" /score="14.1645187" /energy="-6.4" /TU="U610" /idTUdmin="U610" /TUdmin="-559" /isTUend="FALSE" promotor_-35 869501..869507 /Source="Nicolas_upshift_promotors" /id="U611" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.95004995004995" /psig="0.95004995004995" /xcortree=930 /SigmaFactorBS="gaataaaaccgcgtgcccgccgcggtttttttattggcataa agcaacAGTATAAaacaaagtctctatCTGTAAAATAAGaaaaaatgcagaaggagcg c" /listShort="pdaA" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 869513 /Source="Nicolas_upshifts" /id="U611" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.95004995004995" /psig="0.95004995004995" /xcortree=930 /SigmaFactorBS="gaataaaaccgcgtgcccgccgcggtttttttattggcataa agcaacAGTATAAaacaaagtctctatCTGTAAAATAAGaaaaaatgcagaaggagcg c" /listShort="pdaA" /GFF_Attribute="listLong" promotor_-10 869522..869533 /Source="Nicolas_upshift_promotors" /id="U611" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.95004995004995" /psig="0.95004995004995" /xcortree=930 /SigmaFactorBS="gaataaaaccgcgtgcccgccgcggtttttttattggcataa agcaacAGTATAAaacaaagtctctatCTGTAAAATAAGaaaaaatgcagaaggagcg c" /listShort="pdaA" /GFF_Attribute="listLong" /label="promotor_-10" CDS 869559..870350 /gene="pdaA" /locus_tag="BSU_07980" /old_locus_tag="BSU07980" /EC_number="3.5.1.-" /function="16.11: Scavenge (Catabolism)" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:14679227, 15687192" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14679227, 15687192; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="exported peptidoglycan N-acetylmuramic acid deacetylase" /protein_id="NP_388679.1" /db_xref="EnsemblGenomes-Gn:BSU07980" /db_xref="EnsemblGenomes-Tr:CAB12627" /db_xref="GOA:O34928" /db_xref="InterPro:IPR002509" /db_xref="InterPro:IPR011330" /db_xref="InterPro:IPR014235" /db_xref="PDB:1NY1" /db_xref="PDB:1W17" /db_xref="PDB:1W1A" /db_xref="PDB:1W1B" /db_xref="SubtiList:BG12915" /db_xref="UniProtKB/Swiss-Prot:O34928" /translation="MKWMCSICCAAVLLAGGAAQAEAVPNEPINWGFKRSVNHQPPDA GKQLNSLIEKYDAFYLGNTKEKTIYLTFDNGYENGYTPKVLDVLKKHRVTGTFFVTGH FVKDQPQLIKRMSDEGHIIGNHSFHHPDLTTKTADQIQDELDSVNEEVYKITGKQDNL YLRPPRGVFSEYVLKETKRLGYQTVFWSVAFVDWKINNQKGKKYAYDHMIKQAHPGAI YLLHTVSRDNAEALDDAITDLKKQGYTFKSIDDLMFEKEMRLPSL*" gene 869559..870350 /gene="pdaA" /locus_tag="BSU_07980" /old_locus_tag="BSU07980" downshifts 870348 /Source="Nicolas_upshifts" /id="D399" /incds=0 /nref=1 /ntot=36 /MaxReadThrough="2.12067" /MaxDrop="3.4013" /score="14.4741934" /energy="-10.2" /TU="NA" /idTUdmin="U611" /TUdmin=22 /isTUend="TRUE" CDS complement(870388..871248) /gene="yfjR" /locus_tag="BSU_07990" /old_locus_tag="BSU07990" /EC_number="1.1.1.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 20512483; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative beta-hydroxyacid dehydrogenase" /protein_id="NP_388680.2" /db_xref="EnsemblGenomes-Gn:BSU07990" /db_xref="EnsemblGenomes-Tr:CAB12628" /db_xref="GOA:O34969" /db_xref="InterPro:IPR006115" /db_xref="InterPro:IPR008927" /db_xref="InterPro:IPR013328" /db_xref="InterPro:IPR015815" /db_xref="InterPro:IPR029154" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG12914" /db_xref="UniProtKB/Swiss-Prot:O34969" /translation="MKIAVIGLGNMGQPIARNVLQAGYELTVYNRTKQKTEDLVTEGA QAADTPRLAAKSADIVITMLADDDSVSTVTFGEDGLLEGLAENGIHISMSTISVEFSE KLAAAHAEKGQFFLAAPVLGRPDAAAKAALRIITAGPAEAKQAAKPLLDSLSQQIFDV GEESKTANAAKISINFLLVSMLEALSESFLMMEKYGLEQKQFLEIASALFGSPVYQNY GTIMAEQKFEPAGFKMSLGLKDTNLALAAAKRVSANLPLAELAKSHFESGIEKGFGDL DWAALIKCIK*" gene complement(870388..871248) /gene="yfjR" /locus_tag="BSU_07990" /old_locus_tag="BSU07990" downshifts complement(870402) /Source="Nicolas_upshifts" /id="D400" /incds=0 /nref=15 /ntot=193 /MaxReadThrough="2.61589" /MaxDrop="3.98341" /score="-1.3382901" /energy="-12.1" /TU="NA" /idTUdmin="U612" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(871268..871287) /Source="Nicolas_upshift_promotors" /id="U612" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.834165834165834" /psig=1 /xcortree=1961 /SigmaFactorBS="agcgagcagctgttcttttttgttgtaagccgatcgCTATgc atattctgttcatATTGTTTATAATGGAAAAAAtattcagggagtgattagattgaaa a" /listShort="yfjR" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(871282) /Source="Nicolas_upshifts" /id="U612" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.834165834165834" /psig=1 /xcortree=1961 /SigmaFactorBS="agcgagcagctgttcttttttgttgtaagccgatcgCTATgc atattctgttcatATTGTTTATAATGGAAAAAAtattcagggagtgattagattgaaa a" /listShort="yfjR" /GFF_Attribute="listLong" promotor_-35 complement(871303..871306) /Source="Nicolas_upshift_promotors" /id="U612" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.834165834165834" /psig=1 /xcortree=1961 /SigmaFactorBS="agcgagcagctgttcttttttgttgtaagccgatcgCTATgc atattctgttcatATTGTTTATAATGGAAAAAAtattcagggagtgattagattgaaa a" /listShort="yfjR" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(871347..872306) /gene="yfjQ" /locus_tag="BSU_08000" /old_locus_tag="BSU08000" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 14563871, 24415722; Product type t: transporter" /codon_start=1 /transl_table=11 /product="divalent cation (octahedral coordination) transporter" /protein_id="NP_388681.1" /db_xref="EnsemblGenomes-Gn:BSU08000" /db_xref="EnsemblGenomes-Tr:CAB12629" /db_xref="GOA:O31543" /db_xref="InterPro:IPR002523" /db_xref="InterPro:IPR004488" /db_xref="SubtiList:BG12913" /db_xref="UniProtKB/Swiss-Prot:O31543" /translation="MINITAITTEHQLLKNIPIERVEQPDIAWYWVDFYGPEDTETAL LRDFFHFHPLAIEDCFQHMQRPKLDHYDGYRFYVIHALNKETLETEEVDIFQGEKFVV TFHLHETPGIAKVRERLYASPDILKKGPGHISYMIMDQLVDEYFPLVYKIEDRLNEIE ESRPHKTYGTLMNEVFDLRTDLLHLRRTIIPMRDLLYRILSLDHVKEQRETKAYFSDI YDHLLKLSEIVESNRDMTSDLRDSYVTLNSNRMNAIMMTLTIVSTIFIPLTFIAGVYG MNFDFMPELHWKYGYFAVLGLMAALVIGMLIWFVHKGWFNIFK*" gene complement(871347..872306) /gene="yfjQ" /locus_tag="BSU_08000" /old_locus_tag="BSU08000" downshifts complement(871370) /Source="Nicolas_upshifts" /id="D401" /incds=0 /nref=137 /ntot=224 /MaxReadThrough="2.29296" /MaxDrop="4.2496" /score="10.2736001" /energy="-7.5" /TU="NA" /idTUdmin="U613" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(872317..872336) /Source="Nicolas_upshift_promotors" /id="U613" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.888111888111888" /psig="0.993006993006993" /xcortree=1816 /SigmaFactorBS="tggaattaggcagagagtaccgtatACTTttctcataaagac cgCATGATATAATGGCAGGTGGagggttgtttatgatcaacattaccgcaatcacaac a" /listShort="yfjQ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(872320) /Source="Nicolas_upshifts" /id="U613" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.888111888111888" /psig="0.993006993006993" /xcortree=1816 /SigmaFactorBS="tggaattaggcagagagtaccgtatACTTttctcataaagac cgCATGATATAATGGCAGGTGGagggttgtttatgatcaacattaccgcaatcacaac a" /listShort="yfjQ" /GFF_Attribute="listLong" promotor_-35 complement(872352..872355) /Source="Nicolas_upshift_promotors" /id="U613" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.888111888111888" /psig="0.993006993006993" /xcortree=1816 /SigmaFactorBS="tggaattaggcagagagtaccgtatACTTttctcataaagac cgCATGATATAATGGCAGGTGGagggttgtttatgatcaacattaccgcaatcacaac a" /listShort="yfjQ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 872367..872371 /Source="Nicolas_upshift_promotors" /id="U614" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.832167832167832" /psig="0.999000999001" /xcortree=2271 /SigmaFactorBS="atgcggtctttatgagaaaagtatacggtactcTCTGCctaa ttccagcggCATGTTATACTGAACAAAAAcggaaaaaagggtggatctcatgtggaag g" /listShort="yfjP, S277, yfjO" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 872385..872404 /Source="Nicolas_upshift_promotors" /id="U614" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.832167832167832" /psig="0.999000999001" /xcortree=2271 /SigmaFactorBS="atgcggtctttatgagaaaagtatacggtactcTCTGCctaa ttccagcggCATGTTATACTGAACAAAAAcggaaaaaagggtggatctcatgtggaag g" /listShort="yfjP, S277, yfjO" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 872394 /Source="Nicolas_upshifts" /id="U614" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.832167832167832" /psig="0.999000999001" /xcortree=2271 /SigmaFactorBS="atgcggtctttatgagaaaagtatacggtactcTCTGCctaa ttccagcggCATGTTATACTGAACAAAAAcggaaaaaagggtggatctcatgtggaag g" /listShort="yfjP, S277, yfjO" /GFF_Attribute="listLong" CDS 872425..873288 /gene="yfjP" /locus_tag="BSU_08010" /old_locus_tag="BSU08010" /EC_number="3.2.2.21" /function="16.8: Protect" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative DNA-3-methyladenine glycosylase" /protein_id="NP_388682.1" /db_xref="EnsemblGenomes-Gn:BSU08010" /db_xref="EnsemblGenomes-Tr:CAB12630" /db_xref="GOA:O31544" /db_xref="InterPro:IPR003265" /db_xref="InterPro:IPR011257" /db_xref="InterPro:IPR023170" /db_xref="SubtiList:BG12912" /db_xref="UniProtKB/Swiss-Prot:O31544" /translation="MWKEKVSVTPPYHFDRVLDRLSLDPLNAVDREAREVRVPIRNQA GDVCIVKVQALGHAGEPEFLVSGETDQGEMMKEIKRIFQWENHLQHVLDHFSKTSLSA IFEEHAGTPLVLDYSVYNCMMKCIIHQQLNLSFAYTLTERFVHAFGEQKDGVWCYPKP ETIAELDYQDLRDLQFSMRKAEYTIDTSRMIAEGTLSLSELPHMADEDIMKKLIKIRG IGPWTVQNVLMFGLGRPNLFPLADIGLQNAIKRHFQLDDKPAKDVMLAMSKEWEPYLS YASLYLWRSIE*" gene 872425..873288 /gene="yfjP" /locus_tag="BSU_08010" /old_locus_tag="BSU08010" S_feature 873289..873401 /Source="Nicolas_S_feature" /locus_tag="new_873289_873401" /HighExp="BC, M40t90, LBGtran, C90, M9-stat, M0t90, Lbtran, Sw, M40t45, B60" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S277" CDS 873402..874802 /gene="yfjO" /locus_tag="BSU_08020" /old_locus_tag="BSU08020" /EC_number="2.1.1.-" /function="16.8: Protect" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative RNA methyltransferase" /protein_id="NP_388683.1" /db_xref="EnsemblGenomes-Gn:BSU08020" /db_xref="EnsemblGenomes-Tr:CAB12631" /db_xref="GOA:O31545" /db_xref="InterPro:IPR001566" /db_xref="InterPro:IPR002792" /db_xref="InterPro:IPR010280" /db_xref="InterPro:IPR012340" /db_xref="InterPro:IPR029063" /db_xref="InterPro:IPR030390" /db_xref="InterPro:IPR030391" /db_xref="SubtiList:BG12911" /db_xref="UniProtKB/Swiss-Prot:O31545" /translation="MNQQKKQAPVELKVGQTFPLTIKRLGINGEGVGYFKKKVVFVPG ALPGEEVVVQATKVQPKFSEGRIKKIRKASEHRVAPPCPVYEQCGGCQLQHLAYSQQL REKRDIVIQSLERHTKFKVENMEIKETIGMDNPWNYRNKSQFQIGRSQSGSIIAGLYG LDSHDIVPIKDCIVQHPATNKTTGIVRRILEDFNVSVYNERKRKGDVRTIVTRVGFET GEVQVVLVTAKETLPHKEEIVKAIQKRLPEVKSIIQNVNGAKTSVIFGEKTKQLAGKT VIQEVLGDVSFELSARAFFQLNPEQTVKLYDEVKKAAQLTGKEKVVDAYCGVGTIGMW VADGAKEVRGMDVIKESIDDAKKNAKKHGMANATYVTGTAEHWLPKWTKEGFRPDVVI VDPPRTGCDSTFLDTIKKVKPKRFVYVSCNPSTLAKDLQTLSKDYRVDYIQPVDMFPQ TAHVEAVARLVLKSSN*" gene 873402..874802 /gene="yfjO" /locus_tag="BSU_08020" /old_locus_tag="BSU08020" downshifts 874814 /Source="Nicolas_upshifts" /id="D402" /incds=0 /nref=198 /ntot=251 /MaxReadThrough="1.18186" /MaxDrop="5.19313" /score="11.8630961" /energy="-12.6" /TU="NA" /idTUdmin="U614" /TUdmin=0 /isTUend="TRUE" promotor_-35 875108..875115 /Source="Nicolas_upshift_promotors" /id="U615" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.98901098901099" /psig=1 /xcortree=2924 /SigmaFactorBS="tagatgtattttcataatttgtaaaattataTATTGACTtgc agttattacgtgTGAAATATTGATGATAGGAAtataaggaaagtatggcgtatatcat t" /listShort="S278, yfzA, S279" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 875131..875150 /Source="Nicolas_upshift_promotors" /id="U615" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.98901098901099" /psig=1 /xcortree=2924 /SigmaFactorBS="tagatgtattttcataatttgtaaaattataTATTGACTtgc agttattacgtgTGAAATATTGATGATAGGAAtataaggaaagtatggcgtatatcat t" /listShort="S278, yfzA, S279" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 875137 /Source="Nicolas_upshifts" /id="U615" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.98901098901099" /psig=1 /xcortree=2924 /SigmaFactorBS="tagatgtattttcataatttgtaaaattataTATTGACTtgc agttattacgtgTGAAATATTGATGATAGGAAtataaggaaagtatggcgtatatcat t" /listShort="S278, yfzA, S279" /GFF_Attribute="listLong" S_feature 875144..875427 /Source="Nicolas_S_feature" /locus_tag="new_875144_875427" /HighExp="M9-stat, T1.30H, T0.30H, T2.0H, LoTm, T3.0H, T3.30H, T1.0H, T2.30H, T4.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.69102300000000005" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S278" CDS 875428..875694 /gene="yfzA" /locus_tag="BSU_08029" /old_locus_tag="BSU08029" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="YP_003097694.1" /db_xref="EnsemblGenomes-Gn:BSU08029" /db_xref="EnsemblGenomes-Tr:CAX52581" /db_xref="GOA:C0H3X6" /db_xref="InterPro:IPR025627" /db_xref="UniProtKB/Swiss-Prot:C0H3X6" /translation="MDKVYKRSWFQTFLAFLVSQLYFNFVELTGWGPKYREMNGFPAN IVELDFFQTYLSFYDNPWFNIITVFLGVFTIIQIITGITKDIRN*" gene 875428..875694 /gene="yfzA" /locus_tag="BSU_08029" /old_locus_tag="BSU08029" promotor_-10 complement(875642..875661) /Source="Nicolas_upshift_promotors" /id="U616" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.936063936063936" /psig=1 /xcortree=2926 /SigmaFactorBS="taaataaggcatcagaagttattgctttaatttcgaatatcC TTTgttatccctgtaatTATTTGTATAATAGTGAAAActcccaagaaaacagtaataa t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(875660) /Source="Nicolas_upshifts" /id="U616" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.936063936063936" /psig=1 /xcortree=2926 /SigmaFactorBS="taaataaggcatcagaagttattgctttaatttcgaatatcC TTTgttatccctgtaatTATTTGTATAATAGTGAAAActcccaagaaaacagtaataa t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(875676..875679) /Source="Nicolas_upshift_promotors" /id="U616" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.936063936063936" /psig=1 /xcortree=2926 /SigmaFactorBS="taaataaggcatcagaagttattgctttaatttcgaatatcC TTTgttatccctgtaatTATTTGTATAATAGTGAAAActcccaagaaaacagtaataa t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 875695..876176 /Source="Nicolas_S_feature" /locus_tag="new_875695_876176" /HighExp="G180, Paraq, H2O2, G135, Oxctl, G150, C30, LoTm, S8, M9-stat" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S279" promotor_-35 876147..876150 /Source="Nicolas_upshift_promotors" /id="U617" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.591408591408591" /psig=1 /xcortree=2598 /SigmaFactorBS="atcttcaataacagggcaattattttgcgTTGGtaatatgga gaactcaTATGATATTCTATTTAGGTTggaatcctttttatccaaaaagttcaaaagc a" /listShort="S280, dusC, S281, yfjM, yfjL" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 876167..876186 /Source="Nicolas_upshift_promotors" /id="U617" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.591408591408591" /psig=1 /xcortree=2598 /SigmaFactorBS="atcttcaataacagggcaattattttgcgTTGGtaatatgga gaactcaTATGATATTCTATTTAGGTTggaatcctttttatccaaaaagttcaaaagc a" /listShort="S280, dusC, S281, yfjM, yfjL" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 876178..876425 /Source="Nicolas_S_feature" /locus_tag="new_876178_876425" /HighExp="H2O2, G180, Paraq, G150, G135, Oxctl, dia15, LBGstat, LBGexp, Diami" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S280" upshifts 876178 /Source="Nicolas_upshifts" /id="U617" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.591408591408591" /psig=1 /xcortree=2598 /SigmaFactorBS="atcttcaataacagggcaattattttgcgTTGGtaatatgga gaactcaTATGATATTCTATTTAGGTTggaatcctttttatccaaaaagttcaaaagc a" /listShort="S280, dusC, S281, yfjM, yfjL" /GFF_Attribute="listLong" CDS 876426..877403 /gene="dusC" /locus_tag="BSU_08030" /old_locus_tag="BSU08030" /EC_number="1.-.-.-" /function="16.2: Construct biomass (Anabolism)" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 11983710, 25902496; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="tRNA-dihydrouridine synthase 2" /protein_id="NP_388684.1" /db_xref="EnsemblGenomes-Gn:BSU08030" /db_xref="EnsemblGenomes-Tr:CAB12632" /db_xref="GOA:O31546" /db_xref="InterPro:IPR001269" /db_xref="InterPro:IPR013785" /db_xref="InterPro:IPR018517" /db_xref="InterPro:IPR024036" /db_xref="InterPro:IPR035587" /db_xref="SubtiList:BG12910" /db_xref="UniProtKB/Swiss-Prot:O31546" /translation="MTENFWRELPRPFFVLAPMEDVTDVVFRHVVSEAGRPDVFFTEF TNSESYCHPDGKDSVRGRLTFTEDEQPIVAHIWGDKPENFRKMSIGMAELGFKGLDIN MGCPVPNVAGNGKGSGLICRPAVAAELIQAAKAGGLPVSVKTRLGYTDVDEWREWLTH ILKQDIANLSIHLRTRAEMSKVDAHWELIPEIKKLRDEVAPDTLLTINGDIPDRQTGL KLAEQYGVDGIMIGRGIFTNPFAFEKEPKEHSSKELLDLLRLHLDLHDEYSKEEARPY KPLPRFFKIYLRGFRGASELRNQCMNTKSTDEVRALLDDFERKYLDGIE*" gene 876426..877403 /gene="dusC" /locus_tag="BSU_08030" /old_locus_tag="BSU08030" S_feature 877404..877496 /Source="Nicolas_S_feature" /locus_tag="new_877404_877496" /HighExp="G135, G180, Paraq, G150, H2O2, LBGexp, aero, dia0, Oxctl, dia15" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S281" downshifts 877453 /Source="Nicolas_upshifts" /id="D403" /incds=0 /nref=86 /ntot=218 /MaxReadThrough="3.30163" /MaxDrop="4.0519" /score="11.8630961" /energy="-12.6" /TU="U617" /idTUdmin="U618" /TUdmin="-1211" /isTUend="FALSE" promotor_-35 877537..877543 /Source="Nicolas_upshift_promotors" /id="U618" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.994005994005994" /psig="0.999000999001" /xcortree=3192 /SigmaFactorBS="gtacgcagcttttactcagcctgtcttttctctAATTTATtg taagaaaatAATGGTATATTTAGTGGAGAtatcatataaagggggagaggaaaatgaa a" /listShort="yfjM, yfjL" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 877555..877574 /Source="Nicolas_upshift_promotors" /id="U618" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.994005994005994" /psig="0.999000999001" /xcortree=3192 /SigmaFactorBS="gtacgcagcttttactcagcctgtcttttctctAATTTATtg taagaaaatAATGGTATATTTAGTGGAGAtatcatataaagggggagaggaaaatgaa a" /listShort="yfjM, yfjL" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 877564 /Source="Nicolas_upshifts" /id="U618" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.994005994005994" /psig="0.999000999001" /xcortree=3192 /SigmaFactorBS="gtacgcagcttttactcagcctgtcttttctctAATTTATtg taagaaaatAATGGTATATTTAGTGGAGAtatcatataaagggggagaggaaaatgaa a" /listShort="yfjM, yfjL" /GFF_Attribute="listLong" CDS 877599..878051 /gene="yfjM" /locus_tag="BSU_08040" /old_locus_tag="BSU08040" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388685.1" /db_xref="EnsemblGenomes-Gn:BSU08040" /db_xref="EnsemblGenomes-Tr:CAB12633" /db_xref="SubtiList:BG12909" /db_xref="UniProtKB/Swiss-Prot:O31547" /translation="MKRLCIIPCGKKKIWDVQPDAGPVRAEDAYLSPFHQACERYAKT FFDEWVILSAKHGFLRPDDLVSGNYDVTFGTGHPEIMTADELRRQFHEKGFSDIEELV MLGGKKYRSVLNAVIGEHQHISWPLSSYKGIGYMLQALNRAVEEKHEL*" gene 877599..878051 /gene="yfjM" /locus_tag="BSU_08040" /old_locus_tag="BSU08040" CDS 878081..878770 /gene="yfjL" /locus_tag="BSU_08050" /old_locus_tag="BSU08050" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388686.1" /db_xref="EnsemblGenomes-Gn:BSU08050" /db_xref="EnsemblGenomes-Tr:CAB12634" /db_xref="InterPro:IPR020523" /db_xref="SubtiList:BG11034" /db_xref="UniProtKB/Swiss-Prot:P40773" /translation="MKKLVFGLLAIVLFGCGLYIYHVWFGDPFSKNAAEQKLVSYVKQ TYPKKEIKITNGVYNAKTSEYVFEATSQSHRYPMCTKGFLHPKVTCDGIEEAYTESVA KHVNEEATKAIEADLKKAVPRFIKADAALSIENGQFTLDTKWNKKLAEKAPMSMTIQL DASGLSKTDAAKMAETVRKTLNEKGYTYSNGTIDCMQKDGDGGIGYVKYSIDFLSKAA IQSNDAEELGS*" gene 878081..878770 /gene="yfjL" /locus_tag="BSU_08050" /old_locus_tag="BSU08050" downshifts 878775 /Source="Nicolas_upshifts" /id="D404" /incds=0 /nref=31 /ntot=205 /MaxReadThrough="0.02745" /MaxDrop="3.61164" /score="23.9796437" /energy="-9" /TU="NA" /idTUdmin="U617" /TUdmin=1 /isTUend="TRUE" misc_feature 878947..878965 /Source="Nicolas_upshift_promotors" /id="U619" /multdbtbs="SigL" /comp="M18" /sig="SigL" /pcomp="0.878121878121878" /psig="0.878121878121878" /xcortree=351 /SigmaFactorBS="caaactgtctccaaagtgaagatgagaagactgattttacgg gctcaaaagacTGGCACACTTCTTGCATTTataatggtgaaccctaaatagaaggagg c" /listShort="acoA, acoB, acoC, acoL, acoR, sspH" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 878954 /Source="Nicolas_upshifts" /id="U619" /multdbtbs="SigL" /comp="M18" /sig="SigL" /pcomp="0.878121878121878" /psig="0.878121878121878" /xcortree=351 /SigmaFactorBS="caaactgtctccaaagtgaagatgagaagactgattttacgg gctcaaaagacTGGCACACTTCTTGCATTTataatggtgaaccctaaatagaaggagg c" /listShort="acoA, acoB, acoC, acoL, acoR, sspH" /GFF_Attribute="listLong" CDS 879002..880003 /gene="acoA" /locus_tag="BSU_08060" /old_locus_tag="BSU08060" /EC_number="1.1.1.303" /EC_number="2.3.1.190" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:10368162, 11274109, 22714279" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10368162, 11274109, 22714279; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="acetoin dehydrogenase E1 component (TPP-dependent alpha subunit)" /protein_id="NP_388687.1" /db_xref="EnsemblGenomes-Gn:BSU08060" /db_xref="EnsemblGenomes-Tr:CAB12635" /db_xref="GOA:O31404" /db_xref="InterPro:IPR001017" /db_xref="InterPro:IPR029061" /db_xref="SubtiList:BG12558" /db_xref="UniProtKB/Swiss-Prot:O31404" /translation="MKLLKREGLSLTEEKALWMYQKMLEIRGFEDKVHELFAQGVLPG FVHLYAGEEAVAVGVCAHLHDGDSITSTHRGHGHCIAKGCDLDGMMAEIFGKATGLCK GKGGSMHIADLDKGMLGANGIVGGGFTLACGSALTAKYKQTKNVSVCFFGDGANNQGT FHEGLNLAAVWNLPVVFVAENNGYGEATPFEYASACDSIADRAAAYNMPGVTVDGKDI LAVYQAAEEAIERARNGGGPSLIECMTYRNYGHFEGDAQTYKTKDERVEHLEEKDAIQ GFKNYLLKETDANKLSDIEQRVSESIEKAVSFSEDSPYPKDSELLTDVYVSYEKGGM* " gene 879002..880003 /gene="acoA" /locus_tag="BSU_08060" /old_locus_tag="BSU08060" CDS 880007..881035 /gene="acoB" /locus_tag="BSU_08070" /old_locus_tag="BSU08070" /EC_number="1.1.1.303" /EC_number="2.3.1.190" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:11274109, 10368162" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11274109, 10368162; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="acetoin dehydrogenase E1 component (TPP-dependent beta subunit)" /protein_id="NP_388688.1" /db_xref="EnsemblGenomes-Gn:BSU08070" /db_xref="EnsemblGenomes-Tr:CAB12636" /db_xref="GOA:O34591" /db_xref="InterPro:IPR005475" /db_xref="InterPro:IPR009014" /db_xref="InterPro:IPR029061" /db_xref="InterPro:IPR033248" /db_xref="SubtiList:BG12559" /db_xref="UniProtKB/Swiss-Prot:O34591" /translation="MARVISMSDAINEAMKLAMRKDENVLLIGEDVAGGAAVDHLQDD EAWGGVLGVTKGLVQEFGRTRVLDTPISEAGYMGAAMAAASTGLRPIAELMFNDFIGT CFDQVINQGAKFRYMFGGKAQVPITVRTTYGAGFRAAAQHSQSLYGLFTSIPGLKTVV PSNPYDAKGLLLAAIEDNDPVFFFEDKTSYNMKGEVPEDYYTIPLGKADIKREGNDVT LFAVGKQVNTALEAAAQLSERGIEAEVLDPRSLSPLDEDAIFTSLEKTNRLIIIDEAN PRCSIATDIAALVADKGFDLLDAPIKRITAPHTPVPFSPVLEDQYLPTPDKIVSVTLE LLGEPALN*" gene 880007..881035 /gene="acoB" /locus_tag="BSU_08070" /old_locus_tag="BSU08070" CDS 881049..882245 /gene="acoC" /locus_tag="BSU_08080" /old_locus_tag="BSU08080" /EC_number="2.3.1.12" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:10368162, 11274109" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10368162, 11274109; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="acetoin dehydrogenase E2 component (dihydrolipoamide acetyltransferase)" /protein_id="NP_388689.1" /db_xref="EnsemblGenomes-Gn:BSU08080" /db_xref="EnsemblGenomes-Tr:CAB12637" /db_xref="GOA:O31550" /db_xref="InterPro:IPR000089" /db_xref="InterPro:IPR001078" /db_xref="InterPro:IPR004167" /db_xref="InterPro:IPR011053" /db_xref="InterPro:IPR036625" /db_xref="SubtiList:BG12560" /db_xref="UniProtKB/Swiss-Prot:O31550" /translation="MAVKVVMPKLGMAMKQGEVSIWNKKVGDPVEKGESIASIQSEKI EMEIEAPEKGTLIDIKVKEGEEVPPGTAICYIGDANESVQEEAGAPVAEDNMPQAVQP VKQENKPAASKKDRMKISPVARKIAEKAGLDLKQLKGTGPGGRIVKDDVTKALAEQKK DQAKPVSEQKAQEIPVTGMRKVIAARMQESLANSAQLTITMKADITKLATLQKQLSPT AEERYGTKLTITHFVSRAAVLALQAHPVLNSFYQNERIITHPHVHLGMAVALENGLVV PVIRHAEKLSLIELAQSISENAKKAREGRAGSEELQGSTFSITNLGAFGVEHFTPILN PPETGILGIGASYDTPVYQGEEIVRSTILPLSLTFDHRACDGAPAAAFLKAMKTYLEE PAALIL*" gene 881049..882245 /gene="acoC" /locus_tag="BSU_08080" /old_locus_tag="BSU08080" downshifts complement(881050) /Source="Nicolas_upshifts" /id="D405" /incds=0 /nref=8 /ntot=46 /MaxReadThrough="0.481579999999999" /MaxDrop="4.16582" /score="-0.0231058321" /energy="-9.9" /TU="NA" /idTUdmin="U623" /TUdmin=4796 /isTUend="FALSE" CDS 882266..883642 /gene="acoL" /locus_tag="BSU_08090" /old_locus_tag="BSU08090" /EC_number="1.8.1.4" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:11274109, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11274109, 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="acetoin dehydrogenase E3 component (dihydrolipoamide dehydrogenase)" /protein_id="NP_388690.1" /db_xref="EnsemblGenomes-Gn:BSU08090" /db_xref="EnsemblGenomes-Tr:CAB12638" /db_xref="GOA:O34324" /db_xref="InterPro:IPR001100" /db_xref="InterPro:IPR004099" /db_xref="InterPro:IPR006258" /db_xref="InterPro:IPR012999" /db_xref="InterPro:IPR016156" /db_xref="InterPro:IPR023753" /db_xref="InterPro:IPR036188" /db_xref="SubtiList:BG12561" /db_xref="UniProtKB/Swiss-Prot:O34324" /translation="MTLAIIGGGPAGYAAAVSAAQQGRNVLLIDKGKLGGTCLNEGCI PTKSLLESANVLDKIKHADSFGIELPAGAISVDWSKMQSRKQQVVSQLVQGVQYLMKK NQIQVVKGTASFLSERKLLIEGENGKEIREADQVLIASGSEPIELPFAPFDGEWILDS KDALSLSEIPSSLVIVGGGVIGCEYAGLFARLGSQVTIIETADRLIPAEDEDIARLFQ EKLEEDGVEVHTSSRLGRVDQTAKTAIWKSGQREFKTKADYVLVAIGRKPRLDGLQLE QAGVDFSPKGIPVNGHMQTNVPHIYACGDAIGGIQLAHAAFHEGIIAASHASGRDVKI NEKHVPRCIYTSPEIACIGMTERQARSIYGDVKIGEFSFSANGKALIKQQAEGKVKIM AEPEFGEIVGVSMIGPDVTELIGQAAAIMNGEMTADMAEHFIAAHPTLSETLHEALLS TIGLAVHA*" gene 882266..883642 /gene="acoL" /locus_tag="BSU_08090" /old_locus_tag="BSU08090" downshifts 883636 /Source="Nicolas_upshifts" /id="D406" /incds=0 /nref=27 /ntot=56 /MaxReadThrough="5.75671" /MaxDrop="5.6153" /score="27.0133719" /energy="-14.7" /TU="U619" /idTUdmin="U619" /TUdmin="-2156" /isTUend="FALSE" promotor_-35 883689..883696 /Source="Nicolas_upshift_promotors" /id="U620" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.57942057942058" /psig=1 /xcortree=368 /SigmaFactorBS="ggcgcatggatataaggcgcctgcttttttatTGTTGAAAgc gctttattttTCCCCTACAATAGATGAAAAcggcgtgtaagggaggagcgatcaagga a" /listShort="acoR, sspH" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 883709..883728 /Source="Nicolas_upshift_promotors" /id="U620" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.57942057942058" /psig=1 /xcortree=368 /SigmaFactorBS="ggcgcatggatataaggcgcctgcttttttatTGTTGAAAgc gctttattttTCCCCTACAATAGATGAAAAcggcgtgtaagggaggagcgatcaagga a" /listShort="acoR, sspH" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 883717 /Source="Nicolas_upshifts" /id="U620" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.57942057942058" /psig=1 /xcortree=368 /SigmaFactorBS="ggcgcatggatataaggcgcctgcttttttatTGTTGAAAgc gctttattttTCCCCTACAATAGATGAAAAcggcgtgtaagggaggagcgatcaagga a" /listShort="acoR, sspH" /GFF_Attribute="listLong" CDS 883758..885575 /gene="acoR" /locus_tag="BSU_08100" /old_locus_tag="BSU08100" /experiment="publication(s) with functional evidences, PMID:11274109, 16944132" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11274109, 16944132; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator (AcoR-acetoin)" /protein_id="NP_388691.1" /db_xref="EnsemblGenomes-Gn:BSU08100" /db_xref="EnsemblGenomes-Tr:CAB12639" /db_xref="GOA:O31551" /db_xref="InterPro:IPR002078" /db_xref="InterPro:IPR002197" /db_xref="InterPro:IPR003018" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR025944" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR029016" /db_xref="SubtiList:BG11790" /db_xref="UniProtKB/Swiss-Prot:O31551" /translation="MNSVPNDLQTWKRFVKDGVLDEARLRKRIAESWHRCKKAEVNPY LEKGPKVLQQTELDQQSKKHSFFLTTAKPYLEKLLPAIKEMEMMALLIDSDGVVLALD GHPRALYEAKRINFVEGACWTETAVGTNAIGTALHISEPVAIQGSEHYSIASHLWNCS AAPIHHEDGSLAGVIDISCPAAGAHPHMLGIATAIAYAAERELAAKSREKELELISRF GERAASSVPMVLCNTKQHIISASMPIRTSMPDWQGRHLYELKERGYSIENAVTIGDGG TCFYLSEQKKKKAFRFNGVIGQSGRSQAMLMHLERAAATDASVCLSGETGTGKEVAAR ALHENSERRHGPFVAVNCGAIPSDLIESELFGYAEGAFTGAKRNGYKGAFQKANQGTL FLDEIGEISHSMQVALLRVLQERKITPIGGTKEIPVDIRVIAATHCDLRELAENGKIR EDLFYRLHVYPIELPPLRDRTEDIPDLFEYYKQKNHWPGDLPSDFCNVLKQWKWPGNI RELFNVFERLSIRFPDGRLRDESLPALLEAAGLPASSAEKKPAAAGVLTFREQIQKDM MIKALESAKGNVSQAAKISGIPRSTFYKRLKKFNLSAES*" gene 883758..885575 /gene="acoR" /locus_tag="BSU_08100" /old_locus_tag="BSU08100" promotor_-35 885576..885582 /Source="Nicolas_upshift_promotors" /id="U621" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.995004995004995" /psig="0.995004995004995" /xcortree=916 /SigmaFactorBS="tacaaacgcctgaaaaaattcaacttgtccgctgaatcataa AGCATACttccttcaggaaatGGAAACGTTATGtattgaaggagggtgttacgatgaa t" /listShort="sspH" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 885594 /Source="Nicolas_upshifts" /id="U621" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.995004995004995" /psig="0.995004995004995" /xcortree=916 /SigmaFactorBS="tacaaacgcctgaaaaaattcaacttgtccgctgaatcataa AGCATACttccttcaggaaatGGAAACGTTATGtattgaaggagggtgttacgatgaa t" /listShort="sspH" /GFF_Attribute="listLong" promotor_-10 885597..885608 /Source="Nicolas_upshift_promotors" /id="U621" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.995004995004995" /psig="0.995004995004995" /xcortree=916 /SigmaFactorBS="tacaaacgcctgaaaaaattcaacttgtccgctgaatcataa AGCATACttccttcaggaaatGGAAACGTTATGtattgaaggagggtgttacgatgaa t" /listShort="sspH" /GFF_Attribute="listLong" /label="promotor_-10" CDS 885629..885808 /gene="sspH" /locus_tag="BSU_08110" /old_locus_tag="BSU08110" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:10333516" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10333516; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="small acid-soluble spore protein" /protein_id="NP_388692.1" /db_xref="EnsemblGenomes-Gn:BSU08110" /db_xref="EnsemblGenomes-Tr:CAB12640" /db_xref="GOA:O31552" /db_xref="InterPro:IPR012610" /db_xref="SubtiList:BG12917" /db_xref="UniProtKB/Swiss-Prot:O31552" /translation="MNIQRAKEIVESPDMKKVTYNGVPIYIQHVNEETGTARIYPLDE PQEEHEVQLNSLKED*" gene 885629..885808 /gene="sspH" /locus_tag="BSU_08110" /old_locus_tag="BSU08110" downshifts 885792 /Source="Nicolas_upshifts" /id="D407" /incds=0 /nref=96 /ntot=181 /MaxReadThrough="1.9176" /MaxDrop="6.06509" /score="5.08326573" /energy="-12" /TU="NA" /idTUdmin="U619" /TUdmin=0 /isTUend="TRUE" CDS complement(885844..886173) /gene="yfjF" /locus_tag="BSU_08120" /old_locus_tag="BSU08120" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative membrane protein" /protein_id="NP_388693.1" /db_xref="EnsemblGenomes-Gn:BSU08120" /db_xref="EnsemblGenomes-Tr:CAB12641" /db_xref="GOA:O31553" /db_xref="InterPro:IPR003844" /db_xref="SubtiList:BG12908" /db_xref="UniProtKB/Swiss-Prot:O31553" /translation="MMLITILLFLAAGLAEIGGGYLVWLWLREAKPAGYGIAGALILI VYGILPTFQSFPSFGRVYAAYGGVFIVLAVLWGWLVDRKTPDLYDWIGAFICLIGVCV ILFAPRG*" gene complement(885844..886173) /gene="yfjF" /locus_tag="BSU_08120" /old_locus_tag="BSU08120" downshifts complement(885858) /Source="Nicolas_upshifts" /id="D408" /incds=0 /nref=96 /ntot=245 /MaxReadThrough="2.05328" /MaxDrop="6.2642" /score="34.1179702" /energy="-15.8" /TU="NA" /idTUdmin="U623" /TUdmin="-12" /isTUend="TRUE" CDS complement(886223..886681) /gene="yfjE" /locus_tag="BSU_08130" /old_locus_tag="BSU08130" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral inner membrane protein" /protein_id="NP_388694.1" /db_xref="EnsemblGenomes-Gn:BSU08130" /db_xref="EnsemblGenomes-Tr:CAB12642" /db_xref="GOA:O31554" /db_xref="InterPro:IPR035324" /db_xref="SubtiList:BG12907" /db_xref="UniProtKB/Swiss-Prot:O31554" /translation="MSEALTFESKYALLYLGGGLLAMIYGLITFFMAFPAFTSRGNVI FTIKTGPSGEIFLRKRSVLFSEVKRLYMGRHQYSLKGIFFEDIIIEKTDGKIVRIPTW NIITNPLFFEAVERYILPHLNEEAQNNWISQFTEVQRKAYLKEFENHPKL*" gene complement(886223..886681) /gene="yfjE" /locus_tag="BSU_08130" /old_locus_tag="BSU08130" S_feature complement(886682..886774) /Source="Nicolas_S_feature" /locus_tag="new_886682_886774_c" /HighExp="BI, BC, S2, Sw, HiOs, HiTm, S5, ferm, S4, nit" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.992" /TUlongSig="NA" /TUlongPSig="NA" /label="S282" CDS complement(886775..887332) /gene="yfjD" /locus_tag="BSU_08140" /old_locus_tag="BSU08140" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral inner membrane protein" /protein_id="NP_388695.1" /db_xref="EnsemblGenomes-Gn:BSU08140" /db_xref="EnsemblGenomes-Tr:CAB12643" /db_xref="GOA:O31555" /db_xref="InterPro:IPR035324" /db_xref="SubtiList:BG12906" /db_xref="UniProtKB/Swiss-Prot:O31555" /translation="MKNQEIIEVKSKMFLRIWAFVGSAGMGLACLWLFYMGITFQTKY YLLAIPAGFLFTLFCLYLFIIFFPAFTPRGNTIFRIKTGKNGEVFTDKVSVTFTDIKK IEMSRHKFSLKGIFQEDILIQTVDQKTIRIPTWNIIPNPLFFEAVERYILPHLNEEAK SNWIGQFTDIQRSAYLKEFENHPKL*" gene complement(886775..887332) /gene="yfjD" /locus_tag="BSU_08140" /old_locus_tag="BSU08140" promotor_-35 887198..887203 /Source="Nicolas_upshift_promotors" /id="U622" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1171 /SigmaFactorBS="tataaacaaaacaaggtgaacagaaagccagcaggaatggct aatagGTAATAtttcgtttgaaacgTAATACCCATATAAAAGAGccacaaacatgcta a" /listShort="S283" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 887211 /Source="Nicolas_upshifts" /id="U622" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1171 /SigmaFactorBS="tataaacaaaacaaggtgaacagaaagccagcaggaatggct aatagGTAATAtttcgtttgaaacgTAATACCCATATAAAAGAGccacaaacatgcta a" /listShort="S283" /GFF_Attribute="listLong" promotor_-10 887218..887236 /Source="Nicolas_upshift_promotors" /id="U622" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1171 /SigmaFactorBS="tataaacaaaacaaggtgaacagaaagccagcaggaatggct aatagGTAATAtttcgtttgaaacgTAATACCCATATAAAAGAGccacaaacatgcta a" /listShort="S283" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 887222..887809 /Source="Nicolas_S_feature" /locus_tag="new_887222_887809" /HighExp="S4, S5, S6, S3, S8, S7, LoTm, T5.0H, T4.0H, Pyr" /AntisenseName="yfjC" /AntisenseCor="9.3643586039105595E-2" /AntisenseRegPval="-0.9" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S283" CDS complement(887364..888131) /gene="yfjC" /locus_tag="BSU_08150" /old_locus_tag="BSU08150" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 14563871" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388696.1" /db_xref="EnsemblGenomes-Gn:BSU08150" /db_xref="EnsemblGenomes-Tr:CAB12644" /db_xref="SubtiList:BG12905" /db_xref="UniProtKB/Swiss-Prot:O31556" /translation="MKQFTISIEELLFCFYSEGFFEQGMALKQAYFPEIEDEQLGALF EAACRSLLAKDAAEYRNHQYRLKDEYCPFIHVLNDADYTVKLSKFNGQGAEQNVSCHV SKFGTYSHELLFDEQVHRITKMESSEGLLAKTDEFLHIIDTEDKRESIVTLTSNEFEK LLEGASDNPSYLKEFLEKHDHQEDVTRFANDLALRKGKMDTLMRLAYGKDNTPEVADM AFVLPGAHHTWLVTGITQNEFSILPAHKDVVNQIISK*" gene complement(887364..888131) /gene="yfjC" /locus_tag="BSU_08150" /old_locus_tag="BSU08150" CDS complement(888143..889366) /gene="yfjB" /locus_tag="BSU_08160" /old_locus_tag="BSU08160" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type s: structure" /codon_start=1 /transl_table=11 /product="putative phage protein" /protein_id="NP_388697.1" /db_xref="EnsemblGenomes-Gn:BSU08160" /db_xref="EnsemblGenomes-Tr:CAB12645" /db_xref="SubtiList:BG12904" /db_xref="UniProtKB/Swiss-Prot:O31557" /translation="MSGNIAVDPDKLEQLANDVVTELTDMENKYKDLHVELGQMILQC DPRYSSCFSGVGDAWSSGKALVTKLSDNEIFIRKTGDKFVEQDDILRKLYNAYDKYGT MTSLTALMLTQGKYYGLGLTKFVKQPSGLHTAQHSKLLLDISRAVDSSRYQKAARVLL NPKYLLKKTNRPFSDLVHKKFTKYFPQDTVDFSNSVRSYTKGFLNEAGVRSTLKDVGK TGLRFAKGNAITATLITGATETFGAGVKIAENYAKYQDKPEVLKRENAKAVGNAVNNT IFVAGGATAGAVIGGAIGSFAGPVGTVLLGAAGSYIGGVVGEQIAKYTAGFAEKAALK LKEPIHAVVDTAKKGLESAGKVVKSVNDGIDAANKSIHKGIDSAKKGMEKAKKTADSL IHGATHFLKGKFSFG*" gene complement(888143..889366) /gene="yfjB" /locus_tag="BSU_08160" /old_locus_tag="BSU08160" CDS complement(889372..889686) /gene="yfjA" /locus_tag="BSU_08170" /old_locus_tag="BSU08170" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388698.1" /db_xref="EnsemblGenomes-Gn:BSU08170" /db_xref="EnsemblGenomes-Tr:CAB12646" /db_xref="InterPro:IPR010310" /db_xref="InterPro:IPR036689" /db_xref="SubtiList:BG12903" /db_xref="UniProtKB/Swiss-Prot:O31558" /translation="MDSYKVIELANKYSAAAEEVRSSKMLLESRLSALGDAWQGKARD SFDQDFEETKAAYDQFEQELLETSQELKAAAVKIEERKAEIARMEELERKAREERHKL GR*" gene complement(889372..889686) /gene="yfjA" /locus_tag="BSU_08170" /old_locus_tag="BSU08170" promotor_-10 complement(889734..889753) /Source="Nicolas_upshift_promotors" /id="U623" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.852147852147852" /psig="0.992007992007992" /xcortree=2761 /SigmaFactorBS="cgcccttccaattcttatgaaaaggttcttttgtacGATTcg gatacatgccgaATTATTTATAATCATTTATAtaaaacatccaattgtgcgtgaattt a" /listShort="yfjA, yfjB, yfjC, yfjD, S282, yfjE, yfjF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(889747) /Source="Nicolas_upshifts" /id="U623" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.852147852147852" /psig="0.992007992007992" /xcortree=2761 /SigmaFactorBS="cgcccttccaattcttatgaaaaggttcttttgtacGATTcg gatacatgccgaATTATTTATAATCATTTATAtaaaacatccaattgtgcgtgaattt a" /listShort="yfjA, yfjB, yfjC, yfjD, S282, yfjE, yfjF" /GFF_Attribute="listLong" promotor_-35 complement(889768..889771) /Source="Nicolas_upshift_promotors" /id="U623" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.852147852147852" /psig="0.992007992007992" /xcortree=2761 /SigmaFactorBS="cgcccttccaattcttatgaaaaggttcttttgtacGATTcg gatacatgccgaATTATTTATAATCATTTATAtaaaacatccaattgtgcgtgaattt a" /listShort="yfjA, yfjB, yfjC, yfjD, S282, yfjE, yfjF" /GFF_Attribute="listLong" /label="promotor_-35" misc_feature 889978..889997 /Source="Nicolas_upshift_promotors" /id="U624" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.258741258741259" /psig="0.684315684315684" /xcortree=342 /SigmaFactorBS="cactaaagttgatcaaatgacctaagtgcgccaaacgtgtta cgggacgagctatctCATGGTATAAATGGAATTGTaaacgttatcaaggaggtcgtca t" /listShort="malA, malR, malP, malQ" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 889981 /Source="Nicolas_upshifts" /id="U624" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.258741258741259" /psig="0.684315684315684" /xcortree=342 /SigmaFactorBS="cactaaagttgatcaaatgacctaagtgcgccaaacgtgtta cgggacgagctatctCATGGTATAAATGGAATTGTaaacgttatcaaggaggtcgtca t" /listShort="malA, malR, malP, malQ" /GFF_Attribute="listLong" CDS 890022..891371 /gene="malA" /locus_tag="BSU_08180" /old_locus_tag="BSU08180" /EC_number="3.2.1.122" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:9765262, 10329789, 11489864, 15341727, 15670594, 16707683, 17676871, 20698522" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9765262, 10329789, 11489864, 15341727, 15670594, 16707683, 17676871, 20698522; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="6-phospho-alpha-glucosidase" /protein_id="NP_388699.1" /db_xref="EnsemblGenomes-Gn:BSU08180" /db_xref="EnsemblGenomes-Tr:CAB12647" /db_xref="GOA:P54716" /db_xref="InterPro:IPR001088" /db_xref="InterPro:IPR015955" /db_xref="InterPro:IPR019802" /db_xref="InterPro:IPR022616" /db_xref="InterPro:IPR036291" /db_xref="PDB:1U8X" /db_xref="SubtiList:BG11839" /db_xref="UniProtKB/Swiss-Prot:P54716" /translation="MKKKSFSIVIAGGGSTFTPGIVLMLLDHLEEFPIRKLKLYDNDK ERQDRIAGACDVFIREKAPDIEFAATTDPEEAFTDVDFVMAHIRVGKYAMRALDEQIP LKYGVVGQETCGPGGIAYGMRSIGGVLEILDYMEKYSPDAWMLNYSNPAAIVAEATRR LRPNSKILNICDMPVGIEDRMAQILGLSSRKEMKVRYYGLNHFGWWTSIQDQEGNDLM PKLKEHVSQYGYIPKTEAEAVEASWNDTFAKARDVQAADPDTLPNTYLQYYLFPDDMV KKSNPNHTRANEVMEGREAFIFSQCDMITREQSSENSEIKIDDHASYIVDLARAIAYN TGERMLLIVENNGAIANFDPTAMVEVPCIVGSNGPEPITVGTIPQFQKGLMEQQVSVE KLTVEAWAEKSFQKLWQALILSKTVPNARVARLILEDLVEANKDFWPELDQSPTRIS* " gene 890022..891371 /gene="malA" /locus_tag="BSU_08180" /old_locus_tag="BSU08180" misc_feature 891400..891419 /Source="Nicolas_upshift_promotors" /id="U625" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.97902097902098" /psig=1 /xcortree=3083 /SigmaFactorBS="cttgatcaaagcccaacccgcatatcataaatgaaattcccc cattttcgaatctgtaATTGTATATAATAGAAAGAAaatggggggatctgatatgcag c" /listShort="malR, malP" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 891402 /Source="Nicolas_upshifts" /id="U625" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.97902097902098" /psig=1 /xcortree=3083 /SigmaFactorBS="cttgatcaaagcccaacccgcatatcataaatgaaattcccc cattttcgaatctgtaATTGTATATAATAGAAAGAAaatggggggatctgatatgcag c" /listShort="malR, malP" /GFF_Attribute="listLong" CDS 891436..892200 /gene="malR" /locus_tag="BSU_08190" /old_locus_tag="BSU08190" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11489864, 16707683, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11489864, 16707683, 22720735; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional activator of the Mal operon" /protein_id="NP_388700.1" /db_xref="EnsemblGenomes-Gn:BSU08190" /db_xref="EnsemblGenomes-Tr:CAB12648" /db_xref="GOA:P54717" /db_xref="InterPro:IPR000281" /db_xref="InterPro:IPR001347" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR035472" /db_xref="InterPro:IPR036388" /db_xref="SubtiList:BG11847" /db_xref="UniProtKB/Swiss-Prot:P54717" /translation="MQLEELINQHYSKLNDNDFHILKYILNHKHTCYHLGIDALAKAC SVSRSSILRLAQKLGFSGYSEFRVFLKWEDQPEEGESMSFEKLLDDIEANLKFLRTKD MTDMCQLIDAADRIFVYGSGNAQKICARDLQRMFIPRHRYLILIEDTNEFNLMRDDFK VNDLFIIISLSGETPELIPQARMLSAKGIPFISITNLKNNVLAQLTPHNLYATSKPVT LSDRTEIVAFAPFFLVGEALFRAYVDYKEAEKNDNE*" gene 891436..892200 /gene="malR" /locus_tag="BSU_08190" /old_locus_tag="BSU08190" promotor_-10 complement(891580..891594) /Source="Nicolas_upshift_promotors" /id="U626" /multdbtbs="-" /comp="M9" /sig="Sig-" /pcomp="0.454545454545455" /psig="0.454545454545455" /xcortree=655 /SigmaFactorBS="cttcttccggctgatcttcccactttaaaaagacgcgaaatt cactgtaaccgcTGAAACCgagcttttgggcaagCCGTAAAATTGAGGAacgcgatac a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(891610..891616) /Source="Nicolas_upshift_promotors" /id="U626" /multdbtbs="-" /comp="M9" /sig="Sig-" /pcomp="0.454545454545455" /psig="0.454545454545455" /xcortree=655 /SigmaFactorBS="cttcttccggctgatcttcccactttaaaaagacgcgaaatt cactgtaaccgcTGAAACCgagcttttgggcaagCCGTAAAATTGAGGAacgcgatac a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" upshifts complement(891610) /Source="Nicolas_upshifts" /id="U626" /multdbtbs="-" /comp="M9" /sig="Sig-" /pcomp="0.454545454545455" /psig="0.454545454545455" /xcortree=655 /SigmaFactorBS="cttcttccggctgatcttcccactttaaaaagacgcgaaatt cactgtaaccgcTGAAACCgagcttttgggcaagCCGTAAAATTGAGGAacgcgatac a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS 892215..893798 /gene="malP" /locus_tag="BSU_08200" /old_locus_tag="BSU08200" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15849754, 16707683, 16850406, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15849754, 16707683, 16850406, 22720735; Product type t: transporter" /codon_start=1 /transl_table=11 /product="phosphotransferase system (PTS) maltose-specificenzyme IICB component" /protein_id="NP_388701.1" /db_xref="EnsemblGenomes-Gn:BSU08200" /db_xref="EnsemblGenomes-Tr:CAB12649" /db_xref="GOA:P54715" /db_xref="InterPro:IPR001996" /db_xref="InterPro:IPR003352" /db_xref="InterPro:IPR004719" /db_xref="InterPro:IPR010975" /db_xref="InterPro:IPR013013" /db_xref="InterPro:IPR018113" /db_xref="InterPro:IPR036878" /db_xref="SubtiList:BG11848" /db_xref="UniProtKB/Swiss-Prot:P54715" /translation="MMQKIQRFGSAMFVPVLLFAFAGIIVGISTLFKNKTLMGPLADP DGFWYQCWYIIEQGGWTVFNQMPLLFAIGIPVALAKKAQARACLEALTVYLTFNYFVS AILTVWGGAFGVDMNQEVGGTSGLTMIAGIKTLDTNIIGAIFISSIVVFLHNRYFDKK LPDFLGIFQGSTYIVMISFFIMIPIALAVSYIWPMVQSGIGSLQSFLVASGAVGVWIY TFLERILIPTGLHHFIYTPFIYGPAVAEGGIVTYWAQHLGEYSQSAKPLKELFPQGGF ALHGNSKIFGIPGIALAFYVTAKKEKKKLVAGLLIPVTLTAIVAGITEPIEFTFLFIS PFLFAVHAVLAATMSTVMYMAGVVGNMGGGLIEAVTLNWIPLFGSHGMTYVYQILIGL SFTAIYFFVFRFLILKFNIATPGREKDEQQETKLYSKKEYRERKNKDETASAAETADD TAFLYIEALGGKDNITEVTNCATRLRVSVKDETKVEPDSVFRALGAHGVVRNGKAFQV IIGLSVPQMRERVEKILNQ*" gene 892215..893798 /gene="malP" /locus_tag="BSU_08200" /old_locus_tag="BSU08200" downshifts 893778 /Source="Nicolas_upshifts" /id="D409" /incds=0 /nref=23 /ntot=46 /MaxReadThrough="3.26652" /MaxDrop="4.69656" /score="8.65399085" /energy="-10.9" /TU="U624" /idTUdmin="U625" /TUdmin=836 /isTUend="FALSE" promotor_-35 893827..893834 /Source="Nicolas_upshift_promotors" /id="U627" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.986013986013986" /psig=1 /xcortree=2032 /SigmaFactorBS="aaagactgccctccttttcgggagggttttCGTTTGCCgtca aaaagaccgcCATAGTAAAGTAAAGAAAGAgacaatcgagtaaaaaggggtttggagg c" /listShort="malQ, yfiC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 893849..893868 /Source="Nicolas_upshift_promotors" /id="U627" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.986013986013986" /psig=1 /xcortree=2032 /SigmaFactorBS="aaagactgccctccttttcgggagggttttCGTTTGCCgtca aaaagaccgcCATAGTAAAGTAAAGAAAGAgacaatcgagtaaaaaggggtttggagg c" /listShort="malQ, yfiC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 893857 /Source="Nicolas_upshifts" /id="U627" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.986013986013986" /psig=1 /xcortree=2032 /SigmaFactorBS="aaagactgccctccttttcgggagggttttCGTTTGCCgtca aaaagaccgcCATAGTAAAGTAAAGAAAGAgacaatcgagtaaaaaggggtttggagg c" /listShort="malQ, yfiC" /GFF_Attribute="listLong" CDS 893904..895625 /gene="yfiB" /locus_tag="BSU_08210" /old_locus_tag="BSU08210" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 16707683; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative xenobiotic ABC transporter subunit (ATP-binding protein)" /protein_id="NP_388702.1" /db_xref="EnsemblGenomes-Gn:BSU08210" /db_xref="EnsemblGenomes-Tr:CAB12650" /db_xref="GOA:P54718" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR011527" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR036640" /db_xref="SubtiList:BG11849" /db_xref="UniProtKB/Swiss-Prot:P54718" /translation="MQKALSFLKPYSLLAGIALILMLTELAVELMQPLLIAKIIDDGI LKQDLRHVWIWGTVMIGLTVLSFAAGMLNSFYAAHVSQSFSYDTRKGLFQKIQSFSYS TFGQFSSSSYITRLTNDVTQVQNMIFMSLRFMLRAPLMIAGGIVLSLAVNVKLGFFLL VTIPILILFLLWVLRKGGALFRSVQKRLDQVNTIMQENLIAIKLIKALLRGSHEVKRF IKANTRLMEKTVSAFQLVEFTMPVLMLLMNLCILLILWAGSYSITSGSTQVGDVVAII NYATRITGALSMFPFLIMIFTRAKASGDRIGEVLETEGDEREEGTISDRLSGRIEFQH VSFRYPEMDREALRNVSFSAKPRETIAILGATGSGKSTLFQLIPRLYQPDSGRIYIDE KPVQDIPAEGLRRQIGYVPQEVLLFSGTIKENIAWGKENASLDEIMDAAKLAQIHETI LKLPNGYDTVLGQRGVNLSGGQKQRISIARALIRKPAILLLDDSTSALDLQTEAKLLE AISTYHCTTLIITQKITTAMKADQILLLEDGELIEKGTHSELLSESQLYKRIYESQFG REGSESC*" gene 893904..895625 /gene="yfiB" /locus_tag="BSU_08210" /old_locus_tag="BSU08210" CDS 895619..897433 /gene="yfiC" /locus_tag="BSU_08220" /old_locus_tag="BSU08220" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative ABC transporter (ATP-binding protein)" /protein_id="NP_388703.1" /db_xref="EnsemblGenomes-Gn:BSU08220" /db_xref="EnsemblGenomes-Tr:CAB12651" /db_xref="GOA:P54719" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR011527" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR036640" /db_xref="SubtiList:BG11850" /db_xref="UniProtKB/Swiss-Prot:P54719" /translation="MLKDIRKPFQYPKLPIDKKEGAKKRAKAKDTKGTLRRIWSYLAE RKGLLILVMLMVVISAIFGLLGPFVIGKAIDHFIVGKTVSGLIPVLLLLLAIYIIQSL SLWFQNYWMITISQGTVFRMRSELFTHLHELPIPFFDKQRHGELMSRVTNDIENVSST LNTSVIQILSSVITFVGTIAVMLYMSPLLTLITLTIIPVMAASLKWITNRTGKLFKEQ QKNLGDLNGYIEESVSGAKVIKAYSREKQITAEFLEKNAALKTSGFWAQTISGFIPKV MNSLNNLSFTMIAAIGGLFALKGWISIGSIVVFAEYSRQFTRPLNDLANQFNTMLSAI AGAERVFDVLDEKEEREDEKNAVHQPIQTGSIEFRDVSFGYDKGQQTLKHLQFTVPAG QSIAFVGPTGAGKTTVTNLLARFYEPNDGKILIDGTDIKTLTRASLRKNMGFVLQDSF LFQGTIRENIRYGRLDASDQEVEAAAKTANAHSFIERLPKGYDTVLTQNGSGISQGQK QLISIARAVLADPVLLILDEATSNIDTVTEVNIQEALARLMEGRTSVIIAHRLNTIQR ADQIVVLKNGEMIEKGSHDELIRQKGFYSDLYESQFEK*" gene 895619..897433 /gene="yfiC" /locus_tag="BSU_08220" /old_locus_tag="BSU08220" downshifts 897408 /Source="Nicolas_upshifts" /id="D410" /incds=0 /nref=103 /ntot=190 /MaxReadThrough="2.4559" /MaxDrop="5.61906" /score="24.4395842" /energy="-11" /TU="NA" /idTUdmin="U627" /TUdmin=0 /isTUend="TRUE" promotor_-35 897515..897522 /Source="Nicolas_upshift_promotors" /id="U628" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.75024975024975" /psig=1 /xcortree=1845 /SigmaFactorBS="cttttatttcattttcgtaaaatgtaacaaaattaCTTGACG TaaacaagttatgtATATATACTAGCTTACATTAagtaagtgataacatttatcaagg a" /listShort="catD, catE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 897536..897555 /Source="Nicolas_upshift_promotors" /id="U628" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.75024975024975" /psig=1 /xcortree=1845 /SigmaFactorBS="cttttatttcattttcgtaaaatgtaacaaaattaCTTGACG TaaacaagttatgtATATATACTAGCTTACATTAagtaagtgataacatttatcaagg a" /listShort="catD, catE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 897540 /Source="Nicolas_upshifts" /id="U628" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.75024975024975" /psig=1 /xcortree=1845 /SigmaFactorBS="cttttatttcattttcgtaaaatgtaacaaaattaCTTGACG TaaacaagttatgtATATATACTAGCTTACATTAagtaagtgataacatttatcaagg a" /listShort="catD, catE" /GFF_Attribute="listLong" CDS 897588..897992 /gene="catD" /locus_tag="BSU_08230" /old_locus_tag="BSU08230" /EC_number="1.13.11.2" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:15849754, 16872404, 16850406, 17407181, 20639328" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15849754, 16872404, 16850406, 17407181, 20639328; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="catechol-2,3-dioxygenase membrane subunit" /protein_id="NP_388704.1" /db_xref="EnsemblGenomes-Gn:BSU08230" /db_xref="EnsemblGenomes-Tr:CAB12652" /db_xref="GOA:P54720" /db_xref="InterPro:IPR032808" /db_xref="SubtiList:BG11851" /db_xref="UniProtKB/Swiss-Prot:P54720" /translation="MNKSFEIGTLLLRVITGIIFFVHGLSKFQGMEGTIQFFGSIGLP SFMAYVIAAIELIGGVLVFFGLATRIVGVLFALTLIGAIITVKLKAPFMGNAEFDYLL LLTSIHLALTGSRFLALDPFVFKGKKNGNVSA*" gene 897588..897992 /gene="catD" /locus_tag="BSU_08230" /old_locus_tag="BSU08230" CDS 898010..898867 /gene="catE" /locus_tag="BSU_08240" /old_locus_tag="BSU08240" /EC_number="1.13.11.2" /function="16.11: Scavenge (Catabolism)" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:17407181, 16872404" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 17407181, 16872404; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="catechol-2,3-dioxygenase subunit" /protein_id="NP_388705.2" /db_xref="EnsemblGenomes-Gn:BSU08240" /db_xref="EnsemblGenomes-Tr:CAB12653" /db_xref="GOA:P54721" /db_xref="InterPro:IPR000486" /db_xref="InterPro:IPR004360" /db_xref="InterPro:IPR029068" /db_xref="SubtiList:BG11852" /db_xref="UniProtKB/Swiss-Prot:P54721" /translation="MTSIHEDTHIGYAKLTIRSLERSLQFYCNVIGFQVLKKTDRQAE LTADGKRVLLILEENPSAVVLPERSVTGLYHFAILLPDRKELGIALARLIEHGIAIGH GDHAVSEALYLSDPDGNGIEMYADRPRSTWQRDREGNYVMTTTAVDIEGLLEEAGDER KTSLPNDTIIGHIHLHVSDLKEAKAFYTDVLGFDIVGNYAGMSALFVSAGGYHHHIGL NIWAGRNAPPKPTNASGLDYYTVVLPHQEELDLVANRVKHAGYSIEETENSFRVKDPV SGAYITFVI*" gene 898010..898867 /gene="catE" /locus_tag="BSU_08240" /old_locus_tag="BSU08240" downshifts 898854 /Source="Nicolas_upshifts" /id="D411" /incds=0 /nref=4 /ntot=21 /MaxReadThrough="0.66359" /MaxDrop="3.74886" /score="50.8573531" /energy="-19.7" /TU="NA" /idTUdmin="U628" /TUdmin=16 /isTUend="TRUE" CDS 898961..899905 /gene="yfiF" /locus_tag="BSU_08250" /old_locus_tag="BSU08250" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10704478; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (AraC/XylS family; cupin family)" /protein_id="NP_388706.1" /db_xref="EnsemblGenomes-Gn:BSU08250" /db_xref="EnsemblGenomes-Tr:CAB12654" /db_xref="GOA:P54722" /db_xref="InterPro:IPR003313" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR018060" /db_xref="InterPro:IPR018062" /db_xref="SubtiList:BG11853" /db_xref="UniProtKB/Swiss-Prot:P54722" /translation="MELNHLVTGKIALNQYVHRLEQKDVSFYVHYWGAMTNHYNTLLH KHSFYEICYVVRGEGYYLEGDRTYPLREQTIFLSKPEHLHQIKSETGLFLFYVAFELS EDQSSAEWIKVMEEVKQSPFITMQLKDGEPPGLLWKTLMLQAAQPVNAFDKEILSHLS HALILSLIQTFLPYAQRPKQKQPIHTSSALLTEVKLHIKDNLSQPLKLTDVASHFHIS GRHLSRLFAAELGVSYSEFVQNEKINKAAELLKSTNLSIKEIAEEIGFSVHYFTRVFS AKIGSSPGLFRSLYKDSKMTAFQINKPFQKIEQAKPHE*" gene 898961..899905 /gene="yfiF" /locus_tag="BSU_08250" /old_locus_tag="BSU08250" downshifts complement(899772) /Source="Nicolas_upshifts" /id="D412" /incds=1 /nref=1 /ntot=2 /MaxReadThrough="-0.20031" /MaxDrop="3.51831" /score="-4.19869956" /energy="-9.5" /TU="NA" /idTUdmin="U632" /TUdmin=9372 /isTUend="FALSE" promotor_no_box complement(899820..899920) /Source="Nicolas_upshift_promotors" /id="U629" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.533466533466533" /psig="0.034965034965035" /xcortree=1481 /SigmaFactorBS="tcatttcaggacatcttattcgtgcggcttggcctgttcgat tttttgaaaaggtttattgatttgaaatgcggtcatttttgagtctttataaagggag c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts complement(899860) /Source="Nicolas_upshifts" /id="U629" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.533466533466533" /psig="0.034965034965035" /xcortree=1481 /SigmaFactorBS="tcatttcaggacatcttattcgtgcggcttggcctgttcgat tttttgaaaaggtttattgatttgaaatgcggtcatttttgagtctttataaagggag c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS 900080..901528 /gene="yfiG" /locus_tag="BSU_08260" /old_locus_tag="BSU08260" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative sugar/proton transporter" /protein_id="NP_388707.1" /db_xref="EnsemblGenomes-Gn:BSU08260" /db_xref="EnsemblGenomes-Tr:CAB12655" /db_xref="GOA:P54723" /db_xref="InterPro:IPR003663" /db_xref="InterPro:IPR005828" /db_xref="InterPro:IPR005829" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG11854" /db_xref="UniProtKB/Swiss-Prot:P54723" /translation="MSTKKKEAVIGKESLAHKGLLRTITLVSTFGGLLFGYDTGVING ALPFMATAGQLNLTPVTEGLVASSLLLGAAFGAMFGGRLSDRHGRRKTILYLALLFIA ATLGCTFSPNASVMIAFRFLLGLAVGCASVTVPTFLAEISPAERRGRIVTQNELMIVI GQLLAYTFNAIIGSTMGESANVWRYMLVIATLPAVVLWFGMLIVPESPRWLAAKGRMG DALRVLRQIREDSQAQQEIKEIKHAIEGTAKKAGFHDFQEPWIRRILFIGIGIAIVQQ ITGVNSIMYYGTEILREAGFQTEAALIGNIANGVISVIAVIFGIWLLGKVRRRPMLII GQIGTMTALLLIGILSIVLEGTPALPYVVLSLTILFLAFQQTAISTVTWLMLSEIFPM HVRGLGMGISTFCLWTANFLIGFTFPILLNHIGMSATFFIFVAMNILAILFVKKYVPE TKGRSLEQLEHSFRQYGRRADQEIQNQTTHLS*" gene 900080..901528 /gene="yfiG" /locus_tag="BSU_08260" /old_locus_tag="BSU08260" CDS 901555..902496 /gene="yfiH" /locus_tag="BSU_08270" /old_locus_tag="BSU08270" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative sugar-phosphate epimerase/isomerase" /protein_id="NP_388708.1" /db_xref="EnsemblGenomes-Gn:BSU08270" /db_xref="EnsemblGenomes-Tr:CAB12656" /db_xref="InterPro:IPR011418" /db_xref="InterPro:IPR013022" /db_xref="InterPro:IPR036237" /db_xref="SubtiList:BG11855" /db_xref="UniProtKB/Swiss-Prot:P54724" /translation="MKLSYVTDSLGHLPFEDMLNFAAKLGIDTLEMTTGGWSPAPHLN LDELLQSSEKRKEFSQALEKRNMTLCALNCSGNPLDPGELGKSHRDITDKTMELAGLL GVKKVIMMSGLPAGGPDDKVPNWITYTVSWPPVLKDILNYQWEDVAIPYWKKLVKKAE ACGVGKIALENFSSQLVYNPETLFRLRNAVGPMVGLNLDPSHLLWMGADPIIAARELG SAIHHVHGKDVRIERYLSAVNGLLETKEVTDPANRAWNYVAVGCGQDLQWWKEFFSVV KMMGYEGEVSLEMEDLTMSPEAGIRTSVEALKQTISQ*" gene 901555..902496 /gene="yfiH" /locus_tag="BSU_08270" /old_locus_tag="BSU08270" CDS 902506..903687 /gene="yfiI" /locus_tag="BSU_08280" /old_locus_tag="BSU08280" /EC_number="1.-.-.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 26438878; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative oxidoreductase" /protein_id="NP_388709.1" /db_xref="EnsemblGenomes-Gn:BSU08280" /db_xref="EnsemblGenomes-Tr:CAB12657" /db_xref="GOA:P94437" /db_xref="InterPro:IPR000683" /db_xref="InterPro:IPR004104" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG12214" /db_xref="UniProtKB/Swiss-Prot:P94437" /translation="MMLNGERIISKPLRWAMVGGGRLSQVGYKHRIGALRDNTAFQLT AGAFDIDAERGKDFGVNLGVDAERCYPNYQTMFAEEAKRQDGIEVVSIATPNGTHYEI CKAALEAGVHVICEKPLFFTSAEGQEIKALAEKKGKIVGVTYGFSGNQMLLQMRAMIE QGMIGDIRVVDLQYTHGFCATDEGEKISAAQKWRVDPAIAGPSFVLGDLSTHTYYMSQ LIMPKMKIKELLCDRQSFVGSRAPLEDNAHVLMHYENGAVGTMWTSSINAGCMDGHRI RIVGSKASIEWWDSKPNELTYEVQGEPGQTLVRGMPYLDDVCNADERLGALHSEGLSE AWANIYLKFAIAIDAKNREDEEILNNLVYPDIDAGIEGIRWIENCVRSANQGSVWVEF K*" gene 902506..903687 /gene="yfiI" /locus_tag="BSU_08280" /old_locus_tag="BSU08280" downshifts 903677 /Source="Nicolas_upshifts" /id="D413" /incds=0 /nref=40 /ntot=113 /MaxReadThrough="0.88387" /MaxDrop="5.80704" /score="14.819468" /energy="-13" /TU="NA" /idTUdmin="U630" /TUdmin="-2003" /isTUend="FALSE" promotor_-35 903747..903753 /Source="Nicolas_upshift_promotors" /id="U630" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.517482517482518" /psig="0.918081918081918" /xcortree=2137 /SigmaFactorBS="cggtttttattttccagaaacTCCTGTCaaaaatgccctgag GCAGGTATGATAAGAAGGGAattgggtatcgggagtgatgagcgtgaaagctcttttt t" /listShort="yfiJ, yfiK" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 903768..903787 /Source="Nicolas_upshift_promotors" /id="U630" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.517482517482518" /psig="0.918081918081918" /xcortree=2137 /SigmaFactorBS="cggtttttattttccagaaacTCCTGTCaaaaatgccctgag GCAGGTATGATAAGAAGGGAattgggtatcgggagtgatgagcgtgaaagctcttttt t" /listShort="yfiJ, yfiK" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 903786 /Source="Nicolas_upshifts" /id="U630" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.517482517482518" /psig="0.918081918081918" /xcortree=2137 /SigmaFactorBS="cggtttttattttccagaaacTCCTGTCaaaaatgccctgag GCAGGTATGATAAGAAGGGAattgggtatcgggagtgatgagcgtgaaagctcttttt t" /listShort="yfiJ, yfiK" /GFF_Attribute="listLong" CDS 903811..905013 /gene="linJ" /locus_tag="BSU_08290" /old_locus_tag="BSU08290" /function="16.12: Sense" /function="16.3: Control" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:11717295, 12618459, 28461449" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11717295, 12618459, 28461449; Product type rc: receptor" /codon_start=1 /transl_table=11 /product="two-component sensor histidine kinase [LinK] (linearmycin resistance, biofilm formation)" /protein_id="NP_388710.1" /db_xref="EnsemblGenomes-Gn:BSU08290" /db_xref="EnsemblGenomes-Tr:CAB12658" /db_xref="GOA:P94438" /db_xref="InterPro:IPR003594" /db_xref="InterPro:IPR011712" /db_xref="InterPro:IPR036890" /db_xref="SubtiList:BG12215" /db_xref="UniProtKB/Swiss-Prot:P94438" /translation="MKALFFTRMFTLMVSCLMYLSIVKEDNWFGYVFIAAGAAMYAAN HVLLTKETNAIWFCLIDIAIGFSFGFIFPGTGLFIIMLCPVAVAFFLRGFPKRTAWSV LCLSSILFLTVLIRTYAMFGNEFVIDHLTSMTFVVFCGVVGKLIRKLLDAQDTAKQQF QELTESHLALSAAHQELHLYAKQVEELTAIYERNRMAREIHDTVGHKMTALLVQLQLL REWQKRDSQKADETVGVCETLAREALDDVRLSVRTLQTENDPSLIESLKQLTEDFCKN AGVTTEFAVSGDPAIIPLSLHPTLIRTVQEALTNAKRHGGAAACSIQLACTTDSISLV IKDDGKGNPEAALGFGLLNMKKRAAEHGGMIRFESERDQGFTVNAEFSLANKKWSFGP VQQKESLS*" gene 903811..905013 /gene="linJ" /locus_tag="BSU_08290" /old_locus_tag="BSU08290" CDS 905010..905672 /gene="linK" /locus_tag="BSU_08300" /old_locus_tag="BSU08300" /function="16.5: Explore" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11717295, 12618459, 28461449" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11717295, 12618459, 28461449; Product type r: regulator" /codon_start=1 /transl_table=11 /product="two-component response regulator [LinJ] (linearmycin resistance, biofilm formation)" /protein_id="NP_388711.1" /db_xref="EnsemblGenomes-Gn:BSU08300" /db_xref="EnsemblGenomes-Tr:CAB12659" /db_xref="GOA:P94439" /db_xref="InterPro:IPR000792" /db_xref="InterPro:IPR001789" /db_xref="InterPro:IPR011006" /db_xref="InterPro:IPR016032" /db_xref="InterPro:IPR036388" /db_xref="SubtiList:BG12216" /db_xref="UniProtKB/Swiss-Prot:P94439" /translation="MIKIIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAK ELEPDIVLMDIRMPVSNGVEGTKLITSSLPSVKVLMLTTFKDSALIAEALEEGASGYL LKDMSADTIVKAVMTVHSGGMVLPPELTAQMLNEWKREKQLKGINEIEKPNELLDLTE REIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQAAIYSVRYGVS VF*" gene 905010..905672 /gene="linK" /locus_tag="BSU_08300" /old_locus_tag="BSU08300" downshifts 905680 /Source="Nicolas_upshifts" /id="D414" /incds=0 /nref=114 /ntot=229 /MaxReadThrough="-0.0105699999999995" /MaxDrop="4.23231" /score="20.4785449" /energy="-7.6" /TU="NA" /idTUdmin="U630" /TUdmin=0 /isTUend="TRUE" CDS 905816..906751 /gene="bifL" /locus_tag="BSU_08310" /old_locus_tag="BSU08310" /function="16.8: Protect" /function="16.13: Shape" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:28461449" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 28461449; Product type t: transporter" /codon_start=1 /transl_table=11 /product="ABC transporter (ATP-binding protein) biofilm formation" /protein_id="NP_388712.2" /db_xref="EnsemblGenomes-Gn:BSU08310" /db_xref="EnsemblGenomes-Tr:CAB12660" /db_xref="GOA:P94440" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG12217" /db_xref="UniProtKB/Swiss-Prot:P94440" /translation="MLQAENIKKAYGKKTIVKGISFSLKKGESFGLLGPNGAGKSTTI SMISGLVPHDSGNITVGGYVIGKETAKAKQKIGIVPQEIALYPTLTAHENLMFWGKMY GLTHGEAKKRAAEVLEYVGLTERAKDKIETFSGGMKRRINIGAALMHKPELLIMDEPT VGIDPQSRNHILETVKQLNETGMTVIYTSHYMEEVEFLCDRIGIIDQGEMIAIGTKTD LCSRLGGDTIIQLTVSGINEAFLVAIRSLAHVNDVTVHELELKIDISAAHHEKVVTSL LAEATAHHINLLSLQVQEPNLERLFLNLTGRTLRD*" gene 905816..906751 /gene="bifL" /locus_tag="BSU_08310" /old_locus_tag="BSU08310" CDS 906764..907954 /gene="bifM" /locus_tag="BSU_08320" /old_locus_tag="BSU08320" /function="16.8: Protect" /function="16.13: Shape" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15849754, 16850406, 28461449" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15849754, 16850406, 28461449; Product type t: transporter" /codon_start=1 /transl_table=11 /product="ABC transporter (permease) biofilm formation" /protein_id="NP_388713.1" /db_xref="EnsemblGenomes-Gn:BSU08320" /db_xref="EnsemblGenomes-Tr:CAB12661" /db_xref="GOA:P94441" /db_xref="InterPro:IPR000412" /db_xref="SubtiList:BG12218" /db_xref="UniProtKB/Swiss-Prot:P94441" /translation="MKKSIWIAWKDVKIRITDRKGFMMLILMPLILTCILGAALGSVV DGGSRIDDIKVGYIQSDQSDTANMFTKDVLKKMKSIKVTKVGSKDKMKKLIDEKKIDV GIVIPNHWEAGKTSAVVNAAPDQTLKSSIIETAASSFIEQYKAVKEAASGSMDYISKT EAVKQGKLDPAQFAEKLAKTLEKETGDKLTIAEKSVGSKAVTSFQYYSAAMLCMFMLF HITVGAKSFLQEKDTETLARMLMTPAQKSVILFGKWLGTYLFAIIQFFIFLIVTINVF GVDWGGNLLLVSVLGLSYAAAVSGISMLLASCISDMKTADAIGGFGIQLLAVLGGSML PLYQFPDVLQSVSKAVPNRWALDGFLSLMEGGGWADLQKPVLLFAAIGFCSLVIGIRR LHTR*" gene 906764..907954 /gene="bifM" /locus_tag="BSU_08320" /old_locus_tag="BSU08320" CDS 907968..909125 /gene="bifN" /locus_tag="BSU_08330" /old_locus_tag="BSU08330" /function="16.8: Protect" /function="16.13: Shape" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15849754, 16850406, 28461449" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15849754, 16850406, 28461449; Product type t: transporter" /codon_start=1 /transl_table=11 /product="ABC transporter (permease) biofilm formation" /protein_id="NP_388714.1" /db_xref="EnsemblGenomes-Gn:BSU08330" /db_xref="EnsemblGenomes-Tr:CAB12662" /db_xref="GOA:P94442" /db_xref="InterPro:IPR000412" /db_xref="SubtiList:BG12219" /db_xref="UniProtKB/Swiss-Prot:P94442" /translation="MKKILAICGIELSLIFKKPQNYLIMFAAPLLLTFVFGSMLSGND DKVRLAIVDQDDTILSQHYIRQLKAHDDMYVFENMSESKASEKLKQKKIAGIIVISRS FQTQLEKGKHPELIFRHGPELSEAPMVKQYAESALATLNIQVTAAKTASQTAGENWKA AYKTVFAKKHEDIVPAVTRQTLSDKKEGAEASDTASRAAGFSILFVMLTMMGAAGTIL EARKNGVWSRLLTASVSRAEIGAGYVLSFFVIGWIQFGILLLSTHWLFGINWGNPAAV IVLVSLFLLTVVGIGLMIAANVRTPEQQLAFGNLFVIATCMVSGMYWPIDIEPKFMQS IAEFLPQKWAMSGLTEIIANGARVTDILGICGILLAFAAITFAAGLKALRA*" gene 907968..909125 /gene="bifN" /locus_tag="BSU_08330" /old_locus_tag="BSU08330" promotor_-35 908079..908084 /Source="Nicolas_upshift_promotors" /id="U631" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.693306693306693" /psig="0.693306693306693" /xcortree=1182 /SigmaFactorBS="atgtttgctgccccgcttttgcttacctttgtatttgggAGT ATGctcagcggcaatgaTGATAAGGTGCGGCTTGCAatcgttgatcaggacgatacga t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 908099..908117 /Source="Nicolas_upshift_promotors" /id="U631" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.693306693306693" /psig="0.693306693306693" /xcortree=1182 /SigmaFactorBS="atgtttgctgccccgcttttgcttacctttgtatttgggAGT ATGctcagcggcaatgaTGATAAGGTGCGGCTTGCAatcgttgatcaggacgatacga t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 908100 /Source="Nicolas_upshifts" /id="U631" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.693306693306693" /psig="0.693306693306693" /xcortree=1182 /SigmaFactorBS="atgtttgctgccccgcttttgcttacctttgtatttgggAGT ATGctcagcggcaatgaTGATAAGGTGCGGCTTGCAatcgttgatcaggacgatacga t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" S_feature complement(909123..909197) /Source="Nicolas_S_feature" /locus_tag="new_909123_909197_c" /HighExp="LoTm, Sw, C90, HiOs, BC, MG 45, UNK1, Fru, S1, BI" /AntisenseName="yfiN" /AntisenseCor="-6.3486715356968801E-2" /AntisenseRegPval="-0.5" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.997" /TUlongSig="NA" /TUlongPSig="NA" /label="S284" downshifts complement(909166) /Source="Nicolas_upshifts" /id="D415" /incds=0 /nref=90 /ntot=257 /MaxReadThrough="1.41433" /MaxDrop="6.01369" /score="13.7314837" /energy="-11.5" /TU="U632" /idTUdmin="U632" /TUdmin="-22" /isTUend="TRUE" CDS complement(909198..909746) /gene="padR" /locus_tag="BSU_08340" /old_locus_tag="BSU08340" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11073918, 17295427, 18326577, 21685295, 23189126, 27716049, 28027933" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11073918, 17295427, 18326577, 21685295, 23189126, 27716049, 28027933; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator of phenolic acid decarboxylase" /protein_id="NP_388715.1" /db_xref="EnsemblGenomes-Gn:BSU08340" /db_xref="EnsemblGenomes-Tr:CAB12663" /db_xref="GOA:P94443" /db_xref="InterPro:IPR005149" /db_xref="InterPro:IPR018309" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12220" /db_xref="UniProtKB/Swiss-Prot:P94443" /translation="MRVLKYAILGLLRKGELSGYDITSYFKEELGQFWSAKHSQIYPE LKKLTDEGFITFRTTIQGTKLEKKMYTLTDSGKQELHDWLIRHQPIPETVKDEFMLKA YFISCLSRQEASDLFKDQLQKRQAKLSDLQGSYEKLMASAEPMSFSSPDFGHYLVLTK ALEREKNYVSWLESILAMIDKD*" gene complement(909198..909746) /gene="padR" /locus_tag="BSU_08340" /old_locus_tag="BSU08340" S_feature complement(909747..909826) /Source="Nicolas_S_feature" /locus_tag="new_909747_909826_c" /HighExp="LoTm, Cold, G180, GM-0.2, Oxctl, T5.0H, GM 25, T3.30H, MG 60, T4.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.997" /TUlongSig="NA" /TUlongPSig="NA" /label="S285" promotor_-10 complement(909815..909834) /Source="Nicolas_upshift_promotors" /id="U632" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.405594405594406" /psig="0.997002997002997" /xcortree=2251 /SigmaFactorBS="acaaaccttttatcttcatttccaaagagcccgGTTGTGttc ccttcctcccTTTTCTATAATAAGGGGAATaggcagttagaatcacagttgagcaccg g" /listShort="S285, padR, S284" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(909826) /Source="Nicolas_upshifts" /id="U632" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.405594405594406" /psig="0.997002997002997" /xcortree=2251 /SigmaFactorBS="acaaaccttttatcttcatttccaaagagcccgGTTGTGttc ccttcctcccTTTTCTATAATAAGGGGAATaggcagttagaatcacagttgagcaccg g" /listShort="S285, padR, S284" /GFF_Attribute="listLong" promotor_-35 complement(909848..909853) /Source="Nicolas_upshift_promotors" /id="U632" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.405594405594406" /psig="0.997002997002997" /xcortree=2251 /SigmaFactorBS="acaaaccttttatcttcatttccaaagagcccgGTTGTGttc ccttcctcccTTTTCTATAATAAGGGGAATaggcagttagaatcacagttgagcaccg g" /listShort="S285, padR, S284" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 909949..909952 /Source="Nicolas_upshift_promotors" /id="U633" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.927072927072927" /psig="0.998001998001998" /xcortree=2321 /SigmaFactorBS="tataaaagagatttaaatttaattttcagaaaaaATAGtaac gatattgatttTTTATATATAATAGGAAATTggtggtatgaaaattttttgggggaat a" /listShort="estB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 909968..909987 /Source="Nicolas_upshift_promotors" /id="U633" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.927072927072927" /psig="0.998001998001998" /xcortree=2321 /SigmaFactorBS="tataaaagagatttaaatttaattttcagaaaaaATAGtaac gatattgatttTTTATATATAATAGGAAATTggtggtatgaaaattttttgggggaat a" /listShort="estB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 909975 /Source="Nicolas_upshifts" /id="U633" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.927072927072927" /psig="0.998001998001998" /xcortree=2321 /SigmaFactorBS="tataaaagagatttaaatttaattttcagaaaaaATAGtaac gatattgatttTTTATATATAATAGGAAATTggtggtatgaaaattttttgggggaat a" /listShort="estB" /GFF_Attribute="listLong" CDS 910019..910651 /gene="estB" /locus_tag="BSU_08350" /old_locus_tag="BSU08350" /EC_number="3.1.1.3" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:11029590, 10913700, 21574267" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11029590, 10913700, 21574267; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="secreted esterase / acylglycerol lipase" /protein_id="NP_388716.1" /db_xref="EnsemblGenomes-Gn:BSU08350" /db_xref="EnsemblGenomes-Tr:CAB12664" /db_xref="GOA:Q79F14" /db_xref="InterPro:IPR002918" /db_xref="InterPro:IPR029058" /db_xref="SubtiList:BG11951" /db_xref="UniProtKB/Swiss-Prot:Q79F14" /translation="MKKVLMAFIICLSLILSVLAAPPSGAKAESVHNPVVLVHGISGA SYNFFAIKNYLISQGWQSNKLYAIDFYDKTGNNLNNGPQLASYVDRVLKETGAKKVDI VAHSMGGANTLYYIKYLGGGNKIQNVVTLGGANGLVSSTALPGTDPNQKILYTSIYSL NDQIVINSLSRLQGARNIQLYGIGHIGLLSNSQVNGYIKEGLNGGGLNTN*" gene 910019..910651 /gene="estB" /locus_tag="BSU_08350" /old_locus_tag="BSU08350" downshifts 910630 /Source="Nicolas_upshifts" /id="D416" /incds=0 /nref=7 /ntot=100 /MaxReadThrough="0.87881" /MaxDrop="2.6151" /score="0.223019698" /energy="-8.5" /TU="NA" /idTUdmin="U633" /TUdmin=88 /isTUend="FALSE" promotor_-35 910766..910771 /Source="Nicolas_upshift_promotors" /id="U634" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.492507492507492" /psig="0.984015984015984" /xcortree=3160 /SigmaFactorBS="tcatgcatacgtcaatttatgacatcaggcaCTTTTTcaaat agagcggaCATGTTAAGGTACAACCATCgatttctatcaatttgaaataaaaggagcg c" /listShort="yfiQ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 910785..910804 /Source="Nicolas_upshift_promotors" /id="U634" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.492507492507492" /psig="0.984015984015984" /xcortree=3160 /SigmaFactorBS="tcatgcatacgtcaatttatgacatcaggcaCTTTTTcaaat agagcggaCATGTTAAGGTACAACCATCgatttctatcaatttgaaataaaaggagcg c" /listShort="yfiQ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 910795 /Source="Nicolas_upshifts" /id="U634" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.492507492507492" /psig="0.984015984015984" /xcortree=3160 /SigmaFactorBS="tcatgcatacgtcaatttatgacatcaggcaCTTTTTcaaat agagcggaCATGTTAAGGTACAACCATCgatttctatcaatttgaaataaaaggagcg c" /listShort="yfiQ" /GFF_Attribute="listLong" CDS 910840..911928 /gene="icaC" /locus_tag="BSU_08360" /old_locus_tag="BSU08360" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 15849754, 16850406, 24776724, 25935415, 27303652; Product type t : transporter" /codon_start=1 /transl_table=11 /product="acetyl-glucosamine metabolite exporter componentinvolved in biofilm formation" /protein_id="NP_388717.1" /db_xref="EnsemblGenomes-Gn:BSU08360" /db_xref="EnsemblGenomes-Tr:CAB12665" /db_xref="GOA:O31559" /db_xref="InterPro:IPR002656" /db_xref="SubtiList:BG12893" /db_xref="UniProtKB/Swiss-Prot:O31559" /translation="MQIKEIFMIRCISCLSVVLLHIISMVLMLQAEALADISHTVDSF RTLLMFSTPAFIFISEFLLARSYPDGVPDGFLKKRGKVIFVPFLFIAAIDALLMTSAM GGEVTFLAFVQKYLANVFLGNFIGYFILVIFQFYMLHMMFHEYLKKASPKWVLSISFV VTAAYLGYFSAASPAPASEEGGAFPFFWVPFAGWLFYFCLAYYCGKEYKRFLALLNQY RWVVYGAAIASGALVVTVSYVGEIGMISSKRPDIMLYSTSMIFLCFHLFSKMKHVPKI MMFISNYSFSIYLLHAYFMIIGYVLLLNMPEIPAVPAVLLLFAVCTAGPIMTSWALNK FKYGYLFVGKIYQPKQKKVTVEVRDHAG*" gene 910840..911928 /gene="icaC" /locus_tag="BSU_08360" /old_locus_tag="BSU08360" S_feature complement(911330..911718) /Source="Nicolas_S_feature" /locus_tag="new_911330_911718_c" /HighExp="S6, S8, S7, S5, LBGstat, H2O2, Mt0, Cold, G180, LPhT" /AntisenseName="yfiQ" /AntisenseCor="0.36913176163336098" /AntisenseRegPval="-9.4" /CDS_PredictionProba="NA" /TUshortSig="SigK" /TUshortPSig="0.976" /TUlongSig="NA" /TUlongPSig="NA" /label="S286" upshifts complement(911718) /Source="Nicolas_upshifts" /id="U635" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.976023976023976" /psig="0.976023976023976" /xcortree=1391 /SigmaFactorBS="agccggtacggcaggaatTTCGGGCATattcaaaagcaaCAC GTAGCCTATAATCATAAaataggcatgaagcagataaatcgaaaaggaatagttgctg a" /listShort="S286" /GFF_Attribute="listLong" promotor_-10 complement(911720..911739) /Source="Nicolas_upshift_promotors" /id="U635" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.976023976023976" /psig="0.976023976023976" /xcortree=1391 /SigmaFactorBS="agccggtacggcaggaatTTCGGGCATattcaaaagcaaCAC GTAGCCTATAATCATAAaataggcatgaagcagataaatcgaaaaggaatagttgctg a" /listShort="S286" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(911752..911760) /Source="Nicolas_upshift_promotors" /id="U635" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.976023976023976" /psig="0.976023976023976" /xcortree=1391 /SigmaFactorBS="agccggtacggcaggaatTTCGGGCATattcaaaagcaaCAC GTAGCCTATAATCATAAaataggcatgaagcagataaatcgaaaaggaatagttgctg a" /listShort="S286" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(911964..912581) /gene="yfiR" /locus_tag="BSU_08370" /old_locus_tag="BSU08370" /function="16.3: Control" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:16862575" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16862575; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator (TetR/AcrR family)" /protein_id="NP_388718.1" /db_xref="EnsemblGenomes-Gn:BSU08370" /db_xref="EnsemblGenomes-Tr:CAB12666" /db_xref="GOA:O31560" /db_xref="InterPro:IPR001647" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR036271" /db_xref="PDB:1RKT" /db_xref="SubtiList:BG12894" /db_xref="UniProtKB/Swiss-Prot:O31560" /translation="MSPKVTKEHKDKRQAEILEAAKTVFKRKGFELTTMKDVVEESGF SRGGVYLYFSSTEEMFRRIIETGLDEGLRKLDKSAEHQSVWASISSYLDELTEGLRDV ADTLAPVQFEYLVTAWRNEERRQYLEKRYDLFVERFSRLLQKGIDQGEFQPVQPLATI AKFFLNMNDGIIQNALYFDEEKADVSGLAESAKLYLKTVLQADEK*" gene complement(911964..912581) /gene="yfiR" /locus_tag="BSU_08370" /old_locus_tag="BSU08370" downshifts complement(911982) /Source="Nicolas_upshifts" /id="D417" /incds=0 /nref=29 /ntot=209 /MaxReadThrough="2.44114" /MaxDrop="4.07715" /score="22.1532141" /energy="-17.1" /TU="NA" /idTUdmin="U636" /TUdmin=0 /isTUend="TRUE" CDS complement(912547..913800) /gene="yfiS" /locus_tag="BSU_08380" /old_locus_tag="BSU08380" /function="16.1: Circulate" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 9811639, 15849754, 16850406, 16862575; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative efflux transporter" /protein_id="NP_388719.1" /db_xref="EnsemblGenomes-Gn:BSU08380" /db_xref="EnsemblGenomes-Tr:CAB12667" /db_xref="GOA:O31561" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12895" /db_xref="UniProtKB/Swiss-Prot:O31561" /translation="MEKPLFRNQKGLMTLLASQTISSLGDWLHILAVLTLAAFQLHAS PLDMSLLMMSFALPVIVLGPVSGLLADRFDRKTIMFLSEIGRALTVISCVYVSELWQL YVLLSVQSCFSSLFLPAKNGKLKELAPEAHIQQAVSVSSIIDNSSKIFGPALGGTLIA AFSIHSVFYINAGAFFLSAVILFFLPRDAFLQKANTPQEKTAALTSIKEGLQFLKRMP LLLTGLLTACVVLFVLQIGDSQAIILIRSFSGAPPELAGWCMAVSGAGMLLTAAITGR RRITSYLLYFSAGTLLLGLATGGAPFLSGMGIAGITLFIFAFFIMGAAFGLVHIPFQI LVQTTVPVDYSGRVFGAIQSATTLASILGMAGGGVLAEWIGVSLAFLVCGCLLIMIGL ITLIGKKIAESRRYLVTKSNKGAQG*" gene complement(912547..913800) /gene="yfiS" /locus_tag="BSU_08380" /old_locus_tag="BSU08380" promotor_-10 complement(912608..912627) /Source="Nicolas_upshift_promotors" /id="U636" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.918081918081918" /psig="0.998001998001998" /xcortree=3148 /SigmaFactorBS="tcggtgtatcacttgcttttcttgtctgtggcTGCTTGCTga tcatgattgggTTGATTACACTTATAGGTAAgaaaattgcagaaagcaggcgatatct t" /listShort="yfiR" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(912620) /Source="Nicolas_upshifts" /id="U636" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.918081918081918" /psig="0.998001998001998" /xcortree=3148 /SigmaFactorBS="tcggtgtatcacttgcttttcttgtctgtggcTGCTTGCTga tcatgattgggTTGATTACACTTATAGGTAAgaaaattgcagaaagcaggcgatatct t" /listShort="yfiR" /GFF_Attribute="listLong" promotor_-35 complement(912641..912648) /Source="Nicolas_upshift_promotors" /id="U636" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.918081918081918" /psig="0.998001998001998" /xcortree=3148 /SigmaFactorBS="tcggtgtatcacttgcttttcttgtctgtggcTGCTTGCTga tcatgattgggTTGATTACACTTATAGGTAAgaaaattgcagaaagcaggcgatatct t" /listShort="yfiR" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(913834..913853) /Source="Nicolas_upshift_promotors" /id="U637" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.492507492507492" /psig="0.99100899100899" /xcortree=2727 /SigmaFactorBS="cttctattcaatcttctcctttattttacaagaaaaaGATTG TATattgtgtctttttcCCATACAATTAAAAACGACActagtgtcattttaataatca g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(913852) /Source="Nicolas_upshifts" /id="U637" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.492507492507492" /psig="0.99100899100899" /xcortree=2727 /SigmaFactorBS="cttctattcaatcttctcctttattttacaagaaaaaGATTG TATattgtgtctttttcCCATACAATTAAAAACGACActagtgtcattttaataatca g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(913868..913875) /Source="Nicolas_upshift_promotors" /id="U637" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.492507492507492" /psig="0.99100899100899" /xcortree=2727 /SigmaFactorBS="cttctattcaatcttctcctttattttacaagaaaaaGATTG TATattgtgtctttttcCCATACAATTAAAAACGACActagtgtcattttaataatca g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" misc_feature 913879..913898 /Source="Nicolas_upshift_promotors" /id="U638" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.77022977022977" /psig="0.98901098901099" /xcortree=3204 /SigmaFactorBS="atgacactagtgtcgtttttaattgtatgggaaaaagacaca atatacaatctttTTCTTGTAAAATAAAGGAGAagattgaatagaagggagaacattc a" /listShort="yfiT" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 913884 /Source="Nicolas_upshifts" /id="U638" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.77022977022977" /psig="0.98901098901099" /xcortree=3204 /SigmaFactorBS="atgacactagtgtcgtttttaattgtatgggaaaaagacaca atatacaatctttTTCTTGTAAAATAAAGGAGAagattgaatagaagggagaacattc a" /listShort="yfiT" /GFF_Attribute="listLong" CDS 913924..914460 /gene="bstA" /locus_tag="BSU_08390" /old_locus_tag="BSU08390" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:15581359, 22059487, 24821014, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15581359, 22059487, 24821014, 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="bacillithiol S-transferase" /protein_id="NP_388720.1" /db_xref="EnsemblGenomes-Gn:BSU08390" /db_xref="EnsemblGenomes-Tr:CAB12668" /db_xref="GOA:O31562" /db_xref="InterPro:IPR023774" /db_xref="InterPro:IPR024775" /db_xref="InterPro:IPR034660" /db_xref="PDB:1RXQ" /db_xref="SubtiList:BG12896" /db_xref="UniProtKB/Swiss-Prot:O31562" /translation="MTSVNLSYPIGEYKPRESISKEQKDKWIQVLEEVPAKLKQAVEV MTDSQLDTPYRDGGWTVRQVVHHLADSHMNSYIRFKLSLTEETPAIRPYDEKAWSELK DSKTADPSGSLALLQELHGRWTALLRTLTDQQFKRGFYHPDTKEIITLENALGLYVWH SHHHIAHITELSRRMGWS*" gene 913924..914460 /gene="bstA" /locus_tag="BSU_08390" /old_locus_tag="BSU08390" CDS complement(914457..916013) /gene="yfiU" /locus_tag="BSU_08400" /old_locus_tag="BSU08400" /function="16.1: Circulate" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative efflux transporter" /protein_id="NP_388721.1" /db_xref="EnsemblGenomes-Gn:BSU08400" /db_xref="EnsemblGenomes-Tr:CAB12669" /db_xref="GOA:O31563" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12897" /db_xref="UniProtKB/Swiss-Prot:O31563" /translation="MSEALTEQKSQKWAISLFTIGVFMAALDNGIISAALTTINESFS VSPSWGSWGITLYTLGLSVSVPIVGKLSDRYGRKKLFLIEVCLFGLGSLLVALSQSFP LFLISRLIQALGGGGIFIIGSSHILATLPKEKQGKALGLLGAMNGMAAVLGPNIGSFL LDWTGSWHWLFLINLPIAVLLVVFGACFIAETKAPEAKRLDAAGIFLLSLSILAVMYG MTNLDGANLLHSLGNPEVYGCIIFGILCFAALISYEKRVEMRGGDPILAYSLLRNHMF QRTLIIGLLSGGLLAAVIFIPSYVEQYLGVPAAKAGYWMTPLALASGIGAWLGGALTD KKGPVKTVILSGIISCAGFALFPLWVTEKWEFVIASVAAGIGFGFLLGAPLNVLVSEA AKTNKGTALGTLSLVRQIGLTLAPTLYAGFITAGFDQIGDEINSRLSDSGYSEKAMQM IPEIDSSEVSSLQEQIERIPVPEVKTAISDAIHASVASGYDHLYAAAAVVSLLVIAAI SIPAFRRQKR*" gene complement(914457..916013) /gene="yfiU" /locus_tag="BSU_08400" /old_locus_tag="BSU08400" promotor_-10 complement(916035..916053) /Source="Nicolas_upshift_promotors" /id="U639" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.623376623376623" /psig="0.623376623376623" /xcortree=795 /SigmaFactorBS="tgtcatccgcaaactgcgggagcaggctttttttatttgaCA TTtagttcatttaaaatGAATAATATATTTCAAGTGaactaaaaggagttgacgaaaa t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(916052) /Source="Nicolas_upshifts" /id="U639" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.623376623376623" /psig="0.623376623376623" /xcortree=795 /SigmaFactorBS="tgtcatccgcaaactgcgggagcaggctttttttatttgaCA TTtagttcatttaaaatGAATAATATATTTCAAGTGaactaaaaggagttgacgaaaa t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(916069..916072) /Source="Nicolas_upshift_promotors" /id="U639" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.623376623376623" /psig="0.623376623376623" /xcortree=795 /SigmaFactorBS="tgtcatccgcaaactgcgggagcaggctttttttatttgaCA TTtagttcatttaaaatGAATAATATATTTCAAGTGaactaaaaggagttgacgaaaa t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(916124..916606) /gene="yfiV" /locus_tag="BSU_08410" /old_locus_tag="BSU08410" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 18990441; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (MarR family)" /protein_id="NP_388722.1" /db_xref="EnsemblGenomes-Gn:BSU08410" /db_xref="EnsemblGenomes-Tr:CAB12670" /db_xref="GOA:O31564" /db_xref="InterPro:IPR000835" /db_xref="InterPro:IPR011991" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG12898" /db_xref="UniProtKB/Swiss-Prot:O31564" /translation="MEYNLHDTTVLNENILSSEEREIWVLYMKVLTSAGLGDVSEWMK LDMSMPQMKVLMLLNNHGTLKVSDIAEKMGASLSNTTGLLDRLEKSGFVKRSHSEEDR RSVVVQLTENAKKIFRGLYEKGHLKLKRSLELLSPEEKQAVYEGLSILSRALENAKKE *" gene complement(916124..916606) /gene="yfiV" /locus_tag="BSU_08410" /old_locus_tag="BSU08410" downshifts complement(916140) /Source="Nicolas_upshifts" /id="D418" /incds=0 /nref=58 /ntot=177 /MaxReadThrough="1.47849" /MaxDrop="4.15907" /score="27.2704527" /energy="-14.2" /TU="NA" /idTUdmin="U640" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(916631..916650) /Source="Nicolas_upshift_promotors" /id="U640" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.542457542457542" /psig="0.998001998001998" /xcortree=2019 /SigmaFactorBS="atttttcggacaaagtcccgcatgcggtttctgctcACTTTC TttcaggagtgaaaaTCGAGTAATATGGTAAGAGGagtgaatgatgaggaagtgatga a" /listShort="yfiV" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(916647) /Source="Nicolas_upshifts" /id="U640" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.542457542457542" /psig="0.998001998001998" /xcortree=2019 /SigmaFactorBS="atttttcggacaaagtcccgcatgcggtttctgctcACTTTC TttcaggagtgaaaaTCGAGTAATATGGTAAGAGGagtgaatgatgaggaagtgatga a" /listShort="yfiV" /GFF_Attribute="listLong" promotor_-35 complement(916665..916671) /Source="Nicolas_upshift_promotors" /id="U640" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.542457542457542" /psig="0.998001998001998" /xcortree=2019 /SigmaFactorBS="atttttcggacaaagtcccgcatgcggtttctgctcACTTTC TttcaggagtgaaaaTCGAGTAATATGGTAAGAGGagtgaatgatgaggaagtgatga a" /listShort="yfiV" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 916692..916699 /Source="Nicolas_upshift_promotors" /id="U641" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.544455544455544" /psig=1 /xcortree=2519 /SigmaFactorBS="tgaaagaaagtgagcagaaaccgcatgcgggACTTTGTCcga aaaataacggTAGTGTATAATGAGTTGGAGattattgggggagaggatcgaactagaa t" /listShort="mprF" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 916713..916732 /Source="Nicolas_upshift_promotors" /id="U641" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.544455544455544" /psig=1 /xcortree=2519 /SigmaFactorBS="tgaaagaaagtgagcagaaaccgcatgcgggACTTTGTCcga aaaataacggTAGTGTATAATGAGTTGGAGattattgggggagaggatcgaactagaa t" /listShort="mprF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 916721 /Source="Nicolas_upshifts" /id="U641" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.544455544455544" /psig=1 /xcortree=2519 /SigmaFactorBS="tgaaagaaagtgagcagaaaccgcatgcgggACTTTGTCcga aaaataacggTAGTGTATAATGAGTTGGAGattattgggggagaggatcgaactagaa t" /listShort="mprF" /GFF_Attribute="listLong" CDS 916778..919348 /gene="mprF" /locus_tag="BSU_08425" /old_locus_tag="BSU08425" /EC_number="2.3.2.3" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:2139213, 2490162, 12427923, 14702396, 15849754, 16299297, 16850406, 17042784, 19074395, 21306448, 26261323" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 2139213, 2490162, 12427923, 14702396, 15849754, 16299297, 16850406, 17042784, 19074395, 21306448, 26261323; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="phosphatidylglycerol lysyltransferase involved in tRNA-dependent lysinylation of phospholipids" /protein_id="YP_003097695.1" /db_xref="EnsemblGenomes-Gn:BSU08425" /db_xref="EnsemblGenomes-Tr:CAX52582" /db_xref="GOA:C0H3X7" /db_xref="InterPro:IPR016181" /db_xref="InterPro:IPR022791" /db_xref="InterPro:IPR024320" /db_xref="UniProtKB/Swiss-Prot:C0H3X7" /translation="MLIKKNALSILKIVFPIAVLLFVIYQSKKELTNLSFKRTLMVIN GLERTDLFMLVLIGLLAVAAMSLYDYVLKYSLRLSITNGKVFRVSWIANSFNNVLGFG GLAGVGLRMMFYKEHTKDHKALVKGIAWLTSSMLLGLSVFSIFVAARVLPVDEVIHEK PWLWAVVIGFALILPLSLAVSKIKDRKAGDEENADKVKNPIFAYIGASVVEWLMAGTV IYFALFAMGIHADIRYVFGVFVIAAIGGMISLVPGGFGSFDLLFLLGMEQLGYHQEAI VTSIVLYRLAYSFIPFILGLFFAAGDLTENTMKRLETNPRIAPAIETTNVLLVVQRAV LVRILQGSLSLIVFVAGLIVLASVSLPIDRLTVIPHIPRPALLLFNGLSLSSALILLI LPIELYKRTKRSYTMAITALVGGFVFSFLKGLNISAIFVLPMIIVLLVLLKKQFVREQ ASYTLGQLIFAVALFTVALFNYNLIAGFIWDRMKKVLRHEYFVHSTSHITHATIMAII IVPLFFLIFTVVYHKRTKPIGEKADPERLAAFLNEKGGNALSHLGFLGDKRFYFSSDG NALLLFGKIARRLVVLGDPSGQRESFPLVLEEFLNEAHQKGFSVLFYQIEREDMALYH DFGYNFFKLGEEAYVDLNTFTLTGKKKAGLRAINNRFEREEYTFHVDHPPFSDAFLEE LKQISDEWLGSKKEKGFSLGFFDPSYLQKAPIAYMKNAEGEIVAFANVMPMYQEGEIS VDLMRYRGDAPNGIMDALFIRMFLWAKEEGCTSFNMGMAPLANVGTAFTSFWSERFAA VIFNNVRYMYSFSGLRAFKEKYKPEWRGKYLAYRKNRSLSVTMFLVTRLIGKSKKDSV *" gene 916778..919348 /gene="mprF" /locus_tag="BSU_08425" /old_locus_tag="BSU08425" downshifts 919319 /Source="Nicolas_upshifts" /id="D419" /incds=0 /nref=121 /ntot=252 /MaxReadThrough="1.79352" /MaxDrop="5.78159" /score="49.2396824" /energy="-16.1" /TU="NA" /idTUdmin="U641" /TUdmin=0 /isTUend="TRUE" CDS complement(919366..920343) /gene="sxzY" /locus_tag="BSU_08440" /old_locus_tag="BSU08440" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 12354229, 19254027, 24606332; Product type t: transporter" /codon_start=1 /transl_table=11 /product="xenosiderophore schizokinen (dihydroxamate) transporter binding lipoprotein" /protein_id="NP_388725.1" /db_xref="EnsemblGenomes-Gn:BSU08440" /db_xref="EnsemblGenomes-Tr:CAB12673" /db_xref="GOA:O31567" /db_xref="InterPro:IPR002491" /db_xref="SubtiList:BG12901" /db_xref="UniProtKB/Swiss-Prot:O31567" /translation="MKKHISMLFVFLMAVMVLSACNSSESSSNSEVSSSKTRTVKHAM GTSDNIPANPKRIVVLTNEGTEALLALGIKPVGAVKSWKGDPWYDYLKDDMKGVKNVG LETEPNVEAIAELKPDLIIGNKVRQEKIYDQLNAIAPTVFAESLAGNWKDNLTLYANA VNKADKGKEVIADFDKRVSDLKNKLGDQTNKTVSVVRFLSGESRIYYTDSFPGIILDQ LGFKRPEKQVELFKKQKDQFTFSTDSKESIPDMDADVLFYFTYKADNAKENEKWANQW TSSSLWKNLKAVKSGNAHEVDDVVWTTAGGIKAANYLLDDIETYFLKTK*" gene complement(919366..920343) /gene="sxzY" /locus_tag="BSU_08440" /old_locus_tag="BSU08440" downshifts complement(919377) /Source="Nicolas_upshifts" /id="D420" /incds=0 /nref=165 /ntot=248 /MaxReadThrough="1.28876" /MaxDrop="7.70135" /score="35.2605181" /energy="-16.1" /TU="NA" /idTUdmin="U643" /TUdmin="-4" /isTUend="TRUE" promotor_-35 920358..920365 /Source="Nicolas_upshift_promotors" /id="U642" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.458541458541459" /psig="0.998001998001998" /xcortree=2100 /SigmaFactorBS="gcatgctgatatgctttttcatctttttcctcccaaTATTGA AAttcattatcatttaGATCATAATAAGCAGTGTTAagagtgtcaatccctaattgag g" /listShort="S287, yfiZ, yfhA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(920370..920389) /Source="Nicolas_upshift_promotors" /id="U643" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.96003996003996" /psig=1 /xcortree=2109 /SigmaFactorBS="tgtaatgtttgtttttgagaataatcctcaattaggGATTGA CActcttaacactgctTATTATGATCTAAATGATAAtgaatttcaatattgggaggaa a" /listShort="yfiY" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-10 920380..920399 /Source="Nicolas_upshift_promotors" /id="U642" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.458541458541459" /psig="0.998001998001998" /xcortree=2100 /SigmaFactorBS="gcatgctgatatgctttttcatctttttcctcccaaTATTGA AAttcattatcatttaGATCATAATAAGCAGTGTTAagagtgtcaatccctaattgag g" /listShort="S287, yfiZ, yfhA" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 920382..920473 /Source="Nicolas_S_feature" /locus_tag="new_920382_920473" /HighExp="dia0, Lbexp, LBGexp, H2O2, G150, GM 10, Oxctl, dia15, Paraq, GM 5" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S287" upshifts 920382 /Source="Nicolas_upshifts" /id="U642" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.458541458541459" /psig="0.998001998001998" /xcortree=2100 /SigmaFactorBS="gcatgctgatatgctttttcatctttttcctcccaaTATTGA AAttcattatcatttaGATCATAATAAGCAGTGTTAagagtgtcaatccctaattgag g" /listShort="S287, yfiZ, yfhA" /GFF_Attribute="listLong" upshifts complement(920387) /Source="Nicolas_upshifts" /id="U643" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.96003996003996" /psig=1 /xcortree=2109 /SigmaFactorBS="tgtaatgtttgtttttgagaataatcctcaattaggGATTGA CActcttaacactgctTATTATGATCTAAATGATAAtgaatttcaatattgggaggaa a" /listShort="yfiY" /GFF_Attribute="listLong" promotor_-35 complement(920404..920411) /Source="Nicolas_upshift_promotors" /id="U643" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.96003996003996" /psig=1 /xcortree=2109 /SigmaFactorBS="tgtaatgtttgtttttgagaataatcctcaattaggGATTGA CActcttaacactgctTATTATGATCTAAATGATAAtgaatttcaatattgggaggaa a" /listShort="yfiY" /GFF_Attribute="listLong" /label="promotor_-35" CDS 920474..921475 /gene="sxzZ" /locus_tag="BSU_08450" /old_locus_tag="BSU08450" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:12354229, 15849754, 16672620, 16850406, 19254027" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12354229, 15849754, 16672620, 16850406, 19254027; Product type t : transporter" /codon_start=1 /transl_table=11 /product="xenosiderophore schizokinen (dihydroxamate) transporter (permease)" /protein_id="NP_388726.1" /db_xref="EnsemblGenomes-Gn:BSU08450" /db_xref="EnsemblGenomes-Tr:CAB12674" /db_xref="GOA:O31568" /db_xref="InterPro:IPR000522" /db_xref="InterPro:IPR035568" /db_xref="SubtiList:BG12902" /db_xref="UniProtKB/Swiss-Prot:O31568" /translation="MICKKASSKWIVLVCLIFILLTAVCASVVYGYTGTSWRQVYQAF TSFNGTNEHVIIKDVRLPRALVATVVGASLAAAGALMQALTKNPLASPGIFGINAGAG FFIVAGSFFLHIQSPQALVWSSFLGAAFTAAIVYAAGSLGREGLTPIKLTLAGAAMAA MFSSLTQGLLSVNELELAQVLFWLTGSVQGRSLDLLMTMFPYAAAALVICFFLGQKIN LLVMGEDVAKGLGQKTGLLKFVMALCVVMLAGSAVAIAGPISFIGIIIPHFARFVVGN DYRWVLPFSAVLGAILLVCADIGARYIIMPQEVPVGVMTAIIGMPVFVYIARRGAKL* " gene 920474..921475 /gene="sxzZ" /locus_tag="BSU_08450" /old_locus_tag="BSU08450" CDS 921472..922503 /gene="sxzA" /locus_tag="BSU_08460" /old_locus_tag="BSU08460" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:12354229, 15849754, 16672620, 16850406, 19254027" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12354229, 15849754, 16672620, 16850406, 19254027; Product type t : transporter" /codon_start=1 /transl_table=11 /product="xenosiderophore schizokinen (dihydroxamate) transporter (permease)" /protein_id="NP_388727.1" /db_xref="EnsemblGenomes-Gn:BSU08460" /db_xref="EnsemblGenomes-Tr:CAB12675" /db_xref="GOA:O31569" /db_xref="InterPro:IPR000522" /db_xref="InterPro:IPR035568" /db_xref="SubtiList:BG12876" /db_xref="UniProtKB/Swiss-Prot:O31569" /translation="MKLRFGVTAAEKKAWIVFLVLLGLTAAVLIISAGLGQRFIPPWD VAKTFFGAGSKLDELMIMSFRMPRILTALCAGVCLAAAGAILQGLVRNPLASPDIIGI TGGAAVAVVLLMMFFSDRSSSLTISLSWLPAAAFIGASAVGLIVYLLAYKNGASTFRL VLIGIGFSMSAQAMTTLLMIKGPIYRASQANVYITGSVYGSNWQHVKIAIILSVILLF ICFVALKNMNIQVLGEDIAAGAGSAVQRNRFFLLLLSTALTGCAVSVAGTIGFVGLMA PHIARRLVGSSYGALLPASALIGALLVLTADIVGRTLFAPVEVPAGVFTAAIGAPYFI YLLYKTRNS*" gene 921472..922503 /gene="sxzA" /locus_tag="BSU_08460" /old_locus_tag="BSU08460" downshifts 922484 /Source="Nicolas_upshifts" /id="D421" /incds=0 /nref=24 /ntot=154 /MaxReadThrough="3.26686" /MaxDrop="4.27732" /score="19.6751667" /energy="-12.8" /TU="NA" /idTUdmin="U642" /TUdmin="-3" /isTUend="TRUE" promotor_-35 922554..922556 /Source="Nicolas_upshift_promotors" /id="U644" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.945054945054945" /psig="0.999000999001" /xcortree=2943 /SigmaFactorBS="attttcttaaaaaagaaaatgggtttttttgataatgacTGA agattcgtaattattTTTGCTATACTGACAGAGACattgataaagaaagggcggcaga t" /listShort="yfhB, yfhC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 922572..922591 /Source="Nicolas_upshift_promotors" /id="U644" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.945054945054945" /psig="0.999000999001" /xcortree=2943 /SigmaFactorBS="attttcttaaaaaagaaaatgggtttttttgataatgacTGA agattcgtaattattTTTGCTATACTGACAGAGACattgataaagaaagggcggcaga t" /listShort="yfhB, yfhC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 922575 /Source="Nicolas_upshifts" /id="U644" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.945054945054945" /psig="0.999000999001" /xcortree=2943 /SigmaFactorBS="attttcttaaaaaagaaaatgggtttttttgataatgacTGA agattcgtaattattTTTGCTATACTGACAGAGACattgataaagaaagggcggcaga t" /listShort="yfhB, yfhC" /GFF_Attribute="listLong" CDS 922618..923499 /gene="yfhB" /locus_tag="BSU_08470" /old_locus_tag="BSU08470" /EC_number="5.1.-.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative isomerase" /protein_id="NP_388728.1" /db_xref="EnsemblGenomes-Gn:BSU08470" /db_xref="EnsemblGenomes-Tr:CAB12676" /db_xref="GOA:O31570" /db_xref="InterPro:IPR003719" /db_xref="SubtiList:BG12877" /db_xref="UniProtKB/Swiss-Prot:O31570" /translation="MKEAEVLKYEAFTSSPGKGNPAGVVLQGDDYTEDEMQIIAERAG YSETSFIRKSESADLELRYFTPGHEMNLCGHATVASLYALCEKGMLESGKTYSIQTKA GILPVKISEKDGRIHITLEQASPQFKPFTGDRKKLADALGITDEDFHEDLPIVFGSTG IWTAIVPLKSLEASKKMVPDNKQFPEVLVDLPKASVHPFTFETVHPDSDLHGRHFSSP YSGTIEDPVTGTASGVMGAYMKHYGNAEQHKFIIEQGQEIGKDGKVEIEMNEAGGHVK VNMTGTAVYSETRILKI*" gene 922618..923499 /gene="yfhB" /locus_tag="BSU_08470" /old_locus_tag="BSU08470" promotor_-35 923510..923517 /Source="Nicolas_upshift_promotors" /id="U645" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.719280719280719" /psig="0.998001998001998" /xcortree=2110 /SigmaFactorBS="cgtattcttaaaatctaatacggatgatGGTTTACAaaaaga tgcactttcCGTTATCATTATGAAATGATaatcattttcaattgcataggaaggtgag a" /listShort="yfhC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 923533..923552 /Source="Nicolas_upshift_promotors" /id="U645" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.719280719280719" /psig="0.998001998001998" /xcortree=2110 /SigmaFactorBS="cgtattcttaaaatctaatacggatgatGGTTTACAaaaaga tgcactttcCGTTATCATTATGAAATGATaatcattttcaattgcataggaaggtgag a" /listShort="yfhC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 923542 /Source="Nicolas_upshifts" /id="U645" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.719280719280719" /psig="0.998001998001998" /xcortree=2110 /SigmaFactorBS="cgtattcttaaaatctaatacggatgatGGTTTACAaaaaga tgcactttcCGTTATCATTATGAAATGATaatcattttcaattgcataggaaggtgag a" /listShort="yfhC" /GFF_Attribute="listLong" CDS 923587..924171 /gene="yfhC" /locus_tag="BSU_08480" /old_locus_tag="BSU08480" /EC_number="1.6.99.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12354229, 22287527; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative oxidoreductase (nitroreductase family)" /protein_id="NP_388729.1" /db_xref="EnsemblGenomes-Gn:BSU08480" /db_xref="EnsemblGenomes-Tr:CAB12677" /db_xref="GOA:O31571" /db_xref="InterPro:IPR000415" /db_xref="InterPro:IPR026021" /db_xref="InterPro:IPR029479" /db_xref="SubtiList:BG12878" /db_xref="UniProtKB/Swiss-Prot:O31571" /translation="MPQTEQIHQHSVLRDIIRSRRSIRKFKQEPVPSAVILDMLETAK YAPNHRVTEPWRFIYVSSETGKANLINTFAAFSKKSKPDMTEEKLQNFKNTLGRVPGF LLVVFQEDENERARDDDFAATSSLIQNLQLLAWEKGIGMVWKSGKILYDKEVHQAFGL QDNERFAAIIQTGYPDEAPEVKKRTPIRDRFTEM*" gene 923587..924171 /gene="yfhC" /locus_tag="BSU_08480" /old_locus_tag="BSU08480" downshifts 924158 /Source="Nicolas_upshifts" /id="D422" /incds=0 /nref=208 /ntot=262 /MaxReadThrough="3.27483" /MaxDrop="6.40857" /score="21.7703837" /energy="-18.2" /TU="U645" /idTUdmin="U644" /TUdmin="-1" /isTUend="TRUE" CDS complement(924210..924401) /gene="yfhD" /locus_tag="BSU_08490" /old_locus_tag="BSU08490" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388730.1" /db_xref="EnsemblGenomes-Gn:BSU08490" /db_xref="EnsemblGenomes-Tr:CAB12678" /db_xref="InterPro:IPR025435" /db_xref="SubtiList:BG12879" /db_xref="UniProtKB/Swiss-Prot:O31572" /translation="MGRNHIHKNRDKNKQKLPQVPDALKRETDGVYEEYSTELADADD REAQERAKAADNRAKKKSR*" gene complement(924210..924401) /gene="yfhD" /locus_tag="BSU_08490" /old_locus_tag="BSU08490" downshifts complement(924228) /Source="Nicolas_upshifts" /id="D423" /incds=0 /nref=65 /ntot=197 /MaxReadThrough="0.436919999999999" /MaxDrop="8.51174" /score="30.1998663" /energy="-18.2" /TU="NA" /idTUdmin="U649" /TUdmin=7 /isTUend="TRUE" upshifts complement(924433) /Source="Nicolas_upshifts" /id="U646" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=840 /SigmaFactorBS="cggaaaaagctgctaagcggaagtaGGAATACatagcccctt aaaaCCAAATACTATAtttgtttgatatcactttttagggggaatttgatatgggcag a" /listShort="yfhD" /GFF_Attribute="listLong" promotor_-10 complement(924436..924447) /Source="Nicolas_upshift_promotors" /id="U646" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=840 /SigmaFactorBS="cggaaaaagctgctaagcggaagtaGGAATACatagcccctt aaaaCCAAATACTATAtttgtttgatatcactttttagggggaatttgatatgggcag a" /listShort="yfhD" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(924462..924468) /Source="Nicolas_upshift_promotors" /id="U646" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=840 /SigmaFactorBS="cggaaaaagctgctaagcggaagtaGGAATACatagcccctt aaaaCCAAATACTATAtttgtttgatatcactttttagggggaatttgatatgggcag a" /listShort="yfhD" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(924468..924578) /gene="yfhE" /locus_tag="BSU_08500" /old_locus_tag="BSU08500" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="NP_388731.1" /db_xref="EnsemblGenomes-Gn:BSU08500" /db_xref="EnsemblGenomes-Tr:CAB12679" /db_xref="InterPro:IPR025437" /db_xref="SubtiList:BG12880" /db_xref="UniProtKB/Swiss-Prot:O31573" /translation="MEKKREKHQQGANLKKMQEVLYSGEFKKAEKAAKRK*" gene complement(924468..924578) /gene="yfhE" /locus_tag="BSU_08500" /old_locus_tag="BSU08500" promotor_-10 complement(924607..924618) /Source="Nicolas_upshift_promotors" /id="U647" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=1140 /SigmaFactorBS="actctcacagctgatagcggaccgaaagacTGTATAAaaaca gcaggaagcGTCAACCTTAAGaataacatggttgaaggaggtcctttttatggaaaaa a" /listShort="yfhE, yfhD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(924609) /Source="Nicolas_upshifts" /id="U647" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=1140 /SigmaFactorBS="actctcacagctgatagcggaccgaaagacTGTATAAaaaca gcaggaagcGTCAACCTTAAGaataacatggttgaaggaggtcctttttatggaaaaa a" /listShort="yfhE, yfhD" /GFF_Attribute="listLong" promotor_-35 complement(924633..924639) /Source="Nicolas_upshift_promotors" /id="U647" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=1140 /SigmaFactorBS="actctcacagctgatagcggaccgaaagacTGTATAAaaaca gcaggaagcGTCAACCTTAAGaataacatggttgaaggaggtcctttttatggaaaaa a" /listShort="yfhE, yfhD" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(924633..925544) /gene="yfhF" /locus_tag="BSU_08510" /old_locus_tag="BSU08510" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative nucleotide-or NAD-binding protein" /protein_id="NP_388732.1" /db_xref="EnsemblGenomes-Gn:BSU08510" /db_xref="EnsemblGenomes-Tr:CAB12680" /db_xref="GOA:O31574" /db_xref="InterPro:IPR001509" /db_xref="InterPro:IPR010099" /db_xref="InterPro:IPR013549" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG12881" /db_xref="UniProtKB/Swiss-Prot:O31574" /translation="MNIAMTGGTGFLGQHLTGVLTRQGHHVYILSRNARETEQKNMTY VQWLSEGAAPEQELPHIDVWINLAGKSIFGRWTEKTKQHILSSRINATREVQRLIQKQ KEKPKTLIQASAVGIYGTSLEKTFTEDSATSDEDFLSHTAHLWEKEGQHIEAMGIRTV YARFGVMLGEKGALPLMILPYKFLAGGTIGTGRQWLSWIHVEDAAQMIRYAVENAGIS GPMNVTAPNPVDMKQFGKTIARVKHRPHWLPVPEFFLSKALGEMSLLIVKGQRALPKK AITSGFRFTYSDLEFALSQLIADRKTV*" gene complement(924633..925544) /gene="yfhF" /locus_tag="BSU_08510" /old_locus_tag="BSU08510" promotor_-35 925430..925433 /Source="Nicolas_upshift_promotors" /id="U648" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.531468531468531" /psig="0.999000999001" /xcortree=2741 /SigmaFactorBS="acagccattggacatatgtcatatttttttGTTCagtttccc ttgcgtttCTTGATAAAATATAAACATGgtgtccctggcgggtaagaacgcctgtcag a" /listShort="S288, recX, yfhH" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 925450..925469 /Source="Nicolas_upshift_promotors" /id="U648" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.531468531468531" /psig="0.999000999001" /xcortree=2741 /SigmaFactorBS="acagccattggacatatgtcatatttttttGTTCagtttccc ttgcgtttCTTGATAAAATATAAACATGgtgtccctggcgggtaagaacgcctgtcag a" /listShort="S288, recX, yfhH" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 925460..925632 /Source="Nicolas_S_feature" /locus_tag="new_925460_925632" /HighExp="LBGstat, Lbtran, T1.30H, T2.0H, T2.30H, M9-stat, T1.0H, T3.0H, Sw, G180" /AntisenseName="yfhF" /AntisenseCor="-5.3501479327985699E-2" /AntisenseRegPval="-0.4" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S288" upshifts 925460 /Source="Nicolas_upshifts" /id="U648" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.531468531468531" /psig="0.999000999001" /xcortree=2741 /SigmaFactorBS="acagccattggacatatgtcatatttttttGTTCagtttccc ttgcgtttCTTGATAAAATATAAACATGgtgtccctggcgggtaagaacgcctgtcag a" /listShort="S288, recX, yfhH" /GFF_Attribute="listLong" promotor_-10 complement(925566..925584) /Source="Nicolas_upshift_promotors" /id="U649" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.988011988011988" /psig="0.988011988011988" /xcortree=135 /SigmaFactorBS="aacggcatcttaatctcccttctcaggcctgaaacgCGTTTT CttttattacaatgAGGTAAAGTATATTTATTAgaacgatgaggagagatgttcatga a" /listShort="yfhF, yfhE, yfhD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(925580) /Source="Nicolas_upshifts" /id="U649" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.988011988011988" /psig="0.988011988011988" /xcortree=135 /SigmaFactorBS="aacggcatcttaatctcccttctcaggcctgaaacgCGTTTT CttttattacaatgAGGTAAAGTATATTTATTAgaacgatgaggagagatgttcatga a" /listShort="yfhF, yfhE, yfhD" /GFF_Attribute="listLong" promotor_-35 complement(925598..925604) /Source="Nicolas_upshift_promotors" /id="U649" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.988011988011988" /psig="0.988011988011988" /xcortree=135 /SigmaFactorBS="aacggcatcttaatctcccttctcaggcctgaaacgCGTTTT CttttattacaatgAGGTAAAGTATATTTATTAgaacgatgaggagagatgttcatga a" /listShort="yfhF, yfhE, yfhD" /GFF_Attribute="listLong" /label="promotor_-35" CDS 925633..926427 /gene="recX" /locus_tag="BSU_08520" /old_locus_tag="BSU08520" /function="16.3: Control" /function="16.9: Replicate" /experiment="publication(s) with functional evidences, PMID:8946165, 10869079, 12547390, 23284295, 24285298" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8946165, 10869079, 12547390, 23284295, 24285298; Product type r: regulator" /codon_start=1 /transl_table=11 /product="regulatory protein RecX" /protein_id="NP_388733.1" /db_xref="EnsemblGenomes-Gn:BSU08520" /db_xref="EnsemblGenomes-Tr:CAB12681" /db_xref="GOA:O31575" /db_xref="InterPro:IPR003783" /db_xref="InterPro:IPR036388" /db_xref="SubtiList:BG12882" /db_xref="UniProtKB/Swiss-Prot:O31575" /translation="MPFITKISTQKKNTERFNIFLDDKYAFSVDADVLVKFELKKGKE LDDLDIIEIQYGDEVKKGFNRALDFLSYRMRSTKEVEDHLKKKETSPPVIAEVIHRLN DYKYLNDQEFAAAYVSTHKKTNGKGPDVLFRELRAKGIDDDTIKEALSSFSFEDQTRE AVKHVEKLLKKDKKLSTKELKQRAQLQLQRKGFSFDVISAAMDQIEYENDEDTEKEAL RLHAEKAFRKYRYDGSYESAMKVKQFLFRKGFSLDLIEQLLQEEEY*" gene 925633..926427 /gene="recX" /locus_tag="BSU_08520" /old_locus_tag="BSU08520" CDS 926429..926743 /gene="yfhH" /locus_tag="BSU_08530" /old_locus_tag="BSU08530" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 22720735" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388734.1" /db_xref="EnsemblGenomes-Gn:BSU08530" /db_xref="EnsemblGenomes-Tr:CAB12682" /db_xref="InterPro:IPR014938" /db_xref="InterPro:IPR036289" /db_xref="PDB:1SF9" /db_xref="SubtiList:BG12883" /db_xref="UniProtKB/Swiss-Prot:O31576" /translation="MEKRYSQMTPHELNTEIALLSEKARKAEQHGIINELAVLERKIT MAKAYLLNPEDYSPGETYRVENTEDEFTISYLNGVFAWGYRTSSPQQEEALPISVLQE KE*" gene 926429..926743 /gene="yfhH" /locus_tag="BSU_08530" /old_locus_tag="BSU08530" S_feature complement(926651..926919) /Source="Nicolas_S_feature" /locus_tag="new_926651_926919_c" /HighExp="S8, S6, S5, S7, C30, S4, nit, ferm, BT, G135" /AntisenseName="yfhH" /AntisenseCor="-0.53569713251514905" /AntisenseRegPval="-20.7" /CDS_PredictionProba="NA" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S289" downshifts 926733 /Source="Nicolas_upshifts" /id="D424" /incds=0 /nref=71 /ntot=206 /MaxReadThrough="2.93348" /MaxDrop="5.2859" /score="24.7235138" /energy="-11.6" /TU="NA" /idTUdmin="U648" /TUdmin=0 /isTUend="TRUE" promotor_-35 926817..926822 /Source="Nicolas_upshift_promotors" /id="U650" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.460539460539461" /psig=1 /xcortree=2471 /SigmaFactorBS="cagcacatttacacgaattcttaaagaaaaaatcATTGAAtt cacttgaaaaatcTTTTAAGATGAAACTCGTTGttttttaaaatcaaaggaggcgatg a" /listShort="yfhI, S290, S291, yfhJ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 926838..926857 /Source="Nicolas_upshift_promotors" /id="U650" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.460539460539461" /psig=1 /xcortree=2471 /SigmaFactorBS="cagcacatttacacgaattcttaaagaaaaaatcATTGAAtt cacttgaaaaatcTTTTAAGATGAAACTCGTTGttttttaaaatcaaaggaggcgatg a" /listShort="yfhI, S290, S291, yfhJ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 926843 /Source="Nicolas_upshifts" /id="U650" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.460539460539461" /psig=1 /xcortree=2471 /SigmaFactorBS="cagcacatttacacgaattcttaaagaaaaaatcATTGAAtt cacttgaaaaatcTTTTAAGATGAAACTCGTTGttttttaaaatcaaaggaggcgatg a" /listShort="yfhI, S290, S291, yfhJ" /GFF_Attribute="listLong" CDS 926886..928079 /gene="yfhI" /locus_tag="BSU_08540" /old_locus_tag="BSU08540" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406, 22226636; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative efflux transporter" /protein_id="NP_388735.1" /db_xref="EnsemblGenomes-Gn:BSU08540" /db_xref="EnsemblGenomes-Tr:CAB12683" /db_xref="GOA:O31577" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12884" /db_xref="UniProtKB/Swiss-Prot:O31577" /translation="MSIKNPSVKFIIFVLMICTFSIGYTEYAVMGILTSIANDFHIQV SSAGLLVTAYAASVCLTGPLVTIISVKLPRKPVLLGLMAIFILSNLMSALAPNFAVLA ISRILSASIHGAFFAIAMVFASEMVPPEKRAAAAASMNGGLTVALMLGVPFGSYLGDV LNWRAVFSIITALGVIGFLGLMAAVPNRKPKVIPMLMNEWGVFKHKQVLFSFAITILG YSGVFIAYTFIEPILRHSAGFSTVGITGALFAYGLGGVAGNFFAGKVPLPLLTRTMIG VMIGLIGVLAVFPYIAIYPAAAIVATFLFGACAFGTPPLLQTKVISSSEGGTTIAAAV SVSAFNLANALGAWIGGMILNGTGSYSWLFAGGALMTACGLVLSTFAHLSEKKSVYEY QVNKG*" gene 926886..928079 /gene="yfhI" /locus_tag="BSU_08540" /old_locus_tag="BSU08540" S_feature 928080..928314 /Source="Nicolas_S_feature" /locus_tag="new_928080_928314" /HighExp="G180, Paraq, C30, Oxctl, H2O2, G135, G150, S8, Heat, LBGstat" /AntisenseName="sspK" /AntisenseCor="1.9886505145521101E-2" /AntisenseRegPval="-0.1" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S290" CDS complement(928112..928264) /gene="sspK" /locus_tag="BSU_08550" /old_locus_tag="BSU08550" /function="16.5: Explore" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:10806362" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10806362; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="small acid-soluble spore protein" /protein_id="YP_054573.1" /db_xref="EnsemblGenomes-Gn:BSU08550" /db_xref="EnsemblGenomes-Tr:CAE01449" /db_xref="GOA:Q7WY75" /db_xref="InterPro:IPR012611" /db_xref="SubtiList:BG14175" /db_xref="UniProtKB/Swiss-Prot:Q7WY75" /translation="MVRNKEKGFPYENENKFQGEPRAKDDYASKRADGSINQHPQERM RASGKR*" gene complement(928112..928264) /gene="sspK" /locus_tag="BSU_08550" /old_locus_tag="BSU08550" downshifts complement(928129) /Source="Nicolas_upshifts" /id="D425" /incds=0 /nref=24 /ntot=45 /MaxReadThrough="2.36419" /MaxDrop="4.9889" /score="20.2715496" /energy="-12.3" /TU="NA" /idTUdmin="U652" /TUdmin=0 /isTUend="TRUE" promotor_-35 928293..928300 /Source="Nicolas_upshift_promotors" /id="U651" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.924075924075924" /psig="0.995004995004995" /xcortree=2031 /SigmaFactorBS="tcggaccatgtcatatccccctaggttcgagatcaaaAAGTT GCGtcttttcagatgaAGACGTAAGGTTAGTATATGgagaacaccacgtaataaagcg t" /listShort="S291, yfhJ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 928314..928333 /Source="Nicolas_upshift_promotors" /id="U651" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.924075924075924" /psig="0.995004995004995" /xcortree=2031 /SigmaFactorBS="tcggaccatgtcatatccccctaggttcgagatcaaaAAGTT GCGtcttttcagatgaAGACGTAAGGTTAGTATATGgagaacaccacgtaataaagcg t" /listShort="S291, yfhJ" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 928316..928388 /Source="Nicolas_S_feature" /locus_tag="new_928316_928388" /HighExp="dia5, LPhT, Diami, dia15, Etha, T0.30H, H2O2, LBGstat, BC, Salt" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.995, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S291" upshifts 928316 /Source="Nicolas_upshifts" /id="U651" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.924075924075924" /psig="0.995004995004995" /xcortree=2031 /SigmaFactorBS="tcggaccatgtcatatccccctaggttcgagatcaaaAAGTT GCGtcttttcagatgaAGACGTAAGGTTAGTATATGgagaacaccacgtaataaagcg t" /listShort="S291, yfhJ" /GFF_Attribute="listLong" promotor_-10 complement(928323..928334) /Source="Nicolas_upshift_promotors" /id="U652" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=867 /SigmaFactorBS="ttcatgtgtgcagtctcctttcttcaggaaaaaaataaCGCT TTAttacgtggtgttctCCATATACTAACcttacgtcttcatctgaaaagacgcaact t" /listShort="sspK" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(928333) /Source="Nicolas_upshifts" /id="U652" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=867 /SigmaFactorBS="ttcatgtgtgcagtctcctttcttcaggaaaaaaataaCGCT TTAttacgtggtgttctCCATATACTAACcttacgtcttcatctgaaaagacgcaact t" /listShort="sspK" /GFF_Attribute="listLong" promotor_-35 complement(928349..928355) /Source="Nicolas_upshift_promotors" /id="U652" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=867 /SigmaFactorBS="ttcatgtgtgcagtctcctttcttcaggaaaaaaataaCGCT TTAttacgtggtgttctCCATATACTAACcttacgtcttcatctgaaaagacgcaact t" /listShort="sspK" /GFF_Attribute="listLong" /label="promotor_-35" CDS 928389..928658 /gene="yfhJ" /locus_tag="BSU_08560" /old_locus_tag="BSU08560" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388736.1" /db_xref="EnsemblGenomes-Gn:BSU08560" /db_xref="EnsemblGenomes-Tr:CAB12684" /db_xref="InterPro:IPR026952" /db_xref="SubtiList:BG12885" /db_xref="UniProtKB/Swiss-Prot:O31578" /translation="MNMYIEKLTNLLLEKNEMISYIQAKTWVELLWSDFEATYAKAGH AYQGEKMTEKIVTQWIENYGGQLHLFQSSRNDVNDYLNQSRGLLH*" gene 928389..928658 /gene="yfhJ" /locus_tag="BSU_08560" /old_locus_tag="BSU08560" downshifts 928647 /Source="Nicolas_upshifts" /id="D426" /incds=0 /nref=62 /ntot=233 /MaxReadThrough="2.9538" /MaxDrop="5.3621" /score="19.3423239" /energy="-10.6" /TU="NA" /idTUdmin="U650" /TUdmin=0 /isTUend="TRUE" promotor_-35 928736..928742 /Source="Nicolas_upshift_promotors" /id="U653" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=223 /SigmaFactorBS="ttaaaattaccttaacaggaagaaatcataaacaaaacaTGT TTCAccagcctgtcaatcaGGGAATACCACTTATATCTtgtcaaaatgcgaggaggag c" /listShort="yfhK, S292, yfhL, yfhM, S293, S294, csbB, S295, yfhO" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 928757 /Source="Nicolas_upshifts" /id="U653" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=223 /SigmaFactorBS="ttaaaattaccttaacaggaagaaatcataaacaaaacaTGT TTCAccagcctgtcaatcaGGGAATACCACTTATATCTtgtcaaaatgcgaggaggag c" /listShort="yfhK, S292, yfhL, yfhM, S293, S294, csbB, S295, yfhO" /GFF_Attribute="listLong" promotor_-10 928758..928776 /Source="Nicolas_upshift_promotors" /id="U653" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=223 /SigmaFactorBS="ttaaaattaccttaacaggaagaaatcataaacaaaacaTGT TTCAccagcctgtcaatcaGGGAATACCACTTATATCTtgtcaaaatgcgaggaggag c" /listShort="yfhK, S292, yfhL, yfhM, S293, S294, csbB, S295, yfhO" /GFF_Attribute="listLong" /label="promotor_-10" CDS 928803..929321 /gene="yfhK" /locus_tag="BSU_08570" /old_locus_tag="BSU08570" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative exported protein" /protein_id="NP_388737.1" /db_xref="EnsemblGenomes-Gn:BSU08570" /db_xref="EnsemblGenomes-Tr:CAB12685" /db_xref="InterPro:IPR003646" /db_xref="SubtiList:BG12886" /db_xref="UniProtKB/Swiss-Prot:O31579" /translation="MKKKQVMLALTAAAGLGLTALHSAPAAKAAPLHDISVSMPSSDT YIIKAGKLNVRTEPNHEGDILGTVSSEQKVKVDRFVNADWAQIHFKGKKAYISTHFLM KTASQAKTTKQTAFYTPTPENGKAKQLSSGTEVTILGWGFSENGGFDFTWAFVDYGGV KGYIHTKDLQMR*" gene 928803..929321 /gene="yfhK" /locus_tag="BSU_08570" /old_locus_tag="BSU08570" S_feature 929322..929389 /Source="Nicolas_S_feature" /locus_tag="new_929322_929389" /HighExp="Etha, Sw, Salt, M9-stat, B60, B36, Gly, LoTm, BC, LPhT" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigB" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S292" promotor_-35 929357..929366 /Source="Nicolas_upshift_promotors" /id="U654" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1692 /SigmaFactorBS="ccgaggcttgtctttttgcctatgcaTGAAACATTTcttctt tctgcACGTAACAATGAGAAAggagatgatgatatgacgggtttagtcggcggagggc t" /listShort="yfhL, yfhM" /listLong="S293, S294, csbB, S295, yfhO" /label="promotor_-35" promotor_-10 929378..929393 /Source="Nicolas_upshift_promotors" /id="U654" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1692 /SigmaFactorBS="ccgaggcttgtctttttgcctatgcaTGAAACATTTcttctt tctgcACGTAACAATGAGAAAggagatgatgatatgacgggtttagtcggcggagggc t" /listShort="yfhL, yfhM" /listLong="S293, S294, csbB, S295, yfhO" /label="promotor_-10" upshifts 929391 /Source="Nicolas_upshifts" /id="U654" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1692 /SigmaFactorBS="ccgaggcttgtctttttgcctatgcaTGAAACATTTcttctt tctgcACGTAACAATGAGAAAggagatgatgatatgacgggtttagtcggcggagggc t" /listShort="yfhL, yfhM" /listLong="S293, S294, csbB, S295, yfhO" CDS 929406..929738 /gene="spdL" /locus_tag="BSU_08580" /old_locus_tag="BSU08580" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:16629676, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16629676, 22720735; Product type f: factor" /codon_start=1 /transl_table=11 /product="factor for peptide SdpC immunity" /protein_id="NP_388738.1" /db_xref="EnsemblGenomes-Gn:BSU08580" /db_xref="EnsemblGenomes-Tr:CAB12686" /db_xref="GOA:O31580" /db_xref="InterPro:IPR025962" /db_xref="SubtiList:BG12887" /db_xref="UniProtKB/Swiss-Prot:O31580" /translation="MTGLVGGGLMIIAGILIKLFPPKSINSVYGYRTRRSMSDQRLWN EANRYSASLMILSGLVIAGMGLLLGSNLFILQLILLIAACVITFMLTEKRLKIMTHSQ GGDRSGRS*" gene 929406..929738 /gene="spdL" /locus_tag="BSU_08580" /old_locus_tag="BSU08580" CDS 929725..930585 /gene="ephM" /locus_tag="BSU_08590" /old_locus_tag="BSU08590" /EC_number="3.3.2.10" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:16597997, 20941576" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16597997, 20941576; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="stress induced epoxide hydrolase" /protein_id="NP_388739.1" /db_xref="EnsemblGenomes-Gn:BSU08590" /db_xref="EnsemblGenomes-Tr:CAB12687" /db_xref="GOA:O31581" /db_xref="InterPro:IPR000073" /db_xref="InterPro:IPR000639" /db_xref="InterPro:IPR029058" /db_xref="SubtiList:BG12888" /db_xref="UniProtKB/Swiss-Prot:O31581" /translation="MDGVKCQFVNTNGITLHVAAAGREDGPLIVLLHGFPEFWYGWKN QIKPLVDAGYRVIAPDQRGYNLSDKPEGIDSYRIDTLRDDIIGLITQFTDEKAIVIGH DWGGAVAWHLASTRPEYLEKLIAINIPHPHVMKTVTPLYPPQWLKSSYIAYFQLPDIP EASLRENDYDTLDKAIGLSDRPALFTSEDVSRYKEAWKQPGALTAMLNWYRALRKGSL AEKPSYETVPYRMIWGMEDRFLSRKLAKETERHCPNGHLIFVDEASHWINHEKPAIVN QLILEYLKNQ*" gene 929725..930585 /gene="ephM" /locus_tag="BSU_08590" /old_locus_tag="BSU08590" downshifts 930583 /Source="Nicolas_upshifts" /id="D427" /incds=0 /nref=27 /ntot=191 /MaxReadThrough="5.0793" /MaxDrop="4.1326" /score="3.7712168" /energy="-8.4" /TU="U653,U654" /idTUdmin="U654" /TUdmin="-132" /isTUend="FALSE" promotor_-35 930643..930649 /Source="Nicolas_upshift_promotors" /id="U655" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.99000999000999" /psig="0.99000999000999" /xcortree=945 /SigmaFactorBS="tcataatggcagactttttctgtgcgttttttTTCATAGtct gttttaaacaTGACAAAATAACattaaaaatcatgaatgtcaccataaaattgtaaca a" /listShort="S293, S294, csbB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 930663..930674 /Source="Nicolas_upshift_promotors" /id="U655" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.99000999000999" /psig="0.99000999000999" /xcortree=945 /SigmaFactorBS="tcataatggcagactttttctgtgcgttttttTTCATAGtct gttttaaacaTGACAAAATAACattaaaaatcatgaatgtcaccataaaattgtaaca a" /listShort="S293, S294, csbB" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 930671..930735 /Source="Nicolas_S_feature" /locus_tag="new_930671_930735" /HighExp="Etha, S5, M9-stat, T0.30H, Sw, T-0.40H, B60, S8, B36, T1.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigGF, SigB" /TUshortPSig="0.99, 1" /TUlongSig="SigWXY" /TUlongPSig=1 /label="S293" upshifts 930671 /Source="Nicolas_upshifts" /id="U655" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.99000999000999" /psig="0.99000999000999" /xcortree=945 /SigmaFactorBS="tcataatggcagactttttctgtgcgttttttTTCATAGtct gttttaaacaTGACAAAATAACattaaaaatcatgaatgtcaccataaaattgtaaca a" /listShort="S293, S294, csbB" /GFF_Attribute="listLong" promotor_-10 complement(930693..930712) /Source="Nicolas_upshift_promotors" /id="U656" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.446553446553447" /psig="0.97902097902098" /xcortree=2407 /SigmaFactorBS="caaatcttcagtaaggctattcctttttttaaagtCGtttaa acctgtttTTTGTTACAATTTTATGGTGacattcatgatttttaatgttattttgtca t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(930702) /Source="Nicolas_upshifts" /id="U656" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.446553446553447" /psig="0.97902097902098" /xcortree=2407 /SigmaFactorBS="caaatcttcagtaaggctattcctttttttaaagtCGtttaa acctgtttTTTGTTACAATTTTATGGTGacattcatgatttttaatgttattttgtca t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 930718..930724 /Source="Nicolas_upshift_promotors" /id="U657" /multdbtbs="SigB,SigX" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=124 /SigmaFactorBS="taaaaatcatgaatgtcaccataaaattgtaacaaaaaacaG GTTTAAacgactttaaaaaaAGGAATAGCCTTACTGAAGatttgtgtaaaactcccct a" /listShort="S294, csbB, S295, yfhO" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 complement(930726..930727) /Source="Nicolas_upshift_promotors" /id="U656" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.446553446553447" /psig="0.97902097902098" /xcortree=2407 /SigmaFactorBS="caaatcttcagtaaggctattcctttttttaaagtCGtttaa acctgtttTTTGTTACAATTTTATGGTGacattcatgatttttaatgttattttgtca t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 930737..930817 /Source="Nicolas_S_feature" /locus_tag="new_930737_930817" /HighExp="M9-stat, LBGexp, Lbexp, T0.30H, dia0, T1.30H, T1.0H, LBGtran, Paraq, T2.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigB, SigGF, SigB" /TUshortPSig="1, 0.99, 1" /TUlongSig="SigWXY" /TUlongPSig=1 /label="S294" upshifts 930737 /Source="Nicolas_upshifts" /id="U657" /multdbtbs="SigB,SigX" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=124 /SigmaFactorBS="taaaaatcatgaatgtcaccataaaattgtaacaaaaaacaG GTTTAAacgactttaaaaaaAGGAATAGCCTTACTGAAGatttgtgtaaaactcccct a" /listShort="S294, csbB, S295, yfhO" /GFF_Attribute="listLong" promotor_-10 930739..930757 /Source="Nicolas_upshift_promotors" /id="U657" /multdbtbs="SigB,SigX" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=124 /SigmaFactorBS="taaaaatcatgaatgtcaccataaaattgtaacaaaaaacaG GTTTAAacgactttaaaaaaAGGAATAGCCTTACTGAAGatttgtgtaaaactcccct a" /listShort="S294, csbB, S295, yfhO" /GFF_Attribute="listLong" /label="promotor_-10" CDS 930818..931807 /gene="csbB" /locus_tag="BSU_08600" /old_locus_tag="BSU08600" /EC_number="2.4.-.-" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 8921856, 9636707, 23632331; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative bactoprenol glycosyl transferase, phageorigin" /protein_id="NP_388740.1" /db_xref="EnsemblGenomes-Gn:BSU08600" /db_xref="EnsemblGenomes-Tr:CAB12688" /db_xref="GOA:Q45539" /db_xref="InterPro:IPR001173" /db_xref="InterPro:IPR029044" /db_xref="SubtiList:BG11834" /db_xref="UniProtKB/Swiss-Prot:Q45539" /translation="MKQGLISIIIPSYNEGYNVKLIHESLKKEFKNIHYDYEIFFIND GSVDDTLQQIKDLAATCSRVKYISFSRNFGKEAAILAGFEHVQGEAVIVMDADLQHPT YLLKEFIKGYEEGYDQVIAQRNRKGDSFVRSLLSSMYYKFINKAVEVDLRDGVGDFRL LSRQAVNALLKLSEGNRFSKGLFCWIGFDQKIVFYENVERKNGTSKWSFSSLFNYGMD GVVSFNHKPLRLCFYTGIFILLLSIIYIIATFVKILTNGISVPGYFTIISAVLFLGGV QLLSLGIIGEYIGRIYYETKKRPHYLIKEANIPNKDLPETNELKSMRRLTKMH*" gene 930818..931807 /gene="csbB" /locus_tag="BSU_08600" /old_locus_tag="BSU08600" upshifts complement(930967) /Source="Nicolas_upshifts" /id="U658" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.712287712287712" /psig="0.037962037962038" /xcortree=125 /SigmaFactorBS="agaaaaagatatatattttacccggctgcaCGTCGctgccaa gtctttgatCTGCTgaagcgtgtcatcaacacttccgtcgtttatgaagaatatttca t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 complement(930972..930976) /Source="Nicolas_upshift_promotors" /id="U658" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.712287712287712" /psig="0.037962037962038" /xcortree=125 /SigmaFactorBS="agaaaaagatatatattttacccggctgcaCGTCGctgccaa gtctttgatCTGCTgaagcgtgtcatcaacacttccgtcgtttatgaagaatatttca t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(930993..930997) /Source="Nicolas_upshift_promotors" /id="U658" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.712287712287712" /psig="0.037962037962038" /xcortree=125 /SigmaFactorBS="agaaaaagatatatattttacccggctgcaCGTCGctgccaa gtctttgatCTGCTgaagcgtgtcatcaacacttccgtcgtttatgaagaatatttca t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 931808..931878 /Source="Nicolas_S_feature" /locus_tag="new_931808_931878" /HighExp="LPhT, Heat, Etha, LBGexp, M9-stat, LBGtran, Lbexp, Sw, dia0, Oxctl" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigB, SigB" /TUshortPSig="1, 1" /TUlongSig="SigWXY" /TUlongPSig=1 /label="S295" CDS 931879..934464 /gene="yfhO" /locus_tag="BSU_08610" /old_locus_tag="BSU08610" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 23632331; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="conserved membrane protein" /protein_id="NP_388741.2" /db_xref="EnsemblGenomes-Gn:BSU08610" /db_xref="EnsemblGenomes-Tr:CAB12689" /db_xref="GOA:O31582" /db_xref="InterPro:IPR018580" /db_xref="SubtiList:BG12889" /db_xref="UniProtKB/Swiss-Prot:O31582" /translation="MKRKHIMIYAASLLVSVLAHAFFVKEWAEGRYMTGPGDGLAQMI VFKKLLFDQYTHGNFFYNYSFGLGGGTFSQLGYYFSASFLFLAVSAAVWLLQAVQLIG ETDTLFWAESAVFISIFKLSLIIFTSASVFHYLLKHRAASFTGAVLYGVSIIYFRHEA YWEFFTDTMVWLPLLVLGAEKIIRERRPAWFIVACSLTLINNFYFAYINLIFIGIYVL FRWLIRLEPHEEKRWIQIRLFLVSGFISFGISAAAFVPVVYGFLNNLRPPYSQKIEWL NFDDNILFSSRIIIVPAAFLLFLFIISFYKNRVFRLFAGLSLLFILFHFSPYAASVFN GFSAPQNRFEYVLAFTIAGAAAAGLSQLSELKRKELLPAAAVVLLLYLYHIQRYKLDI WKPANESILLLLLMTIAALFAAAFAKKRAKMAVYGIIILSSLFVANSYQKYALSEGGD LDSVTKEYLTSEEYRGRESSELIRRLQKEDDDPLMRIDWMNGVRNNTPIIYGFNGFSA YSSILNKDLLAFYWNDLSIDMGRESVSRYASLGDRANLYSLLYGKYYMTEKTNEASVP YGFKKHLETEHYAVYENQYMLPFVKTADAIYSESELDRLPALAKEQAMLKGIILKDPS GKTEQTPKPSNLITKSDITAKQAQYQNGLLTVTGENGGELIITPKQPSSAPGDYYVSF YLKSKAKDKGFTLKVNDYVTTRKSNKSIYKTGVNNITVRVPKSGHISINLPKGTYELR NIALYEENYQTLKNAVMQNKTEKADKLNWNKNRLTFSYHLSKDQYIMLPIPYEKGWEL KINGKTQKIEKADYAFIGFKAQKGDNHIELTYYPPYFKISAIISLVSLLLAVFYIRRK KPGSI*" gene 931879..934464 /gene="yfhO" /locus_tag="BSU_08610" /old_locus_tag="BSU08610" downshifts 934433 /Source="Nicolas_upshifts" /id="D428" /incds=0 /nref=63 /ntot=217 /MaxReadThrough="2.13267" /MaxDrop="4.17784" /score="2.41489488" /energy="-13.3" /TU="NA" /idTUdmin="U657" /TUdmin="-1" /isTUend="TRUE" CDS complement(934457..935440) /gene="yfhP" /locus_tag="BSU_08620" /old_locus_tag="BSU08620" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10463184, 10524235, 15849754, 16850406, 24237659; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative membrane hydrolase" /protein_id="NP_388742.1" /db_xref="EnsemblGenomes-Gn:BSU08620" /db_xref="EnsemblGenomes-Tr:CAB12690" /db_xref="GOA:O31583" /db_xref="InterPro:IPR007404" /db_xref="SubtiList:BG12890" /db_xref="UniProtKB/Swiss-Prot:O31583" /translation="MDTGTHVVMGIALGGIATLDPVVGSDPAMAHAVMIATLAGSQAP DIDTVLKLKNNAVYIRNHRGFTHSIPAVLFWSVIIPAILYLFYPQADFLHLWLWTLLA VVLHVFVDIFNAYGTQAIRPFSKKWVALGLINTFDPFIFISHLAAIAIWYAGGSPGIT FLSLYIILVGYYLVRLIMQLRIKRKLHEMIHDEIESIIISPTMKFRQWRIAVTTAHAF YVGRSMEGHVVILDTFNRVPVPETDVMHAAKQDDNIAAFLSFSPVYRWEVDTFKDHYE VRFIDLRYRSKGHYPFVAIVHIGHDLTIRSSYTGWIFSEEKLQKKLKLGSI*" gene complement(934457..935440) /gene="yfhP" /locus_tag="BSU_08620" /old_locus_tag="BSU08620" downshifts complement(934491) /Source="Nicolas_upshifts" /id="D429" /incds=0 /nref=28 /ntot=200 /MaxReadThrough="2.65266" /MaxDrop="4.43244" /score="25.5564412" /energy="-17.5" /TU="NA" /idTUdmin="U661" /TUdmin="-3" /isTUend="TRUE" promotor_-35 934914..934923 /Source="Nicolas_upshift_promotors" /id="U659" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1381 /SigmaFactorBS="atgaagcttccgtttaattctcagctgcatgatcAGGCGCAC CAagtagtagcctaCCAATATGATATATAAGCTGagaaacgtgatgccgggactcccg c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 934936..934955 /Source="Nicolas_upshift_promotors" /id="U659" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1381 /SigmaFactorBS="atgaagcttccgtttaattctcagctgcatgatcAGGCGCAC CAagtagtagcctaCCAATATGATATATAAGCTGagaaacgtgatgccgggactcccg c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 934940 /Source="Nicolas_upshifts" /id="U659" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1381 /SigmaFactorBS="atgaagcttccgtttaattctcagctgcatgatcAGGCGCAC CAagtagtagcctaCCAATATGATATATAAGCTGagaaacgtgatgccgggactcccg c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" S_feature complement(935441..935588) /Source="Nicolas_S_feature" /locus_tag="new_935441_935588_c" /HighExp="Diami, dia15, M9-stat, dia5, Etha, H2O2, S6, Salt, Lbtran, LBGstat" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.997" /TUlongSig="NA" /TUlongPSig="NA" /label="S296" promotor_-35 935545..935549 /Source="Nicolas_upshift_promotors" /id="U660" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.718281718281718" /psig="0.998001998001998" /xcortree=2674 /SigmaFactorBS="tttaaactgattcaatcgttctcatatgtttccGCTTTttct ttattactattTAATGTAACATATTATCGTActgtgcccttagtgtacaacaaaaaac a" /listShort="S297, yfhQ, S298, fabL, sspE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 935565..935584 /Source="Nicolas_upshift_promotors" /id="U660" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.718281718281718" /psig="0.998001998001998" /xcortree=2674 /SigmaFactorBS="tttaaactgattcaatcgttctcatatgtttccGCTTTttct ttattactattTAATGTAACATATTATCGTActgtgcccttagtgtacaacaaaaaac a" /listShort="S297, yfhQ, S298, fabL, sspE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 935572 /Source="Nicolas_upshifts" /id="U660" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.718281718281718" /psig="0.998001998001998" /xcortree=2674 /SigmaFactorBS="tttaaactgattcaatcgttctcatatgtttccGCTTTttct ttattactattTAATGTAACATATTATCGTActgtgcccttagtgtacaacaaaaaac a" /listShort="S297, yfhQ, S298, fabL, sspE" /GFF_Attribute="listLong" S_feature 935578..935655 /Source="Nicolas_S_feature" /locus_tag="new_935578_935655" /HighExp="H2O2, G150, G180, LBGstat, dia15, Diami, Oxctl, Paraq, G135, dia0" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S297" promotor_-10 complement(935586..935605) /Source="Nicolas_upshift_promotors" /id="U661" /multdbtbs="SigK,SigK" /comp="M19" /sig="SigA" /pcomp="0.875124875124875" /psig="0.997002997002997" /xcortree=643 /SigmaFactorBS="tctccccagtctttcgcgcccCGCTTTTCtttagactgtttt tTGTTGTACACTAAGGGCACAgtacgataatatgttacattaaatagtaataaagaaa a" /listShort="S296, yfhP" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(935588) /Source="Nicolas_upshifts" /id="U661" /multdbtbs="SigK,SigK" /comp="M19" /sig="SigA" /pcomp="0.875124875124875" /psig="0.997002997002997" /xcortree=643 /SigmaFactorBS="tctccccagtctttcgcgcccCGCTTTTCtttagactgtttt tTGTTGTACACTAAGGGCACAgtacgataatatgttacattaaatagtaataaagaaa a" /listShort="S296, yfhP" /GFF_Attribute="listLong" promotor_-35 complement(935620..935627) /Source="Nicolas_upshift_promotors" /id="U661" /multdbtbs="SigK,SigK" /comp="M19" /sig="SigA" /pcomp="0.875124875124875" /psig="0.997002997002997" /xcortree=643 /SigmaFactorBS="tctccccagtctttcgcgcccCGCTTTTCtttagactgtttt tTGTTGTACACTAAGGGCACAgtacgataatatgttacattaaatagtaataaagaaa a" /listShort="S296, yfhP" /GFF_Attribute="listLong" /label="promotor_-35" CDS 935656..936765 /gene="mutY" /locus_tag="BSU_08630" /old_locus_tag="BSU08630" /EC_number="3.2.2.-" /function="16.8: Protect" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:10463184, 20971907, 21954439, 27399782" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10463184, 20971907, 21954439, 27399782; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="A/G-specific adenine glycosylase or DNA-(apurinic or apyrimidinic site) lyase" /protein_id="NP_388743.1" /db_xref="EnsemblGenomes-Gn:BSU08630" /db_xref="EnsemblGenomes-Tr:CAB12691" /db_xref="GOA:O31584" /db_xref="InterPro:IPR003265" /db_xref="InterPro:IPR003651" /db_xref="InterPro:IPR005760" /db_xref="InterPro:IPR011257" /db_xref="InterPro:IPR015797" /db_xref="InterPro:IPR023170" /db_xref="InterPro:IPR029119" /db_xref="SubtiList:BG12891" /db_xref="UniProtKB/Swiss-Prot:O31584" /translation="MNVLEDKLKQKDIQQFRDDLISWFEREQRVLPWREDQDPYKVWV SEVMLQQTRVETVIPYFLRFVEQFPTVEALADADEEKVLKAWEGLGYYSRVRNLQSAV KEVKQEYGGIVPPDEKDFGGLKGVGPYTKGAVLSIAYNKPIPAVDGNVMRVMSRILSI WDDIAKPKTRTIFEDAIRAFISKEKPSEFNQGLMELGALICTPKSPSCLLCPVQQHCS AFEEGTERELPVKSKKKKPGIKTMAAIVLTDEDGQVYIHKRPSKGLLANLWEFPNLET QKGIKTEREQLIAFLENEYGIQADISDLQGVVEHVFTHLVWNISVFFGKVKQVSDTSK LKKVTKEELEQFAFPVSHQKIWKMAGEAAAISAAP*" gene 935656..936765 /gene="mutY" /locus_tag="BSU_08630" /old_locus_tag="BSU08630" promotor_-35 936602..936606 /Source="Nicolas_upshift_promotors" /id="U662" /multdbtbs="SigA" /comp="M16" /sig="SigA" /pcomp="0.556443556443556" /psig="0.997002997002997" /xcortree=2563 /SigmaFactorBS="gtagtcgagcatgttttcacccacctggTATGGaatatttca gtgtttTTCGGTAAAGTAAAACAAGTgtcggataccagcaagctgaaaaaagtaacga a" /listShort="S298, fabL, sspE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 936622..936641 /Source="Nicolas_upshift_promotors" /id="U662" /multdbtbs="SigA" /comp="M16" /sig="SigA" /pcomp="0.556443556443556" /psig="0.997002997002997" /xcortree=2563 /SigmaFactorBS="gtagtcgagcatgttttcacccacctggTATGGaatatttca gtgtttTTCGGTAAAGTAAAACAAGTgtcggataccagcaagctgaaaaaagtaacga a" /listShort="S298, fabL, sspE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 936634 /Source="Nicolas_upshifts" /id="U662" /multdbtbs="SigA" /comp="M16" /sig="SigA" /pcomp="0.556443556443556" /psig="0.997002997002997" /xcortree=2563 /SigmaFactorBS="gtagtcgagcatgttttcacccacctggTATGGaatatttca gtgtttTTCGGTAAAGTAAAACAAGTgtcggataccagcaagctgaaaaaagtaacga a" /listShort="S298, fabL, sspE" /GFF_Attribute="listLong" S_feature 936766..937078 /Source="Nicolas_S_feature" /locus_tag="new_936766_937078" /HighExp="H2O2, G150, dia15, G135, G180, Oxctl, Paraq, dia0, LBGexp, Lbexp" /AntisenseName="yfhS" /AntisenseCor="-0.72611377663365595" /AntisenseRegPval="-44.6" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.997, 0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S298" CDS complement(936773..936997) /gene="yfhS" /locus_tag="BSU_08640" /old_locus_tag="BSU08640" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 10463184" /codon_start=1 /transl_table=11 /product="conserved protein related to sporulation" /protein_id="NP_388744.1" /db_xref="EnsemblGenomes-Gn:BSU08640" /db_xref="EnsemblGenomes-Tr:CAB12692" /db_xref="SubtiList:BG12892" /db_xref="UniProtKB/Swiss-Prot:O31585" /translation="MYVGRDMSELNMVSKKDWKNSELAYFHHAFQQIMPYLNEEGQSK YRELTQEIEARGGMKRNEADYSHGTRVSYD*" gene complement(936773..936997) /gene="yfhS" /locus_tag="BSU_08640" /old_locus_tag="BSU08640" promotor_-10 complement(937027..937038) /Source="Nicolas_upshift_promotors" /id="U663" /multdbtbs="SigE" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=858 /SigmaFactorBS="ttttgttccatttttcctcatctccttgtagCGTATAGttct tttatttccACAAACAATAATggcaagaactttaaagggggtcttctgttatgtatgt c" /listShort="yfhS" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(937029) /Source="Nicolas_upshifts" /id="U663" /multdbtbs="SigE" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=858 /SigmaFactorBS="ttttgttccatttttcctcatctccttgtagCGTATAGttct tttatttccACAAACAATAATggcaagaactttaaagggggtcttctgttatgtatgt c" /listShort="yfhS" /GFF_Attribute="listLong" promotor_-35 complement(937052..937058) /Source="Nicolas_upshift_promotors" /id="U663" /multdbtbs="SigE" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=858 /SigmaFactorBS="ttttgttccatttttcctcatctccttgtagCGTATAGttct tttatttccACAAACAATAATggcaagaactttaaagggggtcttctgttatgtatgt c" /listShort="yfhS" /GFF_Attribute="listLong" /label="promotor_-35" CDS 937079..937831 /gene="fabL" /locus_tag="BSU_08650" /old_locus_tag="BSU08650" /EC_number="1.3.1.10" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:11007778, 12440970, 17329825, 21185310" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11007778, 12440970, 17329825, 21185310; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="enoyl-acyl carrier protein reductase III" /protein_id="NP_388745.1" /db_xref="EnsemblGenomes-Gn:BSU08650" /db_xref="EnsemblGenomes-Tr:CAB12693" /db_xref="GOA:P71079" /db_xref="InterPro:IPR002347" /db_xref="InterPro:IPR036291" /db_xref="PDB:3OIC" /db_xref="PDB:3OID" /db_xref="SubtiList:BG12221" /db_xref="UniProtKB/Swiss-Prot:P71079" /translation="MEQNKCALVTGSSRGVGKAAAIRLAENGYNIVINYARSKKAALE TAEEIEKLGVKVLVVKANVGQPAKIKEMFQQIDETFGRLDVFVNNAASGVLRPVMELE ETHWDWTMNINAKALLFCAQEAAKLMEKNGGGHIVSISSLGSIRYLENYTTVGVSKAA LEALTRYLAVELSPKQIIVNAVSGGAIDTDALKHFPNREDLLEDARQNTPAGRMVEIK DMVDTVEFLVSSKADMIRGQTIIVDGGRSLLV*" gene 937079..937831 /gene="fabL" /locus_tag="BSU_08650" /old_locus_tag="BSU08650" promotor_-35 937848..937854 /Source="Nicolas_upshift_promotors" /id="U664" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.988011988011988" /psig="0.988011988011988" /xcortree=800 /SigmaFactorBS="cggacgctcactgctcgtttaaaaatttttaaaaaagaGGAA TAGctatacgatcacctGCACATTCTAATgaccgtggaggtgataacaatggctaact c" /listShort="sspE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 937869..937880 /Source="Nicolas_upshift_promotors" /id="U664" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.988011988011988" /psig="0.988011988011988" /xcortree=800 /SigmaFactorBS="cggacgctcactgctcgtttaaaaatttttaaaaaagaGGAA TAGctatacgatcacctGCACATTCTAATgaccgtggaggtgataacaatggctaact c" /listShort="sspE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 937870 /Source="Nicolas_upshifts" /id="U664" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.988011988011988" /psig="0.988011988011988" /xcortree=800 /SigmaFactorBS="cggacgctcactgctcgtttaaaaatttttaaaaaagaGGAA TAGctatacgatcacctGCACATTCTAATgaccgtggaggtgataacaatggctaact c" /listShort="sspE" /GFF_Attribute="listLong" promotor_-10 complement(937877..937891) /Source="Nicolas_upshift_promotors" /id="U665" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.841158841158841" /psig="0.022977022977023" /xcortree=711 /SigmaFactorBS="tggttttgttttctaacttgttgagcgtttgttttgctgaag ttatttgagttaGCCATtgttatcaCCTCCACGGTCATTAgaatgtgcaggtgatcgt a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(937898) /Source="Nicolas_upshifts" /id="U665" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.841158841158841" /psig="0.022977022977023" /xcortree=711 /SigmaFactorBS="tggttttgttttctaacttgttgagcgtttgttttgctgaag ttatttgagttaGCCATtgttatcaCCTCCACGGTCATTAgaatgtgcaggtgatcgt a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(937900..937904) /Source="Nicolas_upshift_promotors" /id="U665" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.841158841158841" /psig="0.022977022977023" /xcortree=711 /SigmaFactorBS="tggttttgttttctaacttgttgagcgtttgttttgctgaag ttatttgagttaGCCATtgttatcaCCTCCACGGTCATTAgaatgtgcaggtgatcgt a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 937900..938154 /gene="sspE" /locus_tag="BSU_08660" /old_locus_tag="BSU08660" /function="16.8: Protect" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:1744043, 7592342, 9540829, 19542328, 23314362" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1744043, 7592342, 9540829, 19542328, 23314362; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="small acid-soluble spore protein (gamma-type SASP)" /protein_id="NP_388746.1" /db_xref="EnsemblGenomes-Gn:BSU08660" /db_xref="EnsemblGenomes-Tr:CAB12694" /db_xref="GOA:P07784" /db_xref="InterPro:IPR006341" /db_xref="SubtiList:BG10789" /db_xref="UniProtKB/Swiss-Prot:P07784" /translation="MANSNNFSKTNAQQVRKQNQQSAAGQGQFGTEFASETNAQQVRK QNQQSAGQQGQFGTEFASETDAQQVRQQNQSAEQNKQQNS*" gene 937900..938154 /gene="sspE" /locus_tag="BSU_08660" /old_locus_tag="BSU08660" downshifts 938152 /Source="Nicolas_upshifts" /id="D430" /incds=0 /nref=261 /ntot=269 /MaxReadThrough="1.59207" /MaxDrop="8.74804" /score="9.25353719" /energy="-9.5" /TU="NA" /idTUdmin="U660" /TUdmin=0 /isTUend="TRUE" downshifts complement(938177) /Source="Nicolas_upshifts" /id="D431" /incds=0 /nref=3 /ntot=21 /MaxReadThrough="1.21036" /MaxDrop="5.14076" /score="-9.78320441" /energy="-7.1" /TU="NA" /idTUdmin="U663" /TUdmin="-1687" /isTUend="FALSE" CDS 938243..938587 /gene="ygaB" /locus_tag="BSU_08670" /old_locus_tag="BSU08670" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388747.1" /db_xref="EnsemblGenomes-Gn:BSU08670" /db_xref="EnsemblGenomes-Tr:CAB12695" /db_xref="InterPro:IPR025572" /db_xref="SubtiList:BG12222" /db_xref="UniProtKB/Swiss-Prot:P71080" /translation="MSQRVCFMEIEMIKGGNVYTFIRLKEEPMTEFEKLVSEQMKTMD KLLDLQSELDRCKQIEAELRHLERDARLRGIQAEIAVKRKHLADIQDMFQKQTEQVIR SYRSSEKPSSFV*" gene 938243..938587 /gene="ygaB" /locus_tag="BSU_08670" /old_locus_tag="BSU08670" promotor_-35 938250..938258 /Source="Nicolas_upshift_promotors" /id="U666" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=444 /SigmaFactorBS="aaaaacgacaaaacttgtggaaggtctacagaatgagtcAAA GGGTTTgctttatggaGATCGAAATGATTAAAGGAggaaatgtttatactttcatcag g" /listShort="ygaB, S299, ygaC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 938269..938287 /Source="Nicolas_upshift_promotors" /id="U666" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=444 /SigmaFactorBS="aaaaacgacaaaacttgtggaaggtctacagaatgagtcAAA GGGTTTgctttatggaGATCGAAATGATTAAAGGAggaaatgtttatactttcatcag g" /listShort="ygaB, S299, ygaC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 938271 /Source="Nicolas_upshifts" /id="U666" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=444 /SigmaFactorBS="aaaaacgacaaaacttgtggaaggtctacagaatgagtcAAA GGGTTTgctttatggaGATCGAAATGATTAAAGGAggaaatgtttatactttcatcag g" /listShort="ygaB, S299, ygaC" /GFF_Attribute="listLong" downshifts 938570 /Source="Nicolas_upshifts" /id="D432" /incds=0 /nref=1 /ntot=27 /MaxReadThrough="4.84572" /MaxDrop="3.29993" /score="13.9694142" /energy="-11.5" /TU="U666" /idTUdmin="U660" /TUdmin=418 /isTUend="FALSE" promotor_-35 938626..938633 /Source="Nicolas_upshift_promotors" /id="U667" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.641358641358641" /psig=1 /xcortree=2074 /SigmaFactorBS="tgtgccattccccggccggaatggctctttTATTTTCAtttt tcaatttgtAACGTTATAATAGGTAAAAGacgttgtcggtaagcaaatttggacatac t" /listShort="S299, ygaC, ygaD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 938647..938666 /Source="Nicolas_upshift_promotors" /id="U667" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.641358641358641" /psig=1 /xcortree=2074 /SigmaFactorBS="tgtgccattccccggccggaatggctctttTATTTTCAtttt tcaatttgtAACGTTATAATAGGTAAAAGacgttgtcggtaagcaaatttggacatac t" /listShort="S299, ygaC, ygaD" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 938656..938730 /Source="Nicolas_S_feature" /locus_tag="new_938656_938730" /HighExp="Etha, dia15, dia5, Diami, Salt, H2O2, BC, T5.0H, Cold, C90" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigH" /TUshortPSig="1, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S299" upshifts 938656 /Source="Nicolas_upshifts" /id="U667" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.641358641358641" /psig=1 /xcortree=2074 /SigmaFactorBS="tgtgccattccccggccggaatggctctttTATTTTCAtttt tcaatttgtAACGTTATAATAGGTAAAAGacgttgtcggtaagcaaatttggacatac t" /listShort="S299, ygaC, ygaD" /GFF_Attribute="listLong" CDS 938731..939261 /gene="ygaC" /locus_tag="BSU_08680" /old_locus_tag="BSU08680" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 19383706, 22333191; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative RNA binding factor" /protein_id="NP_388748.3" /db_xref="EnsemblGenomes-Gn:BSU08680" /db_xref="EnsemblGenomes-Tr:CAB12696" /db_xref="InterPro:IPR007295" /db_xref="InterPro:IPR016882" /db_xref="InterPro:IPR035930" /db_xref="SubtiList:BG12223" /db_xref="UniProtKB/Swiss-Prot:Q796Z1" /translation="MGYPKEGETIQIHSYKHNGLIHRIWNETTILKSTEMCVIGANDR TMVTESDGRTWITREPAICYFHARQWFNVIGMLREDGVHYYCNISSPFAYDGEAIKYI DYDLDVKVFPDMTYNILDEDEYDDHRKAMNYPKEIDSILRDYLNTLLHWIHQRQGPFA PEFVDMWYERYLRYTK*" gene 938731..939261 /gene="ygaC" /locus_tag="BSU_08680" /old_locus_tag="BSU08680" downshifts 939252 /Source="Nicolas_upshifts" /id="D433" /incds=0 /nref=8 /ntot=135 /MaxReadThrough="6.10669" /MaxDrop="3.97335" /score="-5.22328881" /energy="-7" /TU="U667" /idTUdmin="U666" /TUdmin=0 /isTUend="TRUE" CDS 939349..941091 /gene="ygaD" /locus_tag="BSU_08690" /old_locus_tag="BSU08690" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative ABC transporter (ATP-binding protein)" /protein_id="NP_388749.2" /db_xref="EnsemblGenomes-Gn:BSU08690" /db_xref="EnsemblGenomes-Tr:CAB12697" /db_xref="GOA:P71082" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR011527" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR036640" /db_xref="SubtiList:BG12224" /db_xref="UniProtKB/Swiss-Prot:P71082" /translation="MGVMKRYMQFVKPYKKQIFVTVLIGIVKFSIPLALPLLLKYVVD DIIQGGGTASDKTTSLFTIMAIMFALFLILRPPVEYYRQYFAQWTASKVLYDIRAKLF DHIQKLSLRFYANTRTGEVISRVINDVEQTKDFVITGLMNIWLDMLTILIVISIMLTL DVKLTLISIVLFPLYGISVKYFYGRLRKLTRERSQALAQVQGHLHERIQGMPVIRSFA IEDHEQAQFNEKNGHFLDKAIRHTNWNAKTFAVVNTITDLAPLIVIACAGYFVINGPL TVGTMVAFVGYIDRMYNPVRRLINSSTTLTQSIASMDRVFEFIDEPYELTDKPNAIKA DQIRGGVEFQNVSFQYEKDKENILHDVSLKVNRGETVALVGMSGGGKSTLVSLIPRFY DVTSGRLLIDGTDIRDYEARSLRNQVGMVLQDTFLFSETIRENIAIGKPDATLEEIIE AAKAANAHEFIMSFPEGYETRVGERGVKLSGGQKQRISIARVFLKNPPLLILDEATSA LDLESEHYIQEAMDKLAKDRTTFVVAHRLSTITHADKIVVMENGTIIEIGTHDELMDY ESQYKHLFTIQNLN*" gene 939349..941091 /gene="ygaD" /locus_tag="BSU_08690" /old_locus_tag="BSU08690" downshifts 941078 /Source="Nicolas_upshifts" /id="D434" /incds=0 /nref=87 /ntot=233 /MaxReadThrough="2.54676" /MaxDrop="5.20475" /score="22.3853226" /energy="-14.1" /TU="NA" /idTUdmin="U667" /TUdmin=0 /isTUend="TRUE" CDS complement(941168..942229) /gene="ygaE" /locus_tag="BSU_08700" /old_locus_tag="BSU08700" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative membrane protein" /protein_id="NP_388750.1" /db_xref="EnsemblGenomes-Gn:BSU08700" /db_xref="EnsemblGenomes-Tr:CAB12698" /db_xref="GOA:P71083" /db_xref="InterPro:IPR010343" /db_xref="SubtiList:BG12225" /db_xref="UniProtKB/Swiss-Prot:P71083" /translation="MKLGARIFKTGIAITLALYLASWIGLPAPIFAGIAAIFAIQPSI YRSFLIIIDQVQANIIGAVIATVFGLIFGPSPIMIGLTAVIVITIMLKLKIEHTISIA LVTVIAILESAGDDFLMFALIRTSTVILGVLSSFIVNLVFLPPKYETKLIHNTVENTE EIMKWIRLSMRQSTEHSILKEDIEKLKEKMIKLDQTYLLYKEERSYFKKTTYVKSRKL VLFRQAIITANRALDTLKKLHRLENEIYHMPEEFQETLTEELDYLLYWHERILMRFVG KIKPHDDAVEEGIRYKQLLTKSFLKNQQNTDEELIDYNMLNIMASAVEYREQLEHLET LITSFQTYHPKDCEIETEE*" gene complement(941168..942229) /gene="ygaE" /locus_tag="BSU_08700" /old_locus_tag="BSU08700" downshifts complement(941179) /Source="Nicolas_upshifts" /id="D435" /incds=0 /nref=181 /ntot=254 /MaxReadThrough="1.1413" /MaxDrop="7.13599" /score="26.0617552" /energy="-9.4" /TU="NA" /idTUdmin="U668" /TUdmin="-3" /isTUend="TRUE" S_feature complement(942230..942320) /Source="Nicolas_S_feature" /locus_tag="new_942230_942320_c" /HighExp="G180, Oxctl, Paraq, C30, G150, LBGexp, LPhT, S4, G135, S5" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S300" promotor_-10 complement(942318..942337) /Source="Nicolas_upshift_promotors" /id="U668" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.502497502497502" /psig="0.998001998001998" /xcortree=2441 /SigmaFactorBS="aagattttggtctttttctagaaaaataGCTTGAATatttgt atcgatccCTGTATATTACTTAATTGTTtagcaaataaactaaccgggaattttaagg a" /listShort="S300, ygaE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(942327) /Source="Nicolas_upshifts" /id="U668" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.502497502497502" /psig="0.998001998001998" /xcortree=2441 /SigmaFactorBS="aagattttggtctttttctagaaaaataGCTTGAATatttgt atcgatccCTGTATATTACTTAATTGTTtagcaaataaactaaccgggaattttaagg a" /listShort="S300, ygaE" /GFF_Attribute="listLong" promotor_-35 complement(942352..942359) /Source="Nicolas_upshift_promotors" /id="U668" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.502497502497502" /psig="0.998001998001998" /xcortree=2441 /SigmaFactorBS="aagattttggtctttttctagaaaaataGCTTGAATatttgt atcgatccCTGTATATTACTTAATTGTTtagcaaataaactaaccgggaattttaagg a" /listShort="S300, ygaE" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(942449..943738) /gene="gsaB" /locus_tag="BSU_08710" /old_locus_tag="BSU08710" /EC_number="5.4.3.8" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); PubMedId: 15231799, 19930658; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="glutamate-1-semialdehyde aminotransferase, classIII aminotransferase" /protein_id="NP_388751.3" /db_xref="EnsemblGenomes-Gn:BSU08710" /db_xref="EnsemblGenomes-Tr:CAB12699" /db_xref="GOA:P71084" /db_xref="InterPro:IPR004639" /db_xref="InterPro:IPR005814" /db_xref="InterPro:IPR015421" /db_xref="InterPro:IPR015422" /db_xref="InterPro:IPR015424" /db_xref="SubtiList:BG11943" /db_xref="UniProtKB/Swiss-Prot:P71084" /translation="MHTKSIELHNEALQHIVGGVNSPSRSYKAVGGGSPVAMEKASGA YFWDVDGNKYIDYLAAYGPIITGHAHPHITEAIKKAAENGVLYGTPTKHEVTFAKMLK EAIPAMDKVRFVNSGTEAVMTTIRVARAYTGRTKIIKFAGCYHGHSDLVLVAAGSGPS TLGTPDSAGVPKSIANEVITVPFNDIDSYKAALEKWGSEIAAVLVEPIVGNFGIVEPK EGFLEQVNELTHNAGALVIYDEVITAFRFMYGGAQDLLQVKPDLTALGKIIGGGLPIG AYGGKQEIMEQVAPLGPAYQAGTMAGNPASILSGIACLEVLKEKGVYEKLDHLGAMLE EGILKHAETHGITITVNRLKGALTVYFSDEKVENYEQAERSDGETFSTFFKLMLERGI NLAPSKYEAWFITTAHTEQDIKDTLTAVEDAFKHLKN*" gene complement(942449..943738) /gene="gsaB" /locus_tag="BSU_08710" /old_locus_tag="BSU08710" downshifts complement(942452) /Source="Nicolas_upshifts" /id="D436" /incds=0 /nref=235 /ntot=258 /MaxReadThrough="2.54961" /MaxDrop="5.8522" /score="29.5551149" /energy="-11" /TU="NA" /idTUdmin="U669" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(943766..943785) /Source="Nicolas_upshift_promotors" /id="U669" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.998001998001998" /psig=1 /xcortree=1888 /SigmaFactorBS="tccagattacaaccatctcagctgaatctgaagcccgaagcc aTTGTTCttgttcggaagCATGCTACAATAGAAAGGACgcatggagatataggaggtt t" /listShort="gsaB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(943785) /Source="Nicolas_upshifts" /id="U669" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.998001998001998" /psig=1 /xcortree=1888 /SigmaFactorBS="tccagattacaaccatctcagctgaatctgaagcccgaagcc aTTGTTCttgttcggaagCATGCTACAATAGAAAGGACgcatggagatataggaggtt t" /listShort="gsaB" /GFF_Attribute="listLong" S_feature complement(943787..944498) /Source="Nicolas_S_feature" /locus_tag="new_943787_944498_c" /HighExp="LoTm, M9-stat, B60, S8, C30, Cold, B36, T1.30H, Etha, T2.0H" /AntisenseName="ygaF" /AntisenseCor="-0.29702219161000198" /AntisenseRegPval="-6.2" /CDS_PredictionProba="NA" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S301" promotor_-35 complement(943797..943802) /Source="Nicolas_upshift_promotors" /id="U669" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.998001998001998" /psig=1 /xcortree=1888 /SigmaFactorBS="tccagattacaaccatctcagctgaatctgaagcccgaagcc aTTGTTCttgttcggaagCATGCTACAATAGAAAGGACgcatggagatataggaggtt t" /listShort="gsaB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 943831..943838 /Source="Nicolas_upshift_promotors" /id="U670" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.625374625374625" /psig=1 /xcortree=2268 /SigmaFactorBS="aacaagaacaatggcttcgggcttcagattcagctgagaTGG TTGTAatctggacaagaaTTGGATACGCTTAATAAAAAaacatccggaggtaacgtaa t" /listShort="ygaF, perR" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 943852..943871 /Source="Nicolas_upshift_promotors" /id="U670" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.625374625374625" /psig=1 /xcortree=2268 /SigmaFactorBS="aacaagaacaatggcttcgggcttcagattcagctgagaTGG TTGTAatctggacaagaaTTGGATACGCTTAATAAAAAaacatccggaggtaacgtaa t" /listShort="ygaF, perR" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 943852 /Source="Nicolas_upshifts" /id="U670" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.625374625374625" /psig=1 /xcortree=2268 /SigmaFactorBS="aacaagaacaatggcttcgggcttcagattcagctgagaTGG TTGTAatctggacaagaaTTGGATACGCTTAATAAAAAaacatccggaggtaacgtaa t" /listShort="ygaF, perR" /GFF_Attribute="listLong" CDS 943891..944364 /gene="bcp" /locus_tag="BSU_08720" /old_locus_tag="BSU08720" /EC_number="1.11.1.15" /function="16.8: Protect" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 10644761, 11349039, 12950915, 21910476, 26723255; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="peroxiredoxin with versatile activity" /protein_id="YP_054574.1" /db_xref="EnsemblGenomes-Gn:BSU08720" /db_xref="EnsemblGenomes-Tr:CAB12700" /db_xref="GOA:Q796Y8" /db_xref="InterPro:IPR000866" /db_xref="InterPro:IPR013766" /db_xref="InterPro:IPR024706" /db_xref="InterPro:IPR036249" /db_xref="SubtiList:BG12226" /db_xref="UniProtKB/Swiss-Prot:Q796Y8" /translation="MTIEIGQKAPDLELKGDHGETVKLSDYKGKYIVLYFYPKDMTPG CTTEACDFRDSHESFAELDAVIIGVSPDSQEKHGKFKEKHNLPFLLLVDDEHKLAEAF DVWKLKKNFGKEYMGIERSTFLIDKEGRLIKEWRKVKVKDHVAEALQTLKDMSEK*" gene 943891..944364 /gene="bcp" /locus_tag="BSU_08720" /old_locus_tag="BSU08720" promotor_-35 944401..944408 /Source="Nicolas_upshift_promotors" /id="U671" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.608391608391608" /psig=1 /xcortree=1534 /SigmaFactorBS="ctatgagcctatgcttacttttaccctgatatCAATTGACaa attatcgtagaaAGAGTTACACTAATTATAAAcattacaatgtaagaattttttttag a" /listShort="perR" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 944423..944442 /Source="Nicolas_upshift_promotors" /id="U671" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.608391608391608" /psig=1 /xcortree=1534 /SigmaFactorBS="ctatgagcctatgcttacttttaccctgatatCAATTGACaa attatcgtagaaAGAGTTACACTAATTATAAAcattacaatgtaagaattttttttag a" /listShort="perR" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 944429 /Source="Nicolas_upshifts" /id="U671" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.608391608391608" /psig=1 /xcortree=1534 /SigmaFactorBS="ctatgagcctatgcttacttttaccctgatatCAATTGACaa attatcgtagaaAGAGTTACACTAATTATAAAcattacaatgtaagaattttttttag a" /listShort="perR" /GFF_Attribute="listLong" CDS 944487..944924 /gene="perR" /locus_tag="BSU_08730" /old_locus_tag="BSU08730" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:1580225, 16541078, 16925555, 22194458, 27935957, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1580225, 16541078, 16925555, 22194458, 27935957, 22720735; Product type r : regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator (Fur family)" /protein_id="NP_388753.1" /db_xref="EnsemblGenomes-Gn:BSU08730" /db_xref="EnsemblGenomes-Tr:CAB12701" /db_xref="GOA:P71086" /db_xref="InterPro:IPR002481" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="PDB:2FE3" /db_xref="PDB:2RGV" /db_xref="PDB:3F8N" /db_xref="SubtiList:BG12227" /db_xref="UniProtKB/Swiss-Prot:P71086" /translation="MAAHELKEALETLKETGVRITPQRHAILEYLVNSMAHPTADDIY KALEGKFPNMSVATVYNNLRVFRESGLVKELTYGDASSRFDFVTSDHYHAICENCGKI VDFHYPGLDEVEQLAAHVTGFKVSHHRLEIYGVCQECSKKENH*" gene 944487..944924 /gene="perR" /locus_tag="BSU_08730" /old_locus_tag="BSU08730" downshifts 944906 /Source="Nicolas_upshifts" /id="D437" /incds=0 /nref=149 /ntot=247 /MaxReadThrough="3.98479" /MaxDrop="7.52234" /score="1.62878623" /energy="-12.3" /TU="U670,U671" /idTUdmin="U670" /TUdmin="-66" /isTUend="FALSE" CDS complement(944959..945312) /gene="ygzB" /locus_tag="BSU_08740" /old_locus_tag="BSU08740" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative membrane protein" /protein_id="YP_054575.1" /db_xref="EnsemblGenomes-Gn:BSU08740" /db_xref="EnsemblGenomes-Tr:CAE01450" /db_xref="GOA:Q7WY74" /db_xref="InterPro:IPR020912" /db_xref="SubtiList:BG14192" /db_xref="UniProtKB/Swiss-Prot:Q7WY74" /translation="MAKYSSKINKIRTFALSLVFVGFIIMYIGIFFKESVLLSSLFMI LGLLSIGLSTVVYFWIGMLSTKAVRVICPGCDKETKVLGVVDMCMHCREPLTLDKGLE GKEFDESYNKKKMSK*" gene complement(944959..945312) /gene="ygzB" /locus_tag="BSU_08740" /old_locus_tag="BSU08740" downshifts 944972 /Source="Nicolas_upshifts" /id="D438" /incds=0 /nref=1 /ntot=40 /MaxReadThrough="2.62283" /MaxDrop="4.13562" /score="-4.23596421" /energy="-12.5" /TU="NA" /idTUdmin="U670" /TUdmin=0 /isTUend="TRUE" downshifts complement(944982) /Source="Nicolas_upshifts" /id="D439" /incds=0 /nref=182 /ntot=253 /MaxReadThrough="4.02571" /MaxDrop="6.23378" /score="9.51667757" /energy="-14.2" /TU="NA" /idTUdmin="U673" /TUdmin=0 /isTUend="TRUE" promotor_-35 945308..945312 /Source="Nicolas_upshift_promotors" /id="U672" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.892107892107892" /psig="0.0739260739260739" /xcortree=2130 /SigmaFactorBS="ttaacgcaaatgttctgattttattaattttgctggagtatt tcGCCATgtccatcCCCCTCTGTTTTAACtatagcacaaacccgatgggattttcttc a" /listShort="S302, S303, ygxA" /listLong="S304, rrnD-16S" /label="promotor_-35" promotor_-10 945320..945334 /Source="Nicolas_upshift_promotors" /id="U672" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.892107892107892" /psig="0.0739260739260739" /xcortree=2130 /SigmaFactorBS="ttaacgcaaatgttctgattttattaattttgctggagtatt tcGCCATgtccatcCCCCTCTGTTTTAACtatagcacaaacccgatgggattttcttc a" /listShort="S302, S303, ygxA" /listLong="S304, rrnD-16S" /label="promotor_-10" misc_feature complement(945324..945343) /Source="Nicolas_upshift_promotors" /id="U673" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.949050949050949" /psig="0.998001998001998" /xcortree=432 /SigmaFactorBS="catatgtaaattccagttcaaccgaaaacatgaagaaaatcc catcgggttTGTGCTATAGTTAAAACAGAgggggatggacatggcgaaatactccagc a" /listShort="ygzB" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" S_feature 945324..945415 /Source="Nicolas_S_feature" /locus_tag="new_945324_945415" /HighExp="Cold, C30, H2O2, Etha, dia15, G135, Paraq, C90, G180, G150" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="Sig-" /TUshortPSig="0.0739" /TUlongSig="NA" /TUlongPSig="NA" /label="S302" upshifts 945324 /Source="Nicolas_upshifts" /id="U672" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.892107892107892" /psig="0.0739260739260739" /xcortree=2130 /SigmaFactorBS="ttaacgcaaatgttctgattttattaattttgctggagtatt tcGCCATgtccatcCCCCTCTGTTTTAACtatagcacaaacccgatgggattttcttc a" /listShort="S302, S303, ygxA" /listLong="S304, rrnD-16S" upshifts complement(945334) /Source="Nicolas_upshifts" /id="U673" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.949050949050949" /psig="0.998001998001998" /xcortree=432 /SigmaFactorBS="catatgtaaattccagttcaaccgaaaacatgaagaaaatcc catcgggttTGTGCTATAGTTAAAACAGAgggggatggacatggcgaaatactccagc a" /listShort="ygzB" /GFF_Attribute="listLong" promotor_-35 945392..945395 /Source="Nicolas_upshift_promotors" /id="U674" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.736263736263736" /psig="0.996003996003996" /xcortree=95 /SigmaFactorBS="tttcttcatgttttcggttgaactggaatttacatATGGaga gttactgtgaaATTGTTTATAATAGTTCAATgtgtttagaaaaaaggaatttcgtttt a" /listShort="S303, ygxA, S304" /listLong="rrnD-16S" /label="promotor_-35" promotor_-10 945410..945429 /Source="Nicolas_upshift_promotors" /id="U674" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.736263736263736" /psig="0.996003996003996" /xcortree=95 /SigmaFactorBS="tttcttcatgttttcggttgaactggaatttacatATGGaga gttactgtgaaATTGTTTATAATAGTTCAATgtgtttagaaaaaaggaatttcgtttt a" /listShort="S303, ygxA, S304" /listLong="rrnD-16S" /label="promotor_-10" S_feature 945417..945519 /Source="Nicolas_S_feature" /locus_tag="new_945417_945519" /HighExp="BMM, Cold, LBGstat, C30, Oxctl, LBGexp, Paraq, G180, Lbexp, Heat" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, Sig-" /TUshortPSig="0.996, 0.0739" /TUlongSig="NA" /TUlongPSig="NA" /label="S303" upshifts 945417 /Source="Nicolas_upshifts" /id="U674" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.736263736263736" /psig="0.996003996003996" /xcortree=95 /SigmaFactorBS="tttcttcatgttttcggttgaactggaatttacatATGGaga gttactgtgaaATTGTTTATAATAGTTCAATgtgtttagaaaaaaggaatttcgtttt a" /listShort="S303, ygxA, S304" /listLong="rrnD-16S" CDS 945520..946404 /gene="ygxA" /locus_tag="BSU_08750" /old_locus_tag="BSU08750" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388755.1" /db_xref="EnsemblGenomes-Gn:BSU08750" /db_xref="EnsemblGenomes-Tr:CAB12703" /db_xref="InterPro:IPR029348" /db_xref="InterPro:IPR036388" /db_xref="SubtiList:BG10951" /db_xref="UniProtKB/Swiss-Prot:Q04385" /translation="MENLLRPIYQERASHPNTLAVIMIERRNKTSSLTDNFDAALLVI VKDADEPVFIKHYEFDHQTASLHVVTDSQIQEWILLGTNRRIIDWIVNGRVLFDRNEY VVELIDRLNTFPFAERKLKIGLEYGKLIRRYVEGKAFFEANQFLDAYNAVVHALHHLA RIEVIDRGFHPETTVWSQVRQMEPQVYKLYSELIESHESLEKRLELLFLANDFLIHSK AEIGSAHLFEVMKEKDIWQFGELLQHHDLKHFTQDLGVMLDYLTEKGLINVCQIETKG QAVYHRGYSFKKGVDSDS*" gene 945520..946404 /gene="ygxA" /locus_tag="BSU_08750" /old_locus_tag="BSU08750" promotor_-35 946387..946394 /Source="Nicolas_upshift_promotors" /id="U675" /multdbtbs="SigA" /comp="M17" /sig="SigA" /pcomp="0.999000999001" /psig=1 /xcortree=2619 /SigmaFactorBS="cgaggatattcttttaaaaaaggtGTTGACTCtgattcttga ccgTGTTATATTATTAAACGTCGctgatgcgcttctgagaaaacaagctcacagcggc g" /listShort="S304, rrnD-16S" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 946408..946427 /Source="Nicolas_upshift_promotors" /id="U675" /multdbtbs="SigA" /comp="M17" /sig="SigA" /pcomp="0.999000999001" /psig=1 /xcortree=2619 /SigmaFactorBS="cgaggatattcttttaaaaaaggtGTTGACTCtgattcttga ccgTGTTATATTATTAAACGTCGctgatgcgcttctgagaaaacaagctcacagcggc g" /listShort="S304, rrnD-16S" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 946423..946695 /Source="Nicolas_S_feature" /locus_tag="new_946423_946695" /HighExp="LBGstat, Oxctl, C30, Paraq, GM 120, H2O2, HPh, G150, LPh, Cold" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.106881" /TUshortSig="SigA, SigA" /TUshortPSig="1, 0.996" /TUlongSig="Sig-" /TUlongPSig="0.0739" /label="S304" upshifts 946423 /Source="Nicolas_upshifts" /id="U675" /multdbtbs="SigA" /comp="M17" /sig="SigA" /pcomp="0.999000999001" /psig=1 /xcortree=2619 /SigmaFactorBS="cgaggatattcttttaaaaaaggtGTTGACTCtgattcttga ccgTGTTATATTATTAAACGTCGctgatgcgcttctgagaaaacaagctcacagcggc g" /listShort="S304, rrnD-16S" /GFF_Attribute="listLong" downshifts complement(946456) /Source="Nicolas_upshifts" /id="D440" /incds=0 /nref=1 /ntot=20 /MaxReadThrough="2.70619" /MaxDrop="3.85046" /score="4.43428373" /energy="-7.8" /TU="NA" /idTUdmin="U673" /TUdmin="-1474" /isTUend="FALSE" rRNA 946696..948250 /gene="rrnD-16S" /locus_tag="BSU_rRNA_22" /product="ribosomal RNA-16S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 946696..948250 /gene="rrnD-16S" /locus_tag="BSU_rRNA_22" rRNA 948418..951345 /gene="rrnD-23S" /locus_tag="BSU_rRNA_17" /product="ribosomal RNA-23S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 948418..951345 /gene="rrnD-23S" /locus_tag="BSU_rRNA_17" S_feature 951346..951431 /Source="Nicolas_S_feature" /locus_tag="new_951346_951431" /HighExp="G135, C30, Oxctl, Paraq, LBGstat, dia0, HiTm, Fru, G180, Cold" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S305" promotor_-35 951407..951414 /Source="Nicolas_upshift_promotors" /id="U676" /multdbtbs="SigA" /comp="M17" /sig="SigA" /pcomp="0.852147852147852" /psig=1 /xcortree=2417 /SigmaFactorBS="ctagttttgagagaataagtttttcaaaaaaacaCTTGATTT tctcaagaatacaTAGTATAATGTTAAATGTCActgaaattgtctggtgatgatggcg a" /listShort="rrnD-5S, trnD-Asn, trnD-Ser, trnD-Glu, trnD-Val, trnD-Met, trnD-Asp, trnD-Phe, trnD-Thr, trnD-Tyr, trnD-Trp, trnD-His, trnD-Gln, trnD-Gly, trnD-Cys, trnD-Leu1, S306, S307, trnD-Leu2, ygzA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 951428..951447 /Source="Nicolas_upshift_promotors" /id="U676" /multdbtbs="SigA" /comp="M17" /sig="SigA" /pcomp="0.852147852147852" /psig=1 /xcortree=2417 /SigmaFactorBS="ctagttttgagagaataagtttttcaaaaaaacaCTTGATTT tctcaagaatacaTAGTATAATGTTAAATGTCActgaaattgtctggtgatgatggcg a" /listShort="rrnD-5S, trnD-Asn, trnD-Ser, trnD-Glu, trnD-Val, trnD-Met, trnD-Asp, trnD-Phe, trnD-Thr, trnD-Tyr, trnD-Trp, trnD-His, trnD-Gln, trnD-Gly, trnD-Cys, trnD-Leu1, S306, S307, trnD-Leu2, ygzA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 951433 /Source="Nicolas_upshifts" /id="U676" /multdbtbs="SigA" /comp="M17" /sig="SigA" /pcomp="0.852147852147852" /psig=1 /xcortree=2417 /SigmaFactorBS="ctagttttgagagaataagtttttcaaaaaaacaCTTGATTT tctcaagaatacaTAGTATAATGTTAAATGTCActgaaattgtctggtgatgatggcg a" /listShort="rrnD-5S, trnD-Asn, trnD-Ser, trnD-Glu, trnD-Val, trnD-Met, trnD-Asp, trnD-Phe, trnD-Thr, trnD-Tyr, trnD-Trp, trnD-His, trnD-Gln, trnD-Gly, trnD-Cys, trnD-Leu1, S306, S307, trnD-Leu2, ygzA" /GFF_Attribute="listLong" rRNA 951457..951572 /gene="rrnD-5S" /locus_tag="BSU_rRNA_18" /product="ribosomal RNA-5S" /note="Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 951457..951572 /gene="rrnD-5S" /locus_tag="BSU_rRNA_18" tRNA 951582..951656 /gene="asnTA" /locus_tag="BSU_tRNA_29" /product="tRNA-Asn" /inference="profile:tRNAscan:1.23" /note="asparagine transfer RNA (GUU); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 951582..951656 /gene="asnTA" /locus_tag="BSU_tRNA_29" tRNA 951662..951753 /gene="trnD-Ser" /locus_tag="BSU_tRNA_30" /product="tRNA-Ser" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Ser(GGA); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 951662..951753 /gene="trnD-Ser" /locus_tag="BSU_tRNA_30" downshifts 951749 /Source="Nicolas_upshifts" /id="D441" /incds=0 /nref=2 /ntot=20 /MaxReadThrough="7.64297" /MaxDrop="4.37505" /score="-9.7424199" /energy="-11" /TU="U676" /idTUdmin="U677" /TUdmin="-1562" /isTUend="FALSE" tRNA 951788..951859 /gene="trnD-Glu" /locus_tag="BSU_tRNA_31" /product="tRNA-Glu" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Glu(UUC); Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 951788..951859 /gene="trnD-Glu" /locus_tag="BSU_tRNA_31" tRNA 951869..951944 /gene="trnD-Val" /locus_tag="BSU_tRNA_32" /product="tRNA-Val" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Val(UAC); Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 951869..951944 /gene="trnD-Val" /locus_tag="BSU_tRNA_32" tRNA 951954..952030 /gene="trnD-Met" /locus_tag="BSU_tRNA_33" /product="tRNA-Met" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Met(CAU); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 951954..952030 /gene="trnD-Met" /locus_tag="BSU_tRNA_33" tRNA 952042..952118 /gene="trnD-Asp" /locus_tag="BSU_tRNA_34" /product="tRNA-Asp" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Asp(GUC); Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 952042..952118 /gene="trnD-Asp" /locus_tag="BSU_tRNA_34" tRNA 952131..952206 /gene="trnD-Phe" /locus_tag="BSU_tRNA_35" /product="tRNA-Phe" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Phe(GAA); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 952131..952206 /gene="trnD-Phe" /locus_tag="BSU_tRNA_35" tRNA 952212..952284 /gene="trnD-Thr" /locus_tag="BSU_tRNA_36" /product="tRNA-Thr" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Thr(UGU); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 952212..952284 /gene="trnD-Thr" /locus_tag="BSU_tRNA_36" tRNA 952307..952391 /gene="trnD-Tyr" /locus_tag="BSU_tRNA_37" /product="tRNA-Tyr" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Tyr(GUA); Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 952307..952391 /gene="trnD-Tyr" /locus_tag="BSU_tRNA_37" tRNA 952397..952470 /gene="trnD-Trp" /locus_tag="BSU_tRNA_38" /product="tRNA-Trp" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Trp(CCA); Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 952397..952470 /gene="trnD-Trp" /locus_tag="BSU_tRNA_38" tRNA 952495..952570 /gene="trnD-His" /locus_tag="BSU_tRNA_39" /product="tRNA-His" /inference="profile:tRNAscan:1.23" /note="transfer RNA-His(GUG); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 952495..952570 /gene="trnD-His" /locus_tag="BSU_tRNA_39" tRNA 952580..952651 /gene="trnD-Gln" /locus_tag="BSU_tRNA_40" /product="tRNA-Gln" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Gln(UUG); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 952580..952651 /gene="trnD-Gln" /locus_tag="BSU_tRNA_40" tRNA 952701..952775 /gene="glyTB" /locus_tag="BSU_tRNA_41" /product="tRNA-Gly" /inference="profile:tRNAscan:1.23" /note="glycine transfer RNA (GCC); Evidence 1a: Function from experimental evidences in the studied strain; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 952701..952775 /gene="glyTB" /locus_tag="BSU_tRNA_41" tRNA 952781..952851 /gene="cysTA" /locus_tag="BSU_tRNA_42" /product="tRNA-Cys" /inference="profile:tRNAscan:1.23" /note="cysteine tRNA (GCA); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 952781..952851 /gene="cysTA" /locus_tag="BSU_tRNA_42" tRNA 952859..952947 /gene="leuTA" /locus_tag="BSU_tRNA_43" /product="tRNA-Leu" /inference="profile:tRNAscan:1.23" /note="leucine RNA (UAA); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 952859..952947 /gene="leuTA" /locus_tag="BSU_tRNA_43" S_feature 952948..953024 /Source="Nicolas_S_feature" /locus_tag="new_952948_953024" /HighExp="Paraq, C30, Oxctl, G180, G135, Heat, BMM, LBGexp, dia15, Cold" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S306" downshifts 952981 /Source="Nicolas_upshifts" /id="D442" /incds=0 /nref=18 /ntot=231 /MaxReadThrough="5.36857" /MaxDrop="5.05259" /score="16.6649124" /energy="-8.9" /TU="U676" /idTUdmin="U677" /TUdmin="-330" /isTUend="FALSE" S_feature 953026..953194 /Source="Nicolas_S_feature" /locus_tag="new_953026_953194" /HighExp="Heat, Paraq, BMM, Oxctl, H2O2, Cold, G180, Pyr, C30, Glu" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S307" promotor_-35 953151..953158 /Source="Nicolas_upshift_promotors" /id="U677" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.927072927072927" /psig="0.998001998001998" /xcortree=687 /SigmaFactorBS="acttttttgaaatacGTTGACACtttatgagatccaTGATAT ATTTATATTCGTCGgttagatacgacgtaaaacttgccggtgtggcggaattggcaga c" /listShort="trnD-Leu2" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 953157 /Source="Nicolas_upshifts" /id="D443" /incds=0 /nref=1 /ntot=14 /MaxReadThrough="3.84674" /MaxDrop="3.439" /score="35.1424037" /energy="-12.4" /TU="U676" /idTUdmin="U677" /TUdmin="-154" /isTUend="FALSE" promotor_-10 953172..953191 /Source="Nicolas_upshift_promotors" /id="U677" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.927072927072927" /psig="0.998001998001998" /xcortree=687 /SigmaFactorBS="acttttttgaaatacGTTGACACtttatgagatccaTGATAT ATTTATATTCGTCGgttagatacgacgtaaaacttgccggtgtggcggaattggcaga c" /listShort="trnD-Leu2" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 953196 /Source="Nicolas_upshifts" /id="U677" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.927072927072927" /psig="0.998001998001998" /xcortree=687 /SigmaFactorBS="acttttttgaaatacGTTGACACtttatgagatccaTGATAT ATTTATATTCGTCGgttagatacgacgtaaaacttgccggtgtggcggaattggcaga c" /listShort="trnD-Leu2" /GFF_Attribute="listLong" tRNA 953213..953294 /gene="leuTB" /locus_tag="BSU_tRNA_44" /product="tRNA-Leu" /inference="profile:tRNAscan:1.23" /note="leucine tRNA(CAA); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 953213..953294 /gene="leuTB" /locus_tag="BSU_tRNA_44" promotor_-10 complement(953230..953247) /Source="Nicolas_upshift_promotors" /id="U678" /multdbtbs="-" /comp="M20" /sig="Sig-" /pcomp="0.925074925074925" /psig="0.012987012987013" /xcortree=395 /SigmaFactorBS="accggtggtcggggtcgaacCGACACtccagaaggaacacga ttttGAGTCGTGCGCGTCTGCCaattccgccacaccggcaagttttacgtcgtatcta a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(953233) /Source="Nicolas_upshifts" /id="U678" /multdbtbs="-" /comp="M20" /sig="Sig-" /pcomp="0.925074925074925" /psig="0.012987012987013" /xcortree=395 /SigmaFactorBS="accggtggtcggggtcgaacCGACACtccagaaggaacacga ttttGAGTCGTGCGCGTCTGCCaattccgccacaccggcaagttttacgtcgtatcta a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(953268..953273) /Source="Nicolas_upshift_promotors" /id="U678" /multdbtbs="-" /comp="M20" /sig="Sig-" /pcomp="0.925074925074925" /psig="0.012987012987013" /xcortree=395 /SigmaFactorBS="accggtggtcggggtcgaacCGACACtccagaaggaacacga ttttGAGTCGTGCGCGTCTGCCaattccgccacaccggcaagttttacgtcgtatcta a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" downshifts complement(953303) /Source="Nicolas_upshifts" /id="D444" /incds=0 /nref=5 /ntot=151 /MaxReadThrough="1.64364" /MaxDrop="6.28675" /score="7.71223568" /energy="-12.4" /TU="NA" /idTUdmin="U679" /TUdmin=18 /isTUend="TRUE" CDS complement(953373..954149) /gene="spo0M" /locus_tag="BSU_08760" /old_locus_tag="BSU08760" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:9795118, 22142536, 26625291, 28234965" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9795118, 22142536, 26625291, 28234965; Product type r: regulator" /codon_start=1 /transl_table=11 /product="protein involved in the control of the cell cycle as a function of the environment" /protein_id="NP_388756.2" /db_xref="EnsemblGenomes-Gn:BSU08760" /db_xref="EnsemblGenomes-Tr:CAB12704" /db_xref="GOA:P71088" /db_xref="InterPro:IPR009776" /db_xref="InterPro:IPR014756" /db_xref="PDB:5CL2" /db_xref="SubtiList:BG12229" /db_xref="UniProtKB/Swiss-Prot:P71088" /translation="MSFFKKLAASAGIGAAKVDTILEKDAYFPGEEVQGTVHVKGGKI AQDIRYIDLQLSTRYVIVKDDEEHRKYATIHSFRVTGSFTIQPGEEHQFPFTFTLPLD TPITVGKVEVAVVTDLDIQGGIDKSDHDRIFVEAHPWIENVLEAIENLGFRLNEADCE QAPYFQRRLPFVQEFEFVPTSGYYRQMLDELELIFLLDEDGLEIIFEVDRRARGLRGW LEEMYNDGEQLVRVRFSQSELEDTEELEEVLEEILDQYAE*" gene complement(953373..954149) /gene="spo0M" /locus_tag="BSU_08760" /old_locus_tag="BSU08760" downshifts complement(953387) /Source="Nicolas_upshifts" /id="D445" /incds=0 /nref=9 /ntot=131 /MaxReadThrough="6.06864" /MaxDrop="6.58787" /score="6.75662782" /energy="-7" /TU="U679" /idTUdmin="U679" /TUdmin="-66" /isTUend="FALSE" promotor_-10 complement(954176..954191) /Source="Nicolas_upshift_promotors" /id="U679" /multdbtbs="SigH" /comp="M9" /sig="SigWXY" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1665 /SigmaFactorBS="tgtccctaggccgagacgaataataggaaaaaagtatgaatc aaaCGAATCTTTTttcctccttcttACGTATATCTGTTGAGaaaaaagaaaaagggga a" /listShort="spo0M" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(954198) /Source="Nicolas_upshifts" /id="U679" /multdbtbs="SigH" /comp="M9" /sig="SigWXY" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1665 /SigmaFactorBS="tgtccctaggccgagacgaataataggaaaaaagtatgaatc aaaCGAATCTTTTttcctccttcttACGTATATCTGTTGAGaaaaaagaaaaagggga a" /listShort="spo0M" /GFF_Attribute="listLong" promotor_-35 complement(954204..954213) /Source="Nicolas_upshift_promotors" /id="U679" /multdbtbs="SigH" /comp="M9" /sig="SigWXY" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1665 /SigmaFactorBS="tgtccctaggccgagacgaataataggaaaaaagtatgaatc aaaCGAATCTTTTttcctccttcttACGTATATCTGTTGAGaaaaaagaaaaagggga a" /listShort="spo0M" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 954233..954239 /Source="Nicolas_upshift_promotors" /id="U680" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.995004995004995" /psig="0.995004995004995" /xcortree=873 /SigmaFactorBS="ggaggaaaaaagattcgtttgattcatacttttttcCTATTA TtcgtctcggcctagGGACAGACTAAGaataatattgaaaataaaggagtcgatggaa g" /listShort="ygzA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 954254..954265 /Source="Nicolas_upshift_promotors" /id="U680" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.995004995004995" /psig="0.995004995004995" /xcortree=873 /SigmaFactorBS="ggaggaaaaaagattcgtttgattcatacttttttcCTATTA TtcgtctcggcctagGGACAGACTAAGaataatattgaaaataaaggagtcgatggaa g" /listShort="ygzA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 954257 /Source="Nicolas_upshifts" /id="U680" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.995004995004995" /psig="0.995004995004995" /xcortree=873 /SigmaFactorBS="ggaggaaaaaagattcgtttgattcatacttttttcCTATTA TtcgtctcggcctagGGACAGACTAAGaataatattgaaaataaaggagtcgatggaa g" /listShort="ygzA" /GFF_Attribute="listLong" CDS 954291..954494 /gene="ygzA" /locus_tag="BSU_08770" /old_locus_tag="BSU08770" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388757.2" /db_xref="EnsemblGenomes-Gn:BSU08770" /db_xref="EnsemblGenomes-Tr:CAB12705" /db_xref="SubtiList:BG12981" /db_xref="UniProtKB/Swiss-Prot:O31586" /translation="MEVNKESLVADELHRMFLAGELQITVEEDINNISERLRNGDLSL DRLSGEDVFIKETVNEALRRVEQ*" gene 954291..954494 /gene="ygzA" /locus_tag="BSU_08770" /old_locus_tag="BSU08770" downshifts 954477 /Source="Nicolas_upshifts" /id="D446" /incds=0 /nref=22 /ntot=97 /MaxReadThrough="1.47004" /MaxDrop="5.47861" /score="15.4081475" /energy="-18.2" /TU="NA" /idTUdmin="U676" /TUdmin=0 /isTUend="TRUE" downshifts complement(954553) /Source="Nicolas_upshifts" /id="D447" /incds=0 /nref=10 /ntot=35 /MaxReadThrough="1.31339" /MaxDrop="4.8918" /score="26.0684119" /energy="-18.2" /TU="NA" /idTUdmin="U681" /TUdmin=0 /isTUend="TRUE" CDS complement(954579..954851) /gene="ygzC" /locus_tag="BSU_08779" /old_locus_tag="BSU08779" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type s: structure" /codon_start=1 /transl_table=11 /product="putative spore coat protein" /protein_id="YP_003097696.1" /db_xref="EnsemblGenomes-Gn:BSU08779" /db_xref="EnsemblGenomes-Tr:CAX52583" /db_xref="GOA:C0H3X8" /db_xref="InterPro:IPR012347" /db_xref="InterPro:IPR012851" /db_xref="UniProtKB/Swiss-Prot:C0H3X8" /translation="MYRSKKQSQILSYQELLKKQRRWFPIEQSLCPKDILDLLTTIKT SINKYTVATTATENPHIRRALHDQLDTAVYLHDELSDLLLEKGWLG*" gene complement(954579..954851) /gene="ygzC" /locus_tag="BSU_08779" /old_locus_tag="BSU08779" promotor_-10 complement(954810..954828) /Source="Nicolas_upshift_promotors" /id="U681" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.94005994005994" /psig="0.94005994005994" /xcortree=1185 /SigmaFactorBS="caaaatttgttgcttattatagcatttTGTATAgaagcaaga aacaaagTCAAATACTTTCTTATCAGgagctgctaaaaaaacaaaggaggtggtttcc c" /listShort="ygzC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(954817) /Source="Nicolas_upshifts" /id="U681" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.94005994005994" /psig="0.94005994005994" /xcortree=1185 /SigmaFactorBS="caaaatttgttgcttattatagcatttTGTATAgaagcaaga aacaaagTCAAATACTTTCTTATCAGgagctgctaaaaaaacaaaggaggtggtttcc c" /listShort="ygzC" /GFF_Attribute="listLong" promotor_-35 954832..954839 /Source="Nicolas_upshift_promotors" /id="U682" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.478521478521479" /psig=1 /xcortree=2885 /SigmaFactorBS="ttagcagctcctgataagaaagtatttgacttTGTTTCTTgc ttctatacaaAATGCTATAATAAGCAACAAattttgttggggggtgtgatgatgaagc a" /listShort="ygaJ" /listLong="NA, thiC, S308" /label="promotor_-35" promotor_-35 complement(954845..954850) /Source="Nicolas_upshift_promotors" /id="U681" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.94005994005994" /psig="0.94005994005994" /xcortree=1185 /SigmaFactorBS="caaaatttgttgcttattatagcatttTGTATAgaagcaaga aacaaagTCAAATACTTTCTTATCAGgagctgctaaaaaaacaaaggaggtggtttcc c" /listShort="ygzC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 954852..954871 /Source="Nicolas_upshift_promotors" /id="U682" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.478521478521479" /psig=1 /xcortree=2885 /SigmaFactorBS="ttagcagctcctgataagaaagtatttgacttTGTTTCTTgc ttctatacaaAATGCTATAATAAGCAACAAattttgttggggggtgtgatgatgaagc a" /listShort="ygaJ" /listLong="NA, thiC, S308" /label="promotor_-10" upshifts 954860 /Source="Nicolas_upshifts" /id="U682" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.478521478521479" /psig=1 /xcortree=2885 /SigmaFactorBS="ttagcagctcctgataagaaagtatttgacttTGTTTCTTgc ttctatacaaAATGCTATAATAAGCAACAAattttgttggggggtgtgatgatgaagc a" /listShort="ygaJ" /listLong="NA, thiC, S308" CDS 954893..955585 /gene="ygaJ" /locus_tag="BSU_08780" /old_locus_tag="BSU08780" /EC_number="3.4.21.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative peptidase" /protein_id="NP_388758.2" /db_xref="EnsemblGenomes-Gn:BSU08780" /db_xref="EnsemblGenomes-Tr:CAB12706" /db_xref="GOA:P71089" /db_xref="InterPro:IPR005320" /db_xref="InterPro:IPR029062" /db_xref="SubtiList:BG12230" /db_xref="UniProtKB/Swiss-Prot:P71089" /translation="MKQIIAMGGGGFSMEPDNLSLDQYILNQSKREQPRICFLPTASG DSQNYIQRFYHAFQTLDCVPSHLSLFKPPSSDLVSFVMEMDVIYVGGGNTRNLLVLWK EWGLDHILREAWKNGVVVAGISAGAICWFEEGVTDSAGPLTSLKSLGFLQGSFCPHYD GEKDRRPAYHQLISNKFLCSGYAADDGAALHFINDQLFQTVSSRSGAKAYRVMMAEHE IAEIPLPVKYLG*" gene 954893..955585 /gene="ygaJ" /locus_tag="BSU_08780" /old_locus_tag="BSU08780" promotor_-35 955614..955618 /Source="Nicolas_upshift_promotors" /id="U684" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.616383616383616" /psig="0.946053946053946" /xcortree=2883 /SigmaFactorBS="tctatattcctcTTTTTttcagattgatttTATGATAAGATG AGTGCGAAatcaatagttactgggggtgcccgctttcgggctgagagagaaggcaagc t" /listShort="NA, thiC, S308" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(955617..955636) /Source="Nicolas_upshift_promotors" /id="U683" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.863136863136863" /psig="0.997002997002997" /xcortree=2976 /SigmaFactorBS="tctcagcccgaaagcgggcacccccagtaacTATTGATTtcg cactcatcttaTCATAAAATCAATCTGAAAAaaagaggaatatagataatattcagcc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(955629) /Source="Nicolas_upshifts" /id="U683" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.863136863136863" /psig="0.997002997002997" /xcortree=2976 /SigmaFactorBS="tctcagcccgaaagcgggcacccccagtaacTATTGATTtcg cactcatcttaTCATAAAATCAATCTGAAAAaaagaggaatatagataatattcagcc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 955632..955651 /Source="Nicolas_upshift_promotors" /id="U684" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.616383616383616" /psig="0.946053946053946" /xcortree=2883 /SigmaFactorBS="tctatattcctcTTTTTttcagattgatttTATGATAAGATG AGTGCGAAatcaatagttactgggggtgcccgctttcgggctgagagagaaggcaagc t" /listShort="NA, thiC, S308" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(955651..955658) /Source="Nicolas_upshift_promotors" /id="U683" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.863136863136863" /psig="0.997002997002997" /xcortree=2976 /SigmaFactorBS="tctcagcccgaaagcgggcacccccagtaacTATTGATTtcg cactcatcttaTCATAAAATCAATCTGAAAAaaagaggaatatagataatattcagcc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" misc_RNA 955655..955762 /gene="tswD" /locus_tag="BSU_misc_RNA_11" /product="thiamine pyrophosphate riboswitch" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 11470904, 12410317, 15862294, 16728979, 16962976, 17307816, 18179415, 18776013; Product type n: RNA" /function="16.3: Control" gene 955655..955762 /gene="tswD" /locus_tag="BSU_misc_RNA_11" upshifts 955662 /Source="Nicolas_upshifts" /id="U684" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.616383616383616" /psig="0.946053946053946" /xcortree=2883 /SigmaFactorBS="tctatattcctcTTTTTttcagattgatttTATGATAAGATG AGTGCGAAatcaatagttactgggggtgcccgctttcgggctgagagagaaggcaagc t" /listShort="NA, thiC, S308" /GFF_Attribute="listLong" downshifts 955793 /Source="Nicolas_upshifts" /id="D448" /incds=0 /nref=13 /ntot=48 /MaxReadThrough="8.09735" /MaxDrop="5.74046" /score="17.5556194" /energy="-12.4" /TU="U684" /idTUdmin="U682" /TUdmin=152 /isTUend="FALSE" CDS 955895..957667 /gene="thiC" /locus_tag="BSU_08790" /old_locus_tag="BSU08790" /EC_number="4.1.99.17" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:8432721, 9370266, 10382260, 16291685, 26443755" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8432721, 9370266, 10382260, 16291685, 26443755; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="phosphomethylpyrimidine synthase" /protein_id="NP_388759.2" /db_xref="EnsemblGenomes-Gn:BSU08790" /db_xref="EnsemblGenomes-Tr:CAB12707" /db_xref="GOA:P45740" /db_xref="InterPro:IPR002817" /db_xref="InterPro:IPR025747" /db_xref="SubtiList:BG11246" /db_xref="UniProtKB/Swiss-Prot:P45740" /translation="MQNNSVQQANISIMSSFSGSKKVYVEGSSSDIQVPMREIALSPT TGSFGEEENAPVRVYDTSGPYTDPEVTINIQEGLKPLRQKWITERGDVEEYEGRAIKP EDNGYKKAKPNVSYPGLKRKPLRAKAGQNVTQMHYAKKGIITPEMEFIAIREHVSPEF VRDEVASGRAIIPSNINHPESEPMIIGRNFHVKINANIGNSAVTSSIEEEVEKMTWAI RWGADTMMDLSTGKDIHTTREWIIRNCPVPVGTVPIYQALEKVNGVAEDLTWEIYRDT LIEQAEQGVDYFTIHAGVLLRYVPLTAKRTTGIVSRGGAIMAQWCLAHHQESFLYTHF EEICEIMKMYDIAFSLGDGLRPGSIADANDEAQFAELETLGELTQIAWKHDVQVMIEG PGHVPMHKIKENVDKQMDICKEAPFYTLGPLTTDIAPGYDHITSAIGAAMIGWYGTAM LCYVTPKEHLGLPNRDDVREGVITYKIAAHAADLAKGHPGAQIRDDALSKARFEFRWR DQFNLSLDPERALEYHDETLPAEGAKTAHFCSMCGPKFCSMRISQDIRDYAKKNDLSE AEAINKGLKEKAKEFVDTGSNLYQ*" gene 955895..957667 /gene="thiC" /locus_tag="BSU_08790" /old_locus_tag="BSU08790" downshifts 957643 /Source="Nicolas_upshifts" /id="D449" /incds=0 /nref=166 /ntot=257 /MaxReadThrough="5.77069" /MaxDrop="5.3684" /score="25.2366359" /energy="-15.3" /TU="U684" /idTUdmin="U684" /TUdmin="-946" /isTUend="FALSE" S_feature 957688..958613 /Source="Nicolas_S_feature" /locus_tag="new_957688_958613" /HighExp="HiOs, GM-0.1, GM 45, GM 60, GM-0.2, BMM, MG 90, T-5.40H, MG 15, MG 25" /AntisenseName="ygaK" /AntisenseCor="-9.7288827054566707E-2" /AntisenseRegPval="-1" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.946" /TUlongSig="SigA" /TUlongPSig=1 /label="S308" CDS complement(957705..959060) /gene="ygaK" /locus_tag="BSU_08800" /old_locus_tag="BSU08800" /EC_number="1.21.-.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 8972604; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative FAD-dependent oxido-reductase" /protein_id="NP_388760.2" /db_xref="EnsemblGenomes-Gn:BSU08800" /db_xref="EnsemblGenomes-Tr:CAB12708" /db_xref="GOA:Q796Y5" /db_xref="InterPro:IPR006094" /db_xref="InterPro:IPR012951" /db_xref="InterPro:IPR016166" /db_xref="InterPro:IPR016167" /db_xref="InterPro:IPR016169" /db_xref="InterPro:IPR036318" /db_xref="SubtiList:BG12231" /db_xref="UniProtKB/Swiss-Prot:Q796Y5" /translation="MEKTKLTGRIVTRDDPDYNEARTNINLSLERYPDIIVFCQNKQD ALNALKWARENRVPFRIRGGRHSYENFSLLNNGLVIDLSEMKKITVNQDKKLAYIEAG AELGEVYRTLWQYGLTLPAGTIANVGLTGLTLGGGIGLLTRAAGLTCDSLVQLEMIVA DEKEGADLITVSCSNHPDLFWASQGGGGGNFGIVTSMTFKAVPISQVSIFSITWGWDD FEEVYNTWQNWAPYTDDRLTSSIEFWPKEVNRIEALGQFVGPKTELKKLLKPLLKAGS PTSGMVKTTPFIEAVTFFNSPGGNQPQKMKRSGSFIEKPLSERAISTIKHFLEHAPNQ NASVWQQALGGAAGRVAPDQTAFYYRDAIIAQEYLTNWTSPGEKRQNVRWIEGLRTSL SKETMGDYVNWPDIEIRNWPRTYYGENVERLRRVKTTYDPENVFRFEQSIPPLRRSLF F*" gene complement(957705..959060) /gene="ygaK" /locus_tag="BSU_08800" /old_locus_tag="BSU08800" promotor_-10 complement(959088..959107) /Source="Nicolas_upshift_promotors" /id="U685" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1414 /SigmaFactorBS="tgttgacactgtatcagattgcatccccgctttttCCTTATA CACtcttttcccctgaCGCATAAGCTAGAGAAACTAgaatacgagagaaagagatgtg g" /listShort="ygaK" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(959105) /Source="Nicolas_upshifts" /id="U685" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1414 /SigmaFactorBS="tgttgacactgtatcagattgcatccccgctttttCCTTATA CACtcttttcccctgaCGCATAAGCTAGAGAAACTAgaatacgagagaaagagatgtg g" /listShort="ygaK" /GFF_Attribute="listLong" promotor_-35 complement(959121..959130) /Source="Nicolas_upshift_promotors" /id="U685" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1414 /SigmaFactorBS="tgttgacactgtatcagattgcatccccgctttttCCTTATA CACtcttttcccctgaCGCATAAGCTAGAGAAACTAgaatacgagagaaagagatgtg g" /listShort="ygaK" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 959178..959184 /Source="Nicolas_upshift_promotors" /id="U686" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.48951048951049" /psig="0.954045954045954" /xcortree=1737 /SigmaFactorBS="cctcaaaaaatAGTTGACaggtcggtattgtaTGAATTAACA TGGTCAGTACaaatttttcaaatttatcgcgctgatcggaacaccgaaggctcttatc g" /listShort="senS" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 959199..959218 /Source="Nicolas_upshift_promotors" /id="U686" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.48951048951049" /psig="0.954045954045954" /xcortree=1737 /SigmaFactorBS="cctcaaaaaatAGTTGACaggtcggtattgtaTGAATTAACA TGGTCAGTACaaatttttcaaatttatcgcgctgatcggaacaccgaaggctcttatc g" /listShort="senS" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 959227 /Source="Nicolas_upshifts" /id="U686" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.48951048951049" /psig="0.954045954045954" /xcortree=1737 /SigmaFactorBS="cctcaaaaaatAGTTGACaggtcggtattgtaTGAATTAACA TGGTCAGTACaaatttttcaaatttatcgcgctgatcggaacaccgaaggctcttatc g" /listShort="senS" /GFF_Attribute="listLong" CDS 959311..959508 /gene="senS" /locus_tag="BSU_08810" /old_locus_tag="BSU08810" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:1479343, 2108127, 8323536, 16321961" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1479343, 2108127, 8323536, 16321961; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator (repressor of ScoC)" /protein_id="NP_388761.2" /db_xref="EnsemblGenomes-Gn:BSU08810" /db_xref="EnsemblGenomes-Tr:CAB12709" /db_xref="GOA:P21344" /db_xref="InterPro:IPR025004" /db_xref="SubtiList:BG10747" /db_xref="UniProtKB/Swiss-Prot:P21344" /translation="MGVKKEKGRKRFRKRKTYGNQILPLELLIEKNKREIINSAELME EIYMKIDEKHTQCVTKYKKTR*" gene 959311..959508 /gene="senS" /locus_tag="BSU_08810" /old_locus_tag="BSU08810" CDS complement(959535..960986) /gene="katA" /locus_tag="BSU_08820" /old_locus_tag="BSU08820" /EC_number="1.11.1.6" /function="16.11: Scavenge (Catabolism)" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:12029044, 12486061, 16535198, 22194458, 27935957" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12029044, 12486061, 16535198, 22194458, 27935957; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="vegetative catalase 1" /protein_id="NP_388762.2" /db_xref="EnsemblGenomes-Gn:BSU08820" /db_xref="EnsemblGenomes-Tr:CAB12710" /db_xref="GOA:P26901" /db_xref="InterPro:IPR002226" /db_xref="InterPro:IPR010582" /db_xref="InterPro:IPR011614" /db_xref="InterPro:IPR018028" /db_xref="InterPro:IPR020835" /db_xref="InterPro:IPR024708" /db_xref="InterPro:IPR024711" /db_xref="InterPro:IPR037060" /db_xref="SubtiList:BG10849" /db_xref="UniProtKB/Swiss-Prot:P26901" /translation="MSSNKLTTSWGAPVGDNQNSMTAGSRGPTLIQDVHLLEKLAHFN RERVPERVVHAKGAGAHGYFEVTNDVTKYTKAAFLSEVGKRTPLFIRFSTVAGELGSA DTVRDPRGFAVKFYTEEGNYDIVGNNTPVFFIRDAIKFPDFIHTQKRDPKTHLKNPTA VWDFWSLSPESLHQVTILMSDRGIPATLRHMHGFGSHTFKWTNAEGEGVWIKYHFKTE QGVKNLDVNTAAKIAGENPDYHTEDLFNAIENGDYPAWKLYVQIMPLEDANTYRFDPF DVTKVWSQKDYPLIEVGRMVLDRNPENYFAEVEQATFSPGTLVPGIDVSPDKMLQGRL FAYHDAHRYRVGANHQALPINRARNKVNNYQRDGQMRFDDNGGGSVYYEPNSFGGPKE SPEDKQAAYPVQGIADSVSYDHYDHYTQAGDLYRLMSEDERTRLVENIVNAMKPVEKE EIKLRQIEHFYKADPEYGKRVAEGLGLPIKKDS*" gene complement(959535..960986) /gene="katA" /locus_tag="BSU_08820" /old_locus_tag="BSU08820" downshifts complement(959545) /Source="Nicolas_upshifts" /id="D450" /incds=0 /nref=221 /ntot=261 /MaxReadThrough="1.32399" /MaxDrop="8.8938" /score="25.1548262" /energy="-8.3" /TU="NA" /idTUdmin="U688" /TUdmin=0 /isTUend="TRUE" promotor_-35 960963..960969 /Source="Nicolas_upshift_promotors" /id="U687" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.382617382617383" /psig="0.528471528471528" /xcortree=1222 /SigmaFactorBS="tgagttttgattatctccaaccggagcgccccagctAGTTGT CagtttatttgaactCATGTTATCACCTCTTGGAAtttataagaacataatatcatct c" /listShort="S309, ssuB, ssuA, ssuC, ssuD, ygaN" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 960984..961003 /Source="Nicolas_upshift_promotors" /id="U687" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.382617382617383" /psig="0.528471528471528" /xcortree=1222 /SigmaFactorBS="tgagttttgattatctccaaccggagcgccccagctAGTTGT CagtttatttgaactCATGTTATCACCTCTTGGAAtttataagaacataatatcatct c" /listShort="S309, ssuB, ssuA, ssuC, ssuD, ygaN" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 960987 /Source="Nicolas_upshifts" /id="U687" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.382617382617383" /psig="0.528471528471528" /xcortree=1222 /SigmaFactorBS="tgagttttgattatctccaaccggagcgccccagctAGTTGT CagtttatttgaactCATGTTATCACCTCTTGGAAtttataagaacataatatcatct c" /listShort="S309, ssuB, ssuA, ssuC, ssuD, ygaN" /GFF_Attribute="listLong" promotor_-10 complement(961004..961023) /Source="Nicolas_upshift_promotors" /id="U688" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.99000999000999" /psig=1 /xcortree=1533 /SigmaFactorBS="attaatagagataactattttataataattataaaataaTAT TGACTttttacttagagaTGATATTATGTTCTTATAAAttccaagaggtgataacatg a" /listShort="katA" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 961009..961338 /Source="Nicolas_S_feature" /locus_tag="new_961009_961338" /HighExp="S8, C30, S7, S6, BT, C90, B36, S4, S5, S1" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.528" /TUlongSig="NA" /TUlongPSig="NA" /label="S309" upshifts complement(961023) /Source="Nicolas_upshifts" /id="U688" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.99000999000999" /psig=1 /xcortree=1533 /SigmaFactorBS="attaatagagataactattttataataattataaaataaTAT TGACTttttacttagagaTGATATTATGTTCTTATAAAttccaagaggtgataacatg a" /listShort="katA" /GFF_Attribute="listLong" promotor_-35 complement(961037..961044) /Source="Nicolas_upshift_promotors" /id="U688" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.99000999000999" /psig=1 /xcortree=1533 /SigmaFactorBS="attaatagagataactattttataataattataaaataaTAT TGACTttttacttagagaTGATATTATGTTCTTATAAAttccaagaggtgataacatg a" /listShort="katA" /GFF_Attribute="listLong" /label="promotor_-35" misc_feature complement(961082..961100) /Source="Nicolas_upshift_promotors" /id="U689" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.351648351648352" /psig="0.602397602397602" /xcortree=647 /SigmaFactorBS="gaaaaattatttctccaaaaattattaagtgtcataaaaagc tgttacaacaaggtttttcaacaatTTCGATACTATATATCGATtaatagagataact a" /listShort="katA" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(961107) /Source="Nicolas_upshifts" /id="U689" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.351648351648352" /psig="0.602397602397602" /xcortree=647 /SigmaFactorBS="gaaaaattatttctccaaaaattattaagtgtcataaaaagc tgttacaacaaggtttttcaacaatTTCGATACTATATATCGATtaatagagataact a" /listShort="katA" /GFF_Attribute="listLong" downshifts 961295 /Source="Nicolas_upshifts" /id="D451" /incds=0 /nref=9 /ntot=21 /MaxReadThrough="5.89897" /MaxDrop="4.66837" /score="39.0049465" /energy="-19.7" /TU="U687" /idTUdmin="U686" /TUdmin=1936 /isTUend="FALSE" CDS 961394..962161 /gene="ssuB" /locus_tag="BSU_08830" /old_locus_tag="BSU08830" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 9782504, 11390694, 16513748, 16885442; Product type t: transporter" /codon_start=1 /transl_table=11 /product="aliphatic sulfonate ABC transporter (ATP-bindingprotein)" /protein_id="NP_388763.3" /db_xref="EnsemblGenomes-Gn:BSU08830" /db_xref="EnsemblGenomes-Tr:CAB12711" /db_xref="GOA:P97027" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR017875" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG12232" /db_xref="UniProtKB/Swiss-Prot:P97027" /translation="MAVTISIKEKAFVQEGRKNTVLENIELSIAPGEFLTLIGPSGCG KSTLLKIIAGLDSEYDGSVEINGRSVTAPGIQQGFIFQEHRLFPWLTVEQNIAADLNL KDPKVKQKVDELIEIVRLKGSEKAYPRELSGGMSQRVAIARALLREPEVLLLDEPFGA LDAFTRKHLQDVLLDIWRKKKTTMILVTHDIDESVYLGNELAILKAKPGKIHKLMPIH LAYPRNRTTPDFQAIRQRVLSEFEKTEDLEYAEGSGI*" gene 961394..962161 /gene="ssuB" /locus_tag="BSU_08830" /old_locus_tag="BSU08830" CDS 962179..963177 /gene="ssuA" /locus_tag="BSU_08840" /old_locus_tag="BSU08840" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 9782504, 11390694, 16513748, 16885442; Product type f: factor" /codon_start=1 /transl_table=11 /product="aliphatic sulfonate ABC transporter (binding lipoprotein)" /protein_id="NP_388764.1" /db_xref="EnsemblGenomes-Gn:BSU08840" /db_xref="EnsemblGenomes-Tr:CAB12712" /db_xref="GOA:P40400" /db_xref="InterPro:IPR001638" /db_xref="InterPro:IPR010067" /db_xref="InterPro:IPR015168" /db_xref="SubtiList:BG10656" /db_xref="UniProtKB/Swiss-Prot:P40400" /translation="MKKGLIVLVAVIFLLAGCGANGASGDHKQLKEIRIGIQQSLSPL LIAKEKGWFEDAFEKEGIKVKWVEFQSGPPQFEGLAADKLDFSQVGNSPVIAGQAAGI DFKEIGLSQDGLKANGILVNQNSGIQDVKGLKGKKIAVAKGSSGFDFLYKALDQVGLS ANDVTIIQLQPDEAASAFENGSVDAWSIWEPYLSLETMKHGAKILVNGESTDLYSPGF TLVRTKFSEEHPDEVVRFLKVFNKAVVWQKEHLDEAADLYSDIKDLDKKVVENVLKNT EPLNEIISDDIVKAQQETADFQFRTKAIDKKIDVKDVVDNTFIKKALEEHSSGGDQ*" gene 962179..963177 /gene="ssuA" /locus_tag="BSU_08840" /old_locus_tag="BSU08840" CDS 963174..964004 /gene="ssuC" /locus_tag="BSU_08850" /old_locus_tag="BSU08850" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:11390694, 15849754, 16513748, 16850406, 16885442, 9782504" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11390694, 15849754, 16513748, 16850406, 16885442, 9782504; Product type t : transporter" /codon_start=1 /transl_table=11 /product="aliphatic sulfonate ABC transporter (permease)" /protein_id="NP_388765.1" /db_xref="EnsemblGenomes-Gn:BSU08850" /db_xref="EnsemblGenomes-Tr:CAB12713" /db_xref="GOA:P40401" /db_xref="InterPro:IPR000515" /db_xref="InterPro:IPR035906" /db_xref="SubtiList:BG10657" /db_xref="UniProtKB/Swiss-Prot:P40401" /translation="MMKAEAAGSLPKTNAEAVRKKPGRKRYGWMKGLLLPAVIIAIWQ VIGGLGVVSATVLPTPVTIVLTFKELILSGELFGHLQISIYRAALGFLLGAGLGLMIG ILAGFSKRTELYLDPSLQMLRTVPHLAVTPLFILWFGFDEVSKILLIALGAFFPVYIN TFNGIRGVDAKLFEVARVLEFKWHQQISKVILPAALPNILLGIRLSLGIAWLGLVVAE LMGSSSGVGYMIMDARQFSQTNKVFAGIIIFAVVGKLTDSFVRLLERKLLKWRNSYEG *" gene 963174..964004 /gene="ssuC" /locus_tag="BSU_08850" /old_locus_tag="BSU08850" CDS 964027..965157 /gene="ssuD" /locus_tag="BSU_08860" /old_locus_tag="BSU08860" /EC_number="1.14.14.5" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:9782504, 11390694, 16513748, 16885442" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9782504, 11390694, 16513748, 16885442; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="FMNH2-dependent aliphatic sulfonate monooxygenase" /protein_id="NP_388766.2" /db_xref="EnsemblGenomes-Gn:BSU08860" /db_xref="EnsemblGenomes-Tr:CAB12714" /db_xref="GOA:P40402" /db_xref="InterPro:IPR011251" /db_xref="InterPro:IPR019911" /db_xref="InterPro:IPR036661" /db_xref="SubtiList:BG10658" /db_xref="UniProtKB/Swiss-Prot:P40402" /translation="MEILWFIPTHGDARYLGSESDGRTADHLYFKQVAQAADRLGYTG VLLPTGRSCEDPWLTASALAGETKDLKFLVAVRPGLMQPSLAARMTSTLDRISDGRLL INVVAGGDPYELAGDGLFISHDERYEATDEFLTVWRRLLQGETVSYEGKHIKVENSNL LFPPQQEPHPPIYFGGSSQAGIEAAAKHTDVYLTWGEPPEQVKEKIERVKKQAAKEGR SVRFGIRLHVIARETEQEAWEAAERLISHLDDDTIAKAQAALSRYDSSGQQRMAVLHQ GDRTKLEISPNLWAGIGLVRGGAGTALVGDPQTIADRIAEYQALGIESFIFSGYPHLE EAYYFAELVFPLLPFENDRTRKLQNKRGEAVGNTYFVKEKNA*" gene 964027..965157 /gene="ssuD" /locus_tag="BSU_08860" /old_locus_tag="BSU08860" misc_feature 965184..965203 /Source="Nicolas_upshift_promotors" /id="U690" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.974025974025974" /psig="0.994005994005994" /xcortree=1467 /SigmaFactorBS="ttattttgtcaaagagaaaaatgcatgagtttaactaaaata cagccccccgaaCATGGTATGATATTCAAAAAaagggggctttttttctgaaaacatt g" /listShort="ygaN, S310" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 965190 /Source="Nicolas_upshifts" /id="U690" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.974025974025974" /psig="0.994005994005994" /xcortree=1467 /SigmaFactorBS="ttattttgtcaaagagaaaaatgcatgagtttaactaaaata cagccccccgaaCATGGTATGATATTCAAAAAaagggggctttttttctgaaaacatt g" /listShort="ygaN, S310" /GFF_Attribute="listLong" CDS 965261..965797 /gene="ygaN" /locus_tag="BSU_08870" /old_locus_tag="BSU08870" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12193636, 16513748; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative sulfur-related oxidoreductase" /protein_id="NP_388767.1" /db_xref="EnsemblGenomes-Gn:BSU08870" /db_xref="EnsemblGenomes-Tr:CAB12715" /db_xref="SubtiList:BG12233" /db_xref="UniProtKB/Swiss-Prot:P97028" /translation="MLSACGHSKQMEIKAADISDLEKNRMDVAASQAFTAEAVNIGEG ISSADMYIEHYQKGKLVERFGPVRADYSEEKTDTIQFVYFENEEGEGKNKHTTIHFGI VDKQGTIAADSSVKRDDSTTQEMTQNISSPEPITFEKPALIGSSIRGTDETMHTSEHK KELIKHQDALLYYVELHH*" gene 965261..965797 /gene="ygaN" /locus_tag="BSU_08870" /old_locus_tag="BSU08870" S_feature 965798..965868 /Source="Nicolas_S_feature" /locus_tag="new_965798_965868" /HighExp="B36, BT, B60, Etha, S5, Heat, S2, BMM, S4, S3" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.25357200000000002" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S310" promotor_-35 965838..965845 /Source="Nicolas_upshift_promotors" /id="U691" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.718281718281718" /psig="0.999000999001" /xcortree=664 /SigmaFactorBS="caggccgtctgttttacaaagcggtatgCTTGCTTTtttgaa tggtgaaTGATACATTTTAAATCGTAAcaatttcgatttaaagggaggctatgtgact t" /listShort="rpsNB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 965859..965878 /Source="Nicolas_upshift_promotors" /id="U691" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.718281718281718" /psig="0.999000999001" /xcortree=664 /SigmaFactorBS="caggccgtctgttttacaaagcggtatgCTTGCTTTtttgaa tggtgaaTGATACATTTTAAATCGTAAcaatttcgatttaaagggaggctatgtgact t" /listShort="rpsNB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 965870 /Source="Nicolas_upshifts" /id="U691" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.718281718281718" /psig="0.999000999001" /xcortree=664 /SigmaFactorBS="caggccgtctgttttacaaagcggtatgCTTGCTTTtttgaa tggtgaaTGATACATTTTAAATCGTAAcaatttcgatttaaagggaggctatgtgact t" /listShort="rpsNB" /GFF_Attribute="listLong" CDS 965909..966178 /gene="rpsNB" /locus_tag="BSU_08880" /old_locus_tag="BSU08880" /function="16.2: Construct biomass (Anabolism)" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12904577, 17163968, 19648245, 20208344, 27561249; Product type f: factor" /codon_start=1 /transl_table=11 /product="alternative ribosomal protein S14" /protein_id="NP_388768.1" /db_xref="EnsemblGenomes-Gn:BSU08880" /db_xref="EnsemblGenomes-Tr:CAB12716" /db_xref="GOA:O31587" /db_xref="InterPro:IPR001209" /db_xref="InterPro:IPR018271" /db_xref="InterPro:IPR023036" /db_xref="SubtiList:BG13085" /db_xref="UniProtKB/Swiss-Prot:O31587" /translation="MAKKSKVAKELKRQQLVEQYAGIRRELKEKGDYEALSKLPRDSA PGRLHNRCMVTGRPRAYMRKFKMSRIAFRELAHKGQIPGVKKASW*" gene 965909..966178 /gene="rpsNB" /locus_tag="BSU_08880" /old_locus_tag="BSU08880" promotor_-35 965981..965985 /Source="Nicolas_upshift_promotors" /id="U692" /multdbtbs="-" /comp="M20" /sig="Sig-" /pcomp="0.62037962037962" /psig="0.020979020979021" /xcortree=654 /SigmaFactorBS="aatacgctggtattagaCGCGAgttgaaggaaaaaggagatt acGAGGCACTCAGCAAGCTgccaagagattcagcaccgggaaggcttcacaaccgctg c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 966008..966024 /Source="Nicolas_upshift_promotors" /id="U692" /multdbtbs="-" /comp="M20" /sig="Sig-" /pcomp="0.62037962037962" /psig="0.020979020979021" /xcortree=654 /SigmaFactorBS="aatacgctggtattagaCGCGAgttgaaggaaaaaggagatt acGAGGCACTCAGCAAGCTgccaagagattcagcaccgggaaggcttcacaaccgctg c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 966024 /Source="Nicolas_upshifts" /id="U692" /multdbtbs="-" /comp="M20" /sig="Sig-" /pcomp="0.62037962037962" /psig="0.020979020979021" /xcortree=654 /SigmaFactorBS="aatacgctggtattagaCGCGAgttgaaggaaaaaggagatt acGAGGCACTCAGCAAGCTgccaagagattcagcaccgggaaggcttcacaaccgctg c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" downshifts 966165 /Source="Nicolas_upshifts" /id="D452" /incds=0 /nref=41 /ntot=70 /MaxReadThrough="3.14088" /MaxDrop="6.23701" /score="18.4402235" /energy="-10.1" /TU="U692" /idTUdmin="U691" /TUdmin="-13" /isTUend="TRUE" CDS complement(966196..966669) /gene="ygaO" /locus_tag="BSU_08890" /old_locus_tag="BSU08890" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral inner membrane protein" /protein_id="NP_388769.1" /db_xref="EnsemblGenomes-Gn:BSU08890" /db_xref="EnsemblGenomes-Tr:CAB12717" /db_xref="GOA:P97029" /db_xref="SubtiList:BG12234" /db_xref="UniProtKB/Swiss-Prot:P97029" /translation="MSMKTKAAFHLVLFGLACWALISYFEASEGIASFFGTKSGGMVF DLNLTPFILFVAASAVYLYLQKKSRPARKQLLLPDEFEEQDEREQMMTAKACRASYIA VYFSLPAAAVLLIFYPLFQSRIPFFPIIIVFIIMIIQHLSYVISFKKNEKNSGAL*" gene complement(966196..966669) /gene="ygaO" /locus_tag="BSU_08890" /old_locus_tag="BSU08890" downshifts complement(966232) /Source="Nicolas_upshifts" /id="D453" /incds=0 /nref=105 /ntot=235 /MaxReadThrough="1.59724" /MaxDrop="4.17785" /score="7.33161195" /energy="-10.1" /TU="NA" /idTUdmin="U693" /TUdmin=0 /isTUend="TRUE" CDS complement(966671..966871) /gene="ygzD" /locus_tag="BSU_08899" /old_locus_tag="BSU08899" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative HTH-type transcriptional regulator" /protein_id="YP_003097697.1" /db_xref="EnsemblGenomes-Gn:BSU08899" /db_xref="EnsemblGenomes-Tr:CAX52584" /db_xref="GOA:C0H3X9" /db_xref="InterPro:IPR001387" /db_xref="InterPro:IPR010982" /db_xref="UniProtKB/Swiss-Prot:C0H3X9" /translation="MKNKVKELRARFGYSQEKLGETVGVTRQTVAAIEKGDYVPSLLL ALKICKAFSMKMEDVFWLEEEN*" gene complement(966671..966871) /gene="ygzD" /locus_tag="BSU_08899" /old_locus_tag="BSU08899" promotor_-10 complement(966900..966919) /Source="Nicolas_upshift_promotors" /id="U693" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.626373626373626" /psig="0.996003996003996" /xcortree=1780 /SigmaFactorBS="aaaaaaagttatctttttgtaaagttgttaagttcCATTTAC AtaatgttaagtaTACTATACAATATAATCAATcgagattgtgaaggggacagacgtc a" /listShort="ygzD, ygaO" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(966914) /Source="Nicolas_upshifts" /id="U693" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.626373626373626" /psig="0.996003996003996" /xcortree=1780 /SigmaFactorBS="aaaaaaagttatctttttgtaaagttgttaagttcCATTTAC AtaatgttaagtaTACTATACAATATAATCAATcgagattgtgaaggggacagacgtc a" /listShort="ygzD, ygaO" /GFF_Attribute="listLong" promotor_-35 complement(966932..966939) /Source="Nicolas_upshift_promotors" /id="U693" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.626373626373626" /psig="0.996003996003996" /xcortree=1780 /SigmaFactorBS="aaaaaaagttatctttttgtaaagttgttaagttcCATTTAC AtaatgttaagtaTACTATACAATATAATCAATcgagattgtgaaggggacagacgtc a" /listShort="ygzD, ygaO" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 966995..967000 /Source="Nicolas_upshift_promotors" /id="U694" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.35964035964036" /psig=1 /xcortree=2589 /SigmaFactorBS="tacaaaaagataactttttttcgacaaaatttttatattccC TTGACgaaaaataaataaACATGTAATATAAAAAAAGTcagagcggtactgttgctga c" /listShort="trnSL-Gly1, S311, S312, yhbA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 967014..967033 /Source="Nicolas_upshift_promotors" /id="U694" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.35964035964036" /psig=1 /xcortree=2589 /SigmaFactorBS="tacaaaaagataactttttttcgacaaaatttttatattccC TTGACgaaaaataaataaACATGTAATATAAAAAAAGTcagagcggtactgttgctga c" /listShort="trnSL-Gly1, S311, S312, yhbA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 967014 /Source="Nicolas_upshifts" /id="U694" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.35964035964036" /psig=1 /xcortree=2589 /SigmaFactorBS="tacaaaaagataactttttttcgacaaaatttttatattccC TTGACgaaaaataaataaACATGTAATATAAAAAAAGTcagagcggtactgttgctga c" /listShort="trnSL-Gly1, S311, S312, yhbA" /GFF_Attribute="listLong" tRNA 967065..967138 /gene="trnSL-Gly1" /locus_tag="BSU_tRNA_82" /product="tRNA-Gly" /inference="profile:tRNAscan:1.23" /note="transfer RNA-Gly(TCC); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 967065..967138 /gene="trnSL-Gly1" /locus_tag="BSU_tRNA_82" S_feature 967139..967321 /Source="Nicolas_S_feature" /locus_tag="new_967139_967321" /HighExp="G135, G180, Oxctl, G150, Paraq, H2O2, C30, HPh, LPh, LBGexp" /AntisenseName="yhzB" /AntisenseCor="0.42714037049296899" /AntisenseRegPval="-12.6" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S311" CDS complement(967229..967852) /gene="yhzB" /locus_tag="BSU_08900" /old_locus_tag="BSU08900" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388771.1" /db_xref="EnsemblGenomes-Gn:BSU08900" /db_xref="EnsemblGenomes-Tr:CAB12718" /db_xref="InterPro:IPR020825" /db_xref="SubtiList:BG13086" /db_xref="UniProtKB/Swiss-Prot:O31588" /translation="MNIKLDSVITERAAGLHAAAVIYENIEVGSSPQMLKGRLRLFQE SLFFDYADGGISDESFVKEWQKLFKQLNPSFEGETTPMEDMLVPISKEQFMESKDSAH DTIDFFALKYSLPIMIYDAGKLHEPVRISLGEKENILLFSDENGIFGDFKNSVNHYPV SNETKNMLQIIFFPPSIEKSSAVNLLSSLTKMFEQIHGGTHTVHWLT*" gene complement(967229..967852) /gene="yhzB" /locus_tag="BSU_08900" /old_locus_tag="BSU08900" downshifts complement(967244) /Source="Nicolas_upshifts" /id="D454" /incds=0 /nref=25 /ntot=165 /MaxReadThrough="2.50849" /MaxDrop="4.62652" /score="-8.52782087" /energy="-7.9" /TU="NA" /idTUdmin="U695" /TUdmin=0 /isTUend="TRUE" downshifts 967278 /Source="Nicolas_upshifts" /id="D455" /incds=0 /nref=1 /ntot=88 /MaxReadThrough="4.14204" /MaxDrop="2.36986" /score="16.0836885" /energy="-15.5" /TU="U694" /idTUdmin="U692" /TUdmin=1078 /isTUend="FALSE" S_feature 967323..967934 /Source="Nicolas_S_feature" /locus_tag="new_967323_967934" /HighExp="G180, G135, G150, Paraq, Oxctl, H2O2, LBGstat, Cold, LBGexp, S6" /AntisenseName="yhzB" /AntisenseCor="0.28959466335762701" /AntisenseRegPval="-5.9" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S312" promotor_-10 complement(967876..967895) /Source="Nicolas_upshift_promotors" /id="U695" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.631368631368631" /psig="0.999000999001" /xcortree=1953 /SigmaFactorBS="tctttgagctgataaacgttcatgttttgcacagcctccttT CTTTGTGataaaacgacacaGCGTTTATAATAGGTTGATAtcacgtaactggagtgaa t" /listShort="yhzB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(967897) /Source="Nicolas_upshifts" /id="U695" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.631368631368631" /psig="0.999000999001" /xcortree=1953 /SigmaFactorBS="tctttgagctgataaacgttcatgttttgcacagcctccttT CTTTGTGataaaacgacacaGCGTTTATAATAGGTTGATAtcacgtaactggagtgaa t" /listShort="yhzB" /GFF_Attribute="listLong" promotor_-35 complement(967909..967916) /Source="Nicolas_upshift_promotors" /id="U695" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.631368631368631" /psig="0.999000999001" /xcortree=1953 /SigmaFactorBS="tctttgagctgataaacgttcatgttttgcacagcctccttT CTTTGTGataaaacgacacaGCGTTTATAATAGGTTGATAtcacgtaactggagtgaa t" /listShort="yhzB" /GFF_Attribute="listLong" /label="promotor_-35" CDS 967935..969095 /gene="queG" /locus_tag="BSU_08910" /old_locus_tag="BSU08910" /EC_number="1.17.99.-" /function="10.3: tRNA and rRNA base modification" /experiment="publication(s) with functional evidences, PMID:8830270, 21502530, 26230193, 27638883, 28128549" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8830270, 21502530, 26230193, 27638883, 28128549; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="epoxyqueuosine reductase" /protein_id="NP_388772.2" /db_xref="EnsemblGenomes-Gn:BSU08910" /db_xref="EnsemblGenomes-Tr:CAB12719" /db_xref="GOA:P97030" /db_xref="InterPro:IPR004155" /db_xref="InterPro:IPR004453" /db_xref="InterPro:IPR013542" /db_xref="InterPro:IPR016024" /db_xref="InterPro:IPR017896" /db_xref="InterPro:IPR017900" /db_xref="PDB:5D08" /db_xref="PDB:5D0A" /db_xref="PDB:5D0B" /db_xref="PDB:5T8Y" /db_xref="SubtiList:BG12236" /db_xref="UniProtKB/Swiss-Prot:P97030" /translation="MNVYQLKEELIEYAKSIGVDKIGFTTADTFDSLKDRLILQESLG YLSGFEEPDIEKRVTPKLLLPKAKSIVAIALAYPSRMKDAPRSTRTERRGIFCRASWG KDYHDVLREKLDLLEDFLKSKHEDIRTKSMVDTGELSDRAVAERAGIGFSAKNCMITT PEYGSYVYLAEMITNIPFEPDVPIEDMCGSCTKCLDACPTGALVNPGQLNAQRCISFL TQTKGFLPDEFRTKIGNRLYGCDTCQTVCPLNKGKDFHLHPEMEPDPEIAKPLLKPLL AISNREFKEKFGHVSGSWRGKKPIQRNAILALAHFKDASALPELTELMHKDPRPVIRG TAAWAIGKIGDPAYAEELEKALEKEKDEEAKLEIEKGIELLKASGMTKQGLS*" gene 967935..969095 /gene="queG" /locus_tag="BSU_08910" /old_locus_tag="BSU08910" downshifts 969104 /Source="Nicolas_upshifts" /id="D456" /incds=0 /nref=9 /ntot=123 /MaxReadThrough="5.29174" /MaxDrop="3.3561" /score="33.0421154" /energy="-15.1" /TU="NA" /idTUdmin="U694" /TUdmin=0 /isTUend="TRUE" misc_feature 969121..969133 /Source="Nicolas_upshift_promotors" /id="U696" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.909090909090909" /psig="0.909090909090909" /xcortree=1143 /SigmaFactorBS="tcaggcatgactaaacaaggcctgtcctgacatacgtataga gcagaaggaaaaaACACTTGAGATCAtccaagtgttttttctctataaaaaagtatgg c" /listShort="yhbB, cspR" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 969126 /Source="Nicolas_upshifts" /id="U696" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.909090909090909" /psig="0.909090909090909" /xcortree=1143 /SigmaFactorBS="tcaggcatgactaaacaaggcctgtcctgacatacgtataga gcagaaggaaaaaACACTTGAGATCAtccaagtgttttttctctataaaaaagtatgg c" /listShort="yhbB, cspR" /GFF_Attribute="listLong" CDS 969162..970097 /gene="yhbB" /locus_tag="BSU_08920" /old_locus_tag="BSU08920" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388773.1" /db_xref="EnsemblGenomes-Gn:BSU08920" /db_xref="EnsemblGenomes-Tr:CAB12720" /db_xref="InterPro:IPR024301" /db_xref="SubtiList:BG11811" /db_xref="UniProtKB/Swiss-Prot:O31589" /translation="MAGGVSLKYILEQLAEERLGFLVNGHAMRQESQVGDLKVMERKK KLLEKRKVDIIKAKAKAVINHVRVEDDGTTCLSYTIHYEYVCKEQDDSLYIEEHIEER MAFLYDHILISDQEIAKKPAGFHEGTSIIDYSEAEEEREAFGRAFQYDRLGAVQYAEK FWNKRNPAYKNFSDNCTNFISQCLHAGGAPMRGHPNRGSGWWMKQSSWSYSWTVAHSM KMYLSNSKAGLRAVRVKSAEELMPGDVICYDFEGDGRFNHTTIVVAKDKGNMPLVNAQ TYDSRMRYWSYEDSTAYTPSIRYAFFHIVDDTTKE*" gene 969162..970097 /gene="yhbB" /locus_tag="BSU_08920" /old_locus_tag="BSU08920" downshifts complement(969180) /Source="Nicolas_upshifts" /id="D457" /incds=0 /nref=2 /ntot=17 /MaxReadThrough="2.06584" /MaxDrop="3.33944" /score="-3.35852865" /energy="-6" /TU="NA" /idTUdmin="U695" /TUdmin="-1936" /isTUend="FALSE" promotor_-35 970081..970084 /Source="Nicolas_upshift_promotors" /id="U697" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.692307692307692" /psig=1 /xcortree=2502 /SigmaFactorBS="acacgccgtcaatacgatatgccttttttcatatcgttgatg ATACgacaaaagagtaattAATGTTATAATGATGGGCGGataagaaaaacagaggtga a" /listShort="cspR" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 970099 /Source="Nicolas_upshifts" /id="U697" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.692307692307692" /psig=1 /xcortree=2502 /SigmaFactorBS="acacgccgtcaatacgatatgccttttttcatatcgttgatg ATACgacaaaagagtaattAATGTTATAATGATGGGCGGataagaaaaacagaggtga a" /listShort="cspR" /GFF_Attribute="listLong" promotor_-10 970100..970119 /Source="Nicolas_upshift_promotors" /id="U697" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.692307692307692" /psig=1 /xcortree=2502 /SigmaFactorBS="acacgccgtcaatacgatatgccttttttcatatcgttgatg ATACgacaaaagagtaattAATGTTATAATGATGGGCGGataagaaaaacagaggtga a" /listShort="cspR" /GFF_Attribute="listLong" /label="promotor_-10" CDS 970135..970617 /gene="trmL" /locus_tag="BSU_08930" /old_locus_tag="BSU08930" /EC_number="2.1.1.207" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12682299, 20855540; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="tRNA (cytidine(34)-2'-O)-methyltransferase" /protein_id="NP_388774.2" /db_xref="EnsemblGenomes-Gn:BSU08930" /db_xref="EnsemblGenomes-Tr:CAB12721" /db_xref="GOA:O31590" /db_xref="InterPro:IPR001537" /db_xref="InterPro:IPR016914" /db_xref="InterPro:IPR029026" /db_xref="InterPro:IPR029028" /db_xref="SubtiList:BG11802" /db_xref="UniProtKB/Swiss-Prot:O31590" /translation="MNIVALHVVLYQPEIPANTGNIARTCAATNTTLHLIRPLGFSTD DKMLKRAGLDYWEFVNVVYHDSLEELFEAYKKGKFFFITKFGQQPHTSFDYTDLDEDY FFVFGRETSGLPKDLIQNNMDRCLRLPMTEHVRSLNLSNTAAILVYEALRQQNYRDLK *" gene 970135..970617 /gene="trmL" /locus_tag="BSU_08930" /old_locus_tag="BSU08930" downshifts 970600 /Source="Nicolas_upshifts" /id="D458" /incds=0 /nref=203 /ntot=259 /MaxReadThrough="4.6846" /MaxDrop="7.03587" /score="33.0421154" /energy="-15.1" /TU="NA" /idTUdmin="U696" /TUdmin=0 /isTUend="TRUE" CDS 970667..971383 /gene="yhbD" /locus_tag="BSU_08940" /old_locus_tag="BSU08940" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative sporulation-related protein" /protein_id="NP_388775.1" /db_xref="EnsemblGenomes-Gn:BSU08940" /db_xref="EnsemblGenomes-Tr:CAB12722" /db_xref="InterPro:IPR025063" /db_xref="SubtiList:BG12237" /db_xref="UniProtKB/Swiss-Prot:P97032" /translation="MLCFVFGLNNVTVLCYNVPIKGAGLMEEQLISKKELLERTSISY GQLYRWKRKNLIPEEWFIRKSTFTGQETFFPREEILKRISMIQKMKENLSLDEMREML SPKMKDVSMTADELLHKGLVSRPALEAYSEDGGSPVFSSSDLLSLFVLEGLLQSGNVS LAEAKMAAEVLKKHDTEEIEKQTELIVLRKLGVTTCFIAAAADSILFESSVKVVERVD LLKASEELKTTFMQEGHQWM*" gene 970667..971383 /gene="yhbD" /locus_tag="BSU_08940" /old_locus_tag="BSU08940" promotor_-35 970687..970694 /Source="Nicolas_upshift_promotors" /id="U698" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.761238761238761" /psig=1 /xcortree=2394 /SigmaFactorBS="tttttgcggatgttgaaatgctttgtttcgtttttggGCTTA ACAacgtaacagtgttaTGTTACAATGTACCCATCAAaggagctggacttatggaaga a" /listShort="yhbD, yhbE, yhbF" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 970709..970728 /Source="Nicolas_upshift_promotors" /id="U698" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.761238761238761" /psig=1 /xcortree=2394 /SigmaFactorBS="tttttgcggatgttgaaatgctttgtttcgtttttggGCTTA ACAacgtaacagtgttaTGTTACAATGTACCCATCAAaggagctggacttatggaaga a" /listShort="yhbD, yhbE, yhbF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 970710 /Source="Nicolas_upshifts" /id="U698" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.761238761238761" /psig=1 /xcortree=2394 /SigmaFactorBS="tttttgcggatgttgaaatgctttgtttcgtttttggGCTTA ACAacgtaacagtgttaTGTTACAATGTACCCATCAAaggagctggacttatggaaga a" /listShort="yhbD, yhbE, yhbF" /GFF_Attribute="listLong" CDS 971374..972087 /gene="yhbE" /locus_tag="BSU_08950" /old_locus_tag="BSU08950" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 12562816, 20617312; Product type cp:cell process" /codon_start=1 /transl_table=11 /product="conserved protein involved in sporulation" /protein_id="NP_388776.1" /db_xref="EnsemblGenomes-Gn:BSU08950" /db_xref="EnsemblGenomes-Tr:CAB12723" /db_xref="InterPro:IPR007607" /db_xref="SubtiList:BG10802" /db_xref="UniProtKB/Swiss-Prot:P39132" /translation="MDVVEKLVINGSGSSKGGTFQSVEINGSGTVAGDVECDTFSFNG NGKADGSVKAKAVTISGSGKIHGDVEAESIRMNGTGFIQGEVSAKQLKIAGSSTFGGT VKADGIDISGKAVMEADCETETFQSEGKCKISGLLNADQVIIKLSAGESYAREIGCRH LQVTCRKGMLTLLRLMPQPVLTAELIEGDVIELTNTKAKTVRGNKVIIGPDCQIETVE YSGDYTCDPSASVETSTKL*" gene 971374..972087 /gene="yhbE" /locus_tag="BSU_08950" /old_locus_tag="BSU08950" CDS 972099..972806 /gene="yhbF" /locus_tag="BSU_08960" /old_locus_tag="BSU08960" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 12562816, 20617312; Product type cp:cell process" /codon_start=1 /transl_table=11 /product="conserved protein involved in sporulation" /protein_id="NP_388777.2" /db_xref="EnsemblGenomes-Gn:BSU08960" /db_xref="EnsemblGenomes-Tr:CAB12724" /db_xref="SubtiList:BG10803" /db_xref="UniProtKB/Swiss-Prot:P39133" /translation="METTKLGNLKLYGAGHAAGGAYHNVSIKGEGIVGEGLSAVGCRI YGTGLFLGKAETERLRVLGESECKGDLTAGKINIYGTMKVSGSLQFDRFNLKGQTEIG GNMTGESCDVKGKLSVIGDCETEMFHVTGCVDVSGLLNSGEIKLGLSHDISHVQEIGG TTITVKRRASFFSRKKGKLIADVIEGDRVYLENTEAAVVRGKEVIIGPGCSIGTIEYE YKCECDPHSQIKEKTKL*" gene 972099..972806 /gene="yhbF" /locus_tag="BSU_08960" /old_locus_tag="BSU08960" downshifts 972690 /Source="Nicolas_upshifts" /id="D459" /incds=1 /nref=1 /ntot=127 /MaxReadThrough="4.34704" /MaxDrop="2.64409" /score="45.497414" /energy="-15.3" /TU="U698" /idTUdmin="U698" /TUdmin="-110" /isTUend="FALSE" downshifts 972734 /Source="Nicolas_upshifts" /id="D460" /incds=1 /nref=2 /ntot=35 /MaxReadThrough="4.02504" /MaxDrop="3.21894" /score="45.497414" /energy="-15.3" /TU="U698" /idTUdmin="U698" /TUdmin="-66" /isTUend="FALSE" downshifts 972800 /Source="Nicolas_upshifts" /id="D461" /incds=0 /nref=2 /ntot=41 /MaxReadThrough="1.06365" /MaxDrop="3.74046" /score="45.497414" /energy="-15.3" /TU="NA" /idTUdmin="U698" /TUdmin=0 /isTUend="TRUE" S_feature complement(972833..973008) /Source="Nicolas_S_feature" /locus_tag="new_972833_973008_c" /HighExp="M9-stat, BC, S4, T0.30H, LoTm, Lbstat, S2, BT, HiOs, Lbtran" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.99846699999999999" /TUshortSig="SigA" /TUshortPSig="0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S313" downshifts complement(972876) /Source="Nicolas_upshifts" /id="D462" /incds=0 /nref=63 /ntot=220 /MaxReadThrough="3.38525" /MaxDrop="4.33005" /score="18.2489321" /energy="-13.5" /TU="U699" /idTUdmin="U699" /TUdmin="-198" /isTUend="FALSE" promotor_-10 complement(973000..973019) /Source="Nicolas_upshift_promotors" /id="U699" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.653346653346653" /psig="0.998001998001998" /xcortree=456 /SigmaFactorBS="tttcttaaaaataaagatactcatacaTCGTTGACaaggcag actgcgaCCGTTCATAATAAAGAAAAAtacagaatcatccagactcggacagcacgga a" /listShort="S313" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(973008) /Source="Nicolas_upshifts" /id="U699" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.653346653346653" /psig="0.998001998001998" /xcortree=456 /SigmaFactorBS="tttcttaaaaataaagatactcatacaTCGTTGACaaggcag actgcgaCCGTTCATAATAAAGAAAAAtacagaatcatccagactcggacagcacgga a" /listShort="S313" /GFF_Attribute="listLong" promotor_-35 complement(973034..973041) /Source="Nicolas_upshift_promotors" /id="U699" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.653346653346653" /psig="0.998001998001998" /xcortree=456 /SigmaFactorBS="tttcttaaaaataaagatactcatacaTCGTTGACaaggcag actgcgaCCGTTCATAATAAAGAAAAAtacagaatcatccagactcggacagcacgga a" /listShort="S313" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 973073..973078 /Source="Nicolas_upshift_promotors" /id="U700" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1094 /SigmaFactorBS="gtcaacgatgtatgagtatctttatttttaagaaaccaaAGC ATGtatcacgagatggcgGCATAGATTGTATCAAAGTaccttatttgcatagtgtatc a" /listShort="prkA, S314, yhbH" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 973094..973112 /Source="Nicolas_upshift_promotors" /id="U700" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1094 /SigmaFactorBS="gtcaacgatgtatgagtatctttatttttaagaaaccaaAGC ATGtatcacgagatggcgGCATAGATTGTATCAAAGTaccttatttgcatagtgtatc a" /listShort="prkA, S314, yhbH" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 973094 /Source="Nicolas_upshifts" /id="U700" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1094 /SigmaFactorBS="gtcaacgatgtatgagtatctttatttttaagaaaccaaAGC ATGtatcacgagatggcgGCATAGATTGTATCAAAGTaccttatttgcatagtgtatc a" /listShort="prkA, S314, yhbH" /GFF_Attribute="listLong" CDS 973156..975051 /gene="prkA" /locus_tag="BSU_08970" /old_locus_tag="BSU08970" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:8626065, 12662922, 25983726, 27806131" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8626065, 12662922, 25983726, 27806131; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="serine protein kinase (involved in sporulation)" /protein_id="NP_388778.1" /db_xref="EnsemblGenomes-Gn:BSU08970" /db_xref="EnsemblGenomes-Tr:CAB12725" /db_xref="GOA:P39134" /db_xref="InterPro:IPR010650" /db_xref="InterPro:IPR013153" /db_xref="InterPro:IPR016230" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG10804" /db_xref="UniProtKB/Swiss-Prot:P39134" /translation="MDILKKIEKYREEEQRLKWEGTFADYLEIIKENPMVAQSAHSRV FNMIKDSGIEEIDGRKKYSFFDRELFGLEESLERLVEEYFHPAAKRLDVRKRILLLMG PVSGGKSTLVTMLKKGLEAYTLTDNGAVYAIKGCPMHEDPLHLIPHHLRDDFYREYGI RIEGSLSPLNVMRLEEEYGGRIEDVKVERIFFSEDKRTGIGTFSPSDPKSQDIADLTG SIDFSTIAEYGSESDPRAYRFDGELNKANRGMMEFQEMLKCDEKFLWHLLSLTQEGNF KAGRFALISADELIVAHTNETEYRSFISNKKNEALHSRIIVMPVPYNLKVSEEERIYE KMIAESDVADVHIAPHTLKVAAMFSILTRLKEPKRSDIDLVKKMRLYDGESVEGYNSV DVEDMKKEYNDEGMSGIDPRYVINRISSTIIRKNMESINSLDVLRSLKEGLDQHPSIS SEDRERYLNFISAARKEYDDIAKKEVQKAFVYSYEESAKTLMDNYLDNVEAYCNKNKL RDPLTGEEMNPDEKLMRSIEEQIGISENAKKAFREEILIRISAYARKGKRFDYNSHER LREAIQKKLFADLKDVVKITTSTKTPDEQQLKKVNEVVARLIDEHGYNSTSANELLKY VGSLLNR*" gene 973156..975051 /gene="prkA" /locus_tag="BSU_08970" /old_locus_tag="BSU08970" promotor_no_box 973598..973698 /Source="Nicolas_upshift_promotors" /id="U701" /multdbtbs="-" /comp="M3" /sig="Sig-" /pcomp="0.31968031968032" /psig="0.31968031968032" /xcortree=684 /SigmaFactorBS="atcatttacgcgatgacttttacagagaatacggcattagaa tagaaggaagtctttctcctttaaatgtcatgaggctggaggaagagtacggaggaag a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts 973658 /Source="Nicolas_upshifts" /id="U701" /multdbtbs="-" /comp="M3" /sig="Sig-" /pcomp="0.31968031968032" /psig="0.31968031968032" /xcortree=684 /SigmaFactorBS="atcatttacgcgatgacttttacagagaatacggcattagaa tagaaggaagtctttctcctttaaatgtcatgaggctggaggaagagtacggaggaag a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" downshifts 973724 /Source="Nicolas_upshifts" /id="D463" /incds=1 /nref=5 /ntot=18 /MaxReadThrough="7.33384" /MaxDrop="5.65132" /score="45.497414" /energy="-15.3" /TU="U700" /idTUdmin="U701" /TUdmin=0 /isTUend="TRUE" downshifts 975044 /Source="Nicolas_upshifts" /id="D464" /incds=0 /nref=11 /ntot=57 /MaxReadThrough="6.19375" /MaxDrop="4.381" /score="-0.497429548" /energy="-10.6" /TU="U700" /idTUdmin="U703" /TUdmin="-528" /isTUend="FALSE" promotor_-35 975108..975113 /Source="Nicolas_upshift_promotors" /id="U702" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.971028971028971" /psig="0.971028971028971" /xcortree=1058 /SigmaFactorBS="agggcgggttattttgtcccattttctaaatagtttGTCAAT taaacgtgcatatgtGCATATGATGAATATAAATcttttcaaaagacttgtttcataa t" /listShort="S314, yhbH" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 975129..975147 /Source="Nicolas_upshift_promotors" /id="U702" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.971028971028971" /psig="0.971028971028971" /xcortree=1058 /SigmaFactorBS="agggcgggttattttgtcccattttctaaatagtttGTCAAT taaacgtgcatatgtGCATATGATGAATATAAATcttttcaaaagacttgtttcataa t" /listShort="S314, yhbH" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 975132..975230 /Source="Nicolas_S_feature" /locus_tag="new_975132_975230" /HighExp="S6, S7, S5, S8, S4, S3, BT, LoTm, B36, Pyr" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigEF, SigEF" /TUshortPSig="0.971, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S314" upshifts 975132 /Source="Nicolas_upshifts" /id="U702" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.971028971028971" /psig="0.971028971028971" /xcortree=1058 /SigmaFactorBS="agggcgggttattttgtcccattttctaaatagtttGTCAAT taaacgtgcatatgtGCATATGATGAATATAAATcttttcaaaagacttgtttcataa t" /listShort="S314, yhbH" /GFF_Attribute="listLong" CDS 975231..976409 /gene="yhbH" /locus_tag="BSU_08980" /old_locus_tag="BSU08980" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:11988534, 12662922, 14523133, 25983726" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11988534, 12662922, 14523133, 25983726; Product type f: factor" /codon_start=1 /transl_table=11 /product="factor involved in shape determination" /protein_id="NP_388779.1" /db_xref="EnsemblGenomes-Gn:BSU08980" /db_xref="EnsemblGenomes-Tr:CAB12726" /db_xref="InterPro:IPR006698" /db_xref="InterPro:IPR014230" /db_xref="SubtiList:BG11238" /db_xref="UniProtKB/Swiss-Prot:P45742" /translation="MSQNDSGHFLISEENWSLHRKGFDDQQRHQKKVQEAIKNNLPDL VTEESIIMSNGKDVVKIPIRSLDEYKIRYNYDKNKHVGQGDGESQVGDVVARDGSDKK QGPGKGQGAGDQAGEDYYEAEVSLMDLEEALFKELELPNLQQKERDNIIHTDIEFNDI RKTGLTGNIDKKRTMMSAFKRNAMSGKPSFYPIYPEDLKYKTWNDITKPESKAVVLAM MDTSGSMGVWEKYMARSFFFWMTRFLRTKYETVEIEFIAHHTEARVVSEEDFFSKGES GGTICSSVYRKSLELIDEKYNPARYNIYPFHFSDGDNLTSDNARCVKLVNDIMKKANL FCYGEVNQYNRHSTLMSAYKNVKDEKFKYYILKQKSDVFQALKNFFRNEESGVSHQFS *" gene 975231..976409 /gene="yhbH" /locus_tag="BSU_08980" /old_locus_tag="BSU08980" promotor_-35 975429..975432 /Source="Nicolas_upshift_promotors" /id="U703" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.367632367632368" /psig="0.985014985014985" /xcortree=615 /SigmaFactorBS="atggaaaagatgtagtgaagatcccaatccgttcacttGATG agtataaaatccgtTATAACTATGATAAAAATAAacatgtagggcaaggagacggcga g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 975447..975466 /Source="Nicolas_upshift_promotors" /id="U703" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.367632367632368" /psig="0.985014985014985" /xcortree=615 /SigmaFactorBS="atggaaaagatgtagtgaagatcccaatccgttcacttGATG agtataaaatccgtTATAACTATGATAAAAATAAacatgtagggcaaggagacggcga g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 975451 /Source="Nicolas_upshifts" /id="U703" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.367632367632368" /psig="0.985014985014985" /xcortree=615 /SigmaFactorBS="atggaaaagatgtagtgaagatcccaatccgttcacttGATG agtataaaatccgtTATAACTATGATAAAAATAAacatgtagggcaaggagacggcga g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" downshifts complement(975692) /Source="Nicolas_upshifts" /id="D465" /incds=1 /nref=1 /ntot=23 /MaxReadThrough="2.79078" /MaxDrop="2.94521" /score="-7.1109433" /energy="-11.2" /TU="NA" /idTUdmin="U699" /TUdmin="-3014" /isTUend="FALSE" downshifts 976388 /Source="Nicolas_upshifts" /id="D466" /incds=0 /nref=63 /ntot=180 /MaxReadThrough="1.86673" /MaxDrop="8.19565" /score="27.3980811" /energy="-5.6" /TU="NA" /idTUdmin="U702" /TUdmin=2 /isTUend="TRUE" promotor_-35 976496..976503 /Source="Nicolas_upshift_promotors" /id="U704" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.754245754245754" /psig="0.996003996003996" /xcortree=2450 /SigmaFactorBS="cgcttgcgaaaaaaatacgggagaaaaagaaatttttcCTTT GACAaatcttctttcattTATTAATATTTTATCTTGTGaactattattgaggaatgag g" /listShort="yhbI, yhbJ, yhcA, yhcB, yhcC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 976518..976537 /Source="Nicolas_upshift_promotors" /id="U704" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.754245754245754" /psig="0.996003996003996" /xcortree=2450 /SigmaFactorBS="cgcttgcgaaaaaaatacgggagaaaaagaaatttttcCTTT GACAaatcttctttcattTATTAATATTTTATCTTGTGaactattattgaggaatgag g" /listShort="yhbI, yhbJ, yhcA, yhcB, yhcC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 976518 /Source="Nicolas_upshifts" /id="U704" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.754245754245754" /psig="0.996003996003996" /xcortree=2450 /SigmaFactorBS="cgcttgcgaaaaaaatacgggagaaaaagaaatttttcCTTT GACAaatcttctttcattTATTAATATTTTATCTTGTGaactattattgaggaatgag g" /listShort="yhbI, yhbJ, yhcA, yhcB, yhcC" /GFF_Attribute="listLong" CDS 976569..977033 /gene="yhbI" /locus_tag="BSU_08990" /old_locus_tag="BSU08990" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 20011599; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (MarR family)induced by acid stress" /protein_id="NP_388780.1" /db_xref="EnsemblGenomes-Gn:BSU08990" /db_xref="EnsemblGenomes-Tr:CAB12727" /db_xref="GOA:O31592" /db_xref="InterPro:IPR000835" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG13003" /db_xref="UniProtKB/Swiss-Prot:O31592" /translation="MTESERALLTFEQLFDTSRAIYKKQKKILEIVLEPFDITVLQYL LMFKIHQSGSTPLSKLAMSLDLKPASVTRMTDILYKRQLMNRYDSPDDRRIVMIQLTE EGEELIEKAAVQYAKMGAGLYQKLDTSQLQYLRKLAGSLTKLAEGCSEKSGN*" gene 976569..977033 /gene="yhbI" /locus_tag="BSU_08990" /old_locus_tag="BSU08990" promotor_-35 976858..976864 /Source="Nicolas_upshift_promotors" /id="U705" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.94005994005994" /psig="0.94005994005994" /xcortree=270 /SigmaFactorBS="cagtccggatgaccgccgtatcgtcaTGATTCAgttaaccga agaggGGGAAGAACTGATAGAAAAagccgctgtgcaatatgcaaaaatgggtgctggc t" /listShort="yhbJ, yhcA, yhcB, yhcC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 976879..976897 /Source="Nicolas_upshift_promotors" /id="U705" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.94005994005994" /psig="0.94005994005994" /xcortree=270 /SigmaFactorBS="cagtccggatgaccgccgtatcgtcaTGATTCAgttaaccga agaggGGGAAGAACTGATAGAAAAagccgctgtgcaatatgcaaaaatgggtgctggc t" /listShort="yhbJ, yhcA, yhcB, yhcC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 976892 /Source="Nicolas_upshifts" /id="U705" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.94005994005994" /psig="0.94005994005994" /xcortree=270 /SigmaFactorBS="cagtccggatgaccgccgtatcgtcaTGATTCAgttaaccga agaggGGGAAGAACTGATAGAAAAagccgctgtgcaatatgcaaaaatgggtgctggc t" /listShort="yhbJ, yhcA, yhcB, yhcC" /GFF_Attribute="listLong" promotor_-35 977042..977048 /Source="Nicolas_upshift_promotors" /id="U706" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.976023976023976" /psig="0.976023976023976" /xcortree=808 /SigmaFactorBS="gctgttcagaaaaaagcggtaattaaaaacttctCACATATt ttcaccagctttCCGCAAAATGATagaggatgaaacgaaaggagaaaacaaaatgaac a" /listShort="yhbJ, yhcA, yhcB, yhcC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 977062..977073 /Source="Nicolas_upshift_promotors" /id="U706" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.976023976023976" /psig="0.976023976023976" /xcortree=808 /SigmaFactorBS="gctgttcagaaaaaagcggtaattaaaaacttctCACATATt ttcaccagctttCCGCAAAATGATagaggatgaaacgaaaggagaaaacaaaatgaac a" /listShort="yhbJ, yhcA, yhcB, yhcC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 977068 /Source="Nicolas_upshifts" /id="U706" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.976023976023976" /psig="0.976023976023976" /xcortree=808 /SigmaFactorBS="gctgttcagaaaaaagcggtaattaaaaacttctCACATATt ttcaccagctttCCGCAAAATGATagaggatgaaacgaaaggagaaaacaaaatgaac a" /listShort="yhbJ, yhcA, yhcB, yhcC" /GFF_Attribute="listLong" CDS 977069..977734 /gene="yhbJ" /locus_tag="BSU_09000" /old_locus_tag="BSU09000" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406, 20011599; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative membrane fusion protein; putative exporter subunit (benzoate transcriptome)" /protein_id="NP_388781.1" /db_xref="EnsemblGenomes-Gn:BSU09000" /db_xref="EnsemblGenomes-Tr:CAB12728" /db_xref="GOA:O31593" /db_xref="InterPro:IPR011053" /db_xref="SubtiList:BG13004" /db_xref="UniProtKB/Swiss-Prot:O31593" /translation="MIEDETKGENKMNRGRLILTNIIGLIVVLAIIAGGAYYYYQSTN YVKTDEAKVAGDMAAITAPAAGKVSDWDLDEGKTVKKGDTVAKIKGEQTVDVKSIMDG TIVKNEVKNGQTVQAGTTIAQTIDMDNLYITANIKETDIADIEVGNSVDVVVDGDPDT TFDGTVEEIGYATNSTFDMLPSTNSSGNYTKVTQKVPVKISIKNPSDKVLPGMNASVK ISE*" gene 977069..977734 /gene="yhbJ" /locus_tag="BSU_09000" /old_locus_tag="BSU09000" CDS 977775..979373 /gene="yhcA" /locus_tag="BSU_09010" /old_locus_tag="BSU09010" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406, 20011599; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative exporter (benzoate transcriptome)" /protein_id="NP_388782.1" /db_xref="EnsemblGenomes-Gn:BSU09010" /db_xref="EnsemblGenomes-Tr:CAB12729" /db_xref="GOA:P54585" /db_xref="InterPro:IPR004638" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG11579" /db_xref="UniProtKB/Swiss-Prot:P54585" /translation="MATGKEKNAKNPMSLLIVLMAGLFLAILNQTLLNVAMPHLMTEF GVSATTIQWLTTGYMLVNGVLIPLSAFLITRFGQRSLFLVAMFCFTLGTLVCGIAPNF STMLIGRLIQAVGGGILQPLVMTTILLIFPPESRGKGMGIFGLAMMFAPAVGPTLSGW IIEHYTWRIMFYGLVPIGAIVIIVAFFIFKNMVEPQKIKLDTLGAILSIVGFASLLYG VSEAGSDGWTDPIVLSTVIIGAIAIVAFVVQQLRHDDPMLDFRVFKYDIFSLSSVINI IITVALYTGMFLLPIYLQNLVGFTALQSGLLLLPGAIVMLIMSPISGILFDKFGPRPL AIIGLLVTVVTTYQYTQLTIDTPYTHIMLIYSIRAFGMSLLMMPVMTAGMNQLPARLN SHGTAMSNTLRQISGSIGTSLITTIYTNRTTFHYSQIADKTSTADPNFLHAFQNAVSN LMVNMNVSYDTAKTYVYSHIYKHASLDSNVMGINDAFMWATLFCVAGLILSIFLRDVR KDKLRKKKKEELSLLPAPKEAKES*" gene 977775..979373 /gene="yhcA" /locus_tag="BSU_09010" /old_locus_tag="BSU09010" CDS 979396..979926 /gene="yhcB" /locus_tag="BSU_09020" /old_locus_tag="BSU09020" /EC_number="1.6.5.-" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 15754243, 18041955, 17951395, 19665595, 20011599; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="NADH:quinone oxidoreductase associated to benzoate stress" /protein_id="NP_388783.1" /db_xref="EnsemblGenomes-Gn:BSU09020" /db_xref="EnsemblGenomes-Tr:CAB12730" /db_xref="GOA:P54586" /db_xref="InterPro:IPR005025" /db_xref="InterPro:IPR008254" /db_xref="InterPro:IPR029039" /db_xref="SubtiList:BG11580" /db_xref="UniProtKB/Swiss-Prot:P54586" /translation="MKIYVVYDSEGEHTKVLAEAIAEGARENDAAEVFIDHVDQADIR KLKDMDAIIWGCPGHFGTISSGLKTWIDRLGYLWAEGELINKVGAVFCTTATTHGGLE MTMHNLITPMFHQGMIVVGLPGNVPENALYGSYYGAGVTCPVDSDELMSEEGIQLGRA LGRRVSQVTGNLTAGQ*" gene 979396..979926 /gene="yhcB" /locus_tag="BSU_09020" /old_locus_tag="BSU09020" CDS 979939..980313 /gene="yhcC" /locus_tag="BSU_09030" /old_locus_tag="BSU09030" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical membrane protein" /protein_id="NP_388784.1" /db_xref="EnsemblGenomes-Gn:BSU09030" /db_xref="EnsemblGenomes-Tr:CAB12731" /db_xref="GOA:P54587" /db_xref="SubtiList:BG11581" /db_xref="UniProtKB/Swiss-Prot:P54587" /translation="MAIIIAIIAAVIVIAALITFNVRNASPGPEKQEATDRIAPPEEE KNEAHYPAEARAAEHTPSVVKNDSPKEKRDTMGDDIYRQALQKFKHSDEVHAEEEVTE ESDKMQDRSYRDALLSMKNKKK*" gene 979939..980313 /gene="yhcC" /locus_tag="BSU_09030" /old_locus_tag="BSU09030" downshifts 980302 /Source="Nicolas_upshifts" /id="D467" /incds=0 /nref=32 /ntot=145 /MaxReadThrough="1.78742" /MaxDrop="5.9171" /score="13.777309" /energy="-14.4" /TU="NA" /idTUdmin="U704" /TUdmin=0 /isTUend="TRUE" CDS 980313..980468 /gene="yhcD" /locus_tag="BSU_09040" /old_locus_tag="BSU09040" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="NP_388785.1" /db_xref="EnsemblGenomes-Gn:BSU09040" /db_xref="EnsemblGenomes-Tr:CAB12732" /db_xref="SubtiList:BG11582" /db_xref="UniProtKB/Swiss-Prot:P54588" /translation="MKKANPFTHAGLPFLLFPSIMFLSNKSMEYVVFHLDLVYYVTHT PRIFSGR*" gene 980313..980468 /gene="yhcD" /locus_tag="BSU_09040" /old_locus_tag="BSU09040" promotor_-35 980403..980409 /Source="Nicolas_upshift_promotors" /id="U707" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.571428571428571" /psig=1 /xcortree=2541 /SigmaFactorBS="tgtttttatcaaataaatccatggaatatGTTGTATtccacc ttgatctaGTGTACTATGTTACTCATACaccgaggattttttccgggaggtaaagaca t" /listShort="yhcE, yhcF, yhcG, yhcH, yhcI" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 980424..980443 /Source="Nicolas_upshift_promotors" /id="U707" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.571428571428571" /psig=1 /xcortree=2541 /SigmaFactorBS="tgtttttatcaaataaatccatggaatatGTTGTATtccacc ttgatctaGTGTACTATGTTACTCATACaccgaggattttttccgggaggtaaagaca t" /listShort="yhcE, yhcF, yhcG, yhcH, yhcI" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 980434 /Source="Nicolas_upshifts" /id="U707" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.571428571428571" /psig=1 /xcortree=2541 /SigmaFactorBS="tgtttttatcaaataaatccatggaatatGTTGTATtccacc ttgatctaGTGTACTATGTTACTCATACaccgaggattttttccgggaggtaaagaca t" /listShort="yhcE, yhcF, yhcG, yhcH, yhcI" /GFF_Attribute="listLong" CDS 980473..981234 /gene="yhcE" /locus_tag="BSU_09050" /old_locus_tag="BSU09050" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral inner membrane orphan protein" /protein_id="NP_388786.1" /db_xref="EnsemblGenomes-Gn:BSU09050" /db_xref="EnsemblGenomes-Tr:CAB12733" /db_xref="GOA:P54589" /db_xref="SubtiList:BG11583" /db_xref="UniProtKB/Swiss-Prot:P54589" /translation="MNSFLGLLKKDIKLSRMWLLVWICGIIFLLGTGHIIASRTKEPL VIFGFFVAVAFFLLFLSPVFVFYHLRKEGKSQLWLYNPNGGLWLFSSKLAASLLYQFV IQLALTAYGIWMYHMLSVKNLLEHQVDITSTVALLNMYGLISSLDMSVTVIVFWTVFH SLRNWRGMRWAAMVLLVAMWLFFDEYIISPLVESQKHFWPVTVYCNFDFHFHNVWRLE LKPIHLSVLGFPIAIVITFLLLIMASKLLDRKVEV*" gene 980473..981234 /gene="yhcE" /locus_tag="BSU_09050" /old_locus_tag="BSU09050" promotor_-10 complement(980786..980804) /Source="Nicolas_upshift_promotors" /id="U708" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1187 /SigmaFactorBS="tatcaacttgatgctccagcagattttttacagagAGCATAt gatacatccatatgCCATAGGCTGTTAATGCCAactgaatcacaaattgatagagcaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(980800) /Source="Nicolas_upshifts" /id="U708" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1187 /SigmaFactorBS="tatcaacttgatgctccagcagattttttacagagAGCATAt gatacatccatatgCCATAGGCTGTTAATGCCAactgaatcacaaattgatagagcaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(980820..980825) /Source="Nicolas_upshift_promotors" /id="U708" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1187 /SigmaFactorBS="tatcaacttgatgctccagcagattttttacagagAGCATAt gatacatccatatgCCATAGGCTGTTAATGCCAactgaatcacaaattgatagagcaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 981237..981602 /gene="yhcF" /locus_tag="BSU_09060" /old_locus_tag="BSU09060" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (GntR family)" /protein_id="NP_388787.1" /db_xref="EnsemblGenomes-Gn:BSU09060" /db_xref="EnsemblGenomes-Tr:CAB12734" /db_xref="GOA:P54590" /db_xref="InterPro:IPR000524" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG11584" /db_xref="UniProtKB/Swiss-Prot:P54590" /translation="MDNQFQSSKPIYLQIADQIFYRLVRKELLPGDKLPSVREMAIQT KVNPNTIQRTYSEMERLGIVETRRGQGTFIAEKAEIVDELKDKLTREVLEGFVKQMKE LGLTKEEMLEGIKTFTEGG*" gene 981237..981602 /gene="yhcF" /locus_tag="BSU_09060" /old_locus_tag="BSU09060" CDS 981604..982302 /gene="yhcG" /locus_tag="BSU_09070" /old_locus_tag="BSU09070" /function="16.1: Circulate" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15870467; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative ABC transporter ATP-binding protein" /protein_id="NP_388788.1" /db_xref="EnsemblGenomes-Gn:BSU09070" /db_xref="EnsemblGenomes-Tr:CAB12735" /db_xref="GOA:P54591" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG11585" /db_xref="UniProtKB/Swiss-Prot:P54591" /translation="MEIKLEHVSKKYGRHTAVNDVSITLSSGRIYGLIGPNGSGKSTT LKMMAGLLFPTSGFVKVDEEQVTREMVRQTAYLTELDMFYPHFTVKDMVNFYQSQFPD FHTEQVYKLLNEMQLNPEKKIKKLSKGNRGRLKIVLALARRADVILLDEPFSGLDPMV RDSIVNSLVSYIDFEQQIVVIATHEIDEIETLLDEVIILANGEKVAQREVEDIREQEG MSVLQWFKSKMEVC*" gene 981604..982302 /gene="yhcG" /locus_tag="BSU_09070" /old_locus_tag="BSU09070" CDS 982319..983236 /gene="yhcH" /locus_tag="BSU_09080" /old_locus_tag="BSU09080" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 7476193, 15870467; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative ABC transporter (ATP-binding protein)" /protein_id="NP_388789.1" /db_xref="EnsemblGenomes-Gn:BSU09080" /db_xref="EnsemblGenomes-Tr:CAB12736" /db_xref="GOA:P54592" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG11586" /db_xref="UniProtKB/Swiss-Prot:P54592" /translation="MKTVLELKNVTKNIRGRTIIDDLSFTIREGEVFGFLGPNGAGKT TTIRMMVGLMKLSKGDVLICGQSITKEYAKAIKHIGAIVENPELYKFLSGYKNLQQFA RMVKGVTKEKIDEVVELVGLTDRIHDKVKTYSLGMRQRLGLAQCLLHDPKVLILDEPT NGLDPAGIREIRDHLKKLTRERGMAVIVSSHLLSEMELMCDRIAILQKGKLIDIQNVK DENIDENDTYFFQVEQPSEAATVLNQYDLLSKTNGVEIKLAKEEVPAVIELLVMQQIR IYEVKVITKSLEDRFLEMTGETKEEVQHA*" gene 982319..983236 /gene="yhcH" /locus_tag="BSU_09080" /old_locus_tag="BSU09080" CDS 983229..984170 /gene="yhcI" /locus_tag="BSU_09090" /old_locus_tag="BSU09090" /function="16.1: Circulate" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 15870467, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative ABC transporter (permease)" /protein_id="NP_388790.1" /db_xref="EnsemblGenomes-Gn:BSU09090" /db_xref="EnsemblGenomes-Tr:CAB12737" /db_xref="GOA:P54593" /db_xref="InterPro:IPR032688" /db_xref="SubtiList:BG11587" /db_xref="UniProtKB/Swiss-Prot:P54593" /translation="MLNLIYNEWLKIFSRAGTWVMIGILGLTMVGFAFLANHFSAGES NSHWKQELQAQNAELKKEIKEDPSLKDGYKETITLNDYRIEHNIPSDTGYTVWSYVTD SANFTILTGLFTIIIAAGIVANEFNWGTIKLLMIRPLSRFQILMSKYITVLLFGLLLL LILFIGSTLLGLIFFGTGGETAANIHLIYKDGHVIEQNMMGHLATTYLSESVSALMVA TMAFMLSAVFRNSSLAVGFSIFLLVAGTTATAFIAAKFDWAKYILFANVDLTQYVDGT PLIKGMTMTFSLVMLAIYFIIFLLLAFGIFMKRDIAN*" gene 983229..984170 /gene="yhcI" /locus_tag="BSU_09090" /old_locus_tag="BSU09090" downshifts 984152 /Source="Nicolas_upshifts" /id="D468" /incds=0 /nref=43 /ntot=186 /MaxReadThrough="2.67567" /MaxDrop="4.46232" /score="20.0218504" /energy="-13.6" /TU="NA" /idTUdmin="U707" /TUdmin=0 /isTUend="TRUE" CDS complement(984262..984465) /gene="cspB" /locus_tag="BSU_09100" /old_locus_tag="BSU09100" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:12493834, 16352840, 22128343, 25851716" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12493834, 16352840, 22128343, 25851716; Product type f: factor" /codon_start=1 /transl_table=11 /product="major cold-shock protein, RNA helicase co-factor, RNA co-chaperone" /protein_id="NP_388791.1" /db_xref="EnsemblGenomes-Gn:BSU09100" /db_xref="EnsemblGenomes-Tr:CAB12738" /db_xref="GOA:P32081" /db_xref="InterPro:IPR002059" /db_xref="InterPro:IPR011129" /db_xref="InterPro:IPR012156" /db_xref="InterPro:IPR012340" /db_xref="InterPro:IPR019844" /db_xref="PDB:1CSP" /db_xref="PDB:1CSQ" /db_xref="PDB:1NMF" /db_xref="PDB:1NMG" /db_xref="PDB:2ES2" /db_xref="PDB:2F52" /db_xref="PDB:2I5L" /db_xref="PDB:2I5M" /db_xref="PDB:3PF4" /db_xref="PDB:3PF5" /db_xref="SubtiList:BG10824" /db_xref="UniProtKB/Swiss-Prot:P32081" /translation="MLEGKVKWFNSEKGFGFIEVEGQDDVFVHFSAIQGEGFKTLEEG QAVSFEIVEGNRGPQAANVTKEA*" gene complement(984262..984465) /gene="cspB" /locus_tag="BSU_09100" /old_locus_tag="BSU09100" downshifts complement(984276) /Source="Nicolas_upshifts" /id="D469" /incds=0 /nref=169 /ntot=281 /MaxReadThrough="5.28215" /MaxDrop="9.14889" /score="33.2405587" /energy="-13.1" /TU="U710" /idTUdmin="U710" /TUdmin="-48" /isTUend="FALSE" S_feature complement(984466..984593) /Source="Nicolas_S_feature" /locus_tag="new_984466_984593_c" /HighExp="BC, C90, GM 15, BI, T-1.10H, UNK1, S1, Sw, nit, G/S" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="SigA" /TUlongPSig="0.999" /label="S315" misc_feature 984553..984564 /Source="Nicolas_upshift_promotors" /id="U709" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.618381618381618" /psig="0.098901098901099" /xcortree=713 /SigmaFactorBS="ttgctcttaacaaactttcaagacgaaaactcttacaaaact tTCTTCTTAAAGAtagttcgaacaaaaataattacctttactctaccagtaatcttca g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 984570 /Source="Nicolas_upshifts" /id="U709" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.618381618381618" /psig="0.098901098901099" /xcortree=713 /SigmaFactorBS="ttgctcttaacaaactttcaagacgaaaactcttacaaaact tTCTTCTTAAAGAtagttcgaacaaaaataattacctttactctaccagtaatcttca g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 complement(984582..984601) /Source="Nicolas_upshift_promotors" /id="U710" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.32967032967033" /psig=1 /xcortree=2182 /SigmaFactorBS="tatggtattttccgaaaaaaatttcaataagcaGTTGTTttt tctgaagattACTGGTAGAGTAAAGGTAATtatttttgttcgaactatctttaagaag a" /listShort="S315, cspB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(984593) /Source="Nicolas_upshifts" /id="U710" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.32967032967033" /psig=1 /xcortree=2182 /SigmaFactorBS="tatggtattttccgaaaaaaatttcaataagcaGTTGTTttt tctgaagattACTGGTAGAGTAAAGGTAATtatttttgttcgaactatctttaagaag a" /listShort="S315, cspB" /GFF_Attribute="listLong" S_feature complement(984595..985733) /Source="Nicolas_S_feature" /locus_tag="new_984595_985733_c" /HighExp="C30, G180, G150, Oxctl, G135, Paraq, HPh, LPh, dia0, Lbexp" /AntisenseName="yhcJ" /AntisenseCor="0.25433958616302499" /AntisenseRegPval="-4.5999999999999996" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S316" promotor_-35 complement(984615..984620) /Source="Nicolas_upshift_promotors" /id="U710" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.32967032967033" /psig=1 /xcortree=2182 /SigmaFactorBS="tatggtattttccgaaaaaaatttcaataagcaGTTGTTttt tctgaagattACTGGTAGAGTAAAGGTAATtatttttgttcgaactatctttaagaag a" /listShort="S315, cspB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 984760..984767 /Source="Nicolas_upshift_promotors" /id="U711" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.386613386613387" /psig="0.997002997002997" /xcortree=1871 /SigmaFactorBS="attccttcattttgggaagataagtaataggAATTGACAacc ttattggatatGAGTAAGGTAAAAGTTAATcaatattacaaatgacaacgtttatcaa c" /listShort="S317, yhcJ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 984782..984800 /Source="Nicolas_upshift_promotors" /id="U711" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.386613386613387" /psig="0.997002997002997" /xcortree=1871 /SigmaFactorBS="attccttcattttgggaagataagtaataggAATTGACAacc ttattggatatGAGTAAGGTAAAAGTTAATcaatattacaaatgacaacgtttatcaa c" /listShort="S317, yhcJ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 984789 /Source="Nicolas_upshifts" /id="U711" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.386613386613387" /psig="0.997002997002997" /xcortree=1871 /SigmaFactorBS="attccttcattttgggaagataagtaataggAATTGACAacc ttattggatatGAGTAAGGTAAAAGTTAATcaatattacaaatgacaacgtttatcaa c" /listShort="S317, yhcJ" /GFF_Attribute="listLong" S_feature 984790..984900 /Source="Nicolas_S_feature" /locus_tag="new_984790_984900" /HighExp="Diami, dia15, dia5, H2O2, Salt, C90, Paraq, UNK1, T-4.40H, nit" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.997" /TUlongSig="NA" /TUlongPSig="NA" /label="S317" CDS 984901..985731 /gene="yhcJ" /locus_tag="BSU_09110" /old_locus_tag="BSU09110" /function="7: Transport and binding proteins" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type lp: lipoprotein" /codon_start=1 /transl_table=11 /product="putative ABC transporter (binding lipoprotein)" /protein_id="NP_388792.2" /db_xref="EnsemblGenomes-Gn:BSU09110" /db_xref="EnsemblGenomes-Tr:CAB12739" /db_xref="GOA:P54594" /db_xref="InterPro:IPR004872" /db_xref="SubtiList:BG11588" /db_xref="UniProtKB/Swiss-Prot:P54594" /translation="MKKWLICSFVLVLLVSFTACSPSAEHESIKIGIAESDGAIWNYI AQKAEEAGLDIQLIPFSDYAESDIALANKEIDANAFQTISYFQSFTEKYKLNLAPLGT TYITPMGIYSKRYERIRDISRGAVVSVPDKAFDFGRALTVLQEAGLLTLKNGFNGTGS VDMIKDNPRHLKLKAVRQQDAVSGADVFVMKPSEAKKAGLNPKKHTLKSGGLMSEEEM NLIVVRAEDQDREALQTILELYQADDTAAFIEKEYQGDLVPAFLPLKRLSDWKNEFEH *" gene 984901..985731 /gene="yhcJ" /locus_tag="BSU_09110" /old_locus_tag="BSU09110" downshifts 985690 /Source="Nicolas_upshifts" /id="D470" /incds=0 /nref=38 /ntot=203 /MaxReadThrough="2.83059" /MaxDrop="3.90173" /score="-4.94928928" /energy="-7.3" /TU="NA" /idTUdmin="U711" /TUdmin="-3" /isTUend="TRUE" CDS complement(985734..986813) /gene="dgcK" /locus_tag="BSU_09120" /old_locus_tag="BSU09120" /EC_number="2.7.7.65" /function="16.3: Control" /function="16.1: Circulate" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:23893111" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 23893111; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="diguanylate cyclase" /protein_id="NP_388793.1" /db_xref="EnsemblGenomes-Gn:BSU09120" /db_xref="EnsemblGenomes-Tr:CAB12740" /db_xref="GOA:P54595" /db_xref="InterPro:IPR000160" /db_xref="InterPro:IPR011620" /db_xref="InterPro:IPR029787" /db_xref="SubtiList:BG11589" /db_xref="UniProtKB/Swiss-Prot:P54595" /translation="MLKELFVNLTILITFNYLFTHLFKERLVHKKDSISFQAVKGLAC GLLGVILMVFGFTYQHSIIDLRNIPIMIAALYGGWVSTATALAMITAGRLLITMNTSA LYSVIIICIAAIPSLIVSRRKKVQLKHAFYLLIITNSLISFSFYFLIDLHSYELHLYF WIISIAGGMLSLYIIDHETNAHLLFKQYKFQAHFDFLTGVYNRRKFEETTKALYQQAA DTPHFQFALIYMDIDHFKTINDQYGHHEGDQVLKELGLRLKQTIRNTDPAARIGGEEF AVLLPNCSLDKAARIAERIRSTVSDAPIVLTNGDELSVTISLGAAHYPNNTEQPGSLP ILADQMLYKAKETGRNRVCFSEKKE*" gene complement(985734..986813) /gene="dgcK" /locus_tag="BSU_09120" /old_locus_tag="BSU09120" promotor_-10 complement(986823..986842) /Source="Nicolas_upshift_promotors" /id="U712" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.988011988011988" /psig="0.999000999001" /xcortree=2608 /SigmaFactorBS="tatcaattcaagtaaaaaaaccttatataatgccttttttgt TCTTTtctttcccttccatcTTTAGTACCTTATATAAGGGtgataatatttgctgaaa g" /listShort="yhcK, S316" /listLong="S315, cspB" /label="promotor_-10" upshifts complement(986844) /Source="Nicolas_upshifts" /id="U712" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.988011988011988" /psig="0.999000999001" /xcortree=2608 /SigmaFactorBS="tatcaattcaagtaaaaaaaccttatataatgccttttttgt TCTTTtctttcccttccatcTTTAGTACCTTATATAAGGGtgataatatttgctgaaa g" /listShort="yhcK, S316" /listLong="S315, cspB" promotor_-35 complement(986858..986862) /Source="Nicolas_upshift_promotors" /id="U712" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.988011988011988" /psig="0.999000999001" /xcortree=2608 /SigmaFactorBS="tatcaattcaagtaaaaaaaccttatataatgccttttttgt TCTTTtctttcccttccatcTTTAGTACCTTATATAAGGGtgataatatttgctgaaa g" /listShort="yhcK, S316" /listLong="S315, cspB" /label="promotor_-35" promotor_-35 986920..986927 /Source="Nicolas_upshift_promotors" /id="U713" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.651348651348651" /psig=1 /xcortree=1745 /SigmaFactorBS="tttttacttgaattgataagttaaaataattcgCACTTGACc catcggaattagTGTAATATAGTAAATGAGAAaatttgaagggagagtttacctgctt t" /listShort="tcyP" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 986941..986960 /Source="Nicolas_upshift_promotors" /id="U713" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.651348651348651" /psig=1 /xcortree=1745 /SigmaFactorBS="tttttacttgaattgataagttaaaataattcgCACTTGACc catcggaattagTGTAATATAGTAAATGAGAAaatttgaagggagagtttacctgctt t" /listShort="tcyP" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 986947 /Source="Nicolas_upshifts" /id="U713" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.651348651348651" /psig=1 /xcortree=1745 /SigmaFactorBS="tttttacttgaattgataagttaaaataattcgCACTTGACc catcggaattagTGTAATATAGTAAATGAGAAaatttgaagggagagtttacctgctt t" /listShort="tcyP" /GFF_Attribute="listLong" CDS 986986..988377 /gene="tcyP" /locus_tag="BSU_09130" /old_locus_tag="BSU09130" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:12193636, 15262924, 15849754, 16513748, 16850406, 19508281" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12193636, 15262924, 15849754, 16513748, 16850406, 19508281; Product type t : transporter" /codon_start=1 /transl_table=11 /product="(sodium)-cystine symporter" /protein_id="NP_388794.1" /db_xref="EnsemblGenomes-Gn:BSU09130" /db_xref="EnsemblGenomes-Tr:CAB12741" /db_xref="GOA:P54596" /db_xref="InterPro:IPR001991" /db_xref="InterPro:IPR036458" /db_xref="SubtiList:BG11590" /db_xref="UniProtKB/Swiss-Prot:P54596" /translation="METLLVVLHVFILFLLILGLFVMQKKHVSFSKRVFTALGLGIVF GFALQLIYGPTSNIVIQTADWFNIAGGGYVKLLQMVVMPLVFISILGAFTKLKLTKNL GKISGLIIGILVATTAVAAAVGIASALSFDLQAIQVDQGSTELSRGQELQQKSEDMTA KTLPQQIVELLPGNPFLDFTGARPTSTIAVVIFAAFLGVAFLGVKHKQPEQAETFKKL VDAVYAIVMRVVTLILRLTPYGVLAIMTKTIATSDLDSILKLGMFVIASYAALITMFI IHLLLLTFSGLNPVIYLKKAVPVLVFAFTSRSSAGALPLNIKTQRSMGVPEGIANFAG SFGLSIGQNGCAGIYPAMLAMMIAPTVGQNPFDPVFIITVIAVVAISSFGVAGVGGGA TFAALLVLSSLNMPVALAGLLISIEPLIDMGRTALNVSGSMTSGLITSKVTKEIDQGA FHDQSRVIEAEEA*" gene 986986..988377 /gene="tcyP" /locus_tag="BSU_09130" /old_locus_tag="BSU09130" S_feature complement(988013..988416) /Source="Nicolas_S_feature" /locus_tag="new_988013_988416_c" /HighExp="S8, S6, Etha, S5, S7, S4, ferm, nit, Salt, S3" /AntisenseName="tcyP" /AntisenseCor="-0.40132140065468203" /AntisenseRegPval="-11.1" /CDS_PredictionProba="NA" /TUshortSig="SigB" /TUshortPSig="0.96" /TUlongSig="NA" /TUlongPSig="NA" /label="S318" downshifts 988356 /Source="Nicolas_upshifts" /id="D471" /incds=0 /nref=58 /ntot=164 /MaxReadThrough="2.37899" /MaxDrop="5.34563" /score="19.9118074" /energy="-12.8" /TU="NA" /idTUdmin="U713" /TUdmin="-21" /isTUend="TRUE" CDS complement(988417..988872) /gene="yhcM" /locus_tag="BSU_09140" /old_locus_tag="BSU09140" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 21625606" /codon_start=1 /transl_table=11 /product="expressed protein of unknown function" /protein_id="NP_388795.1" /db_xref="EnsemblGenomes-Gn:BSU09140" /db_xref="EnsemblGenomes-Tr:CAB12742" /db_xref="SubtiList:BG11591" /db_xref="UniProtKB/Swiss-Prot:P54597" /translation="MLFNQRRGISPAALIIGSTMLITALSPQIRQRISGFITGQMNRR NSENNTFDASNVGNMVKQAFSGSSGSSGDNQDRSQHQSQRQNGRQHQHAGQQQPQHQH TQSQTRQTETAAKKRQPHYAEPIHFEQNAMNVMDDNTMMEMLEDLEPGR*" gene complement(988417..988872) /gene="yhcM" /locus_tag="BSU_09140" /old_locus_tag="BSU09140" promotor_-10 complement(988887..988905) /Source="Nicolas_upshift_promotors" /id="U714" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.96003996003996" /psig="0.96003996003996" /xcortree=733 /SigmaFactorBS="tttaattatgcatgcaaatctggaggaaatgctttcccggga aatataaCGGTTAAtttgtctaacgaggGGGAAAATATGAATACACTgcaaaggaggg a" /listShort="yhcM, S318" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(988915) /Source="Nicolas_upshifts" /id="U714" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.96003996003996" /psig="0.96003996003996" /xcortree=733 /SigmaFactorBS="tttaattatgcatgcaaatctggaggaaatgctttcccggga aatataaCGGTTAAtttgtctaacgaggGGGAAAATATGAATACACTgcaaaggaggg a" /listShort="yhcM, S318" /GFF_Attribute="listLong" promotor_-35 complement(988920..988926) /Source="Nicolas_upshift_promotors" /id="U714" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.96003996003996" /psig="0.96003996003996" /xcortree=733 /SigmaFactorBS="tttaattatgcatgcaaatctggaggaaatgctttcccggga aatataaCGGTTAAtttgtctaacgaggGGGAAAATATGAATACACTgcaaaggaggg a" /listShort="yhcM, S318" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 988964..988970 /Source="Nicolas_upshift_promotors" /id="U715" /multdbtbs="SigF,SigG" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=835 /SigmaFactorBS="tatatttcccgggaaagcatttcctccagatttgcaTGCATA AttaaagccagttaGAAAAACCTATAagtaaagtgataaaggaggaattcacatgttt g" /listShort="yhcN" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 988984..988995 /Source="Nicolas_upshift_promotors" /id="U715" /multdbtbs="SigF,SigG" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=835 /SigmaFactorBS="tatatttcccgggaaagcatttcctccagatttgcaTGCATA AttaaagccagttaGAAAAACCTATAagtaaagtgataaaggaggaattcacatgttt g" /listShort="yhcN" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 988988 /Source="Nicolas_upshifts" /id="U715" /multdbtbs="SigF,SigG" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=835 /SigmaFactorBS="tatatttcccgggaaagcatttcctccagatttgcaTGCATA AttaaagccagttaGAAAAACCTATAagtaaagtgataaaggaggaattcacatgttt g" /listShort="yhcN" /GFF_Attribute="listLong" CDS 989022..989591 /gene="yhcN" /locus_tag="BSU_09150" /old_locus_tag="BSU09150" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 9611260, 28333204; Product type lp: lipoprotein" /codon_start=1 /transl_table=11 /product="putative germination lipoprotein" /protein_id="NP_388796.2" /db_xref="EnsemblGenomes-Gn:BSU09150" /db_xref="EnsemblGenomes-Tr:CAB12743" /db_xref="GOA:P54598" /db_xref="InterPro:IPR014247" /db_xref="InterPro:IPR019076" /db_xref="SubtiList:BG11592" /db_xref="UniProtKB/Swiss-Prot:P54598" /translation="MFGKKQVLASVLLIPLLMTGCGVADQGEGRRDNNDVRNVNYRNP ANDDMRNVNNRDNVDNNVNDNVNNNRVNDDNNNDRKLEVADEAADKVTDLKEVKHADI IVAGNQAYVAVVLTNGNKGAVENNLKKKIAKKVRSTDKNIDNVYVSANPDFVERMQGY GKRIQNGDPIAGLFDEFTQTVQRVFPNAE*" gene 989022..989591 /gene="yhcN" /locus_tag="BSU_09150" /old_locus_tag="BSU09150" promotor_-35 989218..989224 /Source="Nicolas_upshift_promotors" /id="U716" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.634365634365634" /psig="0.634365634365634" /xcortree=783 /SigmaFactorBS="gtaaacaatcgggataacgttgacaacaatgttaatgataat gTCAATAAcaatcgtgtaaatGACGATAATAACaacgaccgaaaacttgaggttgctg a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 989235 /Source="Nicolas_upshifts" /id="U716" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.634365634365634" /psig="0.634365634365634" /xcortree=783 /SigmaFactorBS="gtaaacaatcgggataacgttgacaacaatgttaatgataat gTCAATAAcaatcgtgtaaatGACGATAATAACaacgaccgaaaacttgaggttgctg a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 989238..989249 /Source="Nicolas_upshift_promotors" /id="U716" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.634365634365634" /psig="0.634365634365634" /xcortree=783 /SigmaFactorBS="gtaaacaatcgggataacgttgacaacaatgttaatgataat gTCAATAAcaatcgtgtaaatGACGATAATAACaacgaccgaaaacttgaggttgctg a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" downshifts 989566 /Source="Nicolas_upshifts" /id="D472" /incds=0 /nref=26 /ntot=183 /MaxReadThrough="1.84697" /MaxDrop="7.80159" /score="33.0647397" /energy="-12.9" /TU="NA" /idTUdmin="U715" /TUdmin="-21" /isTUend="TRUE" promotor_-35 989634..989643 /Source="Nicolas_upshift_promotors" /id="U717" /multdbtbs="SigE,SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1355 /SigmaFactorBS="caatttgtgcggctttttctttgcgttAATGACACACtgcga actcaggcTGCATAGAGTAAAAATAAAAaggtacaagacggaccggctcagggaggga g" /listShort="yhcO" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 989657..989676 /Source="Nicolas_upshift_promotors" /id="U717" /multdbtbs="SigE,SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1355 /SigmaFactorBS="caatttgtgcggctttttctttgcgttAATGACACACtgcga actcaggcTGCATAGAGTAAAAATAAAAaggtacaagacggaccggctcagggaggga g" /listShort="yhcO" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 989667 /Source="Nicolas_upshifts" /id="U717" /multdbtbs="SigE,SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1355 /SigmaFactorBS="caatttgtgcggctttttctttgcgttAATGACACACtgcga actcaggcTGCATAGAGTAAAAATAAAAaggtacaagacggaccggctcagggaggga g" /listShort="yhcO" /GFF_Attribute="listLong" CDS 989712..990680 /gene="yhcO" /locus_tag="BSU_09165" /old_locus_tag="BSU09165" /function="18: Unknown function" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="putative exported protein (sporulation germination island)" /protein_id="NP_388797.2" /db_xref="EnsemblGenomes-Gn:BSU09165" /db_xref="EnsemblGenomes-Tr:CAB12744" /db_xref="SubtiList:BG11593" /db_xref="UniProtKB/Swiss-Prot:P54599" /translation="MRDGIGKRAASALFLCGVLVMLAVSSAIVSSAMYILSFPGQASG ITKEQVTKHMKKESFKQADIYYTSKEKSLLPLTKETLEYAVSINQIMIGYSNQKPIDI IFFPNEKQMEAYSGLLDVVGFYSEREQLIGLLPEEKKKLLEGDEVAVYLYQRLLIHEY SHHAFHQKLKELETDPDEFPLWFHEGLSEWIANYELLIDPITFSVVPFDRLQTDRDWQ EARAEYDTDVYLQSFYMIDELTDKYGKDIISEMIKETAKKGDFEKGFKSATKESLDQF EKDFKKKFEKNSAALDSIYPMPLLLVKSLLTHSALCRRHLSLGRGE*" gene 989712..990680 /gene="yhcO" /locus_tag="BSU_09165" /old_locus_tag="BSU09165" downshifts 990556 /Source="Nicolas_upshifts" /id="D473" /incds=1 /nref=28 /ntot=62 /MaxReadThrough="1.51621" /MaxDrop="5.75619" /score="6.21571271" /energy="-16.1" /TU="NA" /idTUdmin="U717" /TUdmin="-1" /isTUend="TRUE" CDS complement(990612..991265) /gene="yhcQ" /locus_tag="BSU_09180" /old_locus_tag="BSU09180" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type s: structure" /codon_start=1 /transl_table=11 /product="putative spore coat protein" /protein_id="NP_388799.1" /db_xref="EnsemblGenomes-Gn:BSU09180" /db_xref="EnsemblGenomes-Tr:CAB12746" /db_xref="GOA:P54601" /db_xref="InterPro:IPR012347" /db_xref="InterPro:IPR012851" /db_xref="SubtiList:BG11595" /db_xref="UniProtKB/Swiss-Prot:P54601" /translation="MDQFNQQQQSQMNKGIPGKPHKNHGGHEMFDMHEVLSGTLTVLD QFMMLRQFCKDQELLNILDRQHQFITSQYNITAECFKTGSEPSQKTATYMMKEDNQTV YGMQPSQPKKPVQSMNDIDDSIISRQMLCAIKAQASMLTMASLEMTNPAVRRVLSAQI QEYVEMAFEIFLYQNKHGYYQVPQLDAQDMEQLRNSFAPAQGQMPPTQGGMGQQGLH* " gene complement(990612..991265) /gene="yhcQ" /locus_tag="BSU_09180" /old_locus_tag="BSU09180" downshifts complement(990629) /Source="Nicolas_upshifts" /id="D474" /incds=0 /nref=15 /ntot=57 /MaxReadThrough="4.13099" /MaxDrop="4.95733" /score="8.67086892" /energy="-12.9" /TU="U718" /idTUdmin="U718" /TUdmin="-546" /isTUend="FALSE" promotor_-10 complement(991296..991307) /Source="Nicolas_upshift_promotors" /id="U718" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=828 /SigmaFactorBS="acagacagcatataattcctttcaggcttcTGCATAAtacac ggcagactgACACAAAATACAgctgatctgaaaaaaaaggaggaattcggtttggatc a" /listShort="yhcQ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(991298) /Source="Nicolas_upshifts" /id="U718" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=828 /SigmaFactorBS="acagacagcatataattcctttcaggcttcTGCATAAtacac ggcagactgACACAAAATACAgctgatctgaaaaaaaaggaggaattcggtttggatc a" /listShort="yhcQ" /GFF_Attribute="listLong" promotor_-35 complement(991322..991328) /Source="Nicolas_upshift_promotors" /id="U718" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=828 /SigmaFactorBS="acagacagcatataattcctttcaggcttcTGCATAAtacac ggcagactgACACAAAATACAgctgatctgaaaaaaaaggaggaattcggtttggatc a" /listShort="yhcQ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 991337..991345 /Source="Nicolas_upshift_promotors" /id="U719" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=543 /SigmaFactorBS="tctgccgtgtattatgcagaagcctgAAAGGAATTatatgct gtcTGTCGAAATGATAAGCAGAcaaaatcgttgtcattatgtgtataagggaggaaat a" /listShort="yhcR, yhcS" /GFF_Attribute="listLong" /label="promotor_-35" CDS 991348..995001 /gene="mncR" /locus_tag="BSU_09190" /old_locus_tag="BSU09190" /EC_number="3.1.-.-" /function="16.11: Scavenge (Catabolism)" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:15292138, 21800427, 22020651" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15292138, 21800427, 22020651; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="non specific extracellular Ca2+-dependent endonuclease cleaving RNA and DNA" /protein_id="NP_388800.1" /db_xref="EnsemblGenomes-Gn:BSU09190" /db_xref="EnsemblGenomes-Tr:CAB12747" /db_xref="GOA:P54602" /db_xref="InterPro:IPR004843" /db_xref="InterPro:IPR006146" /db_xref="InterPro:IPR006179" /db_xref="InterPro:IPR008334" /db_xref="InterPro:IPR012340" /db_xref="InterPro:IPR016071" /db_xref="InterPro:IPR019948" /db_xref="InterPro:IPR029052" /db_xref="InterPro:IPR035437" /db_xref="InterPro:IPR035451" /db_xref="InterPro:IPR036907" /db_xref="SubtiList:BG11596" /db_xref="UniProtKB/Swiss-Prot:P54602" /translation="MLSVEMISRQNRCHYVYKGGNMMRRILHIVLITALMFLNVMYTF EAVKAAEPQQPISIEKAIQQKEGQALVEGYAVGQAVSPQHYKLTSPFSNDYNVALADR KNKTSPEHILPVQIPSAFRSQFGLQTNPLLLGKKITVQGKLENYFNTTGLKNVQSMNV TDDTKTPPAEQQVTINEARGRLNEEVTIKGIITADQNAIGGGKLSTFLQDETGGINIY SPSPEQFPELKEGMDVTVTGKITSYQGLKEIVPNSSGIKINQSNQSLPAPKHLTINEL INGSLGDQYEGRLVKLTAFVSSIPSSPAGGGYNVTMIDDDHHAMTLRVMNETGVINEL DEGKWYEFTGVLSRYQTFQLLPRKSADLKLLEEQPAPPSAEGEYEGIVDRVVDGDTIH LKSPVLGTTKIRFVNVDAPETYHTPKNDADENQLRFGKKASDYLKTVLSPGDKITVKV GSEAKDSYGRLLGQVITESGSNVNLELVKNGYAPTYFIWPVDNEEDYQQFQAAVAAAK KDQKGIWNENDPLMEMPFEFRAREQGKGLTRYVGDSSNKTYVQPADWKKIAVENRIFF ASASEAESAGYKKRQTAPQEHVPLRILSMNDLHGKIDQQYELDLDGNGTVDGTFGRMD YAAAYLKEKKAEKKNSLIVHAGDMIGGSSPVSSLLQDEPTVELMEDIGFDVGTVGNHE FDEGTDELLRILNGGDHPKGTSGYDGQNFPLVCANCKMKSTGEPFLPAYDIINVEGVP VAFIGVVTQSAAGMVMPEGIKNIEFTDEATAVNKAAEELKKKGVKAIAVLAHMSAEQN GNAITGESADLANKTDSEIDVIFAAHNHQVVNGEVNGKLIVQAFEYGKAIGVVDVEID KTTKDIVKKSAEIVYVDQSKIEPDVSASAILKKYETIAEPIISEVVGEAAVDMEGGYS NDGDTPLGNLIADGMRAAMKTDFALMNGGGIREALKKGPITWGDLYNIQPFGNVLTKL EIKGKDLREIINAQISPVFGPDYSISGFTYTWDKETGKAVDMKMADGTEIQPDATYTL TVNNFMATATGAKYQPIGLLGKNPVTGPEDLEATVEYVKSFDEPIAYTKEGRIKLAEA SDIEDPVTEDPITEEPGDDPGTEDPIKEDPRPGEDLPDIKETPGTAPVHQLPPSAISR FNEIPINNTKTADTANSISTLPLQTETAESGSDHQLPDTSAGYYNFMVIGAAVTLSGT YLYVRRKRSASRT*" gene 991348..995001 /gene="mncR" /locus_tag="BSU_09190" /old_locus_tag="BSU09190" promotor_-10 991356..991374 /Source="Nicolas_upshift_promotors" /id="U719" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=543 /SigmaFactorBS="tctgccgtgtattatgcagaagcctgAAAGGAATTatatgct gtcTGTCGAAATGATAAGCAGAcaaaatcgttgtcattatgtgtataagggaggaaat a" /listShort="yhcR, yhcS" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 991371 /Source="Nicolas_upshifts" /id="U719" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=543 /SigmaFactorBS="tctgccgtgtattatgcagaagcctgAAAGGAATTatatgct gtcTGTCGAAATGATAAGCAGAcaaaatcgttgtcattatgtgtataagggaggaaat a" /listShort="yhcR, yhcS" /GFF_Attribute="listLong" CDS 994998..995594 /gene="srtA" /locus_tag="BSU_09200" /old_locus_tag="BSU09200" /EC_number="3.4.22.70" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12823805, 21800427, 22020651, 25038633" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12823805, 21800427, 22020651, 25038633; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="sortase A" /protein_id="NP_388801.1" /db_xref="EnsemblGenomes-Gn:BSU09200" /db_xref="EnsemblGenomes-Tr:CAB12748" /db_xref="GOA:P54603" /db_xref="InterPro:IPR005754" /db_xref="InterPro:IPR023365" /db_xref="SubtiList:BG11597" /db_xref="UniProtKB/Swiss-Prot:P54603" /translation="MKKVIPLFIIAAGLVIAGYGGFKLIDTNTKTEQTLKEAKLAAKK PQEASGTKNSTDQAKNKASFKPETGQASGILEIPKINAELPIVEGTDADDLEKGVGHY KDSYYPDENGQIVLSGHRDTVFRRTGELEKGDQLRLLLSYGEFTYEIVKTKIVDKDDT SIITLQHEKEELILTTCYPFSYVGNAPKRYIIYGKRVT*" gene 994998..995594 /gene="srtA" /locus_tag="BSU_09200" /old_locus_tag="BSU09200" downshifts 995573 /Source="Nicolas_upshifts" /id="D475" /incds=0 /nref=142 /ntot=248 /MaxReadThrough="0.9984" /MaxDrop="5.92245" /score="-4.06268332" /energy="-8.8" /TU="NA" /idTUdmin="U719" /TUdmin=0 /isTUend="TRUE" CDS complement(995624..996532) /gene="yhcT" /locus_tag="BSU_09210" /old_locus_tag="BSU09210" /EC_number="5.4.99.-" /function="16.2: Construct biomass (Anabolism)" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 9814761, 15044829; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative RNA pseudouridine synthase" /protein_id="NP_388802.2" /db_xref="EnsemblGenomes-Gn:BSU09210" /db_xref="EnsemblGenomes-Tr:CAB12749" /db_xref="GOA:P54604" /db_xref="InterPro:IPR002942" /db_xref="InterPro:IPR006145" /db_xref="InterPro:IPR006224" /db_xref="InterPro:IPR006225" /db_xref="InterPro:IPR020103" /db_xref="InterPro:IPR036986" /db_xref="SubtiList:BG11598" /db_xref="UniProtKB/Swiss-Prot:P54604" /translation="MNQKGRGLEILINEKQDGQWLFSVLKTALKASKPVIQDWMSHQQ IKVNHESVLNNMIVKKGDRVFIDLQESEASSVIPEYGELDILFEDNHMLIINKPAGIA THPNEDGQTGTLANLIAYHYQINGETCKVRHVHRLDQDTSGAIVFAKHRLAHAILDQQ LEKKTLKRTYTAIAEGKLRTKKGTINSPIGRDRSHPTRRRVSPGGQTAVTHFKVMASN AKERLSLVELELETGRTHQIRVHLASLGHPLTGDSLYGGGSKLLNRQALHANKVQAVH PITDELIVAEAPFPADMKNLCRTYFS*" gene complement(995624..996532) /gene="yhcT" /locus_tag="BSU_09210" /old_locus_tag="BSU09210" promotor_-35 996588..996596 /Source="Nicolas_upshift_promotors" /id="U721" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.57042957042957" /psig="0.999000999001" /xcortree=2026 /SigmaFactorBS="tttcgaagcggaaggctgctgtttctcataggaaacacttaC CTTAGCTTtcgcgtttttttcTGTGCTATTCTTGAGTAAGActtaggatattcgatgg c" /listShort="yhcU" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(996589..996600) /Source="Nicolas_upshift_promotors" /id="U720" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=803 /SigmaFactorBS="cctttcttgccatcgaatatcctaagtcttactcaAGAATAG cacagaaaaaaacGCGAAAGCTAAGgtaagtgtttcctatgagaaacagcagccttcc g" /listShort="yhcT" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(996595) /Source="Nicolas_upshifts" /id="U720" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=803 /SigmaFactorBS="cctttcttgccatcgaatatcctaagtcttactcaAGAATAG cacagaaaaaaacGCGAAAGCTAAGgtaagtgtttcctatgagaaacagcagccttcc g" /listShort="yhcT" /GFF_Attribute="listLong" S_feature complement(996597..997083) /Source="Nicolas_S_feature" /locus_tag="new_996597_997083_c" /HighExp="S8, dia15, Diami, H2O2, G180, G150, dia5, Paraq, Oxctl, S7" /AntisenseName="yhcU" /AntisenseCor="0.69394173601478304" /AntisenseRegPval="-39.200000000000003" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.958" /TUlongSig="NA" /TUlongPSig="NA" /label="S319" upshifts 996607 /Source="Nicolas_upshifts" /id="U721" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.57042957042957" /psig="0.999000999001" /xcortree=2026 /SigmaFactorBS="tttcgaagcggaaggctgctgtttctcataggaaacacttaC CTTAGCTTtcgcgtttttttcTGTGCTATTCTTGAGTAAGActtaggatattcgatgg c" /listShort="yhcU" /GFF_Attribute="listLong" promotor_-10 996610..996629 /Source="Nicolas_upshift_promotors" /id="U721" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.57042957042957" /psig="0.999000999001" /xcortree=2026 /SigmaFactorBS="tttcgaagcggaaggctgctgtttctcataggaaacacttaC CTTAGCTTtcgcgtttttttcTGTGCTATTCTTGAGTAAGActtaggatattcgatgg c" /listShort="yhcU" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(996614..996620) /Source="Nicolas_upshift_promotors" /id="U720" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=803 /SigmaFactorBS="cctttcttgccatcgaatatcctaagtcttactcaAGAATAG cacagaaaaaaacGCGAAAGCTAAGgtaagtgtttcctatgagaaacagcagccttcc g" /listShort="yhcT" /GFF_Attribute="listLong" /label="promotor_-35" CDS 996643..997038 /gene="yhcU" /locus_tag="BSU_09220" /old_locus_tag="BSU09220" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388803.2" /db_xref="EnsemblGenomes-Gn:BSU09220" /db_xref="EnsemblGenomes-Tr:CAB12750" /db_xref="InterPro:IPR020355" /db_xref="SubtiList:BG11599" /db_xref="UniProtKB/Swiss-Prot:P54605" /translation="MARKVIDVRIVNAATAEQESFIKELSMELIHDVFPLYFSELDIQ RFKKKGVLSLNNHYYQGTLKEAFQIMACLQMIHIILTKPSPHSDLSDQAIFEKNSKML NDFGIYFPFAFSDFQKKTNKAFFGQRRLI*" gene 996643..997038 /gene="yhcU" /locus_tag="BSU_09220" /old_locus_tag="BSU09220" misc_feature complement(997069..997088) /Source="Nicolas_upshift_promotors" /id="U722" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.709290709290709" /psig="0.958041958041958" /xcortree=1819 /SigmaFactorBS="cagacacgagccgtttaaaaagggagttagaggaaaggtttt atgatatgatttcTCTGATACAAAAAGAGCTTTtctaaaaatagaaaagcccttgccg c" /listShort="S319, yhcT" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(997083) /Source="Nicolas_upshifts" /id="U722" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.709290709290709" /psig="0.958041958041958" /xcortree=1819 /SigmaFactorBS="cagacacgagccgtttaaaaagggagttagaggaaaggtttt atgatatgatttcTCTGATACAAAAAGAGCTTTtctaaaaatagaaaagcccttgccg c" /listShort="S319, yhcT" /GFF_Attribute="listLong" promotor_-35 997123..997129 /Source="Nicolas_upshift_promotors" /id="U723" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.99000999000999" /psig="0.99000999000999" /xcortree=842 /SigmaFactorBS="tttgtatcagagaaatcatatcataaaacctttcctctaact cccTTTTTAAacggctcgtgtctGAACATACTAATgattgaaaggggtgctgacaatg a" /listShort="yhcV" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 997138 /Source="Nicolas_upshifts" /id="U723" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.99000999000999" /psig="0.99000999000999" /xcortree=842 /SigmaFactorBS="tttgtatcagagaaatcatatcataaaacctttcctctaact cccTTTTTAAacggctcgtgtctGAACATACTAATgattgaaaggggtgctgacaatg a" /listShort="yhcV" /GFF_Attribute="listLong" promotor_-10 997143..997154 /Source="Nicolas_upshift_promotors" /id="U723" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.99000999000999" /psig="0.99000999000999" /xcortree=842 /SigmaFactorBS="tttgtatcagagaaatcatatcataaaacctttcctctaact cccTTTTTAAacggctcgtgtctGAACATACTAATgattgaaaggggtgctgacaatg a" /listShort="yhcV" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-10 complement(997153..997167) /Source="Nicolas_upshift_promotors" /id="U724" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.99000999000999" /psig="0.002997002997003" /xcortree=708 /SigmaFactorBS="ttcggagaaacggttgccacctgcgttgtcattgtatcttta actgaaCTCATtgtcagcACCCCTTTCAATCATtagtatgttcagacacgagccgttt a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(997167) /Source="Nicolas_upshifts" /id="U724" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.99000999000999" /psig="0.002997002997003" /xcortree=708 /SigmaFactorBS="ttcggagaaacggttgccacctgcgttgtcattgtatcttta actgaaCTCATtgtcagcACCCCTTTCAATCATtagtatgttcagacacgagccgttt a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(997175..997179) /Source="Nicolas_upshift_promotors" /id="U724" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.99000999000999" /psig="0.002997002997003" /xcortree=708 /SigmaFactorBS="ttcggagaaacggttgccacctgcgttgtcattgtatcttta actgaaCTCATtgtcagcACCCCTTTCAATCATtagtatgttcagacacgagccgttt a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 997175..997597 /gene="yhcV" /locus_tag="BSU_09230" /old_locus_tag="BSU09230" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 17322312; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative CBS containing enzyme (sporulation-/ germination-related)" /protein_id="NP_388804.1" /db_xref="EnsemblGenomes-Gn:BSU09230" /db_xref="EnsemblGenomes-Tr:CAB12751" /db_xref="InterPro:IPR000644" /db_xref="SubtiList:BG11600" /db_xref="UniProtKB/Swiss-Prot:P54606" /translation="MSSVKDTMTTQVATVSPNQTIQEAASLMKQHNVGAIPVVEQGVL KGMLTDRDIALRTTAQGRDGQTPVSEVMSTELVSGNPNMSLEDASQLMAQHQIRRLPI VDQNNLVGIVALGDLAVNQMSNESAGSALTNISHQNIH*" gene 997175..997597 /gene="yhcV" /locus_tag="BSU_09230" /old_locus_tag="BSU09230" promotor_no_box complement(997501..997601) /Source="Nicolas_upshift_promotors" /id="U725" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.3996003996004" /psig="0.014985014985015" /xcortree=1493 /SigmaFactorBS="cttattaatgaatgttttggtgagaaatgtttgtcagcgctg atcccgcagactcgttcgacatctgattgactgccaggtctccaagcgcaacgatccc g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts complement(997541) /Source="Nicolas_upshifts" /id="U725" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.3996003996004" /psig="0.014985014985015" /xcortree=1493 /SigmaFactorBS="cttattaatgaatgttttggtgagaaatgtttgtcagcgctg atcccgcagactcgttcgacatctgattgactgccaggtctccaagcgcaacgatccc g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" downshifts 997575 /Source="Nicolas_upshifts" /id="D476" /incds=0 /nref=50 /ntot=61 /MaxReadThrough="2.62549" /MaxDrop="7.03747" /score="-2.59023198" /energy="-12.1" /TU="NA" /idTUdmin="U723" /TUdmin=0 /isTUend="TRUE" downshifts complement(997607) /Source="Nicolas_upshifts" /id="D477" /incds=0 /nref=2 /ntot=10 /MaxReadThrough="0.0992700000000006" /MaxDrop="3.96142" /score="-9.32793172" /energy="-9.1" /TU="NA" /idTUdmin="U724" /TUdmin="-506" /isTUend="FALSE" promotor_-35 997647..997654 /Source="Nicolas_upshift_promotors" /id="U726" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.983016983016983" /psig=1 /xcortree=1997 /SigmaFactorBS="gtgcaggctctttcttcacataaaaccttacTTTTTGAAagc agacttgtttCGGGGTATAGTGAGTGTATAcatatgtctcaattcgtactaaaggagt t" /listShort="yhcW, yhcX, yhzG" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 997668..997687 /Source="Nicolas_upshift_promotors" /id="U726" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.983016983016983" /psig=1 /xcortree=1997 /SigmaFactorBS="gtgcaggctctttcttcacataaaaccttacTTTTTGAAagc agacttgtttCGGGGTATAGTGAGTGTATAcatatgtctcaattcgtactaaaggagt t" /listShort="yhcW, yhcX, yhzG" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 997676 /Source="Nicolas_upshifts" /id="U726" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.983016983016983" /psig=1 /xcortree=1997 /SigmaFactorBS="gtgcaggctctttcttcacataaaaccttacTTTTTGAAagc agacttgtttCGGGGTATAGTGAGTGTATAcatatgtctcaattcgtactaaaggagt t" /listShort="yhcW, yhcX, yhzG" /GFF_Attribute="listLong" CDS 997724..998386 /gene="glpW" /locus_tag="BSU_09240" /old_locus_tag="BSU09240" /EC_number="3.1.3.18" /EC_number="3.1.3.68" /EC_number="3.1.3.-" /function="16.3: Control" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 16990279, 22353596; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="promiscuous phosphoglycolate phosphatase / glycerol-3-phosphate phosphatase / 2-deoxyglucose-6-phosphatase" /protein_id="NP_388805.1" /db_xref="EnsemblGenomes-Gn:BSU09240" /db_xref="EnsemblGenomes-Tr:CAB12752" /db_xref="GOA:P54607" /db_xref="InterPro:IPR006439" /db_xref="InterPro:IPR023214" /db_xref="InterPro:IPR036412" /db_xref="SubtiList:BG11601" /db_xref="UniProtKB/Swiss-Prot:P54607" /translation="MIKALIFDFDGLILDTETHEYEVLQEIFEEHGSVLPLSVWGKVI GTAAGFRPFEYLEEQIGKKLNHEELTQLRRERFAKRMESEKARPGVEAYLNAAKDLGL KIGLASSSDYKWVSGHLKQIGLFDDFEVIQTADDVEEVKPNPELYLLAAKNLGVSPAE CLAFEDSVNGSIAAKRAGMKCVIVPNKVTGTLMFEDYDHRLESMAEMELALLLDHLNS QN*" gene 997724..998386 /gene="glpW" /locus_tag="BSU_09240" /old_locus_tag="BSU09240" CDS 998402..999943 /gene="yhcX" /locus_tag="BSU_09250" /old_locus_tag="BSU09250" /EC_number="3.5.-.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 26337367, 26808445, 17555270; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative amidohydrolase" /protein_id="NP_388806.2" /db_xref="EnsemblGenomes-Gn:BSU09250" /db_xref="EnsemblGenomes-Tr:CAB12753" /db_xref="GOA:P54608" /db_xref="InterPro:IPR000182" /db_xref="InterPro:IPR001110" /db_xref="InterPro:IPR003010" /db_xref="InterPro:IPR016181" /db_xref="InterPro:IPR036526" /db_xref="SubtiList:BG11602" /db_xref="UniProtKB/Swiss-Prot:P54608" /translation="MSEKLDLTRFEKKMVIRNIEEKDIDKIIDLQKDCFPGMEPWKRE HLISHLEHFPEGQFCAEFEGEIIGSCSSLLINFDEYDDRHTWQDITDDGYITNHNPDG LNMYGIEVMVHPKYRRMKIGHRLYEARKDLARRLNLKSIIIGGRIPNYHKYAEEMTAR EYVEQVTRHQIYDPVLSFQLMNGFTLMRINPNYLPDDTASIKYATLMEWNNVDYLPQQ TKRYYKSAFPVRICVIQYEMKKIYSFEEFANQVEYYVDVASDARSDFAVFPEIFTTQL MSFLEERSPSLAVQRITEYTEDYISLFTDLAVKYNVNIIGGSHFVEEEGKIYNIAYLF RRDGTIEKQYKLHITPNERKWWGISAGDQVRVFDTDCGKIAIQICYDIEFPELARIAA DKGAKIIFTPFCTEDRQGYLRVRYCSQARAVENQIYTVISGTVGNLPQTENMDIQYAQ SGIFAPSDFEFARDGIVGETNPNIEMVVIGDVDLEILRRQRQNGTVRQLKDRRRDIYH IQYKK*" gene 998402..999943 /gene="yhcX" /locus_tag="BSU_09250" /old_locus_tag="BSU09250" downshifts 999926 /Source="Nicolas_upshifts" /id="D478" /incds=0 /nref=57 /ntot=238 /MaxReadThrough="4.24486" /MaxDrop="5.06754" /score="24.7413026" /energy="-10.5" /TU="U726" /idTUdmin="U726" /TUdmin="-224" /isTUend="FALSE" CDS 1000027..1000218 /gene="yhzG" /locus_tag="BSU_09259" /old_locus_tag="BSU09259" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /pseudo /codon_start=1 /transl_table=11 /product="hypothetical protein" /db_xref="PSEUDO:CAX52585.1" /translation="MYSGCALWSFCIFAISYIIQKTARLHIAIAMAVQVVSSATFIST MLSIVTLPVLLWKLHPLSS*" gene 1000027..1000218 /gene="yhzG" /locus_tag="BSU_09259" /old_locus_tag="BSU09259" /pseudo promotor_-35 1000249..1000256 /Source="Nicolas_upshift_promotors" /id="U727" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.923076923076923" /psig=1 /xcortree=333 /SigmaFactorBS="aggggatgttttattatttacgcggttTATTGACTctgaccc ggtctggCTTTATATTGAAGGCAGGGAaatcatcaccaagacatcacataaagagaag g" /listShort="S320, yhxA, glpP, S321, glpF, glpK" /listLong="S322, glpD, S323, pgcA" /label="promotor_-35" promotor_-10 1000271..1000290 /Source="Nicolas_upshift_promotors" /id="U727" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.923076923076923" /psig=1 /xcortree=333 /SigmaFactorBS="aggggatgttttattatttacgcggttTATTGACTctgaccc ggtctggCTTTATATTGAAGGCAGGGAaatcatcaccaagacatcacataaagagaag g" /listShort="S320, yhxA, glpP, S321, glpF, glpK" /listLong="S322, glpD, S323, pgcA" /label="promotor_-10" S_feature 1000282..1000363 /Source="Nicolas_S_feature" /locus_tag="new_1000282_1000363" /HighExp="M40t90, M0t90, T0.30H, LBGstat, BC, Lbstat, M9-stat, Lbtran, T1.0H, T1.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S320" upshifts 1000282 /Source="Nicolas_upshifts" /id="U727" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.923076923076923" /psig=1 /xcortree=333 /SigmaFactorBS="aggggatgttttattatttacgcggttTATTGACTctgaccc ggtctggCTTTATATTGAAGGCAGGGAaatcatcaccaagacatcacataaagagaag g" /listShort="S320, yhxA, glpP, S321, glpF, glpK" /listLong="S322, glpD, S323, pgcA" CDS 1000364..1001716 /gene="yhxA" /locus_tag="BSU_09260" /old_locus_tag="BSU09260" /EC_number="2.6.-.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 11082195, 23610425; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative aminotransferase" /protein_id="NP_388807.2" /db_xref="EnsemblGenomes-Gn:BSU09260" /db_xref="EnsemblGenomes-Tr:CAB12754" /db_xref="GOA:P33189" /db_xref="InterPro:IPR005814" /db_xref="InterPro:IPR015421" /db_xref="InterPro:IPR015422" /db_xref="InterPro:IPR015424" /db_xref="SubtiList:BG10184" /db_xref="UniProtKB/Swiss-Prot:P33189" /translation="MEMMGMENIQQNQGLKQKDEQFVWHAMKGAHQADSLIAQKAEGA WVTDTDGRRYLDAMSGLWCVNIGYGRKELAEAAYEQLKELPYYPLTQSHAPAIQLAEK LNEWLGGDYVIFFSNSGSEANETAFKIARQYHLQNGDHSRYKFISRYRAYHGNTLGAL SATGQAQRKYKYEPLSQGFLHAAPPDIYRNPDDADTLESANEIDRIMTWELSETIAGV IMEPIITGGGILMPPDGYMKKVEDICRRHGALLICDEVICGFGRTGEPFGFMHYGVKP DIITMAKGITSAYLPLSATAVKRDIFEAYQGEAPYDRFRHVNTFGGSPAACALALKNL QIMEDEQLIQRSRDLGAKLLGELQALREHPAVGDVRGKGLLIGIELVKDKLTKEPADA AKVNQVVAACKEKGLIIGKNGDTVAGYNNVIQLAPPFCLTEEDLSFIVKTVKESFQTI *" gene 1000364..1001716 /gene="yhxA" /locus_tag="BSU_09260" /old_locus_tag="BSU09260" CDS 1001744..1002322 /gene="glpP" /locus_tag="BSU_09270" /old_locus_tag="BSU09270" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11929549, 23610425, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11929549, 23610425, 22720735; Product type r: regulator" /codon_start=1 /transl_table=11 /product="sn-glycerol-3-phosphate responding transcriptionantiterminator" /protein_id="NP_388808.1" /db_xref="EnsemblGenomes-Gn:BSU09270" /db_xref="EnsemblGenomes-Tr:CAB12755" /db_xref="GOA:P30300" /db_xref="InterPro:IPR006699" /db_xref="InterPro:IPR035928" /db_xref="SubtiList:BG10185" /db_xref="UniProtKB/Swiss-Prot:P30300" /translation="MMSFHNQPILPAIRNMKQFDEFLNSSFSYGVILDIHLGQLKGVI KEAQKHGKNMMVHVDLIQGIKHDEYGAEFICQDIKPAGIISTRSNVIAKAKQKKIYAI QRLFLLDTSAMEKSMEFIGKHKPDFIEVLPGIVPSLIQEIKEKTGIPIFAGGFIRTEE DVEQALKAGAVAVTTSNTKLWKKYENFLTESD*" gene 1001744..1002322 /gene="glpP" /locus_tag="BSU_09270" /old_locus_tag="BSU09270" promotor_-35 1002317..1002324 /Source="Nicolas_upshift_promotors" /id="U728" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.605394605394605" /psig="0.998001998001998" /xcortree=276 /SigmaFactorBS="aaatatgaaaactttttgacggaaagtGATTGACAccgcttt catgcacTGATACAATTGCACTAGGTTaatacattgtgatggagaactcggagaccac a" /listShort="S321, glpF, glpK, S322, glpD, S323, pgcA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1002339..1002358 /Source="Nicolas_upshift_promotors" /id="U728" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.605394605394605" /psig="0.998001998001998" /xcortree=276 /SigmaFactorBS="aaatatgaaaactttttgacggaaagtGATTGACAccgcttt catgcacTGATACAATTGCACTAGGTTaatacattgtgatggagaactcggagaccac a" /listShort="S321, glpF, glpK, S322, glpD, S323, pgcA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1002350 /Source="Nicolas_upshifts" /id="U728" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.605394605394605" /psig="0.998001998001998" /xcortree=276 /SigmaFactorBS="aaatatgaaaactttttgacggaaagtGATTGACAccgcttt catgcacTGATACAATTGCACTAGGTTaatacattgtgatggagaactcggagaccac a" /listShort="S321, glpF, glpK, S322, glpD, S323, pgcA" /GFF_Attribute="listLong" downshifts 1002365 /Source="Nicolas_upshifts" /id="D479" /incds=0 /nref=3 /ntot=39 /MaxReadThrough="8.20986" /MaxDrop="2.99328" /score="6.07464219" /energy="-10" /TU="U727,U728" /idTUdmin="U726" /TUdmin=2215 /isTUend="FALSE" S_feature 1002410..1002500 /Source="Nicolas_S_feature" /locus_tag="new_1002410_1002500" /HighExp="Diami, T0.30H, G150, Oxctl, Gly, Paraq, dia5, BC, B60, H2O2" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.998, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S321" CDS 1002501..1003325 /gene="glpF" /locus_tag="BSU_09280" /old_locus_tag="BSU09280" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:11929549, 15849754, 16850406" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11929549, 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="glycerol permease" /protein_id="NP_388809.1" /db_xref="EnsemblGenomes-Gn:BSU09280" /db_xref="EnsemblGenomes-Tr:CAB12756" /db_xref="GOA:P18156" /db_xref="InterPro:IPR000425" /db_xref="InterPro:IPR022357" /db_xref="InterPro:IPR023271" /db_xref="SubtiList:BG10186" /db_xref="UniProtKB/Swiss-Prot:P18156" /translation="MTAFWGEVIGTMLLIIFGAGVCAGVNLKKSLSFQSGWIVVVFGW GLGVAMAAYAVGGISGAHLNPALTIALAFVGDFPWKEVPVYIAAQMIGAIIGAVIIYL HYLPHWKSTDDPAAKLGVFSTGPSIPHTFANVLSEVIGTFVLVLGILAIGANQFTEGL NPLIVGFLIVAIGISLGGTTGYAINPARDLGPRIAHAFLPIPGKGSSNWKYAWVPVVG PILGGSFGGVFYNAAFKGHITSSFWIVSVILVVVLLGLYVYTKSHSAKTLSNSKYI*" gene 1002501..1003325 /gene="glpF" /locus_tag="BSU_09280" /old_locus_tag="BSU09280" CDS 1003344..1004834 /gene="glpK" /locus_tag="BSU_09290" /old_locus_tag="BSU09290" /EC_number="2.7.1.30" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 9972264, 10920256, 11929549, 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="glycerol kinase (sn-glycerol-3-phosphate generating)" /protein_id="NP_388810.2" /db_xref="EnsemblGenomes-Gn:BSU09290" /db_xref="EnsemblGenomes-Tr:CAB12757" /db_xref="GOA:P18157" /db_xref="InterPro:IPR000577" /db_xref="InterPro:IPR005999" /db_xref="InterPro:IPR018483" /db_xref="InterPro:IPR018484" /db_xref="InterPro:IPR018485" /db_xref="SubtiList:BG10187" /db_xref="UniProtKB/Swiss-Prot:P18157" /translation="METYILSLDQGTTSSRAILFNKEGKIVHSAQKEFTQYFPHPGWV EHNANEIWGSVLAVIASVISESGISASQIAGIGITNQRETTVVWDKDTGSPVYNAIVW QSRQTSGICEELREKGYNDKFREKTGLLIDPYFSGTKVKWILDNVEGAREKAEKGELL FGTIDTWLIWKMSGGKAHVTDYSNASRTLMFNIYDLKWDDELLDILGVPKSMLPEVKP SSHVYAETVDYHFFGKNIPIAGAAGDQQSALFGQACFEEGMGKNTYGTGCFMLMNTGE KAIKSEHGLLTTIAWGIDGKVNYALEGSIFVAGSAIQWLRDGLRMFQDSSLSESYAEK VDSTDGVYVVPAFVGLGTPYWDSDVRGSVFGLTRGTTKEHFIRATLESLAYQTKDVLD AMEADSNISLKTLRVDGGAVKNNFLMQFQGDLLNVPVERPEINETTALGAAYLAGIAV GFWKDRSEIANQWNLDKRFEPELEEEKRNELYKGWQKAVKAAMAFK*" gene 1003344..1004834 /gene="glpK" /locus_tag="BSU_09290" /old_locus_tag="BSU09290" promotor_-35 1004145..1004151 /Source="Nicolas_upshift_promotors" /id="U729" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=149 /SigmaFactorBS="gcatggggaaaaacacttacggcacaggaTGTTTCAtgctga tgaataccGGGGAAAAAGCAATTAAGTCcgaacatgggcttttgacaacaatcgcttg g" /listShort="S322, glpD, S323" /listLong="pgcA" /label="promotor_-35" promotor_-10 1004166..1004185 /Source="Nicolas_upshift_promotors" /id="U729" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=149 /SigmaFactorBS="gcatggggaaaaacacttacggcacaggaTGTTTCAtgctga tgaataccGGGGAAAAAGCAATTAAGTCcgaacatgggcttttgacaacaatcgcttg g" /listShort="S322, glpD, S323" /listLong="pgcA" /label="promotor_-10" upshifts 1004176 /Source="Nicolas_upshifts" /id="U729" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=149 /SigmaFactorBS="gcatggggaaaaacacttacggcacaggaTGTTTCAtgctga tgaataccGGGGAAAAAGCAATTAAGTCcgaacatgggcttttgacaacaatcgcttg g" /listShort="S322, glpD, S323" /listLong="pgcA" S_feature 1004835..1004923 /Source="Nicolas_S_feature" /locus_tag="new_1004835_1004923" /HighExp="Sw, Etha, Salt, G150, Gly, Diami, T0.30H, B60, BC, Oxctl" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigB, SigA" /TUshortPSig="1, 0.998" /TUlongSig="SigA" /TUlongPSig=1 /label="S322" downshifts 1004880 /Source="Nicolas_upshifts" /id="D480" /incds=0 /nref=34 /ntot=91 /MaxReadThrough="7.63856" /MaxDrop="5.2045" /score="21.1943866" /energy="-28.7" /TU="U728,U729" /idTUdmin="U727" /TUdmin=0 /isTUend="TRUE" promotor_no_box 1004886..1004986 /Source="Nicolas_upshift_promotors" /id="U730" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.566433566433566" /psig="0.154845154845155" /xcortree=277 /SigmaFactorBS="aggagagaccacagcaccaaagtgtaagcatgcactttggct gttgtggtctctttttctatttaccgtgacaacaaggaggaaacgtaatgatgaatca t" /listShort="glpD, S323, pgcA" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts 1004946 /Source="Nicolas_upshifts" /id="U730" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.566433566433566" /psig="0.154845154845155" /xcortree=277 /SigmaFactorBS="aggagagaccacagcaccaaagtgtaagcatgcactttggct gttgtggtctctttttctatttaccgtgacaacaaggaggaaacgtaatgatgaatca t" /listShort="glpD, S323, pgcA" /GFF_Attribute="listLong" CDS 1004975..1006642 /gene="glpD" /locus_tag="BSU_09300" /old_locus_tag="BSU09300" /EC_number="1.1.3.21" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:2127799, 8825777, 9595668, 10633102, 18946204" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 2127799, 8825777, 9595668, 10633102, 18946204; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="sn-glycerol-3-phosphate oxidase (FAD-dependent)" /protein_id="NP_388811.2" /db_xref="EnsemblGenomes-Gn:BSU09300" /db_xref="EnsemblGenomes-Tr:CAB12758" /db_xref="GOA:P18158" /db_xref="InterPro:IPR000447" /db_xref="InterPro:IPR006076" /db_xref="InterPro:IPR031656" /db_xref="InterPro:IPR036188" /db_xref="SubtiList:BG10188" /db_xref="UniProtKB/Swiss-Prot:P18158" /translation="MMNHQFSSLERDRMLTDMTKKTYDLFIIGGGITGAGTALDAASR GMKVALSEMQDFAAGTSSRSTKLVHGGLRYLKQFEVKMVAEVGKERAIVYENGPHVTT PEWMLLPFHKGGTFGSFTTSIGLRVYDFLAGVKKSERRSMLSAKETLQKEPLVKKDGL KGGGYYVEYRTDDARLTIEVMKEAVKFGAEPVNYSKVKELLYEKGKAVGVLIEDVLTK KEYKVYAKKIVNATGPWVDQLREKDHSKNGKHLQHTKGIHLVFDQSVFPLKQAVYFDT PDGRMVFAIPREGKTYVGTTDTVYKEALEHPRMTTEDRDYVIKSINYMFPELNITAND IESSWAGLRPLIHEEGKDPSEISRKDEIWTSDSGLITIAGGKLTGYRKMAEHIVDLVR DRLKEEGEKDFGPCKTKNMPISGGHVGGSKNLMSFVTAKTKEGIAAGLSEKDAKQLAI RYGSNVDRVFDRVEALKDEAAKRNIPVHILAEAEYSIEEEMTATPADFFVRRTGRLFF DINWVRTYKDAVIDFMSERFQWDEQAKNKHTENLNKLLHDAVVPLEQ*" gene 1004975..1006642 /gene="glpD" /locus_tag="BSU_09300" /old_locus_tag="BSU09300" promotor_-35 1006404..1006409 /Source="Nicolas_upshift_promotors" /id="U731" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.995004995004995" /psig="0.995004995004995" /xcortree=1176 /SigmaFactorBS="aaagatgaggccgcgaaacgcaacattccggTTCATAttctt gctgaggcaGAATACAGTATAGAAGAAGagatgactgcaacccctgctgacttctttg t" /listShort="S323" /listLong="pgcA" /label="promotor_-35" promotor_-10 1006424..1006442 /Source="Nicolas_upshift_promotors" /id="U731" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.995004995004995" /psig="0.995004995004995" /xcortree=1176 /SigmaFactorBS="aaagatgaggccgcgaaacgcaacattccggTTCATAttctt gctgaggcaGAATACAGTATAGAAGAAGagatgactgcaacccctgctgacttctttg t" /listShort="S323" /listLong="pgcA" /label="promotor_-10" upshifts 1006433 /Source="Nicolas_upshifts" /id="U731" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.995004995004995" /psig="0.995004995004995" /xcortree=1176 /SigmaFactorBS="aaagatgaggccgcgaaacgcaacattccggTTCATAttctt gctgaggcaGAATACAGTATAGAAGAAGagatgactgcaacccctgctgacttctttg t" /listShort="S323" /listLong="pgcA" promotor_-35 1006487..1006493 /Source="Nicolas_upshift_promotors" /id="U732" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=255 /SigmaFactorBS="actgcaacccctgctgacttctttgtccgcagaacgggaCGT TTATtttttgatatcaattGGGTAAGAACATATAAAGAtgccgttattgattttatga g" /listShort="S323, pgcA, S324, yhcY, yhcZ, yhdA" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1006508 /Source="Nicolas_upshifts" /id="U732" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=255 /SigmaFactorBS="actgcaacccctgctgacttctttgtccgcagaacgggaCGT TTATtttttgatatcaattGGGTAAGAACATATAAAGAtgccgttattgattttatga g" /listShort="S323, pgcA, S324, yhcY, yhcZ, yhdA" /GFF_Attribute="listLong" promotor_-10 1006509..1006527 /Source="Nicolas_upshift_promotors" /id="U732" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=255 /SigmaFactorBS="actgcaacccctgctgacttctttgtccgcagaacgggaCGT TTATtttttgatatcaattGGGTAAGAACATATAAAGAtgccgttattgattttatga g" /listShort="S323, pgcA, S324, yhcY, yhcZ, yhdA" /GFF_Attribute="listLong" /label="promotor_-10" downshifts 1006610 /Source="Nicolas_upshifts" /id="D481" /incds=0 /nref=13 /ntot=60 /MaxReadThrough="6.57605" /MaxDrop="4.31183" /score="11.5542287" /energy="-11.4" /TU="U728,U729,U730,U731,U732" /idTUdmin="U729" /TUdmin="-118" /isTUend="FALSE" S_feature 1006655..1006728 /Source="Nicolas_S_feature" /locus_tag="new_1006655_1006728" /HighExp="G150, Etha, Oxctl, H2O2, Gly, Diami, Paraq, Salt, B36, BT" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigB, SigEF, Sig-, SigB, SigA" /TUshortPSig="1, 0.995, 0.155, 1, 0.998" /TUlongSig="SigA" /TUlongPSig=1 /label="S323" promotor_-35 1006710..1006717 /Source="Nicolas_upshift_promotors" /id="U733" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.915084915084915" /psig="0.998001998001998" /xcortree=1942 /SigmaFactorBS="atttctttttacgtgccgaaagggggagatctcaggttatCA AGTGACagaggcacccgctTCATATAAAATAATGGCATAagctgatacataggaggac g" /listShort="pgcA, S324, yhcY, yhcZ, yhdA" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1006730 /Source="Nicolas_upshifts" /id="U733" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.915084915084915" /psig="0.998001998001998" /xcortree=1942 /SigmaFactorBS="atttctttttacgtgccgaaagggggagatctcaggttatCA AGTGACagaggcacccgctTCATATAAAATAATGGCATAagctgatacataggaggac g" /listShort="pgcA, S324, yhcY, yhcZ, yhdA" /GFF_Attribute="listLong" promotor_-10 1006731..1006750 /Source="Nicolas_upshift_promotors" /id="U733" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.915084915084915" /psig="0.998001998001998" /xcortree=1942 /SigmaFactorBS="atttctttttacgtgccgaaagggggagatctcaggttatCA AGTGACagaggcacccgctTCATATAAAATAATGGCATAagctgatacataggaggac g" /listShort="pgcA, S324, yhcY, yhcZ, yhdA" /GFF_Attribute="listLong" /label="promotor_-10" CDS 1006774..1008519 /gene="pgcA" /locus_tag="BSU_09310" /old_locus_tag="BSU09310" /EC_number="5.4.2.2" /function="16.13: Shape" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:15640167, 17662947, 24097947, 26735940, 27684739" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15640167, 17662947, 24097947, 26735940, 27684739; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="alpha-phosphoglucomutase" /protein_id="NP_388812.2" /db_xref="EnsemblGenomes-Gn:BSU09310" /db_xref="EnsemblGenomes-Tr:CAB12759" /db_xref="GOA:P18159" /db_xref="InterPro:IPR005841" /db_xref="InterPro:IPR005843" /db_xref="InterPro:IPR005844" /db_xref="InterPro:IPR005845" /db_xref="InterPro:IPR005846" /db_xref="InterPro:IPR016055" /db_xref="InterPro:IPR016066" /db_xref="InterPro:IPR036900" /db_xref="SubtiList:BG10189" /db_xref="UniProtKB/Swiss-Prot:P18159" /translation="MTWRKSYERWKQTEHLDLELKERLIELEGDEQALEDCFYKDLEF GTGGMRGEIGAGTNRMNIYTVRKASAGFAAYISKQGEEAKKRGVVIAYDSRHKSPEFA MEAAKTLATQGIQTYVFDELRPTPELSFAVRQLNAYGGIVVTASHNPPEYNGYKVYGD DGGQLPPKEADIVIEQVNAIENELTITVDEENKLKEKGLIKIIGEDIDKVYTEKLTSI SVHPELSEEVDVKVVFTPLHGTANKPVRRGLEALGYKNVTVVKEQELPDSNFSTVTSP NPEEHAAFEYAIKLGEEQNADILIATDPDADRLGIAVKNDQGKYTVLTGNQTGALLLH YLLSEKKKQGILPDNGVVLKTIVTSEIGRAVASSFGLDTIDTLTGFKFIGEKIKEYEA SGQYTFQFGYEESYGYLIGDFARDKDAIQAALLAVEVCAFYKKQGMSLYEALINLFNE YGFYREGLKSLTLKGKQGAEQIEAILASFRQNPPQKMAGKQVVTAEDYAVSKRTLLTE SKEEAIDLPKSNVLKYFLEDGSWFCLRPSGTEPKVKFYFAVKGSSLEDSEKRLAVLSE DVMKTVDEIVESTAK*" gene 1006774..1008519 /gene="pgcA" /locus_tag="BSU_09310" /old_locus_tag="BSU09310" downshifts 1008508 /Source="Nicolas_upshifts" /id="D482" /incds=0 /nref=227 /ntot=264 /MaxReadThrough="4.80136" /MaxDrop="5.89896" /score="26.7163878" /energy="-13" /TU="U732,U733" /idTUdmin="U728" /TUdmin="-6" /isTUend="TRUE" S_feature 1008553..1008622 /Source="Nicolas_S_feature" /locus_tag="new_1008553_1008622" /HighExp="Etha, H2O2, B36, dia15, Paraq, G150, LoTm, S8, Oxctl, Heat" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigB" /TUshortPSig="0.998, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S324" misc_feature 1008624..1008643 /Source="Nicolas_upshift_promotors" /id="U734" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.62037962037962" /psig="0.998001998001998" /xcortree=3137 /SigmaFactorBS="tttctcatccaaaagtctgaaagaaaatcatcctacaagtga agcaatgaaatacaaaaaACTGGTATAATCTTAAATACaagatcaatgccggagtgag a" /listShort="yhcY, yhcZ, yhdA" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 1008624 /Source="Nicolas_upshifts" /id="U734" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.62037962037962" /psig="0.998001998001998" /xcortree=3137 /SigmaFactorBS="tttctcatccaaaagtctgaaagaaaatcatcctacaagtga agcaatgaaatacaaaaaACTGGTATAATCTTAAATACaagatcaatgccggagtgag a" /listShort="yhcY, yhcZ, yhdA" /GFF_Attribute="listLong" CDS 1008668..1009807 /gene="yhcY" /locus_tag="BSU_09320" /old_locus_tag="BSU09320" /function="16.3: Control" /function="16.12: Sense" /experiment="publication(s) with functional evidences, PMID:11717295, 16816187, 16267314, 20639339, 21335452" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11717295, 16816187, 16267314, 20639339, 21335452; Product type rc: receptor" /codon_start=1 /transl_table=11 /product="two-component sensor histidine kinase [YhcZ]" /protein_id="NP_388813.1" /db_xref="EnsemblGenomes-Gn:BSU09320" /db_xref="EnsemblGenomes-Tr:CAB12760" /db_xref="GOA:O07527" /db_xref="InterPro:IPR003018" /db_xref="InterPro:IPR003594" /db_xref="InterPro:IPR011712" /db_xref="InterPro:IPR029016" /db_xref="InterPro:IPR036890" /db_xref="SubtiList:BG13005" /db_xref="UniProtKB/Swiss-Prot:O07527" /translation="MSKTRMEKLKTLKTIAETLNQGHDIKATLDEVLKELLSLTNLQS GWIFLIEEDGSYTLAADAYLPPALSRKEKVLMCEGECYCLTKFNNGGLRKAANIMNCK RIESAENLHCFDTEGITHHATVPLEDGDRRFGLLNVAAAGKTMFDEEELHLLESVAFQ IGTAIQRMRLSEYQQKNALLMERNRLAQELHDSVNQMLFSVSLTAKAAKTLTKDENLQ QMIDFIQNLSQDALAEMKALIWQLRPGGLEKGLAEAIKSYGALIGLKIIFTQKGCPVL TDEQEHMLWRVVQEALNNCKKHAGTDTAYVSLTASLCHAELDIIDHGAGFRYEAHAGL PSLGIKGMKERAEKAGAKFWIESALGTGTKLSIRLPLKSRKGGAV*" gene 1008668..1009807 /gene="yhcY" /locus_tag="BSU_09320" /old_locus_tag="BSU09320" CDS 1009804..1010448 /gene="yhcZ" /locus_tag="BSU_09330" /old_locus_tag="BSU09330" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11717295, 16816187, 16267314, 20639339, 21335452" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11717295, 16816187, 16267314, 20639339, 21335452; Product type r: regulator" /codon_start=1 /transl_table=11 /product="two-component response regulator [YhcY]" /protein_id="NP_388814.1" /db_xref="EnsemblGenomes-Gn:BSU09330" /db_xref="EnsemblGenomes-Tr:CAB12761" /db_xref="GOA:O07528" /db_xref="InterPro:IPR000792" /db_xref="InterPro:IPR001789" /db_xref="InterPro:IPR011006" /db_xref="InterPro:IPR016032" /db_xref="InterPro:IPR036388" /db_xref="SubtiList:BG13006" /db_xref="UniProtKB/Swiss-Prot:O07528" /translation="MKIVIADDHHVVRKGLRFFFATQDDIEVVGEAATGLEALRVIEE TKPDLVLMDLSMPEMDGIQAIKKAIQQFPDTNIIVLTSYSDQEHVIPALQAGAKAYQL KDTEPEELVKTRQVHGGEYKLSTAIMPHVLTHMKNQHDPEKEKYYQLTRREKDVLTEI ANGKSNKEIAAALFISEKTVKTHVSNLLAKLEVADRTQAALFAVKYNLNGEISK*" gene 1009804..1010448 /gene="yhcZ" /locus_tag="BSU_09330" /old_locus_tag="BSU09330" CDS 1010445..1010969 /gene="azr" /locus_tag="BSU_09340" /old_locus_tag="BSU09340" /EC_number="1.7.1.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 15184374, 16816187, 20639339; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="oxidoreductase, NAD(P)H-FMN and ferric iron reductase (azoreductase)" /protein_id="NP_388815.1" /db_xref="EnsemblGenomes-Gn:BSU09340" /db_xref="EnsemblGenomes-Tr:CAB12762" /db_xref="GOA:O07529" /db_xref="InterPro:IPR005025" /db_xref="InterPro:IPR029039" /db_xref="PDB:1NNI" /db_xref="PDB:2GSW" /db_xref="PDB:3GFQ" /db_xref="PDB:3GFR" /db_xref="PDB:3GFS" /db_xref="SubtiList:BG13007" /db_xref="UniProtKB/Swiss-Prot:O07529" /translation="MNMLVINGTPRKHGRTRIAASYIAALYHTDLIDLSEFVLPVFNG EAEQSELLKVQELKQRVTKADAIVLLSPEYHSGMSGALKNALDFLSSEQFKYKPVALL AVAGGGKGGINALNNMRTVMRGVYANVIPKQLVLDPVHIDVENATVAENIKESIKELV EELSMFAKAGNPGV*" gene 1010445..1010969 /gene="azr" /locus_tag="BSU_09340" /old_locus_tag="BSU09340" downshifts 1010934 /Source="Nicolas_upshifts" /id="D483" /incds=0 /nref=72 /ntot=215 /MaxReadThrough="2.90096" /MaxDrop="4.78561" /score="27.1269177" /energy="-17.2" /TU="NA" /idTUdmin="U734" /TUdmin=0 /isTUend="TRUE" CDS complement(1010984..1011226) /gene="yhdB" /locus_tag="BSU_09350" /old_locus_tag="BSU09350" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388816.1" /db_xref="EnsemblGenomes-Gn:BSU09350" /db_xref="EnsemblGenomes-Tr:CAB12763" /db_xref="InterPro:IPR025431" /db_xref="SubtiList:BG13008" /db_xref="UniProtKB/Swiss-Prot:O07530" /translation="MDYADYDKALYYTHRSQWDNLLILMVRTEDDLLSKRIEHFLHAY HFEQDYAVLEKMLYSLLRYIDHATELTYEDQIALLT*" gene complement(1010984..1011226) /gene="yhdB" /locus_tag="BSU_09350" /old_locus_tag="BSU09350" downshifts complement(1011005) /Source="Nicolas_upshifts" /id="D484" /incds=0 /nref=39 /ntot=84 /MaxReadThrough="-0.0235599999999998" /MaxDrop="7.78706" /score="12.0066876" /energy="-17.2" /TU="NA" /idTUdmin="U735" /TUdmin="-17" /isTUend="TRUE" promotor_-10 complement(1011262..1011273) /Source="Nicolas_upshift_promotors" /id="U735" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.556443556443556" /psig="0.556443556443556" /xcortree=833 /SigmaFactorBS="attgctacccctttactgacgcagacggcaagttttgccCCG TCAATaacagaggatgcgGCATAAACTAATcatgaacttctcacccaagaaaggagaa g" /listShort="yhdB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1011273) /Source="Nicolas_upshifts" /id="U735" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.556443556443556" /psig="0.556443556443556" /xcortree=833 /SigmaFactorBS="attgctacccctttactgacgcagacggcaagttttgccCCG TCAATaacagaggatgcgGCATAAACTAATcatgaacttctcacccaagaaaggagaa g" /listShort="yhdB" /GFF_Attribute="listLong" promotor_-35 complement(1011287..1011294) /Source="Nicolas_upshift_promotors" /id="U735" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.556443556443556" /psig="0.556443556443556" /xcortree=833 /SigmaFactorBS="attgctacccctttactgacgcagacggcaagttttgccCCG TCAATaacagaggatgcgGCATAAACTAATcatgaacttctcacccaagaaaggagaa g" /listShort="yhdB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1011361..1011367 /Source="Nicolas_upshift_promotors" /id="U736" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=929 /SigmaFactorBS="aatatgagggagacataaaatcaaaatgccTGAATGAagata tcgcttttGGTAAACCTATGagggaatatattctgggtacaggagactgaaaaaatga a" /listShort="yhdC, S325" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1011381..1011392 /Source="Nicolas_upshift_promotors" /id="U736" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=929 /SigmaFactorBS="aatatgagggagacataaaatcaaaatgccTGAATGAagata tcgcttttGGTAAACCTATGagggaatatattctgggtacaggagactgaaaaaatga a" /listShort="yhdC, S325" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1011391 /Source="Nicolas_upshifts" /id="U736" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=929 /SigmaFactorBS="aatatgagggagacataaaatcaaaatgccTGAATGAagata tcgcttttGGTAAACCTATGagggaatatattctgggtacaggagactgaaaaaatga a" /listShort="yhdC, S325" /GFF_Attribute="listLong" CDS 1011427..1011750 /gene="yhdC" /locus_tag="BSU_09360" /old_locus_tag="BSU09360" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative exported protein" /protein_id="NP_388817.1" /db_xref="EnsemblGenomes-Gn:BSU09360" /db_xref="EnsemblGenomes-Tr:CAB12764" /db_xref="InterPro:IPR024987" /db_xref="SubtiList:BG13009" /db_xref="UniProtKB/Swiss-Prot:O07531" /translation="MKSLPYTIALLFCGLIIVSMAAKGHSTDTDESVQKWEQLAWSKI QDEYKGASFSDYAYMGRTEVNDQQTKDVFRVTVRQKDDTFSVRAEVYFHPVTNHMISI NVFRL*" gene 1011427..1011750 /gene="yhdC" /locus_tag="BSU_09360" /old_locus_tag="BSU09360" S_feature 1011751..1013617 /Source="Nicolas_S_feature" /locus_tag="new_1011751_1013617" /HighExp="S8, S5, S7, S6, S4, C30, Sw, ferm, S3, BC" /AntisenseName="lytF" /AntisenseCor="-0.65564579825076796" /AntisenseRegPval="-33.700000000000003" /CDS_PredictionProba="NA" /TUshortSig="SigGF" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S325" CDS complement(1011792..1013258) /gene="lytF" /locus_tag="BSU_09370" /old_locus_tag="BSU09370" /EC_number="3.4.-.-" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:10206711, 14594841, 18761694, 18761696, 23091053, 25288647" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10206711, 14594841, 18761694, 18761696, 23091053, 25288647; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="gamma-D-glutamate-meso-diaminopimelate muropeptidase (major autolysin, vegetative)" /protein_id="NP_388818.2" /db_xref="EnsemblGenomes-Gn:BSU09370" /db_xref="EnsemblGenomes-Tr:CAB12776" /db_xref="GOA:O07532" /db_xref="InterPro:IPR000064" /db_xref="InterPro:IPR018392" /db_xref="InterPro:IPR036779" /db_xref="SubtiList:BG13010" /db_xref="UniProtKB/Swiss-Prot:O07532" /translation="MKKKLAAGLTASAIVGTTLVVTPAEAATIKVKSGDSLWKLAQTY NTSVAALTSANHLSTTVLSIGQTLTIPGSKSSTSSSTSSSTTKKSGSSVYTVKSGDSL WLIANEFKMTVQELKKLNGLSSDLIRAGQKLKVSGTVSSSSSSSKKSNSNKSSSSSSK SSSNKSSSSSSSTGTYKVQLGDSLWKIANKVNMSIAELKVLNNLKSDTIYVNQVLKTK SSGSDTSSKDNSSKSNQTSATTKYTVKSGDSLWKIANNYNLTVQQIRNINNLKSDVLY VGQVLKLTGKASSGSSSSSSSSSNASSGTTTTYTVKSGDSLWVIAQKFNVTAQQIREK NNLKTDVLQVGQKLVISGKASSSSSSGSSNTTSSTSAKINTMISAAKAQLGVPYRWGG TTPSGFDCSGFIYYVLNKVTSVSRLTAAGYWNTMKSVSQPAVGDFVFFSTYKAGPSHV GIYLGNGEFINANDSGVVISNMNNSYWKQRYLGAKRYF*" gene complement(1011792..1013258) /gene="lytF" /locus_tag="BSU_09370" /old_locus_tag="BSU09370" downshifts complement(1011804) /Source="Nicolas_upshifts" /id="D485" /incds=0 /nref=121 /ntot=216 /MaxReadThrough="2.34529" /MaxDrop="4.33563" /score="24.6732339" /energy="-14.2" /TU="NA" /idTUdmin="U737" /TUdmin="-1" /isTUend="TRUE" downshifts complement(1011891) /Source="Nicolas_upshifts" /id="D486" /incds=1 /nref=1 /ntot=87 /MaxReadThrough="5.73069" /MaxDrop="2.6306" /score="24.6732339" /energy="-14.2" /TU="U737" /idTUdmin="U737" /TUdmin="-88" /isTUend="FALSE" promotor_-10 complement(1013298..1013316) /Source="Nicolas_upshift_promotors" /id="U737" /multdbtbs="SigD" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2806 /SigmaFactorBS="ttgttaagataatttggctatttttataaaaagGCAAAACGa tgagacaaatgtGCCGATATAAAAAAGAAACagcaaatgcaaaatcattgggggaaaa a" /listShort="lytF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1013310) /Source="Nicolas_upshifts" /id="U737" /multdbtbs="SigD" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2806 /SigmaFactorBS="ttgttaagataatttggctatttttataaaaagGCAAAACGa tgagacaaatgtGCCGATATAAAAAAGAAACagcaaatgcaaaatcattgggggaaaa a" /listShort="lytF" /GFF_Attribute="listLong" promotor_-35 complement(1013330..1013337) /Source="Nicolas_upshift_promotors" /id="U737" /multdbtbs="SigD" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2806 /SigmaFactorBS="ttgttaagataatttggctatttttataaaaagGCAAAACGa tgagacaaatgtGCCGATATAAAAAAGAAACagcaaatgcaaaatcattgggggaaaa a" /listShort="lytF" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1013411..1013851) /gene="nsrR" /locus_tag="BSU_09380" /old_locus_tag="BSU09380" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:16885456, 19006327, 21091510, 26887943, 27778474, 28425466, 28439033" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16885456, 19006327, 21091510, 26887943, 27778474, 28425466, 28439033; Product type r: regulator" /codon_start=1 /transl_table=11 /product="NO-dependent activator of the ResDE regulon (Fe-S NO binding site)" /protein_id="NP_388819.1" /db_xref="EnsemblGenomes-Gn:BSU09380" /db_xref="EnsemblGenomes-Tr:CAB12777" /db_xref="GOA:O07573" /db_xref="InterPro:IPR000944" /db_xref="InterPro:IPR030489" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG13011" /db_xref="UniProtKB/Swiss-Prot:O07573" /translation="MKLTNYTDYSLRVLIFLAAERPGELSNIKQIAETYSISKNHLMK VIYRLGQLGYVETIRGRGGGIRLGMDPEDINIGEVVRKTEDDFNIVECFDANKNLCVI SPVCGLKHVLNEALLAYLAVLDKYTLRDLVKNKEDIMKLLKMKE*" gene complement(1013411..1013851) /gene="nsrR" /locus_tag="BSU_09380" /old_locus_tag="BSU09380" downshifts complement(1013441) /Source="Nicolas_upshifts" /id="D487" /incds=0 /nref=205 /ntot=265 /MaxReadThrough="3.11158" /MaxDrop="6.87147" /score="5.96186156" /energy="-7.8" /TU="U739" /idTUdmin="U740" /TUdmin="-10" /isTUend="TRUE" promotor_-35 1013839..1013845 /Source="Nicolas_upshift_promotors" /id="U738" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.904095904095904" /psig="0.904095904095904" /xcortree=408 /SigmaFactorBS="cagaaaaatcaacactcttaatgaataatctgtataatTGGT TAActtcataataagaCCTCAGAATAAGacattttctatatcttatcataatcgattg a" /listShort="S326" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1013859..1013870 /Source="Nicolas_upshift_promotors" /id="U738" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.904095904095904" /psig="0.904095904095904" /xcortree=408 /SigmaFactorBS="cagaaaaatcaacactcttaatgaataatctgtataatTGGT TAActtcataataagaCCTCAGAATAAGacattttctatatcttatcataatcgattg a" /listShort="S326" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1013861..1013971 /Source="Nicolas_S_feature" /locus_tag="new_1013861_1013971" /HighExp="S8, S7, S4, Sw, S5, S6, BC, B60, nit, Pyr" /AntisenseName="ygxB" /AntisenseCor="-0.211236686077168" /AntisenseRegPval="-3.3" /CDS_PredictionProba="NA" /TUshortSig="SigGF" /TUshortPSig="0.904" /TUlongSig="NA" /TUlongPSig="NA" /label="S326" upshifts 1013861 /Source="Nicolas_upshifts" /id="U738" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.904095904095904" /psig="0.904095904095904" /xcortree=408 /SigmaFactorBS="cagaaaaatcaacactcttaatgaataatctgtataatTGGT TAActtcataataagaCCTCAGAATAAGacattttctatatcttatcataatcgattg a" /listShort="S326" /GFF_Attribute="listLong" promotor_-10 complement(1013873..1013892) /Source="Nicolas_upshift_promotors" /id="U739" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.93906093906094" /psig=1 /xcortree=3120 /SigmaFactorBS="catgcacccagctgggtgcatgttttttaattcctttttTTT CATTtttcaatcgatTATGATAAGATATAGAAAATgtcttattctgaggtcttattat g" /listShort="nsrR, lytF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1013889) /Source="Nicolas_upshifts" /id="U739" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.93906093906094" /psig=1 /xcortree=3120 /SigmaFactorBS="catgcacccagctgggtgcatgttttttaattcctttttTTT CATTtttcaatcgatTATGATAAGATATAGAAAATgtcttattctgaggtcttattat g" /listShort="nsrR, lytF" /GFF_Attribute="listLong" promotor_-35 complement(1013904..1013910) /Source="Nicolas_upshift_promotors" /id="U739" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.93906093906094" /psig=1 /xcortree=3120 /SigmaFactorBS="catgcacccagctgggtgcatgttttttaattcctttttTTT CATTtttcaatcgatTATGATAAGATATAGAAAATgtcttattctgaggtcttattat g" /listShort="nsrR, lytF" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 1013930 /Source="Nicolas_upshifts" /id="D488" /incds=0 /nref=10 /ntot=68 /MaxReadThrough="1.05981" /MaxDrop="6.25571" /score="22.5171081" /energy="-11.6" /TU="NA" /idTUdmin="U738" /TUdmin=3 /isTUend="TRUE" CDS complement(1013958..1015616) /gene="ygxB" /locus_tag="BSU_09390" /old_locus_tag="BSU09390" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral membrane protein" /protein_id="NP_388820.1" /db_xref="EnsemblGenomes-Gn:BSU09390" /db_xref="EnsemblGenomes-Tr:CAB12778" /db_xref="GOA:P37874" /db_xref="InterPro:IPR008910" /db_xref="SubtiList:BG10181" /db_xref="UniProtKB/Swiss-Prot:P37874" /translation="MYEPARQKMIVSLGQEKIPPAHSSVCLLDKWVNTHHTTKKERYQ LNVADVFSSYLSKLPNVIIALLVLLIGWAIAKIIEKAVYKGLSKTKIDDKLFAGKKPS RYSSEKVISKVVYFIALIIVFILFFNILHLTTVASPFVSMLSAIAAAIPSVLKAGLIL LLGWAAASVLSFLVKKIGMKLNTSDKLRKWNLVSEGKDIHQAVNTASQIVFYLVLLVF LPGVLSSLKISGISGPFTNMMESVLAFLPKLFAAALIVLIGWLVARLVRDIITNFLAS IGTERFAARMGLSIYLKDTSLSAVIGTIAYVLIMIPVVISALDQLDVAGISKPAVSML NTILNMLPNIMIAIVLVLAGIWAGKWVKSMVSGLLHRAGFDSVLGKMGMEAGTPAKLS LSQVVGMIAQIIVILLFTAEALQIVRLHFLVEIATGIIAYLPNVLVAVFILGLGLYAG ELVRKVLASMIKGQEFKSLAPIAKYTIIALAFFMALDQLGVAATIVNSAFIIVLSGFA LAFGLSFGLGGKDFASRYLSTFERKMQNTEIEKNRKNQNPPNDM*" gene complement(1013958..1015616) /gene="ygxB" /locus_tag="BSU_09390" /old_locus_tag="BSU09390" downshifts complement(1013963) /Source="Nicolas_upshifts" /id="D489" /incds=0 /nref=6 /ntot=40 /MaxReadThrough="8.34865" /MaxDrop="5.55332" /score="-5.46969987" /energy="-14.5" /TU="U740" /idTUdmin="U740" /TUdmin="-532" /isTUend="FALSE" promotor_-10 complement(1015507..1015525) /Source="Nicolas_upshift_promotors" /id="U740" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=189 /SigmaFactorBS="agtctcactcgggcaagaaaaaattcccccggcacattcatc TGTTTGCttattggataagtGGGTAAACACACACCATACtacgaaaaaggagcgatac c" /listShort="nsrR" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1015527) /Source="Nicolas_upshifts" /id="U740" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=189 /SigmaFactorBS="agtctcactcgggcaagaaaaaattcccccggcacattcatc TGTTTGCttattggataagtGGGTAAACACACACCATACtacgaaaaaggagcgatac c" /listShort="nsrR" /GFF_Attribute="listLong" promotor_-35 complement(1015539..1015545) /Source="Nicolas_upshift_promotors" /id="U740" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=189 /SigmaFactorBS="agtctcactcgggcaagaaaaaattcccccggcacattcatc TGTTTGCttattggataagtGGGTAAACACACACCATACtacgaaaaaggagcgatac c" /listShort="nsrR" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1015588..1015593 /Source="Nicolas_upshift_promotors" /id="U741" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1163 /SigmaFactorBS="gaattttttcttgcccgagtgagactATCATCttttgtctgg cgggcTCATACATTATAGATAAGTccaagtaggggggattcggttgaacgcggaggag a" /listShort="spoVR" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1015609..1015627 /Source="Nicolas_upshift_promotors" /id="U741" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1163 /SigmaFactorBS="gaattttttcttgcccgagtgagactATCATCttttgtctgg cgggcTCATACATTATAGATAAGTccaagtaggggggattcggttgaacgcggaggag a" /listShort="spoVR" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1015622 /Source="Nicolas_upshifts" /id="U741" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1163 /SigmaFactorBS="gaattttttcttgcccgagtgagactATCATCttttgtctgg cgggcTCATACATTATAGATAAGTccaagtaggggggattcggttgaacgcggaggag a" /listShort="spoVR" /GFF_Attribute="listLong" CDS 1015647..1017053 /gene="spoVR" /locus_tag="BSU_09400" /old_locus_tag="BSU09400" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:8144469, 14680823" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8144469, 14680823; Product type ph: phenotype" /codon_start=1 /transl_table=11 /product="involved in spore cortex synthesis (stage V sporulation, conserved in non sporulating bacteria" /protein_id="NP_388821.1" /db_xref="EnsemblGenomes-Gn:BSU09400" /db_xref="EnsemblGenomes-Tr:CAB12779" /db_xref="GOA:P37875" /db_xref="InterPro:IPR007390" /db_xref="SubtiList:BG10182" /db_xref="UniProtKB/Swiss-Prot:P37875" /translation="MNAEEKKGLQRAIEEITEIAKGFGLDFYPMRYEICPAEIIYTFG AYGMPTRFSHWSFGKQFHKMKLHYDLGLSKIYELVINSDPCYAFLLDSNSLIQNKLIV AHVLAHCDFFKNNCRFQNTKRDMVESMAATAERIKHYEQVHGIKEVESFLDAILSIQE HIDPSLVRPKLQWSVDDEEEEIEEAATPYDDLWSLDEKKPKKQVKKSKKPFPPRPEKD ILLFIEEHSRELEPWQRDILTMMREEMLYFWPQLETKIMNEGWASYWHQRIIRELDLT SDEAIEFAKLNAGVVQPSKTGINPYYLGLKIFEDIEKRYNNPTEEMKKMGVQPDSGRE KMFEVREIESDISFIRNYLTKELVMREDLYLFQKQGRDYKIIDKQWKSVRDQLVSMRV NGGFPYLTVNDGDYMKNNELYIKHWYEGIELDLKYLEKVLPYLFQLWGRSVHIESVLE DKEVMFSYDGKGVHRRYL*" gene 1015647..1017053 /gene="spoVR" /locus_tag="BSU_09400" /old_locus_tag="BSU09400" downshifts 1017033 /Source="Nicolas_upshifts" /id="D490" /incds=0 /nref=43 /ntot=84 /MaxReadThrough="1.30719" /MaxDrop="6.74388" /score="26.4488835" /energy="-11.5" /TU="NA" /idTUdmin="U741" /TUdmin=0 /isTUend="TRUE" CDS complement(1017083..1018468) /gene="phoA" /locus_tag="BSU_09410" /old_locus_tag="BSU09410" /EC_number="3.1.3.1" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:8830275, 10913081, 12897025, 16491025" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8830275, 10913081, 12897025, 16491025; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="alkaline phosphatase A" /protein_id="NP_388822.2" /db_xref="EnsemblGenomes-Gn:BSU09410" /db_xref="EnsemblGenomes-Tr:CAB12780" /db_xref="GOA:P19406" /db_xref="InterPro:IPR001952" /db_xref="InterPro:IPR017849" /db_xref="InterPro:IPR017850" /db_xref="InterPro:IPR018299" /db_xref="SubtiList:BG10183" /db_xref="UniProtKB/Swiss-Prot:P19406" /translation="MKKMSLFQNMKSKLLPIAAVSVLTAGIFAGAELQQTEKASAKKQ DKAEIRNVIVMIGDGMGTPYIRAYRSMKNNGDTPNNPKLTEFDRNLTGMMMTHPDDPD YNITDSAAAGTALATGVKTYNNAIGVDKNGKKVKSVLEEAKQQGKSTGLVATSEINHA TPAAYGAHNESRKNMDQIANSYMDDKIKGKHKIDVLLGGGKSYFNRKDRNLTKEFKQA GYSYVTTKQALKKNKDQQVLGLFADGGLAKALDRDSKTPSLKDMTVSAIDRLNQNKKG FFLMVEGSQIDWAAHDNDTVGAMSEVKDFEQAYKAAIEFAKKDKHTLVIATADHTTGG FTIGANGEKNWHAEPILSAKKTPEFMAKKISEGKPVKDVLARYANLKVTSEEIKSVEA AAQADKSKGASKAIIKIFNTRSNSGWTSTDHTGEEVPVYAYGPGKEKFRGLINNTDQA NIIFKILKTGK*" gene complement(1017083..1018468) /gene="phoA" /locus_tag="BSU_09410" /old_locus_tag="BSU09410" downshifts complement(1017109) /Source="Nicolas_upshifts" /id="D491" /incds=0 /nref=51 /ntot=178 /MaxReadThrough="1.90638" /MaxDrop="5.795" /score="22.2126775" /energy="-13.2" /TU="NA" /idTUdmin="U742" /TUdmin=0 /isTUend="TRUE" upshifts complement(1018495) /Source="Nicolas_upshifts" /id="U742" /multdbtbs="SigA" /comp="M6" /sig="Sig-" /pcomp="0.94105894105894" /psig="0.035964035964036" /xcortree=8 /SigmaFactorBS="acaaggctttacttattgtttacatgatcaacagccgcaTTT AACAAAGTTtccctaacatgataaacggaatacattaaaggaggcatgaaaaaaatga g" /listShort="phoA" /GFF_Attribute="listLong" S_feature complement(1018497..1020028) /Source="Nicolas_S_feature" /locus_tag="new_1018497_1020028_c" /HighExp="Etha, Salt, B60, Heat, M9-stat, T5.0H, T0.30H, T4.0H, T3.30H, T2.30H" /AntisenseName="lytE" /AntisenseCor="-0.65081062481616203" /AntisenseRegPval="-33.1" /CDS_PredictionProba="NA" /TUshortSig="SigWXY, SigA" /TUshortPSig="0.966, 0.992" /TUlongSig="NA" /TUlongPSig="NA" /label="S327" misc_feature complement(1018505..1018516) /Source="Nicolas_upshift_promotors" /id="U742" /multdbtbs="SigA" /comp="M6" /sig="Sig-" /pcomp="0.94105894105894" /psig="0.035964035964036" /xcortree=8 /SigmaFactorBS="acaaggctttacttattgtttacatgatcaacagccgcaTTT AACAAAGTTtccctaacatgataaacggaatacattaaaggaggcatgaaaaaaatga g" /listShort="phoA" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" promotor_-35 1018624..1018631 /Source="Nicolas_upshift_promotors" /id="U743" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.564435564435564" /psig="0.999000999001" /xcortree=3050 /SigmaFactorBS="ttatttgatgtaaagcattcatttttcagaaaaaTCTTTACC tctctgtctttgCATGATATGTTTGTTTAAATaaaaaaactgcggataaccacagctc t" /listShort="S328, lytE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1018644..1018663 /Source="Nicolas_upshift_promotors" /id="U743" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.564435564435564" /psig="0.999000999001" /xcortree=3050 /SigmaFactorBS="ttatttgatgtaaagcattcatttttcagaaaaaTCTTTACC tctctgtctttgCATGATATGTTTGTTTAAATaaaaaaactgcggataaccacagctc t" /listShort="S328, lytE" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1018650..1018937 /Source="Nicolas_S_feature" /locus_tag="new_1018650_1018937" /HighExp="T-5.40H, Cold, LoTm, T-4.40H, UNK1, T5.0H, GM-0.1, T3.30H, S1, T4.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S328" upshifts 1018650 /Source="Nicolas_upshifts" /id="U743" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.564435564435564" /psig="0.999000999001" /xcortree=3050 /SigmaFactorBS="ttatttgatgtaaagcattcatttttcagaaaaaTCTTTACC tctctgtctttgCATGATATGTTTGTTTAAATaaaaaaactgcggataaccacagctc t" /listShort="S328, lytE" /GFF_Attribute="listLong" promotor_-35 1018900..1018903 /Source="Nicolas_upshift_promotors" /id="U744" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.75924075924076" /psig="0.971028971028971" /xcortree=3027 /SigmaFactorBS="atttgtcacatgaagtcaagaCTATttctgatgggaatcTAT CCTTATAATAGAAATCAataagattaatttaaaaaaagagatacatatatatagagtt a" /listShort="lytE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1018918..1018937 /Source="Nicolas_upshift_promotors" /id="U744" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.75924075924076" /psig="0.971028971028971" /xcortree=3027 /SigmaFactorBS="atttgtcacatgaagtcaagaCTATttctgatgggaatcTAT CCTTATAATAGAAATCAataagattaatttaaaaaaagagatacatatatatagagtt a" /listShort="lytE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1018939 /Source="Nicolas_upshifts" /id="U744" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.75924075924076" /psig="0.971028971028971" /xcortree=3027 /SigmaFactorBS="atttgtcacatgaagtcaagaCTATttctgatgggaatcTAT CCTTATAATAGAAATCAataagattaatttaaaaaaagagatacatatatatagagtt a" /listShort="lytE" /GFF_Attribute="listLong" CDS 1018998..1020002 /gene="lytE" /locus_tag="BSU_09420" /old_locus_tag="BSU09420" /EC_number="3.4.-.-" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:16855244, 16950129, 9457885, 21541672, 22139507, 27002131" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16855244, 16950129, 9457885, 21541672, 22139507, 27002131; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="cell wall dl-endopeptidase; phosphatase-associated protein (major autolysin)" /protein_id="NP_388823.2" /db_xref="EnsemblGenomes-Gn:BSU09420" /db_xref="EnsemblGenomes-Tr:CAB12781" /db_xref="GOA:P54421" /db_xref="InterPro:IPR000064" /db_xref="InterPro:IPR018392" /db_xref="InterPro:IPR036779" /db_xref="SubtiList:BG11406" /db_xref="UniProtKB/Swiss-Prot:P54421" /translation="MKKQIITATTAVVLGSTLFAGAASAQSIKVKKGDTLWDLSRKYD TTISKIKSENHLRSDIIYVGQTLSINGKSTSSKSSSSSSSSSTYKVKSGDSLWKISKK YGMTINELKKLNGLKSDLLRVGQVLKLKGSTSSSSSSSSKVSSSSTSTYKVKSGDSLS KIASKYGTTVSKLKSLNGLKSDVIYVNQVLKVKGTSTSSSKPASSSSSSSSKTSSTSL NVSKLVSDAKALVGTPYKWGGTTTSGFDCSGFIWYVLNKQTSVGRTSTAGYWSSMKSI ASPSVGDFVFFTTYKSGPSHMGIYIGNNSFIHAGSDGVQISSLNNSYWKPRYLGAKRF *" gene 1018998..1020002 /gene="lytE" /locus_tag="BSU_09420" /old_locus_tag="BSU09420" downshifts 1019864 /Source="Nicolas_upshifts" /id="D492" /incds=1 /nref=1 /ntot=117 /MaxReadThrough="6.89938" /MaxDrop="2.1687" /score="26.3320532" /energy="-9.8" /TU="U743,U744" /idTUdmin="U743" /TUdmin="-132" /isTUend="FALSE" downshifts 1019994 /Source="Nicolas_upshifts" /id="D493" /incds=0 /nref=53 /ntot=190 /MaxReadThrough="3.64545" /MaxDrop="6.08377" /score="26.3320532" /energy="-9.8" /TU="U744" /idTUdmin="U743" /TUdmin="-2" /isTUend="TRUE" upshifts complement(1020028) /Source="Nicolas_upshifts" /id="U745" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.966033966033966" /psig="0.966033966033966" /xcortree=1640 /SigmaFactorBS="acattttcatttttaggAGCAACCAAAacgcctgtgctCCGT CTAATGAAAAAAacccgttccaatgaacgggttttctctaaaaattagaatcttttcg c" /listShort="S327, phoA" /GFF_Attribute="listLong" promotor_-10 complement(1020035..1020050) /Source="Nicolas_upshift_promotors" /id="U745" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.966033966033966" /psig="0.966033966033966" /xcortree=1640 /SigmaFactorBS="acattttcatttttaggAGCAACCAAAacgcctgtgctCCGT CTAATGAAAAAAacccgttccaatgaacgggttttctctaaaaattagaatcttttcg c" /listShort="S327, phoA" /GFF_Attribute="listLong" /label="promotor_-10" downshifts 1020040 /Source="Nicolas_upshifts" /id="D494" /incds=0 /nref=1 /ntot=47 /MaxReadThrough="2.99" /MaxDrop="3.76174" /score="26.3320532" /energy="-9.8" /TU="U744" /idTUdmin="U743" /TUdmin=44 /isTUend="FALSE" promotor_-35 complement(1020062..1020071) /Source="Nicolas_upshift_promotors" /id="U745" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.966033966033966" /psig="0.966033966033966" /xcortree=1640 /SigmaFactorBS="acattttcatttttaggAGCAACCAAAacgcctgtgctCCGT CTAATGAAAAAAacccgttccaatgaacgggttttctctaaaaattagaatcttttcg c" /listShort="S327, phoA" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1020073..1020948) /gene="citR" /locus_tag="BSU_09430" /old_locus_tag="BSU09430" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:8045899, 10869065" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8045899, 10869065; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator CitR (LysR family)" /protein_id="NP_388824.2" /db_xref="EnsemblGenomes-Gn:BSU09430" /db_xref="EnsemblGenomes-Tr:CAB12782" /db_xref="GOA:P39127" /db_xref="InterPro:IPR000847" /db_xref="InterPro:IPR005119" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG10853" /db_xref="UniProtKB/Swiss-Prot:P39127" /translation="MDFKWLHTFVTAAKYENFRKTAETLFLSQPTVTVHIKQLEKEIS CKLFERKGRQIQLTDEGRAYLPYALRLLDDYENSMAELHRVRQGYSQTLQLAVSPLIA DTVLPSVMKRYTAMNTETEMAVTIFESAEIASLIKAGEADIGLSCLKVQSSSLSCHCL YKDPVVLVAPPDKRFIEDNEIDAKEVLEQYLLLTHNHPDYWDDLLRQVRMTFPFVRTM KVTQTHITKRFIKEGLGVSFLPLSTVKRELAEKQMIRIPYQSVQLPYAGAYAIALYEN KKEKKFLDFLSHFHF*" gene complement(1020073..1020948) /gene="citR" /locus_tag="BSU_09430" /old_locus_tag="BSU09430" promotor_-35 1021001..1021002 /Source="Nicolas_upshift_promotors" /id="U747" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.424575424575425" /psig="0.995004995004995" /xcortree=3081 /SigmaFactorBS="atatttttaattaattccctttaaaatattgaTTatttttta aatattatATTTACTATAATAACAGAAAaggatagggggaatacaaatggtacattac g" /listShort="citA, yhdF" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(1021014..1021033) /Source="Nicolas_upshift_promotors" /id="U746" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.387612387612388" /psig="0.992007992007992" /xcortree=1894 /SigmaFactorBS="tccctttaatccgtaatgtaccatttgTATTCCccctatcct tttctGTTATTATAGTAAATATAATatttaaaaaataatcaatattttaaagggaatt a" /listShort="citR, S327" /listLong="phoA" /label="promotor_-10" promotor_-10 1021019..1021038 /Source="Nicolas_upshift_promotors" /id="U747" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.424575424575425" /psig="0.995004995004995" /xcortree=3081 /SigmaFactorBS="atatttttaattaattccctttaaaatattgaTTatttttta aatattatATTTACTATAATAACAGAAAaggatagggggaatacaaatggtacattac g" /listShort="citA, yhdF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1021020) /Source="Nicolas_upshifts" /id="U746" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.387612387612388" /psig="0.992007992007992" /xcortree=1894 /SigmaFactorBS="tccctttaatccgtaatgtaccatttgTATTCCccctatcct tttctGTTATTATAGTAAATATAATatttaaaaaataatcaatattttaaagggaatt a" /listShort="citR, S327" /listLong="phoA" upshifts 1021029 /Source="Nicolas_upshifts" /id="U747" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.424575424575425" /psig="0.995004995004995" /xcortree=3081 /SigmaFactorBS="atatttttaattaattccctttaaaatattgaTTatttttta aatattatATTTACTATAATAACAGAAAaggatagggggaatacaaatggtacattac g" /listShort="citA, yhdF" /GFF_Attribute="listLong" promotor_-35 complement(1021048..1021053) /Source="Nicolas_upshift_promotors" /id="U746" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.387612387612388" /psig="0.992007992007992" /xcortree=1894 /SigmaFactorBS="tccctttaatccgtaatgtaccatttgTATTCCccctatcct tttctGTTATTATAGTAAATATAATatttaaaaaataatcaatattttaaagggaatt a" /listShort="citR, S327" /listLong="phoA" /label="promotor_-35" CDS 1021057..1022157 /gene="citA" /locus_tag="BSU_09440" /old_locus_tag="BSU09440" /EC_number="2.3.3.16" /function="16.2: Construct biomass (Anabolism)" /function="16.10: Respire" /experiment="publication(s) with functional evidences, PMID:4211224, 8045898, 8045899" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 4211224, 8045898, 8045899; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="citrate synthase I" /protein_id="NP_388825.2" /db_xref="EnsemblGenomes-Gn:BSU09440" /db_xref="EnsemblGenomes-Tr:CAB12783" /db_xref="GOA:P39119" /db_xref="InterPro:IPR002020" /db_xref="InterPro:IPR016142" /db_xref="InterPro:IPR016143" /db_xref="InterPro:IPR019810" /db_xref="InterPro:IPR024176" /db_xref="InterPro:IPR036969" /db_xref="PDB:2C6X" /db_xref="SubtiList:BG10854" /db_xref="UniProtKB/Swiss-Prot:P39119" /translation="MVHYGLKGITCVETSISHIDGEKGRLIYRGHHAKDIALNHSFEE AAYLILFGKLPSTEELQVFKDKLAAERNLPEHIERLIQSLPNNMDDMSVLRTVVSALG ENTYTFHPKTEEAIRLIAITPSIIAYRKRWTRGEQAIAPSSQYGHVENYYYMLTGEQP SEAKKKALETYMILATEHGMNASTFSARVTLSTESDLVSAVTAALGTMKGPLHGGAPS AVTKMLEDIGEKEHAEAYLKEKLEKGERLMGFGHRVYKTKDPRAEALRQKAEEVAGND RDLDLALHVEAEAIRLLEIYKPGRKLYTNVEFYAAAVMRAIDFDDELFTPTFSASRMV GWCAHVLEQAENNMIFRPSAQYTGAIPEEVLS*" gene 1021057..1022157 /gene="citA" /locus_tag="BSU_09440" /old_locus_tag="BSU09440" promotor_-35 1022168..1022174 /Source="Nicolas_upshift_promotors" /id="U748" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=256 /SigmaFactorBS="attcccgaggaagttctttcataacatattttggCGTTTATt catttctgtcgtgTGGTAACGTTCAGTATCAAccacatgtctaggagtgatgaatgtg a" /listShort="yhdF, S329, ctrA, yhdH" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1022189..1022207 /Source="Nicolas_upshift_promotors" /id="U748" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=256 /SigmaFactorBS="attcccgaggaagttctttcataacatattttggCGTTTATt catttctgtcgtgTGGTAACGTTCAGTATCAAccacatgtctaggagtgatgaatgtg a" /listShort="yhdF, S329, ctrA, yhdH" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1022194 /Source="Nicolas_upshifts" /id="U748" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=256 /SigmaFactorBS="attcccgaggaagttctttcataacatattttggCGTTTATt catttctgtcgtgTGGTAACGTTCAGTATCAAccacatgtctaggagtgatgaatgtg a" /listShort="yhdF, S329, ctrA, yhdH" /GFF_Attribute="listLong" CDS 1022231..1023100 /gene="yhdF" /locus_tag="BSU_09450" /old_locus_tag="BSU09450" /EC_number="1.-.-.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10482513, 18643936; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative NAD(P)-dependent dehydrogenase" /protein_id="NP_388826.1" /db_xref="EnsemblGenomes-Gn:BSU09450" /db_xref="EnsemblGenomes-Tr:CAB12784" /db_xref="GOA:O07575" /db_xref="InterPro:IPR002347" /db_xref="InterPro:IPR020904" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG13012" /db_xref="UniProtKB/Swiss-Prot:O07575" /translation="MNPMDRQTEGQEPQHQDRQPGIESKMNPLPLSEDEDYRGSGKLK GKVAIITGGDSGIGRAAAIAFAKEGADISILYLDEHSDAEETRKRIEKENVRCLLIPG DVGDENHCEQAVQQTVDHFGKLDILVNNAAEQHPQDSILNISTEQLEKTFRTNIFSMF HMTKKALPHLQEGCAIINTTSITAYEGDTALIDYSSTKGAIVSFTRSMAKSLADKGIR VNAVAPGPIWTPLIPATFPEEKVKQHGLDTPMGRPGQPVEHAGAYVLLASDESSYMTG QTIHVNGGRFIST*" gene 1022231..1023100 /gene="yhdF" /locus_tag="BSU_09450" /old_locus_tag="BSU09450" downshifts 1023108 /Source="Nicolas_upshifts" /id="D495" /incds=0 /nref=27 /ntot=130 /MaxReadThrough="8.65426" /MaxDrop="6.48064" /score="18.1511963" /energy="-8.2" /TU="U748" /idTUdmin="U747" /TUdmin=9 /isTUend="TRUE" promotor_-35 1023185..1023188 /Source="Nicolas_upshift_promotors" /id="U749" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.597402597402597" /psig="0.998001998001998" /xcortree=2903 /SigmaFactorBS="tgaaaaatttcaaaataaaaaatttgtcgatttttctaacaa tttTGTTttcatttttgcaatTTTATATATAATATTGAGTAggagaaaggaatgattc g" /listShort="S329, ctrA" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1023200 /Source="Nicolas_upshifts" /id="U749" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.597402597402597" /psig="0.998001998001998" /xcortree=2903 /SigmaFactorBS="tgaaaaatttcaaaataaaaaatttgtcgatttttctaacaa tttTGTTttcatttttgcaatTTTATATATAATATTGAGTAggagaaaggaatgattc g" /listShort="S329, ctrA" /GFF_Attribute="listLong" promotor_-10 1023203..1023222 /Source="Nicolas_upshift_promotors" /id="U749" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.597402597402597" /psig="0.998001998001998" /xcortree=2903 /SigmaFactorBS="tgaaaaatttcaaaataaaaaatttgtcgatttttctaacaa tttTGTTttcatttttgcaatTTTATATATAATATTGAGTAggagaaaggaatgattc g" /listShort="S329, ctrA" /GFF_Attribute="listLong" /label="promotor_-10" misc_feature 1023248..1023267 /Source="Nicolas_upshift_promotors" /id="U750" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.509490509490509" /psig="0.522477522477522" /xcortree=652 /SigmaFactorBS="tttttgcaattttatatataatattgagtaggagaaaggaat gattcgcgaccagTACAAATATAGTAGAAAAAAaagaataatgaccattgttactcat g" /listShort="S329, ctrA" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" S_feature 1023253..1023349 /Source="Nicolas_S_feature" /locus_tag="new_1023253_1023349" /HighExp="Etha, T2.30H, T-0.40H, T2.0H, T1.30H, S1, GM-0.2, T3.0H, T-1.40H, M9-stat" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.27332800000000002" /TUshortSig="SigA, SigA, SigB" /TUshortPSig="0.522, 0.998, 0.994" /TUlongSig="NA" /TUlongPSig="NA" /label="S329" upshifts 1023253 /Source="Nicolas_upshifts" /id="U750" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.509490509490509" /psig="0.522477522477522" /xcortree=652 /SigmaFactorBS="tttttgcaattttatatataatattgagtaggagaaaggaat gattcgcgaccagTACAAATATAGTAGAAAAAAaagaataatgaccattgttactcat g" /listShort="S329, ctrA" /GFF_Attribute="listLong" CDS 1023350..1024747 /gene="bcaP" /locus_tag="BSU_09460" /old_locus_tag="BSU09460" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15849754, 16621821, 16850406, 21097623, 25645558" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15849754, 16621821, 16850406, 21097623, 25645558; Product type t : transporter" /codon_start=1 /transl_table=11 /product="branched-chain amino acid transporter or methylthioribose-degradation metabolite exporter" /protein_id="NP_388827.1" /db_xref="EnsemblGenomes-Gn:BSU09460" /db_xref="EnsemblGenomes-Tr:CAB12785" /db_xref="GOA:O07576" /db_xref="InterPro:IPR002293" /db_xref="InterPro:IPR004758" /db_xref="SubtiList:BG13013" /db_xref="UniProtKB/Swiss-Prot:O07576" /translation="MKGSVFRKKSIQDLIAATSGEKSLKRELGAFDLTLLGIGAIIGT GIFVLTGTGAVTAGPGLTISFVVAALACLFAALSYAEFASSVPVSGSVYTFTYATLGE LMAFIIGWDLILEYMLAVSAVSVGWSGYFQSFLSGLGIHLPVALTAAPGAVKGTFTLF NLPAFVIVMAITYLLYLGIKESKRVNNIMVILKILVVLLFIAVAAVYVKPHNWQPFMP MGFGGVFSAAALVFFAFIGFDAVSSAAEETKNPAKDLPKGIIFSLLVCTILYVTVSAI MTGVIPFAQFAGVDHPVSLVLQSAGQNWVAGIIDIGAVLGMTTVMLVMLYGQTRVMFA MSRDGLVPGSLSKVHPKHKTPYVATWFFGTMSALLGSLVPLDELAKLVNIGTLSAFVL ISVAVIVLRKKQPDLPRAFKCPGVPVIPGLAILFCLFLILNLGWVTIVRFLVWLLIGL VIYFLYSRKHSKLNQ*" gene 1023350..1024747 /gene="bcaP" /locus_tag="BSU_09460" /old_locus_tag="BSU09460" downshifts 1024727 /Source="Nicolas_upshifts" /id="D496" /incds=0 /nref=116 /ntot=188 /MaxReadThrough="3.41176" /MaxDrop="5.29633" /score="5.08283681" /energy="-12.3" /TU="U748,U749" /idTUdmin="U750" /TUdmin=0 /isTUend="TRUE" promotor_-35 1024808..1024812 /Source="Nicolas_upshift_promotors" /id="U751" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.914085914085914" /psig=1 /xcortree=2512 /SigmaFactorBS="ggccgcctcttttctgttcttggcaaatgaatcTATAGaaat gaagacaaaaaTAAGAGATAATATAGGCTGGaaaggaagtgacgtttattgtctgagc a" /listShort="yhdH" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1024828..1024847 /Source="Nicolas_upshift_promotors" /id="U751" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.914085914085914" /psig=1 /xcortree=2512 /SigmaFactorBS="ggccgcctcttttctgttcttggcaaatgaatcTATAGaaat gaagacaaaaaTAAGAGATAATATAGGCTGGaaaggaagtgacgtttattgtctgagc a" /listShort="yhdH" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1024835 /Source="Nicolas_upshifts" /id="U751" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.914085914085914" /psig=1 /xcortree=2512 /SigmaFactorBS="ggccgcctcttttctgttcttggcaaatgaatcTATAGaaat gaagacaaaaaTAAGAGATAATATAGGCTGGaaaggaagtgacgtttattgtctgagc a" /listShort="yhdH" /GFF_Attribute="listLong" CDS 1024865..1026220 /gene="yhdH" /locus_tag="BSU_09470" /old_locus_tag="BSU09470" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406, 17114254; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative sodium-dependent transporter" /protein_id="NP_388828.1" /db_xref="EnsemblGenomes-Gn:BSU09470" /db_xref="EnsemblGenomes-Tr:CAB12786" /db_xref="GOA:O07577" /db_xref="InterPro:IPR000175" /db_xref="SubtiList:BG13014" /db_xref="UniProtKB/Swiss-Prot:O07577" /translation="MSEQKPVQWASKIGFVMAAAGSAIGLGAIWKFPYVAGTNGGGAF FLIFVLFTILLGYPLLVGEFIFGRRNQTNAIDAYKKEAPRSAWFLTGWIGVAACFLVL SFYSVIGGWILLYIVKTASGSLSGLSQAQYGALFASIIQNPVQTLAAQLVFMALTVLV VARGVQKGIERVSAVMMPILFLLFILLVLRSLTLNGAMEGVKFLLVPHFGDLTPESIL FALGQAFFTLTLGVSVMVTYSSYLPKTQNIPRSAASIVLMNIIVTLLAGLAIFPAVFS FGFQPNEGPTLLFTVLPAVFEQLPFGTLFFIGFLVAFLFAALTSAFSMVEIIVATIGK GDEKKRKKLSWTSGLLIFLVGIPCCLSYGVLSDVHLFGKTFFDIADFTVSNVLMPSGA LLISLFIPLKISKSELLAEMRNGSNAGKAFFYTWFYLLRFIVPLAIIIVFLNLIGILS F*" gene 1024865..1026220 /gene="yhdH" /locus_tag="BSU_09470" /old_locus_tag="BSU09470" downshifts 1026201 /Source="Nicolas_upshifts" /id="D497" /incds=0 /nref=184 /ntot=244 /MaxReadThrough="1.73756" /MaxDrop="6.09379" /score="40.1809389" /energy="-14.8" /TU="NA" /idTUdmin="U751" /TUdmin=0 /isTUend="TRUE" CDS complement(1026255..1027664) /gene="yhdI" /locus_tag="BSU_09480" /old_locus_tag="BSU09480" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15223311; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative PLP-dependent transcriptional regulator" /protein_id="NP_388829.1" /db_xref="EnsemblGenomes-Gn:BSU09480" /db_xref="EnsemblGenomes-Tr:CAB12787" /db_xref="GOA:O07578" /db_xref="InterPro:IPR000524" /db_xref="InterPro:IPR004839" /db_xref="InterPro:IPR015421" /db_xref="InterPro:IPR015422" /db_xref="InterPro:IPR015424" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG13015" /db_xref="UniProtKB/Swiss-Prot:O07578" /translation="MDITPFLDKKSKTPLYEQLYTFFKQEISHARITKGTRLPSKRRL SSLLDVSTATIERAYEQLTAEGYVKSKPKIGWFAAEVEPGFPTAPDHFQQSVQPGLHQ KNAPAIDFHQGSVDPTLFPFNAWRKSIVKSLDRYSGSFHTSGDPQGEYELRHMIARFV RLSRGVNCEPGQIIIGAGTTVLLQNLCLSLKPGTKIGFEEPGFHRSRRMFEANHMDVT PICSDAEGVLPDELYRQNPYLMYTTPSHQFPIGTIMTITRRQELLAWAAETNSFIIED DYDGEFRYSGHPIPSLQGLDPNGRVIYLGTFSKSLLPSLRLSFMIVPPELMEPIQNNV QLMKQTVSAHSQLALADFIETGEWQKHINRMRSLYRKKHAVLLEAIRSELGNTVEILG KNSGLHILLRLLFPASEEEAIQAAADHGVTLYPVSPSYIEQTPFTSVLIGYGGLSEED IRLGIQKLKTAWAPLISSY*" gene complement(1026255..1027664) /gene="yhdI" /locus_tag="BSU_09480" /old_locus_tag="BSU09480" promotor_-35 1027713..1027716 /Source="Nicolas_upshift_promotors" /id="U752" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.52047952047952" /psig="0.996003996003996" /xcortree=459 /SigmaFactorBS="tcctttgtagctggcatggtcattttttctgatattggctAT TTggcaaatgccatttATTAGCTATGATCATTGTAAcgaaaggaaaggggattgagaa g" /listShort="yhdJ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1027731..1027750 /Source="Nicolas_upshift_promotors" /id="U752" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.52047952047952" /psig="0.996003996003996" /xcortree=459 /SigmaFactorBS="tcctttgtagctggcatggtcattttttctgatattggctAT TTggcaaatgccatttATTAGCTATGATCATTGTAAcgaaaggaaaggggattgagaa g" /listShort="yhdJ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1027733 /Source="Nicolas_upshifts" /id="U752" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.52047952047952" /psig="0.996003996003996" /xcortree=459 /SigmaFactorBS="tcctttgtagctggcatggtcattttttctgatattggctAT TTggcaaatgccatttATTAGCTATGATCATTGTAAcgaaaggaaaggggattgagaa g" /listShort="yhdJ" /GFF_Attribute="listLong" promotor_-10 complement(1027735..1027754) /Source="Nicolas_upshift_promotors" /id="U753" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.583416583416583" /psig=1 /xcortree=2744 /SigmaFactorBS="cttctttcgaggttaattgtttcatatggatcaTCTTCtcaa tcccctttcctTTCGTTACAATGATCATAGCtaataaatggcatttgccaaatagcca a" /listShort="yhdI" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1027747) /Source="Nicolas_upshifts" /id="U753" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.583416583416583" /psig=1 /xcortree=2744 /SigmaFactorBS="cttctttcgaggttaattgtttcatatggatcaTCTTCtcaa tcccctttcctTTCGTTACAATGATCATAGCtaataaatggcatttgccaaatagcca a" /listShort="yhdI" /GFF_Attribute="listLong" promotor_-35 complement(1027770..1027774) /Source="Nicolas_upshift_promotors" /id="U753" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.583416583416583" /psig=1 /xcortree=2744 /SigmaFactorBS="cttctttcgaggttaattgtttcatatggatcaTCTTCtcaa tcccctttcctTTCGTTACAATGATCATAGCtaataaatggcatttgccaaatagcca a" /listShort="yhdI" /GFF_Attribute="listLong" /label="promotor_-35" CDS 1027774..1028202 /gene="yhdJ" /locus_tag="BSU_09490" /old_locus_tag="BSU09490" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12793527; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative acetyltransferase" /protein_id="NP_388830.1" /db_xref="EnsemblGenomes-Gn:BSU09490" /db_xref="EnsemblGenomes-Tr:CAB12788" /db_xref="GOA:O07579" /db_xref="InterPro:IPR000182" /db_xref="InterPro:IPR016181" /db_xref="SubtiList:BG13016" /db_xref="UniProtKB/Swiss-Prot:O07579" /translation="MIHMKQLTSKEEWAESYPIMSELRTELDIETYLQRLEACVQKES YMLFALYENTAIRALCGALPRVSIHKGEHLWIADLVTTAPCRSKGYGKMLLDYASDWA RKAGLGFVSLSSGLQRKDAHRFYTDKMGFTIESYLFRKPV*" gene 1027774..1028202 /gene="yhdJ" /locus_tag="BSU_09490" /old_locus_tag="BSU09490" downshifts 1028181 /Source="Nicolas_upshifts" /id="D498" /incds=0 /nref=46 /ntot=213 /MaxReadThrough="1.42962" /MaxDrop="4.77191" /score="24.6412105" /energy="-12.1" /TU="NA" /idTUdmin="U752" /TUdmin=0 /isTUend="TRUE" CDS complement(1028233..1028523) /gene="asiMB" /locus_tag="BSU_09500" /old_locus_tag="BSU09500" /experiment="publication(s) with functional evidences, PMID:10216858" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10216858; Product type r: regulator" /codon_start=1 /transl_table=11 /product="negative regulator of the activity of sigma-M" /protein_id="NP_388831.1" /db_xref="EnsemblGenomes-Gn:BSU09500" /db_xref="EnsemblGenomes-Tr:CAB12789" /db_xref="GOA:O07580" /db_xref="InterPro:IPR020496" /db_xref="SubtiList:BG13017" /db_xref="UniProtKB/Swiss-Prot:O07580" /translation="MELVRIFKEHNVFGWISVGTAVLSLLLLNLAIISNVTFYSYQML PFAMAAVPFGVVELFIKRGRTGPGLLGVILNLFVIICVYTIVSVDTNLQFGF*" gene complement(1028233..1028523) /gene="asiMB" /locus_tag="BSU_09500" /old_locus_tag="BSU09500" downshifts complement(1028257) /Source="Nicolas_upshifts" /id="D499" /incds=0 /nref=44 /ntot=229 /MaxReadThrough="2.66153" /MaxDrop="4.72865" /score="26.7359231" /energy="-11.1" /TU="NA" /idTUdmin="U754" /TUdmin=0 /isTUend="TRUE" CDS complement(1028511..1029587) /gene="asiMA" /locus_tag="BSU_09510" /old_locus_tag="BSU09510" /experiment="publication(s) with functional evidences, PMID:10216858" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10216858; Product type r: regulator" /codon_start=1 /transl_table=11 /product="negative regulator of the activity of sigma-M" /protein_id="NP_388832.1" /db_xref="EnsemblGenomes-Gn:BSU09510" /db_xref="EnsemblGenomes-Tr:CAB12790" /db_xref="GOA:O07581" /db_xref="InterPro:IPR025672" /db_xref="InterPro:IPR029101" /db_xref="SubtiList:BG13018" /db_xref="UniProtKB/Swiss-Prot:O07581" /translation="MMNEEFKKRFDQYKNGEMSDQEMTAFEEELEKLEVYQELIDSEL EDDNDWDLSISPEKQKAILAYGKRKSYLRISVLAVISTLMILPLCTLGSYLYYGMGGK HSTGNEFMETAAVTVALTMPNVLVDTSGLKSQVKLFGMNTEFPLQKQIGTKTAAVGNE RVEMFYNKVKAPAVNYYDLEVNKTGHYFTHPSNKSEQTTAKAEKTLSTLPEGTVSEVY LSYDRAYPTKDVYNKFKGYDVSFLWNAIETEKNTNKTASTEPLGYPGKDSKFLAALNT KGKSNGDQFINALKFMSKHEKWAQVISKRKDLNVDNRLDYVEKNGVNVYGSVVTGPTK EIQRMLKNKSVKSANVGEVELWNW*" gene complement(1028511..1029587) /gene="asiMA" /locus_tag="BSU_09510" /old_locus_tag="BSU09510" CDS complement(1029577..1030068) /gene="sigM" /locus_tag="BSU_09520" /old_locus_tag="BSU09520" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:14651641, 14769884" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14651641, 14769884; Product type r: regulator" /codon_start=1 /transl_table=11 /product="RNA polymerase ECF (extracytoplasmic function)-type sigma factor (sigma(M))" /protein_id="NP_388833.1" /db_xref="EnsemblGenomes-Gn:BSU09520" /db_xref="EnsemblGenomes-Tr:CAB12791" /db_xref="GOA:O07582" /db_xref="InterPro:IPR000838" /db_xref="InterPro:IPR007627" /db_xref="InterPro:IPR013249" /db_xref="InterPro:IPR013324" /db_xref="InterPro:IPR013325" /db_xref="InterPro:IPR014284" /db_xref="InterPro:IPR014296" /db_xref="InterPro:IPR036388" /db_xref="SubtiList:BG13019" /db_xref="UniProtKB/Swiss-Prot:O07582" /translation="MTIDEIYQMYMNDVYRFLLSMTKDKHLAEDLLQETFMRAYIHIH SYDHSKVKPWLFQVARNAFIDYVRKHKKEVTISDDLIGSLFQNAVQSPAHQVEIKEVL TGYMSELPDNYREALTLYYLKELNYKEASHIMNISEANFKSVLFRARQRLKALYNRGV NDE*" gene complement(1029577..1030068) /gene="sigM" /locus_tag="BSU_09520" /old_locus_tag="BSU09520" S_feature complement(1030069..1030171) /Source="Nicolas_S_feature" /locus_tag="new_1030069_1030171_c" /HighExp="Cold, LBGstat, H2O2, G180, Paraq, Oxctl, G135, HPh, dia15, G150" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S330" promotor_-10 complement(1030160..1030179) /Source="Nicolas_upshift_promotors" /id="U754" /multdbtbs="SigA" /comp="M16" /sig="SigA" /pcomp="0.826173826173826" /psig=1 /xcortree=2579 /SigmaFactorBS="ccctctggaaaaaatgttaaacctttctccgcactATCTttt gcggccatttTTGGGTACTATATAGTAATGgtgtttgattaggtataaaaaagccgtt t" /listShort="S330, sigM, yhdL, yhdK" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1030171) /Source="Nicolas_upshifts" /id="U754" /multdbtbs="SigA" /comp="M16" /sig="SigA" /pcomp="0.826173826173826" /psig=1 /xcortree=2579 /SigmaFactorBS="ccctctggaaaaaatgttaaacctttctccgcactATCTttt gcggccatttTTGGGTACTATATAGTAATGgtgtttgattaggtataaaaaagccgtt t" /listShort="S330, sigM, yhdL, yhdK" /GFF_Attribute="listLong" promotor_-35 complement(1030193..1030196) /Source="Nicolas_upshift_promotors" /id="U754" /multdbtbs="SigA" /comp="M16" /sig="SigA" /pcomp="0.826173826173826" /psig=1 /xcortree=2579 /SigmaFactorBS="ccctctggaaaaaatgttaaacctttctccgcactATCTttt gcggccatttTTGGGTACTATATAGTAATGgtgtttgattaggtataaaaaagccgtt t" /listShort="S330, sigM, yhdL, yhdK" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1030209..1030215 /Source="Nicolas_upshift_promotors" /id="U755" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=224 /SigmaFactorBS="tatatagtacccaaaaatggccgcaaaagatagtgcggagaa aGGTTTAAcattttttccagagGGGAAAAGATAGTGAAAAAgtgaaggagtggcacaa t" /listShort="yhdN, plsC" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1030226 /Source="Nicolas_upshifts" /id="U755" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=224 /SigmaFactorBS="tatatagtacccaaaaatggccgcaaaagatagtgcggagaa aGGTTTAAcattttttccagagGGGAAAAGATAGTGAAAAAgtgaaggagtggcacaa t" /listShort="yhdN, plsC" /GFF_Attribute="listLong" promotor_-10 1030230..1030248 /Source="Nicolas_upshift_promotors" /id="U755" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=224 /SigmaFactorBS="tatatagtacccaaaaatggccgcaaaagatagtgcggagaa aGGTTTAAcattttttccagagGGGAAAAGATAGTGAAAAAgtgaaggagtggcacaa t" /listShort="yhdN, plsC" /GFF_Attribute="listLong" /label="promotor_-10" downshifts complement(1030259) /Source="Nicolas_upshifts" /id="D500" /incds=0 /nref=2 /ntot=13 /MaxReadThrough="2.13683" /MaxDrop="4.59517" /score="8.96845329" /energy="-10.2" /TU="NA" /idTUdmin="U757" /TUdmin=1804 /isTUend="FALSE" CDS 1030265..1031260 /gene="akrN" /locus_tag="BSU_09530" /old_locus_tag="BSU09530" /EC_number="1.1.1.-" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:10220166, 15019785, 24330391" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10220166, 15019785, 24330391; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="aldo/keto reductase specific for NADPH; protectsagainst methylglyoxal" /protein_id="NP_388834.1" /db_xref="EnsemblGenomes-Gn:BSU09530" /db_xref="EnsemblGenomes-Tr:CAB12792" /db_xref="GOA:P80874" /db_xref="InterPro:IPR018170" /db_xref="InterPro:IPR020471" /db_xref="InterPro:IPR023210" /db_xref="InterPro:IPR036812" /db_xref="PDB:1PZ1" /db_xref="SubtiList:BG13020" /db_xref="UniProtKB/Swiss-Prot:P80874" /translation="MEYTSIADTGIEASRIGLGTWAIGGTMWGGTDEKTSIETIRAAL DQGITLIDTAPAYGFGQSEEIVGKAIKEYGKRDQVILATKTALDWKNNQLFRHANRAR IVEEVENSLKRLQTDYIDLYQVHWPDPLVPIEETAEVMKELYDAGKIRAIGVSNFSIE QMDTFRAVAPLHTIQPPYNLFEREMEESVLPYAKDNKITTLLYGSLCRGLLTGKMTEE YTFEGDDLRNHDPKFQKPRFKEYLSAVNQLDKLAKTRYGKSVIHLAVRWILDQPGADI ALWGARKPGQLEALSEITGWTLNSEDQKDINTILENTISDPVGPEFMAPPTREEI*" gene 1030265..1031260 /gene="akrN" /locus_tag="BSU_09530" /old_locus_tag="BSU09530" downshifts 1031239 /Source="Nicolas_upshifts" /id="D501" /incds=0 /nref=59 /ntot=160 /MaxReadThrough="6.85446" /MaxDrop="4.90106" /score="10.4379759" /energy="-11.8" /TU="U755" /idTUdmin="U756" /TUdmin="-770" /isTUend="FALSE" promotor_-35 1031322..1031325 /Source="Nicolas_upshift_promotors" /id="U756" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.537462537462537" /psig=1 /xcortree=2186 /SigmaFactorBS="ctttttggcgtttaaacgagagaaatcttaaaaattaGTACc aggtaataaaaaaTATTGTTATAATAGATGACAgaaagaatcattgattacgacaaag g" /listShort="plsC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1031340..1031359 /Source="Nicolas_upshift_promotors" /id="U756" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.537462537462537" /psig=1 /xcortree=2186 /SigmaFactorBS="ctttttggcgtttaaacgagagaaatcttaaaaattaGTACc aggtaataaaaaaTATTGTTATAATAGATGACAgaaagaatcattgattacgacaaag g" /listShort="plsC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1031345 /Source="Nicolas_upshifts" /id="U756" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.537462537462537" /psig=1 /xcortree=2186 /SigmaFactorBS="ctttttggcgtttaaacgagagaaatcttaaaaattaGTACc aggtaataaaaaaTATTGTTATAATAGATGACAgaaagaatcattgattacgacaaag g" /listShort="plsC" /GFF_Attribute="listLong" CDS 1031395..1031994 /gene="plsC" /locus_tag="BSU_09540" /old_locus_tag="BSU09540" /EC_number="2.3.1.51" /function="16.13: Shape" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12682299, 1557036, 17557823" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 1557036, 17557823; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="1-acylglycerol-phosphate (1-acyl-G3P) acyltransferase" /protein_id="NP_388835.1" /db_xref="EnsemblGenomes-Gn:BSU09540" /db_xref="EnsemblGenomes-Tr:CAB12793" /db_xref="GOA:O07584" /db_xref="InterPro:IPR002123" /db_xref="InterPro:IPR004552" /db_xref="SubtiList:BG13021" /db_xref="UniProtKB/Swiss-Prot:O07584" /translation="MYKFCANALKVILSLRGGVKVYNKENLPADSGFVIACTHSGWVD VITLGVGILPYQIHYMAKKELFQNKWIGSFLKKIHAFPVDRENPGPSSIKTPIKLLKE GEIVGIFPSGTRTSEDVPLKRGAVTIAQMGKAPLVPAAYQGPSSGKELFKKGKMKLII GEPLHQADFAHLPSKERLAAMTEALNQRIKELENKLDQL*" gene 1031395..1031994 /gene="plsC" /locus_tag="BSU_09540" /old_locus_tag="BSU09540" downshifts 1032009 /Source="Nicolas_upshifts" /id="D502" /incds=0 /nref=189 /ntot=245 /MaxReadThrough="6.36101" /MaxDrop="7.07164" /score="-7.3088084" /energy="-6.1" /TU="U755" /idTUdmin="U756" /TUdmin=0 /isTUend="TRUE" S_feature 1032054..1034008 /Source="Nicolas_S_feature" /locus_tag="new_1032054_1034008" /HighExp="Cold, C30, S8, T-4.40H, Sw, Fru, S0, S7, HPh, G135" /AntisenseName="yhdP" /AntisenseCor="-0.46228251493795502" /AntisenseRegPval="-14.9" /CDS_PredictionProba="NA" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S331" CDS complement(1032063..1033397) /gene="yhdP" /locus_tag="BSU_09550" /old_locus_tag="BSU09550" /function="16.1: Circulate" /function="16.12: Sense" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10960106, 25182490; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative magnesium efflux pump" /protein_id="NP_388836.1" /db_xref="EnsemblGenomes-Gn:BSU09550" /db_xref="EnsemblGenomes-Tr:CAB12794" /db_xref="GOA:O07585" /db_xref="InterPro:IPR000644" /db_xref="InterPro:IPR002550" /db_xref="InterPro:IPR005170" /db_xref="InterPro:IPR016169" /db_xref="InterPro:IPR036318" /db_xref="SubtiList:BG13022" /db_xref="UniProtKB/Swiss-Prot:O07585" /translation="MDIVNLILVAVLIALTAFFVASEFAIIRIRGSRIDQLIAEGNKA AIAVKKVTTHLDEYLSACQLGITLTSIGLGVLGESTIERLLHPLFVQMNVPGSLSHVI SFIFAYAIITFLHVVVGELAPKTVAIQKAEAVSMLFAKPLIWFYRIAFPFIWLLNNSA RLLTKAFGLETVSENELAHSEEELRIILSESYKSGEINQSEFKYVNKIFEFDDRLAKE IMIPRTEIVSLPHDIKISEMMDIIQIEKYTRYPVEEGDKDNIIGVINIKEVLTACISG EVSVDSTISQFVNPIIHVIESAPIQDLLVKMQKERVHMAILSDEYGGTAGLVTVEDII EEIVGEIRDEFDIDEISEIRKIGEGHYILDGKVLIDQVNDLLGIHLENEEVDTIGGWF LTQKYDVEKDDSIIEEGCEFIINEIDGHHVAYIEVKKLQEEELLETANQQEA*" gene complement(1032063..1033397) /gene="yhdP" /locus_tag="BSU_09550" /old_locus_tag="BSU09550" downshifts complement(1032082) /Source="Nicolas_upshifts" /id="D503" /incds=0 /nref=284 /ntot=315 /MaxReadThrough="1.96991" /MaxDrop="7.22379" /score="11.1466394" /energy="-9.1" /TU="NA" /idTUdmin="U757" /TUdmin="-19" /isTUend="TRUE" CDS complement(1033458..1033889) /gene="cueR" /locus_tag="BSU_09560" /old_locus_tag="BSU09560" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:14663075, 18048925" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14663075, 18048925; Product type r: regulator" /codon_start=1 /transl_table=11 /product="indirect copper efflux transcriptional regulator" /protein_id="NP_388837.1" /db_xref="EnsemblGenomes-Gn:BSU09560" /db_xref="EnsemblGenomes-Tr:CAB12795" /db_xref="GOA:O07586" /db_xref="InterPro:IPR000551" /db_xref="InterPro:IPR009061" /db_xref="SubtiList:BG13023" /db_xref="UniProtKB/Swiss-Prot:O07586" /translation="MVGRDIDGAETYRISELAALAGVTKRTVDYYTNLGLLTPARSCS NYRYYDENALKRLIFIVDCKKQRLALSDIKDRLENQFPSSAKLDDEIGNLALEIDHMN QNISGILHRFERLKPEDRDKLKSKLPPEKLAVFQSFMLLLS*" gene complement(1033458..1033889) /gene="cueR" /locus_tag="BSU_09560" /old_locus_tag="BSU09560" promotor_-10 complement(1033901..1033920) /Source="Nicolas_upshift_promotors" /id="U757" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.410589410589411" /psig="0.965034965034965" /xcortree=2994 /SigmaFactorBS="cttccaattccggtctaaaaaaaacaataaACTTGTGcaaga caccgttcaTATATTAAACTATTCTCATAactataacgtgatggttgggagggatata g" /listShort="cueR, yhdP" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1033911) /Source="Nicolas_upshifts" /id="U757" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.410589410589411" /psig="0.965034965034965" /xcortree=2994 /SigmaFactorBS="cttccaattccggtctaaaaaaaacaataaACTTGTGcaaga caccgttcaTATATTAAACTATTCTCATAactataacgtgatggttgggagggatata g" /listShort="cueR, yhdP" /GFF_Attribute="listLong" promotor_-35 complement(1033935..1033941) /Source="Nicolas_upshift_promotors" /id="U757" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.410589410589411" /psig="0.965034965034965" /xcortree=2994 /SigmaFactorBS="cttccaattccggtctaaaaaaaacaataaACTTGTGcaaga caccgttcaTATATTAAACTATTCTCATAactataacgtgatggttgggagggatata g" /listShort="cueR, yhdP" /GFF_Attribute="listLong" /label="promotor_-35" promotor_no_box complement(1033937..1034037) /Source="Nicolas_upshift_promotors" /id="U758" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.708291708291708" /psig="0.006993006993007" /xcortree=284 /SigmaFactorBS="tccgcatataaaaatttgaaaattctatcttcctatgttact tcaatcagatgatgaattccacaacttccaattccggtctaaaaaaaacaataaactt g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" promotor_-35 1033972..1033979 /Source="Nicolas_upshift_promotors" /id="U759" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.616383616383616" /psig="0.996003996003996" /xcortree=3066 /SigmaFactorBS="ttttttagaccggaattggaagTTGTGGAAttcatcatctga tTGAAGTAACATAGGAAGATAgaattttcaaatttttatatgcggaagggacagatga a" /listShort="yhdR, S332" /listLong="S333, yhdT" /label="promotor_-35" upshifts complement(1033977) /Source="Nicolas_upshifts" /id="U758" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.708291708291708" /psig="0.006993006993007" /xcortree=284 /SigmaFactorBS="tccgcatataaaaatttgaaaattctatcttcctatgttact tcaatcagatgatgaattccacaacttccaattccggtctaaaaaaaacaataaactt g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 1033993..1034012 /Source="Nicolas_upshift_promotors" /id="U759" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.616383616383616" /psig="0.996003996003996" /xcortree=3066 /SigmaFactorBS="ttttttagaccggaattggaagTTGTGGAAttcatcatctga tTGAAGTAACATAGGAAGATAgaattttcaaatttttatatgcggaagggacagatga a" /listShort="yhdR, S332" /listLong="S333, yhdT" /label="promotor_-10" upshifts 1034010 /Source="Nicolas_upshifts" /id="U759" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.616383616383616" /psig="0.996003996003996" /xcortree=3066 /SigmaFactorBS="ttttttagaccggaattggaagTTGTGGAAttcatcatctga tTGAAGTAACATAGGAAGATAgaattttcaaatttttatatgcggaagggacagatga a" /listShort="yhdR, S332" /listLong="S333, yhdT" CDS 1034046..1035227 /gene="yhdR" /locus_tag="BSU_09570" /old_locus_tag="BSU09570" /EC_number="2.6.-.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12670965, 15103638; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative aspartate aminotransferase" /protein_id="NP_388838.1" /db_xref="EnsemblGenomes-Gn:BSU09570" /db_xref="EnsemblGenomes-Tr:CAB12796" /db_xref="GOA:O07587" /db_xref="InterPro:IPR004838" /db_xref="InterPro:IPR004839" /db_xref="InterPro:IPR015421" /db_xref="InterPro:IPR015422" /db_xref="InterPro:IPR015424" /db_xref="SubtiList:BG13024" /db_xref="UniProtKB/Swiss-Prot:O07587" /translation="MKLAGLSREVEENLNKGSWIRKLFDEGARLKKEFGEDQVFDFSL GNPIVEPPEAFKRALIEEAEKGSHGYIQNQGLLAAREKVAQFLGSRFEADFSAERIVM TVGAGGALNVALKSIVNPGEEVIILAPYFAEYKLYIENYGGKAVSCPLTSRFEIDIEA VRQSITPQTKGLILNTPHNPTGTVLSQKNIDDLGALLKEIEEKSGQTIYVLFDEPYSQ LIYDEELANPFQSYHRVILASSFSKDLGIAGERLGYIGLDSRMPDADLLINAFVYCNR TLGFVNAPVMMQRAVARMDDLRVDASAYKERRDLMVDILKEAGFEFEMPKGGFFVFPK SPIEDEVAFCVHAAQKYKLLIVPSSGFGMSGHFRLSFSVPIEQIKNSRDIFISLYKDF A*" gene 1034046..1035227 /gene="yhdR" /locus_tag="BSU_09570" /old_locus_tag="BSU09570" downshifts 1035212 /Source="Nicolas_upshifts" /id="D504" /incds=0 /nref=12 /ntot=180 /MaxReadThrough="2.81766" /MaxDrop="3.37889" /score="-5.8634451" /energy="-9.1" /TU="U759" /idTUdmin="U759" /TUdmin="-163" /isTUend="FALSE" S_feature 1035257..1035395 /Source="Nicolas_S_feature" /locus_tag="new_1035257_1035395" /HighExp="Etha, S1, BMM, S2, Cold, MG 45, MG 25, C90, T-5.40H, MG 90" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.996" /TUlongSig="NA" /TUlongPSig="NA" /label="S332" misc_feature 1035391..1035410 /Source="Nicolas_upshift_promotors" /id="U760" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.771228771228771" /psig="0.999000999001" /xcortree=460 /SigmaFactorBS="aaggctttcttcatgataaaagtctaaaaattaaaaatcatt tttggaatgagtTGTGTTACAATAAAATATACaatttataatcaaactttgacttttg g" /listShort="S333, yhdT" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" S_feature 1035397..1035553 /Source="Nicolas_S_feature" /locus_tag="new_1035397_1035553" /HighExp="M9-stat, B60, T4.0H, T3.0H, LoTm, S5, T5.0H, S4, T2.30H, T3.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="SigA" /TUlongPSig="0.996" /label="S333" upshifts 1035397 /Source="Nicolas_upshifts" /id="U760" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.771228771228771" /psig="0.999000999001" /xcortree=460 /SigmaFactorBS="aaggctttcttcatgataaaagtctaaaaattaaaaatcatt tttggaatgagtTGTGTTACAATAAAATATACaatttataatcaaactttgacttttg g" /listShort="S333, yhdT" /GFF_Attribute="listLong" CDS 1035554..1036939 /gene="yhdT" /locus_tag="BSU_09590" /old_locus_tag="BSU09590" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative membrane protein" /protein_id="NP_388840.1" /db_xref="EnsemblGenomes-Gn:BSU09590" /db_xref="EnsemblGenomes-Tr:CAB12798" /db_xref="GOA:O07589" /db_xref="InterPro:IPR000644" /db_xref="InterPro:IPR002550" /db_xref="InterPro:IPR005170" /db_xref="InterPro:IPR016169" /db_xref="InterPro:IPR036318" /db_xref="SubtiList:BG13026" /db_xref="UniProtKB/Swiss-Prot:O07589" /translation="MDDIDSLILIGVLIALTAFFVASEFAIVRVRRSRIDQLITEGNK RAILARRVITDLDEYLSASQLGITLTSIGLGVLGEPAFERLLHPLFEPLGLPDSVSHA VSFAVAYGLITFLHVVVGELAPKTVAIQKAEQLTLLIAGPLRLFYLLLFPFIWILNGS ARLLCGMFGLKPASEHDGSHSEEELRMLLSESLKNGEINPSEYKYVNKIFEFDNRIAK EIMIPRKEMAAVSTEMTMAEMLEVMLKEKYTRWPVTDGDKDSVLGLVNTKHLFSDLLF MTEEERMKMTIHPYVRPVIEVIETIPVHDLLIKMQRERIHMAILSDEYGGTSGLVTTE DILEEIVGEIRDEFDEDEQPLIQKLGDGHYVMDGKVRIDQVNSLLGASIQEDVDTIGG LILKENIDIEAGESIRIGSYTIKVLKMDGRLIKQIDIKEEAGNTTGITAHHKLPLPEP VMLNSATLSEK*" gene 1035554..1036939 /gene="yhdT" /locus_tag="BSU_09590" /old_locus_tag="BSU09590" downshifts 1036829 /Source="Nicolas_upshifts" /id="D505" /incds=1 /nref=120 /ntot=240 /MaxReadThrough="5.11037" /MaxDrop="3.79021" /score="19.6985636" /energy="-10.5" /TU="U760" /idTUdmin="U760" /TUdmin="-86" /isTUend="FALSE" downshifts 1036915 /Source="Nicolas_upshifts" /id="D506" /incds=0 /nref=129 /ntot=245 /MaxReadThrough="1.68999" /MaxDrop="6.12682" /score="19.6985636" /energy="-10.5" /TU="NA" /idTUdmin="U760" /TUdmin=0 /isTUend="TRUE" CDS complement(1036953..1037309) /gene="crcBA" /locus_tag="BSU_09600" /old_locus_tag="BSU09600" /function="16.1: Circulate" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 8844142, 12904550, 15849754, 16850406, 17196979, 22194412, 27824896; Product type t: transporter" /codon_start=1 /transl_table=11 /product="fluoride efflux channel component A" /protein_id="NP_388841.1" /db_xref="EnsemblGenomes-Gn:BSU09600" /db_xref="EnsemblGenomes-Tr:CAB12799" /db_xref="GOA:O07590" /db_xref="InterPro:IPR003691" /db_xref="SubtiList:BG13027" /db_xref="UniProtKB/Swiss-Prot:O07590" /translation="MTLAGIFIGGGLGAMLRFWLGNVITAKTKGLSLPIGILTVNILG ALGLGIFTGLHVANASVSLIIGTGFFGAFTTFSTFSVETIQLLMAKRVKESILYIVLT LCGSLFAFWCGWTITI*" gene complement(1036953..1037309) /gene="crcBA" /locus_tag="BSU_09600" /old_locus_tag="BSU09600" CDS complement(1037306..1037701) /gene="crcBB" /locus_tag="BSU_09610" /old_locus_tag="BSU09610" /function="16.1: Circulate" /function="16.4: Excrete" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 8844142, 12904550, 15849754, 16850406, 22194412, 27824896; Product type t : transporter" /codon_start=1 /transl_table=11 /product="subunit of fluoride efflux transporter" /protein_id="NP_388842.1" /db_xref="EnsemblGenomes-Gn:BSU09610" /db_xref="EnsemblGenomes-Tr:CAB12800" /db_xref="GOA:O07591" /db_xref="InterPro:IPR003691" /db_xref="SubtiList:BG13028" /db_xref="UniProtKB/Swiss-Prot:O07591" /translation="MKIYSAVFIGGALGACLRYGLNLWIHTGQFPAATWLENAAGSLL LGILTGFFMIGAKRPLLSAFLGTGFCGGFTTMSTFSKETVMLLQGQPSLALLYVAASL ISGIIFALIGVFVGRRIAGIQQRKGLQEK*" gene complement(1037306..1037701) /gene="crcBB" /locus_tag="BSU_09610" /old_locus_tag="BSU09610" CDS complement(1037688..1038419) /gene="yhdW" /locus_tag="BSU_09620" /old_locus_tag="BSU09620" /EC_number="3.1.4.46" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 8012593; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative glycerophosphodiester phosphodiesterase" /protein_id="NP_388843.1" /db_xref="EnsemblGenomes-Gn:BSU09620" /db_xref="EnsemblGenomes-Tr:CAB12801" /db_xref="GOA:O07592" /db_xref="InterPro:IPR004129" /db_xref="InterPro:IPR017946" /db_xref="InterPro:IPR030395" /db_xref="SubtiList:BG13029" /db_xref="UniProtKB/Swiss-Prot:O07592" /translation="MYIIAHRGASGYAPENTIAAFDLAVKMNADMIELDVQLTKDRQI VVIHDDRVDRTTNGSGFVKDFTLEELQKLDAGSWYGPAFQGERIPTLEAVLKRYHKKI GLLIELKGHPSQVGIEEEVGQLLGQFSFSINNIVQSFQFRSVQRFRELYPSIPTAVIT RPNFGMLSRNQMKAFRSFANYVNIKHTRLNRLMIGSINKNGLNIFAWTVNNQKTAAKL QAMGVDGIVTDYPDFIIKDGKHENI*" gene complement(1037688..1038419) /gene="yhdW" /locus_tag="BSU_09620" /old_locus_tag="BSU09620" misc_feature complement(1038444..1038463) /Source="Nicolas_upshift_promotors" /id="U761" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.683316683316683" /psig="0.986013986013986" /xcortree=3010 /SigmaFactorBS="gcccggaccattccgatatggcagaaaaaattcaccagtttg tatcgcggtgcatatatggaTTTGATACAATAACAGAAATgcccatacgaggagctga c" /listShort="yhdW, yhdV, crcBA" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(1038465) /Source="Nicolas_upshifts" /id="U761" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.683316683316683" /psig="0.986013986013986" /xcortree=3010 /SigmaFactorBS="gcccggaccattccgatatggcagaaaaaattcaccagtttg tatcgcggtgcatatatggaTTTGATACAATAACAGAAATgcccatacgaggagctga c" /listShort="yhdW, yhdV, crcBA" /GFF_Attribute="listLong" promotor_-35 1038512..1038520 /Source="Nicolas_upshift_promotors" /id="U762" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.563436563436563" /psig="0.563436563436563" /xcortree=896 /SigmaFactorBS="atatgcaccgcgatacaaactggtgaattttttctgccatat cGGAATGGTCcgggctgaggaatGCGTATAACTAAAAAAagacactcagcgtatcaga a" /listShort="S334, yhdX" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1038529 /Source="Nicolas_upshifts" /id="U762" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.563436563436563" /psig="0.563436563436563" /xcortree=896 /SigmaFactorBS="atatgcaccgcgatacaaactggtgaattttttctgccatat cGGAATGGTCcgggctgaggaatGCGTATAACTAAAAAAagacactcagcgtatcaga a" /listShort="S334, yhdX" /GFF_Attribute="listLong" promotor_-10 1038534..1038549 /Source="Nicolas_upshift_promotors" /id="U762" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.563436563436563" /psig="0.563436563436563" /xcortree=896 /SigmaFactorBS="atatgcaccgcgatacaaactggtgaattttttctgccatat cGGAATGGTCcgggctgaggaatGCGTATAACTAAAAAAagacactcagcgtatcaga a" /listShort="S334, yhdX" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1038543..1038616 /Source="Nicolas_S_feature" /locus_tag="new_1038543_1038616" /HighExp="S5, S4, S6, S7, S8, S3, B60, Pyr, B36, BT" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigWXY" /TUshortPSig="0.563" /TUlongSig="NA" /TUlongPSig="NA" /label="S334" promotor_-35 1038603..1038604 /Source="Nicolas_upshift_promotors" /id="U763" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.937062937062937" /psig="0.998001998001998" /xcortree=461 /SigmaFactorBS="agcgtatcagaacacatttcgtcagaaaattaggtctttcga catGTtcacaacaaaatatgATCCTTTATAATAGCAAAAAaggaggcgagatcatggg a" /listShort="yhdX" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1038618 /Source="Nicolas_upshifts" /id="U763" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.937062937062937" /psig="0.998001998001998" /xcortree=461 /SigmaFactorBS="agcgtatcagaacacatttcgtcagaaaattaggtctttcga catGTtcacaacaaaatatgATCCTTTATAATAGCAAAAAaggaggcgagatcatggg a" /listShort="yhdX" /GFF_Attribute="listLong" promotor_-10 1038620..1038639 /Source="Nicolas_upshift_promotors" /id="U763" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.937062937062937" /psig="0.998001998001998" /xcortree=461 /SigmaFactorBS="agcgtatcagaacacatttcgtcagaaaattaggtctttcga catGTtcacaacaaaatatgATCCTTTATAATAGCAAAAAaggaggcgagatcatggg a" /listShort="yhdX" /GFF_Attribute="listLong" /label="promotor_-10" CDS 1038653..1038760 /gene="yhdX" /locus_tag="BSU_09630" /old_locus_tag="BSU09630" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388844.1" /db_xref="EnsemblGenomes-Gn:BSU09630" /db_xref="EnsemblGenomes-Tr:CAB12802" /db_xref="InterPro:IPR035384" /db_xref="SubtiList:BG13030" /db_xref="UniProtKB/Swiss-Prot:O07593" /translation="MGKGRIRVEERIKAETDAEMQKATLLDQTQTKKGK*" gene 1038653..1038760 /gene="yhdX" /locus_tag="BSU_09630" /old_locus_tag="BSU09630" S_feature 1038761..1038814 /Source="Nicolas_S_feature" /locus_tag="new_1038761_1038814" /HighExp="Sw, BC, LPhT, HiOs, S4, HiTm, S5, B36, S7, S6" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S335" downshifts 1038785 /Source="Nicolas_upshifts" /id="D507" /incds=0 /nref=177 /ntot=225 /MaxReadThrough="0.97838" /MaxDrop="7.47175" /score="21.9742676" /energy="-14.5" /TU="NA" /idTUdmin="U762" /TUdmin=0 /isTUend="TRUE" misc_feature 1038865..1038884 /Source="Nicolas_upshift_promotors" /id="U764" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.381618381618382" /psig="0.931068931068931" /xcortree=1800 /SigmaFactorBS="tttcgccggggttttgtgctgcataagacatttaaatgaaca tccttacgaataTTTTAGTATAATAAACAATTgattgggatagaggggagacagtcat g" /listShort="yhdY, yhdZ" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 1038871 /Source="Nicolas_upshifts" /id="U764" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.381618381618382" /psig="0.931068931068931" /xcortree=1800 /SigmaFactorBS="tttcgccggggttttgtgctgcataagacatttaaatgaaca tccttacgaataTTTTAGTATAATAAACAATTgattgggatagaggggagacagtcat g" /listShort="yhdY, yhdZ" /GFF_Attribute="listLong" CDS 1038909..1040024 /gene="mscY" /locus_tag="BSU_09640" /old_locus_tag="BSU09640" /function="16.8: Protect" /function="16.12: Sense" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:12077558, 15849754, 16850406, 17665170, 18310427, 19252899" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12077558, 15849754, 16850406, 17665170, 18310427, 19252899; Product type t : transporter" /codon_start=1 /transl_table=11 /product="small conductance mechano-sensitive channel" /protein_id="NP_388845.1" /db_xref="EnsemblGenomes-Gn:BSU09640" /db_xref="EnsemblGenomes-Tr:CAB12803" /db_xref="GOA:O07594" /db_xref="InterPro:IPR006685" /db_xref="InterPro:IPR006686" /db_xref="InterPro:IPR010920" /db_xref="InterPro:IPR011014" /db_xref="InterPro:IPR011066" /db_xref="SubtiList:BG13031" /db_xref="UniProtKB/Swiss-Prot:O07594" /translation="MPDYLQQYFTLDNIIQIGISLAILLVFLILRKLFTRYFFNLLFN LTNRPKTEIFKQVVLAFDKPARWFFVALGLFLAIRYSPFLDEQMPVISKIYRSLIVAL LCWGLCNLTATSSFIFHKVNQRFELDMDDILAPFLSKLLRFVIIALSVSVIAQEFNYD VNGFVAGLGLGGLAFALAAKDTISNFFGGIIIITEKPFTIGDWVETSTVTGSVEDITF RSTRFRTAQGALVTVPNSTLSMEAITNWTRMTKRQITFSIHVSYATPIENLERSIHSL RTMLLEHEGVDNEIIMVNFDTFADSYYNLFFNFYTKTTVWAENLNIREDINYKIIEIL GAEGVQFAYPGQMVVVKQKHESDQFQVNLNKEEKERA*" gene 1038909..1040024 /gene="mscY" /locus_tag="BSU_09640" /old_locus_tag="BSU09640" downshifts 1040004 /Source="Nicolas_upshifts" /id="D508" /incds=0 /nref=5 /ntot=141 /MaxReadThrough="3.45709" /MaxDrop="3.93891" /score="2.31392404" /energy="-12.3" /TU="U764" /idTUdmin="U764" /TUdmin="-783" /isTUend="FALSE" misc_feature 1040061..1040080 /Source="Nicolas_upshift_promotors" /id="U765" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.937062937062937" /psig=1 /xcortree=3140 /SigmaFactorBS="aaagaggaaaaggaacgggcttaaaagagagacttcgtctga cagaggcggagtctttttCATGGTAAAATAAGAGAAAAaggcggtgttgagttggaaa c" /listShort="yhdZ" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 1040061 /Source="Nicolas_upshifts" /id="U765" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.937062937062937" /psig=1 /xcortree=3140 /SigmaFactorBS="aaagaggaaaaggaacgggcttaaaagagagacttcgtctga cagaggcggagtctttttCATGGTAAAATAAGAGAAAAaggcggtgttgagttggaaa c" /listShort="yhdZ" /GFF_Attribute="listLong" CDS 1040094..1040837 /gene="srtN" /locus_tag="BSU_09650" /old_locus_tag="BSU09650" /EC_number="3.5.1.-" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:16768447, 19136592, 26708127, 27987242" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16768447, 19136592, 26708127, 27987242; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="sirtuin NAD-dependent deacetylase" /protein_id="NP_388846.1" /db_xref="EnsemblGenomes-Gn:BSU09650" /db_xref="EnsemblGenomes-Tr:CAB12804" /db_xref="GOA:O07595" /db_xref="InterPro:IPR003000" /db_xref="InterPro:IPR026590" /db_xref="InterPro:IPR028628" /db_xref="InterPro:IPR029035" /db_xref="SubtiList:BG13032" /db_xref="UniProtKB/Swiss-Prot:O07595" /translation="METFKSILHEAQRIVVLTGAGMSTESGIPDFRSAGGIWTEDASR MEAMSLDYFLSYPRLFWPKFKELFQMKMSGSFEPNEGHLLLAELEKQGKQVDIFTQNI DGLHKKAGSRHVYELHGSIQTAACPACGARYDLPHLLEREVPECTAAGNNGDICGTVL KTDVVLFGDAVMHFDTLYEKLDQADLLLVIGTSLEVAPARFVPEDASLIPGMKKVIIN LEPTYCDSLFDMVIHQKIGEFARSLGMKK*" gene 1040094..1040837 /gene="srtN" /locus_tag="BSU_09650" /old_locus_tag="BSU09650" downshifts 1040809 /Source="Nicolas_upshifts" /id="D509" /incds=0 /nref=3 /ntot=82 /MaxReadThrough="1.93149" /MaxDrop="2.85561" /score="9.76884826" /energy="-9.2" /TU="NA" /idTUdmin="U765" /TUdmin=0 /isTUend="TRUE" CDS complement(1040861..1041709) /gene="yheN" /locus_tag="BSU_09660" /old_locus_tag="BSU09660" /EC_number="3.5.1.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative polysaccharide deacetylase" /protein_id="NP_388847.1" /db_xref="EnsemblGenomes-Gn:BSU09660" /db_xref="EnsemblGenomes-Tr:CAB12805" /db_xref="GOA:O07596" /db_xref="InterPro:IPR002509" /db_xref="InterPro:IPR011330" /db_xref="SubtiList:BG13046" /db_xref="UniProtKB/Swiss-Prot:O07596" /translation="MRQTRGEASPSAVSLAFKFASLAVLCVLLLLMVILGYSNSSTKA KEVTVTTNGQLRDEKESLKLKNDSPDLLIKHLQTKQNMGDKTVYLTFDDGPSAVTTRL LDVLKSADVKATFFMLSPRMNEFKQAVKRAEKEGHALGLHGVTHNNRLFYQTPTSPLK EMQEARDTLQDITGYKTDLVRTPYGSKPSLTASQIRNLEKDGFVYWDWTIDSMDWKYR NSQYVTAVLQQLENMEHSSSSRPNVILMHDLPATVNALPVLINKLKEKGYSFGVLEDT MVPVHE*" gene complement(1040861..1041709) /gene="yheN" /locus_tag="BSU_09660" /old_locus_tag="BSU09660" downshifts complement(1040885) /Source="Nicolas_upshifts" /id="D510" /incds=0 /nref=126 /ntot=242 /MaxReadThrough="2.03966" /MaxDrop="4.72968" /score="-7.82934513" /energy="-9.2" /TU="NA" /idTUdmin="U767" /TUdmin=0 /isTUend="TRUE" promotor_-35 1041705..1041710 /Source="Nicolas_upshift_promotors" /id="U766" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1125 /SigmaFactorBS="cgaaactgcagaaggagaagcctctcctctcgtttgtCGCAT AacaatctctccattgGCATAAAATCTCTACATAAtgctgtacagcaggcagcttatg a" /listShort="S337, S338, dat" /GFF_Attribute="listLong" /label="promotor_-35" S_feature complement(1041710..1041809) /Source="Nicolas_S_feature" /locus_tag="new_1041710_1041809_c" /HighExp="Cold, T3.0H, T2.30H, T3.30H, T4.0H, T2.0H, HPh, C30, T1.30H, T5.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S336" promotor_-10 1041726..1041744 /Source="Nicolas_upshift_promotors" /id="U766" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1125 /SigmaFactorBS="cgaaactgcagaaggagaagcctctcctctcgtttgtCGCAT AacaatctctccattgGCATAAAATCTCTACATAAtgctgtacagcaggcagcttatg a" /listShort="S337, S338, dat" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1041728 /Source="Nicolas_upshifts" /id="U766" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1125 /SigmaFactorBS="cgaaactgcagaaggagaagcctctcctctcgtttgtCGCAT AacaatctctccattgGCATAAAATCTCTACATAAtgctgtacagcaggcagcttatg a" /listShort="S337, S338, dat" /GFF_Attribute="listLong" S_feature 1041733..1041928 /Source="Nicolas_S_feature" /locus_tag="new_1041733_1041928" /HighExp="S5, S4, S6, S3, S7, S8, LoTm, B36, T5.0H, B60" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S337" promotor_-10 complement(1041798..1041817) /Source="Nicolas_upshift_promotors" /id="U767" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.57042957042957" /psig=1 /xcortree=2149 /SigmaFactorBS="ttttttccttaaaatctgacatttcgacaaattttctATGTg ctttccagttttaTTCCTGTATACTTGACTGGTaatacataggttgtaaacataaggc a" /listShort="S336, yheN" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1041812) /Source="Nicolas_upshifts" /id="U767" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.57042957042957" /psig=1 /xcortree=2149 /SigmaFactorBS="ttttttccttaaaatctgacatttcgacaaattttctATGTg ctttccagttttaTTCCTGTATACTTGACTGGTaatacataggttgtaaacataaggc a" /listShort="S336, yheN" /GFF_Attribute="listLong" promotor_-35 complement(1041832..1041835) /Source="Nicolas_upshift_promotors" /id="U767" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.57042957042957" /psig=1 /xcortree=2149 /SigmaFactorBS="ttttttccttaaaatctgacatttcgacaaattttctATGTg ctttccagttttaTTCCTGTATACTTGACTGGTaatacataggttgtaaacataaggc a" /listShort="S336, yheN" /GFF_Attribute="listLong" /label="promotor_-35" misc_feature 1041927..1041946 /Source="Nicolas_upshift_promotors" /id="U768" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.99100899100899" /psig=1 /xcortree=2940 /SigmaFactorBS="aaataaactcctttccgctatagatctcttgatctttctgtt tttcagcttgtccaaTATGGTAGAATTAGTGATAAtgacagcttgaatgacatcaggg a" /listShort="S338, dat" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" S_feature 1041930..1041993 /Source="Nicolas_S_feature" /locus_tag="new_1041930_1041993" /HighExp="BC, T2.30H, T3.0H, T3.30H, T4.0H, T5.0H, T2.0H, T1.30H, S4, M9-stat" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigEF" /TUshortPSig="1, 0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S338" upshifts 1041930 /Source="Nicolas_upshifts" /id="U768" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.99100899100899" /psig=1 /xcortree=2940 /SigmaFactorBS="aaataaactcctttccgctatagatctcttgatctttctgtt tttcagcttgtccaaTATGGTAGAATTAGTGATAAtgacagcttgaatgacatcaggg a" /listShort="S338, dat" /GFF_Attribute="listLong" CDS 1041994..1042842 /gene="dat" /locus_tag="BSU_09670" /old_locus_tag="BSU09670" /EC_number="2.6.1.21" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 9003455, 17005988; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="D-alanine aminotransferase" /protein_id="NP_388848.1" /db_xref="EnsemblGenomes-Gn:BSU09670" /db_xref="EnsemblGenomes-Tr:CAB12806" /db_xref="GOA:O07597" /db_xref="InterPro:IPR001544" /db_xref="InterPro:IPR005784" /db_xref="InterPro:IPR018300" /db_xref="InterPro:IPR036038" /db_xref="SubtiList:BG13045" /db_xref="UniProtKB/Swiss-Prot:O07597" /translation="MKVLVNGRLIGRSEASIDLEDRGYQFGDGIYEVIRVYKGVLFGL REHAERFFRSAAEIGISLPFSIEDLEWDLQKLVQENAVSEGAVYIQTTRGVAPRKHQY EAGLEPQTTAYTFTVKKPEQEQAYGVAAITDEDLRWLRCDIKSLNLLYNVMTKQRAYE AGAFEAILLRDGVVTEGTSSNVYAVINGTVRTHPANRLILNGITRMNILGLIEKNGIK LDETPVSEEELKQAEEIFISSTTAEIIPVVTLDGQSIGSGKPGPVTKQLQAAFQESIQ QAASIS*" gene 1041994..1042842 /gene="dat" /locus_tag="BSU_09670" /old_locus_tag="BSU09670" downshifts 1042833 /Source="Nicolas_upshifts" /id="D511" /incds=0 /nref=232 /ntot=261 /MaxReadThrough="2.27201" /MaxDrop="6.88888" /score="21.6239924" /energy="-11.5" /TU="U768" /idTUdmin="U766" /TUdmin=0 /isTUend="TRUE" CDS complement(1042885..1044246) /gene="nhaC" /locus_tag="BSU_09680" /old_locus_tag="BSU09680" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:10735849, 11274110, 15849754, 16850406, 17937670" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10735849, 11274110, 15849754, 16850406, 17937670; Product type t : transporter" /codon_start=1 /transl_table=11 /product="Na+/H+ antiporter" /protein_id="NP_388849.1" /db_xref="EnsemblGenomes-Gn:BSU09680" /db_xref="EnsemblGenomes-Tr:CAB12807" /db_xref="GOA:O07553" /db_xref="InterPro:IPR004770" /db_xref="InterPro:IPR018461" /db_xref="SubtiList:BG13044" /db_xref="UniProtKB/Swiss-Prot:O07553" /translation="MDSQKKLTFPLAVGLFIFMLCIIISCLFLLHVEPHIPLFLSVVM LSAAALWFGFPWKSIEKGIVDGIKNGVQPIIVLALIGILIGAWMYSGAIPTMTVYALS FIEPSHLLLTALFSCMIISTLVGSSLTTVSTIGVALIGVASAAGVPLEWTAGAVICGA CFGDKMSPMSDTTNFAAGIGEIPIFEHIRHMMGTTIPALLITVVLFYFLGSSVSADAA STDNIQQVITGIKDAANVTPWALLSPLLVVLLAMKRVSVIPVLTAGIISSGILTAIFV PYSSLQAFMTALQNGTTFETDNEAAAKIINRGGLQSMMGSVSLIMIAFALGGLMEKIG LISALLEGVMKGIRSKGRLVAATVCSSIGVNLATGEQYLSILIPGQSFKSLYDKRNIQ RKFLTRSLEDGGTLINPLIPWGVSGAFMASALGVPVIDYIPFTFFLYISPMISILIGF VKK*" gene complement(1042885..1044246) /gene="nhaC" /locus_tag="BSU_09680" /old_locus_tag="BSU09680" downshifts complement(1042909) /Source="Nicolas_upshifts" /id="D512" /incds=0 /nref=7 /ntot=77 /MaxReadThrough="0.50034" /MaxDrop="3.60175" /score="1.04025421" /energy="-11.5" /TU="NA" /idTUdmin="U769" /TUdmin=22 /isTUend="TRUE" S_feature complement(1044247..1044317) /Source="Nicolas_S_feature" /locus_tag="new_1044247_1044317_c" /HighExp="B60, G135, Etha, LBGexp, G150, Diami, Paraq, G180, H2O2, Gly" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigB" /TUshortPSig="0.96, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S339" misc_feature complement(1044290..1044309) /Source="Nicolas_upshift_promotors" /id="U769" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.926073926073926" /psig="0.96003996003996" /xcortree=2470 /SigmaFactorBS="agtgagcacgccctgtgctcacttcttttatattcataattg tgaaaaaacatagattttcgttttttTCTGTTATAATGCTTTCGTGcccaaaagcaca a" /listShort="S339, nhaC" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(1044317) /Source="Nicolas_upshifts" /id="U769" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.926073926073926" /psig="0.96003996003996" /xcortree=2470 /SigmaFactorBS="agtgagcacgccctgtgctcacttcttttatattcataattg tgaaaaaacatagattttcgttttttTCTGTTATAATGCTTTCGTGcccaaaagcaca a" /listShort="S339, nhaC" /GFF_Attribute="listLong" CDS complement(1044373..1044873) /gene="nhaX" /locus_tag="BSU_09690" /old_locus_tag="BSU09690" /function="16.12: Sense" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 11988534, 16159758, 27464829; Product type f: factor" /codon_start=1 /transl_table=11 /product="stress response protein, UspA family" /protein_id="NP_388850.2" /db_xref="EnsemblGenomes-Gn:BSU09690" /db_xref="EnsemblGenomes-Tr:CAB12808" /db_xref="GOA:O07552" /db_xref="InterPro:IPR006015" /db_xref="InterPro:IPR006016" /db_xref="InterPro:IPR014729" /db_xref="SubtiList:BG13043" /db_xref="UniProtKB/Swiss-Prot:O07552" /translation="MFHADRIIVAFDGSENSKKALLTAIDLAKTVNAAITVAHSHDMK DNQTVIDPPRPAAEASYISGGMTSVPDPLISDVTSPEPMIYEDRTEEVIAEARMMLNE QQADGDIDILEGDPAESIIEHANRISADMIVTGSRDQNRLKKLIFGSVSEKLSAKSDI PVLIVK*" gene complement(1044373..1044873) /gene="nhaX" /locus_tag="BSU_09690" /old_locus_tag="BSU09690" downshifts complement(1044405) /Source="Nicolas_upshifts" /id="D513" /incds=0 /nref=10 /ntot=63 /MaxReadThrough="4.74071" /MaxDrop="5.69273" /score="4.44189378" /energy="-12.2" /TU="U770" /idTUdmin="U770" /TUdmin="-1320" /isTUend="FALSE" promotor_-10 complement(1044895..1044913) /Source="Nicolas_upshift_promotors" /id="U770" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=208 /SigmaFactorBS="aaacaaaaccttttattgtcaatcattacttgaataggaaaA GGTTAAttgtgctcaaattcGGGTAGTAGTGTTGTAAGAcgctttgaaagggtgagaa g" /listShort="nhaX, S339, nhaC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1044915) /Source="Nicolas_upshifts" /id="U770" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=208 /SigmaFactorBS="aaacaaaaccttttattgtcaatcattacttgaataggaaaA GGTTAAttgtgctcaaattcGGGTAGTAGTGTTGTAAGAcgctttgaaagggtgagaa g" /listShort="nhaX, S339, nhaC" /GFF_Attribute="listLong" promotor_-35 complement(1044928..1044934) /Source="Nicolas_upshift_promotors" /id="U770" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=208 /SigmaFactorBS="aaacaaaaccttttattgtcaatcattacttgaataggaaaA GGTTAAttgtgctcaaattcGGGTAGTAGTGTTGTAAGAcgctttgaaagggtgagaa g" /listShort="nhaX, S339, nhaC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1044952..1044959 /Source="Nicolas_upshift_promotors" /id="U771" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.918081918081918" /psig=1 /xcortree=416 /SigmaFactorBS="ctacccgaatttgagcacaattaaccttttcctattcaagta atGATTGACAataaaaggttttgtTTATATGATGATAAAAAGATgaaatcagaatgga a" /listShort="S340, yheJ, S341, yheI, yheH" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 1044967..1045036 /Source="Nicolas_S_feature" /locus_tag="new_1044967_1045036" /HighExp="C90, M9-stat, BC, T1.30H, T3.30H, Sw, T5.0H, GM 15, T3.0H, T2.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S340" upshifts 1044968 /Source="Nicolas_upshifts" /id="U771" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.918081918081918" /psig=1 /xcortree=416 /SigmaFactorBS="ctacccgaatttgagcacaattaaccttttcctattcaagta atGATTGACAataaaaggttttgtTTATATGATGATAAAAAGATgaaatcagaatgga a" /listShort="S340, yheJ, S341, yheI, yheH" /GFF_Attribute="listLong" promotor_-10 1044974..1044993 /Source="Nicolas_upshift_promotors" /id="U771" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.918081918081918" /psig=1 /xcortree=416 /SigmaFactorBS="ctacccgaatttgagcacaattaaccttttcctattcaagta atGATTGACAataaaaggttttgtTTATATGATGATAAAAAGATgaaatcagaatgga a" /listShort="S340, yheJ, S341, yheI, yheH" /GFF_Attribute="listLong" /label="promotor_-10" CDS 1045037..1045198 /gene="bmrB" /locus_tag="BSU_09700" /old_locus_tag="BSU09700" /experiment="publication(s) with functional evidences, PMID:25217586" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 25217586; Product type r: regulator" /codon_start=1 /transl_table=11 /product="regulator leader peptide" /protein_id="NP_388851.1" /db_xref="EnsemblGenomes-Gn:BSU09700" /db_xref="EnsemblGenomes-Tr:CAB12809" /db_xref="SubtiList:BG13042" /db_xref="UniProtKB/Swiss-Prot:O07551" /translation="MFIKQFHIGAANLLFCFRERFFRSDRALKSAVRNISVKKGMELT LHAFFIYKI*" gene 1045037..1045198 /gene="bmrB" /locus_tag="BSU_09700" /old_locus_tag="BSU09700" downshifts 1045128 /Source="Nicolas_upshifts" /id="D514" /incds=1 /nref=29 /ntot=180 /MaxReadThrough="5.31538" /MaxDrop="4.59672" /score="25.6910195" /energy="-14.4" /TU="U771" /idTUdmin="U768" /TUdmin=2273 /isTUend="FALSE" S_feature 1045199..1045317 /Source="Nicolas_S_feature" /locus_tag="new_1045199_1045317" /HighExp="LPhT, S7, S6, T-1.10H, Sw, LBGstat, S5, T-0.40H, S8, T-1.40H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S341" CDS 1045318..1047075 /gene="bmrC" /locus_tag="BSU_09710" /old_locus_tag="BSU09710" /function="16.1: Circulate" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:15855514, 16487324, 19167342, 21602923, 25217586" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15855514, 16487324, 19167342, 21602923, 25217586; Product type t : transporter" /codon_start=1 /transl_table=11 /product="efflux ABC transporter (ATP-binding protein)" /protein_id="NP_388852.1" /db_xref="EnsemblGenomes-Gn:BSU09710" /db_xref="EnsemblGenomes-Tr:CAB12810" /db_xref="GOA:O07550" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR011527" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR036640" /db_xref="SubtiList:BG13041" /db_xref="UniProtKB/Swiss-Prot:O07550" /translation="MFSVLKKLGWFFKAYWLRYTIAIVLLLAVNVIEMFPPKLLGNAI DDMKAGAFTAEGLLFYIGIFFVLTAAVYIMSYFWMHQLFGGANLMEKILRTKLMGHLL TMSPPFYEKNRTGDLMARGTNDLQAVSLTTGFGILTLVDSTMFMMTIFLTMGFLISWK LTFAAIIPLPVMAIAISLYGSKIHERFTEAQNAFGALNDRVLESVSGVRVIRAYVQET NDVRRFNEMTADVYQKNMKVAFIDSLFEPTVKLLVGASYLIGLGYGAFLVFRNELTLG ELVSFNVYLGMMIWPMFAIGELINVMQRGNASLDRVNETLSYETDVTDPKQPADLKEP GDIVFSHVSFTYPSSTSDNLQDISFTVRKGQTVGIAGKTGSGKTTIIKQLLRQYPPGE GSITFSGVPIQQIPLDRLRGWIGYVPQDHLLFSRTVKENILYGKQDATDKEVQQAIAE AHFEKDLHMLPSGLETMVGEKGVALSGGQKQRISIARALMANPEILILDDSLSAVDAK TEAAIIKNIRENRKGKTTFILTHRLSAVEHADLILVMDGGVIAERGTHQELLANNGWY REQYERQQLFTAEEGGAGA*" gene 1045318..1047075 /gene="bmrC" /locus_tag="BSU_09710" /old_locus_tag="BSU09710" CDS 1047072..1049093 /gene="bmrD" /locus_tag="BSU_09720" /old_locus_tag="BSU09720" /function="16.1: Circulate" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:15855514, 16487324, 19167342, 21602923, 25217586" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15855514, 16487324, 19167342, 21602923, 25217586; Product type t : transporter" /codon_start=1 /transl_table=11 /product="efflux ABC transporter (ATP-binding subunit)" /protein_id="NP_388853.1" /db_xref="EnsemblGenomes-Gn:BSU09720" /db_xref="EnsemblGenomes-Tr:CAB12811" /db_xref="GOA:O07549" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR011527" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR036640" /db_xref="SubtiList:BG13040" /db_xref="UniProtKB/Swiss-Prot:O07549" /translation="MKIGKTLWRYALLYRKLLITAVLLLTVAVGAELTGPFIGKKMID DHILGIEKTWYEAAEKDKNAVQFHGVSYVREDRLQEPVSKAKEAHIYQVGMAFYFVDQ AVSFDGNRTVSDGKLTITNGDKSRAYAAEKLTKQELFQFYQPEIKGMVLLICLYGGLL VFSVFFQYGQHYLLQMSANRIIQKMRQDVFSHIQKMPIRYFDNLPAGKVVARITNDTE AIRDLYVTVLSTFVTSGIYMFGIFTALFLLDVKLAFVCLAIVPIIWLWSVIYRRYASY YNQKIRSINSDINAKMNESIQGMTIIQAFRHQKETMREFEELNESHFYFQNRMLNLNS LMSHNLVNVIRNLAFVCLIWHFGGASLNAAGIVSIGVLYAFVDYLNRLFQPITGIVNQ FSKLELARVSAGRVFELLEEKNTEEAGEPAKERALGRVEFRDVSFAYQEGEEVLKHIS FTAQKGETVALVGHTGSGKSSILNLLFRFYDAQKGDVLIDGKSIYNMSRQELRSHMGI VLQDPYLFSGTIGSNVSLDDERMTEEEIKNALRQVGAEPLLKKLPKGINEPVIEKGST LSSGERQLISFARALAFDPAILILDEATAHIDTETEAVIQKALDVVKQGRTTFVIAHR LSTIRNADQILVLDKGEIVERGNHEELMALEGQYYQMYELQKGQKHSIA*" gene 1047072..1049093 /gene="bmrD" /locus_tag="BSU_09720" /old_locus_tag="BSU09720" downshifts 1049081 /Source="Nicolas_upshifts" /id="D515" /incds=0 /nref=69 /ntot=230 /MaxReadThrough="0.741399999999999" /MaxDrop="5.11492" /score="9.67206405" /energy="-10.9" /TU="NA" /idTUdmin="U771" /TUdmin=0 /isTUend="TRUE" CDS complement(1049142..1049762) /gene="yheG" /locus_tag="BSU_09730" /old_locus_tag="BSU09730" /EC_number="1.-.-.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative NADH-flavin oxidoreductase" /protein_id="NP_388854.1" /db_xref="EnsemblGenomes-Gn:BSU09730" /db_xref="EnsemblGenomes-Tr:CAB12812" /db_xref="InterPro:IPR016040" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG13039" /db_xref="UniProtKB/Swiss-Prot:O07548" /translation="MKIALLGASGRVGQAFLTQAAADERFDIFALIRSQHADLPLSKD RTVMGNARRLEDVKKIMENAEIVISCLGTDGDDTLSTAMAHILSVMEEQHIKRLITIG TAGILDSRYEPGKYRFETNESKRKQTRAAKEHAKVYEMLKESSLDWTIICPTYLPDGT ATGVYRTERNVLPEGGTSISVGDTADFLYRELVTGEYVGNRVGLAY*" gene complement(1049142..1049762) /gene="yheG" /locus_tag="BSU_09730" /old_locus_tag="BSU09730" downshifts complement(1049157) /Source="Nicolas_upshifts" /id="D516" /incds=0 /nref=19 /ntot=169 /MaxReadThrough="1.82652" /MaxDrop="3.00293" /score="-0.293143554" /energy="-10.9" /TU="NA" /idTUdmin="U772" /TUdmin=0 /isTUend="TRUE" promotor_no_box 1049747..1049847 /Source="Nicolas_upshift_promotors" /id="U773" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.45954045954046" /psig="0.043956043956044" /xcortree=770 /SigmaFactorBS="ataaagcgattttcattaaaaaacctcctcgcctttcattat aaaaggatgttctcagtttgaacagcgcgggaaagaatacctgtacaaataaacagaa c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" promotor_-10 complement(1049776..1049795) /Source="Nicolas_upshift_promotors" /id="U772" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.844155844155844" /psig="0.955044955044955" /xcortree=2213 /SigmaFactorBS="catcgttctgtttatttgtacaggtattctttcccgcgCTGT tcaaactgagaacaTCCTTTTATAATGAAAGGCGaggaggttttttaatgaaaatcgc t" /listShort="yheG" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1049791) /Source="Nicolas_upshifts" /id="U772" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.844155844155844" /psig="0.955044955044955" /xcortree=2213 /SigmaFactorBS="catcgttctgtttatttgtacaggtattctttcccgcgCTGT tcaaactgagaacaTCCTTTTATAATGAAAGGCGaggaggttttttaatgaaaatcgc t" /listShort="yheG" /GFF_Attribute="listLong" CDS complement(1049801..1049926) /gene="yheF" /locus_tag="BSU_09740" /old_locus_tag="BSU09740" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388855.1" /db_xref="EnsemblGenomes-Gn:BSU09740" /db_xref="EnsemblGenomes-Tr:CAB12813" /db_xref="SubtiList:BG13038" /db_xref="UniProtKB/Swiss-Prot:O07547" /translation="MSFITIVNWELVQFVSVSMIHEYVSHRSVYLYRYSFPRCSN*" gene complement(1049801..1049926) /gene="yheF" /locus_tag="BSU_09740" /old_locus_tag="BSU09740" upshifts 1049807 /Source="Nicolas_upshifts" /id="U773" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.45954045954046" /psig="0.043956043956044" /xcortree=770 /SigmaFactorBS="ataaagcgattttcattaaaaaacctcctcgcctttcattat aaaaggatgttctcagtttgaacagcgcgggaaagaatacctgtacaaataaacagaa c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(1049810..1049813) /Source="Nicolas_upshift_promotors" /id="U772" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.844155844155844" /psig="0.955044955044955" /xcortree=2213 /SigmaFactorBS="catcgttctgtttatttgtacaggtattctttcccgcgCTGT tcaaactgagaacaTCCTTTTATAATGAAAGGCGaggaggttttttaatgaaaatcgc t" /listShort="yheG" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(1049940..1049959) /Source="Nicolas_upshift_promotors" /id="U774" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1332 /SigmaFactorBS="agggcgcggtttccgcgctctctttatTTTGTCACCCttttt tcctgctcCACATATCCTAGAAAAAAAGggagggaatcggggtgtcattcatcaccat t" /listShort="yheF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1049949) /Source="Nicolas_upshifts" /id="U774" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1332 /SigmaFactorBS="agggcgcggtttccgcgctctctttatTTTGTCACCCttttt tcctgctcCACATATCCTAGAAAAAAAGggagggaatcggggtgtcattcatcaccat t" /listShort="yheF" /GFF_Attribute="listLong" promotor_-35 complement(1049973..1049982) /Source="Nicolas_upshift_promotors" /id="U774" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1332 /SigmaFactorBS="agggcgcggtttccgcgctctctttatTTTGTCACCCttttt tcctgctcCACATATCCTAGAAAAAAAGggagggaatcggggtgtcattcatcaccat t" /listShort="yheF" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 1050005 /Source="Nicolas_upshifts" /id="D517" /incds=0 /nref=6 /ntot=22 /MaxReadThrough="0.352760000000001" /MaxDrop="4.67633" /score="9.67206405" /energy="-10.9" /TU="NA" /idTUdmin="U773" /TUdmin=88 /isTUend="FALSE" CDS complement(1050031..1050234) /gene="sspB" /locus_tag="BSU_09750" /old_locus_tag="BSU09750" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:3009398, 9572981, 16707666, 19659696, 26790838" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 3009398, 9572981, 16707666, 19659696, 26790838; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="small acid-soluble spore protein (beta-type SASP)" /protein_id="NP_388856.1" /db_xref="EnsemblGenomes-Gn:BSU09750" /db_xref="EnsemblGenomes-Tr:CAB12814" /db_xref="GOA:P04832" /db_xref="InterPro:IPR001448" /db_xref="InterPro:IPR018126" /db_xref="SubtiList:BG10787" /db_xref="UniProtKB/Swiss-Prot:P04832" /translation="MANQNSSNDLLVPGAAQAIDQMKLEIASEFGVNLGADTTSRANG SVGGEITKRLVSFAQQQMGGRVQ*" gene complement(1050031..1050234) /gene="sspB" /locus_tag="BSU_09750" /old_locus_tag="BSU09750" downshifts complement(1050036) /Source="Nicolas_upshifts" /id="D518" /incds=0 /nref=72 /ntot=93 /MaxReadThrough="1.27819" /MaxDrop="8.55895" /score="22.2113888" /energy="-16" /TU="NA" /idTUdmin="U776" /TUdmin=1 /isTUend="TRUE" S_feature complement(1050235..1050345) /Source="Nicolas_S_feature" /locus_tag="new_1050235_1050345_c" /HighExp="S8, S5, S7, S6, S4, G/S, Pyr, ferm, BT, nit" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigGF" /TUshortPSig="0.996" /TUlongSig="NA" /TUlongPSig="NA" /label="S342" promotor_no_box 1050275..1050375 /Source="Nicolas_upshift_promotors" /id="U775" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.665334665334665" /psig="0.090909090909091" /xcortree=696 /SigmaFactorBS="ggagttgcaccaatctgtgaacccttctcgggtgtcactgcc gcctcggcgtaacccaatgctttgccggcttgttactacgtattatgttaaaatggcc g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts 1050335 /Source="Nicolas_upshifts" /id="U775" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.665334665334665" /psig="0.090909090909091" /xcortree=696 /SigmaFactorBS="ggagttgcaccaatctgtgaacccttctcgggtgtcactgcc gcctcggcgtaacccaatgctttgccggcttgttactacgtattatgttaaaatggcc g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" upshifts complement(1050351) /Source="Nicolas_upshifts" /id="U776" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=836 /SigmaFactorBS="ctcaagatttaccacacaattctcCGCATGAttttccggcca tttTAACATAATACGtagtaacaagccggcaaagcattgggttacgccgaggcggcag t" /listShort="S342, sspB" /GFF_Attribute="listLong" promotor_-10 complement(1050355..1050366) /Source="Nicolas_upshift_promotors" /id="U776" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=836 /SigmaFactorBS="ctcaagatttaccacacaattctcCGCATGAttttccggcca tttTAACATAATACGtagtaacaagccggcaaagcattgggttacgccgaggcggcag t" /listShort="S342, sspB" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(1050381..1050387) /Source="Nicolas_upshift_promotors" /id="U776" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=836 /SigmaFactorBS="ctcaagatttaccacacaattctcCGCATGAttttccggcca tttTAACATAATACGtagtaacaagccggcaaagcattgggttacgccgaggcggcag t" /listShort="S342, sspB" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1050443..1050661) /gene="yheE" /locus_tag="BSU_09760" /old_locus_tag="BSU09760" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein (sporulation / germination island)" /protein_id="NP_388857.1" /db_xref="EnsemblGenomes-Gn:BSU09760" /db_xref="EnsemblGenomes-Tr:CAB12815" /db_xref="InterPro:IPR017263" /db_xref="SubtiList:BG13037" /db_xref="UniProtKB/Swiss-Prot:O07546" /translation="MAVMISHFSWKPLFPKEKLPGWKISFYYKGTHYEGIYHKSGEIE WGDLFPARADEPALTNEIHELMLFHIYD*" gene complement(1050443..1050661) /gene="yheE" /locus_tag="BSU_09760" /old_locus_tag="BSU09760" downshifts complement(1050477) /Source="Nicolas_upshifts" /id="D519" /incds=0 /nref=5 /ntot=83 /MaxReadThrough="0.43384" /MaxDrop="3.42951" /score="37.4339943" /energy="-11.8" /TU="NA" /idTUdmin="U777" /TUdmin=110 /isTUend="FALSE" promotor_-10 complement(1050702..1050721) /Source="Nicolas_upshift_promotors" /id="U777" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.609390609390609" /psig="0.996003996003996" /xcortree=419 /SigmaFactorBS="ctttatccaaagctgggacaaactgcatatttaggccTCTTC AATgatgttctgaaacAATGATACAATGAACATAAGccgtttttatttaggtcaattg a" /listShort="yheE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1050719) /Source="Nicolas_upshifts" /id="U777" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.609390609390609" /psig="0.996003996003996" /xcortree=419 /SigmaFactorBS="ctttatccaaagctgggacaaactgcatatttaggccTCTTC AATgatgttctgaaacAATGATACAATGAACATAAGccgtttttatttaggtcaattg a" /listShort="yheE" /GFF_Attribute="listLong" promotor_-35 complement(1050735..1050742) /Source="Nicolas_upshift_promotors" /id="U777" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.609390609390609" /psig="0.996003996003996" /xcortree=419 /SigmaFactorBS="ctttatccaaagctgggacaaactgcatatttaggccTCTTC AATgatgttctgaaacAATGATACAATGAACATAAGccgtttttatttaggtcaattg a" /listShort="yheE" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1050811..1052172) /gene="spaD" /locus_tag="BSU_09770" /old_locus_tag="BSU09770" /function="16.5: Explore" /function="16.8: Protect" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15231775, 25035995" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15231775, 25035995; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="spore coat associated protein" /protein_id="NP_388858.2" /db_xref="EnsemblGenomes-Gn:BSU09770" /db_xref="EnsemblGenomes-Tr:CAB12816" /db_xref="GOA:O07545" /db_xref="InterPro:IPR013815" /db_xref="InterPro:IPR026838" /db_xref="SubtiList:BG13036" /db_xref="UniProtKB/Swiss-Prot:O07545" /translation="MNPKRFLIGIDKTSENTLFLPSSLKQDGLLHAAFGTKVVRCHVA YRRHLEQTVLLSENLFHELLLPHRSRADILIHDHTVHIGPLVGIFTAGFTVSLERPFK DRSLFFSKLVTLHEQAGGYCFVFGAHQINWEEGTIEGLLYRENGWEKKIVPLPNVVYD RLPNRKIEDSLLLQHTKKRLIDEYQIPWFNKTFFNKWNVHQLLEKDPRTAPFLPRSEL TPSVELIDELCGAYKKVYIKPANGALGTGIYQLTRTDGGLTVKHTNDAKTFTSIDYSD AASFLAEFQKHHNPSDFLIQQGVDLIEFQGKPADFRVHTNKNRKGKWTVTAIAVKISG KNSITTHLSNGGTVKTLAEVYDDPAERVEVIKKLSAAALTASHVLHDHIEGFIGEIGF DFGIDQNGKVWMFEANSRPGRSIFSHPNLHHVDSLTKRRSFEYASYLSEKAITSPEAL WPS*" gene complement(1050811..1052172) /gene="spaD" /locus_tag="BSU_09770" /old_locus_tag="BSU09770" downshifts complement(1050829) /Source="Nicolas_upshifts" /id="D520" /incds=0 /nref=3 /ntot=26 /MaxReadThrough="2.33323" /MaxDrop="3.7968" /score="37.4339943" /energy="-11.8" /TU="NA" /idTUdmin="U779" /TUdmin=0 /isTUend="TRUE" downshifts complement(1050873) /Source="Nicolas_upshifts" /id="D521" /incds=1 /nref=2 /ntot=45 /MaxReadThrough="5.29177" /MaxDrop="3.36501" /score="37.4339943" /energy="-11.8" /TU="U779" /idTUdmin="U779" /TUdmin="-44" /isTUend="FALSE" CDS complement(1052162..1053253) /gene="spaC" /locus_tag="BSU_09780" /old_locus_tag="BSU09780" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); PubMedId: 15231775, 25035995; Product type f: factor" /codon_start=1 /transl_table=11 /product="spore coat associated protein, subunit C" /protein_id="NP_388859.1" /db_xref="EnsemblGenomes-Gn:BSU09780" /db_xref="EnsemblGenomes-Tr:CAB12817" /db_xref="GOA:O07544" /db_xref="InterPro:IPR013815" /db_xref="InterPro:IPR026838" /db_xref="SubtiList:BG13035" /db_xref="UniProtKB/Swiss-Prot:O07544" /translation="MITLGFMSLSRQHEADYSAELAKRAPEFGIRFIRFTPFDISPDT LRVKASVYHSASSTWNETEMAIPDYIYDRCFYGKDSHSQKAKPIVEWLKKYPKTEFIG RGLPDKWTVLHDLQQHSVINPYIPETIKVSRYEQIHSFLSKEKACILKPAFGAGGRGV ILLKLGKKNITATYHIGKDKQTKTFSNQTSFKTWCKKVLQHQYLLQPYLNIQDKEQYP CDIRLFMEKNEAGEWNTVGKAVRRGYKHGLLANLSGGSDALTFDSWFEDIPKKQQVVL LDDVFSITQSVPYYLDERYGPLFELGLDICLAKDGRIWILDINSKPGRKSILRVSPEQ KEQLYTCPLKRCQYLFSEQSQKGVLPRES*" gene complement(1052162..1053253) /gene="spaC" /locus_tag="BSU_09780" /old_locus_tag="BSU09780" promotor_-10 complement(1052577..1052591) /Source="Nicolas_upshift_promotors" /id="U778" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.63936063936064" /psig="0.63936063936064" /xcortree=613 /SigmaFactorBS="aatatttgcttcagccttacttaaacattcaagataAGGAAC AATacccttgtgatatTCGTCTGTTTATGGAaaaaaacgaagcaggtgaatggaatac a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1052589) /Source="Nicolas_upshifts" /id="U778" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.63936063936064" /psig="0.63936063936064" /xcortree=613 /SigmaFactorBS="aatatttgcttcagccttacttaaacattcaagataAGGAAC AATacccttgtgatatTCGTCTGTTTATGGAaaaaaacgaagcaggtgaatggaatac a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(1052605..1052613) /Source="Nicolas_upshift_promotors" /id="U778" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.63936063936064" /psig="0.63936063936064" /xcortree=613 /SigmaFactorBS="aatatttgcttcagccttacttaaacattcaagataAGGAAC AATacccttgtgatatTCGTCTGTTTATGGAaaaaaacgaagcaggtgaatggaatac a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" S_feature complement(1053254..1053359) /Source="Nicolas_S_feature" /locus_tag="new_1053254_1053359_c" /HighExp="S4, B36, S5, S6, S7, S8, B60, S3, T5.0H, BT" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S343" promotor_-10 complement(1053343..1053361) /Source="Nicolas_upshift_promotors" /id="U779" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1099 /SigmaFactorBS="ggagacaaattcctgttcttagaaaatcagcttgttcttttG GAATAgggcaaggtggagaaTCGTATTCTGTAAAGTAGAataccgtcagctgcgttcg t" /listShort="S343, yheC, yheD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1053363) /Source="Nicolas_upshifts" /id="U779" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1099 /SigmaFactorBS="ggagacaaattcctgttcttagaaaatcagcttgttcttttG GAATAgggcaaggtggagaaTCGTATTCTGTAAAGTAGAataccgtcagctgcgttcg t" /listShort="S343, yheC, yheD" /GFF_Attribute="listLong" promotor_-35 complement(1053377..1053382) /Source="Nicolas_upshift_promotors" /id="U779" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1099 /SigmaFactorBS="ggagacaaattcctgttcttagaaaatcagcttgttcttttG GAATAgggcaaggtggagaaTCGTATTCTGTAAAGTAGAataccgtcagctgcgttcg t" /listShort="S343, yheC, yheD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1053425..1053432 /Source="Nicolas_upshift_promotors" /id="U780" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.983016983016983" /psig=1 /xcortree=2000 /SigmaFactorBS="ttttctaagaacaggaatttgtctcctCGTTTGCTaagtgat tgcatgaGCCTCTATAATACGTATAGGtacataatctatatgaaaaaagctgaagcac a" /listShort="yheB, S344, yheA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1053447..1053466 /Source="Nicolas_upshift_promotors" /id="U780" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.983016983016983" /psig=1 /xcortree=2000 /SigmaFactorBS="ttttctaagaacaggaatttgtctcctCGTTTGCTaagtgat tgcatgaGCCTCTATAATACGTATAGGtacataatctatatgaaaaaagctgaagcac a" /listShort="yheB, S344, yheA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1053458 /Source="Nicolas_upshifts" /id="U780" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.983016983016983" /psig=1 /xcortree=2000 /SigmaFactorBS="ttttctaagaacaggaatttgtctcctCGTTTGCTaagtgat tgcatgaGCCTCTATAATACGTATAGGtacataatctatatgaaaaaagctgaagcac a" /listShort="yheB, S344, yheA" /GFF_Attribute="listLong" CDS 1053520..1054653 /gene="yheB" /locus_tag="BSU_09790" /old_locus_tag="BSU09790" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 16684363" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388860.1" /db_xref="EnsemblGenomes-Gn:BSU09790" /db_xref="EnsemblGenomes-Tr:CAB12818" /db_xref="GOA:O07543" /db_xref="InterPro:IPR007383" /db_xref="InterPro:IPR016991" /db_xref="SubtiList:BG13034" /db_xref="UniProtKB/Swiss-Prot:O07543" /translation="MGIAGTFIFMIVIGAAIGAVTNHLAIQMLFRPYKAYYLFGKRVP FTPGLIPRRRDELAKQMGLMVVNHLLTPEGIKKRLVSDAAKTQALRVGEQLIQKLSLS EVTVKEALEKAGMKRPEKAADAWISSWTDDKLHELFRQYGDQSLKELVPIEVQEKLEE KIPMISGYILSRSVRYFESDEGKIRLGNMIDDFLKERGMLGSMVQLFLGNSSLADRVL PELLKFLRNEETNKLLSDLLKNEWGKLREYTFNEADEKWNAKALIFSLKRRVLQAFST APFFNNTIGTLTVRYESELTQQMLPALLDKLLEGISSNLESVLKRLRLEEIVKEQVDQ FPVERLEEMVLSISKKEFKMITYLGGLLGGIIGAIQALFVILF*" gene 1053520..1054653 /gene="yheB" /locus_tag="BSU_09790" /old_locus_tag="BSU09790" S_feature 1054654..1054745 /Source="Nicolas_S_feature" /locus_tag="new_1054654_1054745" /HighExp="S4, S5, S6, BT, S3, S7, dia15, B36, G/S, LoTm" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S344" CDS 1054746..1055099 /gene="yheA" /locus_tag="BSU_09800" /old_locus_tag="BSU09800" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 19429628, 22720735" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388861.1" /db_xref="EnsemblGenomes-Gn:BSU09800" /db_xref="EnsemblGenomes-Tr:CAB12819" /db_xref="InterPro:IPR010368" /db_xref="InterPro:IPR023378" /db_xref="PDB:2OEE" /db_xref="SubtiList:BG13033" /db_xref="UniProtKB/Swiss-Prot:O07542" /translation="MAVNFYDVAYDLENALRGSEEFTRLKNLYDEVNADESAKRMFEN FRDVQLRLQQKQMAGEEITQEEVTQAQKTVALVQQHEKISQLMEAEQRMSMLIGELNK IIMKPLEELYGSVEG*" gene 1054746..1055099 /gene="yheA" /locus_tag="BSU_09800" /old_locus_tag="BSU09800" downshifts 1055087 /Source="Nicolas_upshifts" /id="D522" /incds=0 /nref=159 /ntot=259 /MaxReadThrough="1.55668" /MaxDrop="5.9901" /score="24.5275597" /energy="-12.3" /TU="NA" /idTUdmin="U780" /TUdmin=0 /isTUend="TRUE" CDS complement(1055143..1056216) /gene="yhaZ" /locus_tag="BSU_09810" /old_locus_tag="BSU09810" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 16267290, 22933559" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388862.1" /db_xref="EnsemblGenomes-Gn:BSU09810" /db_xref="EnsemblGenomes-Tr:CAB12820" /db_xref="GOA:O07541" /db_xref="InterPro:IPR011989" /db_xref="InterPro:IPR014825" /db_xref="InterPro:IPR016024" /db_xref="InterPro:IPR021133" /db_xref="SubtiList:BG13002" /db_xref="UniProtKB/Swiss-Prot:O07541" /translation="MADLKEIYNEELISQLIHHVRSSYPDFNKNRFLDTLRLEDWPEL TLKERMRRVTVSLYETLPKQYVEALTILRDTAPHFKGLSGILFPDYVEQYGLAHWEES IKALESFTQYSTSEFAVRPFLLLDQEKMIAQLLAWSEHKNEHVRRLASEGSRPRLPWG KSIPALKSDPSPVLPILEKLMQDESLYVRKSVANNLNDISKTHPHLLRKVADQWYGTH PHTDWIIKHAYRTLLKKGDKQALALFGYENADSIQLHDLTCQPKRIVIGESLEFSFYI HSDRDQKVRIEYAIDFVKARGQRHQKVFKITETNIRKNETKSYTRIQSFKDLTTRKHY KGIHTLSVIINGEVKDSLDFQVC*" gene complement(1055143..1056216) /gene="yhaZ" /locus_tag="BSU_09810" /old_locus_tag="BSU09810" downshifts complement(1055250) /Source="Nicolas_upshifts" /id="D523" /incds=1 /nref=16 /ntot=173 /MaxReadThrough="3.78071" /MaxDrop="3.586" /score="4.43596345" /energy="-12.3" /TU="U781" /idTUdmin="U781" /TUdmin="-109" /isTUend="FALSE" promotor_-10 complement(1056238..1056257) /Source="Nicolas_upshift_promotors" /id="U781" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.93006993006993" /psig=1 /xcortree=2090 /SigmaFactorBS="ggtaggatcagttgttaatttttaggactataCACTTGATcc agaacgtacatTCCCATACAATATAAATAATaaacgaaaaagcggtgtttatatggct g" /listShort="yhaZ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1056250) /Source="Nicolas_upshifts" /id="U781" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.93006993006993" /psig=1 /xcortree=2090 /SigmaFactorBS="ggtaggatcagttgttaatttttaggactataCACTTGATcc agaacgtacatTCCCATACAATATAAATAATaaacgaaaaagcggtgtttatatggct g" /listShort="yhaZ" /GFF_Attribute="listLong" promotor_-35 complement(1056271..1056278) /Source="Nicolas_upshift_promotors" /id="U781" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.93006993006993" /psig=1 /xcortree=2090 /SigmaFactorBS="ggtaggatcagttgttaatttttaggactataCACTTGATcc agaacgtacatTCCCATACAATATAAATAATaaacgaaaaagcggtgtttatatggct g" /listShort="yhaZ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1056353..1056360 /Source="Nicolas_upshift_promotors" /id="U782" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.882117882117882" /psig=1 /xcortree=344 /SigmaFactorBS="ggatatacaaaagttggttactttttttagttaaaaaaacCC TTGTCAtcggaaaggaaaacTGAGATAATAACATTGAAAGcgcctacacttacctatt t" /listShort="S345, S346, yhaX" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1056373 /Source="Nicolas_upshifts" /id="U782" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.882117882117882" /psig=1 /xcortree=344 /SigmaFactorBS="ggatatacaaaagttggttactttttttagttaaaaaaacCC TTGTCAtcggaaaggaaaacTGAGATAATAACATTGAAAGcgcctacacttacctatt t" /listShort="S345, S346, yhaX" /GFF_Attribute="listLong" promotor_-10 1056375..1056394 /Source="Nicolas_upshift_promotors" /id="U782" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.882117882117882" /psig=1 /xcortree=344 /SigmaFactorBS="ggatatacaaaagttggttactttttttagttaaaaaaacCC TTGTCAtcggaaaggaaaacTGAGATAATAACATTGAAAGcgcctacacttacctatt t" /listShort="S345, S346, yhaX" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1056384..1056537 /Source="Nicolas_S_feature" /locus_tag="new_1056384_1056537" /HighExp="M9-stat, BC, T0.30H, T1.30H, Lbstat, T1.0H, T3.30H, T2.0H, T3.0H, M40t90" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S345" downshifts 1056494 /Source="Nicolas_upshifts" /id="D524" /incds=0 /nref=1 /ntot=37 /MaxReadThrough="7.40404" /MaxDrop="2.6506" /score="-6.05745557" /energy="-4.8" /TU="U782" /idTUdmin="U782" /TUdmin="-1056" /isTUend="FALSE" S_feature 1056539..1056622 /Source="Nicolas_S_feature" /locus_tag="new_1056539_1056622" /HighExp="M9-stat, B60, T2.0H, T1.30H, T0.30H, T2.30H, T3.0H, T1.0H, Lbtran, BC" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S346" downshifts 1056579 /Source="Nicolas_upshifts" /id="D525" /incds=0 /nref=70 /ntot=231 /MaxReadThrough="4.88371" /MaxDrop="4.4099" /score="-6.05745557" /energy="-4.8" /TU="U782" /idTUdmin="U782" /TUdmin="-971" /isTUend="FALSE" promotor_-35 1056635..1056640 /Source="Nicolas_upshift_promotors" /id="U783" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1164 /SigmaFactorBS="gccaggctttttttgctttaagaaaaggttGTTCTAaacaca gagacagggTCATATCCTATACACAAGTacagtcatcaaggagggggacatctctgtg t" /listShort="yhaX, hemZ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1056656..1056674 /Source="Nicolas_upshift_promotors" /id="U783" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1164 /SigmaFactorBS="gccaggctttttttgctttaagaaaaggttGTTCTAaacaca gagacagggTCATATCCTATACACAAGTacagtcatcaaggagggggacatctctgtg t" /listShort="yhaX, hemZ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1056665 /Source="Nicolas_upshifts" /id="U783" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1164 /SigmaFactorBS="gccaggctttttttgctttaagaaaaggttGTTCTAaacaca gagacagggTCATATCCTATACACAAGTacagtcatcaaggagggggacatctctgtg t" /listShort="yhaX, hemZ" /GFF_Attribute="listLong" CDS 1056702..1057568 /gene="yhaX" /locus_tag="BSU_09830" /old_locus_tag="BSU09830" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 11988534; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative hydrolase" /protein_id="NP_388864.2" /db_xref="EnsemblGenomes-Gn:BSU09830" /db_xref="EnsemblGenomes-Tr:CAB12822" /db_xref="GOA:O07539" /db_xref="InterPro:IPR000150" /db_xref="InterPro:IPR006379" /db_xref="InterPro:IPR036412" /db_xref="PDB:3DNP" /db_xref="SubtiList:BG13000" /db_xref="UniProtKB/Swiss-Prot:O07539" /translation="MSKQLLALNIDGALLRSNGKIHQATKDAIEYVKKKGIYVTLVTN RHFRSAQKIAKSLKLDAKLITHSGAYIAEKIDAPFFEKRISDDHTFNIVQVLESYQCN IRLLHEKYSIGNKKKVNSNLLGKALIHPSDPIFYPVQFVESLSDLLMDEPVSAPVIEV YTEHDIQHDITETITKAFPAVDVIRVNDEKLNIVPKGVSKEAGLALVASELGLSMDDV VAIGHQYDDLPMIELAGLGVAMGNAVPEIKRKADWVTRSNDEQGVAYMMKEYFRMQQR KGFLDKFHMKRV*" gene 1056702..1057568 /gene="yhaX" /locus_tag="BSU_09830" /old_locus_tag="BSU09830" downshifts 1057550 /Source="Nicolas_upshifts" /id="D526" /incds=0 /nref=22 /ntot=67 /MaxReadThrough="3.99904" /MaxDrop="4.7771" /score="15.7706912" /energy="-16.6" /TU="U783" /idTUdmin="U782" /TUdmin=0 /isTUend="TRUE" promotor_-35 1057613..1057616 /Source="Nicolas_upshift_promotors" /id="U784" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.786213786213786" /psig=1 /xcortree=1455 /SigmaFactorBS="cgcgccctgacaggtgcggcggcttttttgccggATTGattt tagcagtttaTTTCTGTACACTAAAGAAAGttttgaatctgataaattaggtgatgaa g" /listShort="hemZ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1057631..1057650 /Source="Nicolas_upshift_promotors" /id="U784" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.786213786213786" /psig=1 /xcortree=1455 /SigmaFactorBS="cgcgccctgacaggtgcggcggcttttttgccggATTGattt tagcagtttaTTTCTGTACACTAAAGAAAGttttgaatctgataaattaggtgatgaa g" /listShort="hemZ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1057639 /Source="Nicolas_upshifts" /id="U784" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.786213786213786" /psig=1 /xcortree=1455 /SigmaFactorBS="cgcgccctgacaggtgcggcggcttttttgccggATTGattt tagcagtttaTTTCTGTACACTAAAGAAAGttttgaatctgataaattaggtgatgaa g" /listShort="hemZ" /GFF_Attribute="listLong" CDS 1057680..1059185 /gene="hemZ" /locus_tag="BSU_09840" /old_locus_tag="BSU09840" /EC_number="1.3.99.-" /function="16.2: Construct biomass (Anabolism)" /function="16.10: Respire" /experiment="publication(s) with functional evidences, PMID:10498703, 21255303" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10498703, 21255303; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="coproporphyrinogen III oxidase" /protein_id="NP_388865.1" /db_xref="EnsemblGenomes-Gn:BSU09840" /db_xref="EnsemblGenomes-Tr:CAB12823" /db_xref="GOA:Q796V8" /db_xref="InterPro:IPR006638" /db_xref="InterPro:IPR007197" /db_xref="InterPro:IPR013785" /db_xref="InterPro:IPR023995" /db_xref="InterPro:IPR034505" /db_xref="SubtiList:BG12999" /db_xref="UniProtKB/Swiss-Prot:Q796V8" /translation="MQIKIEGIHDDRLHRPLQNIANLFYEECELAYGGEEPADFVISL ALSQTDEHVTVSGEVKGTGIKEQHTKFFSPDMTEKEAFKQVKNTISYVYLNLLQAHTG ITQKWGILTGIRPTKLLHKKLQSGMSKEQAHAELKKDYLIHDEKIMLMQEIVDRQLAA VPDLYRVKDEVSIYIGIPFCPTKCAYCTFPAYAIQGQAGRVGSFLWGLHYEMQKIGEW LKEHDVKVTTIYFGGGTPTSITAEEMDLLYEEMVRSFPDVKNIREITVEAGRPDTITE EKLAVLNKYDIDRISINPQSYENETLKAIGRHHTVEETIEKYHLSRQHGMNNINMDLI IGLPGEGVKEFRHSLSETEKLMPESLTVHTLSFKRASEMTRNKHKYKVAGREEVSQMM EDAVAWTKEHGYVPYYLYRQKNILGNLENVGYSLPGQESIYNIMIMEEVQTIIGIGCG AASKFIDRDTGKITHFANPKDPKSYNERFEHYTDEKIKYLEQIFEKTTKQH*" gene 1057680..1059185 /gene="hemZ" /locus_tag="BSU_09840" /old_locus_tag="BSU09840" downshifts 1059155 /Source="Nicolas_upshifts" /id="D527" /incds=0 /nref=113 /ntot=234 /MaxReadThrough="0.523269999999999" /MaxDrop="5.05369" /score="38.1573779" /energy="-14.4" /TU="NA" /idTUdmin="U783" /TUdmin="-1" /isTUend="TRUE" CDS complement(1059203..1060420) /gene="khtU" /locus_tag="BSU_09850" /old_locus_tag="BSU09850" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:7934942, 14987767, 15849754, 15919996, 16850406, 24330391" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7934942, 14987767, 15849754, 15919996, 16850406, 24330391; Product type t : transporter" /codon_start=1 /transl_table=11 /product="proton/potassium antiporter; methylglyoxal resistance" /protein_id="NP_388866.2" /db_xref="EnsemblGenomes-Gn:BSU09850" /db_xref="EnsemblGenomes-Tr:CAB12825" /db_xref="GOA:O07536" /db_xref="InterPro:IPR006153" /db_xref="SubtiList:BG12997" /db_xref="UniProtKB/Swiss-Prot:O07536" /translation="MDHLVFEVGTALVLVAIASVIANKIKFSIIPFLIVLGMLVGPHA PKMGIIDLTFIQSSEIIEFFGRMGVLFLLFYLGLEFSVGKLIKSGKSIAVGGTIYILI NFSLGLLYGFITGFSFLEVLILAGVITISSSAIVAKVLVDLKRTANPETELILGIIMF EDIFLAVYLSVVSGLILGDATSVGSALLSILIAFGYMLLFFIAARKLPPLLNKLLDIR SNEVFIIVIFAALFFIAGFSETIHVAEAIGALLLGLVFSETEHSDRIEHLVVPFRDFF GAMFFFSFGLSIDPFSLGEAVWLALGAVILTILGNFIAGMVAGRRAGLSHKASSNIGL TIVSRGEFSIIVANLGIAGGLSATLKPFAALYVLILAILGPLVTKESKRIYRLLNKVF KWKPEVQPAKKQG*" gene complement(1059203..1060420) /gene="khtU" /locus_tag="BSU_09850" /old_locus_tag="BSU09850" downshifts complement(1059209) /Source="Nicolas_upshifts" /id="D528" /incds=0 /nref=154 /ntot=249 /MaxReadThrough="1.74386" /MaxDrop="6.8685" /score="8.64654688" /energy="-14.4" /TU="NA" /idTUdmin="U785" /TUdmin=1 /isTUend="TRUE" CDS complement(1060427..1060924) /gene="khtT" /locus_tag="BSU_09860" /old_locus_tag="BSU09860" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:14987767, 17679694" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14987767, 17679694; Product type t: transporter" /codon_start=1 /transl_table=11 /product="K+/H+ antiporter for K+ efflux" /protein_id="NP_388867.1" /db_xref="EnsemblGenomes-Gn:BSU09860" /db_xref="EnsemblGenomes-Tr:CAB12826" /db_xref="GOA:O07535" /db_xref="InterPro:IPR006037" /db_xref="InterPro:IPR026278" /db_xref="InterPro:IPR036721" /db_xref="SubtiList:BG12996" /db_xref="UniProtKB/Swiss-Prot:O07535" /translation="MNIKENDLPGIGKKFEIETRSHEKMTIIIHDDGRREIYRFNDRD PDELLSNISLDDSEARQIAAILGGMVYKPQALESIEMAFSDLIIEWFKVEKGAKSIGR TLGELDVRQNYDVTVIAIIKHNQEKLLNPGADSIIEENDTLVLSGERKHLKKLIHDFL SGEGV*" gene complement(1060427..1060924) /gene="khtT" /locus_tag="BSU_09860" /old_locus_tag="BSU09860" CDS complement(1060988..1061326) /gene="khtS" /locus_tag="BSU_09870" /old_locus_tag="BSU09870" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:14987767, 17679694" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14987767, 17679694; Product type t: transporter" /codon_start=1 /transl_table=11 /product="K+/H+ antiporter for K+ efflux" /protein_id="NP_388868.1" /db_xref="EnsemblGenomes-Gn:BSU09870" /db_xref="EnsemblGenomes-Tr:CAB12827" /db_xref="GOA:O07534" /db_xref="SubtiList:BG12995" /db_xref="UniProtKB/Swiss-Prot:O07534" /translation="MRREERNMDKLLISFLLSLFMVYFPPSDVVLPSQFEASTDSYVP MSSYPQETQSAKTPSPGSMHPAELIKEYSPLAQSVRQLSVKPLDEPLINRLEKALAVP VKYQSNYLRI*" gene complement(1060988..1061326) /gene="khtS" /locus_tag="BSU_09870" /old_locus_tag="BSU09870" promotor_-10 complement(1061338..1061357) /Source="Nicolas_upshift_promotors" /id="U785" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.95004995004995" /psig="0.97902097902098" /xcortree=628 /SigmaFactorBS="acctttttatttttcaaggtcaatagatactgaaaaatgcat atTGTTTGAAtggaaacataaagTTTTATATAGTGAAAAAGAAgggatatcttgatga g" /listShort="khtS, khtT, yhaU" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1061362) /Source="Nicolas_upshifts" /id="U785" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.95004995004995" /psig="0.97902097902098" /xcortree=628 /SigmaFactorBS="acctttttatttttcaaggtcaatagatactgaaaaatgcat atTGTTTGAAtggaaacataaagTTTTATATAGTGAAAAAGAAgggatatcttgatga g" /listShort="khtS, khtT, yhaU" /GFF_Attribute="listLong" promotor_-35 complement(1061371..1061378) /Source="Nicolas_upshift_promotors" /id="U785" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.95004995004995" /psig="0.97902097902098" /xcortree=628 /SigmaFactorBS="acctttttatttttcaaggtcaatagatactgaaaaatgcat atTGTTTGAAtggaaacataaagTTTTATATAGTGAAAAAGAAgggatatcttgatga g" /listShort="khtS, khtT, yhaU" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1061398..1061405 /Source="Nicolas_upshift_promotors" /id="U786" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.825174825174825" /psig="0.971028971028971" /xcortree=364 /SigmaFactorBS="attcaaacaatatgcatttttcagtatcTATTGACCttgaaa aataaaaaGGTTTATTTGGGGATGGCGGggaatgtataggagaaagaaaaaagtaagc g" /listShort="yhaR" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1061420..1061439 /Source="Nicolas_upshift_promotors" /id="U786" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.825174825174825" /psig="0.971028971028971" /xcortree=364 /SigmaFactorBS="attcaaacaatatgcatttttcagtatcTATTGACCttgaaa aataaaaaGGTTTATTTGGGGATGGCGGggaatgtataggagaaagaaaaaagtaagc g" /listShort="yhaR" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1061430 /Source="Nicolas_upshifts" /id="U786" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.825174825174825" /psig="0.971028971028971" /xcortree=364 /SigmaFactorBS="attcaaacaatatgcatttttcagtatcTATTGACCttgaaa aataaaaaGGTTTATTTGGGGATGGCGGggaatgtataggagaaagaaaaaagtaagc g" /listShort="yhaR" /GFF_Attribute="listLong" CDS 1061491..1062258 /gene="yhaR" /locus_tag="BSU_09880" /old_locus_tag="BSU09880" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 22961985; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative dehydratase / isomerase" /protein_id="NP_388869.3" /db_xref="EnsemblGenomes-Gn:BSU09880" /db_xref="EnsemblGenomes-Tr:CAB12828" /db_xref="GOA:O07533" /db_xref="InterPro:IPR001753" /db_xref="InterPro:IPR014748" /db_xref="InterPro:IPR029045" /db_xref="SubtiList:BG12994" /db_xref="UniProtKB/Swiss-Prot:O07533" /translation="MEFVQYACNGAVAEIILNRPDAHHALNEQMLSELKEAVEMAAAS EALIVLLRGSGKGFSAGGDIRMMTSEHDPDQFKRLMDTIEAVTLNLYQMKKVTIAAIH GAAAGLGLSLALCADIVLAEKNAVLAMNFIGIGLVPDGGGHYLLKKRIGEAKAKKLIW SGKKLSASEAADMGLLDGTFAGDPAEGARPIIETLLASPLLAMIETKGIFQSLQIEEL KKVLSLERSAQERMRRTKDHQEGIRAFLEKREPKFQA*" gene 1061491..1062258 /gene="yhaR" /locus_tag="BSU_09880" /old_locus_tag="BSU09880" downshifts 1062259 /Source="Nicolas_upshifts" /id="D529" /incds=0 /nref=2 /ntot=99 /MaxReadThrough="1.78111" /MaxDrop="4.66019" /score="-8.79921781" /energy="-7.5" /TU="NA" /idTUdmin="U786" /TUdmin=0 /isTUend="TRUE" CDS complement(1062279..1062464) /gene="yhzD" /locus_tag="BSU_09889" /old_locus_tag="BSU09889" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="YP_003097698.1" /db_xref="EnsemblGenomes-Gn:BSU09889" /db_xref="EnsemblGenomes-Tr:CAX52586" /db_xref="InterPro:IPR025544" /db_xref="UniProtKB/Swiss-Prot:C0H3Y1" /translation="MADYFLTVFDPSGNTLVNEQFEAEHEEAAKTHGEALLKEKELHS HTHRLVNAAGKLILFHR*" gene complement(1062279..1062464) /gene="yhzD" /locus_tag="BSU_09889" /old_locus_tag="BSU09889" promotor_-10 complement(1062500..1062518) /Source="Nicolas_upshift_promotors" /id="U787" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.637362637362637" /psig="0.637362637362637" /xcortree=957 /SigmaFactorBS="acccattatatactaattttggataaagcataatAAAGGATT TtgatttccttTTTAGAATATAAATGAAGAaagactgataaaccttaaaatggaggag a" /listShort="yhzD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1062511) /Source="Nicolas_upshifts" /id="U787" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.637362637362637" /psig="0.637362637362637" /xcortree=957 /SigmaFactorBS="acccattatatactaattttggataaagcataatAAAGGATT TtgatttccttTTTAGAATATAAATGAAGAaagactgataaaccttaaaatggaggag a" /listShort="yhzD" /GFF_Attribute="listLong" promotor_-35 complement(1062529..1062537) /Source="Nicolas_upshift_promotors" /id="U787" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.637362637362637" /psig="0.637362637362637" /xcortree=957 /SigmaFactorBS="acccattatatactaattttggataaagcataatAAAGGATT TtgatttccttTTTAGAATATAAATGAAGAaagactgataaaccttaaaatggaggag a" /listShort="yhzD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1062538..1062541 /Source="Nicolas_upshift_promotors" /id="U788" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.797202797202797" /psig="0.974025974025974" /xcortree=2418 /SigmaFactorBS="tttatattctaaaaaggaaatcaaaatcctttATTAtgcttt atccaaaaTTAGTATATAATGGGTCAGGgaaggaggagattcagtgcttacaattgat c" /listShort="natA, natB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1062556..1062575 /Source="Nicolas_upshift_promotors" /id="U788" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.797202797202797" /psig="0.974025974025974" /xcortree=2418 /SigmaFactorBS="tttatattctaaaaaggaaatcaaaatcctttATTAtgcttt atccaaaaTTAGTATATAATGGGTCAGGgaaggaggagattcagtgcttacaattgat c" /listShort="natA, natB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1062566 /Source="Nicolas_upshifts" /id="U788" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.797202797202797" /psig="0.974025974025974" /xcortree=2418 /SigmaFactorBS="tttatattctaaaaaggaaatcaaaatcctttATTAtgcttt atccaaaaTTAGTATATAATGGGTCAGGgaaggaggagattcagtgcttacaattgat c" /listShort="natA, natB" /GFF_Attribute="listLong" CDS 1062591..1063487 /gene="yhaQ" /locus_tag="BSU_09890" /old_locus_tag="BSU09890" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 9106203, 10356997, 12374817; Product type t: transporter" /codon_start=1 /transl_table=11 /product="Na+-dependent efflux ABC transporter (ATP-binding protein)" /protein_id="NP_388870.2" /db_xref="EnsemblGenomes-Gn:BSU09890" /db_xref="EnsemblGenomes-Tr:CAB12829" /db_xref="GOA:C0SPB4" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR025302" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG12993" /db_xref="UniProtKB/Swiss-Prot:C0SPB4" /translation="MLTIDHVTKTFGDYKAVDGLDLDIPEQQMFGLLGANGAGKTTTF RMILGLLSITEGSISWKGRPVNYHISNKIGYLPEERGLYPKMKVRDQLVYLARLKGME KREAVKELGTWLERFNITDYENKKVEELSKGNQQKIQFISAVLHKPELLILDEPFSGL DPVNVELLKEAVISLKNSGVSILFSSHRMEHVEELCENLCILQKGKPVVQGKLKEIKR SFGKKNVTIHSDDDLRFLQSHEGILQWKETADGVKLQIANEDISQEIFAMLQGKGFIR KFELEEPSLHDIFIEKVGAVYE*" gene 1062591..1063487 /gene="yhaQ" /locus_tag="BSU_09890" /old_locus_tag="BSU09890" CDS 1063480..1064739 /gene="yhaP" /locus_tag="BSU_09900" /old_locus_tag="BSU09900" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 9106203, 10356997, 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="Na+-dependent exporter (ABC permease)" /protein_id="NP_388871.2" /db_xref="EnsemblGenomes-Gn:BSU09900" /db_xref="EnsemblGenomes-Tr:CAB12830" /db_xref="GOA:O07523" /db_xref="SubtiList:BG12992" /db_xref="UniProtKB/Swiss-Prot:O07523" /translation="MNKFWIMLSHTYKNKIMAKSFIISTVITVLLVLVVTNLESIISL FQGDDAKEKIAVVDETNELYPVFSKQLKAVDTDGDLDVKLSKQSEDEVTKQVKDESLD GMLIIKRDEKGTISGTYKALTISDESTYQTLQQALTQTKTAVGTAELGVSQETISSLY APVTVGQKALKEGAKSEEELGQTVGLVYIMLFVIYFSVIMYASMIAMEVATEKSSRVM EILISSMPPIQQMFAKLLGIGLVGITQLAIIIGAGSLSLKLNQKSETASSVGGFLNLT DVSATTVIYAVIFFLLGYFLYATLAAFLGSVVSRIEDVQQTITPMTLLVVAGFMIAMF GLNAPDAGFITVTSFIPFFTPMIMFLRVGMLDIPFWQAAVGIGITLLTIVILAVIGAR IYKGGVLIYGNSSAFKAIKQALRLAKN*" gene 1063480..1064739 /gene="yhaP" /locus_tag="BSU_09900" /old_locus_tag="BSU09900" downshifts 1064723 /Source="Nicolas_upshifts" /id="D530" /incds=0 /nref=19 /ntot=187 /MaxReadThrough="2.50232" /MaxDrop="3.26822" /score="8.93460501" /energy="-12.8" /TU="NA" /idTUdmin="U788" /TUdmin=0 /isTUend="TRUE" promotor_-35 1064787..1064794 /Source="Nicolas_upshift_promotors" /id="U789" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.682317682317682" /psig="0.998001998001998" /xcortree=2088 /SigmaFactorBS="cctggggattctcaggctgtttctttattgacagaaCGTGCA TTcgcaagaattcGGTGCTAAAATAAGGGTACTtcatcctggaaaggagcagaatgtt g" /listShort="yhaO, yhaN, yhaM" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1064806..1064825 /Source="Nicolas_upshift_promotors" /id="U789" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.682317682317682" /psig="0.998001998001998" /xcortree=2088 /SigmaFactorBS="cctggggattctcaggctgtttctttattgacagaaCGTGCA TTcgcaagaattcGGTGCTAAAATAAGGGTACTtcatcctggaaaggagcagaatgtt g" /listShort="yhaO, yhaN, yhaM" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1064811 /Source="Nicolas_upshifts" /id="U789" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.682317682317682" /psig="0.998001998001998" /xcortree=2088 /SigmaFactorBS="cctggggattctcaggctgtttctttattgacagaaCGTGCA TTcgcaagaattcGGTGCTAAAATAAGGGTACTtcatcctggaaaggagcagaatgtt g" /listShort="yhaO, yhaN, yhaM" /GFF_Attribute="listLong" CDS 1064846..1066072 /gene="yhaO" /locus_tag="BSU_09910" /old_locus_tag="BSU09910" /function="16.11: Scavenge (Catabolism)" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 16267290; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative DNA repair exonuclease" /protein_id="NP_388872.1" /db_xref="EnsemblGenomes-Gn:BSU09910" /db_xref="EnsemblGenomes-Tr:CAB12831" /db_xref="GOA:O07522" /db_xref="InterPro:IPR004843" /db_xref="InterPro:IPR014576" /db_xref="InterPro:IPR029052" /db_xref="SubtiList:BG12991" /db_xref="UniProtKB/Swiss-Prot:O07522" /translation="MLTDLTFIHAADLHLDSPFYGISHLPEPIFARIKESTFASVRHM IDAAVREHVDFILLAGDLFDEANRSLKAQLFLKKQFERLRECGISVYVIFGNHDHLGG EWTPIEWPENVHIFSSAVPEEKSFFKEGRRIASIYGFSYQARALMENQAARYRRSTDA PFHIGMLHGTLSGSEGHDPYCPFTHDDLVKSGMDYWALGHIHKRQVLSAEHPAVIYPG NTQARHIKETGDKGYYLVHVTNGDISYEFQRAHDVLWEKAAVDVTEAKNMTALFQMVE DTFSKLRKKGSPVCVRLVLQGTAPEWLLEAPKGTLDEFLEALQEQEAEEERFVWPLRL DDETENEANLTNLDPFFGGLFEDIDRSDLSDVLEGLERHPVYRRHADRFSQEEVKEIK EQAQIILKRQLKVLDT*" gene 1064846..1066072 /gene="yhaO" /locus_tag="BSU_09910" /old_locus_tag="BSU09910" downshifts complement(1065547) /Source="Nicolas_upshifts" /id="D531" /incds=1 /nref=1 /ntot=20 /MaxReadThrough="0.0165100000000002" /MaxDrop="3.62411" /score="-5.83060322" /energy="-15.2" /TU="NA" /idTUdmin="U787" /TUdmin="-3300" /isTUend="FALSE" CDS 1066077..1068968 /gene="sbcE" /locus_tag="BSU_09920" /old_locus_tag="BSU09920" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:16267290, 19906728, 21517913" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16267290, 19906728, 21517913; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="ATPase involved in DNA double strand break repair and recombination" /protein_id="NP_388873.1" /db_xref="EnsemblGenomes-Gn:BSU09920" /db_xref="EnsemblGenomes-Tr:CAB12832" /db_xref="GOA:O08455" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG12990" /db_xref="UniProtKB/Swiss-Prot:O08455" /translation="MTALRIISLHIYQYGKFSNRTFDFSASPVQVIYGLNEAGKTTMM SFIESMLFGFPKTKKYEPKTGGVYGGVLEAEHPEYGVLKIERTKGTAEKLSVYTEKGE VKQGDVLKQLFQGTDRSLYKAIYSFDVFGLQEIHAFNRDKIGEFLLFSSLFGAEAVSK LDSRLTKESERLYKPNGRNPQLNQELETLKQLAVKLKQAEAEEAGYHQLLEEKRTLEA RLAAAETELKETAGHIRMIEGAIERKPLLNEKATLEQVIAEFPEHAGQFPADGLHQLE KYESHLHPKSAQLEALRVKMAELDKQRQKLIPDKELLAKETLIQELSAAFHMYQSWGE QLAAIQAQLRQTSAQTAAGLEQLNKTDENELLNMNTSYDYEWQLQQAVQQYVQARDRK RQLDETFELARQELEDAEKAVRAASSAILENSQRKDKEAALRAYDETQGQHQEQAKLR EQLTFFERQQAKQKKTVIAAGMLFIVLFSLLQQWIPAISFGAALIVYWLVSGKSSSRN SRETRQPMTDISPAEAEMLREALWEDDRNKQHLLTQRAALQQKEAAYERVIQQFEQWE AEMAPSFTQVERFMNELGFKEDPSFLLDAYSLMKDVKKEVKKKHELTIEAGRLKKHRR TFEERVSMLLPVNQSQDISISDALHTLRKNIEREKEIEKQKKEIETDIHYTKEQMLEL EQEIQYFHAQIEQLFAAAAAKDRDAFFAIAAISRQLKDTENKLHHVNAQLQGGYPEEL ELADSNTLSELKDKQFVENERKERLTEEIEQLRSQIALLSVKQEQLEASGMVSDLKLQ TEMQKERVKETAKKWASIQMVKQVIRNKLERHKKIELPRLLETAGEFFRPLTDGNYQT IYFSETDDSIMVMHRDGTVYHAEELSQGTCEQLYTAIRFALAVTRQGESKLPFQLDDS FVHFDQERLKRVLHVLYDLSEGGRQILYFTCHEHVKDAFHSSQIIHLVS*" gene 1066077..1068968 /gene="sbcE" /locus_tag="BSU_09920" /old_locus_tag="BSU09920" promotor_-35 1067358..1067363 /Source="Nicolas_upshift_promotors" /id="U790" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.983016983016983" /psig="0.983016983016983" /xcortree=796 /SigmaFactorBS="tcgtccgcgattcttgaaaacagccaaagaaaaGATAAAgaa gcagctcttagaGCATATGATGAAACACAGGggcagcaccaagagcaagcgaagctca g" /listShort="yhaM" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1067379..1067397 /Source="Nicolas_upshift_promotors" /id="U790" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.983016983016983" /psig="0.983016983016983" /xcortree=796 /SigmaFactorBS="tcgtccgcgattcttgaaaacagccaaagaaaaGATAAAgaa gcagctcttagaGCATATGATGAAACACAGGggcagcaccaagagcaagcgaagctca g" /listShort="yhaM" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1067385 /Source="Nicolas_upshifts" /id="U790" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.983016983016983" /psig="0.983016983016983" /xcortree=796 /SigmaFactorBS="tcgtccgcgattcttgaaaacagccaaagaaaaGATAAAgaa gcagctcttagaGCATATGATGAAACACAGGggcagcaccaagagcaagcgaagctca g" /listShort="yhaM" /GFF_Attribute="listLong" promotor_-35 1068976..1068981 /Source="Nicolas_upshift_promotors" /id="U791" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.420579420579421" /psig="0.998001998001998" /xcortree=2174 /SigmaFactorBS="atccatttggtgtcataaaagaggtTCTATAgctgaaaatcg gtaTGTGATATACTGGTATTATGtaagatacggagggagctttaatagaatggctaaa g" /listShort="yhaM" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1068996..1069015 /Source="Nicolas_upshift_promotors" /id="U791" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.420579420579421" /psig="0.998001998001998" /xcortree=2174 /SigmaFactorBS="atccatttggtgtcataaaagaggtTCTATAgctgaaaatcg gtaTGTGATATACTGGTATTATGtaagatacggagggagctttaatagaatggctaaa g" /listShort="yhaM" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1069011 /Source="Nicolas_upshifts" /id="U791" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.420579420579421" /psig="0.998001998001998" /xcortree=2174 /SigmaFactorBS="atccatttggtgtcataaaagaggtTCTATAgctgaaaatcg gtaTGTGATATACTGGTATTATGtaagatacggagggagctttaatagaatggctaaa g" /listShort="yhaM" /GFF_Attribute="listLong" CDS 1069042..1069986 /gene="yhaM" /locus_tag="BSU_09930" /old_locus_tag="BSU09930" /EC_number="3.1.-.-" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:12399495, 15805522, 15983136, 16267290, 19553197, 19880604" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12399495, 15805522, 15983136, 16267290, 19553197, 19880604; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="3'-5' exonuclease" /protein_id="NP_388874.1" /db_xref="EnsemblGenomes-Gn:BSU09930" /db_xref="EnsemblGenomes-Tr:CAB12833" /db_xref="GOA:O07521" /db_xref="InterPro:IPR003607" /db_xref="InterPro:IPR006674" /db_xref="InterPro:IPR012340" /db_xref="InterPro:IPR020873" /db_xref="SubtiList:BG12989" /db_xref="UniProtKB/Swiss-Prot:O07521" /translation="MAKGIMLHEVGEQVDQYLLIKSSTKGIASNGKPFLTLMLQDQSG DIEAKLWDAKQSDEVTYAPQTIVKVVGDVHHYRGRTQLKLRNIRPVSEQENVNIDDFL ETAPIPKNEMMDTITQYIFEMKNPNIQRITRFLVKKHEAEFMDYPAATKNHHEFVSGL AYHVVSMLNLAKAIADLYPSLDRDLLYAGVILHDLGKVKELSGPVSTSYTVEGNLLGH ISIMVTELSKAAEELQIDSEEVLILQHLILSHHGKAEWGSPKPPMVKEAEILHYIDNL DAKMNMMDRALERVKPGEYTERVFALENRSFYKPTFHK*" gene 1069042..1069986 /gene="yhaM" /locus_tag="BSU_09930" /old_locus_tag="BSU09930" downshifts 1069964 /Source="Nicolas_upshifts" /id="D532" /incds=0 /nref=183 /ntot=261 /MaxReadThrough="3.02818" /MaxDrop="5.88173" /score="6.06919899" /energy="-15.8" /TU="NA" /idTUdmin="U789" /TUdmin=5 /isTUend="TRUE" promotor_-35 1070045..1070050 /Source="Nicolas_upshift_promotors" /id="U792" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1159 /SigmaFactorBS="atattcagctcagtcctttttgatgcgtctttcccgCACATA actcgtctcattcccGCATATGGTTAAGAATAAAgaatctatgcaaagggggaggagc c" /listShort="yhaL" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1070066..1070084 /Source="Nicolas_upshift_promotors" /id="U792" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1159 /SigmaFactorBS="atattcagctcagtcctttttgatgcgtctttcccgCACATA actcgtctcattcccGCATATGGTTAAGAATAAAgaatctatgcaaagggggaggagc c" /listShort="yhaL" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1070069 /Source="Nicolas_upshifts" /id="U792" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1159 /SigmaFactorBS="atattcagctcagtcctttttgatgcgtctttcccgCACATA actcgtctcattcccGCATATGGTTAAGAATAAAgaatctatgcaaagggggaggagc c" /listShort="yhaL" /GFF_Attribute="listLong" CDS 1070111..1070323 /gene="yhaL" /locus_tag="BSU_09940" /old_locus_tag="BSU09940" /function="16.8: Protect" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:14523133" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14523133; Product type ph: phenotype" /codon_start=1 /transl_table=11 /product="sporulation factor" /protein_id="NP_388875.1" /db_xref="EnsemblGenomes-Gn:BSU09940" /db_xref="EnsemblGenomes-Tr:CAB12834" /db_xref="GOA:O07520" /db_xref="InterPro:IPR025428" /db_xref="SubtiList:BG12988" /db_xref="UniProtKB/Swiss-Prot:O07520" /translation="MLFFPWWVYLCIVGIIFSAYKLVAAAKEEEKVDQAFIEKEGQIY MERMEKERERRSSQQHEEENQNHSIA*" gene 1070111..1070323 /gene="yhaL" /locus_tag="BSU_09940" /old_locus_tag="BSU09940" downshifts 1070316 /Source="Nicolas_upshifts" /id="D533" /incds=0 /nref=8 /ntot=158 /MaxReadThrough="2.03283" /MaxDrop="6.60832" /score="62.1892984" /energy="-22" /TU="NA" /idTUdmin="U792" /TUdmin=5 /isTUend="TRUE" downshifts complement(1070354) /Source="Nicolas_upshifts" /id="D534" /incds=0 /nref=97 /ntot=260 /MaxReadThrough="0.90997" /MaxDrop="9.00938" /score="52.3375501" /energy="-22" /TU="NA" /idTUdmin="U793" /TUdmin=11 /isTUend="TRUE" CDS complement(1070364..1071242) /gene="prsA" /locus_tag="BSU_09950" /old_locus_tag="BSU09950" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:12634326, 12682299, 14976191, 16516208, 25525259, 26711778" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12634326, 12682299, 14976191, 16516208, 25525259, 26711778; Product type lp : lipoprotein" /codon_start=1 /transl_table=11 /product="molecular chaperone lipoprotein" /protein_id="NP_388876.1" /db_xref="EnsemblGenomes-Gn:BSU09950" /db_xref="EnsemblGenomes-Tr:CAB12835" /db_xref="GOA:P24327" /db_xref="InterPro:IPR000297" /db_xref="InterPro:IPR008880" /db_xref="InterPro:IPR023058" /db_xref="InterPro:IPR023059" /db_xref="InterPro:IPR027304" /db_xref="PDB:1ZK6" /db_xref="PDB:4WO7" /db_xref="SubtiList:BG10464" /db_xref="UniProtKB/Swiss-Prot:P24327" /translation="MKKIAIAAITATSILALSACSSGDKEVIAKTDAGDVTKGELYTN MKKTAGASVLTQLVQEKVLDKKYKVSDKEIDNKLKEYKTQLGDQYTALEKQYGKDYLK EQVKYELLTQKAAKDNIKVTDADIKEYWEGLKGKIRASHILVADKKTAEEVEKKLKKG EKFEDLAKEYSTDSSASKGGDLGWFAKEGQMDETFSKAAFKLKTGEVSDPVKTQYGYH IIKKTEERGKYDDMKKELKSEVLEQKLNDNAAVQEAVQKVMKKADIEVKDKDLKDTFN TSSTSNSTSSSSSNSK*" gene complement(1070364..1071242) /gene="prsA" /locus_tag="BSU_09950" /old_locus_tag="BSU09950" downshifts complement(1070552) /Source="Nicolas_upshifts" /id="D535" /incds=1 /nref=10 /ntot=127 /MaxReadThrough="7.54458" /MaxDrop="3.5906" /score="52.3375501" /energy="-22" /TU="U793" /idTUdmin="U793" /TUdmin="-187" /isTUend="FALSE" promotor_-10 complement(1071280..1071299) /Source="Nicolas_upshift_promotors" /id="U793" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.565434565434565" /psig="0.996003996003996" /xcortree=1995 /SigmaFactorBS="gtcatcagcaaaagtttgactagacgaatgccctttatttaa aaTCTTTTTAcagaaagccacaaTATGTTATGATACGCATAGGtaatttaatttggaa t" /listShort="prsA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1071304) /Source="Nicolas_upshifts" /id="U793" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.565434565434565" /psig="0.996003996003996" /xcortree=1995 /SigmaFactorBS="gtcatcagcaaaagtttgactagacgaatgccctttatttaa aaTCTTTTTAcagaaagccacaaTATGTTATGATACGCATAGGtaatttaatttggaa t" /listShort="prsA" /GFF_Attribute="listLong" promotor_-35 complement(1071313..1071320) /Source="Nicolas_upshift_promotors" /id="U793" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.565434565434565" /psig="0.996003996003996" /xcortree=1995 /SigmaFactorBS="gtcatcagcaaaagtttgactagacgaatgccctttatttaa aaTCTTTTTAcagaaagccacaaTATGTTATGATACGCATAGGtaatttaatttggaa t" /listShort="prsA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1071340..1071349 /Source="Nicolas_upshift_promotors" /id="U794" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.995004995004995" /psig="0.995004995004995" /xcortree=1349 /SigmaFactorBS="tgtggctttctgtaaaaagattttaaataaagggcattcGTC TAGTCAAacttttgctgatGACATACTTATATATTGATCaagaaaaggaggtatgtaa c" /listShort="yhzE, S347, S349" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1071361 /Source="Nicolas_upshifts" /id="U794" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.995004995004995" /psig="0.995004995004995" /xcortree=1349 /SigmaFactorBS="tgtggctttctgtaaaaagattttaaataaagggcattcGTC TAGTCAAacttttgctgatGACATACTTATATATTGATCaagaaaaggaggtatgtaa c" /listShort="yhzE, S347, S349" /GFF_Attribute="listLong" promotor_-10 1071362..1071381 /Source="Nicolas_upshift_promotors" /id="U794" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.995004995004995" /psig="0.995004995004995" /xcortree=1349 /SigmaFactorBS="tgtggctttctgtaaaaagattttaaataaagggcattcGTC TAGTCAAacttttgctgatGACATACTTATATATTGATCaagaaaaggaggtatgtaa c" /listShort="yhzE, S347, S349" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-10 complement(1071398..1071412) /Source="Nicolas_upshift_promotors" /id="U795" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp=1 /psig=0 /xcortree=700 /SigmaFactorBS="taagcaaaatgaacagtactacgagcaacgcgaaTCCGTtag agtatCCTCCGCTCATGTTAcatacctccttttcttgatcaatatataagtatgtcat c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1071399) /Source="Nicolas_upshifts" /id="U795" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp=1 /psig=0 /xcortree=700 /SigmaFactorBS="taagcaaaatgaacagtactacgagcaacgcgaaTCCGTtag agtatCCTCCGCTCATGTTAcatacctccttttcttgatcaatatataagtatgtcat c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS 1071402..1071488 /gene="sscA" /locus_tag="BSU_09958" /old_locus_tag="BSU09958" /function="15.7: Sporulation and germination" /experiment="publication(s) with functional evidences, PMID:20156992, 21670523" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 20156992, 21670523; Product type ph: phenotype" /codon_start=1 /transl_table=11 /product="spore assembly and germination protein" /protein_id="YP_003097699.1" /db_xref="EnsemblGenomes-Gn:BSU09958" /db_xref="EnsemblGenomes-Tr:CAX52587" /db_xref="GOA:C0H3Y2" /db_xref="InterPro:IPR010070" /db_xref="UniProtKB/Swiss-Prot:C0H3Y2" /translation="MSGGYSNGFALLVVLFILLIIVGAAYIY*" gene 1071402..1071488 /gene="sscA" /locus_tag="BSU_09958" /old_locus_tag="BSU09958" promotor_-35 complement(1071421..1071425) /Source="Nicolas_upshift_promotors" /id="U795" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp=1 /psig=0 /xcortree=700 /SigmaFactorBS="taagcaaaatgaacagtactacgagcaacgcgaaTCCGTtag agtatCCTCCGCTCATGTTAcatacctccttttcttgatcaatatataagtatgtcat c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 1071489..1071740 /Source="Nicolas_S_feature" /locus_tag="new_1071489_1071740" /HighExp="S8, S7, S6, BT, G/S, B36, Pyr, S5, B60, Glucon" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba=1 /TUshortSig="SigK" /TUshortPSig="0.995" /TUlongSig="NA" /TUlongPSig="NA" /label="S347" CDS 1071613..1071699 /gene="sscB" /locus_tag="BSU_09959" /old_locus_tag="BSU09959" /function="15.7: Sporulation and germination" /experiment="publication(s) with functional evidences, PMID:21670523" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 21670523; Product type f: factor" /codon_start=1 /transl_table=11 /product="spore and germination protein" /protein_id="YP_009513948.1" /db_xref="EnsemblGenomes-Gn:BSU09959" /db_xref="EnsemblGenomes-Tr:CCQ48595" /db_xref="GOA:L8EBJ6" /db_xref="InterPro:IPR010070" /db_xref="UniProtKB/TrEMBL:L8EBJ6" /translation="MGEVFAGGFALLVVLFILLIIIGASWLY*" gene 1071613..1071699 /gene="sscB" /locus_tag="BSU_09959" /old_locus_tag="BSU09959" downshifts 1071697 /Source="Nicolas_upshifts" /id="D536" /incds=0 /nref=28 /ntot=50 /MaxReadThrough="4.67734" /MaxDrop="4.7906" /score="14.3797211" /energy="-17.6" /TU="U794" /idTUdmin="U794" /TUdmin="-506" /isTUend="FALSE" S_feature complement(1071709..1071971) /Source="Nicolas_S_feature" /locus_tag="new_1071709_1071971_c" /HighExp="LBGtran, LBGstat, LPhT, LBGexp, HPh, dia15, T0.30H, dia0, G180, Lbexp" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.999, 0.995" /TUlongSig="SigA" /TUlongPSig="0.989" /label="S348" S_feature 1071742..1072225 /Source="Nicolas_S_feature" /locus_tag="new_1071742_1072225" /HighExp="S8, S6, S7, BT, C30, S5, Pyr, Glucon, G/S, C90" /AntisenseName="yhaJ" /AntisenseCor="-0.22462434208606599" /AntisenseRegPval="-3.7" /CDS_PredictionProba="NA" /TUshortSig="SigK" /TUshortPSig="0.995" /TUlongSig="NA" /TUlongPSig="NA" /label="S349" downshifts complement(1071752) /Source="Nicolas_upshifts" /id="D537" /incds=0 /nref=153 /ntot=265 /MaxReadThrough="1.32339" /MaxDrop="6.55635" /score="34.7913848" /energy="-17.6" /TU="NA" /idTUdmin="U796" /TUdmin="-1" /isTUend="TRUE" promotor_-10 complement(1071964..1071983) /Source="Nicolas_upshift_promotors" /id="U796" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.58041958041958" /psig="0.999000999001" /xcortree=2759 /SigmaFactorBS="gtgctggtggcgatttttcaatttgcattCTATCTtttttaa taaataTTTGGTAATGTAATATGGGAcagttcagagagagggggaatctcccatcatt t" /listShort="S348" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1071971) /Source="Nicolas_upshifts" /id="U796" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.58041958041958" /psig="0.999000999001" /xcortree=2759 /SigmaFactorBS="gtgctggtggcgatttttcaatttgcattCTATCTtttttaa taaataTTTGGTAATGTAATATGGGAcagttcagagagagggggaatctcccatcatt t" /listShort="S348" /GFF_Attribute="listLong" S_feature complement(1071973..1072041) /Source="Nicolas_S_feature" /locus_tag="new_1071973_1072041_c" /HighExp="Paraq, G180, C30, LBGexp, Oxctl, G135, Lbexp, Heat, G150, BMM" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.29568499999999998" /TUshortSig="SigA" /TUshortPSig="0.995" /TUlongSig="SigA" /TUlongPSig="0.989" /label="S350" promotor_-35 complement(1071997..1072002) /Source="Nicolas_upshift_promotors" /id="U796" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.58041958041958" /psig="0.999000999001" /xcortree=2759 /SigmaFactorBS="gtgctggtggcgatttttcaatttgcattCTATCTtttttaa taaataTTTGGTAATGTAATATGGGAcagttcagagagagggggaatctcccatcatt t" /listShort="S348" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1072042..1072560) /gene="yhaJ" /locus_tag="BSU_09965" /old_locus_tag="BSU09965" /function="16.5: Explore" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 16845009, 21670523, 25651892; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative membrane enzyme" /protein_id="NP_388878.2" /db_xref="EnsemblGenomes-Gn:BSU09965" /db_xref="EnsemblGenomes-Tr:CAB12837" /db_xref="GOA:O07518" /db_xref="InterPro:IPR021683" /db_xref="SubtiList:BG12986" /db_xref="UniProtKB/Swiss-Prot:O07518" /translation="MNCWKTINLMKDYGAVRIILTAVCFMILVFISTFLAFELLRPGT SLSDEYVSLFGGLLVVILFVHKVIHVLPIICKKRKIEKKFYILRMRTWKRIPKTTMLI SLVSPFLLITPVLFYAALAFPNHAHYFCMISGIHAGYCLPDFLLALKLIKAPKTAFID QEADGLDILVEK*" gene complement(1072042..1072560) /gene="yhaJ" /locus_tag="BSU_09965" /old_locus_tag="BSU09965" promotor_-35 1072347..1072355 /Source="Nicolas_upshift_promotors" /id="U797" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=540 /SigmaFactorBS="ctatttttctttttttgcagatgattgGCAGGACATggatga ctttaTGTACAAATAAAATAACGAcgagcaaaccgccgaataaagatacatattcatc g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1072367..1072385 /Source="Nicolas_upshift_promotors" /id="U797" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=540 /SigmaFactorBS="ctatttttctttttttgcagatgattgGCAGGACATggatga ctttaTGTACAAATAAAATAACGAcgagcaaaccgccgaataaagatacatattcatc g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1072380 /Source="Nicolas_upshifts" /id="U797" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=540 /SigmaFactorBS="ctatttttctttttttgcagatgattgGCAGGACATggatga ctttaTGTACAAATAAAATAACGAcgagcaaaccgccgaataaagatacatattcatc g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 complement(1072591..1072610) /Source="Nicolas_upshift_promotors" /id="U798" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.44955044955045" /psig="0.995004995004995" /xcortree=2615 /SigmaFactorBS="aaaaatacctgccggatgatattttttcttaaaaaagCATTG ATtttttctcttgggagGAGTAAATTATTTTGAGATTctattcaagatgtatggaagg a" /listShort="yhaJ, S350, S348" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1072609) /Source="Nicolas_upshifts" /id="U798" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.44955044955045" /psig="0.995004995004995" /xcortree=2615 /SigmaFactorBS="aaaaatacctgccggatgatattttttcttaaaaaagCATTG ATtttttctcttgggagGAGTAAATTATTTTGAGATTctattcaagatgtatggaagg a" /listShort="yhaJ, S350, S348" /GFF_Attribute="listLong" promotor_-35 complement(1072626..1072632) /Source="Nicolas_upshift_promotors" /id="U798" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.44955044955045" /psig="0.995004995004995" /xcortree=2615 /SigmaFactorBS="aaaaatacctgccggatgatattttttcttaaaaaagCATTG ATtttttctcttgggagGAGTAAATTATTTTGAGATTctattcaagatgtatggaagg a" /listShort="yhaJ, S350, S348" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1072709..1072712 /Source="Nicolas_upshift_promotors" /id="U799" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.671328671328671" /psig="0.999000999001" /xcortree=2221 /SigmaFactorBS="gaaacaagcaaacaaactgcgaaatatggggttagaaCTTTc ttctcagtgaattATCAGCTAAAATAAGATTAAagatagaaagaagtggtgtggatgg a" /listShort="yhaI, S352" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1072727..1072746 /Source="Nicolas_upshift_promotors" /id="U799" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.671328671328671" /psig="0.999000999001" /xcortree=2221 /SigmaFactorBS="gaaacaagcaaacaaactgcgaaatatggggttagaaCTTTc ttctcagtgaattATCAGCTAAAATAAGATTAAagatagaaagaagtggtgtggatgg a" /listShort="yhaI, S352" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1072732 /Source="Nicolas_upshifts" /id="U799" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.671328671328671" /psig="0.999000999001" /xcortree=2221 /SigmaFactorBS="gaaacaagcaaacaaactgcgaaatatggggttagaaCTTTc ttctcagtgaattATCAGCTAAAATAAGATTAAagatagaaagaagtggtgtggatgg a" /listShort="yhaI, S352" /GFF_Attribute="listLong" CDS 1072768..1073109 /gene="yhaI" /locus_tag="BSU_09980" /old_locus_tag="BSU09980" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388879.1" /db_xref="EnsemblGenomes-Gn:BSU09980" /db_xref="EnsemblGenomes-Tr:CAB12838" /db_xref="InterPro:IPR015058" /db_xref="InterPro:IPR035945" /db_xref="PDB:1SED" /db_xref="SubtiList:BG12985" /db_xref="UniProtKB/Swiss-Prot:O07517" /translation="MDSMDHRIERLEYYIQLLVKTVDMDRYPFYALLIDKGLSKEEGE AVMRICDELSEELATQKAQGFVTFDKLLALFAGQLNEKLDVHETIFALYEQGLYQELM EVFIDIMKHFD*" gene 1072768..1073109 /gene="yhaI" /locus_tag="BSU_09980" /old_locus_tag="BSU09980" S_feature complement(1072963..1073105) /Source="Nicolas_S_feature" /locus_tag="new_1072963_1073105_c" /HighExp="BC, S1, Sw, S2, S3, S8, S5, S4, S6, S7" /AntisenseName="yhaI" /AntisenseCor="5.4889858269512502E-2" /AntisenseRegPval="-0.4" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.989" /TUlongSig="NA" /TUlongPSig="NA" /label="S351" downshifts complement(1073006) /Source="Nicolas_upshifts" /id="D538" /incds=1 /nref=39 /ntot=209 /MaxReadThrough="2.89899" /MaxDrop="4.77791" /score="-6.0983333" /energy="-12.3" /TU="U801" /idTUdmin="U801" /TUdmin="-374" /isTUend="FALSE" CDS complement(1073106..1073717) /gene="scoC" /locus_tag="BSU_09990" /old_locus_tag="BSU09990" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:14629015, 15126467, 16321961, 16923912, 19801406, 20382764, 23660663, 25966844, 26473603, 26728191, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14629015, 15126467, 16321961, 16923912, 19801406, 20382764, 23660663, 25966844, 26473603, 26728191, 22720735; Product type r : regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator of extracellular protease production, sporulation and bacilysin production (MarR family)" /protein_id="NP_388880.1" /db_xref="EnsemblGenomes-Gn:BSU09990" /db_xref="EnsemblGenomes-Tr:CAB12839" /db_xref="GOA:P11065" /db_xref="InterPro:IPR000835" /db_xref="InterPro:IPR023187" /db_xref="InterPro:IPR023488" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="PDB:2FXA" /db_xref="SubtiList:BG10659" /db_xref="UniProtKB/Swiss-Prot:P11065" /translation="MNRVEPPYDVKEALVFTQKMAQLSKALWKSIEKDWQQWLKPYDL NINEHHILWIAYQLNGASISEIAKFGVMHVSTAFNFSKKLEERGYLRFSKRLNDKRNT YVQLTEEGTEVFWSLLEEFDPTRNAVFKGSQPLYHLFGKFPEVAEMMCMIRHIYGDDF MEIFETSLTNIDNDFESVNGKLKKKAKDSAADEPAEELEPVNS*" gene complement(1073106..1073717) /gene="scoC" /locus_tag="BSU_09990" /old_locus_tag="BSU09990" S_feature 1073110..1073875 /Source="Nicolas_S_feature" /locus_tag="new_1073110_1073875" /HighExp="Lbstat, Etha, T0.30H, Gly, M0t90, M40t90, M40t45, M0t45, H2O2, dia15" /AntisenseName="scoC" /AntisenseCor="-0.46322626361720198" /AntisenseRegPval="-15" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S352" downshifts complement(1073182) /Source="Nicolas_upshifts" /id="D539" /incds=1 /nref=1 /ntot=81 /MaxReadThrough="5.81117" /MaxDrop="2.1632" /score="-6.0983333" /energy="-12.3" /TU="U801" /idTUdmin="U801" /TUdmin="-550" /isTUend="FALSE" promotor_-35 1073713..1073717 /Source="Nicolas_upshift_promotors" /id="U800" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.632367632367632" /psig="0.177822177822178" /xcortree=3100 /SigmaFactorBS="agagcttctttcacatcatagggcggttccactcgaTTCATt acgtcaCCTGCTTCTCTTTTtctttttctctattatgccaataaaataaagattaata a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1073725..1073738 /Source="Nicolas_upshift_promotors" /id="U800" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.632367632367632" /psig="0.177822177822178" /xcortree=3100 /SigmaFactorBS="agagcttctttcacatcatagggcggttccactcgaTTCATt acgtcaCCTGCTTCTCTTTTtctttttctctattatgccaataaaataaagattaata a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1073737 /Source="Nicolas_upshifts" /id="U800" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.632367632367632" /psig="0.177822177822178" /xcortree=3100 /SigmaFactorBS="agagcttctttcacatcatagggcggttccactcgaTTCATt acgtcaCCTGCTTCTCTTTTtctttttctctattatgccaataaaataaagattaata a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 complement(1073742..1073761) /Source="Nicolas_upshift_promotors" /id="U801" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.656343656343656" /psig="0.98901098901099" /xcortree=2944 /SigmaFactorBS="cgtcgcaatggtttgtgaatttattaaaaaattcttacattt tcatCTTTattaatctttatttTATTGGCATAATAGAGAAAAagaaaaagagaagcag g" /listShort="scoC, S351" /listLong="yhaJ, S350, S348" /label="promotor_-10" upshifts complement(1073765) /Source="Nicolas_upshifts" /id="U801" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.656343656343656" /psig="0.98901098901099" /xcortree=2944 /SigmaFactorBS="cgtcgcaatggtttgtgaatttattaaaaaattcttacattt tcatCTTTattaatctttatttTATTGGCATAATAGAGAAAAagaaaaagagaagcag g" /listShort="scoC, S351" /listLong="yhaJ, S350, S348" promotor_-35 complement(1073776..1073779) /Source="Nicolas_upshift_promotors" /id="U801" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.656343656343656" /psig="0.98901098901099" /xcortree=2944 /SigmaFactorBS="cgtcgcaatggtttgtgaatttattaaaaaattcttacattt tcatCTTTattaatctttatttTATTGGCATAATAGAGAAAAagaaaaagagaagcag g" /listShort="scoC, S351" /listLong="yhaJ, S350, S348" /label="promotor_-35" downshifts 1073832 /Source="Nicolas_upshifts" /id="D540" /incds=0 /nref=1 /ntot=124 /MaxReadThrough="3.007" /MaxDrop="2.86547" /score="17.8486533" /energy="-7.1" /TU="U799,U800" /idTUdmin="U799" /TUdmin="-22" /isTUend="TRUE" CDS complement(1073895..1074251) /gene="yhaH" /locus_tag="BSU_10000" /old_locus_tag="BSU10000" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 11429463; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative membrane protein; acid tolerance protein" /protein_id="NP_388881.1" /db_xref="EnsemblGenomes-Gn:BSU10000" /db_xref="EnsemblGenomes-Tr:CAB12840" /db_xref="GOA:O07516" /db_xref="InterPro:IPR024623" /db_xref="InterPro:IPR036191" /db_xref="SubtiList:BG12984" /db_xref="UniProtKB/Swiss-Prot:O07516" /translation="MASGRSLLTGLFVGGIIGGAAVLLTAPSSGKQLREKMKTNYDSF EETIKRLKSDGLALKDQLIKAAKESTDVIKDVGGELQTSIKKWQEEIKPHQQDLQKEI ADIEEKIRQLEKTLQN*" gene complement(1073895..1074251) /gene="yhaH" /locus_tag="BSU_10000" /old_locus_tag="BSU10000" downshifts complement(1073899) /Source="Nicolas_upshifts" /id="D541" /incds=0 /nref=254 /ntot=287 /MaxReadThrough="1.65317" /MaxDrop="7.37381" /score="10.8990112" /energy="-7.9" /TU="NA" /idTUdmin="U804" /TUdmin=9 /isTUend="TRUE" promotor_-35 1074328..1074333 /Source="Nicolas_upshift_promotors" /id="U803" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1168 /SigmaFactorBS="ttcagcatttttcatttttgttgaaagcctgaacttctaTAC ATAgcttgctttattttaGCATATTTTTTAAGTGAAAaggagggagaaggttgtctgt c" /listShort="yhzF, S354" /GFF_Attribute="listLong" /label="promotor_-35" misc_feature complement(1074334..1074353) /Source="Nicolas_upshift_promotors" /id="U802" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.998001998001998" /psig=1 /xcortree=1914 /SigmaFactorBS="aggataatacaatcaaaaagacagacaaccttctccctcctt ttcacttaaaaaaTATGCTAAAATAAAGCAAGCtatgtatagaagttcaggctttcaa c" /listShort="yhaH" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(1074348) /Source="Nicolas_upshifts" /id="U802" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.998001998001998" /psig=1 /xcortree=1914 /SigmaFactorBS="aggataatacaatcaaaaagacagacaaccttctccctcctt ttcacttaaaaaaTATGCTAAAATAAAGCAAGCtatgtatagaagttcaggctttcaa c" /listShort="yhaH" /GFF_Attribute="listLong" promotor_-10 1074349..1074367 /Source="Nicolas_upshift_promotors" /id="U803" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1168 /SigmaFactorBS="ttcagcatttttcatttttgttgaaagcctgaacttctaTAC ATAgcttgctttattttaGCATATTTTTTAAGTGAAAaggagggagaaggttgtctgt c" /listShort="yhzF, S354" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1074349 /Source="Nicolas_upshifts" /id="U803" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1168 /SigmaFactorBS="ttcagcatttttcatttttgttgaaagcctgaacttctaTAC ATAgcttgctttattttaGCATATTTTTTAAGTGAAAaggagggagaaggttgtctgt c" /listShort="yhzF, S354" /GFF_Attribute="listLong" S_feature complement(1074350..1074613) /Source="Nicolas_S_feature" /locus_tag="new_1074350_1074613_c" /HighExp="Etha, Salt, HiTm, Heat, Diami, Sw, Gly, S1, MG 10, MG 60" /AntisenseName="yhzF" /AntisenseCor="-0.69425315975357205" /AntisenseRegPval="-39.299999999999997" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA, SigA" /TUshortPSig="0.969, 0.962, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S353" CDS 1074381..1074572 /gene="yhzF" /locus_tag="BSU_10009" /old_locus_tag="BSU10009" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="membrane protein of unknown function" /protein_id="YP_003097700.1" /db_xref="EnsemblGenomes-Gn:BSU10009" /db_xref="EnsemblGenomes-Tr:CAX52588" /db_xref="GOA:C0H3Y3" /db_xref="UniProtKB/Swiss-Prot:C0H3Y3" /translation="MSVFLIVLSCITLAFASGAVYYIKLLSQAASYPPKRVIRQKALV CSTGTAFTLCLIFFTKLLA*" gene 1074381..1074572 /gene="yhzF" /locus_tag="BSU_10009" /old_locus_tag="BSU10009" S_feature 1074573..1076008 /Source="Nicolas_S_feature" /locus_tag="new_1074573_1076008" /HighExp="S3, S8, S4, S6, S7, T5.0H, C30, S5, T4.0H, T3.30H" /AntisenseName="trpP" /AntisenseCor="-0.20038256384636899" /AntisenseRegPval="-3" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig="0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S354" CDS complement(1074646..1075164) /gene="trpP" /locus_tag="BSU_10010" /old_locus_tag="BSU10010" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:10735881, 14702295, 15849754, 16850406, 16879415, 17114263" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10735881, 14702295, 15849754, 16850406, 16879415, 17114263; Product type t : transporter" /codon_start=1 /transl_table=11 /product="tryptophan transporter or sensor" /protein_id="NP_388882.2" /db_xref="EnsemblGenomes-Gn:BSU10010" /db_xref="EnsemblGenomes-Tr:CAB12841" /db_xref="GOA:O07515" /db_xref="InterPro:IPR031360" /db_xref="SubtiList:BG12983" /db_xref="UniProtKB/Swiss-Prot:O07515" /translation="MKTKELVIMALFAAIGAALHSIIPPFLGGMKPDMMLIMMFMGIL LFPRVQNVLVIGIVTGIISALTTAFPAGQIPNIIDKPVSAFLFFSLFLLFRKSRKTGA AAVLTVIGTILSGIVFLSSALLIVGLPGGFAALFAAVVLPAAVLNTISMIIIYPIVQT ILRRSSFMEAAK*" gene complement(1074646..1075164) /gene="trpP" /locus_tag="BSU_10010" /old_locus_tag="BSU10010" downshifts complement(1074658) /Source="Nicolas_upshifts" /id="D542" /incds=0 /nref=105 /ntot=253 /MaxReadThrough="6.00956" /MaxDrop="4.62812" /score="24.5949542" /energy="-12.8" /TU="U804,U805,U806" /idTUdmin="U804" /TUdmin="-750" /isTUend="FALSE" S_feature complement(1075165..1075252) /Source="Nicolas_S_feature" /locus_tag="new_1075165_1075252_c" /HighExp="C90, B60, S1, GM 15, MG 45, MG-0.2, Etha, Lbtran, MG 25, MG t5" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA, SigA" /TUshortPSig="0.969, 0.962, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S355" promotor_-10 complement(1075244..1075263) /Source="Nicolas_upshift_promotors" /id="U804" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.541458541458541" /psig="0.969030969030969" /xcortree=591 /SigmaFactorBS="aaattccagcaggaaaatgagtaaaaagTCTGGCTAtgcaaa ccgtccgTTTGGTATACTGTTTGCATAacacattctgtaaagccttcgcaataaatga t" /listShort="S355, trpP, S353, yhaH" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1075252) /Source="Nicolas_upshifts" /id="U804" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.541458541458541" /psig="0.969030969030969" /xcortree=591 /SigmaFactorBS="aaattccagcaggaaaatgagtaaaaagTCTGGCTAtgcaaa ccgtccgTTTGGTATACTGTTTGCATAacacattctgtaaagccttcgcaataaatga t" /listShort="S355, trpP, S353, yhaH" /GFF_Attribute="listLong" promotor_-35 complement(1075277..1075284) /Source="Nicolas_upshift_promotors" /id="U804" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.541458541458541" /psig="0.969030969030969" /xcortree=591 /SigmaFactorBS="aaattccagcaggaaaatgagtaaaaagTCTGGCTAtgcaaa ccgtccgTTTGGTATACTGTTTGCATAacacattctgtaaagccttcgcaataaatga t" /listShort="S355, trpP, S353, yhaH" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1075289..1076368) /gene="serC" /locus_tag="BSU_10020" /old_locus_tag="BSU10020" /EC_number="2.6.1.52" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:4337849, 16233211" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 4337849, 16233211; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="phosphoserine aminotransferase" /protein_id="NP_388883.1" /db_xref="EnsemblGenomes-Gn:BSU10020" /db_xref="EnsemblGenomes-Tr:CAB12842" /db_xref="GOA:P80862" /db_xref="InterPro:IPR000192" /db_xref="InterPro:IPR015421" /db_xref="InterPro:IPR015422" /db_xref="InterPro:IPR015424" /db_xref="InterPro:IPR020578" /db_xref="InterPro:IPR022278" /db_xref="SubtiList:BG12673" /db_xref="UniProtKB/Swiss-Prot:P80862" /translation="MERTTNFNAGPAALPLEVLQKAQKEFIDFNESGMSVMELSHRSK EYEAVHQKAKSLLIELMGIPEDYDILFLQGGASLQFSMLPMNFLTPEKTAHFVMTGAW SEKALAETKLFGNTSITATSETDNYSYIPEVDLTDVKDGAYLHITSNNTIFGTQWQEF PNSPIPLVADMSSDILSRKIDVSKFDVIYGGAQKNLGPSGVTVVIMKKSWLQNENANV PKILKYSTHVKADSLYNTPPTFAIYMLSLVLEWLKENGGVEAVEQRNEQKAQVLYSCI DESNGFYKGHARKDSRSRMNVTFTLRDDELTKTFVQKAKDAKMIGLGGHRSVGGCRAS IYNAVSLEDCEKLAAFMKKFQQENE*" gene complement(1075289..1076368) /gene="serC" /locus_tag="BSU_10020" /old_locus_tag="BSU10020" misc_feature complement(1076407..1076426) /Source="Nicolas_upshift_promotors" /id="U805" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.772227772227772" /psig="0.962037962037962" /xcortree=3059 /SigmaFactorBS="atccgtcaatttcttttgataattctaattttttatcaaaaa actgaattttTGTGATAGGATAATTGTATTattttatacattaacgtggaaaacaggg a" /listShort="serC, S355, trpP, S353, yhaH" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(1076418) /Source="Nicolas_upshifts" /id="U805" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.772227772227772" /psig="0.962037962037962" /xcortree=3059 /SigmaFactorBS="atccgtcaatttcttttgataattctaattttttatcaaaaa actgaattttTGTGATAGGATAATTGTATTattttatacattaacgtggaaaacaggg a" /listShort="serC, S355, trpP, S353, yhaH" /GFF_Attribute="listLong" S_feature complement(1076420..1076501) /Source="Nicolas_S_feature" /locus_tag="new_1076420_1076501_c" /HighExp="Etha, dia15, H2O2, LBGtran, G135, G180, dia5, G150, Lbexp, M0t45" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S356" CDS complement(1076515..1076952) /gene="hinT" /locus_tag="BSU_10030" /old_locus_tag="BSU10030" /EC_number="3.6.1.29" /EC_number="3.6.1.-" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 9579061, 15703176, 16934294, 17217311, 26181368, 28516732; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="promiscuous Hit-family phosphohydrolase, adenosine phosphoramidase" /protein_id="NP_388884.1" /db_xref="EnsemblGenomes-Gn:BSU10030" /db_xref="EnsemblGenomes-Tr:CAB12843" /db_xref="GOA:O07513" /db_xref="InterPro:IPR001310" /db_xref="InterPro:IPR011146" /db_xref="InterPro:IPR019808" /db_xref="InterPro:IPR036265" /db_xref="PDB:1Y23" /db_xref="SubtiList:BG12607" /db_xref="UniProtKB/Swiss-Prot:O07513" /translation="MHCAENCIFCKIIAGDIPSAKVYEDEHVLAFLDISQVTKGHTLV IPKTHIENVYEFTDELAKQYFHAVPKIARAIRDEFEPIGLNTLNNNGEKAGQSVFHYH MHIIPRYGKGDGFGAVWKTHADDYKPEDLQNISSSIAKRLASS*" gene complement(1076515..1076952) /gene="hinT" /locus_tag="BSU_10030" /old_locus_tag="BSU10030" downshifts complement(1076546) /Source="Nicolas_upshifts" /id="D543" /incds=0 /nref=187 /ntot=248 /MaxReadThrough="4.31506" /MaxDrop="5.61862" /score="-0.366845751" /energy="-8.6" /TU="U806" /idTUdmin="U807" /TUdmin=4 /isTUend="TRUE" promotor_-10 complement(1076985..1077004) /Source="Nicolas_upshift_promotors" /id="U806" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.576423576423576" /psig=1 /xcortree=2360 /SigmaFactorBS="tctgcattcagggtgaacgctcgccgttcatcctGTTTTCTA ttttctgcatttcTGTGGTACGATGAATGTATAcatactaaacaatttcataaggagg a" /listShort="hinT, S356, serC, S355, trpP, S353, yhaH" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1076999) /Source="Nicolas_upshifts" /id="U806" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.576423576423576" /psig=1 /xcortree=2360 /SigmaFactorBS="tctgcattcagggtgaacgctcgccgttcatcctGTTTTCTA ttttctgcatttcTGTGGTACGATGAATGTATAcatactaaacaatttcataaggagg a" /listShort="hinT, S356, serC, S355, trpP, S353, yhaH" /GFF_Attribute="listLong" downshifts 1077002 /Source="Nicolas_upshifts" /id="D544" /incds=0 /nref=1 /ntot=3 /MaxReadThrough="2.3752" /MaxDrop="3.02008" /score="-3.56654132" /energy="-13.3" /TU="NA" /idTUdmin="U803" /TUdmin=1034 /isTUend="FALSE" promotor_-35 complement(1077018..1077025) /Source="Nicolas_upshift_promotors" /id="U806" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.576423576423576" /psig=1 /xcortree=2360 /SigmaFactorBS="tctgcattcagggtgaacgctcgccgttcatcctGTTTTCTA ttttctgcatttcTGTGGTACGATGAATGTATAcatactaaacaatttcataaggagg a" /listShort="hinT, S356, serC, S355, trpP, S353, yhaH" /GFF_Attribute="listLong" /label="promotor_-35" S_feature complement(1077024..1077320) /Source="Nicolas_S_feature" /locus_tag="new_1077024_1077320_c" /HighExp="S7, S8, S6, S5, BT, ferm, nit, G/S, S4, Pyr" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigGF" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S357" downshifts complement(1077067) /Source="Nicolas_upshifts" /id="D545" /incds=0 /nref=40 /ntot=72 /MaxReadThrough="3.07347" /MaxDrop="7.69075" /score="9.88617558" /energy="-14.2" /TU="U807" /idTUdmin="U807" /TUdmin="-517" /isTUend="FALSE" promotor_-10 complement(1077318..1077329) /Source="Nicolas_upshift_promotors" /id="U807" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=832 /SigmaFactorBS="aaacaattcccttttaacaaatgatgaatttgctGTCATAAa gagacagggttctGGACATCATAAAagttgtagaggaaaagcatatcaactgaaaaat g" /listShort="S357, hinT" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1077324) /Source="Nicolas_upshifts" /id="U807" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=832 /SigmaFactorBS="aaacaattcccttttaacaaatgatgaatttgctGTCATAAa gagacagggttctGGACATCATAAAagttgtagaggaaaagcatatcaactgaaaaat g" /listShort="S357, hinT" /GFF_Attribute="listLong" promotor_-35 complement(1077344..1077350) /Source="Nicolas_upshift_promotors" /id="U807" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=832 /SigmaFactorBS="aaacaattcccttttaacaaatgatgaatttgctGTCATAAa gagacagggttctGGACATCATAAAagttgtagaggaaaagcatatcaactgaaaaat g" /listShort="S357, hinT" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1077380..1077387 /Source="Nicolas_upshift_promotors" /id="U808" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.553446553446553" /psig=1 /xcortree=1921 /SigmaFactorBS="cagcaaattcatcatttgttaaaagggaatTGTTTCAAatca ggccttgttTTTGGTACTATGAAGAAAAAcactataaggggagaaactatgtctctgc t" /listShort="ecsA, ecsB, ecsC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1077401..1077420 /Source="Nicolas_upshift_promotors" /id="U808" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.553446553446553" /psig=1 /xcortree=1921 /SigmaFactorBS="cagcaaattcatcatttgttaaaagggaatTGTTTCAAatca ggccttgttTTTGGTACTATGAAGAAAAAcactataaggggagaaactatgtctctgc t" /listShort="ecsA, ecsB, ecsC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1077410 /Source="Nicolas_upshifts" /id="U808" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.553446553446553" /psig=1 /xcortree=1921 /SigmaFactorBS="cagcaaattcatcatttgttaaaagggaatTGTTTCAAatca ggccttgttTTTGGTACTATGAAGAAAAAcactataaggggagaaactatgtctctgc t" /listShort="ecsA, ecsB, ecsC" /GFF_Attribute="listLong" CDS 1077440..1078183 /gene="ecsA" /locus_tag="BSU_10040" /old_locus_tag="BSU10040" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:8581172, 10027970, 11807061, 18599827, 26735940" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8581172, 10027970, 11807061, 18599827, 26735940; Product type t : transporter" /codon_start=1 /transl_table=11 /product="ABC transporter (ATP-binding protein)" /protein_id="NP_388885.1" /db_xref="EnsemblGenomes-Gn:BSU10040" /db_xref="EnsemblGenomes-Tr:CAB12844" /db_xref="GOA:P55339" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG11516" /db_xref="UniProtKB/Swiss-Prot:P55339" /translation="MSLLSVKDLTGGYTRNPVLKNVSFTLEPNQIVGLIGLNGAGKST TIRHIIGLMDPHKGSIELNGKTFAEDPEGYRSQFTYIPETPVLYEELTLMEHLELTAM AYGLSKETMEKRLPPLLKEFRMEKRLKWFPAHFSKGMKQKVMIMCAFLAEPALYIIDE PFLGLDPLAINALLERMNEAKKGGASVLMSTHILATAERYCDSFIILHNGEVRARGTL SELREQFGMKDAALDDLYLELTKEDAGHE*" gene 1077440..1078183 /gene="ecsA" /locus_tag="BSU_10040" /old_locus_tag="BSU10040" CDS 1078176..1079402 /gene="ecsB" /locus_tag="BSU_10050" /old_locus_tag="BSU10050" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:8581172, 10027970, 15175311, 15849754, 16850406, 18599827, 21665535, 26735940" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8581172, 10027970, 15175311, 15849754, 16850406, 18599827, 21665535, 26735940; Product type t: transporter" /codon_start=1 /transl_table=11 /product="ABC transporter (permease subunit)" /protein_id="NP_388886.1" /db_xref="EnsemblGenomes-Gn:BSU10050" /db_xref="EnsemblGenomes-Tr:CAB12845" /db_xref="GOA:P55340" /db_xref="InterPro:IPR010288" /db_xref="SubtiList:BG11517" /db_xref="UniProtKB/Swiss-Prot:P55340" /translation="MNNMLDIWQSRLQEHIKETRTYMKYMLNDHLVIVLIFFLAGAAS WYSKWIRDIPAHFPSFWVMAVLFSLVLTSSYVRTLLKEADLVFLLPLEAKMEPYLKQA FVYSYVSQLFPLIALSIVAMPLYFAVTPGASLVSYAAVFVQLLLLKAWNQVMEWRTTF QNDRSMKRMDVIIRFAANTLVLYFVFQSVYMYALLVYVIMAVLYLYMSSAAKRKTFKW ESHIESELRRKQRFYRIANLFTDVPHLRKQAKRRAYLDFLLRLVPFEQRKTFAYMFTR AFLRSSDYLGILVRLTIVFALIIMYVSASPLIAAVLTVFAIFITGIQLLPLFGHFDHL ALQELYPVQKETKLKSYFSLLKTALSIQALLMSVASAYAAGLTGFLYALIGSAVLIFV VLPAYMTTRLKKHGKL*" gene 1078176..1079402 /gene="ecsB" /locus_tag="BSU_10050" /old_locus_tag="BSU10050" promotor_-10 complement(1078735..1078753) /Source="Nicolas_upshift_promotors" /id="U809" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1033 /SigmaFactorBS="tttgctgcggaagacatatacagataaagaacagccATAATG acatagacgagaagcGCATACATATAAACAGATTggaaaacaaaataaagaacgagtg t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1078750) /Source="Nicolas_upshifts" /id="U809" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1033 /SigmaFactorBS="tttgctgcggaagacatatacagataaagaacagccATAATG acatagacgagaagcGCATACATATAAACAGATTggaaaacaaaataaagaacgagtg t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(1078769..1078774) /Source="Nicolas_upshift_promotors" /id="U809" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1033 /SigmaFactorBS="tttgctgcggaagacatatacagataaagaacagccATAATG acatagacgagaagcGCATACATATAAACAGATTggaaaacaaaataaagaacgagtg t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 1079422..1080132 /gene="ecsC" /locus_tag="BSU_10060" /old_locus_tag="BSU10060" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 8581172, 10027970; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative hydrolase" /protein_id="NP_388887.1" /db_xref="EnsemblGenomes-Gn:BSU10060" /db_xref="EnsemblGenomes-Tr:CAB12846" /db_xref="InterPro:IPR024787" /db_xref="SubtiList:BG11518" /db_xref="UniProtKB/Swiss-Prot:P55341" /translation="MTDNQLLMQEALEWKMHFLRKDSMFERFSKRVQTKVNERIPEKI HTVVTESVKKMVEATMAGSNIITYKKDTSALSLSEKNELAKKTIVSYQKVAAAEGVGT GAGGIFLSIADFPLLLSIKMKCLFTLSSIYGFDVKDAQERIFLLLVFQLAFSSDDGRK SLFSVIENWETEKKSIDWRVFQQEYRDYIDVVKLFQLLPGVGAAVGGIANYKLLAQLG ETARHVFHLRILKETAGE*" gene 1079422..1080132 /gene="ecsC" /locus_tag="BSU_10060" /old_locus_tag="BSU10060" downshifts 1080096 /Source="Nicolas_upshifts" /id="D546" /incds=0 /nref=78 /ntot=231 /MaxReadThrough="1.36097" /MaxDrop="4.78417" /score="28.5337351" /energy="-14.6" /TU="NA" /idTUdmin="U808" /TUdmin="-8" /isTUend="TRUE" CDS complement(1080150..1081340) /gene="sndC" /locus_tag="BSU_10070" /old_locus_tag="BSU10070" /EC_number="3.5.1.-" /experiment="publication(s) with functional evidences, PMID:23944997" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 23944997; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="N-acetyl amino acid acetylase, promiscuous activity" /protein_id="NP_388888.2" /db_xref="EnsemblGenomes-Gn:BSU10070" /db_xref="EnsemblGenomes-Tr:CAB12847" /db_xref="GOA:O07598" /db_xref="InterPro:IPR002933" /db_xref="InterPro:IPR011650" /db_xref="InterPro:IPR017439" /db_xref="InterPro:IPR036264" /db_xref="SubtiList:BG12982" /db_xref="UniProtKB/Swiss-Prot:O07598" /translation="MSISTLQKEINKQLDGCFEEMVEIRRHFHMYPELSFQEEKTAAF IASYYESLGVPIRTNVGGRGVLANIEGSEPGPTVALRADFDALPIQDEKDVPYASKVP GVMHACGHDGHTAALLAVAKVLHQNRHELKGTFVMIHQHAEEYYPGGAKPMIDDGCLE NTDVIFGTHLWATEPLGTILCRPGAVMAAADRFTIKVFGKGGHGAHPHDTKDAVLIGS QIVSSLQHIVSRKVNPIQSAVISTGSFIADNPFNVIADQAVLIGTARSFDENVRDILE KEIEAVVKGICSMHGASYEYTYEQGYPAVVNHPAETNHLVSTAKNTEGVQQVIDGEPQ MGGEDFAYYLQNVKGTFFFTGAAPEQPERVYSHHHPKFDINEKAMLTAAKVLAGAAIT YHQL*" gene complement(1080150..1081340) /gene="sndC" /locus_tag="BSU_10070" /old_locus_tag="BSU10070" downshifts complement(1080160) /Source="Nicolas_upshifts" /id="D547" /incds=0 /nref=11 /ntot=162 /MaxReadThrough="3.12546" /MaxDrop="4.15559" /score="-4.78420642" /energy="-14.6" /TU="U810" /idTUdmin="U811" /TUdmin="-2" /isTUend="TRUE" downshifts complement(1080225) /Source="Nicolas_upshifts" /id="D548" /incds=1 /nref=25 /ntot=206 /MaxReadThrough="4.92378" /MaxDrop="3.21645" /score="-4.78420642" /energy="-14.6" /TU="U810,U811" /idTUdmin="U811" /TUdmin="-67" /isTUend="FALSE" promotor_-10 complement(1081364..1081383) /Source="Nicolas_upshift_promotors" /id="U810" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.498501498501498" /psig=1 /xcortree=2900 /SigmaFactorBS="gtgacaaccctcgcagctgtgatgatgctttaaaacagcatg aGTTGAAatattcagactttTTCTATACAATCATGGAAAAgcatagaaaagggggaag c" /listShort="yhaA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1081385) /Source="Nicolas_upshifts" /id="U810" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.498501498501498" /psig=1 /xcortree=2900 /SigmaFactorBS="gtgacaaccctcgcagctgtgatgatgctttaaaacagcatg aGTTGAAatattcagactttTTCTATACAATCATGGAAAAgcatagaaaagggggaag c" /listShort="yhaA" /GFF_Attribute="listLong" promotor_-35 complement(1081397..1081402) /Source="Nicolas_upshift_promotors" /id="U810" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.498501498501498" /psig=1 /xcortree=2900 /SigmaFactorBS="gtgacaaccctcgcagctgtgatgatgctttaaaacagcatg aGTTGAAatattcagactttTTCTATACAATCATGGAAAAgcatagaaaagggggaag c" /listShort="yhaA" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1081413..1082804) /gene="yhfA" /locus_tag="BSU_10080" /old_locus_tag="BSU10080" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406, 12107147; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative transporter" /protein_id="NP_388889.1" /db_xref="EnsemblGenomes-Gn:BSU10080" /db_xref="EnsemblGenomes-Tr:CAB12848" /db_xref="GOA:O07599" /db_xref="SubtiList:BG13047" /db_xref="UniProtKB/Swiss-Prot:O07599" /translation="MMEVGILPVHVLYVFFIGAIILFMLLRKDTTFISLFGIFIISLW ASHSLSASVSSLFHSFIYAAGELLPTIFIICFIVSMSDLLTKTGINEAMISPFASLVR GPVTAYWLIGGLMFAISLFFWPSPGVALIGAVLLPAAARAGLTPLAAAMAMNLFGHGF ALSGDFVIQAAPKLTADAAGIPVGDVVSASIPLVLIMGVTTTTAAFIMIQRERKKQEH PTSFSPVLSGEQDNSLYLPKRLRSILAFLIPLAFLADIACMLLFNLQGNDATALIGGS AICILFTVHFFVYKHKGLEKITGYFIDGFKFGFKVFGPVIPIAAFFYLGDSGYESILG TSLPKGSHGIVNDLGIALSHMMPMSKELAATALTAAGAITGLDGSGFSGISLAGSIAK LFSSALHADPAILTALGQISAIWVGGGTLVPWALIPAAAICKVDPFELARKNFIPVAI GLLVTTLAAVMML*" gene complement(1081413..1082804) /gene="yhfA" /locus_tag="BSU_10080" /old_locus_tag="BSU10080" promotor_-10 complement(1082815..1082834) /Source="Nicolas_upshift_promotors" /id="U811" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1283 /SigmaFactorBS="ttccatcataaccctcccctctgtCCCGGCACCTtccgcccg cctaTGAATAATCTGTAAGCGGAAggagtgatcgatgatggaagtcgggattttgcct g" /listShort="yhfA, yhaA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1082820) /Source="Nicolas_upshifts" /id="U811" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1283 /SigmaFactorBS="ttccatcataaccctcccctctgtCCCGGCACCTtccgcccg cctaTGAATAATCTGTAAGCGGAAggagtgatcgatgatggaagtcgggattttgcct g" /listShort="yhfA, yhaA" /GFF_Attribute="listLong" promotor_-35 complement(1082847..1082856) /Source="Nicolas_upshift_promotors" /id="U811" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1283 /SigmaFactorBS="ttccatcataaccctcccctctgtCCCGGCACCTtccgcccg cctaTGAATAATCTGTAAGCGGAAggagtgatcgatgatggaagtcgggattttgcct g" /listShort="yhfA, yhaA" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1082870..1083184) /gene="yhgB" /locus_tag="BSU_10090" /old_locus_tag="BSU10090" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="NP_388890.1" /db_xref="EnsemblGenomes-Gn:BSU10090" /db_xref="EnsemblGenomes-Tr:CAB12849" /db_xref="SubtiList:BG10426" /db_xref="UniProtKB/Swiss-Prot:P38048" /translation="MKHTCPVCGFKDWLNRHMIMKAIILMKSARAAVFSSDLMSTRCS TRITHIEPSESIIAYRKNWLAEGCVIFSPECFPKHLQKANRGLRHHLIEQLKQINVHL PS*" gene complement(1082870..1083184) /gene="yhgB" /locus_tag="BSU_10090" /old_locus_tag="BSU10090" CDS complement(1083229..1083729) /gene="hmoB" /locus_tag="BSU_10100" /old_locus_tag="BSU10100" /EC_number="1.14.99.48" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:21873409, 22531134, 24582752" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 21873409, 22531134, 24582752; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="heme-degrading monooxygenase" /protein_id="NP_388891.1" /db_xref="EnsemblGenomes-Gn:BSU10100" /db_xref="EnsemblGenomes-Tr:CAB12850" /db_xref="GOA:P38049" /db_xref="InterPro:IPR007138" /db_xref="InterPro:IPR011008" /db_xref="PDB:4OZ5" /db_xref="SubtiList:BG10427" /db_xref="UniProtKB/Swiss-Prot:P38049" /translation="MKVYITYGTADFLKTIVQKHPSENILLMQGQENAILIHETNGDT VFQAPHAYEVIDQVGEIKHPGFAVLNNIAVTQEGRPLFENRFKNRAGKVENEPGFEAI RVLRPLDSDTYVILTLWETESAFQDWQQSGSYKEAHKKRDTSAGIDTTSIFSRPSYVT TYFAVE*" gene complement(1083229..1083729) /gene="hmoB" /locus_tag="BSU_10100" /old_locus_tag="BSU10100" downshifts complement(1083256) /Source="Nicolas_upshifts" /id="D549" /incds=0 /nref=145 /ntot=254 /MaxReadThrough="3.45185" /MaxDrop="5.6374" /score="15.5142908" /energy="-14.8" /TU="U812" /idTUdmin="U812" /TUdmin="-546" /isTUend="FALSE" promotor_-10 complement(1083742..1083761) /Source="Nicolas_upshift_promotors" /id="U812" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.555444555444555" /psig="0.98101898101898" /xcortree=101 /SigmaFactorBS="tatgggaaaaattgtttggaattatgttcgaagcactcgcca atAGaaacttataccattgtTTTGATATACTAGCAAGCAGgaggtggctgatatgaag g" /listShort="yhgC, yhgB, yhfA" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 1083744..1083748 /Source="Nicolas_upshift_promotors" /id="U813" /multdbtbs="SigA" /comp="M16" /sig="SigA" /pcomp="0.953046953046953" /psig="0.957042957042957" /xcortree=1837 /SigmaFactorBS="tcccatatgtaatataaaccttcatatcagccacctcctGCT TGctagtatatcaaaacAATGGTATAAGTTTCTATTGgcgagtgcttcgaacataatt c" /listShort="pbpF, hemE, hemH, hemY" /GFF_Attribute="listLong" /label="promotor_-35" upshifts complement(1083763) /Source="Nicolas_upshifts" /id="U812" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.555444555444555" /psig="0.98101898101898" /xcortree=101 /SigmaFactorBS="tatgggaaaaattgtttggaattatgttcgaagcactcgcca atAGaaacttataccattgtTTTGATATACTAGCAAGCAGgaggtggctgatatgaag g" /listShort="yhgC, yhgB, yhfA" /GFF_Attribute="listLong" promotor_-10 1083764..1083783 /Source="Nicolas_upshift_promotors" /id="U813" /multdbtbs="SigA" /comp="M16" /sig="SigA" /pcomp="0.953046953046953" /psig="0.957042957042957" /xcortree=1837 /SigmaFactorBS="tcccatatgtaatataaaccttcatatcagccacctcctGCT TGctagtatatcaaaacAATGGTATAAGTTTCTATTGgcgagtgcttcgaacataatt c" /listShort="pbpF, hemE, hemH, hemY" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1083765 /Source="Nicolas_upshifts" /id="U813" /multdbtbs="SigA" /comp="M16" /sig="SigA" /pcomp="0.953046953046953" /psig="0.957042957042957" /xcortree=1837 /SigmaFactorBS="tcccatatgtaatataaaccttcatatcagccacctcctGCT TGctagtatatcaaaacAATGGTATAAGTTTCTATTGgcgagtgcttcgaacataatt c" /listShort="pbpF, hemE, hemH, hemY" /GFF_Attribute="listLong" promotor_-35 complement(1083778..1083779) /Source="Nicolas_upshift_promotors" /id="U812" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.555444555444555" /psig="0.98101898101898" /xcortree=101 /SigmaFactorBS="tatgggaaaaattgtttggaattatgttcgaagcactcgcca atAGaaacttataccattgtTTTGATATACTAGCAAGCAGgaggtggctgatatgaag g" /listShort="yhgC, yhgB, yhfA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1083796..1083802 /Source="Nicolas_upshift_promotors" /id="U814" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=871 /SigmaFactorBS="acaatggtataagtttctattggcgagtgcttcgAACATAAt tccaaacaattttTCCCATACTACCtttagaaaggcgaggtgagttcatgtttaagat a" /listShort="pbpF, hemE, hemH" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1083817..1083828 /Source="Nicolas_upshift_promotors" /id="U814" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=871 /SigmaFactorBS="acaatggtataagtttctattggcgagtgcttcgAACATAAt tccaaacaattttTCCCATACTACCtttagaaaggcgaggtgagttcatgtttaagat a" /listShort="pbpF, hemE, hemH" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1083822 /Source="Nicolas_upshifts" /id="U814" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=871 /SigmaFactorBS="acaatggtataagtttctattggcgagtgcttcgAACATAAt tccaaacaattttTCCCATACTACCtttagaaaggcgaggtgagttcatgtttaagat a" /listShort="pbpF, hemE, hemH" /GFF_Attribute="listLong" CDS 1083851..1085995 /gene="pbpF" /locus_tag="BSU_10110" /old_locus_tag="BSU10110" /function="16.13: Shape" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:8335642, 11567005, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8335642, 11567005, 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="penicillin-binding protein 2C (1F class) required for spore germination" /protein_id="NP_388892.2" /db_xref="EnsemblGenomes-Gn:BSU10110" /db_xref="EnsemblGenomes-Tr:CAB12851" /db_xref="GOA:P38050" /db_xref="InterPro:IPR001264" /db_xref="InterPro:IPR001460" /db_xref="InterPro:IPR012338" /db_xref="InterPro:IPR023346" /db_xref="InterPro:IPR036950" /db_xref="SubtiList:BG10428" /db_xref="UniProtKB/Swiss-Prot:P38050" /translation="MFKIKKKKLFIPIIILVLTAFLALIGYISIIFLGHYVIDEKKLI LHASSKIVDQNGDEVASLYTENREPVSINEIPKQVREAFIAVEDKRFYEHHGIDAKSV GRAVYRDILAGGKVEGGSTITQQLAKNIFLTHDKTFLRKTKEVIIAINLERDYSKDKL LEMYLNQLYFGHGVYGIQAASHYYFNKEVKDLTVSEGAVLAAIPKAPSTYSPILHPDK NKERRDTILGMMNDQGYISAKEAVTAQGRTLGLHVKKQSETPWFDSYIDLVIKEAEDK YSISGEQLLQGGYTIKVPLDSKLQKTAYQVMKEGSYYPGTDQNAEGSAVFINNKTGGV EAAIGGRDYTSKGYNRVTAVRQPGSTFKPLAVYGPAMQEKKFKPYSLLKDELQSYGDY TPKNYDSRYEGEVTMSDAITYSKNAPAVWTLNEIGVETGKSYLKANGIDIPDEGLALA LGGLEKGVSPLQLAGAFHTFAANGTYTEPFFISSIIDEDGETIADHKEEGKRVFSKQT SWNMTRMLQQVVKKGTATSGTYHGDLAGKTGSTSYTGVSGATKDAWFAGYTPKITGAV WMGYDKTDQNHYLKAGSSYPTRLFKDILTQAGETGHVFTKPKNVKELESPIELKPVKT LTADYTFKAAGLFTIELKWDAQEDDRAVYRIYVNKDGEETLLDSVEGKGSYEIPYANL FSGASYKIVPYNTQTKREGEGTDYVQPKLFSS*" gene 1083851..1085995 /gene="pbpF" /locus_tag="BSU_10110" /old_locus_tag="BSU10110" promotor_-10 complement(1083895..1083906) /Source="Nicolas_upshift_promotors" /id="U815" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.595404595404595" /psig="0.595404595404595" /xcortree=1190 /SigmaFactorBS="ataatggccgagaaaaataattgaaatatatcCTATTAAagc gagaaaagcaGTTAACACTAAAataatgataggtataaaaagtttctttttctttatc t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1083898) /Source="Nicolas_upshifts" /id="U815" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.595404595404595" /psig="0.595404595404595" /xcortree=1190 /SigmaFactorBS="ataatggccgagaaaaataattgaaatatatcCTATTAAagc gagaaaagcaGTTAACACTAAAataatgataggtataaaaagtttctttttctttatc t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(1083920..1083926) /Source="Nicolas_upshift_promotors" /id="U815" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.595404595404595" /psig="0.595404595404595" /xcortree=1190 /SigmaFactorBS="ataatggccgagaaaaataattgaaatatatcCTATTAAagc gagaaaagcaGTTAACACTAAAataatgataggtataaaaagtttctttttctttatc t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1086032..1086038 /Source="Nicolas_upshift_promotors" /id="U816" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.377622377622378" /psig="0.998001998001998" /xcortree=1606 /SigmaFactorBS="tcggcgattttttgaactttgagctacattTCTATACcattt gcctaaaaCAAGGTATAGTGTAATAAGTcaagaaatacgaacgtatggttgccgtatg a" /listShort="hemE, hemH, hemY" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1086052..1086071 /Source="Nicolas_upshift_promotors" /id="U816" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.377622377622378" /psig="0.998001998001998" /xcortree=1606 /SigmaFactorBS="tcggcgattttttgaactttgagctacattTCTATACcattt gcctaaaaCAAGGTATAGTGTAATAAGTcaagaaatacgaacgtatggttgccgtatg a" /listShort="hemE, hemH, hemY" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1086062 /Source="Nicolas_upshifts" /id="U816" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.377622377622378" /psig="0.998001998001998" /xcortree=1606 /SigmaFactorBS="tcggcgattttttgaactttgagctacattTCTATACcattt gcctaaaaCAAGGTATAGTGTAATAAGTcaagaaatacgaacgtatggttgccgtatg a" /listShort="hemE, hemH, hemY" /GFF_Attribute="listLong" CDS 1086117..1087178 /gene="hemE" /locus_tag="BSU_10120" /old_locus_tag="BSU10120" /EC_number="4.1.1.37" /function="16.2: Construct biomass (Anabolism)" /function="16.10: Respire" /experiment="publication(s) with functional evidences, PMID:10217486, 17122346" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10217486, 17122346; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="uroporphyrinogen III decarboxylase" /protein_id="NP_388893.1" /db_xref="EnsemblGenomes-Gn:BSU10120" /db_xref="EnsemblGenomes-Tr:CAB12852" /db_xref="GOA:P32395" /db_xref="InterPro:IPR000257" /db_xref="InterPro:IPR006361" /db_xref="PDB:2INF" /db_xref="SubtiList:BG10429" /db_xref="UniProtKB/Swiss-Prot:P32395" /translation="MSKRETFNETFLKAARGEKADHTPVWYMRQAGRSQPEYRKLKEK YGLFEITHQPELCAYVTRLPVEQYGVDAAILYKDIMTPLPSIGVDVEIKNGIGPVIDQ PIRSLADIEKLGQIDPEQDVPYVLETIKLLVNEQLNVPLIGFSGAPFTLASYMIEGGP SKNYNKTKAFMYSMPDAWNLLMSKLADMIIVYVKAQIEAGAKAIQIFDSWVGALNQAD YRTYIKPVMNRIFSELAKENVPLIMFGVGASHLAGDWHDLPLDVVGLDWRLGIDEARS KGITKTVQGNLDPSILLAPWEVIEQKTKEILDQGMESDGFIFNLGHGVFPDVSPEVLK KLTAFVHEYSQNKKMGQYS*" gene 1086117..1087178 /gene="hemE" /locus_tag="BSU_10120" /old_locus_tag="BSU10120" CDS 1087250..1088182 /gene="hemH" /locus_tag="BSU_10130" /old_locus_tag="BSU10130" /EC_number="4.99.1.1" /function="16.2: Construct biomass (Anabolism)" /function="16.10: Respire" /experiment="publication(s) with functional evidences, PMID:8119288, 12686546, 12761666, 16140324, 16453119, 17198378, 20543190, 21052751" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8119288, 12686546, 12761666, 16140324, 16453119, 17198378, 20543190, 21052751; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="ferrochelatase" /protein_id="NP_388894.1" /db_xref="EnsemblGenomes-Gn:BSU10130" /db_xref="EnsemblGenomes-Tr:CAB12853" /db_xref="GOA:P32396" /db_xref="InterPro:IPR001015" /db_xref="InterPro:IPR019772" /db_xref="InterPro:IPR033644" /db_xref="InterPro:IPR033659" /db_xref="PDB:1AK1" /db_xref="PDB:1C1H" /db_xref="PDB:1C9E" /db_xref="PDB:1DOZ" /db_xref="PDB:1FJI" /db_xref="PDB:1LD3" /db_xref="PDB:1N0I" /db_xref="PDB:2AC2" /db_xref="PDB:2AC4" /db_xref="PDB:2H1V" /db_xref="PDB:2H1W" /db_xref="PDB:2HK6" /db_xref="PDB:2Q2N" /db_xref="PDB:2Q2O" /db_xref="PDB:2Q3J" /db_xref="PDB:3GOQ" /db_xref="PDB:3M4Z" /db_xref="SubtiList:BG10430" /db_xref="UniProtKB/Swiss-Prot:P32396" /translation="MSRKKMGLLVMAYGTPYKEEDIERYYTHIRRGRKPEPEMLQDLK DRYEAIGGISPLAQITEQQAHNLEQHLNEIQDEITFKAYIGLKHIEPFIEDAVAEMHK DGITEAVSIVLAPHFSTFSVQSYNKRAKEEAEKLGGLTITSVESWYDEPKFVTYWVDR VKETYASMPEDERENAMLIVSAHSLPEKIKEFGDPYPDQLHESAKLIAEGAGVSEYAV GWQSEGNTPDPWLGPDVQDLTRDLFEQKGYQAFVYVPVGFVADHLEVLYDNDYECKVV TDDIGASYYRPEMPNAKPEFIDALATVVLKKLGR*" gene 1087250..1088182 /gene="hemH" /locus_tag="BSU_10130" /old_locus_tag="BSU10130" CDS 1088197..1089609 /gene="hemY" /locus_tag="BSU_10140" /old_locus_tag="BSU10140" /EC_number="1.3.3.4" /function="16.10: Respire" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:9217019, 9784236, 10498703, 20543190" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9217019, 9784236, 10498703, 20543190; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="promiscuous protoporphyrinogen IX and coproporphyrinogen III oxidase" /protein_id="NP_388895.1" /db_xref="EnsemblGenomes-Gn:BSU10140" /db_xref="EnsemblGenomes-Tr:CAB12854" /db_xref="GOA:P32397" /db_xref="InterPro:IPR002937" /db_xref="InterPro:IPR004572" /db_xref="InterPro:IPR036188" /db_xref="PDB:3I6D" /db_xref="SubtiList:BG10431" /db_xref="UniProtKB/Swiss-Prot:P32397" /translation="MSDGKKHVVIIGGGITGLAAAFYMEKEIKEKNLPLELTLVEASP RVGGKIQTVKKDGYIIERGPDSFLERKKSAPQLVKDLGLEHLLVNNATGQSYVLVNRT LHPMPKGAVMGIPTKIAPFVSTGLFSLSGKARAAMDFILPASKTKDDQSLGEFFRRRV GDEVVENLIEPLLSGIYAGDIDKLSLMSTFPQFYQTEQKHRSLILGMKKTRPQGSGQQ LTAKKQGQFQTLSTGLQTLVEEIEKQLKLTKVYKGTKVTKLSHSGSCYSLELDNGVTL DADSVIVTAPHKAAAGMLSELPAISHLKNMHSTSVANVALGFPEGSVQMEHEGTGFVI SRNSDFAITACTWTNKKWPHAAPEGKTLLRAYVGKAGDESIVDLSDNDIINIVLEDLK KVMNINGEPEMTCVTRWHESMPQYHVGHKQRIKELREALASAYPGVYMTGASFEGVGI PDCIDQGKAAVSDALTYLFS*" gene 1088197..1089609 /gene="hemY" /locus_tag="BSU_10140" /old_locus_tag="BSU10140" downshifts 1088200 /Source="Nicolas_upshifts" /id="D550" /incds=0 /nref=1 /ntot=19 /MaxReadThrough="7.68191" /MaxDrop="2.667" /score="28.7532434" /energy="-11.6" /TU="U813,U816" /idTUdmin="U814" /TUdmin=0 /isTUend="TRUE" downshifts 1089586 /Source="Nicolas_upshifts" /id="D551" /incds=0 /nref=195 /ntot=254 /MaxReadThrough="2.9859" /MaxDrop="6.7703" /score="28.7532434" /energy="-11.6" /TU="NA" /idTUdmin="U813" /TUdmin=0 /isTUend="TRUE" promotor_-35 1089670..1089677 /Source="Nicolas_upshift_promotors" /id="U817" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.825174825174825" /psig=1 /xcortree=2648 /SigmaFactorBS="tttgatgtgcaatggcaatattgtgtaaaaaatgATTGAATT gaacagcaggttaTGATACATTTGCATATGTACttaatgactaaaatgttcaaacggt c" /listShort="yhgD, S358, yhgE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1089691..1089710 /Source="Nicolas_upshift_promotors" /id="U817" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.825174825174825" /psig=1 /xcortree=2648 /SigmaFactorBS="tttgatgtgcaatggcaatattgtgtaaaaaatgATTGAATT gaacagcaggttaTGATACATTTGCATATGTACttaatgactaaaatgttcaaacggt c" /listShort="yhgD, S358, yhgE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1089696 /Source="Nicolas_upshifts" /id="U817" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.825174825174825" /psig=1 /xcortree=2648 /SigmaFactorBS="tttgatgtgcaatggcaatattgtgtaaaaaatgATTGAATT gaacagcaggttaTGATACATTTGCATATGTACttaatgactaaaatgttcaaacggt c" /listShort="yhgD, S358, yhgE" /GFF_Attribute="listLong" CDS 1089755..1090330 /gene="yhgD" /locus_tag="BSU_10150" /old_locus_tag="BSU10150" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 15944459, 23695570; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator of unknown target" /protein_id="NP_388896.1" /db_xref="EnsemblGenomes-Gn:BSU10150" /db_xref="EnsemblGenomes-Tr:CAB12855" /db_xref="GOA:P32398" /db_xref="InterPro:IPR001647" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR023772" /db_xref="InterPro:IPR036271" /db_xref="SubtiList:BG10432" /db_xref="UniProtKB/Swiss-Prot:P32398" /translation="MSIDRKKLILEAATKSFTQFGYKATTMDLVAKLANVGKGTIYTF FKNKEELFDEIFTTLLKEMKQKADEAMEPSLPFHENVHRALFAILEFRKTHQLTIKIF QENAEIGTMAVQEVIQKMERSILSYIKSKIEDGIKSGAIKPCDPELTAFVMLKLYIAL IFDWEKQHPPLDKETIAGLLELYVVKGLSAN*" gene 1089755..1090330 /gene="yhgD" /locus_tag="BSU_10150" /old_locus_tag="BSU10150" promotor_-35 1090074..1090077 /Source="Nicolas_upshift_promotors" /id="U818" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.731268731268731" /psig="0.731268731268731" /xcortree=140 /SigmaFactorBS="aaacacatcagctgacgattaaaattttccaagagaatgccg AGATtggtacaatggcagttCAGGAAGTGATCCAGAAAATggagcgatccatcctgtc t" /listShort="S358, yhgE" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1090092 /Source="Nicolas_upshifts" /id="U818" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.731268731268731" /psig="0.731268731268731" /xcortree=140 /SigmaFactorBS="aaacacatcagctgacgattaaaattttccaagagaatgccg AGATtggtacaatggcagttCAGGAAGTGATCCAGAAAATggagcgatccatcctgtc t" /listShort="S358, yhgE" /GFF_Attribute="listLong" promotor_-10 1090094..1090113 /Source="Nicolas_upshift_promotors" /id="U818" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.731268731268731" /psig="0.731268731268731" /xcortree=140 /SigmaFactorBS="aaacacatcagctgacgattaaaattttccaagagaatgccg AGATtggtacaatggcagttCAGGAAGTGATCCAGAAAATggagcgatccatcctgtc t" /listShort="S358, yhgE" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1090331..1090400 /Source="Nicolas_S_feature" /locus_tag="new_1090331_1090400" /HighExp="G135, G150, G180, BI, Salt, Etha, Cold, Heat, Oxctl, LBGexp" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigB, SigA" /TUshortPSig="0.731, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S358" CDS 1090401..1092728 /gene="yhgE" /locus_tag="BSU_10160" /old_locus_tag="BSU10160" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15576783; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative methyl-accepting protein" /protein_id="NP_388897.1" /db_xref="EnsemblGenomes-Gn:BSU10160" /db_xref="EnsemblGenomes-Tr:CAB12856" /db_xref="GOA:P32399" /db_xref="InterPro:IPR017500" /db_xref="InterPro:IPR017501" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR023908" /db_xref="SubtiList:BG10433" /db_xref="UniProtKB/Swiss-Prot:P32399" /translation="MNTIRSQWKDIVTSKKLLIPIIAILFVPLIYSGVFLKAYWDPYG TVDQLPVVVVNQDKGATYEGEKLQIGDDLVKELKDNNNFDWHFSNDLDQSLKDLLNQK YYLVVEIPEDFSKNASTVLDKNPKKLDLKYHTNAGSNYVGATIGEKAIDKLKASVSKE VTEQYTKVIFDNFKDIAKGLSDASSGAKKIDDGTKDAKNGSAQLKENLAKLKESTATI SDKTAQLADGAAQVTSGIQSLDSSLGKFQDSSNQIYDKSSQLAAGSGELTSKMNELLA GLQNVQKGTPNLTNGLDQLNSKVQEGSEKAAKAEKIINALDLTKLETAVNNLEKSETA MKEFKKQLTDFENSLKNRDQAFKNVINSSDFLTAEQKSQLINSVEKKLPQVDAPDFDQ ILSQLPTADQLPDIATIKSSLEDVKAQVAQVKAMPEATSKLYNGAKTIQDAIDRLTEG ADKIYNGSQKLTDGQTKLTAGIGEYNKQFAKAKAGSEQLVTGSSQVSGGLFKLLDGSK QVQSGSSKLADGSASLDTGLGKLLDGTGELSSKLKDAADQTGDIDADDQTYGMFADPV KTKDDAIHSVPNYGTGLTPYILSMGLYVGGIMLTVVFPLKEASGRPRNGFEWFFSKFN VMMLVGIIQSLIVATVLLLGIGLEVESTWRFYVFTIITSLAFLAIIQFLATTMGNPGR FIAVIILVLQLGASGGTFPLELLPNFYQVIHGALPMTYSINGFRAVISNGDFGYMWQM AGVLIGIALVMIALSITYFTMLSRKEETSEEQPAS*" gene 1090401..1092728 /gene="yhgE" /locus_tag="BSU_10160" /old_locus_tag="BSU10160" downshifts 1092710 /Source="Nicolas_upshifts" /id="D552" /incds=0 /nref=65 /ntot=211 /MaxReadThrough="0.57274" /MaxDrop="5.58483" /score="-4.79013797" /energy="-7.3" /TU="NA" /idTUdmin="U817" /TUdmin=0 /isTUend="TRUE" CDS complement(1092770..1093747) /gene="fabHB" /locus_tag="BSU_10170" /old_locus_tag="BSU10170" /EC_number="2.3.1.180" /EC_number="2.3.1.38" /function="16.8: Protect" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:10629181, 21383089, 21542858" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10629181, 21383089, 21542858; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="beta-ketoacyl-acyl carrier protein synthase III 2" /protein_id="NP_388898.1" /db_xref="EnsemblGenomes-Gn:BSU10170" /db_xref="EnsemblGenomes-Tr:CAB12857" /db_xref="GOA:O07600" /db_xref="InterPro:IPR004655" /db_xref="InterPro:IPR013747" /db_xref="InterPro:IPR013751" /db_xref="InterPro:IPR016039" /db_xref="SubtiList:BG13048" /db_xref="UniProtKB/Swiss-Prot:O07600" /translation="MSKAKITAIGTYAPSRRLTNADLEKIVDTSDEWIVQRTGMRERR IADEHQFTSDLCIEAVKNLKSRYKGTLDDVDMILVATTTSDYAFPSTACRVQEYFGWE STGALDINATCAGLTYGLHLANGLITSGLHQKILVIAGETLSKVTDYTDRTTCVLFGD AAGALLVERDEETPGFLASVQGTSGNGGDILYRAGLRNEINGVQLVGSGKMVQNGREV YKWAARTVPGEFERLLHKAGLSSDDLDWFVPHSANLRMIESICEKTPFPIEKTLTSVE HYGNTSSVSIVLALDLAVKAGKLKKDQIVLLFGFGGGLTYTGLLIKWGM*" gene complement(1092770..1093747) /gene="fabHB" /locus_tag="BSU_10170" /old_locus_tag="BSU10170" downshifts complement(1092783) /Source="Nicolas_upshifts" /id="D553" /incds=0 /nref=21 /ntot=217 /MaxReadThrough="1.99012" /MaxDrop="7.90433" /score="-9.17544275" /energy="-7.3" /TU="NA" /idTUdmin="U819" /TUdmin="-19" /isTUend="TRUE" promotor_-10 complement(1093761..1093780) /Source="Nicolas_upshift_promotors" /id="U819" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.466533466533467" /psig="0.999000999001" /xcortree=2184 /SigmaFactorBS="atctacacttctctttttttgtaaaaaaaccttctttttAGT ACCAgatactaatatctAGTGTTATAATCTGACCATAaggagtgattcatatgtcaaa a" /listShort="fabHB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1093779) /Source="Nicolas_upshifts" /id="U819" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.466533466533467" /psig="0.999000999001" /xcortree=2184 /SigmaFactorBS="atctacacttctctttttttgtaaaaaaaccttctttttAGT ACCAgatactaatatctAGTGTTATAATCTGACCATAaggagtgattcatatgtcaaa a" /listShort="fabHB" /GFF_Attribute="listLong" promotor_-35 complement(1093794..1093800) /Source="Nicolas_upshift_promotors" /id="U819" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.466533466533467" /psig="0.999000999001" /xcortree=2184 /SigmaFactorBS="atctacacttctctttttttgtaaaaaaaccttctttttAGT ACCAgatactaatatctAGTGTTATAATCTGACCATAaggagtgattcatatgtcaaa a" /listShort="fabHB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1093806..1093814 /Source="Nicolas_upshift_promotors" /id="U820" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=3194 /SigmaFactorBS="tataacactagatattagtatctggtactaaaaaGAAGGTTT TtttacaaaaaAAGAGAAGTGTAGATAGGAatctatgaaaaagaaaaaggaggctgaa a" /listShort="yhfC, S360, yhfE, yhfF" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1093825..1093843 /Source="Nicolas_upshift_promotors" /id="U820" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=3194 /SigmaFactorBS="tataacactagatattagtatctggtactaaaaaGAAGGTTT TtttacaaaaaAAGAGAAGTGTAGATAGGAatctatgaaaaagaaaaaggaggctgaa a" /listShort="yhfC, S360, yhfE, yhfF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1093832 /Source="Nicolas_upshifts" /id="U820" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=3194 /SigmaFactorBS="tataacactagatattagtatctggtactaaaaaGAAGGTTT TtttacaaaaaAAGAGAAGTGTAGATAGGAatctatgaaaaagaaaaaggaggctgaa a" /listShort="yhfC, S360, yhfE, yhfF" /GFF_Attribute="listLong" CDS 1093874..1094650 /gene="yhfC" /locus_tag="BSU_10180" /old_locus_tag="BSU10180" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral membrane protein" /protein_id="NP_388899.1" /db_xref="EnsemblGenomes-Gn:BSU10180" /db_xref="EnsemblGenomes-Tr:CAB12858" /db_xref="GOA:O07601" /db_xref="InterPro:IPR011397" /db_xref="SubtiList:BG13049" /db_xref="UniProtKB/Swiss-Prot:O07601" /translation="MVSQEAVVFLALSGAIAFLLPIGLIVWFKRKYGASLKVFFIGAL TFFVFAQLLEGGVHVYVLQVNEMTKEAMQHPLWYGIYGCLMAGIFEECGRYLMMRFFM KRHHTWADGLAFGAGHGGLEAILITGLSSISLIVYAFAINSGTFEQLLVNGDVKQALL PIQEQLLHTPSYEWMLGGIERISAIAVQIGLSLLVLYAVKNRRPLFLLYSILLHALFN VPAVLYQRGIIEHAAAVEIIVALIAALSVYWIVKAKRVFQ*" gene 1093874..1094650 /gene="yhfC" /locus_tag="BSU_10180" /old_locus_tag="BSU10180" S_feature complement(1094366..1094987) /Source="Nicolas_S_feature" /locus_tag="new_1094366_1094987_c" /HighExp="B36, BT, B60, Pyr, S8, G/S, G135, Mal, M/G, Glucon" /AntisenseName="yhfC" /AntisenseCor="-0.12937903461570099" /AntisenseRegPval="-1.5" /CDS_PredictionProba="0.51248700000000003" /TUshortSig="SigK" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S359" S_feature 1094651..1095022 /Source="Nicolas_S_feature" /locus_tag="new_1094651_1095022" /HighExp="Lbstat, S2, M0t90, M40t90, HiOs, SMMPr, T-2.40H, Etha, Lbtran, Cold" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.48518699999999998" /TUshortSig="SigH" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S360" promotor_-10 complement(1094965..1094984) /Source="Nicolas_upshift_promotors" /id="U821" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1428 /SigmaFactorBS="tattttctacttaaaatatactcttttcccgagggacccGTC CAATCTTttcctatcaatctCTCATATGCTGTAGAGAGCAtgggaagaggagggattt c" /listShort="S359" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1094986) /Source="Nicolas_upshifts" /id="U821" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1428 /SigmaFactorBS="tattttctacttaaaatatactcttttcccgagggacccGTC CAATCTTttcctatcaatctCTCATATGCTGTAGAGAGCAtgggaagaggagggattt c" /listShort="S359" /GFF_Attribute="listLong" promotor_-35 complement(1094998..1095007) /Source="Nicolas_upshift_promotors" /id="U821" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1428 /SigmaFactorBS="tattttctacttaaaatatactcttttcccgagggacccGTC CAATCTTttcctatcaatctCTCATATGCTGTAGAGAGCAtgggaagaggagggattt c" /listShort="S359" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1095000..1095007 /Source="Nicolas_upshift_promotors" /id="U822" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.78921078921079" /psig="0.96003996003996" /xcortree=2233 /SigmaFactorBS="atgctctctacagcatatgagagattgataggaaaaGATTGG ACgggtccctcgggaaAAGAGTATATTTTAAGTAGAaaataaaaggaggaatgcccta t" /listShort="yhfE, yhfF" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1095022..1095041 /Source="Nicolas_upshift_promotors" /id="U822" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.78921078921079" /psig="0.96003996003996" /xcortree=2233 /SigmaFactorBS="atgctctctacagcatatgagagattgataggaaaaGATTGG ACgggtccctcgggaaAAGAGTATATTTTAAGTAGAaaataaaaggaggaatgcccta t" /listShort="yhfE, yhfF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1095024 /Source="Nicolas_upshifts" /id="U822" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.78921078921079" /psig="0.96003996003996" /xcortree=2233 /SigmaFactorBS="atgctctctacagcatatgagagattgataggaaaaGATTGG ACgggtccctcgggaaAAGAGTATATTTTAAGTAGAaaataaaaggaggaatgcccta t" /listShort="yhfE, yhfF" /GFF_Attribute="listLong" CDS 1095063..1096103 /gene="yhfE" /locus_tag="BSU_10200" /old_locus_tag="BSU10200" /EC_number="3.4.11.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15713475, 15743956; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative aminopeptidase" /protein_id="NP_388901.1" /db_xref="EnsemblGenomes-Gn:BSU10200" /db_xref="EnsemblGenomes-Tr:CAB12860" /db_xref="GOA:O07603" /db_xref="InterPro:IPR008007" /db_xref="InterPro:IPR023367" /db_xref="SubtiList:BG13051" /db_xref="UniProtKB/Swiss-Prot:O07603" /translation="MTSVRKTMELIKELVSIPSPTGNTYEVINYIESLLKEWKVETVR NHKGGLIATLPGRDTSRHRMLTAHVDTLGAMVKEIKADGRLKIDLIGGFRYNSIEGEY CQIETASGKMYTGTILMHQTSVHVYKDAGKAERNQENMEIRLDEPVHCRKDTEELGIG VGDFVSFDPRVEITSSGFIKSRHLDDKASVALLLRLIHEIQTEDIELPYTTHFLISNN EEIGYGGNSNIPPETVEYLAVDMGAIGDGQATDEYSVSICVKDASGPYHYQLRKHLVQ LAEKHHIDYKLDIYPYYGSDASAAIKSGHDIVHGLIGPGIDASHAFERTHKSSLRHTA KLLYYYVQSPMV*" gene 1095063..1096103 /gene="yhfE" /locus_tag="BSU_10200" /old_locus_tag="BSU10200" CDS 1096116..1096523 /gene="yhfF" /locus_tag="BSU_10210" /old_locus_tag="BSU10210" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 11157739, 14517985; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative RNA-binding PUA-containing enzyme" /protein_id="NP_388902.1" /db_xref="EnsemblGenomes-Gn:BSU10210" /db_xref="EnsemblGenomes-Tr:CAB12861" /db_xref="InterPro:IPR007374" /db_xref="InterPro:IPR009326" /db_xref="InterPro:IPR015947" /db_xref="SubtiList:BG13052" /db_xref="UniProtKB/Swiss-Prot:O07604" /translation="MKIYKLKSTFGWEGDDGLGEQLIQQILAGEKSATCAPKSLYSKD ELRDVYQTAGQLVTVYDKHDNPRCNIKVTDVFETTFGAPDMRLVKGEGNGDRIEEFQE DHRMAWAELIKSGELELNEDTVLITELFVLVKD*" gene 1096116..1096523 /gene="yhfF" /locus_tag="BSU_10210" /old_locus_tag="BSU10210" downshifts 1096494 /Source="Nicolas_upshifts" /id="D554" /incds=0 /nref=24 /ntot=228 /MaxReadThrough="0.87656" /MaxDrop="5.21108" /score="22.0862441" /energy="-20.3" /TU="U822" /idTUdmin="U822" /TUdmin="-23" /isTUend="FALSE" CDS complement(1096560..1097849) /gene="gltT" /locus_tag="BSU_10220" /old_locus_tag="BSU10220" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:8634258, 10588697, 11148213, 15849754, 16850406, 17673229, 25344233" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8634258, 10588697, 11148213, 15849754, 16850406, 17673229, 25344233; Product type t: transporter" /codon_start=1 /transl_table=11 /product="proton/sodium-glutamate (aspartate) symport permease" /protein_id="NP_388903.1" /db_xref="EnsemblGenomes-Gn:BSU10220" /db_xref="EnsemblGenomes-Tr:CAB12862" /db_xref="GOA:O07605" /db_xref="InterPro:IPR001991" /db_xref="InterPro:IPR018107" /db_xref="InterPro:IPR033380" /db_xref="InterPro:IPR036458" /db_xref="SubtiList:BG12595" /db_xref="UniProtKB/Swiss-Prot:O07605" /translation="MKRIKFGLATQIFVGLILGVIVGVIWYGNPALPTYLQPIGDLFL RLIKMIVIPIVVSSLIIGVAGAGNGKQVGKLGFRTILYFEIITTFAIILGLALANIFH PGTGVNIHEAQKSDISQYVETEKEQSNKSVAETFLHIVPTNFFQSLVEGDLLAIICFT VLFALGISAIGERGKPVLAFFEGVSHAMFHVVNLVMKVAPFGVFALIGVTVSKFGLGS LISLGKLVGLVYVALAFFLIVIFGIVAKIAGISIFKFLAYMKDEILLAFSTSSSETVL PRIMEKMEKIGCPKGIVSFVIPIGYTFNLDGSVLYQSIAALFLAQVYGIDLTIWHQIT LVLVLMVTSKGMAAVPGTSFVVLLATLGTIGVPAEGLAFIAGVDRIMDMARTVVNLTG NALAAVVMSKWEGMFNPAKAETVMSQSKTEQNATISG*" gene complement(1096560..1097849) /gene="gltT" /locus_tag="BSU_10220" /old_locus_tag="BSU10220" downshifts complement(1096590) /Source="Nicolas_upshifts" /id="D555" /incds=0 /nref=226 /ntot=280 /MaxReadThrough="2.99263" /MaxDrop="7.79183" /score="48.7726082" /energy="-21.9" /TU="U823" /idTUdmin="U824" /TUdmin=3 /isTUend="TRUE" S_feature complement(1097850..1097950) /Source="Nicolas_S_feature" /locus_tag="new_1097850_1097950_c" /HighExp="C90, LoTm, LBGexp, Cold, UNK1, BC, dia5, Lbexp, S1, T3.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="1, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S361" promotor_-10 complement(1097949..1097968) /Source="Nicolas_upshift_promotors" /id="U823" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.556443556443556" /psig=1 /xcortree=2240 /SigmaFactorBS="tctggtgattatcataatgtcATTGAATattctttattttcg AAATATAATTTACTATAGACgaattgatttcttatctattataatttgatctaatagt g" /listShort="S361, gltT" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1097950) /Source="Nicolas_upshifts" /id="U823" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.556443556443556" /psig=1 /xcortree=2240 /SigmaFactorBS="tctggtgattatcataatgtcATTGAATattctttattttcg AAATATAATTTACTATAGACgaattgatttcttatctattataatttgatctaatagt g" /listShort="S361, gltT" /GFF_Attribute="listLong" S_feature complement(1097952..1098088) /Source="Nicolas_S_feature" /locus_tag="new_1097952_1098088_c" /HighExp="M9-stat, T3.30H, T3.0H, T4.0H, T2.30H, T5.0H, Cold, T2.0H, S0, B60" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S362" promotor_-35 complement(1097983..1097989) /Source="Nicolas_upshift_promotors" /id="U823" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.556443556443556" /psig=1 /xcortree=2240 /SigmaFactorBS="tctggtgattatcataatgtcATTGAATattctttattttcg AAATATAATTTACTATAGACgaattgatttcttatctattataatttgatctaatagt g" /listShort="S361, gltT" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1098120..1098260) /gene="yhfH" /locus_tag="BSU_10230" /old_locus_tag="BSU10230" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388904.1" /db_xref="EnsemblGenomes-Gn:BSU10230" /db_xref="EnsemblGenomes-Tr:CAB12863" /db_xref="InterPro:IPR025432" /db_xref="SubtiList:BG13053" /db_xref="UniProtKB/Swiss-Prot:O07606" /translation="MVMLGKITEFFRNLPSKKCAECGKKIEEQHECYGNICNDCIKVN DL*" gene complement(1098120..1098260) /gene="yhfH" /locus_tag="BSU_10230" /old_locus_tag="BSU10230" downshifts complement(1098133) /Source="Nicolas_upshifts" /id="D556" /incds=0 /nref=3 /ntot=16 /MaxReadThrough="5.70702" /MaxDrop="4.73949" /score="28.7665297" /energy="-13.6" /TU="U824" /idTUdmin="U824" /TUdmin="-1540" /isTUend="FALSE" promotor_-10 complement(1098279..1098298) /Source="Nicolas_upshift_promotors" /id="U824" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.454545454545455" /psig=1 /xcortree=433 /SigmaFactorBS="tcttgaaaaaagcatgttttaaacattgtatcaaaacagtTA TTGATTtttgtaatctgtTATATTACAATGAAATCACTacaaaggggaaagagggatt g" /listShort="yhfH, S362, S361, gltT" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1098298) /Source="Nicolas_upshifts" /id="U824" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.454545454545455" /psig=1 /xcortree=433 /SigmaFactorBS="tcttgaaaaaagcatgttttaaacattgtatcaaaacagtTA TTGATTtttgtaatctgtTATATTACAATGAAATCACTacaaaggggaaagagggatt g" /listShort="yhfH, S362, S361, gltT" /GFF_Attribute="listLong" promotor_-35 complement(1098311..1098318) /Source="Nicolas_upshift_promotors" /id="U824" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.454545454545455" /psig=1 /xcortree=433 /SigmaFactorBS="tcttgaaaaaagcatgttttaaacattgtatcaaaacagtTA TTGATTtttgtaatctgtTATATTACAATGAAATCACTacaaaggggaaagagggatt g" /listShort="yhfH, S362, S361, gltT" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1098342..1098348 /Source="Nicolas_upshift_promotors" /id="U825" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.621378621378621" /psig="0.99100899100899" /xcortree=1999 /SigmaFactorBS="tacaaaaatcaataactgttttgatacaatgtttaaaACATG CTtttttcaagaaaaATGGGTATATTGAAGGAGGAccaatttttttgaaaagatagga g" /listShort="yhfI, yhfJ, yhfK" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1098362..1098381 /Source="Nicolas_upshift_promotors" /id="U825" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.621378621378621" /psig="0.99100899100899" /xcortree=1999 /SigmaFactorBS="tacaaaaatcaataactgttttgatacaatgtttaaaACATG CTtttttcaagaaaaATGGGTATATTGAAGGAGGAccaatttttttgaaaagatagga g" /listShort="yhfI, yhfJ, yhfK" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1098365 /Source="Nicolas_upshifts" /id="U825" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.621378621378621" /psig="0.99100899100899" /xcortree=1999 /SigmaFactorBS="tacaaaaatcaataactgttttgatacaatgtttaaaACATG CTtttttcaagaaaaATGGGTATATTGAAGGAGGAccaatttttttgaaaagatagga g" /listShort="yhfI, yhfJ, yhfK" /GFF_Attribute="listLong" CDS 1098412..1099146 /gene="yhfI" /locus_tag="BSU_10240" /old_locus_tag="BSU10240" /function="16.8: Protect" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative metal-dependent hydrolase" /protein_id="NP_388905.1" /db_xref="EnsemblGenomes-Gn:BSU10240" /db_xref="EnsemblGenomes-Tr:CAB12864" /db_xref="GOA:O07607" /db_xref="InterPro:IPR001279" /db_xref="InterPro:IPR036866" /db_xref="SubtiList:BG13054" /db_xref="UniProtKB/Swiss-Prot:O07607" /translation="MKVTVIGCYGGFPAANEATSGYLFQSGDYSLLVDCGSAVLSKLF GYVPAEKLDAVVLSHYHHDHIADIGPLQFAKQVGSFLGKGEHTLPIYGHDADIEQFQK LTYKTHTKGIAYQPDQPLTAGPFTITFLKTIHPVTCYAMRITDGSHTVVYTADSSYQD SFIPFSKDADLLISECNFYADQDGTSAGHMNSLEAGRIAKEAGAGELLLTHLPHFGVH DNLRKEAKTVFNGEVNIAKSGFVWEG*" gene 1098412..1099146 /gene="yhfI" /locus_tag="BSU_10240" /old_locus_tag="BSU10240" CDS 1099159..1100154 /gene="lplJ" /locus_tag="BSU_10250" /old_locus_tag="BSU10250" /EC_number="6.3.1.20" /experiment="publication(s) with functional evidences, PMID:21338420, 21338421" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 21338420, 21338421; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="lipoate-protein ligase" /protein_id="NP_388906.1" /db_xref="EnsemblGenomes-Gn:BSU10250" /db_xref="EnsemblGenomes-Tr:CAB12865" /db_xref="GOA:O07608" /db_xref="InterPro:IPR004143" /db_xref="InterPro:IPR004562" /db_xref="InterPro:IPR019491" /db_xref="SubtiList:BG13055" /db_xref="UniProtKB/Swiss-Prot:O07608" /translation="MLFIDNQNINDPRINLAIEEYCVKHLDPEQQYLLFYVNQPSIII GKNQNTIEEINTKYVEENGIIVVRRLSGGGAVYHDLGNLNFSFITKDDGDSFHNFKKF TEPVIQALHQLGVEAELSGRNDIVVDGRKISGNAQFATKGRIFSHGTLMFDSAIDHVV SALKVKKDKIESKGIKSIRSRVANISEFLDDKMTTEEFRSHLLRHIFNTNDVGNVPEY KLTEKDWETIHQISKERYQNWDWNYGRSPKFNLNHSKRYPVGSIDLHLEVKKGKIEDC KIFGDFFGVGDVSEIENLLVGKQYERSVIADVLEGVNLKHYFGNITKEDFLDLIY*" gene 1099159..1100154 /gene="lplJ" /locus_tag="BSU_10250" /old_locus_tag="BSU10250" CDS 1100219..1100863 /gene="yhfK" /locus_tag="BSU_10260" /old_locus_tag="BSU10260" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 11790741; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative NAD-binding epimerase / hydratase" /protein_id="NP_388907.1" /db_xref="EnsemblGenomes-Gn:BSU10260" /db_xref="EnsemblGenomes-Tr:CAB12866" /db_xref="GOA:O07609" /db_xref="InterPro:IPR016040" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG13056" /db_xref="UniProtKB/Swiss-Prot:O07609" /translation="MKVFLIGANGQIGQRLVSLFQDNPDHSIRAMVRKEEQKASLEAA GAEAVLANLEGSPEEIAAAAKGCDAIIFTAGSGGSTGYDKTLLVDLDGAAKAIEAAAI AGIKRFIMVSALQAHNRENWNEALKPYYVAKHYADKILEASGLTYTIIRPGGLRNEPG TGTVSAAKDLERGFISRDDVAKTVIASLDEKNTENRAFDLTEGDTPIAEALKKL*" gene 1100219..1100863 /gene="yhfK" /locus_tag="BSU_10260" /old_locus_tag="BSU10260" downshifts 1100851 /Source="Nicolas_upshifts" /id="D557" /incds=0 /nref=239 /ntot=258 /MaxReadThrough="0.56809" /MaxDrop="6.84076" /score="18.2092404" /energy="-10" /TU="NA" /idTUdmin="U825" /TUdmin=0 /isTUend="TRUE" promotor_-35 1100891..1100894 /Source="Nicolas_upshift_promotors" /id="U826" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.619380619380619" /psig=1 /xcortree=374 /SigmaFactorBS="aactatgacagtactgacactcagggctttttgctCTTGagt gtttttttctgTTTCTCTATAATGGAGAAGAaagcttggcttcaataatgaatgacta t" /listShort="lcfB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1100909..1100928 /Source="Nicolas_upshift_promotors" /id="U826" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.619380619380619" /psig=1 /xcortree=374 /SigmaFactorBS="aactatgacagtactgacactcagggctttttgctCTTGagt gtttttttctgTTTCTCTATAATGGAGAAGAaagcttggcttcaataatgaatgacta t" /listShort="lcfB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1100916 /Source="Nicolas_upshifts" /id="U826" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.619380619380619" /psig=1 /xcortree=374 /SigmaFactorBS="aactatgacagtactgacactcagggctttttgctCTTGagt gtttttttctgTTTCTCTATAATGGAGAAGAaagcttggcttcaataatgaatgacta t" /listShort="lcfB" /GFF_Attribute="listLong" CDS 1100980..1102521 /gene="lcfB" /locus_tag="BSU_10270" /old_locus_tag="BSU10270" /EC_number="6.2.1.3" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:17189250, 21398533" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 17189250, 21398533; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="long-chain fatty-acid-CoA ligase (degradative)" /protein_id="NP_388908.2" /db_xref="EnsemblGenomes-Gn:BSU10270" /db_xref="EnsemblGenomes-Tr:CAB12867" /db_xref="GOA:O07610" /db_xref="InterPro:IPR000873" /db_xref="InterPro:IPR020459" /db_xref="InterPro:IPR020845" /db_xref="InterPro:IPR025110" /db_xref="SubtiList:BG13057" /db_xref="UniProtKB/Swiss-Prot:O07610" /translation="MNLVSKLEETASEKPDSIACRFKDHMMTYQELNEYIQRFADGLQ EAGMEKGDHLALLLGNSPDFIIAFFGALKAGIVVVPINPLYTPTEIGYMLTNGDVKAI VGVSQLLPLYESMHESLPKVELVILCQTGEAEPEAADPEVRMKMTTFAKILRPTSAAK QNQEPVPDDTAVILYTSGTTGKPKGAMLTHQNLYSNANDVAGYLGMDERDNVVCALPM FHVFCLTVCMNAPLMSGATVLIEPQFSPASVFKLVKQQQATIFAGVPTMYNYLFQHEN GKKDDFSSIRLCISGGASMPVALLTAFEEKFGVTILEGYGLSEASPVTCFNPFDRGRK PGSIGTSILHVENKVVDPLGRELPAHQVGELIVKGPNVMKGYYKMPMETEHALKDGWL YTGDLARRDEDGYFYIVDRKKDMIIVGGYNVYPREVEEVLYSHPDVKEAVVIGVPDPQ SGEAVKGYVVPKRSGVTEEDIMQHCEKHLAKYKRPAAITFLDDIPKNATGKMLRRALR DILPQ*" gene 1100980..1102521 /gene="lcfB" /locus_tag="BSU_10270" /old_locus_tag="BSU10270" downshifts 1102501 /Source="Nicolas_upshifts" /id="D558" /incds=0 /nref=5 /ntot=108 /MaxReadThrough="2.74134" /MaxDrop="3.72638" /score="15.3712924" /energy="-10.4" /TU="NA" /idTUdmin="U826" /TUdmin=0 /isTUend="TRUE" CDS complement(1102560..1102955) /gene="yhfM" /locus_tag="BSU_10280" /old_locus_tag="BSU10280" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative membrane protein" /protein_id="NP_388909.1" /db_xref="EnsemblGenomes-Gn:BSU10280" /db_xref="EnsemblGenomes-Tr:CAB12868" /db_xref="SubtiList:BG13058" /db_xref="UniProtKB/Swiss-Prot:O07611" /translation="MKKIVAAIVVIGLVFIAFFYLYSRSGDVYQSVDADLITLSSSGQ EDIEIEKRQHVKDMLDIMNQGKQVKTEKTSAPDYEGTIKFHKDRYDSFRLWIDGSQQA VFLKDGTYYKLSKNDTKALLNIIKKEAKD*" gene complement(1102560..1102955) /gene="yhfM" /locus_tag="BSU_10280" /old_locus_tag="BSU10280" downshifts complement(1102577) /Source="Nicolas_upshifts" /id="D559" /incds=0 /nref=46 /ntot=89 /MaxReadThrough="0.75539" /MaxDrop="6.88759" /score="17.4775611" /energy="-10.4" /TU="NA" /idTUdmin="U827" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(1102975..1102986) /Source="Nicolas_upshift_promotors" /id="U827" /multdbtbs="SigF" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=1141 /SigmaFactorBS="caagctgtgttccgcacttttccacccttttaAGCATGGaaa ccccgatcgctGGGAAAACTAACaatgtttggagtgatgcaaatgaaaaaaatagtgg c" /listShort="yhfM" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1102979) /Source="Nicolas_upshifts" /id="U827" /multdbtbs="SigF" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=1141 /SigmaFactorBS="caagctgtgttccgcacttttccacccttttaAGCATGGaaa ccccgatcgctGGGAAAACTAACaatgtttggagtgatgcaaatgaaaaaaatagtgg c" /listShort="yhfM" /GFF_Attribute="listLong" promotor_-35 complement(1103001..1103007) /Source="Nicolas_upshift_promotors" /id="U827" /multdbtbs="SigF" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=1141 /SigmaFactorBS="caagctgtgttccgcacttttccacccttttaAGCATGGaaa ccccgatcgctGGGAAAACTAACaatgtttggagtgatgcaaatgaaaaaaatagtgg c" /listShort="yhfM" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1103040..1103043 /Source="Nicolas_upshift_promotors" /id="U828" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.635364635364635" /psig="0.785214785214785" /xcortree=1404 /SigmaFactorBS="atcggggtttccatgcttaaaagggtggaaaagtgcggaaca cagcttgGTTCtaagaatttgaattTATGATTACAATAGAAGTAAcgggttgatgtga g" /listShort="yhfN" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1103051 /Source="Nicolas_upshifts" /id="U828" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.635364635364635" /psig="0.785214785214785" /xcortree=1404 /SigmaFactorBS="atcggggtttccatgcttaaaagggtggaaaagtgcggaaca cagcttgGTTCtaagaatttgaattTATGATTACAATAGAAGTAAcgggttgatgtga g" /listShort="yhfN" /GFF_Attribute="listLong" promotor_-10 1103058..1103077 /Source="Nicolas_upshift_promotors" /id="U828" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.635364635364635" /psig="0.785214785214785" /xcortree=1404 /SigmaFactorBS="atcggggtttccatgcttaaaagggtggaaaagtgcggaaca cagcttgGTTCtaagaatttgaattTATGATTACAATAGAAGTAAcgggttgatgtga g" /listShort="yhfN" /GFF_Attribute="listLong" /label="promotor_-10" CDS 1103104..1104384 /gene="yhfN" /locus_tag="BSU_10290" /old_locus_tag="BSU10290" /EC_number="3.4.24.84" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 9015299; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative membrane metalloprotease" /protein_id="NP_388910.1" /db_xref="EnsemblGenomes-Gn:BSU10290" /db_xref="EnsemblGenomes-Tr:CAB12869" /db_xref="GOA:P40769" /db_xref="InterPro:IPR001915" /db_xref="InterPro:IPR027057" /db_xref="InterPro:IPR032456" /db_xref="SubtiList:BG11029" /db_xref="UniProtKB/Swiss-Prot:P40769" /translation="MRKWIAAAGLAYVLYGLFFYWYFFLSGDSAIPEAVKGTQADPAS FMKPSELAVAEQYSNVKNFLFFIGVPLDWFLFFVLLVSGVSKKIKKWIEAAVPFRFLQ TVGFVFVLSLITTLVTLPLDWIGYQVSLDYNISTQTTASWAKDQVISFWISFPIFTLC VLVFYWLIKRHEKKWWLYAWLLTVPFSLFLFFIQPVIIDPLYNDFYPLKNKELESKIL ELADEANIPADHVYEVNMSEKTNALNAYVTGIGANKRIVLWDTTLNKLDDSEILFIMG HEMGHYVMKHVYIGLAGYLLVSLAGFYVIDKLYKRTVRLTRSMFHLEGRHDLAALPLL LLLFSVLSFAVTPFSNAVSRYQENKADQYGIELTENREAAVKTFQDLAVTGLSQVDPP VLVKIFRGSHPSIMERIQHAEKEENAPEHQDADK*" gene 1103104..1104384 /gene="yhfN" /locus_tag="BSU_10290" /old_locus_tag="BSU10290" promotor_-10 complement(1103531..1103550) /Source="Nicolas_upshift_promotors" /id="U829" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.574425574425574" /psig="0.974025974025974" /xcortree=1821 /SigmaFactorBS="tcagccaataaaaaacgagaacgcaaagcgtaaaGATTGGaa agctgatccaaaaGCTGATAACCTGATCCTTAGcccagctggccgttgtctgtgtgga a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1103545) /Source="Nicolas_upshifts" /id="U829" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.574425574425574" /psig="0.974025974025974" /xcortree=1821 /SigmaFactorBS="tcagccaataaaaaacgagaacgcaaagcgtaaaGATTGGaa agctgatccaaaaGCTGATAACCTGATCCTTAGcccagctggccgttgtctgtgtgga a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(1103566..1103571) /Source="Nicolas_upshift_promotors" /id="U829" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.574425574425574" /psig="0.974025974025974" /xcortree=1821 /SigmaFactorBS="tcagccaataaaaaacgagaacgcaaagcgtaaaGATTGGaa agctgatccaaaaGCTGATAACCTGATCCTTAGcccagctggccgttgtctgtgtgga a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 1104371 /Source="Nicolas_upshifts" /id="D560" /incds=0 /nref=2 /ntot=57 /MaxReadThrough="3.82026" /MaxDrop="3.6342" /score="6.45541384" /energy="-12.7" /TU="U828" /idTUdmin="U828" /TUdmin="-132" /isTUend="FALSE" downshifts complement(1104421) /Source="Nicolas_upshifts" /id="D561" /incds=0 /nref=129 /ntot=219 /MaxReadThrough="-0.11848" /MaxDrop="9.02627" /score="-6.76069514" /energy="-7.8" /TU="NA" /idTUdmin="U830" /TUdmin=4 /isTUend="TRUE" CDS complement(1104423..1105568) /gene="aprE" /locus_tag="BSU_10300" /old_locus_tag="BSU10300" /EC_number="3.4.21.62" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:3108260, 9811547, 12950930, 14688235, 15205417, 17666034, 19710937, 26728191" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 3108260, 9811547, 12950930, 14688235, 15205417, 17666034, 19710937, 26728191; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="serine alkaline protease (Ca(2+)-dependent subtilisin E)" /protein_id="NP_388911.2" /db_xref="EnsemblGenomes-Gn:BSU10300" /db_xref="EnsemblGenomes-Tr:CAB12870" /db_xref="GOA:P04189" /db_xref="InterPro:IPR000209" /db_xref="InterPro:IPR009020" /db_xref="InterPro:IPR010259" /db_xref="InterPro:IPR015500" /db_xref="InterPro:IPR022398" /db_xref="InterPro:IPR023827" /db_xref="InterPro:IPR023828" /db_xref="InterPro:IPR034202" /db_xref="InterPro:IPR036852" /db_xref="InterPro:IPR037045" /db_xref="PDB:1SCJ" /db_xref="PDB:3WHI" /db_xref="SubtiList:BG10190" /db_xref="UniProtKB/Swiss-Prot:P04189" /translation="MRSKKLWISLLFALTLIFTMAFSNMSAQAAGKSSTEKKYIVGFK QTMSAMSSAKKKDVISEKGGKVQKQFKYVNAAAATLDEKAVKELKKDPSVAYVEEDHI AHEYAQSVPYGISQIKAPALHSQGYTGSNVKVAVIDSGIDSSHPDLNVRGGASFVPSE TNPYQDGSSHGTHVAGTIAALNNSIGVLGVAPSASLYAVKVLDSTGSGQYSWIINGIE WAISNNMDVINMSLGGPTGSTALKTVVDKAVSSGIVVAAAAGNEGSSGSTSTVGYPAK YPSTIAVGAVNSSNQRASFSSAGSELDVMAPGVSIQSTLPGGTYGAYNGTSMATPHVA GAAALILSKHPTWTNAQVRDRLESTATYLGNSFYYGKGLINVQAAAQ*" gene complement(1104423..1105568) /gene="aprE" /locus_tag="BSU_10300" /old_locus_tag="BSU10300" S_feature complement(1105569..1105635) /Source="Nicolas_S_feature" /locus_tag="new_1105569_1105635_c" /HighExp="BC, T5.0H, LoTm, Sw, T4.0H, T3.30H, S1, T3.0H, S2, M9-stat" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.996" /TUlongSig="NA" /TUlongPSig="NA" /label="S363" promotor_-10 complement(1105624..1105643) /Source="Nicolas_upshift_promotors" /id="U830" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.524475524475524" /psig="0.996003996003996" /xcortree=468 /SigmaFactorBS="atacctaaatagagataaaatcatctcaaaaaaatgggTCTA CtaaaatattattccaTCTATTACAATAAATTCACAgaatagtcttttaagtaagtct a" /listShort="S363, aprE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1105641) /Source="Nicolas_upshifts" /id="U830" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.524475524475524" /psig="0.996003996003996" /xcortree=468 /SigmaFactorBS="atacctaaatagagataaaatcatctcaaaaaaatgggTCTA CtaaaatattattccaTCTATTACAATAAATTCACAgaatagtcttttaagtaagtct a" /listShort="S363, aprE" /GFF_Attribute="listLong" promotor_-35 complement(1105659..1105663) /Source="Nicolas_upshift_promotors" /id="U830" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.524475524475524" /psig="0.996003996003996" /xcortree=468 /SigmaFactorBS="atacctaaatagagataaaatcatctcaaaaaaatgggTCTA CtaaaatattattccaTCTATTACAATAAATTCACAgaatagtcttttaagtaagtct a" /listShort="S363, aprE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1105948..1105955 /Source="Nicolas_upshift_promotors" /id="U831" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.854145854145854" /psig="0.983016983016983" /xcortree=2175 /SigmaFactorBS="ttcaaagcatgatgataaaagtattctgaaaaataaACTTTA CAgaaaagggatagaaTGAAAAAATTATTGAGAGGGaggaagaaataagatgaacatt c" /listShort="yhfO, yhfP, S364" /listLong="yhfQ" /label="promotor_-35" promotor_-10 1105970..1105989 /Source="Nicolas_upshift_promotors" /id="U831" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.854145854145854" /psig="0.983016983016983" /xcortree=2175 /SigmaFactorBS="ttcaaagcatgatgataaaagtattctgaaaaataaACTTTA CAgaaaagggatagaaTGAAAAAATTATTGAGAGGGaggaagaaataagatgaacatt c" /listShort="yhfO, yhfP, S364" /listLong="yhfQ" /label="promotor_-10" upshifts 1105972 /Source="Nicolas_upshifts" /id="U831" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.854145854145854" /psig="0.983016983016983" /xcortree=2175 /SigmaFactorBS="ttcaaagcatgatgataaaagtattctgaaaaataaACTTTA CAgaaaagggatagaaTGAAAAAATTATTGAGAGGGaggaagaaataagatgaacatt c" /listShort="yhfO, yhfP, S364" /listLong="yhfQ" CDS 1106003..1106452 /gene="yhfO" /locus_tag="BSU_10310" /old_locus_tag="BSU10310" /EC_number="2.3.1.-" /function="16.6: Maintain" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 11717295; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative N-acetyltransferase" /protein_id="NP_388912.1" /db_xref="EnsemblGenomes-Gn:BSU10310" /db_xref="EnsemblGenomes-Tr:CAB12871" /db_xref="GOA:O07614" /db_xref="InterPro:IPR000182" /db_xref="InterPro:IPR016181" /db_xref="SubtiList:BG13059" /db_xref="UniProtKB/Swiss-Prot:O07614" /translation="MNIRQAKTSDAAAIAPLFNQYREFYRQASDLQGAEAFLKARLEN HESVILIAEENGEFIGFTQLYPTFSSVSMKRIYILNDLFVVPHARTKGAGGRLLSAAK DYAGQNGAKCLTLQTEHHNRKARSLYEQNGYEEDTGFVHYCLNVPAK*" gene 1106003..1106452 /gene="yhfO" /locus_tag="BSU_10310" /old_locus_tag="BSU10310" promotor_-35 1106468..1106475 /Source="Nicolas_upshift_promotors" /id="U832" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.95004995004995" /psig=1 /xcortree=2061 /SigmaFactorBS="tgtgccggcgaagtgaaaatggcggcttgatGATTTGGTttt ttgaacgttctTCGGTTACGATATAAATGAAaaggagtgtgccgaatgtcaacgttat t" /listShort="yhfP, S364, yhfQ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1106490..1106509 /Source="Nicolas_upshift_promotors" /id="U832" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.95004995004995" /psig=1 /xcortree=2061 /SigmaFactorBS="tgtgccggcgaagtgaaaatggcggcttgatGATTTGGTttt ttgaacgttctTCGGTTACGATATAAATGAAaaggagtgtgccgaatgtcaacgttat t" /listShort="yhfP, S364, yhfQ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1106497 /Source="Nicolas_upshifts" /id="U832" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.95004995004995" /psig=1 /xcortree=2061 /SigmaFactorBS="tgtgccggcgaagtgaaaatggcggcttgatGATTTGGTttt ttgaacgttctTCGGTTACGATATAAATGAAaaggagtgtgccgaatgtcaacgttat t" /listShort="yhfP, S364, yhfQ" /GFF_Attribute="listLong" CDS 1106524..1107516 /gene="yhfP" /locus_tag="BSU_10320" /old_locus_tag="BSU10320" /EC_number="1.-.-.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 9643546, 12057962; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative oxidoreductase" /protein_id="NP_388913.1" /db_xref="EnsemblGenomes-Gn:BSU10320" /db_xref="EnsemblGenomes-Tr:CAB12872" /db_xref="GOA:O07615" /db_xref="InterPro:IPR011032" /db_xref="InterPro:IPR013149" /db_xref="InterPro:IPR013154" /db_xref="InterPro:IPR014188" /db_xref="InterPro:IPR020843" /db_xref="InterPro:IPR036291" /db_xref="PDB:1TT7" /db_xref="PDB:1Y9E" /db_xref="SubtiList:BG13060" /db_xref="UniProtKB/Swiss-Prot:O07615" /translation="MSTLFQALQAEKNADDVSVHVKTISTEDLPKDGVLIKVAYSGIN YKDGLAGKAGGNIVREYPLILGIDAAGTVVSSNDPRFAEGDEVIATSYELGVSRDGGL SEYASVPGDWLVPLPQNLSLKEAMVYGTAGFTAALSVHRLEQNGLSPEKGSVLVTGAT GGVGGIAVSMLNKRGYDVVASTGNREAADYLKQLGASEVISREDVYDGTLKALSKQQW QGAVDPVGGKQLASLLSKIQYGGSVAVSGLTGGGEVPATVYPFILRGVSLLGIDSVYC PMDVRAAVWERMSSDLKPDQLLTIVDREVSLEETPGALKDILQNRIQGRVIVKL*" gene 1106524..1107516 /gene="yhfP" /locus_tag="BSU_10320" /old_locus_tag="BSU10320" downshifts 1107517 /Source="Nicolas_upshifts" /id="D562" /incds=0 /nref=1 /ntot=37 /MaxReadThrough="4.4421" /MaxDrop="2.9095" /score="14.183693" /energy="-15.3" /TU="U831,U832" /idTUdmin="U831" /TUdmin="-154" /isTUend="FALSE" S_feature 1107562..1107672 /Source="Nicolas_S_feature" /locus_tag="new_1107562_1107672" /HighExp="Etha, dia15, LoTm, Salt, H2O2, LBGexp, Diami, Paraq, dia5, Lbexp" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="1, 0.983" /TUlongSig="NA" /TUlongPSig="NA" /label="S364" promotor_-35 1107650..1107657 /Source="Nicolas_upshift_promotors" /id="U833" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.76023976023976" /psig=1 /xcortree=2107 /SigmaFactorBS="gtaagccgaactttctcttctcattttaaaaataatTGGTGA TAatgattctcattccgTGTTATACTACTCTTGGACAtcttaaccatagaaactacca a" /listShort="yhfQ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1107673..1107692 /Source="Nicolas_upshift_promotors" /id="U833" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.76023976023976" /psig=1 /xcortree=2107 /SigmaFactorBS="gtaagccgaactttctcttctcattttaaaaataatTGGTGA TAatgattctcattccgTGTTATACTACTCTTGGACAtcttaaccatagaaactacca a" /listShort="yhfQ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1107674 /Source="Nicolas_upshifts" /id="U833" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.76023976023976" /psig=1 /xcortree=2107 /SigmaFactorBS="gtaagccgaactttctcttctcattttaaaaataatTGGTGA TAatgattctcattccgTGTTATACTACTCTTGGACAtcttaaccatagaaactacca a" /listShort="yhfQ" /GFF_Attribute="listLong" CDS 1107733..1108704 /gene="yhfQ" /locus_tag="BSU_10330" /old_locus_tag="BSU10330" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12354229, 16672620, 20147287; Product type t: transporter" /codon_start=1 /transl_table=11 /product="iron(III) siderophore-binding lipoprotein" /protein_id="NP_388914.2" /db_xref="EnsemblGenomes-Gn:BSU10330" /db_xref="EnsemblGenomes-Tr:CAB12873" /db_xref="GOA:C0SP94" /db_xref="InterPro:IPR002491" /db_xref="SubtiList:BG13061" /db_xref="UniProtKB/Swiss-Prot:C0SP94" /translation="MKKTLIILTVLLLSVLTAACSSSSGNQNSKEHKVAVTHDLGKTN VPEHPKRVVVLELGFIDTLLDLGITPVGVADDNKAKQLINKDVLKKIDGYTSVGTRSQ PSMEKIASLKPDLIIADTTRHKKVYDQLKKIAPTIALNNLNADYQDTIDASLTIAKAV GKEKEMEKKLTAHEEKLSETKQKISANSQSVLLIGNTNDTIMARDENFFTSRLLTQVG YRYAISTSGNSDSSNGGDSVNMKMTLEQLLKTDPDVIILMTGKTDDLDADGKRPIEKN VLWKKLKAVKNGHVYHVDRAVWSLRRSVDGANAILDELQKEMPAAKK*" gene 1107733..1108704 /gene="yhfQ" /locus_tag="BSU_10330" /old_locus_tag="BSU10330" downshifts 1108683 /Source="Nicolas_upshifts" /id="D563" /incds=0 /nref=172 /ntot=251 /MaxReadThrough="2.22013" /MaxDrop="5.6726" /score="27.9181244" /energy="-10.9" /TU="NA" /idTUdmin="U833" /TUdmin=0 /isTUend="TRUE" CDS complement(1108736..1109317) /gene="phoE" /locus_tag="BSU_10340" /old_locus_tag="BSU10340" /EC_number="3.1.3.-" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:10869096, 11827481, 12870714, 17693564" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10869096, 11827481, 12870714, 17693564; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="promiscuous phosphatase; putative (phosphoglycerate) mutase" /protein_id="NP_388915.1" /db_xref="EnsemblGenomes-Gn:BSU10340" /db_xref="EnsemblGenomes-Tr:CAB12874" /db_xref="GOA:O07617" /db_xref="InterPro:IPR001345" /db_xref="InterPro:IPR013078" /db_xref="InterPro:IPR029033" /db_xref="SubtiList:BG13062" /db_xref="UniProtKB/Swiss-Prot:O07617" /translation="MTAVCLVRHGETDWNLQQKCQGKTDIPLNATGERQARETGEYVK DFSWDIIVTSPLKRAKRTAEIINEYLHLPIVEMDDFKERDYGDAEGMPLEERTKRYPD NIYPNMETLEELTDRLMGGLAKVNQAYPNKKVLIVAHGAAIHALLTEISGGDPELQST RLVNACLSNIEFAEEKWRIKDYNINSHLSGFIK*" gene complement(1108736..1109317) /gene="phoE" /locus_tag="BSU_10340" /old_locus_tag="BSU10340" downshifts complement(1108759) /Source="Nicolas_upshifts" /id="D564" /incds=0 /nref=218 /ntot=256 /MaxReadThrough="1.23197" /MaxDrop="6.359" /score="28.9228703" /energy="-10.9" /TU="NA" /idTUdmin="U834" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(1109341..1109360) /Source="Nicolas_upshift_promotors" /id="U834" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.370629370629371" /psig="0.998001998001998" /xcortree=1973 /SigmaFactorBS="ctttattatttgaagttcttgcataggctttttcATAGgaca cacgctttcgaTTTAGTATAATAGCGATATGaataaagtcaggaaggggattttatga c" /listShort="phoE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1109353) /Source="Nicolas_upshifts" /id="U834" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.370629370629371" /psig="0.998001998001998" /xcortree=1973 /SigmaFactorBS="ctttattatttgaagttcttgcataggctttttcATAGgaca cacgctttcgaTTTAGTATAATAGCGATATGaataaagtcaggaaggggattttatga c" /listShort="phoE" /GFF_Attribute="listLong" promotor_-35 complement(1109376..1109379) /Source="Nicolas_upshift_promotors" /id="U834" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.370629370629371" /psig="0.998001998001998" /xcortree=1973 /SigmaFactorBS="ctttattatttgaagttcttgcataggctttttcATAGgaca cacgctttcgaTTTAGTATAATAGCGATATGaataaagtcaggaaggggattttatga c" /listShort="phoE" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1109388..1110482) /gene="yhfS" /locus_tag="BSU_10350" /old_locus_tag="BSU10350" /EC_number="2.3.1.9" /experiment="publication(s) with functional evidences, PMID:12368242, 23840410" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12368242, 23840410; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="acetyl-CoA C-acetyltransferase" /protein_id="NP_388916.1" /db_xref="EnsemblGenomes-Gn:BSU10350" /db_xref="EnsemblGenomes-Tr:CAB12875" /db_xref="GOA:O07618" /db_xref="InterPro:IPR002155" /db_xref="InterPro:IPR016039" /db_xref="InterPro:IPR020613" /db_xref="InterPro:IPR020616" /db_xref="InterPro:IPR020617" /db_xref="SubtiList:BG13063" /db_xref="UniProtKB/Swiss-Prot:O07618" /translation="MNAVIVDAKRTIFGNQNGLLKPFLPEDLAAPIIRCLSRKLEDQV DEVILGNATGRGGNLARLSALQAGLPLSVPGMTIDRQCGSGLEAVRYACSLIQAGAGT MYIAGGSESSSQSPFSERARFSPDAIGDPDMGIAAEYTAARYSISRSMQDEYALLSHQ RSRNAHDEGFYREEVVALGELETDEAFLKTRPIEAIIPRAKPVFDTSSGTVTAANSSG IADGAAALLVMEEEKAAALGLKPVLRFIGSAVSGIHPNFPPAAPVVAIRQLLHTHDVT PDDIDLFEINEAFAVKICVCSQELGIPFSKINVRGGALALGHPYGASGAALVTRLFYE AKRRPDCQYAVAAIGSGGGIGLALLFEVLA*" gene complement(1109388..1110482) /gene="yhfS" /locus_tag="BSU_10350" /old_locus_tag="BSU10350" CDS complement(1110479..1111918) /gene="yhfT" /locus_tag="BSU_10360" /old_locus_tag="BSU10360" /EC_number="6.2.1.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12368242, 28032445, 28414710; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative long-chain fatty-acid-CoA ligase (proofreading for biotin synthesis)" /protein_id="NP_388917.1" /db_xref="EnsemblGenomes-Gn:BSU10360" /db_xref="EnsemblGenomes-Tr:CAB12876" /db_xref="GOA:O07619" /db_xref="InterPro:IPR000873" /db_xref="InterPro:IPR020845" /db_xref="InterPro:IPR025110" /db_xref="SubtiList:BG13064" /db_xref="UniProtKB/Swiss-Prot:O07619" /translation="MTITHTYSSTAETSPGRVAIQTESEQITYHDWDRLVSQTANWLR SQPSMPNRVAILLPNSLAFLQLFAGAAAAGCTAIPIDTRWSPAECKERLSISNADLVV TLAFFKNKLTDSQTPVVLLDNCMADISEAAADPLPTIDPEHPFYMGFTSGSTGKPKAF TRSHRSWMESFTCTETDFSISSDDKVLIPGALMSSHFLYGAVSTLFLGGTVCLLKKFS PAKAKEWLCRESISVLYTVPTMTDALARIEGFPDSPVKIISSGADWPAESKKKLAAAW PHLKLYDFYGTSELSFVTFSSPEDSKRKPHSAGRPFHNVRIEIRNAGGERCQPGEIGK IFVKSPMRFSGYVNGSTPDEWMTVDDMGYVDEEGFLYISGRENGMIVYGGLNIFPEEI ERVLLACPEVESAAVVGIPDEYWGEIAVAVILGNANARTLKAWCKQKLASYKIPKKWV FADSLPETSSGKIARSRVKKWLEESVQYK*" gene complement(1110479..1111918) /gene="yhfT" /locus_tag="BSU_10360" /old_locus_tag="BSU10360" CDS complement(1111925..1112485) /gene="bioY" /locus_tag="BSU_10370" /old_locus_tag="BSU10370" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12368242, 15849754, 16850406, 18931129, 23709504; Product type t : transporter" /codon_start=1 /transl_table=11 /product="biotin transporter" /protein_id="NP_388918.1" /db_xref="EnsemblGenomes-Gn:BSU10370" /db_xref="EnsemblGenomes-Tr:CAB12877" /db_xref="GOA:O07620" /db_xref="InterPro:IPR003784" /db_xref="SubtiList:BG13065" /db_xref="UniProtKB/Swiss-Prot:O07620" /translation="MLKLIDMMHIAIFTALMAVLGFMPPLFLSFTPVPITLQTLGVML AGSILRPKSAFLSQLVFLLLVAFGAPLLPGGRGGFGVFFGPSAGFLIAYPLASWLISL AANRLRKVTVLRLFFTHIVFGIIFIYLLGIPVQAFIMHIDLSQAAFMSLAYVPGDLIK AAVSAFLAIKITQALSLSDTMFTKGG*" gene complement(1111925..1112485) /gene="bioY" /locus_tag="BSU_10370" /old_locus_tag="BSU10370" misc_feature complement(1111935..1111954) /Source="Nicolas_upshift_promotors" /id="U835" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.585414585414585" /psig="0.97902097902098" /xcortree=2231 /SigmaFactorBS="aaaagcggctgtatctgcatttctggcgataaaaatcactca agccttgtctcttTCTGATACGATGTTTACAAAaggaggatgacaatacatgacaatt a" /listShort="yhfT, yhfS, phoE" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(1111949) /Source="Nicolas_upshifts" /id="U835" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.585414585414585" /psig="0.97902097902098" /xcortree=2231 /SigmaFactorBS="aaaagcggctgtatctgcatttctggcgataaaaatcactca agccttgtctcttTCTGATACGATGTTTACAAAaggaggatgacaatacatgacaatt a" /listShort="yhfT, yhfS, phoE" /GFF_Attribute="listLong" promotor_-10 complement(1112510..1112529) /Source="Nicolas_upshift_promotors" /id="U836" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.977022977022977" /psig="0.999000999001" /xcortree=2919 /SigmaFactorBS="ttgcgttcattatgtaaacttaaattaaaaatcAGTTGACAt aataattacctgcATTTATTGTATAACCATATTtgattactttttggaggatttcaca t" /listShort="bioY, yhfT, yhfS, phoE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1112524) /Source="Nicolas_upshifts" /id="U836" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.977022977022977" /psig="0.999000999001" /xcortree=2919 /SigmaFactorBS="ttgcgttcattatgtaaacttaaattaaaaatcAGTTGACAt aataattacctgcATTTATTGTATAACCATATTtgattactttttggaggatttcaca t" /listShort="bioY, yhfT, yhfS, phoE" /GFF_Attribute="listLong" promotor_-35 complement(1112544..1112551) /Source="Nicolas_upshift_promotors" /id="U836" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.977022977022977" /psig="0.999000999001" /xcortree=2919 /SigmaFactorBS="ttgcgttcattatgtaaacttaaattaaaaatcAGTTGACAt aataattacctgcATTTATTGTATAACCATATTtgattactttttggaggatttcaca t" /listShort="bioY, yhfT, yhfS, phoE" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1112620..1113918) /gene="hemAT" /locus_tag="BSU_10380" /old_locus_tag="BSU10380" /function="16.12: Sense" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11481493, 12657801, 12962628, 15033535, 16819829, 17003124, 22528495, 22564695" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11481493, 12657801, 12962628, 15033535, 16819829, 17003124, 22528495, 22564695; Product type rc: receptor" /codon_start=1 /transl_table=11 /product="heme-based dioxygen sensor" /protein_id="NP_388919.1" /db_xref="EnsemblGenomes-Gn:BSU10380" /db_xref="EnsemblGenomes-Tr:CAB12878" /db_xref="GOA:O07621" /db_xref="InterPro:IPR004089" /db_xref="InterPro:IPR009050" /db_xref="PDB:1OR4" /db_xref="PDB:1OR6" /db_xref="SubtiList:BG13066" /db_xref="UniProtKB/Swiss-Prot:O07621" /translation="MLFKKDRKQETAYFSDSNGQQKNRIQLTNKHADVKKQLKMVRLG DAELYVLEQLQPLIQENIVNIVDAFYKNLDHESSLMDIINDHSSVDRLKQTLKRHIQE MFAGVIDDEFIEKRNRIASIHLRIGLLPKWYMGAFQELLLSMIDIYEASITNQQELLK AIKATTKILNLEQQLVLEAFQSEYNQTRDEQEEKKNLLHQKIQETSGSIANLFSETSR SVQELVDKSEGISQASKAGTVTSSTVEEKSIGGKKELEVQQKQMNKIDTSLVQIEKEM VKLDEIAQQIEKIFGIVTGIAEQTNLLSLNASIESARAGEHGKGFAVVANEVRKLSED TKKTVSTVSELVNNTNTQINIVSKHIKDVNELVSESKEKMTQINRLFDEIVHSMKISK EQSGKIDVDLQAFLGGLQEVSRAVSHVAASVDSLVILTEE*" gene complement(1112620..1113918) /gene="hemAT" /locus_tag="BSU_10380" /old_locus_tag="BSU10380" downshifts complement(1112631) /Source="Nicolas_upshifts" /id="D565" /incds=0 /nref=209 /ntot=243 /MaxReadThrough="2.70691" /MaxDrop="6.97357" /score="5.86442746" /energy="-6.9" /TU="NA" /idTUdmin="U837" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(1113972..1113990) /Source="Nicolas_upshift_promotors" /id="U837" /multdbtbs="SigD" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2810 /SigmaFactorBS="tttttcaaatatttttcatctgcagCTTCATTcatgtttccc ttgGCCGATAAAAAAGAAAAAGgcttaaaaagccaaaaagtaaaaattatatttttcc c" /listShort="hemAT" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1113975) /Source="Nicolas_upshifts" /id="U837" /multdbtbs="SigD" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2810 /SigmaFactorBS="tttttcaaatatttttcatctgcagCTTCATTcatgtttccc ttgGCCGATAAAAAAGAAAAAGgcttaaaaagccaaaaagtaaaaattatatttttcc c" /listShort="hemAT" /GFF_Attribute="listLong" promotor_-35 complement(1114004..1114010) /Source="Nicolas_upshift_promotors" /id="U837" /multdbtbs="SigD" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2810 /SigmaFactorBS="tttttcaaatatttttcatctgcagCTTCATTcatgtttccc ttgGCCGATAAAAAAGAAAAAGgcttaaaaagccaaaaagtaaaaattatatttttcc c" /listShort="hemAT" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1114057..1115586) /gene="yhfW" /locus_tag="BSU_10390" /old_locus_tag="BSU10390" /EC_number="1.-.-.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative oxidoreductase with Rieske [2Fe-2S] center" /protein_id="NP_388920.1" /db_xref="EnsemblGenomes-Gn:BSU10390" /db_xref="EnsemblGenomes-Tr:CAB12879" /db_xref="GOA:O07622" /db_xref="InterPro:IPR005805" /db_xref="InterPro:IPR006076" /db_xref="InterPro:IPR017941" /db_xref="InterPro:IPR036188" /db_xref="InterPro:IPR036922" /db_xref="SubtiList:BG13067" /db_xref="UniProtKB/Swiss-Prot:O07622" /translation="MANQHFAKEAPETYWKTSTDLPSFPALQEDTECDVTIIGGGITG ITTAYELTKRGFRVVLIEANQVLNGTTAHTTAKVTAQHDMIYDEFIRHFGLNHARLYY EANQNAIDYIKGIVDEHQIDCEWIEQDAYLYTANENAVQKIHTEHEAYTKLGIERDLI KDLPIPLGSKLALVMKNQAQFHPLQYLKALLEQIVQKGGRIYEETVALDIKKGERPEV VTKSRHAIKSRFIICCSHFPFYDGGGLYAARMYSDRSYVLAIKPKIEYPEGMYLSIDQ PSVALRYTVVNGEKLILFSGVSHKTGQGKAMSTHYETLRQLAESTIGIESIPYYWSTQ DLVTIDKIPFIGPMSENEDNILVATGFKKWGMTSSAVAATLLSDLVEKKENPYESIFT PSRFHLNPGLQKVISYNADVAKHLIKGKLEKPDVQFEDISPGEGKAVTINGRRAGAFR DETGCLHLVDTTCTHLGCEVEWNDSEHTWDCPCHGSRFKPSGEVVEGPAIKPLKQIDL D*" gene complement(1114057..1115586) /gene="yhfW" /locus_tag="BSU_10390" /old_locus_tag="BSU10390" promotor_-10 complement(1115613..1115631) /Source="Nicolas_upshift_promotors" /id="U838" /multdbtbs="SigF" /comp="M3" /sig="SigEF" /pcomp="0.84015984015984" /psig="0.84015984015984" /xcortree=1075 /SigmaFactorBS="ttcaaccttattatgttatgaacaatgcctgcTTCCTAtgta tgaaaagataGAATATGGAAAAATTAAGAataaatctgattggaggtataacggcttg g" /listShort="yhfW, hemAT" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1115623) /Source="Nicolas_upshifts" /id="U838" /multdbtbs="SigF" /comp="M3" /sig="SigEF" /pcomp="0.84015984015984" /psig="0.84015984015984" /xcortree=1075 /SigmaFactorBS="ttcaaccttattatgttatgaacaatgcctgcTTCCTAtgta tgaaaagataGAATATGGAAAAATTAAGAataaatctgattggaggtataacggcttg g" /listShort="yhfW, hemAT" /GFF_Attribute="listLong" promotor_-35 1115642..1115647 /Source="Nicolas_upshift_promotors" /id="U839" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.99100899100899" /psig="0.99100899100899" /xcortree=1100 /SigmaFactorBS="ccaatcagatttattcttaatttttccatattctatcttttc aTACATAggaagcaggcattgtTCATAACATAATAAGGTTGaaaaggagtgatttcat t" /listShort="yhxC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 complement(1115646..1115651) /Source="Nicolas_upshift_promotors" /id="U838" /multdbtbs="SigF" /comp="M3" /sig="SigEF" /pcomp="0.84015984015984" /psig="0.84015984015984" /xcortree=1075 /SigmaFactorBS="ttcaaccttattatgttatgaacaatgcctgcTTCCTAtgta tgaaaagataGAATATGGAAAAATTAAGAataaatctgattggaggtataacggcttg g" /listShort="yhfW, hemAT" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1115659 /Source="Nicolas_upshifts" /id="U839" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.99100899100899" /psig="0.99100899100899" /xcortree=1100 /SigmaFactorBS="ccaatcagatttattcttaatttttccatattctatcttttc aTACATAggaagcaggcattgtTCATAACATAATAAGGTTGaaaaggagtgatttcat t" /listShort="yhxC" /GFF_Attribute="listLong" promotor_-10 1115663..1115681 /Source="Nicolas_upshift_promotors" /id="U839" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.99100899100899" /psig="0.99100899100899" /xcortree=1100 /SigmaFactorBS="ccaatcagatttattcttaatttttccatattctatcttttc aTACATAggaagcaggcattgtTCATAACATAATAAGGTTGaaaaggagtgatttcat t" /listShort="yhxC" /GFF_Attribute="listLong" /label="promotor_-10" CDS 1115698..1116555 /gene="yhxC" /locus_tag="BSU_10400" /old_locus_tag="BSU10400" /EC_number="1.-.-.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 18643936, 25720121; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative oxidoreductase" /protein_id="NP_388921.1" /db_xref="EnsemblGenomes-Gn:BSU10400" /db_xref="EnsemblGenomes-Tr:CAB12880" /db_xref="GOA:P40397" /db_xref="InterPro:IPR002347" /db_xref="InterPro:IPR020904" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG11058" /db_xref="UniProtKB/Swiss-Prot:P40397" /translation="MANQKKKTLPPQHQNQQPGFEYLMDPRPVFDKPKKAKKLEGKTA IITGGDSGIGRAVSVLFAKEGANVVIVYLNEHQDAEETKQYVEKEGVKCLLIAGDVGD EAFCNDVVGQASQVFPSIDILVNNAAEQHVQPSIEKITSHQLIRTFQTNIFSMFYLTK AVLPHLKKGSSIINTASITAYKGNKTLIDYSATKGAIVTFTRSLSQSLVQQGIRVNAV APGPIWTPLIPASFAAKDVEVFGSDVPMERPGQPVEVAPSYLYLASDDSTYVTGQTIH VNGGTIVNG*" gene 1115698..1116555 /gene="yhxC" /locus_tag="BSU_10400" /old_locus_tag="BSU10400" downshifts 1116537 /Source="Nicolas_upshifts" /id="D566" /incds=0 /nref=10 /ntot=36 /MaxReadThrough="2.65833" /MaxDrop="4.80135" /score="-8.69335909" /energy="-4.5" /TU="NA" /idTUdmin="U839" /TUdmin=0 /isTUend="TRUE" CDS complement(1116583..1116816) /gene="yhzC" /locus_tag="BSU_10410" /old_locus_tag="BSU10410" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388922.1" /db_xref="EnsemblGenomes-Gn:BSU10410" /db_xref="EnsemblGenomes-Tr:CAB12881" /db_xref="InterPro:IPR014957" /db_xref="SubtiList:BG13087" /db_xref="UniProtKB/Swiss-Prot:O31594" /translation="MKEKKSYTELMKSRNTQKTKEFDVTMTDIYIQMVLDESLYNRRL AMLTDQINKALDEKDKDAFLTLSKEYAALKQSE*" gene complement(1116583..1116816) /gene="yhzC" /locus_tag="BSU_10410" /old_locus_tag="BSU10410" downshifts complement(1116616) /Source="Nicolas_upshifts" /id="D567" /incds=0 /nref=191 /ntot=247 /MaxReadThrough="3.34616" /MaxDrop="7.00218" /score="21.4902337" /energy="-12.3" /TU="U841" /idTUdmin="U844" /TUdmin="-3" /isTUend="TRUE" promotor_-10 complement(1116833..1116852) /Source="Nicolas_upshift_promotors" /id="U841" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.914085914085914" /psig="0.999000999001" /xcortree=2872 /SigmaFactorBS="atagattgccaagtattagttgtctaaaaattataaaaattT ATTGATTttttcgaccgttatCCATATACTATAAAAAAGGCattggggggattcttta t" /listShort="yhzC" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 1116836..1116837 /Source="Nicolas_upshift_promotors" /id="U840" /multdbtbs="-" /comp="M3" /sig="Sig-" /pcomp="0.422577422577423" /psig="0.422577422577423" /xcortree=1052 /SigmaFactorBS="cgggacttcatgagctcagtgtacgattttttctctttcata aagaatccccccaatgccTTttTTATAGTATATGGATAacggtcgaaaaaatcaataa a" /listShort="comK" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1116836 /Source="Nicolas_upshifts" /id="U840" /multdbtbs="-" /comp="M3" /sig="Sig-" /pcomp="0.422577422577423" /psig="0.422577422577423" /xcortree=1052 /SigmaFactorBS="cgggacttcatgagctcagtgtacgattttttctctttcata aagaatccccccaatgccTTttTTATAGTATATGGATAacggtcgaaaaaatcaataa a" /listShort="comK" /GFF_Attribute="listLong" promotor_-10 1116840..1116855 /Source="Nicolas_upshift_promotors" /id="U840" /multdbtbs="-" /comp="M3" /sig="Sig-" /pcomp="0.422577422577423" /psig="0.422577422577423" /xcortree=1052 /SigmaFactorBS="cgggacttcatgagctcagtgtacgattttttctctttcata aagaatccccccaatgccTTttTTATAGTATATGGATAacggtcgaaaaaatcaataa a" /listShort="comK" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1116855) /Source="Nicolas_upshifts" /id="U841" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.914085914085914" /psig="0.999000999001" /xcortree=2872 /SigmaFactorBS="atagattgccaagtattagttgtctaaaaattataaaaattT ATTGATTttttcgaccgttatCCATATACTATAAAAAAGGCattggggggattcttta t" /listShort="yhzC" /GFF_Attribute="listLong" S_feature complement(1116857..1117712) /Source="Nicolas_S_feature" /locus_tag="new_1116857_1117712_c" /HighExp="Salt, Etha, C30, Heat, S8, LPhT, Gly, C90, S7, UNK1" /AntisenseName="comK" /AntisenseCor="-5.68778941053006E-2" /AntisenseRegPval="-0.5" /CDS_PredictionProba="NA" /TUshortSig="SigB" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S365" promotor_-35 complement(1116867..1116874) /Source="Nicolas_upshift_promotors" /id="U841" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.914085914085914" /psig="0.999000999001" /xcortree=2872 /SigmaFactorBS="atagattgccaagtattagttgtctaaaaattataaaaattT ATTGATTttttcgaccgttatCCATATACTATAAAAAAGGCattggggggattcttta t" /listShort="yhzC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1117039..1117046 /Source="Nicolas_upshift_promotors" /id="U842" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.747252747252747" /psig="0.997002997002997" /xcortree=2958 /SigmaFactorBS="ttaaaagatgattttatcttaaatgttaaaaaaacCTGTCGT TttacaaaaacaGATGATAGATTATTAGTATAaattttgcagaaaaaggatggaggcc a" /listShort="comK, S366, S367" /listLong="yhjA" /label="promotor_-35" promotor_-10 1117058..1117077 /Source="Nicolas_upshift_promotors" /id="U842" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.747252747252747" /psig="0.997002997002997" /xcortree=2958 /SigmaFactorBS="ttaaaagatgattttatcttaaatgttaaaaaaacCTGTCGT TttacaaaaacaGATGATAGATTATTAGTATAaattttgcagaaaaaggatggaggcc a" /listShort="comK, S366, S367" /listLong="yhjA" /label="promotor_-10" upshifts 1117064 /Source="Nicolas_upshifts" /id="U842" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.747252747252747" /psig="0.997002997002997" /xcortree=2958 /SigmaFactorBS="ttaaaagatgattttatcttaaatgttaaaaaaacCTGTCGT TttacaaaaacaGATGATAGATTATTAGTATAaattttgcagaaaaaggatggaggcc a" /listShort="comK, S366, S367" /listLong="yhjA" CDS 1117109..1117687 /gene="comK" /locus_tag="BSU_10420" /old_locus_tag="BSU10420" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:15743949, 15819619, 16554821, 16907804, 17468244, 26091431, 27501195, 27920766" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15743949, 15819619, 16554821, 16907804, 17468244, 26091431, 27501195, 27920766; Product type r: regulator" /codon_start=1 /transl_table=11 /product="competence transcription factor (CTF)" /protein_id="NP_388923.1" /db_xref="EnsemblGenomes-Gn:BSU10420" /db_xref="EnsemblGenomes-Tr:CAB12882" /db_xref="GOA:P40396" /db_xref="InterPro:IPR010461" /db_xref="SubtiList:BG11059" /db_xref="UniProtKB/Swiss-Prot:P40396" /translation="MSQKTDAPLESYEVNGATIAVLPEEIDGKICSKIIEKDCVFYVN MKPLQIVDRSCRFFGSSYAGRKAGTYEVTKISHKPPIMVDPSNQIFLFPTLSSTRPQC GWISHVHVKEFKATEFDDTEVTFSNGKTMELPISYNSFENQVYRTAWLRTKFQDRIDH RVPKRQEFMLYPKEERTKMIYDFILRELGERY*" gene 1117109..1117687 /gene="comK" /locus_tag="BSU_10420" /old_locus_tag="BSU10420" S_feature 1117688..1117833 /Source="Nicolas_S_feature" /locus_tag="new_1117688_1117833" /HighExp="GM 150, C30, T-4.40H, T-3.40H, GM 120, M9-tran, T-2.40H, C90, G/S, T-1.10H" /AntisenseName="yhxD" /AntisenseCor="-0.229484184862048" /AntisenseRegPval="-3.8" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.997" /TUlongSig="NA" /TUlongPSig="NA" /label="S366" CDS complement(1117734..1118633) /gene="yhxD" /locus_tag="BSU_10430" /old_locus_tag="BSU10430" /EC_number="1.-.-.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative oxidoreductase" /protein_id="NP_388924.1" /db_xref="EnsemblGenomes-Gn:BSU10430" /db_xref="EnsemblGenomes-Tr:CAB12883" /db_xref="GOA:P40398" /db_xref="InterPro:IPR002347" /db_xref="InterPro:IPR020904" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG11060" /db_xref="UniProtKB/Swiss-Prot:P40398" /translation="MSDSNLTNPIKAFFHDEFPEQYQEPPGLQKNMKPVPDCGEKSYK GSGKLTGRKALVTGGDSGIGRAAAIAYAREGADVAINYLPEEQPDAEEVKELIEAEGR KAVLIPGDLSDESFCQDLVKQSHHELGGLDVLALVAGKQQAVENIEDLPTEQIYKTFE VNVFSLYWVVKAALPYLPEGASIITTTSVEGYNPSPMLLDYAATKNAIIGFTVGLGKQ LASKGIRVNSVAPGPIWTPLQISGGQPTENIPKFGQGTPPAPLNRAGQPVELADVYVF LASENSSYVTSQVYGITGGIPTA*" gene complement(1117734..1118633) /gene="yhxD" /locus_tag="BSU_10430" /old_locus_tag="BSU10430" downshifts complement(1117757) /Source="Nicolas_upshifts" /id="D568" /incds=0 /nref=7 /ntot=53 /MaxReadThrough="4.95535" /MaxDrop="4.1467" /score="-2.68458203" /energy="-14.6" /TU="U844" /idTUdmin="U844" /TUdmin="-1144" /isTUend="FALSE" promotor_-35 1117820..1117823 /Source="Nicolas_upshift_promotors" /id="U843" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.95104895104895" /psig="0.010989010989011" /xcortree=17 /SigmaFactorBS="atgtcacatagcttgaattctctgaagctagaaatacataaa catCGGCcaattccactggctgccCAGCGcgatttaatggagctggcggcgtgccttg t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1117835 /Source="Nicolas_upshifts" /id="U843" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.95104895104895" /psig="0.010989010989011" /xcortree=17 /SigmaFactorBS="atgtcacatagcttgaattctctgaagctagaaatacataaa catCGGCcaattccactggctgccCAGCGcgatttaatggagctggcggcgtgccttg t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 1117841..1117845 /Source="Nicolas_upshift_promotors" /id="U843" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.95104895104895" /psig="0.010989010989011" /xcortree=17 /SigmaFactorBS="atgtcacatagcttgaattctctgaagctagaaatacataaa catCGGCcaattccactggctgccCAGCGcgatttaatggagctggcggcgtgccttg t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" downshifts 1117879 /Source="Nicolas_upshifts" /id="D569" /incds=1 /nref=1 /ntot=5 /MaxReadThrough="5.45904" /MaxDrop="5.6543" /score="-8.69335909" /energy="-4.5" /TU="U842" /idTUdmin="U843" /TUdmin=0 /isTUend="TRUE" S_feature 1117924..1118790 /Source="Nicolas_S_feature" /locus_tag="new_1117924_1118790" /HighExp="GM 150, C30, T-4.40H, C90, T-3.40H, T-2.40H, G/S, T-5.40H, M9-tran, nit" /AntisenseName="yhxD" /AntisenseCor="-0.32746434250834699" /AntisenseRegPval="-7.4" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.997" /TUlongSig="NA" /TUlongPSig="NA" /label="S367" promotor_-10 complement(1118660..1118678) /Source="Nicolas_upshift_promotors" /id="U844" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=190 /SigmaFactorBS="tgttttctttttccttcactattcaaactgccaaaacaTGTT TTTctgcttatgctcagGGGTACACATACGAATGTAcaccaaacagaaaaggagcgtt g" /listShort="yhxD, S365, yhzC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1118677) /Source="Nicolas_upshifts" /id="U844" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=190 /SigmaFactorBS="tgttttctttttccttcactattcaaactgccaaaacaTGTT TTTctgcttatgctcagGGGTACACATACGAATGTAcaccaaacagaaaaggagcgtt g" /listShort="yhxD, S365, yhzC" /GFF_Attribute="listLong" promotor_-35 complement(1118693..1118699) /Source="Nicolas_upshift_promotors" /id="U844" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=190 /SigmaFactorBS="tgttttctttttccttcactattcaaactgccaaaacaTGTT TTTctgcttatgctcagGGGTACACATACGAATGTAcaccaaacagaaaaggagcgtt g" /listShort="yhxD, S365, yhzC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1118767..1118774 /Source="Nicolas_upshift_promotors" /id="U845" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.866133866133866" /psig=1 /xcortree=2715 /SigmaFactorBS="aaaacaagaaaaaacaaagccttcttccatatttaTCTTGTC AaataagactatatgAATTATGATAAATTCGAGCTataaatcaactaaatattgggtg t" /listShort="yhjA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1118789..1118808 /Source="Nicolas_upshift_promotors" /id="U845" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.866133866133866" /psig=1 /xcortree=2715 /SigmaFactorBS="aaaacaagaaaaaacaaagccttcttccatatttaTCTTGTC AaataagactatatgAATTATGATAAATTCGAGCTataaatcaactaaatattgggtg t" /listShort="yhjA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1118792 /Source="Nicolas_upshifts" /id="U845" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.866133866133866" /psig=1 /xcortree=2715 /SigmaFactorBS="aaaacaagaaaaaacaaagccttcttccatatttaTCTTGTC AaataagactatatgAATTATGATAAATTCGAGCTataaatcaactaaatattgggtg t" /listShort="yhjA" /GFF_Attribute="listLong" CDS 1118850..1119119 /gene="yhjA" /locus_tag="BSU_10440" /old_locus_tag="BSU10440" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388925.1" /db_xref="EnsemblGenomes-Gn:BSU10440" /db_xref="EnsemblGenomes-Tr:CAB12884" /db_xref="InterPro:IPR008613" /db_xref="SubtiList:BG13068" /db_xref="UniProtKB/Swiss-Prot:O07555" /translation="MKKAAAVLLSLGLVFGFSYGAGHVAEAKTKVKVYKNCKELNKVY KGGVARTSKVKNKGGKTKYKPYVSKALYDANKNKDRDKDLIACER*" gene 1118850..1119119 /gene="yhjA" /locus_tag="BSU_10440" /old_locus_tag="BSU10440" downshifts 1119111 /Source="Nicolas_upshifts" /id="D570" /incds=0 /nref=230 /ntot=267 /MaxReadThrough="2.67325" /MaxDrop="7.59695" /score="27.4895724" /energy="-11.2" /TU="NA" /idTUdmin="U845" /TUdmin=0 /isTUend="TRUE" downshifts complement(1119159) /Source="Nicolas_upshifts" /id="D571" /incds=0 /nref=11 /ntot=113 /MaxReadThrough="2.40747" /MaxDrop="4.60953" /score="20.2036192" /energy="-11.2" /TU="NA" /idTUdmin="U846" /TUdmin=6 /isTUend="TRUE" CDS complement(1119162..1120631) /gene="yhjB" /locus_tag="BSU_10450" /old_locus_tag="BSU10450" /function="16.1: Circulate" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16267290, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative Na+/metabolite cotransporter" /protein_id="NP_388926.1" /db_xref="EnsemblGenomes-Gn:BSU10450" /db_xref="EnsemblGenomes-Tr:CAB12885" /db_xref="GOA:O07556" /db_xref="InterPro:IPR001734" /db_xref="SubtiList:BG13069" /db_xref="UniProtKB/Swiss-Prot:O07556" /translation="MNAALIIIFGVLLLSIFLGIRAQKGKDMNLEQWTVGGRGFGTVF VFLLMAGEIYTTFTFLGGSGWAYGKGGPAFYIIAYGCLAYILSYWLLPAVWTYAKQHK LMSQSDFFTKKYNSPLLGILVSLVGIAALIPYLVLQLKGLGLIVSETSYGKITPTAAI WIGAVSITVYVMVSGIHGSAWISVVKDIMILVVVLFLGVYLPIHYYGGFQDMFQQIET AKPGFLTLPESGQSVAWFSSTVLLTALGFYMWPHTFSASYSAENPKVFRKNAIIMPLY QLVLLFVLFVGFAAILQVPDLNGADGDLSLLRLSLQAFDPWFVGIIGAAGLLTALVPG SMILMSASTLFAKNVYKVIAPRTTEQQVSALAKFLVPVIALISVYFTFKGGNTIVTLL LMGYSLVTQLFPALLFSLLKHNMVTKQGAFAGIIAGVGAVTYITMTETTIGTLFPALP QAAKDLNVGIVALLLNITVMMAVSLMTRKAKSAAADQAA*" gene complement(1119162..1120631) /gene="yhjB" /locus_tag="BSU_10450" /old_locus_tag="BSU10450" CDS complement(1120628..1120828) /gene="yhjC" /locus_tag="BSU_10460" /old_locus_tag="BSU10460" /function="16.1: Circulate" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 16267290; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative exported protein" /protein_id="NP_388927.1" /db_xref="EnsemblGenomes-Gn:BSU10460" /db_xref="EnsemblGenomes-Tr:CAB12886" /db_xref="GOA:O07557" /db_xref="InterPro:IPR021741" /db_xref="SubtiList:BG13070" /db_xref="UniProtKB/Swiss-Prot:O07557" /translation="MKLIHVLAALPFIGILLGIPFANKVTPYVFGMPFILAYIVMWAL LTSALMAIVYVLDKENKKEEAE*" gene complement(1120628..1120828) /gene="yhjC" /locus_tag="BSU_10460" /old_locus_tag="BSU10460" S_feature complement(1120829..1120947) /Source="Nicolas_S_feature" /locus_tag="new_1120829_1120947_c" /HighExp="S1, Etha, HiOs, MG 120, LoTm, T-5.40H, S2, GM-0.1, GM-0.2, T0.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="1, 0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S368" promotor_-10 complement(1120930..1120949) /Source="Nicolas_upshift_promotors" /id="U846" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.574425574425574" /psig=1 /xcortree=2904 /SigmaFactorBS="cttcgggcgattcagagcattaatttcagacaattcacACTA TACAaacaaaataaatTTATTTATAATTCGAACCACagcctttcactccaaaaaatga c" /listShort="S368, yhjC, yhjB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1120947) /Source="Nicolas_upshifts" /id="U846" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.574425574425574" /psig=1 /xcortree=2904 /SigmaFactorBS="cttcgggcgattcagagcattaatttcagacaattcacACTA TACAaacaaaataaatTTATTTATAATTCGAACCACagcctttcactccaaaaaatga c" /listShort="S368, yhjC, yhjB" /GFF_Attribute="listLong" promotor_-35 complement(1120962..1120969) /Source="Nicolas_upshift_promotors" /id="U846" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.574425574425574" /psig=1 /xcortree=2904 /SigmaFactorBS="cttcgggcgattcagagcattaatttcagacaattcacACTA TACAaacaaaataaatTTATTTATAATTCGAACCACagcctttcactccaaaaaatga c" /listShort="S368, yhjC, yhjB" /GFF_Attribute="listLong" /label="promotor_-35" downshifts complement(1121035) /Source="Nicolas_upshifts" /id="D572" /incds=0 /nref=1 /ntot=8 /MaxReadThrough="3.99656" /MaxDrop="2.67326" /score="20.2036192" /energy="-11.2" /TU="U848" /idTUdmin="U848" /TUdmin="-374" /isTUend="FALSE" CDS complement(1121036..1121398) /gene="yhjD" /locus_tag="BSU_10470" /old_locus_tag="BSU10470" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 16267290" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388928.1" /db_xref="EnsemblGenomes-Gn:BSU10470" /db_xref="EnsemblGenomes-Tr:CAB12887" /db_xref="GOA:O07558" /db_xref="SubtiList:BG13071" /db_xref="UniProtKB/Swiss-Prot:O07558" /translation="MPNLQEEIYDLIERALFLPMAITIFNRDLAGIEESTLKLKHPYK QLISESLKIAQKDLMEVRKELRKRKIAIRETERDEAFTLYTFVIDGYEENHRYFNPRI REQVSELLTYYLFAPDRL*" gene complement(1121036..1121398) /gene="yhjD" /locus_tag="BSU_10470" /old_locus_tag="BSU10470" promotor_-35 1121236..1121241 /Source="Nicolas_upshift_promotors" /id="U847" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.963036963036963" /psig="0.963036963036963" /xcortree=1144 /SigmaFactorBS="tttcctcagttcttttctgacctccatcaaatccttttGTGC TAtttttaatgattcgcTGATAAGCTGTTTATAAGGatgcttcaattttaatgtgctt t" /listShort="S369, yhjE, sipV" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1121257..1121275 /Source="Nicolas_upshift_promotors" /id="U847" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.963036963036963" /psig="0.963036963036963" /xcortree=1144 /SigmaFactorBS="tttcctcagttcttttctgacctccatcaaatccttttGTGC TAtttttaatgattcgcTGATAAGCTGTTTATAAGGatgcttcaattttaatgtgctt t" /listShort="S369, yhjE, sipV" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1121258 /Source="Nicolas_upshifts" /id="U847" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.963036963036963" /psig="0.963036963036963" /xcortree=1144 /SigmaFactorBS="tttcctcagttcttttctgacctccatcaaatccttttGTGC TAtttttaatgattcgcTGATAAGCTGTTTATAAGGatgcttcaattttaatgtgctt t" /listShort="S369, yhjE, sipV" /GFF_Attribute="listLong" S_feature 1121267..1121506 /Source="Nicolas_S_feature" /locus_tag="new_1121267_1121506" /HighExp="S6, S4, S8, S5, LoTm, B36, S3, S7, BT, B60" /AntisenseName="yhjD" /AntisenseCor="0.24202608585419999" /AntisenseRegPval="-4.2" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig="0.963" /TUlongSig="NA" /TUlongPSig="NA" /label="S369" promotor_-10 complement(1121428..1121447) /Source="Nicolas_upshift_promotors" /id="U848" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.975024975024975" /psig="0.999000999001" /xcortree=1502 /SigmaFactorBS="tcagcagaaaactaaaaagttttggtgattttttctgTCTTG AAAcatttcaccagccgATATAGAATACAAATAGAACaaacgttcccttagaaagaag g" /listShort="yhjD, S368, yhjC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1121446) /Source="Nicolas_upshifts" /id="U848" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.975024975024975" /psig="0.999000999001" /xcortree=1502 /SigmaFactorBS="tcagcagaaaactaaaaagttttggtgattttttctgTCTTG AAAcatttcaccagccgATATAGAATACAAATAGAACaaacgttcccttagaaagaag g" /listShort="yhjD, S368, yhjC" /GFF_Attribute="listLong" promotor_-35 complement(1121462..1121469) /Source="Nicolas_upshift_promotors" /id="U848" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.975024975024975" /psig="0.999000999001" /xcortree=1502 /SigmaFactorBS="tcagcagaaaactaaaaagttttggtgattttttctgTCTTG AAAcatttcaccagccgATATAGAATACAAATAGAACaaacgttcccttagaaagaag g" /listShort="yhjD, S368, yhjC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1121488..1121495 /Source="Nicolas_upshift_promotors" /id="U849" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.711288711288711" /psig="0.998001998001998" /xcortree=619 /SigmaFactorBS="cggctggtgaaatgtttcaagacagaaaaaatcaccaaaaCT TTTTAGttttctgctgataATGTGTAGAATAAGGATAGAcaaacccggtaaggagtat a" /listShort="yhjE, sipV" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1121508 /Source="Nicolas_upshifts" /id="U849" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.711288711288711" /psig="0.998001998001998" /xcortree=619 /SigmaFactorBS="cggctggtgaaatgtttcaagacagaaaaaatcaccaaaaCT TTTTAGttttctgctgataATGTGTAGAATAAGGATAGAcaaacccggtaaggagtat a" /listShort="yhjE, sipV" /GFF_Attribute="listLong" promotor_-10 1121509..1121528 /Source="Nicolas_upshift_promotors" /id="U849" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.711288711288711" /psig="0.998001998001998" /xcortree=619 /SigmaFactorBS="cggctggtgaaatgtttcaagacagaaaaaatcaccaaaaCT TTTTAGttttctgctgataATGTGTAGAATAAGGATAGAcaaacccggtaaggagtat a" /listShort="yhjE, sipV" /GFF_Attribute="listLong" /label="promotor_-10" CDS 1121550..1122173 /gene="yhjE" /locus_tag="BSU_10480" /old_locus_tag="BSU10480" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral membrane protein" /protein_id="NP_388929.1" /db_xref="EnsemblGenomes-Gn:BSU10480" /db_xref="EnsemblGenomes-Tr:CAB12888" /db_xref="GOA:O07559" /db_xref="InterPro:IPR015414" /db_xref="InterPro:IPR032816" /db_xref="SubtiList:BG13072" /db_xref="UniProtKB/Swiss-Prot:O07559" /translation="MLEHFLSYLTQEHLTELFQSYRAFGPLIAVLLPLIEAFLPFLPL IVFVVANTNSFGLWEGFILSWAGSTAGSILVFLIVRQYGQRKLLGFIRSHPSVRKLML WVERHGFGPMFLLLCFPFTPSAAVNVVAGLSRIGTRPFILAAASGKLVMIFMISFIGY DLHALITQPIRTVIAVLVITVLWYVGKKVERYLHVRASQREHDGGRQ*" gene 1121550..1122173 /gene="yhjE" /locus_tag="BSU_10480" /old_locus_tag="BSU10480" CDS 1122175..1122681 /gene="sipV" /locus_tag="BSU_10490" /old_locus_tag="BSU10490" /EC_number="3.4.21.89" /function="16.13: Shape" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:9325333, 9694797, 11309398, 12897006, 14568161, 27159567" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9325333, 9694797, 11309398, 12897006, 14568161, 27159567; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="type I signal peptidase" /protein_id="NP_388930.1" /db_xref="EnsemblGenomes-Gn:BSU10490" /db_xref="EnsemblGenomes-Tr:CAB12889" /db_xref="GOA:O07560" /db_xref="InterPro:IPR000223" /db_xref="InterPro:IPR015927" /db_xref="InterPro:IPR019756" /db_xref="InterPro:IPR019757" /db_xref="InterPro:IPR019758" /db_xref="InterPro:IPR036286" /db_xref="SubtiList:BG12674" /db_xref="UniProtKB/Swiss-Prot:O07560" /translation="MKKRFWFLAGVVSVVLAIQVKNAVFIDYKVEGVSMNPTFQEGNE LLVNKFSHRFKTIHRFDIVLFKGPDHKVLIKRVIGLPGETIKYKDDQLYVNGKQVAEP FLKHLKSVSAGSHVTGDFSLKDVTGTSKVPKGKYFVVGDNRIYSFDSRHFGPIREKNI VGVISDAE*" gene 1122175..1122681 /gene="sipV" /locus_tag="BSU_10490" /old_locus_tag="BSU10490" downshifts 1122674 /Source="Nicolas_upshifts" /id="D573" /incds=0 /nref=131 /ntot=250 /MaxReadThrough="0.63331" /MaxDrop="4.58282" /score="-7.37718733" /energy="-7.1" /TU="NA" /idTUdmin="U847" /TUdmin=0 /isTUend="TRUE" promotor_-35 1122732..1122739 /Source="Nicolas_upshift_promotors" /id="U850" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.662337662337662" /psig=1 /xcortree=2713 /SigmaFactorBS="cgtctttttgtatgccgtttggaaaaatgtGTTGAAGAaaaa tttgtaaggAGCTATAATCAAAATTGTTAcctgtgtaacaaaatttatatattttttt g" /listShort="S370, yhjG, yhjH" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1122753..1122772 /Source="Nicolas_upshift_promotors" /id="U850" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.662337662337662" /psig=1 /xcortree=2713 /SigmaFactorBS="cgtctttttgtatgccgtttggaaaaatgtGTTGAAGAaaaa tttgtaaggAGCTATAATCAAAATTGTTAcctgtgtaacaaaatttatatattttttt g" /listShort="S370, yhjG, yhjH" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1122762..1122861 /Source="Nicolas_S_feature" /locus_tag="new_1122762_1122861" /HighExp="LBGstat, LBGexp, Lbtran, C90, dia0, Lbexp, HPh, dia5, aero, LBGtran" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S370" upshifts 1122762 /Source="Nicolas_upshifts" /id="U850" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.662337662337662" /psig=1 /xcortree=2713 /SigmaFactorBS="cgtctttttgtatgccgtttggaaaaatgtGTTGAAGAaaaa tttgtaaggAGCTATAATCAAAATTGTTAcctgtgtaacaaaatttatatattttttt g" /listShort="S370, yhjG, yhjH" /GFF_Attribute="listLong" CDS 1122862..1124361 /gene="yhjG" /locus_tag="BSU_10500" /old_locus_tag="BSU10500" /EC_number="1.14.13.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 7678243, 15121720; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative aromatic compound monooxygenase/hydroxylase" /protein_id="NP_388931.1" /db_xref="EnsemblGenomes-Gn:BSU10500" /db_xref="EnsemblGenomes-Tr:CAB12890" /db_xref="GOA:O07561" /db_xref="InterPro:IPR002938" /db_xref="InterPro:IPR036188" /db_xref="SubtiList:BG13073" /db_xref="UniProtKB/Swiss-Prot:O07561" /translation="MMMKYEAVIIGGGPVGFMLASELAIAGVGTCVIERLEKPVPHSK ALTLHPRTLELLEMRGILERFVSKGSKIPTGHFSMLDTRLDFSGLDTSCPYTLLLPQS KTEKLLEDHARSLGTEVFRGAEALAVTQNGEAVQTIFKDRDGSVRTITSKFAVGADGA GSTVRKQAKIEFPGTDSTVTAALGDVVLLSPPPSGVLSLCTKEGGVMIVPLSPDRYRV VVISPYRTQTPKDVPVTEEELKADLLRICGTDFGLTDPSWMSRFGNAARQAKRYRDGR IFLAGDAAHIHFPAGGQGLNVGLQDAMNLGWKLAAAIKGSAPSWLLDSYHDERHPAAE GLLRNTEAQTKLIDFTQAGLHLRSMMSELLAFPDVNRYVAGQISALDVRYEADRTMPP NRLNGARLPDMKLILSDGNSERLYSFLQNGTFVLLSLRQEADDHIEVKGLRTVTASLA EPNEKLRNVHTILIRPDGHVAWAVDASAPDCSEVIQKGISRWFSVTSRV*" gene 1122862..1124361 /gene="yhjG" /locus_tag="BSU_10500" /old_locus_tag="BSU10500" promotor_-35 1124369..1124376 /Source="Nicolas_upshift_promotors" /id="U851" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.515484515484515" /psig=1 /xcortree=1955 /SigmaFactorBS="cagccgctggttttccgtcaccagccgagtataattcaattC GATTGTTtcatctgtaacaaAACGGTATGATAGAAGAAACaatcgaatgaaaaaggat g" /listShort="yhjH" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1124388 /Source="Nicolas_upshifts" /id="U851" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.515484515484515" /psig=1 /xcortree=1955 /SigmaFactorBS="cagccgctggttttccgtcaccagccgagtataattcaattC GATTGTTtcatctgtaacaaAACGGTATGATAGAAGAAACaatcgaatgaaaaaggat g" /listShort="yhjH" /GFF_Attribute="listLong" promotor_-10 1124390..1124409 /Source="Nicolas_upshift_promotors" /id="U851" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.515484515484515" /psig=1 /xcortree=1955 /SigmaFactorBS="cagccgctggttttccgtcaccagccgagtataattcaattC GATTGTTtcatctgtaacaaAACGGTATGATAGAAGAAACaatcgaatgaaaaaggat g" /listShort="yhjH" /GFF_Attribute="listLong" /label="promotor_-10" CDS 1124438..1124965 /gene="yhjH" /locus_tag="BSU_10510" /old_locus_tag="BSU10510" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator" /protein_id="NP_388932.1" /db_xref="EnsemblGenomes-Gn:BSU10510" /db_xref="EnsemblGenomes-Tr:CAB12891" /db_xref="GOA:Q796S4" /db_xref="InterPro:IPR000835" /db_xref="InterPro:IPR023187" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG13074" /db_xref="UniProtKB/Swiss-Prot:Q796S4" /translation="MNTDHTKRNLFELYAELIHQQEKWEGLIKAFLSDELRKLDVEHG SKSQLTMTEIHVLSCVGDNEPINVTSIAEKMNTTKATVSRISTKLLGAGFLHRTQLSD NKKEVYFRLTPAGKKLHSLHKYYHQKAEQRFLSFFDRYTEEEILFAERLFRDLVTKWY PSSEEIEGGLPSIFK*" gene 1124438..1124965 /gene="yhjH" /locus_tag="BSU_10510" /old_locus_tag="BSU10510" downshifts 1124927 /Source="Nicolas_upshifts" /id="D574" /incds=0 /nref=8 /ntot=128 /MaxReadThrough="1.1509" /MaxDrop="3.41655" /score="11.3050978" /energy="-9.9" /TU="NA" /idTUdmin="U851" /TUdmin=8 /isTUend="TRUE" S_feature complement(1124979..1125122) /Source="Nicolas_S_feature" /locus_tag="new_1124979_1125122_c" /HighExp="B36, B60, T0.30H, LBGstat, T1.30H, T1.0H, LPhT, LBGtran, Diami, T-0.40H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.979" /TUlongSig="NA" /TUlongPSig="NA" /label="S371" downshifts complement(1125017) /Source="Nicolas_upshifts" /id="D575" /incds=0 /nref=4 /ntot=72 /MaxReadThrough="1.20458" /MaxDrop="5.06167" /score="27.254423" /energy="-9.9" /TU="NA" /idTUdmin="U855" /TUdmin=0 /isTUend="TRUE" CDS complement(1125123..1126328) /gene="glcP" /locus_tag="BSU_10520" /old_locus_tag="BSU10520" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:9457850, 15849754, 16850406, 17056753, 19087206" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9457850, 15849754, 16850406, 17056753, 19087206; Product type t : transporter" /codon_start=1 /transl_table=11 /product="glucose/mannose:H+ symporter (recent HGT island)" /protein_id="NP_388933.1" /db_xref="EnsemblGenomes-Gn:BSU10520" /db_xref="EnsemblGenomes-Tr:CAB12892" /db_xref="GOA:O07563" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG13075" /db_xref="UniProtKB/Swiss-Prot:O07563" /translation="MLRGTYLFGYAFFFTVGIIHISTGSLTPFLLEAFNKTTDDISVI IFFQFTGFLSGVLIAPLMIKKYSHFRTLTLALTIMLVALSIFFLTKDWYYIIVMAFLL GYGAGTLETTVGSFVIANFESNAEKMSKLEVLFGLGALSFPLLINSFIDINNWFLPYY CIFTFLFVLFVGWLIFLSKNREYAKNANQQVTFPDGGAFQYFIGDRKKSKQLGFFVFF AFLYAGIETNFANFLPSIMINQDNEQISLISVSFFWVGIIIGRILIGFVSRRLDFSKY LLFSCSCLIVLLIAFSYISNPILQLSGTFLIGLSIAGIFPIALTLASIIIQKYVDEVT SLFIASASFGGAIISFLIGWSLNQDTILLTMGIFTTMAVILVGISVKIRRTKTEDPIS LENKASKTQ*" gene complement(1125123..1126328) /gene="glcP" /locus_tag="BSU_10520" /old_locus_tag="BSU10520" promotor_-35 1125818..1125823 /Source="Nicolas_upshift_promotors" /id="U852" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.995004995004995" /psig="0.995004995004995" /xcortree=1194 /SigmaFactorBS="tctcggttcttagacaagaaaattaaccaccctaCGAATAgg acgaataaaaaggtGAATATACAGTAATATGGTaaaaaccagttattgatatctatga a" /listShort="S372" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1125840..1125858 /Source="Nicolas_upshift_promotors" /id="U852" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.995004995004995" /psig="0.995004995004995" /xcortree=1194 /SigmaFactorBS="tctcggttcttagacaagaaaattaaccaccctaCGAATAgg acgaataaaaaggtGAATATACAGTAATATGGTaaaaaccagttattgatatctatga a" /listShort="S372" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1125843..1126369 /Source="Nicolas_S_feature" /locus_tag="new_1125843_1126369" /HighExp="S4, S5, S6, S8, S7, S3, T5.0H, M9-stat, LBGstat, T4.0H" /AntisenseName="glcP" /AntisenseCor="-0.155079396671681" /AntisenseRegPval="-2" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig="0.995" /TUlongSig="NA" /TUlongPSig="NA" /label="S372" upshifts 1125844 /Source="Nicolas_upshifts" /id="U852" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.995004995004995" /psig="0.995004995004995" /xcortree=1194 /SigmaFactorBS="tctcggttcttagacaagaaaattaaccaccctaCGAATAgg acgaataaaaaggtGAATATACAGTAATATGGTaaaaaccagttattgatatctatga a" /listShort="S372" /GFF_Attribute="listLong" downshifts 1126327 /Source="Nicolas_upshifts" /id="D576" /incds=0 /nref=6 /ntot=59 /MaxReadThrough="2.40974" /MaxDrop="3.26024" /score="9.68585629" /energy="-9.4" /TU="NA" /idTUdmin="U852" /TUdmin=0 /isTUend="TRUE" CDS complement(1126400..1127452) /gene="ntdC" /locus_tag="BSU_10530" /old_locus_tag="BSU10530" /EC_number="1.1.1.-" /function="16.8: Protect" /function="16.5: Explore" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:14612444, 17056753, 23586652, 28353336" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14612444, 17056753, 23586652, 28353336; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="biosynthesis of neotrehalosadiamine (3,3'-diamino-3,3'-dideoxy-alpha,beta-trehalose), glucose-6-P 3-dehydrogenase; kanosamine biosynthesis (recent HGT island)" /protein_id="NP_388934.2" /db_xref="EnsemblGenomes-Gn:BSU10530" /db_xref="EnsemblGenomes-Tr:CAB12893" /db_xref="GOA:O07564" /db_xref="InterPro:IPR000683" /db_xref="InterPro:IPR004104" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG13076" /db_xref="UniProtKB/Swiss-Prot:O07564" /translation="MKKIGIIGAGGIARAHATALSTIKNAELVGVYDINQQNAESFVK TFGGKSFENVDELIDASEGLIVASPNFCHKEHALQALGKHKHVLCEKPMAISLEEASI MKDTAERLSVRASMGFNYRYLSYVNILKSLIINNELGNILSIKVHFKKNSALRRKKFT WRDDANSKKTSGSLGDLGIHLIDMVWYLFESDFITESVRAKMNTNVKTKEDKQVLVDD YAEIYGQLKNKVFVNIITSKCSVPEDCGFSIEVVGHKKEFKYHTGNPHVYKLIDGLNV VDCPVPQSLLNDPPNEFYGWADSFRSELINWIASTQNDWVEIPSFSDGFRSQEVLEMF FEKDSNSQPMSVSAVN*" gene complement(1126400..1127452) /gene="ntdC" /locus_tag="BSU_10530" /old_locus_tag="BSU10530" CDS complement(1127466..1128314) /gene="ntdB" /locus_tag="BSU_10540" /old_locus_tag="BSU10540" /EC_number="3.-.-.-" /function="16.8: Protect" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:14612444, 17056753, 23586652" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14612444, 17056753, 23586652; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="biosynthesis of neotrehalosadiamine (3,3'-diamino-3,3'-dideoxy-alpha, beta-trehalose);kanosamine-6-phosphate phosphatase (recent HGT island)" /protein_id="NP_388935.2" /db_xref="EnsemblGenomes-Gn:BSU10540" /db_xref="EnsemblGenomes-Tr:CAB12894" /db_xref="GOA:O07565" /db_xref="InterPro:IPR006379" /db_xref="InterPro:IPR006380" /db_xref="InterPro:IPR036412" /db_xref="PDB:3GYG" /db_xref="SubtiList:BG13077" /db_xref="UniProtKB/Swiss-Prot:O07565" /translation="MLLSKKSEYKTLSTVEHPQYIVFCDFDETYFPHTIDEQKQQDIY ELEDYLEQKSKDGELIIGWVTGSSIESILDKMGRGKFRYFPHFIASDLGTEITYFSEH NFGQQDNKWNSRINEGFSKEKVEKLVKQLHENHNILLNPQTQLGKSRYKHNFYYQEQD EINDKKNLLAIEKICEEYGVSVNINRCNPLAGDPEDSYDVDFIPIGTGKNEIVTFMLE KYNLNTERAIAFGDSGNDVRMLQTVGNGYLLKNATQEAKNLHNLITDSEYSKGITNTL KKLIGS*" gene complement(1127466..1128314) /gene="ntdB" /locus_tag="BSU_10540" /old_locus_tag="BSU10540" CDS complement(1128286..1129611) /gene="ntdA" /locus_tag="BSU_10550" /old_locus_tag="BSU10550" /EC_number="2.6.1.-" /function="16.5: Explore" /function="16.3: Control" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:14612444, 17056753, 19087206, 23586652, 24097983, 24509311, 28353336" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14612444, 17056753, 19087206, 23586652, 24097983, 24509311, 28353336; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="biosynthesis of neotrehalosadiamine (3,3'-diamino-3,3'-dideoxy-alpha, beta-trehalose);3-oxo-glucose-6-phosphate:glutamate aminotransferase; kanosamine aminotransferase (recent HGT island)" /protein_id="NP_388936.1" /db_xref="EnsemblGenomes-Gn:BSU10550" /db_xref="EnsemblGenomes-Tr:CAB12895" /db_xref="GOA:O07566" /db_xref="InterPro:IPR000653" /db_xref="InterPro:IPR015421" /db_xref="InterPro:IPR015422" /db_xref="InterPro:IPR015424" /db_xref="PDB:4K2B" /db_xref="PDB:4K2I" /db_xref="PDB:4K2M" /db_xref="SubtiList:BG13078" /db_xref="UniProtKB/Swiss-Prot:O07566" /translation="MQKQVKISGKSKENMSLLKHLKGDVQGKELVIEDSIVNERWKQV LKEKIDIEHDLFNYQKNREISKVPFLPVDRLITNDEVEDILNTLTEVLPTGKFTSGPY LEQFEKVLSTYLHKRYVIATSSGTDAIMIGLLALGLNPGDEVIMPANSFSATENAVLA SGGVPIYVDINPQTFCIDPDKIEEAITPYTKFILPVHLYGKHSDMQHIRQIANRYKLK VIEDACQGIGLTDLGKYADITTLSFNPYKNFGVCGKAGAIATDNEELAKKCIQFSYHG FEVNVKNKKVINFGFNSKMDNLQAAIGLERMKYLSLNNFKRLFLADRYITQLAELQNK GYIELPELSEDHVWHLFPIKVRTEDRADIMTKLNEDFGVQTDVYYPILSHMQKTPLVQ DKYAGLQLVHTEKAHSQVLHLPLYPSFTLEEQDRVMEGLFHVIKQEIGV*" gene complement(1128286..1129611) /gene="ntdA" /locus_tag="BSU_10550" /old_locus_tag="BSU10550" promotor_-35 1128455..1128460 /Source="Nicolas_upshift_promotors" /id="U853" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=1031 /SigmaFactorBS="cctgcatacttgtcctgtactaaaggagtttttTGCATAtga gaaagtattggaTAATATACATCTGTTTGAAcaccaaaatcttcatttaatttagtca t" /listShort="S373, S374, yhjM" /listLong="S375" /label="promotor_-35" promotor_-10 1128476..1128494 /Source="Nicolas_upshift_promotors" /id="U853" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=1031 /SigmaFactorBS="cctgcatacttgtcctgtactaaaggagtttttTGCATAtga gaaagtattggaTAATATACATCTGTTTGAAcaccaaaatcttcatttaatttagtca t" /listShort="S373, S374, yhjM" /listLong="S375" /label="promotor_-10" S_feature 1128482..1129270 /Source="Nicolas_S_feature" /locus_tag="new_1128482_1129270" /HighExp="S4, S3, S5, S6, S7, T5.0H, M9-stat, S8, Pyr, G/S" /AntisenseName="ntdA" /AntisenseCor="-0.29559566742128002" /AntisenseRegPval="-6.1" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig="0.997" /TUlongSig="NA" /TUlongPSig="NA" /label="S373" upshifts 1128482 /Source="Nicolas_upshifts" /id="U853" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=1031 /SigmaFactorBS="cctgcatacttgtcctgtactaaaggagtttttTGCATAtga gaaagtattggaTAATATACATCTGTTTGAAcaccaaaatcttcatttaatttagtca t" /listShort="S373, S374, yhjM" /listLong="S375" promotor_-35 1129246..1129253 /Source="Nicolas_upshift_promotors" /id="U854" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.776223776223776" /psig="0.998001998001998" /xcortree=2928 /SigmaFactorBS="ataaacctatcataatagcatcggttccactgctGGTTGCAA ttacataccttttaTGTAAATATGTAGATAAAACtttttcgaattgctctaaataggg a" /listShort="S374, yhjM, S375" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1129268..1129287 /Source="Nicolas_upshift_promotors" /id="U854" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.776223776223776" /psig="0.998001998001998" /xcortree=2928 /SigmaFactorBS="ataaacctatcataatagcatcggttccactgctGGTTGCAA ttacataccttttaTGTAAATATGTAGATAAAACtttttcgaattgctctaaataggg a" /listShort="S374, yhjM, S375" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1129272..1129714 /Source="Nicolas_S_feature" /locus_tag="new_1129272_1129714" /HighExp="T4.0H, T3.0H, T2.30H, HiOs, T3.30H, T2.0H, T5.0H, T1.30H, LoTm, T-1.10H" /AntisenseName="ntdA" /AntisenseCor="-0.101471720232752" /AntisenseRegPval="-1" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigEF" /TUshortPSig="0.998, 0.997" /TUlongSig="NA" /TUlongPSig="NA" /label="S374" upshifts 1129272 /Source="Nicolas_upshifts" /id="U854" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.776223776223776" /psig="0.998001998001998" /xcortree=2928 /SigmaFactorBS="ataaacctatcataatagcatcggttccactgctGGTTGCAA ttacataccttttaTGTAAATATGTAGATAAAACtttttcgaattgctctaaataggg a" /listShort="S374, yhjM, S375" /GFF_Attribute="listLong" promotor_-10 complement(1129646..1129665) /Source="Nicolas_upshift_promotors" /id="U855" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.849150849150849" /psig="0.97902097902098" /xcortree=1578 /SigmaFactorBS="gcatattttcccttccttaaaaaagttgttgaCATGTTACcg atttcagaaacTAGGATAAATTTGTAATAAAtttttagattataaaatcattggaggt a" /listShort="ntdA, ntdB, ntdC, glcP, S371" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1129658) /Source="Nicolas_upshifts" /id="U855" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.849150849150849" /psig="0.97902097902098" /xcortree=1578 /SigmaFactorBS="gcatattttcccttccttaaaaaagttgttgaCATGTTACcg atttcagaaacTAGGATAAATTTGTAATAAAtttttagattataaaatcattggaggt a" /listShort="ntdA, ntdB, ntdC, glcP, S371" /GFF_Attribute="listLong" promotor_-35 complement(1129679..1129686) /Source="Nicolas_upshift_promotors" /id="U855" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.849150849150849" /psig="0.97902097902098" /xcortree=1578 /SigmaFactorBS="gcatattttcccttccttaaaaaagttgttgaCATGTTACcg atttcagaaacTAGGATAAATTTGTAATAAAtttttagattataaaatcattggaggt a" /listShort="ntdA, ntdB, ntdC, glcP, S371" /GFF_Attribute="listLong" /label="promotor_-35" CDS 1129715..1130704 /gene="ntdR" /locus_tag="BSU_10560" /old_locus_tag="BSU10560" /experiment="publication(s) with functional evidences, PMID:14612444, 17056753" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14612444, 17056753; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator of the ntd operon (NtdR-NTD) (recent HGT island)" /protein_id="NP_388937.1" /db_xref="EnsemblGenomes-Gn:BSU10560" /db_xref="EnsemblGenomes-Tr:CAB12896" /db_xref="GOA:O07567" /db_xref="InterPro:IPR000843" /db_xref="InterPro:IPR010982" /db_xref="InterPro:IPR028082" /db_xref="InterPro:IPR036388" /db_xref="SubtiList:BG13079" /db_xref="UniProtKB/Swiss-Prot:O07567" /translation="MPTIDEIAKLCNVSKTTVSRVLNNHPYVSKEKRDMILKAINELD YTPNYLARNFRRNKTQTIALSVPSIDHPFFAQLIKGVSHEVLFKNYKVIVFQTFYDKQ TELELLELLKHKEVDGIILGTLENEWDQISPFLKYGPILLCNEYHHSADITIIGYDEF EAAYMGVVHLIERGHKKIGFCFDTPYSEAQCQRKEGYLKALQDYNLHHRSEWIFGEMF NIEDGFRVFHKIKDLKDRPSAIFTGNDQVAAGIIKQAMKNGFKVPEDLAVIGFDNQLI CQVVTPTITTIDIPVIELGQQAVLKIIESISGNASLNRRIIKLPTKLIIREST*" gene 1129715..1130704 /gene="ntdR" /locus_tag="BSU_10560" /old_locus_tag="BSU10560" S_feature 1130705..1131082 /Source="Nicolas_S_feature" /locus_tag="new_1130705_1131082" /HighExp="T4.0H, T5.0H, T3.30H, T2.0H, HiOs, T2.30H, T3.0H, LoTm, T1.30H, Pyr" /AntisenseName="yhjN" /AntisenseCor="-5.0383887616073E-2" /AntisenseRegPval="-0.4" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.998" /TUlongSig="SigEF" /TUlongPSig="0.997" /label="S375" S_feature complement(1130759..1130917) /Source="Nicolas_S_feature" /locus_tag="new_1130759_1130917_c" /HighExp="B60, Sw, Cold, B36, BI, GM 15, GM 10, C30, GM 25, GM 60" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.99" /TUlongSig="NA" /TUlongPSig="NA" /label="S376" downshifts complement(1130802) /Source="Nicolas_upshifts" /id="D577" /incds=0 /nref=25 /ntot=169 /MaxReadThrough="3.07371" /MaxDrop="4.24831" /score="-1.9470655" /energy="-7.1" /TU="U856" /idTUdmin="U856" /TUdmin="-66" /isTUend="FALSE" CDS complement(1130918..1132072) /gene="yhjN" /locus_tag="BSU_10570" /old_locus_tag="BSU10570" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406, 22720735; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral inner membrane protein (recentHGT island)" /protein_id="NP_388938.1" /db_xref="EnsemblGenomes-Gn:BSU10570" /db_xref="EnsemblGenomes-Tr:CAB12897" /db_xref="GOA:O07568" /db_xref="InterPro:IPR007820" /db_xref="InterPro:IPR017516" /db_xref="SubtiList:BG13080" /db_xref="UniProtKB/Swiss-Prot:O07568" /translation="MKKDENLLKDLWFIAISAAGGFILSLTGISIGWMIGTLIVACCL AMIRPAWLMMAPDQKGINRRWLALGQMILGIELGQKLNLSVLSVLKDHWFSVGVMLIL SILLAMLSGYVLWRFSKTDMMTSFVGTAPGGLSAMPSIAQEVGANTAIVSLVQMMRVL LVVLSIPFLVILIYTKQDRTASAAAETISSATTDFRLAPVLWTVILILAAWGACKAAK FLKFPAPWLLGSMLGVAIVHVGGAAVTGHDMTAWWLSQANHVSQVFLGATIGSKMYKS MFAGVTRIIIVGFVSSVGLIAAMFLSAVIVSELTGISLITSVLAFAPGGIAEMATTSV TLHADSTFVVAVQVIRVILVIALLPPFYRLLHHLHGEKKDKKSSISGSSA*" gene complement(1130918..1132072) /gene="yhjN" /locus_tag="BSU_10570" /old_locus_tag="BSU10570" S_feature complement(1132073..1132144) /Source="Nicolas_S_feature" /locus_tag="new_1132073_1132144_c" /HighExp="Cold, GM 15, GM 10, dia15, BC, BI, Salt, B60, Sw, GM 90" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.99" /TUlongSig="NA" /TUlongPSig="NA" /label="S377" promotor_-10 complement(1132127..1132146) /Source="Nicolas_upshift_promotors" /id="U856" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.414585414585415" /psig="0.99000999000999" /xcortree=2773 /SigmaFactorBS="cataagaaaagtgaatcgcttatagaaaataattcataATTT CTttatcaacaaaaaTATACTATAGTAATAAATACattcactacgtgaacaattggag t" /listShort="S377, yhjN, S376" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1132143) /Source="Nicolas_upshifts" /id="U856" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.414585414585415" /psig="0.99000999000999" /xcortree=2773 /SigmaFactorBS="cataagaaaagtgaatcgcttatagaaaataattcataATTT CTttatcaacaaaaaTATACTATAGTAATAAATACattcactacgtgaacaattggag t" /listShort="S377, yhjN, S376" /GFF_Attribute="listLong" promotor_-35 complement(1132160..1132165) /Source="Nicolas_upshift_promotors" /id="U856" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.414585414585415" /psig="0.99000999000999" /xcortree=2773 /SigmaFactorBS="cataagaaaagtgaatcgcttatagaaaataattcataATTT CTttatcaacaaaaaTATACTATAGTAATAAATACattcactacgtgaacaattggag t" /listShort="S377, yhjN, S376" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1132179..1133384) /gene="yhjO" /locus_tag="BSU_10580" /old_locus_tag="BSU10580" /function="16.1: Circulate" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative permease (recent HGT island)" /protein_id="NP_388939.1" /db_xref="EnsemblGenomes-Gn:BSU10580" /db_xref="EnsemblGenomes-Tr:CAB12898" /db_xref="GOA:O07569" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG13081" /db_xref="UniProtKB/Swiss-Prot:O07569" /translation="MLTSFHSIKSRYTAPVRLRFFGELLTSLTGAMMGPFMVLYLHEQ LNGSIMMPMLIISLQPFADIFLTLAAGRVTDRLGRRTAILTALLLQSAAMTGFVFAEH AYVFAILYVMNGIGRSLYIPASRAQIAESTPESRRSEVFAVINAIYSTGLTAGPLVGM LLYNHNPVWIFALDAAALFIYFLIAALKLPETKPLHPAVTPKMSASFTIYRPVLLLLL LSLPISMLYAQTETTYRLFSKNMFSDYLSMLTIYSAAKALFSCVLQVPLVKGTEKLSM KTILFITYICYSLAAAGFACSTSLTMLLVTAAVMTVGESIGLTHIQTFISKLAPPHLL GRFYAVYGLHWDISRSIGPLAGGLILTSFGGEVIFYALAVCLLTAGLSLTYTIEKLEH KVIRKVNRL*" gene complement(1132179..1133384) /gene="yhjO" /locus_tag="BSU_10580" /old_locus_tag="BSU10580" misc_feature 1133405..1133424 /Source="Nicolas_upshift_promotors" /id="U857" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.699300699300699" /psig="0.999000999001" /xcortree=2118 /SigmaFactorBS="tatctcgattttatagagtgaaaactggtcaacatgtgatcg ccgcctttcgctgTTTGATATAGTAGTAGTGTAtagaaggggcggcggcccaaaaagt g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 1133410 /Source="Nicolas_upshifts" /id="U857" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.699300699300699" /psig="0.999000999001" /xcortree=2118 /SigmaFactorBS="tatctcgattttatagagtgaaaactggtcaacatgtgatcg ccgcctttcgctgTTTGATATAGTAGTAGTGTAtagaaggggcggcggcccaaaaagt g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS 1133498..1135225 /gene="yhjP" /locus_tag="BSU_10590" /old_locus_tag="BSU10590" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcription factor" /protein_id="NP_388940.1" /db_xref="EnsemblGenomes-Gn:BSU10590" /db_xref="EnsemblGenomes-Tr:CAB12899" /db_xref="GOA:O07570" /db_xref="InterPro:IPR000914" /db_xref="InterPro:IPR025370" /db_xref="InterPro:IPR030678" /db_xref="InterPro:IPR036388" /db_xref="SubtiList:BG13082" /db_xref="UniProtKB/Swiss-Prot:O07570" /translation="MKLIEHYVALVKTGCAEYGQMNEMTLTEIADCLFCTERNAKLIL HKLENSNWIIRESGAGRGRKSKIAFLRRPEELLLQTAKEYTMSGKLKKAKELLQQYQS AFPGLQNEYNMWLSEVFGFVTETGENGAKDVLRLFITPESVSSLDPCQIFLRSEGHFV KQIFDTLFTFDSDMQEPKPHLVHGWEEVGKKQWRFFLRKGVLFHNGQPLTSRDVAFTF QRFLELADNPYKWLLHGVKQVLEKGPYCVELILDKPNALLPYALCDERLSILPAEQGG GKNGTGPFQMNQQHSGMLVLEANERYFKGRPYLDRVEFVFSEQAGEMNGFTIQEKQTC PEQQTVFDERHVQYLSLNLKKKGPLQHRSFRKALRLLISSERLVREAGGHRRIPVTSF LHPSPFEWEGVSPSELLKKSGYEGETIVLYTFSETDHREDAEWIQNICAQHGIRLTLQ FCDAADLRRPEIVQMADIIHDSATFYQDSEFGFLHLLLSENSFLYQHLSEKLTQICSG MTERMFSMPDRCSRINILRDIDRQMIQELNAIPLYQNVLQVTSSKNVKGLVLDEEGWI DLYSVWLSK*" gene 1133498..1135225 /gene="yhjP" /locus_tag="BSU_10590" /old_locus_tag="BSU10590" promotor_-35 1134811..1134818 /Source="Nicolas_upshift_promotors" /id="U858" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.531468531468531" /psig="0.802197802197802" /xcortree=1827 /SigmaFactorBS="atcatcgtgaggacgccgaatggattcaaaaTATTTGCGccc agcacggtatcAGGCTTACACTTCAATTCTGtgatgctgctgatctgcgacggccgga a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1134833..1134852 /Source="Nicolas_upshift_promotors" /id="U858" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.531468531468531" /psig="0.802197802197802" /xcortree=1827 /SigmaFactorBS="atcatcgtgaggacgccgaatggattcaaaaTATTTGCGccc agcacggtatcAGGCTTACACTTCAATTCTGtgatgctgctgatctgcgacggccgga a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1134840 /Source="Nicolas_upshifts" /id="U858" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.531468531468531" /psig="0.802197802197802" /xcortree=1827 /SigmaFactorBS="atcatcgtgaggacgccgaatggattcaaaaTATTTGCGccc agcacggtatcAGGCTTACACTTCAATTCTGtgatgctgctgatctgcgacggccgga a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS complement(1135255..1135581) /gene="yhjQ" /locus_tag="BSU_10600" /old_locus_tag="BSU10600" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12625841; Product type c: carrier" /codon_start=1 /transl_table=11 /product="putative metal-chelating cysteine-rich protein of unknown function" /protein_id="NP_388941.1" /db_xref="EnsemblGenomes-Gn:BSU10600" /db_xref="EnsemblGenomes-Tr:CAB12900" /db_xref="InterPro:IPR005560" /db_xref="PDB:5FIG" /db_xref="SubtiList:BG13083" /db_xref="UniProtKB/Swiss-Prot:O07571" /translation="MEQYSEACIEACIDCMKACNHCFTKCLEESVQHHLSGCIRLDRE CADICALAVKAMQTDSPFMKEICALCADICEACGTECGKHDHDHCQACAKACFTCAEQ CRSMAA*" gene complement(1135255..1135581) /gene="yhjQ" /locus_tag="BSU_10600" /old_locus_tag="BSU10600" CDS complement(1135699..1136136) /gene="yhjR" /locus_tag="BSU_10610" /old_locus_tag="BSU10610" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 22078549, 22882546; Product type c: carrier" /codon_start=1 /transl_table=11 /product="putative electron carrier protein (putative sporulation gene)" /protein_id="NP_388942.1" /db_xref="EnsemblGenomes-Gn:BSU10610" /db_xref="EnsemblGenomes-Tr:CAB12901" /db_xref="GOA:O07572" /db_xref="InterPro:IPR003251" /db_xref="InterPro:IPR009078" /db_xref="InterPro:IPR012347" /db_xref="SubtiList:BG13084" /db_xref="UniProtKB/Swiss-Prot:O07572" /translation="MHYSYYPYPVPYREDPVLIRNLQKAINGEFSAIQCYRKLAELAH SDEVRKQIEEIRRDEIRHLREFSTLYGSITGKHIMPKQTEECPDNFTRGLDAAFKDEQ ETVDFYLRAAEETSNLKAKGVFTRAARDEQNHAVWFLYYLMER*" gene complement(1135699..1136136) /gene="yhjR" /locus_tag="BSU_10610" /old_locus_tag="BSU10610" downshifts complement(1135708) /Source="Nicolas_upshifts" /id="D578" /incds=0 /nref=1 /ntot=10 /MaxReadThrough="3.72767" /MaxDrop="3.86885" /score="16.2430017" /energy="-11.5" /TU="U859" /idTUdmin="U859" /TUdmin="-440" /isTUend="FALSE" promotor_-10 complement(1136167..1136186) /Source="Nicolas_upshift_promotors" /id="U859" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1267 /SigmaFactorBS="tggtaaaaacggccttttcacatataaaaagctgattatCTC CGCACATctctccctgcccAACATATACTTTTACAGAAGcccaattcctaagaatgga g" /listShort="yhjR, yhjQ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1136187) /Source="Nicolas_upshifts" /id="U859" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1267 /SigmaFactorBS="tggtaaaaacggccttttcacatataaaaagctgattatCTC CGCACATctctccctgcccAACATATACTTTTACAGAAGcccaattcctaagaatgga g" /listShort="yhjR, yhjQ" /GFF_Attribute="listLong" promotor_-35 complement(1136199..1136208) /Source="Nicolas_upshift_promotors" /id="U859" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1267 /SigmaFactorBS="tggtaaaaacggccttttcacatataaaaagctgattatCTC CGCACATctctccctgcccAACATATACTTTTACAGAAGcccaattcctaagaatgga g" /listShort="yhjR, yhjQ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1136256..1136263 /Source="Nicolas_upshift_promotors" /id="U860" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.875124875124875" /psig=1 /xcortree=1809 /SigmaFactorBS="gaaaaggccgtttttaccaatagatcaGATTGGTCattttcg tcaacaTTCGATAAAATATAGAGAGAtaaaaagagaggggtcttctaatttgggagca g" /listShort="addB, addA, S378, sbcD, sbcC, yisB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1136277..1136296 /Source="Nicolas_upshift_promotors" /id="U860" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.875124875124875" /psig=1 /xcortree=1809 /SigmaFactorBS="gaaaaggccgtttttaccaatagatcaGATTGGTCattttcg tcaacaTTCGATAAAATATAGAGAGAtaaaaagagaggggtcttctaatttgggagca g" /listShort="addB, addA, S378, sbcD, sbcC, yisB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1136289 /Source="Nicolas_upshifts" /id="U860" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.875124875124875" /psig=1 /xcortree=1809 /SigmaFactorBS="gaaaaggccgtttttaccaatagatcaGATTGGTCattttcg tcaacaTTCGATAAAATATAGAGAGAtaaaaagagaggggtcttctaatttgggagca g" /listShort="addB, addA, S378, sbcD, sbcC, yisB" /GFF_Attribute="listLong" CDS 1136320..1139820 /gene="addB" /locus_tag="BSU_10620" /old_locus_tag="BSU10620" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:7746142, 8387145, 8510642, 8752323, 11544244, 16385024, 16780573, 19542287, 21071401, 22307084, 24670664, 26762979" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7746142, 8387145, 8510642, 8752323, 11544244, 16385024, 16780573, 19542287, 21071401, 22307084, 24670664, 26762979; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="ATP-dependent deoxyribonuclease (subunit B)" /protein_id="NP_388943.2" /db_xref="EnsemblGenomes-Gn:BSU10620" /db_xref="EnsemblGenomes-Tr:CAB12902" /db_xref="GOA:P23477" /db_xref="InterPro:IPR014016" /db_xref="InterPro:IPR014017" /db_xref="InterPro:IPR014140" /db_xref="InterPro:IPR027417" /db_xref="PDB:3U44" /db_xref="PDB:3U4Q" /db_xref="PDB:4CEH" /db_xref="PDB:4CEI" /db_xref="PDB:4CEJ" /db_xref="SubtiList:BG10465" /db_xref="UniProtKB/Swiss-Prot:P23477" /translation="MGAEFLVGRSGSGKTKLIINSIQDELRRAPFGKPIIFLVPDQMT FLMEYELAKTPDMGGMIRAQVFSFSRLAWRVLQHTGGMSRPFLTSTGVQMLLRKLIEE HKQEFKVYQKASDKSGFTAQVERMLTEFKRYCLEPEDIRRMAESGTASEYRGERVLSE KLHDLSILYQQMEKSLADQYLHSEDYLTLLAEHIPLAEDIKGAHIYVDGFYQFTPQEF RVLEQLMVHAEHITFSLTADKPSYEREPHELELFRMTGKTYYRLHQKAKELNLDITYK ELSGTERHTKTPELAHLEAQYEARPAIPYAEKQEALTVMQAANRRAELEGIAREIHAL VREKGYRYKDVAILARQPEDYKDMVKEVFADYEIPYFIDGKASMLNHPLIEFIRSSLD VLKGNWRYEAVFRCVKTELLFPLNEPKAKVREQVDQLENYCIAYGIKGDRWTKGDRFQ YRRFVSLDDDFAQTDQEIEMENMLNDTRDWIVPPLFQLQKRMKKAKTVQEKAEALYRY LEETDVPLKLDQERQRAEDDGRIIEAQQHQQAWDAVIQLLEEFVEMMGDDEISLDLFQ QMIEAGAESLTFSLIPPALDQVFVGNMDLSRMYGTSCTFVLGANDGVLPARPDENGVL SDDDREWLKTIGVELSSGGRERLLDEHFLIYMAFSSPSDRLYVSYPIADAEGKTLLPS MIVKRLEELFPHHKERLLTNEPEQVSDEEQLMYVVNKSVAQSFTASQLRLWTREYDIS DVWWSTYNVLMSEQDRLQSKKLFSSLFFRNEVKQLERSVSRQLYGERIQGSVSRMETF NACPFSHFASHGLHLKERQFFKLEAPDIGQLFHSSLKLISDRLREQKLDWRDLTKEQC ELFSYDAVERLAPKLQKEILLSSNRHYYVKEKLQKIVTRVSGILSEHAKASGFVPIGL ELGFGGKGPLPPLTFQLKNGCTMELVGRIDRVDKAESSKGLLLRIVDYKSSDKGLDLA EVYYGLALQMLTYLDLSITHSADWLGMRATPAGVLYFHIHDPMIQSNLPLGLDEIEQE IFKKFKMKGLLLGDQEVVRLMDTTLQEGRSNIINAGLKKDGSLRSDSAAVGEKEFDLL TKHVRRTFQEAGEQITDGRVSIEPYKMKNKTPCTYCAFKSVCQFDESLEENEYRPLKA EKDKTILEWIKKEADGNEHS*" gene 1136320..1139820 /gene="addB" /locus_tag="BSU_10620" /old_locus_tag="BSU10620" CDS 1139807..1143505 /gene="addA" /locus_tag="BSU_10630" /old_locus_tag="BSU10630" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:7746142, 8387145, 8510642, 8752323, 11544244, 16385024, 16780573, 19542287, 21071401, 22307084, 24670664, 26762979" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7746142, 8387145, 8510642, 8752323, 11544244, 16385024, 16780573, 19542287, 21071401, 22307084, 24670664, 26762979; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="ATP-dependent deoxyribonuclease (subunit A)" /protein_id="NP_388944.2" /db_xref="EnsemblGenomes-Gn:BSU10630" /db_xref="EnsemblGenomes-Tr:CAB12903" /db_xref="GOA:P23478" /db_xref="InterPro:IPR000212" /db_xref="InterPro:IPR011335" /db_xref="InterPro:IPR011604" /db_xref="InterPro:IPR014016" /db_xref="InterPro:IPR014017" /db_xref="InterPro:IPR014152" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR034739" /db_xref="PDB:3U44" /db_xref="PDB:3U4Q" /db_xref="PDB:4CEH" /db_xref="PDB:4CEI" /db_xref="PDB:4CEJ" /db_xref="SubtiList:BG10466" /db_xref="UniProtKB/Swiss-Prot:P23478" /translation="MNIPKPADSTWTDDQWNAIVSTGQDILVAAAAGSGKTAVLVERM IRKITAEENPIDVDRLLVVTFTNASAAEMKHRIAEALEKELVQRPGSLHIRRQLSLLN RASISTLHSFCLQVLKKYYYLIDLDPGFRIADQTEGELIGDEVLDELFEDEYAKGEKA FFELVDRYTTDRHDLDLQFLVKQVYEYSRSHPNPEAWLESFVHLYDVSEKSAIEELPF YQYVKEDIAMVLNGAKEKLLRALELTKAPGGPAPRADNFLDDLAQIDELIQHQDDFSE LYKRVPAVSFKRAKAVKGDEFDPALLDEATDLRNGAKKLLEKLKTDYFTRSPEQHLKS LAEMKPVIETLVQLVISYGKRFEAAKQEKSIIDFSDLEHYCLAILTAENDKGEREPSE AARFYQEQFHEVLVDEYQDTNLVQESILQLVTSGPEETGNLFMVGDVKQSIYRFRLAE PLLFLSKYKRFTESGEGTGRKIDLNKNFRSRADILDSTNFLFKQLMGGKIGEVDYDEQ AELKLGAAYPDNDETETELLLIDNAEDTDASEEAEELETVQFEAKAIAKEIRKLISSP FKVYDGKKKTHRNIQYRDIVILLRSMPWAPQIMEELRAQGIPVYANLTSGYFEAVEVA VALSVLKVIDNPYQDIPLASVLRSPIVGADENELSLIRLENKKAPYYEAMKDYLAAGD RSDELYQKLNTFYGHLQKWRAFSKNHSVSELIWEVYRDTKYMDYVGGMPGGKQRQANL RVLYDRARQYESTAFRGLFRFLRFIERMQERGDDLGTARALSEQEDVVRLMTIHSSKG LEFPVVFVAGLGRNFNMMDLNKSYLLDKELGFGTKYIHPQLRISYPTLPLIAMKKKMR RELLSEELRVLYVALTRAKEKLFLIGSCKDHQKQLAKWQASASQTDWLLPEFDRYQAR TYLDFIGPALARHRDLGDLAGVPAHADISGHPARFAVQMIHSYDLLDDDLEERMEEKS ERLEAIRRGEPVPGSFAFDEKAREQLSWTYPHQEVTQIRTKQSVSEIKRKREYEDEYS GRAPVKPADGSILYRRPAFMMKKGLTAAEKGTAMHTVMQHIPLSHVPSIEEAEQTVHR LYEKELLTEEQKDAIDIEEIVQFFHTEIGGQLIGAKWKDREIPFSLALPAKEIYPDAH EADEPLLVQGIIDCLYETEDGLYLLDYKSDRIEGKFQHGFEGAAPILKKRYETQIQLY TKAVEQIAKTKVKGCALYFFDGGHILTL*" gene 1139807..1143505 /gene="addA" /locus_tag="BSU_10630" /old_locus_tag="BSU10630" S_feature 1143506..1143576 /Source="Nicolas_S_feature" /locus_tag="new_1143506_1143576" /HighExp="H2O2, C90, Heat, LBGtran, dia15, HiTm, Diami, C30, Lbtran, G135" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S378" CDS 1143577..1144752 /gene="sbcD" /locus_tag="BSU_10640" /old_locus_tag="BSU10640" /function="16.6: Maintain" /function="16.9: Replicate" /experiment="publication(s) with functional evidences, PMID:7968921, 8493111, 16780573" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7968921, 8493111, 16780573; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="DNA repair exonuclease" /protein_id="NP_388945.3" /db_xref="EnsemblGenomes-Gn:BSU10640" /db_xref="EnsemblGenomes-Tr:CAB12904" /db_xref="GOA:P23479" /db_xref="InterPro:IPR004593" /db_xref="InterPro:IPR004843" /db_xref="InterPro:IPR026843" /db_xref="InterPro:IPR029052" /db_xref="SubtiList:BG10467" /db_xref="UniProtKB/Swiss-Prot:P23479" /translation="MRILHTADWHLGKTLEGRSRLSEQADVLDELNTIVKDEQIDAIV MAGDAFDTVNPPALAEQLFYESLSALSDRGKRPIVVIAGNHDNPDRLSAASPLTHENG IHLIGYPTTEPIHIEVPSAGELLAVGALAYPSEARLNEVLSDTFDEKLLRDHYDVKIR QAFEHMTSRFRTDAVKIAASHIYVAGGNQTDSERPIEVGGAYTVAAESLPADAAYVAL GHLHRPQTIKRARTLARYSGSPLAYSFSEAGYAKSVTIVDAKPGEEATWQEVLLSSGK PLVKWKAANGLSEVYSWLDEGRDQNAWIDLEIRVADQLSLEEIHRLRKAHPGFIHIRP VFEEQNKDRERIEVKHVSIEDRFKKFYEKQTGGAVPDEEMVKLFLELASGVEEEDAK* " gene 1143577..1144752 /gene="sbcD" /locus_tag="BSU_10640" /old_locus_tag="BSU10640" CDS 1144749..1148141 /gene="sbcC" /locus_tag="BSU_10650" /old_locus_tag="BSU10650" /function="16.9: Replicate" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:16780573, 19906728" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16780573, 19906728; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="DNA ATP-dependent repair enzyme" /protein_id="NP_388946.2" /db_xref="EnsemblGenomes-Gn:BSU10650" /db_xref="EnsemblGenomes-Tr:CAB12905" /db_xref="GOA:O06714" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG13088" /db_xref="UniProtKB/Swiss-Prot:O06714" /translation="MKPIALSIKGLHSFREEQTIDFEGLSGAGVFGIFGPTGSGKSSI LDAMTLALYGKVERAANNTHGILNHAEDTLSVSFTFALQTNHQISYKVERVFKRTDEM KVKTALCRFIEIKDEHTVLADKASEVNKRVEELLGLTIDDFTRAVVLPQGKFAEFLSL KGAERRHMLQRLFNLEQYGDRLVKKLRRQAQEANARKNEMLAEQSGLGEASSEAVEQA EKVLEQAEARLEAMRKNRDQAKERFTEHQEIWNVQKEKSTYEEEEKRLAEEQPHIDSM QKRLLEAETAAALKPYADRYAEAIQHEEQAEKEQTLAQKDLADRTAFFQQKHEEYEAW RQHKSEKEPELLAKQEQLSRLQEIEIKLSEAKQEEERKKADLRQKEEALQSVMNELET VTDRLTRGQNRQTELKQQLKSLQVTSDERKSCQQAAEMALRIRQTEEQIKKEKKRSEE LNLVLQKMNEEKNTLVQKTEAEENNIIQAYEAVQTVYHLVCETERSLTRMTEEARKSQ HTLHLQREKARVALLTKELAQKLTAGKPCPVCGSTDHDPSASVHETYEADSHLEEDIK RTDVLLTEAAALSQEILSAKIMLEEQSARFIEQCPFLQTIQAQNLEAAASFEHQPVYE AFETAKFEWKRIKQDILSVKTRMAQMIGAYQESLKKAEQLNEKIGFEKREADRIESII SELQSSMDSSLNMFKEAFQNQSVDEAEKWQQAIEEKDRAAEECEKRIEKSIAFLAEHE AQKEKLRESGHRLEREKLELHYAAERIKSVIADYEHELGDYAKGDSIQIKLRSVQQDL KLLKEKEQSLYEELQSAQMKLNQAKSRASASELTLQEAKGRLEKAKAAWLEHTKNTSI TRTEEVEQSLIPADELEKMKTGIDQFMDKLKQNAANLKRVAEILAGRALSESEWNETV AALQEAEDAFGAAIEEKGAAAKALAVIRDHHKRFNEIEAELKKWQMHIDRLDKLQAVF KGNTFVEFLAEEQLESVARDASARLSMLTRQRYAIEVDSEGGFVMRDDANGGVRRPVS SLSGGETFLTSLSLALALSAQIQLRGEYPLQFFFLDEGFGTLDQDLLDTVVTALEKLQ SDNLAVGVISHVQELRARLPKKLIVHPAEPSGRGTRVSLELM*" gene 1144749..1148141 /gene="sbcC" /locus_tag="BSU_10650" /old_locus_tag="BSU10650" promotor_-35 1147396..1147402 /Source="Nicolas_upshift_promotors" /id="U861" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.99000999000999" /psig="0.99000999000999" /xcortree=813 /SigmaFactorBS="tgaaaagatgaaaaccggcatagaccagtttaTGGATAAact gaagcaaaatgCTGCAAACTTAAaacgagtagcagagatacttgccggcagagcatta t" /listShort="yisB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1147417..1147428 /Source="Nicolas_upshift_promotors" /id="U861" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.99000999000999" /psig="0.99000999000999" /xcortree=813 /SigmaFactorBS="tgaaaagatgaaaaccggcatagaccagtttaTGGATAAact gaagcaaaatgCTGCAAACTTAAaacgagtagcagagatacttgccggcagagcatta t" /listShort="yisB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1147424 /Source="Nicolas_upshifts" /id="U861" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.99000999000999" /psig="0.99000999000999" /xcortree=813 /SigmaFactorBS="tgaaaagatgaaaaccggcatagaccagtttaTGGATAAact gaagcaaaatgCTGCAAACTTAAaacgagtagcagagatacttgccggcagagcatta t" /listShort="yisB" /GFF_Attribute="listLong" S_feature complement(1147493..1148466) /Source="Nicolas_S_feature" /locus_tag="new_1147493_1148466_c" /HighExp="S6, S8, S7, BT, C30, B36, S5, C90, Pyr, B60" /AntisenseName="yisB" /AntisenseCor="0.19649597897587401" /AntisenseRegPval="-2.9" /CDS_PredictionProba="NA" /TUshortSig="SigK" /TUshortPSig=1 /TUlongSig="SigK" /TUlongPSig="0.992" /label="S379" CDS 1148155..1148457 /gene="hlpB" /locus_tag="BSU_10660" /old_locus_tag="BSU10660" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:16780573, 22984257" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16780573, 22984257; Product type ph: phenotype" /codon_start=1 /transl_table=11 /product="HNH nuclease-like essential for DNA repair" /protein_id="NP_388947.1" /db_xref="EnsemblGenomes-Gn:BSU10660" /db_xref="EnsemblGenomes-Tr:CAB12906" /db_xref="SubtiList:BG13089" /db_xref="UniProtKB/Swiss-Prot:O06715" /translation="MAKQIAGICELCGRSDVQLTEHHLTPKEEGGTFLPTAMLCIPCH KQIHALYTNQELAVRLNGMAELRSDPELARFVKWIRKQPPEKLIKTKKSNERKKKK*" gene 1148155..1148457 /gene="hlpB" /locus_tag="BSU_10660" /old_locus_tag="BSU10660" downshifts 1148437 /Source="Nicolas_upshifts" /id="D579" /incds=0 /nref=230 /ntot=269 /MaxReadThrough="1.42126" /MaxDrop="6.71114" /score="0.317490594" /energy="-14.3" /TU="NA" /idTUdmin="U861" /TUdmin=1 /isTUend="TRUE" CDS complement(1148494..1148712) /gene="gerPF" /locus_tag="BSU_10670" /old_locus_tag="BSU10670" /function="16.5: Explore" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:10715007, 20161744" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10715007, 20161744; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="spore germination protein" /protein_id="NP_388948.2" /db_xref="EnsemblGenomes-Gn:BSU10670" /db_xref="EnsemblGenomes-Tr:CAB12907" /db_xref="GOA:O06716" /db_xref="InterPro:IPR019618" /db_xref="SubtiList:BG13090" /db_xref="UniProtKB/Swiss-Prot:O06716" /translation="MPAIVGPIAINSISGGVVNFGDSFYLSPKSSSKSALGSGAGNTG DFLLLNNAVNATNYIDPDVNDQDMVGNG*" gene complement(1148494..1148712) /gene="gerPF" /locus_tag="BSU_10670" /old_locus_tag="BSU10670" downshifts complement(1148511) /Source="Nicolas_upshifts" /id="D580" /incds=0 /nref=40 /ntot=66 /MaxReadThrough="3.93344" /MaxDrop="5.39228" /score="13.5435041" /energy="-15.3" /TU="U863" /idTUdmin="U863" /TUdmin="-989" /isTUend="FALSE" CDS complement(1148744..1149145) /gene="gerPE" /locus_tag="BSU_10680" /old_locus_tag="BSU10680" /function="16.5: Explore" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:10715007" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10715007; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="spore germination protein" /protein_id="NP_388949.1" /db_xref="EnsemblGenomes-Gn:BSU10680" /db_xref="EnsemblGenomes-Tr:CAB12908" /db_xref="GOA:O06717" /db_xref="InterPro:IPR024496" /db_xref="SubtiList:BG13091" /db_xref="UniProtKB/Swiss-Prot:O06717" /translation="MLKRISRIRLVKFNSLGIASVFQVGDTNEIDMSVKVFAVQRSLS TFYHNEGSFNKKEYQIFQQQAVKPLPETGVQSAFCHEVPAIYVRSIKIQGVSASSVLH AGSASLIRGDARLKHIRQIQSPRSQSPAKNI*" gene complement(1148744..1149145) /gene="gerPE" /locus_tag="BSU_10680" /old_locus_tag="BSU10680" CDS complement(1149145..1149321) /gene="gerPD" /locus_tag="BSU_10690" /old_locus_tag="BSU10690" /function="16.5: Explore" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:10715007" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10715007; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="spore germination protein" /protein_id="NP_388950.1" /db_xref="EnsemblGenomes-Gn:BSU10690" /db_xref="EnsemblGenomes-Tr:CAB12909" /db_xref="GOA:O06718" /db_xref="InterPro:IPR017257" /db_xref="SubtiList:BG13092" /db_xref="UniProtKB/Swiss-Prot:O06718" /translation="MIFTVINRSLEVGDIRMNGVSSSSVFHIGDTESIYLSSIFDTPP ESLIIGPFAPLAPE*" gene complement(1149145..1149321) /gene="gerPD" /locus_tag="BSU_10690" /old_locus_tag="BSU10690" CDS complement(1149318..1149935) /gene="gerPC" /locus_tag="BSU_10700" /old_locus_tag="BSU10700" /function="16.5: Explore" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:10715007" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10715007; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="spore germination protein" /protein_id="NP_388951.1" /db_xref="EnsemblGenomes-Gn:BSU10700" /db_xref="EnsemblGenomes-Tr:CAB12910" /db_xref="GOA:O06719" /db_xref="InterPro:IPR019673" /db_xref="SubtiList:BG13093" /db_xref="UniProtKB/Swiss-Prot:O06719" /translation="MYDQSVSSYLQNLNSFVQQQAIHIQQLERQLKEIQTEMNTMKQR PATTIERVEYKFDQLKIERLDGTLNIGLNPTDPNSVQNFDVSQSTPQIGMMQQEESAQ LMQQIRQNVDMYLTEEIPDILEQLENQYDSRLDDTNRHHVIEDIRKQMDSRIHYYMSH IKKEENTPPAQYAEHIAEHVKRDVIRAVEHFLEHIPSEMKGDEQA*" gene complement(1149318..1149935) /gene="gerPC" /locus_tag="BSU_10700" /old_locus_tag="BSU10700" CDS complement(1149958..1150191) /gene="gerPB" /locus_tag="BSU_10710" /old_locus_tag="BSU10710" /function="16.5: Explore" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:10715007" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10715007; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="spore germination protein" /protein_id="NP_388952.2" /db_xref="EnsemblGenomes-Gn:BSU10710" /db_xref="EnsemblGenomes-Tr:CAB12911" /db_xref="GOA:O06720" /db_xref="InterPro:IPR024255" /db_xref="SubtiList:BG13094" /db_xref="UniProtKB/Swiss-Prot:O06720" /translation="MNFYINQTIQINYLRLESISNSSILQIGSAGSIKSLSNLYNTGS YVEPAPEVSGSGQPLQLQEPDTGSLVPLQPPGR*" gene complement(1149958..1150191) /gene="gerPB" /locus_tag="BSU_10710" /old_locus_tag="BSU10710" CDS complement(1150206..1150427) /gene="gerPA" /locus_tag="BSU_10720" /old_locus_tag="BSU10720" /function="16.5: Explore" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:10715007" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10715007; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="spore germination protein" /protein_id="NP_388953.1" /db_xref="EnsemblGenomes-Gn:BSU10720" /db_xref="EnsemblGenomes-Tr:CAB12912" /db_xref="GOA:O06721" /db_xref="InterPro:IPR019618" /db_xref="SubtiList:BG13095" /db_xref="UniProtKB/Swiss-Prot:O06721" /translation="MPAIVGAFKINAIGTSGVVHIGDCITISPQAQVRTFAGAGSFNT GDSLKVMNYQNATNVYDNDAVDQPIVANA*" gene complement(1150206..1150427) /gene="gerPA" /locus_tag="BSU_10720" /old_locus_tag="BSU10720" S_feature complement(1150428..1150514) /Source="Nicolas_S_feature" /locus_tag="new_1150428_1150514_c" /HighExp="S6, S8, S7, S5, BT, B36, B60, G/S, Pyr, nit" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigK" /TUshortPSig=1 /TUlongSig="SigK" /TUlongPSig="0.992" /label="S380" promotor_-35 1150442..1150448 /Source="Nicolas_upshift_promotors" /id="U862" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.473526473526474" /psig="0.733266733266733" /xcortree=136 /SigmaFactorBS="aaacgctccgacaatggccggcatacgagcacatccttTGTT GAAaaattaaaaaaagACAGGTAAAGTGAAATGACAattccgatttcaattgggctat t" /listShort="S381, S385" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1150462..1150481 /Source="Nicolas_upshift_promotors" /id="U862" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.473526473526474" /psig="0.733266733266733" /xcortree=136 /SigmaFactorBS="aaacgctccgacaatggccggcatacgagcacatccttTGTT GAAaaattaaaaaaagACAGGTAAAGTGAAATGACAattccgatttcaattgggctat t" /listShort="S381, S385" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1150464..1151119 /Source="Nicolas_S_feature" /locus_tag="new_1150464_1151119" /HighExp="Salt, BC, Sw, S8, Heat, M9-stat, S7, Etha, BMM, Lbtran" /AntisenseName="yisI" /AntisenseCor="3.97396613023396E-2" /AntisenseRegPval="-0.3" /CDS_PredictionProba="0.17396" /TUshortSig="SigA" /TUshortPSig="0.733" /TUlongSig="NA" /TUlongPSig="NA" /label="S381" upshifts 1150464 /Source="Nicolas_upshifts" /id="U862" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.473526473526474" /psig="0.733266733266733" /xcortree=136 /SigmaFactorBS="aaacgctccgacaatggccggcatacgagcacatccttTGTT GAAaaattaaaaaaagACAGGTAAAGTGAAATGACAattccgatttcaattgggctat t" /listShort="S381, S385" /GFF_Attribute="listLong" promotor_-10 complement(1150501..1150520) /Source="Nicolas_upshift_promotors" /id="U863" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1293 /SigmaFactorBS="ttcacaaagagccgatatgtccccttaaaattTCTCTCACAC atatgtgcgtttGTCATAAGCTATCGTGAATAgcccaattgaaatcggaattgtcatt t" /listShort="S380, gerPA, gerPB, gerPC, gerPD, gerPE, gerPF, S379" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1150514) /Source="Nicolas_upshifts" /id="U863" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1293 /SigmaFactorBS="ttcacaaagagccgatatgtccccttaaaattTCTCTCACAC atatgtgcgtttGTCATAAGCTATCGTGAATAgcccaattgaaatcggaattgtcatt t" /listShort="S380, gerPA, gerPB, gerPC, gerPD, gerPE, gerPF, S379" /GFF_Attribute="listLong" S_feature complement(1150516..1150645) /Source="Nicolas_S_feature" /locus_tag="new_1150516_1150645_c" /HighExp="S6, S8, S7, T5.0H, T3.30H, T4.0H, S5, T3.0H, T2.30H, T2.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigK" /TUshortPSig="0.992" /TUlongSig="NA" /TUlongPSig="NA" /label="S382" promotor_-35 complement(1150533..1150542) /Source="Nicolas_upshift_promotors" /id="U863" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1293 /SigmaFactorBS="ttcacaaagagccgatatgtccccttaaaattTCTCTCACAC atatgtgcgtttGTCATAAGCTATCGTGAATAgcccaattgaaatcggaattgtcatt t" /listShort="S380, gerPA, gerPB, gerPC, gerPD, gerPE, gerPF, S379" /GFF_Attribute="listLong" /label="promotor_-35" S_feature complement(1150647..1150849) /Source="Nicolas_S_feature" /locus_tag="new_1150647_1150849_c" /HighExp="T5.0H, T4.0H, T3.30H, S6, M9-stat, T3.0H, S8, S7, T2.30H, S5" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigK" /TUshortPSig="0.976, 0.992" /TUlongSig="NA" /TUlongPSig="NA" /label="S383" downshifts complement(1150690) /Source="Nicolas_upshifts" /id="D581" /incds=0 /nref=13 /ntot=116 /MaxReadThrough="3.97434" /MaxDrop="3.59184" /score="13.5435041" /energy="-15.3" /TU="U865" /idTUdmin="U864" /TUdmin=0 /isTUend="TRUE" CDS complement(1150850..1151020) /gene="pchI" /locus_tag="BSU_10730" /old_locus_tag="BSU10730" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11679073, 27542896" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11679073, 27542896; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="Spo0A-P phosphatase (iron-metabolism related)" /protein_id="NP_388954.1" /db_xref="EnsemblGenomes-Gn:BSU10730" /db_xref="EnsemblGenomes-Tr:CAB12913" /db_xref="GOA:O06722" /db_xref="InterPro:IPR018540" /db_xref="InterPro:IPR037208" /db_xref="SubtiList:BG13096" /db_xref="UniProtKB/Swiss-Prot:O06722" /translation="MNSKIEEMRITLIETAQKYGMNSKETIQCSQELDILLNTRIKEE MIFGRYLENSRM*" gene complement(1150850..1151020) /gene="pchI" /locus_tag="BSU_10730" /old_locus_tag="BSU10730" misc_feature complement(1151064..1151083) /Source="Nicolas_upshift_promotors" /id="U864" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.386613386613387" /psig="0.976023976023976" /xcortree=2921 /SigmaFactorBS="gcttttttagtcaaattgacgaaaggcaaccttttgagccaa aaTAGGTTATACTAACGATATCctgtatttatatcaaaataaaatctagaattggaga t" /listShort="yisI, S383" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(1151067) /Source="Nicolas_upshifts" /id="U864" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.386613386613387" /psig="0.976023976023976" /xcortree=2921 /SigmaFactorBS="gcttttttagtcaaattgacgaaaggcaaccttttgagccaa aaTAGGTTATACTAACGATATCctgtatttatatcaaaataaaatctagaattggaga t" /listShort="yisI, S383" /GFF_Attribute="listLong" S_feature complement(1151069..1151165) /Source="Nicolas_S_feature" /locus_tag="new_1151069_1151165_c" /HighExp="S6, S8, S7, S5, BT, Pyr, G/S, Glucon, SMMPr, C30" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigK" /TUshortPSig="0.992" /TUlongSig="NA" /TUlongPSig="NA" /label="S384" downshifts 1151076 /Source="Nicolas_upshifts" /id="D582" /incds=0 /nref=3 /ntot=54 /MaxReadThrough="4.52913" /MaxDrop="3.35342" /score="12.6645711" /energy="-10.3" /TU="U862" /idTUdmin="U862" /TUdmin="-176" /isTUend="FALSE" S_feature 1151121..1151285 /Source="Nicolas_S_feature" /locus_tag="new_1151121_1151285" /HighExp="Salt, S8, S7, BC, Heat, H2O2, Sw, Oxctl, MG-0.2, MG-0.1" /AntisenseName="yisJ" /AntisenseCor="0.24461808844813801" /AntisenseRegPval="-4.3" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.733" /TUlongSig="NA" /TUlongPSig="NA" /label="S385" CDS complement(1151166..1152089) /gene="yisJ" /locus_tag="BSU_10740" /old_locus_tag="BSU10740" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="putative spore coat protein, CotH paralog" /protein_id="NP_388955.1" /db_xref="EnsemblGenomes-Gn:BSU10740" /db_xref="EnsemblGenomes-Tr:CAB12914" /db_xref="GOA:O06723" /db_xref="InterPro:IPR014867" /db_xref="SubtiList:BG13097" /db_xref="UniProtKB/Swiss-Prot:O06723" /translation="MERVHLFFHREQLKRKGTAKGLFVTDRSVSPILLTQRDRAEKAS YEISWEKSLLGERTLFLNAEQDDPSLMRRRLAYCFFDQIGVPAPVASYSFLTINGQPE GIYLNIKNHQPAGKRSYGVKTADPRVPLSLFNNDSSAFLHEFFILIRTAGDDELAERI KLYLDVKLFFLWLIGNTCTNQGFYYTFCLNESGRLYVSPMETRSLAVQEWYEEDPLLT KGKTLSSRLLSIPAFRSQYHTLMKNVLKRSFTIERLSPLINEWHLDICQSAADDPFIK KSPFQIEKEQTNILREIEERQDFLQAHLARL*" gene complement(1151166..1152089) /gene="yisJ" /locus_tag="BSU_10740" /old_locus_tag="BSU10740" promotor_-10 complement(1152111..1152130) /Source="Nicolas_upshift_promotors" /id="U865" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.992007992007992" /psig="0.992007992007992" /xcortree=1372 /SigmaFactorBS="aaatccctttttctcaattccgttttcatTTCGTTTCAGgac gggcttgctcTACATATCATACAAATGTCGttttgagaaggaggaaagaatatggagc g" /listShort="yisJ, S384, yisI, S383, S382" /listLong="S380, gerPA, gerPB, gerPC, gerPD, gerPE, gerPF, S379" /label="promotor_-10" upshifts complement(1152122) /Source="Nicolas_upshifts" /id="U865" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.992007992007992" /psig="0.992007992007992" /xcortree=1372 /SigmaFactorBS="aaatccctttttctcaattccgttttcatTTCGTTTCAGgac gggcttgctcTACATATCATACAAATGTCGttttgagaaggaggaaagaatatggagc g" /listShort="yisJ, S384, yisI, S383, S382" /listLong="S380, gerPA, gerPB, gerPC, gerPD, gerPE, gerPF, S379" promotor_-35 complement(1152144..1152153) /Source="Nicolas_upshift_promotors" /id="U865" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.992007992007992" /psig="0.992007992007992" /xcortree=1372 /SigmaFactorBS="aaatccctttttctcaattccgttttcatTTCGTTTCAGgac gggcttgctcTACATATCATACAAATGTCGttttgagaaggaggaaagaatatggagc g" /listShort="yisJ, S384, yisI, S383, S382" /listLong="S380, gerPA, gerPB, gerPC, gerPD, gerPE, gerPF, S379" /label="promotor_-35" promotor_-35 1152173..1152181 /Source="Nicolas_upshift_promotors" /id="U866" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=553 /SigmaFactorBS="cccgtcctgaaacgaaatgaaaacggaattgagaaAAAGGGA TTtcagcattcgaCAGAGAATACATGAAGGAGcattctgatttaaaagatgatggagg a" /listShort="yisK, S386, yisL" /listLong="wprA" /label="promotor_-35" promotor_-10 1152193..1152211 /Source="Nicolas_upshift_promotors" /id="U866" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=553 /SigmaFactorBS="cccgtcctgaaacgaaatgaaaacggaattgagaaAAAGGGA TTtcagcattcgaCAGAGAATACATGAAGGAGcattctgatttaaaagatgatggagg a" /listShort="yisK, S386, yisL" /listLong="wprA" /label="promotor_-10" upshifts 1152198 /Source="Nicolas_upshifts" /id="U866" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=553 /SigmaFactorBS="cccgtcctgaaacgaaatgaaaacggaattgagaaAAAGGGA TTtcagcattcgaCAGAGAATACATGAAGGAGcattctgatttaaaagatgatggagg a" /listShort="yisK, S386, yisL" /listLong="wprA" CDS 1152244..1153149 /gene="mblK" /locus_tag="BSU_10750" /old_locus_tag="BSU10750" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:16847875, 27215790, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16847875, 27215790, 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="hydrolase/isomerase involved in remodelling the bacterial envelope" /protein_id="NP_388956.1" /db_xref="EnsemblGenomes-Gn:BSU10750" /db_xref="EnsemblGenomes-Tr:CAB12915" /db_xref="GOA:O06724" /db_xref="InterPro:IPR011234" /db_xref="InterPro:IPR036663" /db_xref="SubtiList:BG13098" /db_xref="UniProtKB/Swiss-Prot:O06724" /translation="MKFATGELYNRMFVGLIIDDEKIMDLQKAEKKLFELETIPGSLI ECIAEGDKFVAHARQLAEWAKKPNDELGSFMYSLSEVKLHAPIPKPSKNIICIGKNYR DHAIEMGSEADIPEHPMVFTKSPVTVTGHGDIVKSHEEVTSQLDYEGELAVVIGKSGT RISKEDAYDHVFGYTIVNDITARDLQKRHKQFFIGKSLDTTCPMGPVLVHKSSIQEPE RLKVETRVNGELRQSGSASDMIFSIPELIETLSKGMTLEAGDIIATGTPSGVGKGFTP PKFLRSGDKIDITIDPIGTLSNQIG*" gene 1152244..1153149 /gene="mblK" /locus_tag="BSU_10750" /old_locus_tag="BSU10750" S_feature 1153150..1153230 /Source="Nicolas_S_feature" /locus_tag="new_1153150_1153230" /HighExp="S2, Lbstat, S1, Etha, SMMPr, M0t90, M40t90, LoTm, T-4.40H, nit" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigH" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S386" promotor_-35 1153200..1153203 /Source="Nicolas_upshift_promotors" /id="U867" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.851148851148851" /psig=1 /xcortree=2462 /SigmaFactorBS="gacccgcccgttttttctgataatcatcTTTGtgacagagga caagttCATGGTACTATAAGTGGGGTaatttatctgatagggggaacatatatgacac a" /listShort="yisL" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1153220..1153239 /Source="Nicolas_upshift_promotors" /id="U867" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.851148851148851" /psig=1 /xcortree=2462 /SigmaFactorBS="gacccgcccgttttttctgataatcatcTTTGtgacagagga caagttCATGGTACTATAAGTGGGGTaatttatctgatagggggaacatatatgacac a" /listShort="yisL" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1153232 /Source="Nicolas_upshifts" /id="U867" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.851148851148851" /psig=1 /xcortree=2462 /SigmaFactorBS="gacccgcccgttttttctgataatcatcTTTGtgacagagga caagttCATGGTACTATAAGTGGGGTaatttatctgatagggggaacatatatgacac a" /listShort="yisL" /GFF_Attribute="listLong" CDS 1153265..1153621 /gene="yisL" /locus_tag="BSU_10760" /old_locus_tag="BSU10760" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406, 27215790; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral membrane protein" /protein_id="NP_388957.1" /db_xref="EnsemblGenomes-Gn:BSU10760" /db_xref="EnsemblGenomes-Tr:CAB12916" /db_xref="GOA:O06725" /db_xref="InterPro:IPR010899" /db_xref="SubtiList:BG13099" /db_xref="UniProtKB/Swiss-Prot:O06725" /translation="MTHLHITTWVVALILLFVSYSLYSSGSAKGAKITHMILRLFYIL IILTGAELFVRFANWNGEYAGKMILGIITIGLMEMLLIRKKKEKSTGGLWVGFVIVLL LTVLLGLHLPIGFQLF*" gene 1153265..1153621 /gene="yisL" /locus_tag="BSU_10760" /old_locus_tag="BSU10760" downshifts 1153518 /Source="Nicolas_upshifts" /id="D583" /incds=1 /nref=1 /ntot=44 /MaxReadThrough="4.28837" /MaxDrop="2.46999" /score="41.4247437" /energy="-11.7" /TU="U866,U867" /idTUdmin="U867" /TUdmin="-88" /isTUend="FALSE" downshifts 1153609 /Source="Nicolas_upshifts" /id="D584" /incds=0 /nref=17 /ntot=162 /MaxReadThrough="3.06092" /MaxDrop="3.41506" /score="41.4247437" /energy="-11.7" /TU="U866" /idTUdmin="U867" /TUdmin=3 /isTUend="TRUE" upshifts 1153742 /Source="Nicolas_upshifts" /id="U868" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.486513486513487" /psig="0.732267732267732" /xcortree=2782 /SigmaFactorBS="atattccaaatcatttaaaataaccttaaaattccctgtaag cggtatctcgtcctatgaaatTATGATACCTTCAAGGAGATtcattattttgcaggag g" /listShort="wprA" /GFF_Attribute="listLong" misc_feature 1153745..1153764 /Source="Nicolas_upshift_promotors" /id="U868" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.486513486513487" /psig="0.732267732267732" /xcortree=2782 /SigmaFactorBS="atattccaaatcatttaaaataaccttaaaattccctgtaag cggtatctcgtcctatgaaatTATGATACCTTCAAGGAGATtcattattttgcaggag g" /listShort="wprA" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" CDS 1153789..1156473 /gene="wprA" /locus_tag="BSU_10770" /old_locus_tag="BSU10770" /EC_number="3.4.21.-" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:9004506, 9675284, 10336490, 15205417, 17269748, 21636651, 23180473, 25313396" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9004506, 9675284, 10336490, 15205417, 17269748, 21636651, 23180473, 25313396; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="cell wall-associated protease" /protein_id="NP_388958.1" /db_xref="EnsemblGenomes-Gn:BSU10770" /db_xref="EnsemblGenomes-Tr:CAB12917" /db_xref="GOA:P54423" /db_xref="InterPro:IPR000209" /db_xref="InterPro:IPR015500" /db_xref="InterPro:IPR022398" /db_xref="InterPro:IPR023828" /db_xref="InterPro:IPR034084" /db_xref="InterPro:IPR036852" /db_xref="SubtiList:BG11846" /db_xref="UniProtKB/Swiss-Prot:P54423" /translation="MKRRKFSSVVAAVLIFALIFSLFSPGTKAAAAGAIDQAAALENG KEQTGAMKEPEQVKWYKVTPGATDIQKNSHMALTVKSDSVLNVSVYPSKEKALKDETF EMYRSFTAEDGKSEVIFPYAWSGPYYVKVEYLGEEEPEDGGTAEAAAEAKYTIGYKGT KKQPSDLEEEEACPVEMSVDQKKSGKGILDKLRSIRDEQLSQTAEGKELTSLYYKAAP FIVAKLALNKTARNEIYQDLVTLKPLFDDVSENGASSSYKVTEKDQKAINRLYDKALQ SVPSFLKEEIKKQADRLNMKQLQGKTAGAILTENNIAAKSEVQTTKVIFKVKDNKSLS SVHNEMKGFSASAQSKKDISNVKKAKKLFDNLYSFELPKDEKQNGAYTASAKRVKSAA ATLSKMSNVEFAEPVQEYKSLANDIQYPYQWPLKNNGENGGVKNADVKYEPANTLLSK RKLNDTLIAVVDTGVDSTLADLKGKVRTDLGHNFVGRNNNAMDDQGHGTHVAGIIAAQ SDNGYSMTGLNAKAKIIPVKVLDSAGSGDTEQIALGIKYAADKGAKVINLSLGGGYSR VLEFALKYAADKNVLIAAASGNDGENALSYPASSKYVMSVGATNRMDMTADFSNYGKG LDISAPGSDIPSLVPNGNVTYMSGTSMATPYAAAAAGLLFAQNPKLKRTEVEDMLKKT ADDISFESVDGGEEELYDDYGDPIEIPKTPGVDWHSGYGRLNVMKAVSAADLQLKVNK LESTQTAVRGSAKEGTLIEVMNGKKKLGSAKAGKDNAFKVNIATQKQDQVLYLKATKG DAKTSYKVVVVKGKPSGTPKVNAVKTKDTAVKGKANSKAMIRVKNKSKKVIASAKADA KGTFSVKIKKQKAGTVLYVTAVDTDKKESKEAKVVVEK*" gene 1153789..1156473 /gene="wprA" /locus_tag="BSU_10770" /old_locus_tag="BSU10770" downshifts complement(1153957) /Source="Nicolas_upshifts" /id="D585" /incds=1 /nref=2 /ntot=155 /MaxReadThrough="0.14981" /MaxDrop="3.98572" /score="9.01750245" /energy="-8" /TU="NA" /idTUdmin="U869" /TUdmin=2563 /isTUend="FALSE" downshifts 1156465 /Source="Nicolas_upshifts" /id="D586" /incds=0 /nref=239 /ntot=267 /MaxReadThrough="1.55031" /MaxDrop="8.31576" /score="36.3638154" /energy="-12.3" /TU="NA" /idTUdmin="U868" /TUdmin="-1" /isTUend="TRUE" CDS complement(1156504..1157091) /gene="yisN" /locus_tag="BSU_10780" /old_locus_tag="BSU10780" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388959.1" /db_xref="EnsemblGenomes-Gn:BSU10780" /db_xref="EnsemblGenomes-Tr:CAB12918" /db_xref="InterPro:IPR024488" /db_xref="SubtiList:BG12239" /db_xref="UniProtKB/Swiss-Prot:O06727" /translation="MKKKETAWMKRKQLLYTEERKWEYGTILIEDGICLIENGEGDIL LADSLQHSPIWIHHKGKWEQAGFQDKLVLACGAENISLSGGERIRYEKSVKRPLMALL DSLDDETFLAFLQHLHSFGLSVFDCVFSYNKGVFSNTSAGQGVSFYHFSNDTAQCAMQ HHYNYSSEGTGDRFEWTASNGKRSIMYTAVQRGRK*" gene complement(1156504..1157091) /gene="yisN" /locus_tag="BSU_10780" /old_locus_tag="BSU10780" promotor_-10 complement(1157106..1157125) /Source="Nicolas_upshift_promotors" /id="U869" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.561438561438561" /psig="0.561438561438561" /xcortree=1023 /SigmaFactorBS="caccttagtaagtttatgcatctataggcagatagttgattt GTCcataaaagagttgtaTGGGACAGGCTTGAATTGGAaagaaaagagaggaatgaag a" /listShort="yisN" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1157125) /Source="Nicolas_upshifts" /id="U869" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.561438561438561" /psig="0.561438561438561" /xcortree=1023 /SigmaFactorBS="caccttagtaagtttatgcatctataggcagatagttgattt GTCcataaaagagttgtaTGGGACAGGCTTGAATTGGAaagaaaagagaggaatgaag a" /listShort="yisN" /GFF_Attribute="listLong" promotor_-35 complement(1157141..1157143) /Source="Nicolas_upshift_promotors" /id="U869" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.561438561438561" /psig="0.561438561438561" /xcortree=1023 /SigmaFactorBS="caccttagtaagtttatgcatctataggcagatagttgattt GTCcataaaagagttgtaTGGGACAGGCTTGAATTGGAaagaaaagagaggaatgaag a" /listShort="yisN" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1157146..1157152 /Source="Nicolas_upshift_promotors" /id="U870" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.543456543456543" /psig="0.543456543456543" /xcortree=1061 /SigmaFactorBS="tttccaattcaagcctgtcccatacaactcttttatggacaa ATCAACTatctgcctatagatGCATAAACTTACTAAGGTGctgaaagaaacgaaattg t" /listShort="S387, asnO, S388" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1157164 /Source="Nicolas_upshifts" /id="U870" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.543456543456543" /psig="0.543456543456543" /xcortree=1061 /SigmaFactorBS="tttccaattcaagcctgtcccatacaactcttttatggacaa ATCAACTatctgcctatagatGCATAAACTTACTAAGGTGctgaaagaaacgaaattg t" /listShort="S387, asnO, S388" /GFF_Attribute="listLong" promotor_-10 1157167..1157185 /Source="Nicolas_upshift_promotors" /id="U870" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.543456543456543" /psig="0.543456543456543" /xcortree=1061 /SigmaFactorBS="tttccaattcaagcctgtcccatacaactcttttatggacaa ATCAACTatctgcctatagatGCATAAACTTACTAAGGTGctgaaagaaacgaaattg t" /listShort="S387, asnO, S388" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1157170..1157236 /Source="Nicolas_S_feature" /locus_tag="new_1157170_1157236" /HighExp="S6, S5, S7, S8, B36, S4, BT, G/S, B60, Pyr" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig="0.543" /TUlongSig="NA" /TUlongPSig="NA" /label="S387" CDS 1157237..1159081 /gene="asnO" /locus_tag="BSU_10790" /old_locus_tag="BSU10790" /EC_number="6.3.5.4" /function="16.5: Explore" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:10498721, 26735940" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10498721, 26735940; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="asparagine synthetase (sporulation related)" /protein_id="NP_388960.2" /db_xref="EnsemblGenomes-Gn:BSU10790" /db_xref="EnsemblGenomes-Tr:CAB12919" /db_xref="GOA:O05272" /db_xref="InterPro:IPR001962" /db_xref="InterPro:IPR006426" /db_xref="InterPro:IPR014729" /db_xref="InterPro:IPR017932" /db_xref="InterPro:IPR029055" /db_xref="InterPro:IPR033738" /db_xref="SubtiList:BG12240" /db_xref="UniProtKB/Swiss-Prot:O05272" /translation="MCGITGWVDFKKQLVQEKQTMDRMTDTLSKRGPDDSNVWGEHHV LFGHKRLAVVDIEGGRQPMACTYKGDTYTIIYNGELYNTEDLRKELRARGHQFERTSD TEVLLHSYIEWQEDCVDHLNGIFAFAVWDEKRNLLFAARDRLGVKPFFYTKEGSSFLF GSEIKAILAHPDIKARVDRTGLSEIFGLGPSRTPGTGIFKGIKEIRPAHALTFSKDGL NIWRYWNVESEKHTDSFDDTVANVRSLFQDAVTRQLVSDVPVCTFLSGGLDSSAITAI AAGHFEKEGKAPLHTYSIDYEENDKYFQASAFQPNDDGPWIEKMTEAFGTTHHKCVIS QKDLVDHLEEAVLVKDLPGMADVDSSLLWFCREIKKDFVVSLSGECADEIFGGYPWFH TADVESGFPWMRSTEERIKLLSDSWQKKLNLKEYVNAKYEETLAETPLLDGETGVDKA RRQLFYLNMLWFMTNLLDRKDRMSMGASLEVRVPFADHRLVEYVWNIPWEMKMHDNRE KGILRKALEGILPDDILYRKKSPYPKTHHPEYTKGVSEWLKTIRSQKDSVLHTLLDRK QLDQLLETEGSSFKVPWFGQLMKGPQLIAHLAQIHTWFEAYRIDIDER*" gene 1157237..1159081 /gene="asnO" /locus_tag="BSU_10790" /old_locus_tag="BSU10790" S_feature 1159082..1159149 /Source="Nicolas_S_feature" /locus_tag="new_1159082_1159149" /HighExp="S6, S5, S7, B36, BT, S8, S4, B60, S3, Pyr" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig="0.543" /TUlongSig="NA" /TUlongPSig="NA" /label="S388" downshifts 1159106 /Source="Nicolas_upshifts" /id="D587" /incds=0 /nref=12 /ntot=43 /MaxReadThrough="3.29969" /MaxDrop="4.67478" /score="3.55879494" /energy="-14.8" /TU="U870" /idTUdmin="U870" /TUdmin="-550" /isTUend="FALSE" CDS complement(1159211..1159690) /gene="yizA" /locus_tag="BSU_10800" /old_locus_tag="BSU10800" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein (sporulation related)" /protein_id="YP_054576.1" /db_xref="EnsemblGenomes-Gn:BSU10800" /db_xref="EnsemblGenomes-Tr:CAE01451" /db_xref="GOA:Q7WY73" /db_xref="InterPro:IPR007837" /db_xref="InterPro:IPR034660" /db_xref="PDB:2QE9" /db_xref="SubtiList:BG14187" /db_xref="UniProtKB/Swiss-Prot:Q7WY73" /translation="MMKFFEYNWQVRDQWFTWCHQLTTEELLKNRLGGVENILYTLFH IIDVEYSWIRAIQGKEDIAVQFADYQTLNKVKSLSNTFRTEIIDVLQTHSDQIKDELV SVPWETGVLYTRDEILHHIIAHEIHHIGQLSVWARELKLSPVSASFIGRTLKPIHSY* " gene complement(1159211..1159690) /gene="yizA" /locus_tag="BSU_10800" /old_locus_tag="BSU10800" upshifts complement(1159710) /Source="Nicolas_upshifts" /id="U871" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.701298701298701" /psig="0.701298701298701" /xcortree=530 /SigmaFactorBS="caatcatcacttcattaatAGAGGAATCacggaaaaaaGGGC TAATTGTTATGATACatgatagtattggagtgagtttagtgatgaaattttttgaata t" /listShort="yizA" /GFF_Attribute="listLong" promotor_-10 complement(1159714..1159732) /Source="Nicolas_upshift_promotors" /id="U871" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.701298701298701" /psig="0.701298701298701" /xcortree=530 /SigmaFactorBS="caatcatcacttcattaatAGAGGAATCacggaaaaaaGGGC TAATTGTTATGATACatgatagtattggagtgagtttagtgatgaaattttttgaata t" /listShort="yizA" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(1159743..1159751) /Source="Nicolas_upshift_promotors" /id="U871" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.701298701298701" /psig="0.701298701298701" /xcortree=530 /SigmaFactorBS="caatcatcacttcattaatAGAGGAATCacggaaaaaaGGGC TAATTGTTATGATACatgatagtattggagtgagtttagtgatgaaattttttgaata t" /listShort="yizA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1159882..1159886 /Source="Nicolas_upshift_promotors" /id="U872" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.338661338661339" /psig="0.988011988011988" /xcortree=2373 /SigmaFactorBS="tgcgtcttgttacttttacaaagtaagaatcggcattttctt cATATAcaattaggaaaaaaCATACTAGACTTGAAGAAGCagtgatacataggagtga g" /listShort="yisP" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1159899 /Source="Nicolas_upshifts" /id="U872" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.338661338661339" /psig="0.988011988011988" /xcortree=2373 /SigmaFactorBS="tgcgtcttgttacttttacaaagtaagaatcggcattttctt cATATAcaattaggaaaaaaCATACTAGACTTGAAGAAGCagtgatacataggagtga g" /listShort="yisP" /GFF_Attribute="listLong" promotor_-10 1159901..1159920 /Source="Nicolas_upshift_promotors" /id="U872" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.338661338661339" /psig="0.988011988011988" /xcortree=2373 /SigmaFactorBS="tgcgtcttgttacttttacaaagtaagaatcggcattttctt cATATAcaattaggaaaaaaCATACTAGACTTGAAGAAGCagtgatacataggagtga g" /listShort="yisP" /GFF_Attribute="listLong" /label="promotor_-10" CDS 1159922..1160746 /gene="farP" /locus_tag="BSU_10810" /old_locus_tag="BSU10810" /EC_number="3.6.1.27" /experiment="publication(s) with functional evidences, PMID:23295493, 25308276" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 23295493, 25308276; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="farnesyl diphosphate phosphatase" /protein_id="NP_388961.1" /db_xref="EnsemblGenomes-Gn:BSU10810" /db_xref="EnsemblGenomes-Tr:CAB12920" /db_xref="GOA:O06728" /db_xref="InterPro:IPR002060" /db_xref="InterPro:IPR008949" /db_xref="PDB:3WE9" /db_xref="SubtiList:BG12241" /db_xref="UniProtKB/Swiss-Prot:O06728" /translation="MIHRSEKMKEIKEAYQQCGQIVGEYAPACFKALSYLPLKQRQAS WAVLSFCHTAASADEKVLPAFEAKADHVYQRTNNGKQHLWKAFDHAYRTFTLESEPFR EFIAAQKEDAKPYDDLDELLMYAYRTGGAAGLMLLPILTRRKQDQLKQAAVSLGLAIQ LVRFLSDLGTDQQKNRIPRQVMQQFGYTEADLQKGTVNKAFTMTWEYIAFEAEAYLEE CQDALPLFPQYSQKTVKAALHLHRAVLEKIRAKQHDVFQYHFALTETEVKQILSDI*" gene 1159922..1160746 /gene="farP" /locus_tag="BSU_10810" /old_locus_tag="BSU10810" promotor_-35 1160134..1160140 /Source="Nicolas_upshift_promotors" /id="U873" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=261 /SigmaFactorBS="gtattgcccgcatttgaagctaaagctgatcaTGTTTACcaa aggacaaataaCGGTAAACAACATCTATGGaaggcttttgatcatgcgtatcggacct t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1160155..1160173 /Source="Nicolas_upshift_promotors" /id="U873" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=261 /SigmaFactorBS="gtattgcccgcatttgaagctaaagctgatcaTGTTTACcaa aggacaaataaCGGTAAACAACATCTATGGaaggcttttgatcatgcgtatcggacct t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1160162 /Source="Nicolas_upshifts" /id="U873" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=261 /SigmaFactorBS="gtattgcccgcatttgaagctaaagctgatcaTGTTTACcaa aggacaaataaCGGTAAACAACATCTATGGaaggcttttgatcatgcgtatcggacct t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" S_feature 1160756..1162206 /Source="Nicolas_S_feature" /locus_tag="new_1160756_1162206" /HighExp="Salt, Etha, Sw, Cold, G150, G180, G135, LBGtran, Heat, Paraq" /AntisenseName="yisQ" /AntisenseCor="0.19511630802652" /AntisenseRegPval="-2.9" /CDS_PredictionProba="NA" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S389" CDS complement(1160776..1162143) /gene="yisQ" /locus_tag="BSU_10820" /old_locus_tag="BSU10820" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406, 17114254; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative Na(+)-driven efflux transporter" /protein_id="NP_388962.1" /db_xref="EnsemblGenomes-Gn:BSU10820" /db_xref="EnsemblGenomes-Tr:CAB12921" /db_xref="GOA:O07940" /db_xref="InterPro:IPR002528" /db_xref="SubtiList:BG12242" /db_xref="UniProtKB/Swiss-Prot:O07940" /translation="MKQAVFKSTALKKPADKTFSLFSLTWPIFIEVSLYMFMGNADTL MLSQYSDNSVAAVGVSNQILNLIIVMFSFIATGTTVIISQFLGSRQKKEAMEVAYVSI GANFFISLAISAVVFFAAVPLLHMMGLSDALMPDAKVFLQVVGGLSFIQALIMTFSAI LKSYGYTKDTMFVTIGMNILNIAGNFVVIFGLFGFPVLGVAGVAMSTSIARVIGLIAM IVIVNKRIQLKMSLKKVFHMHKEHLRKLLKIGIPSAGEQLSYNLSQMIVTYFIAIMGA QALTTKVYTQNITMFILLFGTAISQGTQILIGRYIGGKQFDAAYERCMKSLYWALGIA AATSVLMTIFSKDLIGLFTQSPDIIATASLLIAMTIILEPGRSFNVIIINSLRAAGDA KFPVYMAMISMWGIGLPLAYLFGIHLGFGLAGIWISFIADEWVRGILMYRRWRSRIWI QKGMA*" gene complement(1160776..1162143) /gene="yisQ" /locus_tag="BSU_10820" /old_locus_tag="BSU10820" promotor_-35 1162175..1162182 /Source="Nicolas_upshift_promotors" /id="U874" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.663336663336663" /psig="0.993006993006993" /xcortree=2737 /SigmaFactorBS="tctaacccctttcgtaaataaaatcaaCGTTTTAAagtgtac ctccatTTCCTTATAATAAAAAGGGAtagaaacgatacttcttgtaaaaatccgactt a" /listShort="yisR, degA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1162196..1162215 /Source="Nicolas_upshift_promotors" /id="U874" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.663336663336663" /psig="0.993006993006993" /xcortree=2737 /SigmaFactorBS="tctaacccctttcgtaaataaaatcaaCGTTTTAAagtgtac ctccatTTCCTTATAATAAAAAGGGAtagaaacgatacttcttgtaaaaatccgactt a" /listShort="yisR, degA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1162208 /Source="Nicolas_upshifts" /id="U874" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.663336663336663" /psig="0.993006993006993" /xcortree=2737 /SigmaFactorBS="tctaacccctttcgtaaataaaatcaaCGTTTTAAagtgtac ctccatTTCCTTATAATAAAAAGGGAtagaaacgatacttcttgtaaaaatccgactt a" /listShort="yisR, degA" /GFF_Attribute="listLong" CDS 1162267..1163130 /gene="yisR" /locus_tag="BSU_10830" /old_locus_tag="BSU10830" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10704478; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (AraC/XylS family)" /protein_id="NP_388963.1" /db_xref="EnsemblGenomes-Gn:BSU10830" /db_xref="EnsemblGenomes-Tr:CAB12922" /db_xref="GOA:P40331" /db_xref="InterPro:IPR003313" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR014710" /db_xref="InterPro:IPR018060" /db_xref="InterPro:IPR018062" /db_xref="SubtiList:BG11064" /db_xref="UniProtKB/Swiss-Prot:P40331" /translation="MPRILFTVPPFPVFIAAGEGVFKKGETHVKRVFSVFDLIYVKQG TLYITENETSFSVEGGEYILLSPGLEHYGTKGSDEATSYYWLHFDEHRYEFTAKGGSN WSELQQEKGSFEELARYGLALPRKGKVQRPQFMAQQFEKLIDYSAENSDLPLRKQILF EELMLHLQKEAFQIPSAKERVAWEAARYLQEHYKEKTTIKDLSLALHYHQDYVSRCMQ QVLGVTPAQYTNRVRMTEAKRLLSSTNDKMGVIAETVGMEDPTYFSKLFKQIEGISPI EYRKIVSRKVQ*" gene 1162267..1163130 /gene="yisR" /locus_tag="BSU_10830" /old_locus_tag="BSU10830" CDS 1163148..1164161 /gene="iolQ" /locus_tag="BSU_10840" /old_locus_tag="BSU10840" /function="16.6: Maintain" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:8407808, 23504016, 28693424" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8407808, 23504016, 28693424; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional repressor of iolX (LacI family)" /protein_id="NP_388964.1" /db_xref="EnsemblGenomes-Gn:BSU10840" /db_xref="EnsemblGenomes-Tr:CAB12923" /db_xref="GOA:P37947" /db_xref="InterPro:IPR000843" /db_xref="InterPro:IPR010982" /db_xref="InterPro:IPR028082" /db_xref="SubtiList:BG10847" /db_xref="UniProtKB/Swiss-Prot:P37947" /translation="MKTTIYDVAKAAGVSITTVSRVINNTGRISDKTRQKVMNVMNEM AYTPNVHAAALTGKRTNMIALVAPDISNPFYGELAKSIEERADELGFQMLICSTDYDP KKETKYFSVLKQKKVDGIIFATGIESHDSMSALEEIASEQIPIAMISQDKPLLPMDIV VIDDVRGGYEAAKHLLSLGHTNIACIIGDGSTTGEKNRIKGFRQAMEEAGVPIDESLI IQTRFSLESGKEEAGKLLDRNAPTAIFAFNDVLACAAIQAARIRGIKVPDDLSIIGFD NTILAEMAAPPLTTVAQPIKEMGRSVIELLAEAIEGKRKAKQKIVLPPELVVRHSTSP LNT*" gene 1163148..1164161 /gene="iolQ" /locus_tag="BSU_10840" /old_locus_tag="BSU10840" downshifts 1164144 /Source="Nicolas_upshifts" /id="D588" /incds=0 /nref=13 /ntot=204 /MaxReadThrough="0.51227" /MaxDrop="3.29173" /score="25.1260914" /energy="-9.6" /TU="NA" /idTUdmin="U874" /TUdmin=22 /isTUend="TRUE" promotor_-35 1164213..1164220 /Source="Nicolas_upshift_promotors" /id="U875" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.91008991008991" /psig="0.988011988011988" /xcortree=334 /SigmaFactorBS="agttgaagccaaaaaaacaTATTGCGTgtaaaccaaaggcgG TGTAAAATATAACCATCTTttgagaaagcgcttgcgcaaaatggcagagcggatagaa c" /listShort="S390, yisS" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1164235..1164254 /Source="Nicolas_upshift_promotors" /id="U875" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.91008991008991" /psig="0.988011988011988" /xcortree=334 /SigmaFactorBS="agttgaagccaaaaaaacaTATTGCGTgtaaaccaaaggcgG TGTAAAATATAACCATCTTttgagaaagcgcttgcgcaaaatggcagagcggatagaa c" /listShort="S390, yisS" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1164254..1164369 /Source="Nicolas_S_feature" /locus_tag="new_1164254_1164369" /HighExp="Lbstat, M40t90, M0t90, BI, G150, dia0, Mt0, Lbexp, Lbtran, dia5" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.988" /TUlongSig="NA" /TUlongPSig="NA" /label="S390" upshifts 1164254 /Source="Nicolas_upshifts" /id="U875" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.91008991008991" /psig="0.988011988011988" /xcortree=334 /SigmaFactorBS="agttgaagccaaaaaaacaTATTGCGTgtaaaccaaaggcgG TGTAAAATATAACCATCTTttgagaaagcgcttgcgcaaaatggcagagcggatagaa c" /listShort="S390, yisS" /GFF_Attribute="listLong" CDS 1164370..1165398 /gene="iolX" /locus_tag="BSU_10850" /old_locus_tag="BSU10850" /EC_number="1.1.1.370" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:11160890, 20133360, 23109554, 23504016, 28693424" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11160890, 20133360, 23109554, 23504016, 28693424; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="scyllo-inositol 2-dehydrogenase (NAD(+))" /protein_id="NP_388965.1" /db_xref="EnsemblGenomes-Gn:BSU10850" /db_xref="EnsemblGenomes-Tr:CAB12924" /db_xref="GOA:P40332" /db_xref="InterPro:IPR000683" /db_xref="InterPro:IPR004104" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG11065" /db_xref="UniProtKB/Swiss-Prot:P40332" /translation="MEHQVRCAVLGLGRLGYYHAKNLVTSVPGAKLVCVGDPLKGRAE QVARELGIEKWSEDPYEVLEDPGIDAVIIVTPTSTHGDMIIKAAENGKQIFVEKPLTL SLEESKAASEKVKETGVICQVGFMRRFDPAYADAKRRIDAGEIGKPIYYKGFTRDQGA PPAEFIKHSGGIFIDCSIHDYDIARYLLGAEITSVSGHGRILNNPFMEQYGDVDQALT YIEFDSGAAGDVEASRTSPYGHDIRAEVIGTEGSIFIGTLRHQHVTILSAKGSSFDII PDFQTRFHEAYCLELQHFAECVRNGKTPIVTDIDATINLEVGIAATNSFRNGMPVQLD VKRAYTGM*" gene 1164370..1165398 /gene="iolX" /locus_tag="BSU_10850" /old_locus_tag="BSU10850" downshifts 1165420 /Source="Nicolas_upshifts" /id="D589" /incds=0 /nref=4 /ntot=37 /MaxReadThrough="0.33001" /MaxDrop="3.45406" /score="8.69111487" /energy="-13.4" /TU="NA" /idTUdmin="U875" /TUdmin=0 /isTUend="TRUE" CDS complement(1165449..1165958) /gene="yisT" /locus_tag="BSU_10860" /old_locus_tag="BSU10860" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 25651892; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative enzyme regulator of activity" /protein_id="NP_388966.2" /db_xref="EnsemblGenomes-Gn:BSU10860" /db_xref="EnsemblGenomes-Tr:CAB12925" /db_xref="GOA:O07939" /db_xref="InterPro:IPR007837" /db_xref="InterPro:IPR034660" /db_xref="SubtiList:BG12243" /db_xref="UniProtKB/Swiss-Prot:O07939" /translation="MTDAKQFYDYHSWANKKIFTHIENLPEETAYQEVKSVFPSVSDV LLHMCRADYIWLNVLSGVAYQEIIDSAGKLQSAQGNMAAIKQHAAELESQYHDFFSRQ TDLEQTFTMQHPKLGTLESTYADTILHVVNHGTYHRGNVTAMLRQLDHSGVPTDYMYY LYEKRESKG*" gene complement(1165449..1165958) /gene="yisT" /locus_tag="BSU_10860" /old_locus_tag="BSU10860" downshifts complement(1165468) /Source="Nicolas_upshifts" /id="D590" /incds=0 /nref=81 /ntot=251 /MaxReadThrough="-0.0416600000000003" /MaxDrop="7.15629" /score="27.2292301" /energy="-13.4" /TU="NA" /idTUdmin="U876" /TUdmin="-16" /isTUend="TRUE" promotor_-10 complement(1165971..1165989) /Source="Nicolas_upshift_promotors" /id="U876" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=520 /SigmaFactorBS="agcggcaggatattttggggtgtcactcttttgcaattGAAG GAGAAacagatgaaaaAAACGAATTTCTTAGAAAAgggggcatgctgatgactgatgc a" /listShort="yisT" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1165987) /Source="Nicolas_upshifts" /id="U876" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=520 /SigmaFactorBS="agcggcaggatattttggggtgtcactcttttgcaattGAAG GAGAAacagatgaaaaAAACGAATTTCTTAGAAAAgggggcatgctgatgactgatgc a" /listShort="yisT" /GFF_Attribute="listLong" promotor_-35 complement(1166001..1166009) /Source="Nicolas_upshift_promotors" /id="U876" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=520 /SigmaFactorBS="agcggcaggatattttggggtgtcactcttttgcaattGAAG GAGAAacagatgaaaaAAACGAATTTCTTAGAAAAgggggcatgctgatgactgatgc a" /listShort="yisT" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1166008..1166670) /gene="yisU" /locus_tag="BSU_10870" /old_locus_tag="BSU10870" /function="16.1: Circulate" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative aminoacid related metabolite efflux transporter" /protein_id="NP_388967.1" /db_xref="EnsemblGenomes-Gn:BSU10870" /db_xref="EnsemblGenomes-Tr:CAB12926" /db_xref="GOA:O06730" /db_xref="InterPro:IPR001123" /db_xref="SubtiList:BG13100" /db_xref="UniProtKB/Swiss-Prot:O06730" /translation="MTISLMIEKKCERSFFSMNAIIHGIVLAFGLILPLGVQNVFIFQ QGALQKHIWRALPAVISASVCDTLLIVLAVAGVSVIVQELPVFETVMMAGGFLFLLYM GWVTWNIRPNTSQNEKHTFTPKKQAAFAAAVSLLNPHAILDTIGVIGTSSLQYSGLEK WLFMAACIAVSWIWFISLAIAGRLFQTIDTSGRLMLIVNKCSAAVMWAAAGYFGVSLF CN*" gene complement(1166008..1166670) /gene="yisU" /locus_tag="BSU_10870" /old_locus_tag="BSU10870" promotor_-35 1166689..1166695 /Source="Nicolas_upshift_promotors" /id="U877" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.5004995004995" /psig=1 /xcortree=3135 /SigmaFactorBS="gagagattgtcactaaagtctccagccatttGGTTGGGttag gaaccagccAAATGTATAATGTGTAAAAAaggggggcatgaccttgtcgcaatggcag c" /listShort="yisV" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1166709..1166728 /Source="Nicolas_upshift_promotors" /id="U877" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.5004995004995" /psig=1 /xcortree=3135 /SigmaFactorBS="gagagattgtcactaaagtctccagccatttGGTTGGGttag gaaccagccAAATGTATAATGTGTAAAAAaggggggcatgaccttgtcgcaatggcag c" /listShort="yisV" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1166718 /Source="Nicolas_upshifts" /id="U877" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.5004995004995" /psig=1 /xcortree=3135 /SigmaFactorBS="gagagattgtcactaaagtctccagccatttGGTTGGGttag gaaccagccAAATGTATAATGTGTAAAAAaggggggcatgaccttgtcgcaatggcag c" /listShort="yisV" /GFF_Attribute="listLong" CDS 1166737..1168191 /gene="yisV" /locus_tag="BSU_10880" /old_locus_tag="BSU10880" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15223311, 19383706; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative PLP-dependent transcriptional regulator" /protein_id="NP_388968.2" /db_xref="EnsemblGenomes-Gn:BSU10880" /db_xref="EnsemblGenomes-Tr:CAB12927" /db_xref="GOA:Q796Q6" /db_xref="InterPro:IPR000524" /db_xref="InterPro:IPR004839" /db_xref="InterPro:IPR015421" /db_xref="InterPro:IPR015422" /db_xref="InterPro:IPR015424" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG13101" /db_xref="UniProtKB/Swiss-Prot:Q796Q6" /translation="MTLSQWQPSRKSDVPLHRQIEQYMKDKILHGEWAVGTKIPSQRT LADMFQVNRSTVTAAIDELTSQGLLEGRKGGGTKVVNSTWSVLTAEPPLDWSDYVRSG IHRANSSIIQAINQNEPRADIIRLGTGELSPDLVPADTIGRMFQQINPGVLSLGYEQP KGNRQLREAVADHLKGKKIHVSPSAILIVSGALQALQLISIGLLKRDSVILTEKPSYL QSLHVFQSAGMRLRGLPMDDEGVKAGLVSSNRKQYGGQLLYTIPSFHNPTGTVMSEQR RKEIISLSKKEQMPIIEDDAYGDLWFEEKPPQPLKAMDHEGNILYLGAFSKTVSPGLR IGWLAGPEPVIERLADIKMQTDYGSSGLSQWAAAEWLSQGYYEEHLTWVRRKLKERRD AAVHFLERYAGDIATWRIPAGGFYIWVTFHKNLPVSRFFYELLKRQVLVNPGYIYDGE DRNSIRLSYSYASLGDLETGIKAAAETARRLMMS*" gene 1166737..1168191 /gene="yisV" /locus_tag="BSU_10880" /old_locus_tag="BSU10880" S_feature complement(1168046..1168198) /Source="Nicolas_S_feature" /locus_tag="new_1168046_1168198_c" /HighExp="Diami, Sw, C90, LBGstat, dia15, Paraq, dia5, BC, M40t45, Oxctl" /AntisenseName="yisV" /AntisenseCor="0.69858995161852" /AntisenseRegPval="-40" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.995" /TUlongSig="NA" /TUlongPSig="NA" /label="S391" downshifts complement(1168081) /Source="Nicolas_upshifts" /id="D591" /incds=1 /nref=2 /ntot=84 /MaxReadThrough="2.36735" /MaxDrop="2.81041" /score="-5.131548" /energy="-17.3" /TU="NA" /idTUdmin="U879" /TUdmin="-11" /isTUend="TRUE" CDS complement(1168199..1168837) /gene="yisX" /locus_tag="BSU_10890" /old_locus_tag="BSU10890" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388970.1" /db_xref="EnsemblGenomes-Gn:BSU10890" /db_xref="EnsemblGenomes-Tr:CAB12929" /db_xref="InterPro:IPR001646" /db_xref="SubtiList:BG13103" /db_xref="UniProtKB/Swiss-Prot:O06733" /translation="MNKIAIQKPNIPENLQTADFHDAVTQDDVISMHLFEDCTICGED IERLCVEKTVFRNVVFIDVSFRHIELTDVIFEKCDLSNADFSGAVIHRTSVKQSKMVG MNVAEATLRNVSFEECHGHFSSFSYSNMKQVRFDHCALMQSECSDTVLQQTHFDGCEL EGASFTGTSLQNMDISTCRFEQLHVSLDKLKGCKIAPEHAIAFARALGAVIV*" gene complement(1168199..1168837) /gene="yisX" /locus_tag="BSU_10890" /old_locus_tag="BSU10890" S_feature complement(1168838..1168972) /Source="Nicolas_S_feature" /locus_tag="new_1168838_1168972_c" /HighExp="Diami, dia15, dia5, C90, BC, Paraq, LBGstat, Lbtran, HiOs, Sw" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.995" /TUlongSig="NA" /TUlongPSig="NA" /label="S392" promotor_-35 1168886..1168891 /Source="Nicolas_upshift_promotors" /id="U878" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=1110 /SigmaFactorBS="cctttgctgcccgaaaaacagaggcttccgggttcaatTTAA TAgatcgttaaggaaatTGATACATATAGTAAATCGtgaagagccttttcttggtaca g" /listShort="S393, yisY" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1168907..1168925 /Source="Nicolas_upshift_promotors" /id="U878" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=1110 /SigmaFactorBS="cctttgctgcccgaaaaacagaggcttccgggttcaatTTAA TAgatcgttaaggaaatTGATACATATAGTAAATCGtgaagagccttttcttggtaca g" /listShort="S393, yisY" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1168908 /Source="Nicolas_upshifts" /id="U878" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=1110 /SigmaFactorBS="cctttgctgcccgaaaaacagaggcttccgggttcaatTTAA TAgatcgttaaggaaatTGATACATATAGTAAATCGtgaagagccttttcttggtaca g" /listShort="S393, yisY" /GFF_Attribute="listLong" S_feature 1168918..1169042 /Source="Nicolas_S_feature" /locus_tag="new_1168918_1169042" /HighExp="S6, S5, S8, S7, S4, BT, B36, S3, G/S, LoTm" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig="0.994" /TUlongSig="NA" /TUlongPSig="NA" /label="S393" promotor_-10 complement(1168958..1168977) /Source="Nicolas_upshift_promotors" /id="U879" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.974025974025974" /psig="0.995004995004995" /xcortree=2078 /SigmaFactorBS="tcctgttccctttggctttttcggcctgtaaacGCCTTGACg tataggaagctttCCATTTATGCTTACAAAACAagcgggctgctgtaccaagaaaagg c" /listShort="S392, yisX, S391" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1168972) /Source="Nicolas_upshifts" /id="U879" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.974025974025974" /psig="0.995004995004995" /xcortree=2078 /SigmaFactorBS="tcctgttccctttggctttttcggcctgtaaacGCCTTGACg tataggaagctttCCATTTATGCTTACAAAACAagcgggctgctgtaccaagaaaagg c" /listShort="S392, yisX, S391" /GFF_Attribute="listLong" promotor_-35 complement(1168992..1168999) /Source="Nicolas_upshift_promotors" /id="U879" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.974025974025974" /psig="0.995004995004995" /xcortree=2078 /SigmaFactorBS="tcctgttccctttggctttttcggcctgtaaacGCCTTGACg tataggaagctttCCATTTATGCTTACAAAACAagcgggctgctgtaccaagaaaagg c" /listShort="S392, yisX, S391" /GFF_Attribute="listLong" /label="promotor_-35" CDS 1169043..1169849 /gene="yisY" /locus_tag="BSU_10900" /old_locus_tag="BSU10900" /EC_number="3.1.-.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 22882546, 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative acyl hydrolase or peroxidase" /protein_id="NP_388971.1" /db_xref="EnsemblGenomes-Gn:BSU10900" /db_xref="EnsemblGenomes-Tr:CAB12930" /db_xref="GOA:O06734" /db_xref="InterPro:IPR000073" /db_xref="InterPro:IPR000639" /db_xref="InterPro:IPR029058" /db_xref="SubtiList:BG13104" /db_xref="UniProtKB/Swiss-Prot:O06734" /translation="MGHYIKTEEHVTLFVEDIGHGRPIIFLHGWPLNHKMFEYQMNEL PKRGFRFIGVDLRGYGQSDRPWEGYDYDTMADDVKAVIYTLQLENAILAGFSMGGAIA IRYMARHEGADVDKLILLSAAAPAFTKRPGYPYGMRKQDIDDMIELFKADRPKTLADL GKQFFEKKVSPELRQWFLNLMLEASSYGTIHSGIALRDEDLRKELAAIKVPTLILHGR KDRIAPFDFAKELKRGIKQSELVPFANSGHGAFYEEKEKINSLIAQFSNS*" gene 1169043..1169849 /gene="yisY" /locus_tag="BSU_10900" /old_locus_tag="BSU10900" downshifts 1169842 /Source="Nicolas_upshifts" /id="D592" /incds=0 /nref=4 /ntot=24 /MaxReadThrough="2.64682" /MaxDrop="5.60718" /score="8.70914085" /energy="-6.5" /TU="NA" /idTUdmin="U878" /TUdmin=0 /isTUend="TRUE" CDS complement(1169877..1170476) /gene="yisZ" /locus_tag="BSU_10910" /old_locus_tag="BSU10910" /EC_number="2.7.1.25" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15383836; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative adenylylsulfate kinase" /protein_id="NP_388972.1" /db_xref="EnsemblGenomes-Gn:BSU10910" /db_xref="EnsemblGenomes-Tr:CAB12931" /db_xref="GOA:O06735" /db_xref="InterPro:IPR002891" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG13105" /db_xref="UniProtKB/Swiss-Prot:O06735" /translation="MTHNPNIIWHPAAISKSDRQSLNGHKSCVLWFTGLSGSGKSVLA NAVDEKLYRKGIQSYVLDGDNIRHGLNKDLGFQTGDRIENIRRIGEVAKLFVDSGQMI LTAFISPFREDRDMVRALFPKGEFFEIYVKCPLHVCEQRDPKGLYKKARNGEIKHFTG IDSPYEAPLSPDFIIESDQTSISDGADLIINALQNRGII*" gene complement(1169877..1170476) /gene="yisZ" /locus_tag="BSU_10910" /old_locus_tag="BSU10910" downshifts complement(1169896) /Source="Nicolas_upshifts" /id="D593" /incds=0 /nref=35 /ntot=44 /MaxReadThrough="1.69999" /MaxDrop="6.8011" /score="17.1506785" /energy="-7.3" /TU="NA" /idTUdmin="U880" /TUdmin=0 /isTUend="TRUE" CDS complement(1170473..1171642) /gene="yitA" /locus_tag="BSU_10920" /old_locus_tag="BSU10920" /EC_number="2.7.7.4" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15383836; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative sulfate adenylyltransferase" /protein_id="NP_388973.2" /db_xref="EnsemblGenomes-Gn:BSU10920" /db_xref="EnsemblGenomes-Tr:CAB12932" /db_xref="GOA:O06736" /db_xref="InterPro:IPR002650" /db_xref="InterPro:IPR014729" /db_xref="InterPro:IPR015947" /db_xref="InterPro:IPR020792" /db_xref="InterPro:IPR024951" /db_xref="InterPro:IPR025980" /db_xref="SubtiList:BG13106" /db_xref="UniProtKB/Swiss-Prot:O06736" /translation="MNGNEPHGGVLINRCDPACHFEGCACQAELDQLALSDLELIAIG GYSPLTGFLGEKDYHSVVKEMRLANGLPWSLPITLPVGEKTARQLSAGDHVKLVKDGV TYGMITVTDIYQPDKTQEALSVFKTNDPAHPGVKKLLARPDYYIGGPITVSSLPDKSF EQFYATPAETRAAFQKLGWKTIVGFQTRNPVHRAHEYIQKTALETVDGLLLHPLVGET KSDDIPSDIRMESYQALLNHYYPKDRVMLSVFPAAMRYAGPREAIFHALVRKNYGCTH FIVGRDHAGVGSYYGTYDAQNIFQSFTEEELGIKPLFFEHSFYCRKCGNMGTSKTCPH SPRDHIHLSGTKVRELLRQGKKPPKEFSRPEVAAVLIKGLHQQPVAIKQNSGELQ*" gene complement(1170473..1171642) /gene="yitA" /locus_tag="BSU_10920" /old_locus_tag="BSU10920" S_feature complement(1171643..1171754) /Source="Nicolas_S_feature" /locus_tag="new_1171643_1171754_c" /HighExp="S6, S7, S8, BT, S5, B36, G/S, Pyr, SMMPr, B60" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigK" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S394" CDS complement(1171755..1172465) /gene="yitB" /locus_tag="BSU_10930" /old_locus_tag="BSU10930" /EC_number="1.8.4.8" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15383836; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative phospho-adenylylsulfate reductase" /protein_id="NP_388974.2" /db_xref="EnsemblGenomes-Gn:BSU10930" /db_xref="EnsemblGenomes-Tr:CAB12933" /db_xref="GOA:O06737" /db_xref="InterPro:IPR002500" /db_xref="InterPro:IPR004511" /db_xref="InterPro:IPR011798" /db_xref="InterPro:IPR014729" /db_xref="SubtiList:BG13107" /db_xref="UniProtKB/Swiss-Prot:O06737" /translation="MNETITYDTWNDMLSKQITDQLIDELDVLKWAYRTYGEKIVYAC SFGAEGMVLLDLISKINKNAHIIFLDTGLHFQETYELIETVKERYPGFAIQMLEPELS LTEQGTKYGGELWKHNPNLCCQLRKIEPLKKHLSGMTAWISGLRRDQSPTRKHIQYVN LDQKFELIKICPLIHWTWDDVWTYIRLHNLPYNKLHDQHYPSIGCEMCTLPSPDPNDE RAGRWAGREKTECGLHQE*" gene complement(1171755..1172465) /gene="yitB" /locus_tag="BSU_10930" /old_locus_tag="BSU10930" promotor_-10 complement(1172509..1172528) /Source="Nicolas_upshift_promotors" /id="U880" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1285 /SigmaFactorBS="aatggttccgcacctcattttaggcgggcgcggcacctaaaA CCTGAACCTttatgcaaaaaaTGAATAGTCTGCCTATAACTcgatcaatagataaaaa a" /listShort="yitB, S394, yitA, yisZ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1172531) /Source="Nicolas_upshifts" /id="U880" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1285 /SigmaFactorBS="aatggttccgcacctcattttaggcgggcgcggcacctaaaA CCTGAACCTttatgcaaaaaaTGAATAGTCTGCCTATAACTcgatcaatagataaaaa a" /listShort="yitB, S394, yitA, yisZ" /GFF_Attribute="listLong" promotor_-35 complement(1172541..1172550) /Source="Nicolas_upshift_promotors" /id="U880" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1285 /SigmaFactorBS="aatggttccgcacctcattttaggcgggcgcggcacctaaaA CCTGAACCTttatgcaaaaaaTGAATAGTCTGCCTATAACTcgatcaatagataaaaa a" /listShort="yitB, S394, yitA, yisZ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1172580..1172589 /Source="Nicolas_upshift_promotors" /id="U881" /multdbtbs="SigE,SigK" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1286 /SigmaFactorBS="aggtgccgcgcccgcctaaaatgaggTGCGGAACCAttaaga gcccggcTGAATATGCTTTTTAGCAAAatggttttatgcccaaggagaggtagtatgc c" /listShort="yitC, yitD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1172603..1172622 /Source="Nicolas_upshift_promotors" /id="U881" /multdbtbs="SigE,SigK" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1286 /SigmaFactorBS="aggtgccgcgcccgcctaaaatgaggTGCGGAACCAttaaga gcccggcTGAATATGCTTTTTAGCAAAatggttttatgcccaaggagaggtagtatgc c" /listShort="yitC, yitD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1172614 /Source="Nicolas_upshifts" /id="U881" /multdbtbs="SigE,SigK" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1286 /SigmaFactorBS="aggtgccgcgcccgcctaaaatgaggTGCGGAACCAttaaga gcccggcTGAATATGCTTTTTAGCAAAatggttttatgcccaaggagaggtagtatgc c" /listShort="yitC, yitD" /GFF_Attribute="listLong" CDS 1172650..1173336 /gene="slpH" /locus_tag="BSU_10940" /old_locus_tag="BSU10940" /EC_number="3.1.3.71" /function="15.7: Sporulation and germination" /function="16.2: Construct biomass (Anabolism)" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); PubMedId: 3346220, 11830598, 15383836, 16341843; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="2-phospho,3-sulfolactate phosphatase (sporulation related)" /protein_id="NP_388975.1" /db_xref="EnsemblGenomes-Gn:BSU10940" /db_xref="EnsemblGenomes-Tr:CAB12934" /db_xref="GOA:O06738" /db_xref="InterPro:IPR005238" /db_xref="InterPro:IPR036702" /db_xref="SubtiList:BG13108" /db_xref="UniProtKB/Swiss-Prot:O06738" /translation="MPIAIYQGHHHSLAPADINIVIDVIRAFTVAHYAFIGGAKEILL VRTADEAFALKDTYPDYVLTGEEKGVGISGFDLDNSPKRMAGQNMTDKSLIQKTTNGV TAALGALNAKHLFVTGFSNAKTTAQHVKKLVANDCVINIVASHPSGDDDMACAEYIKG IIEGTNVVTAAEAIERIKGSSVAEKFFDCRQPLFDSEDIVYCTKELTGDFVMKVKQDG EVPTIERVII*" gene 1172650..1173336 /gene="slpH" /locus_tag="BSU_10940" /old_locus_tag="BSU10940" CDS 1173333..1174091 /gene="slpS" /locus_tag="BSU_10950" /old_locus_tag="BSU10950" /EC_number="4.4.1.19" /function="16.14: Store" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); PubMedId: 11830598, 15014443, 15383836; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="2-phospho-3-sulfolactate synthase" /protein_id="NP_388976.1" /db_xref="EnsemblGenomes-Gn:BSU10950" /db_xref="EnsemblGenomes-Tr:CAB12935" /db_xref="GOA:O06739" /db_xref="InterPro:IPR003830" /db_xref="InterPro:IPR013785" /db_xref="InterPro:IPR036112" /db_xref="PDB:1U83" /db_xref="SubtiList:BG13109" /db_xref="UniProtKB/Swiss-Prot:O06739" /translation="MNDFSLELPVRTNKPRETGQSILIDNGYPLQFFKDAIAGASDYI DFVKFGWGTSLLTKDLEEKISTLKEHDITFFFGGTLFEKYVSQKKVNEFHRYCTYFGC EYIEISNGTLPMTNKEKAAYIADFSDEFLVLSEVGSKDAELASRQSSEEWLEYIVEDM EAGAEKVITEARESGTGGICSSSGDVRFQIVDDIISSDIDINRLIFEAPNKTLQQGFI QKIGPNVNLANIPFHDAIALETLRLGLRSDTFFL*" gene 1173333..1174091 /gene="slpS" /locus_tag="BSU_10950" /old_locus_tag="BSU10950" downshifts 1174088 /Source="Nicolas_upshifts" /id="D594" /incds=0 /nref=2 /ntot=20 /MaxReadThrough="2.37654" /MaxDrop="4.17689" /score="-1.32868938" /energy="-17.6" /TU="NA" /idTUdmin="U881" /TUdmin=0 /isTUend="TRUE" CDS complement(1174136..1174765) /gene="yitE" /locus_tag="BSU_10960" /old_locus_tag="BSU10960" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406, 26335199; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral inner membrane protein" /protein_id="NP_388977.1" /db_xref="EnsemblGenomes-Gn:BSU10960" /db_xref="EnsemblGenomes-Tr:CAB12936" /db_xref="GOA:O06740" /db_xref="InterPro:IPR003740" /db_xref="SubtiList:BG13110" /db_xref="UniProtKB/Swiss-Prot:O06740" /translation="MAELLMKAKLTFMIVVGGVLQGLGMSLFLFPHDIPTGGAAGIAV LLHYLFQIPHGFSVWAVNVSMLFTALKWLEMRTFTGTLASITVTSVSVLIFDAVFPDI TSNLWLDLASGAVLLGLGIGLLYKYKISNGGFGALALMISIYRGGNPGTILLIMNCII FMVTASIIDWGIVIQALICQVISTRVIDFIYNIRLTSLPYLTPMYRHKK*" gene complement(1174136..1174765) /gene="yitE" /locus_tag="BSU_10960" /old_locus_tag="BSU10960" promotor_-10 complement(1174799..1174817) /Source="Nicolas_upshift_promotors" /id="U882" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=996 /SigmaFactorBS="tggctcagcctattaagctgggccatttctttattttgaGAC ATAaataatggacagccTCATAAAATGAAAACAGCGgacaagtcttttcataaaggag c" /listShort="yitE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1174816) /Source="Nicolas_upshifts" /id="U882" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=996 /SigmaFactorBS="tggctcagcctattaagctgggccatttctttattttgaGAC ATAaataatggacagccTCATAAAATGAAAACAGCGgacaagtcttttcataaaggag c" /listShort="yitE" /GFF_Attribute="listLong" promotor_-35 complement(1174832..1174837) /Source="Nicolas_upshift_promotors" /id="U882" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=996 /SigmaFactorBS="tggctcagcctattaagctgggccatttctttattttgaGAC ATAaataatggacagccTCATAAAATGAAAACAGCGgacaagtcttttcataaaggag c" /listShort="yitE" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1174861..1175976) /gene="yitF" /locus_tag="BSU_10970" /old_locus_tag="BSU10970" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10960106, 11747447, 27994575; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative enolase superfamily enzyme (isomerase /dehydratase)" /protein_id="NP_388978.1" /db_xref="EnsemblGenomes-Gn:BSU10970" /db_xref="EnsemblGenomes-Tr:CAB12937" /db_xref="GOA:O06741" /db_xref="InterPro:IPR013341" /db_xref="InterPro:IPR013342" /db_xref="InterPro:IPR029017" /db_xref="InterPro:IPR029065" /db_xref="InterPro:IPR036849" /db_xref="PDB:2GDQ" /db_xref="PDB:2GGE" /db_xref="SubtiList:BG13111" /db_xref="UniProtKB/Swiss-Prot:O06741" /translation="MKIVRIETFPLFHRLEKPYGDANGFKRYRTCYLIRIITESGIDG WGECVDWLPALHVGFTKRIIPFLLGKQAGSRLSLVRTIQKWHQRAASAVSMALTEIAA KAADCSVCELWGGRYREEIPVYASFQSYSDSPQWISRSVSNVEAQLKKGFEQIKVKIG GTSFKEDVRHINALQHTAGSSITMILDANQSYDAAAAFKWERYFSEWTNIGWLEEPLP FDQPQDYAMLRSRLSVPVAGGENMKGPAQYVPLLSQRCLDIIQPDVMHVNGIDEFRDC LQLARYFGVRASAHAYDGSLSRLYALFAQACLPPWSKMKNDHIEPIEWDVMENPFTDL VSLQPSKGMVHIPKGKGIGTEINMEIVNRYKWDGSAY*" gene complement(1174861..1175976) /gene="yitF" /locus_tag="BSU_10970" /old_locus_tag="BSU10970" downshifts complement(1174890) /Source="Nicolas_upshifts" /id="D595" /incds=0 /nref=11 /ntot=42 /MaxReadThrough="1.81817" /MaxDrop="4.27426" /score="13.5713023" /energy="-14.5" /TU="NA" /idTUdmin="U883" /TUdmin=0 /isTUend="TRUE" CDS complement(1175985..1177253) /gene="yitG" /locus_tag="BSU_10980" /old_locus_tag="BSU10980" /function="16.8: Protect" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10960106, 14762009, 15109717, 15849754, 16850406; Product type t : transporter" /codon_start=1 /transl_table=11 /product="putative efflux transporter" /protein_id="NP_388979.1" /db_xref="EnsemblGenomes-Gn:BSU10980" /db_xref="EnsemblGenomes-Tr:CAB12938" /db_xref="GOA:Q796Q1" /db_xref="InterPro:IPR001958" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG13112" /db_xref="UniProtKB/Swiss-Prot:Q796Q1" /translation="MESSKQNNGMTIVAIGSIPLILTLGNSMLIPILPKMKSELHLSQ FQVSLVITVFSLIAAFAIPIVGYLADRFSRKVIIIPCLILYGAGGLLAGFAAGFFDNA YPWVMAGRALQGIGAAGTGPIAMALTGDLFKGAQESKVLGLVEASNGMGKVLSPIIGS LIALLVWYGAFFAFPVFCIISIVLTWIFIKEKKKEKEPPPIGQYAKGLLSVFKHEGRW LFTAYLAGATCLFTLFGILFYLSDVLEKTYDTDGVKKGLILAIPLLVMCVTSYTTGSK IGQKQSLMKKLIVLGLAFMTVSYAALSFIENLVLFISVLVLSSIGSGLVLPCVNSFIT GAVGKERRGFVTSLYGSVRFLGVAIGPPIFGRLMQWSRPGMFLSIAGLTLVVGILVMM LIHVKQNNEETKEKEDPKMAGNRLQPAEER*" gene complement(1175985..1177253) /gene="yitG" /locus_tag="BSU_10980" /old_locus_tag="BSU10980" promotor_-10 complement(1177279..1177290) /Source="Nicolas_upshift_promotors" /id="U883" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=932 /SigmaFactorBS="acaggtatcttctgttcggttttttgctgtctgatcgcTGAA TAAacgaagccatcagGGACATTCTAAGcagaagaaaaggagtgtgctctgagatgga a" /listShort="yitG, yitF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1177288) /Source="Nicolas_upshifts" /id="U883" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=932 /SigmaFactorBS="acaggtatcttctgttcggttttttgctgtctgatcgcTGAA TAAacgaagccatcagGGACATTCTAAGcagaagaaaaggagtgtgctctgagatgga a" /listShort="yitG, yitF" /GFF_Attribute="listLong" promotor_-35 complement(1177304..1177310) /Source="Nicolas_upshift_promotors" /id="U883" /multdbtbs="SigG" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=932 /SigmaFactorBS="acaggtatcttctgttcggttttttgctgtctgatcgcTGAA TAAacgaagccatcagGGACATTCTAAGcagaagaaaaggagtgtgctctgagatgga a" /listShort="yitG, yitF" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1177365..1178213) /gene="yitH" /locus_tag="BSU_10990" /old_locus_tag="BSU10990" /EC_number="2.3.1.-" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 23944997; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative N-acetyltransferase" /protein_id="NP_388980.1" /db_xref="EnsemblGenomes-Gn:BSU10990" /db_xref="EnsemblGenomes-Tr:CAB12939" /db_xref="GOA:O06743" /db_xref="InterPro:IPR000182" /db_xref="InterPro:IPR016181" /db_xref="SubtiList:BG13113" /db_xref="UniProtKB/Swiss-Prot:O06743" /translation="MDVVDELIKLHEEHVSGLLRLCGQAGWPDYGEQELKLLVQQGRF FGYQNVSGDIISCIGLFLFGRLTSIGLVIVDKEYQRLGLGRRMVNACITQTDENTAIR LCATKEGLPLYEKAGFHTAGSVRKYSCHSFQPYTKKLDAELTSFREQDFHDLTAADLA AFGGDRSNLLQQLISASCECIIARNQDGQLIGYGLSVQTPANLKFGPIIAPSSDVAAQ IITRLAAGKQGPMRIDIPSEHTSLHDSLIEMGFHKDDEPPILFYQKKAPIQNGHLYAL ISQALG*" gene complement(1177365..1178213) /gene="yitH" /locus_tag="BSU_10990" /old_locus_tag="BSU10990" downshifts complement(1177376) /Source="Nicolas_upshifts" /id="D596" /incds=0 /nref=34 /ntot=209 /MaxReadThrough="2.34135" /MaxDrop="3.51892" /score="14.8688564" /energy="-11.7" /TU="NA" /idTUdmin="U884" /TUdmin=0 /isTUend="TRUE" CDS complement(1178218..1178667) /gene="yitI" /locus_tag="BSU_11000" /old_locus_tag="BSU11000" /EC_number="2.3.1.-" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 23944997; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative N-acetyltransferase" /protein_id="NP_388981.2" /db_xref="EnsemblGenomes-Gn:BSU11000" /db_xref="EnsemblGenomes-Tr:CAB12940" /db_xref="GOA:O06744" /db_xref="InterPro:IPR000182" /db_xref="InterPro:IPR016181" /db_xref="SubtiList:BG13114" /db_xref="UniProtKB/Swiss-Prot:O06744" /translation="MLEVKTISVEDTYEIRHRILRPHQSIEQCKYKEDHAEGSFHLGV FYDGTLISIASFSPQSQPLLTEASAYRLRGMATLEGYRDQKAGSTLIKHAEHKLAESG VQAVWCNARHHVKGYYAKLGWKELGEPFDIPGIGNHIVMYKTLRTSR*" gene complement(1178218..1178667) /gene="yitI" /locus_tag="BSU_11000" /old_locus_tag="BSU11000" promotor_-10 complement(1178688..1178707) /Source="Nicolas_upshift_promotors" /id="U884" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.834165834165834" /psig="0.999000999001" /xcortree=2266 /SigmaFactorBS="cattaatttccaaaagactgcctgatcgaatcgggcagTCtt tttcaacgagattCGTGTTACGATATAGAAAAAcaatcatgaggaggaacattatgct c" /listShort="yitI, yitH" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1178702) /Source="Nicolas_upshifts" /id="U884" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.834165834165834" /psig="0.999000999001" /xcortree=2266 /SigmaFactorBS="cattaatttccaaaagactgcctgatcgaatcgggcagTCtt tttcaacgagattCGTGTTACGATATAGAAAAAcaatcatgaggaggaacattatgct c" /listShort="yitI, yitH" /GFF_Attribute="listLong" promotor_-35 complement(1178723..1178724) /Source="Nicolas_upshift_promotors" /id="U884" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.834165834165834" /psig="0.999000999001" /xcortree=2266 /SigmaFactorBS="cattaatttccaaaagactgcctgatcgaatcgggcagTCtt tttcaacgagattCGTGTTACGATATAGAAAAAcaatcatgaggaggaacattatgct c" /listShort="yitI, yitH" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1178757..1180595) /gene="samT" /locus_tag="BSU_11010" /old_locus_tag="BSU11010" /EC_number="1.5.1.20" /EC_number="2.1.1.10" /function="16.6: Maintain" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 10094622, 17264075, 20421295, 20951706, 26233166; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="bifunctional homocysteine S-methyltransferase using (R,S)AdoMet and methylenetetrahydrofolate reductase [NAD(P)H]" /protein_id="NP_388982.1" /db_xref="EnsemblGenomes-Gn:BSU11010" /db_xref="EnsemblGenomes-Tr:CAB12941" /db_xref="GOA:O06745" /db_xref="InterPro:IPR003171" /db_xref="InterPro:IPR003726" /db_xref="InterPro:IPR029041" /db_xref="InterPro:IPR036589" /db_xref="SubtiList:BG13115" /db_xref="UniProtKB/Swiss-Prot:O06745" /translation="MGLLEDLQRQVLIGDGAMGTLLYSYGIDRCFEELNISKPEEIQR IHKAYVEAGANIIQTNTYGANYIKLSRHGLEDDIKKMNQEAVKIARASAGDAYVLGTM GGIRTFNKNAYSLDEIKRSFREQLYLLLHEEPDGLLLETYYDLEEAREVLKIARKETD LPIMLNVSMHEQGVLQDGTPLSDALRSIADLGADIVGINCRLGPYHMIEALSEVPIFD DVFLSVYPNSSLPSLEEGRLVYETDDTYFQNSASEFRKQGARIIGGCCGTTPNHIRAM AEAVGGLAPITEKEVKTRAKEFISVHHERTEPGLDEIAAKKRSIIVELDPPKKLSFDK FLSAAAELKEAGIDALTLADNSLATPRISNVACGALVKQQLDMRSLVHITCRDRNIIG LQSHLMGLDTLGLNDVLAITGDPSKIGDFPGATSVYDLTSFDLIRLIKQFNEGLSLSG KPLGKKTNFSVAAAFNPNVRHLDKAVKRLEKKIDCGADYFVSQPVYSEQQLVDIHNET KHLKTPIYIGIMPLTSSRNAEFIHNEIPGIKLSDTIREKMAHAGEDKEKQKAEGLAIA RSLLDTACELFNGIYLITPFLRSDLTAELTSYIQQKDEQRQNIFLH*" gene complement(1178757..1180595) /gene="samT" /locus_tag="BSU_11010" /old_locus_tag="BSU11010" downshifts complement(1178784) /Source="Nicolas_upshifts" /id="D597" /incds=0 /nref=14 /ntot=91 /MaxReadThrough="3.04289" /MaxDrop="4.13744" /score="12.9586126" /energy="-16.2" /TU="U885" /idTUdmin="U885" /TUdmin="-66" /isTUend="FALSE" downshifts complement(1180677) /Source="Nicolas_upshifts" /id="D598" /incds=0 /nref=47 /ntot=128 /MaxReadThrough="8.00128" /MaxDrop="5.61487" /score="22.3754155" /energy="-7.3" /TU="U885,U887" /idTUdmin="U887" /TUdmin="-1079" /isTUend="FALSE" misc_RNA complement(1180685..1180802) /gene="mswK" /locus_tag="BSU_misc_RNA_12" /product="S-adenosylmethionine riboswitch" /experiment="publication(s) with functional evidences, PMID:10094622, 12626738, 12910260, 17381305, 18039762" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10094622, 12626738, 12910260, 17381305, 18039762; Product type n: RNA" /function="16.3: Control" gene complement(1180685..1180802) /gene="mswK" /locus_tag="BSU_misc_RNA_12" promotor_-10 complement(1180854..1180873) /Source="Nicolas_upshift_promotors" /id="U885" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.93906093906094" /psig="0.999000999001" /xcortree=2886 /SigmaFactorBS="aatttataaatttcagataaattttctgattccTATTGATTa ttgtctttattttCGGTAAATTTGGAGAAAGGGaaaaacgccagatatcttttggcac t" /listShort="NA, yitJ" /listLong="yitI, yitH" /label="promotor_-10" upshifts complement(1180868) /Source="Nicolas_upshifts" /id="U885" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.93906093906094" /psig="0.999000999001" /xcortree=2886 /SigmaFactorBS="aatttataaatttcagataaattttctgattccTATTGATTa ttgtctttattttCGGTAAATTTGGAGAAAGGGaaaaacgccagatatcttttggcac t" /listShort="NA, yitJ" /listLong="yitI, yitH" promotor_-35 complement(1180888..1180895) /Source="Nicolas_upshift_promotors" /id="U885" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.93906093906094" /psig="0.999000999001" /xcortree=2886 /SigmaFactorBS="aatttataaatttcagataaattttctgattccTATTGATTa ttgtctttattttCGGTAAATTTGGAGAAAGGGaaaaacgccagatatcttttggcac t" /listShort="NA, yitJ" /listLong="yitI, yitH" /label="promotor_-35" CDS complement(1180909..1181400) /gene="yitK" /locus_tag="BSU_11020" /old_locus_tag="BSU11020" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12943362, 25329577; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative RNA or cyclic d-GMP binding protein" /protein_id="NP_388983.1" /db_xref="EnsemblGenomes-Gn:BSU11020" /db_xref="EnsemblGenomes-Tr:CAB12942" /db_xref="InterPro:IPR007551" /db_xref="InterPro:IPR035570" /db_xref="InterPro:IPR035571" /db_xref="InterPro:IPR036183" /db_xref="SubtiList:BG13116" /db_xref="UniProtKB/Swiss-Prot:O06746" /translation="MAKESSFDIVSKVELPEVQNAIQIALKEISTRYDFKGSKSDISL DKEELVLVSDDEFKLSQLKDVLVSKLIKRNVPTKNIDYGKVENASGGTVRQRAKLVQG IDKDNAKKINTIIKNSGLKVKSQVQDDQVRVTGKNKDDLQQIISAVRGADLPIDVQFI NFR*" gene complement(1180909..1181400) /gene="yitK" /locus_tag="BSU_11020" /old_locus_tag="BSU11020" promotor_-35 1181418..1181421 /Source="Nicolas_upshift_promotors" /id="U886" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.555444555444555" /psig="0.997002997002997" /xcortree=2548 /SigmaFactorBS="atcaaatgaactttcttttgccatatgaaaacctccataacA TTTaacttatgtgttgaTTATAGTAGAATAAAGAGAAacttccaacagaacaaagaat c" /listShort="yitL" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(1181424..1181443) /Source="Nicolas_upshift_promotors" /id="U887" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.851148851148851" /psig=1 /xcortree=3057 /SigmaFactorBS="acattttttccaatcatcacaaattgattctttgttcTGTTG GAAgtttctctttattcTACTATAATCAACACATAAGttaaatgttatggaggttttc a" /listShort="yitK, NA, yitJ" /listLong="yitI, yitH" /label="promotor_-10" promotor_-10 1181436..1181455 /Source="Nicolas_upshift_promotors" /id="U886" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.555444555444555" /psig="0.997002997002997" /xcortree=2548 /SigmaFactorBS="atcaaatgaactttcttttgccatatgaaaacctccataacA TTTaacttatgtgttgaTTATAGTAGAATAAAGAGAAacttccaacagaacaaagaat c" /listShort="yitL" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1181437 /Source="Nicolas_upshifts" /id="U886" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.555444555444555" /psig="0.997002997002997" /xcortree=2548 /SigmaFactorBS="atcaaatgaactttcttttgccatatgaaaacctccataacA TTTaacttatgtgttgaTTATAGTAGAATAAAGAGAAacttccaacagaacaaagaat c" /listShort="yitL" /GFF_Attribute="listLong" upshifts complement(1181442) /Source="Nicolas_upshifts" /id="U887" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.851148851148851" /psig=1 /xcortree=3057 /SigmaFactorBS="acattttttccaatcatcacaaattgattctttgttcTGTTG GAAgtttctctttattcTACTATAATCAACACATAAGttaaatgttatggaggttttc a" /listShort="yitK, NA, yitJ" /listLong="yitI, yitH" promotor_-35 complement(1181458..1181465) /Source="Nicolas_upshift_promotors" /id="U887" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.851148851148851" /psig=1 /xcortree=3057 /SigmaFactorBS="acattttttccaatcatcacaaattgattctttgttcTGTTG GAAgtttctctttattcTACTATAATCAACACATAAGttaaatgttatggaggttttc a" /listShort="yitK, NA, yitJ" /listLong="yitI, yitH" /label="promotor_-35" CDS 1181499..1182395 /gene="yitL" /locus_tag="BSU_11030" /old_locus_tag="BSU11030" /function="9.4: RNA processing" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 20399190; Product type f : factor" /codon_start=1 /transl_table=11 /product="RNA-binding protein" /protein_id="NP_388984.1" /db_xref="EnsemblGenomes-Gn:BSU11030" /db_xref="EnsemblGenomes-Tr:CAB12943" /db_xref="GOA:O06747" /db_xref="InterPro:IPR003029" /db_xref="InterPro:IPR012340" /db_xref="InterPro:IPR014464" /db_xref="InterPro:IPR022967" /db_xref="InterPro:IPR036388" /db_xref="SubtiList:BG13117" /db_xref="UniProtKB/Swiss-Prot:O06747" /translation="MLTKSAENKRNRKDDSMRPGQQLTLSIDHQTDFGYFLTDGEDTI LLHNSEMTEDIEDRDEVEVFIYVDQQERLAATMKIPIISADEYGWVEVVDKVEDMGVF VDVGLSKDALVATEHLPPYEDVWPQKGDKLYCMLKVTNRGRMFAKPAPEDIISELFTD ASEDLMNKELTGTVYRLIASGSFVITDDGIRCFIHPSERKEEPRLGSRVTGRVIQVKE DGSVNLSLLPRKQDAMSVDAECILTYMRMRNGAMPYSDKSQPDDIRERFNMSKAAFKR ALGHLMKNGKVYQENGWTYEKK*" gene 1181499..1182395 /gene="yitL" /locus_tag="BSU_11030" /old_locus_tag="BSU11030" downshifts 1182382 /Source="Nicolas_upshifts" /id="D599" /incds=0 /nref=232 /ntot=261 /MaxReadThrough="1.78082" /MaxDrop="6.73614" /score="40.361011" /energy="-21.5" /TU="NA" /idTUdmin="U886" /TUdmin=0 /isTUend="TRUE" CDS complement(1182448..1183032) /gene="yitM" /locus_tag="BSU_11040" /old_locus_tag="BSU11040" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 11557812" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388985.1" /db_xref="EnsemblGenomes-Gn:BSU11040" /db_xref="EnsemblGenomes-Tr:CAB12944" /db_xref="GOA:O06748" /db_xref="InterPro:IPR023888" /db_xref="SubtiList:BG13118" /db_xref="UniProtKB/Swiss-Prot:O06748" /translation="MKKAFLVFLSVVLVTTVFLVKQQESVAQAKQLEYSGEEIFKGFV FAQGEVGKQLPEVFNKAMTDKLNTKQAKAFANQVVADIKKEDADFFDNLKKAVYSKDA LKVDELLKKAGQIVEEKVEAAKEIAASKDDTSRVQAELVNTVDTANYFYYVSYVAAAG ALILIILAIDITPIAISDNVDREMAIRTLVDELN*" gene complement(1182448..1183032) /gene="yitM" /locus_tag="BSU_11040" /old_locus_tag="BSU11040" downshifts complement(1182458) /Source="Nicolas_upshifts" /id="D600" /incds=0 /nref=68 /ntot=158 /MaxReadThrough="1.3386" /MaxDrop="7.40935" /score="10.143892" /energy="-21.5" /TU="NA" /idTUdmin="U888" /TUdmin=0 /isTUend="TRUE" CDS complement(1183029..1183958) /gene="yitO" /locus_tag="BSU_11055" /old_locus_tag="BSU11055" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 11557812, 15849754, 16850406; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral inner membrane protein with HTTM domain" /protein_id="NP_388987.2" /db_xref="EnsemblGenomes-Gn:BSU11055" /db_xref="EnsemblGenomes-Tr:CAB12946" /db_xref="GOA:O06750" /db_xref="InterPro:IPR011020" /db_xref="InterPro:IPR023894" /db_xref="SubtiList:BG13120" /db_xref="UniProtKB/Swiss-Prot:O06750" /translation="MLENIKQTITRWDERNPWTNVYGLARSIIALSSLLTLLINHPSL IMKPASGISSYPACKMNLSLFCLGENNYMMLNLFRWVCIAILVLVVIGWRPRITGVLH WYVSYSLQSSLIVIDGGEQAAAVMTFLLLPITLTDPRKWHWSTRPIEGKRTLGKITAF ISYFVIRIQVAVLYFHSTVAKLSQQEWVDGTAVYYFAQEKTIGFNGFFQALTKPIVTS PFVVIPTWGTLLVQIVIFAALFAPKKHWRLILIIAVFMHEIFAVMLGLISFSIIMAGI LILYLTPIDSTIQFTYIRRLLWNKKHKKGEVSV*" gene complement(1183029..1183958) /gene="yitO" /locus_tag="BSU_11055" /old_locus_tag="BSU11055" misc_feature complement(1183114) /Source="Nicolas_upshift_promotors" /id="U888" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.232767232767233" /psig="0.63936063936064" /xcortree=2974 /SigmaFactorBS="agtcatgctgggcctcatcagtttttcgattatcatggccgg cattttgatattgtatctcaCtcctatcgattccacgattcaatttacatatattcgc a" /listShort="yitM" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(1183116) /Source="Nicolas_upshifts" /id="U888" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.232767232767233" /psig="0.63936063936064" /xcortree=2974 /SigmaFactorBS="agtcatgctgggcctcatcagtttttcgattatcatggccgg cattttgatattgtatctcaCtcctatcgattccacgattcaatttacatatattcgc a" /listShort="yitM" /GFF_Attribute="listLong" CDS complement(1183943..1184479) /gene="yitP" /locus_tag="BSU_11070" /old_locus_tag="BSU11070" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 6289325, 11557812" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_388988.1" /db_xref="EnsemblGenomes-Gn:BSU11070" /db_xref="EnsemblGenomes-Tr:CAB12947" /db_xref="GOA:O06751" /db_xref="InterPro:IPR023902" /db_xref="SubtiList:BG13121" /db_xref="UniProtKB/Swiss-Prot:O06751" /translation="MQKSISFFVIFSILWGSLFLFSIIGSLGTTPIPLTKDSKFLMSS ILPQGWGFFSKNPRDTAIGLYEAENASAKVRWPNMRADNLFGLYRYGRSQGVEMGVIY SQVGKEQWTACKEKDLGACKSKAKTVQLKTPAPRPLLCGSYYLTKEDIVPWSYSKYTP SSYQVKSIVKVVISCSKT*" gene complement(1183943..1184479) /gene="yitP" /locus_tag="BSU_11070" /old_locus_tag="BSU11070" promotor_-10 complement(1184515..1184534) /Source="Nicolas_upshift_promotors" /id="U889" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.71028971028971" /psig="0.988011988011988" /xcortree=2975 /SigmaFactorBS="ccttttaacaaaaatggaatttctcatactttttaacCTTTt tattacataaatgTTTTTATATTATGAAAAGTGtaaaaacgattcttcaggttaaaag g" /listShort="yitP" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1184529) /Source="Nicolas_upshifts" /id="U889" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.71028971028971" /psig="0.988011988011988" /xcortree=2975 /SigmaFactorBS="ccttttaacaaaaatggaatttctcatactttttaacCTTTt tattacataaatgTTTTTATATTATGAAAAGTGtaaaaacgattcttcaggttaaaag g" /listShort="yitP" /GFF_Attribute="listLong" promotor_-35 complement(1184549..1184552) /Source="Nicolas_upshift_promotors" /id="U889" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.71028971028971" /psig="0.988011988011988" /xcortree=2975 /SigmaFactorBS="ccttttaacaaaaatggaatttctcatactttttaacCTTTt tattacataaatgTTTTTATATTATGAAAAGTGtaaaaacgattcttcaggttaaaag g" /listShort="yitP" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1184620..1184627 /Source="Nicolas_upshift_promotors" /id="U890" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.767232767232767" /psig=1 /xcortree=3150 /SigmaFactorBS="aaaggaaaaacaggacattttacactgctatatgtGATTGAT AtatagtgtttttttCGATATATTTAAACCATGAAaacgaatcaagttaatgaccgct g" /listShort="yizB, yitQ, yitR" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1184642..1184661 /Source="Nicolas_upshift_promotors" /id="U890" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.767232767232767" /psig=1 /xcortree=3150 /SigmaFactorBS="aaaggaaaaacaggacattttacactgctatatgtGATTGAT AtatagtgtttttttCGATATATTTAAACCATGAAaacgaatcaagttaatgaccgct g" /listShort="yizB, yitQ, yitR" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1184645 /Source="Nicolas_upshifts" /id="U890" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.767232767232767" /psig=1 /xcortree=3150 /SigmaFactorBS="aaaggaaaaacaggacattttacactgctatatgtGATTGAT AtatagtgtttttttCGATATATTTAAACCATGAAaacgaatcaagttaatgaccgct g" /listShort="yizB, yitQ, yitR" /GFF_Attribute="listLong" CDS 1184657..1185004 /gene="yizB" /locus_tag="BSU_11079" /old_locus_tag="BSU11079" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 23504016; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator" /protein_id="YP_003097701.1" /db_xref="EnsemblGenomes-Gn:BSU11079" /db_xref="EnsemblGenomes-Tr:CAX52589" /db_xref="GOA:C0H3Y4" /db_xref="InterPro:IPR005149" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="UniProtKB/Swiss-Prot:C0H3Y4" /translation="MKTNQVNDRWIVQFRKGIFELAILSLLRSKPMYGYELTSSLKTT SALAISEGAIYPILKRMTEKGWIEFFWEDSLDGPKRKYYKMTQKGEEMLKERLEKYLE THQALLSLSGDLL*" gene 1184657..1185004 /gene="yizB" /locus_tag="BSU_11079" /old_locus_tag="BSU11079" CDS 1185001..1185588 /gene="yitQ" /locus_tag="BSU_11080" /old_locus_tag="BSU11080" /function="18: Unknown function" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 23504016" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388989.2" /db_xref="EnsemblGenomes-Gn:BSU11080" /db_xref="EnsemblGenomes-Tr:CAB12948" /db_xref="GOA:O06752" /db_xref="SubtiList:BG13122" /db_xref="UniProtKB/Swiss-Prot:O06752" /translation="MNGQLIIDRYMEELNAELANMPDVERENAIDELKGHITAFVQDR IKAGLSEEELQEAVESEFSHPKELAELMMGDGGETKRRRSLLGKSWISVLLIVTIIAL PLLPSDFRHLPLAVYLMVLAGYVWKRKKLVMFAGVRKNKMRSQKEIVKISRVGAVYLL FLAVVLLLSPFLNALVVLLLIAVSCAAFFLFLNIK*" gene 1185001..1185588 /gene="yitQ" /locus_tag="BSU_11080" /old_locus_tag="BSU11080" CDS 1185608..1185901 /gene="yitR" /locus_tag="BSU_11090" /old_locus_tag="BSU11090" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_388990.1" /db_xref="EnsemblGenomes-Gn:BSU11090" /db_xref="EnsemblGenomes-Tr:CAB12949" /db_xref="GOA:O06753" /db_xref="InterPro:IPR017259" /db_xref="SubtiList:BG13123" /db_xref="UniProtKB/Swiss-Prot:O06753" /translation="MEISINYLLIVIALLFFVVAYFVGIKKQTWMLAGFNEARIRDKD RLARIAGYFFLNSGLFILLNSFISFQGQEQLIPPLILAYGAGVIIYVNKKLVE*" gene 1185608..1185901 /gene="yitR" /locus_tag="BSU_11090" /old_locus_tag="BSU11090" downshifts 1185881 /Source="Nicolas_upshifts" /id="D601" /incds=0 /nref=119 /ntot=240 /MaxReadThrough="1.96008" /MaxDrop="5.72545" /score="2.11183863" /energy="-12.6" /TU="NA" /idTUdmin="U890" /TUdmin=0 /isTUend="TRUE" downshifts 1185925 /Source="Nicolas_upshifts" /id="D602" /incds=0 /nref=1 /ntot=15 /MaxReadThrough="0.34732" /MaxDrop="3.0285" /score="2.11183863" /energy="-12.6" /TU="NA" /idTUdmin="U890" /TUdmin=44 /isTUend="FALSE" CDS 1186037..1187653 /gene="nprB" /locus_tag="BSU_11100" /old_locus_tag="BSU11100" /EC_number="3.4.24.-" /function="16.11: Scavenge (Catabolism)" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:1917867, 16672610" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1917867, 16672610; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="extracellular neutral protease B" /protein_id="NP_388991.1" /db_xref="EnsemblGenomes-Gn:BSU11100" /db_xref="EnsemblGenomes-Tr:CAB12950" /db_xref="GOA:P39899" /db_xref="InterPro:IPR001570" /db_xref="InterPro:IPR011096" /db_xref="InterPro:IPR013856" /db_xref="InterPro:IPR023612" /db_xref="InterPro:IPR025711" /db_xref="SubtiList:BG10691" /db_xref="UniProtKB/Swiss-Prot:P39899" /translation="MRNLTKTSLLLAGLCTAAQMVFVTHASAEESIEYDHTYQTPSYI IEKSPQKPVQNTTQKESLFSYLDKHQTQFKLKGNANSHFRVSKTIKDPKTKQTFFKLT EVYKGIPIYGFEQAVAMKENKQVKSFFGKVHPQIKDVSVTPSISEKKAIHTARRELEA SIGKIEYLDGEPKGELYIYPHDGEYDLAYLVRLSTSEPEPGYWHYFIDAKNGKVIESF NAIHEAAGTGIGVSGDEKSFDVTEQNGRFYLADETRGKGINTFDAKNLNETLFTLLSQ LIGYTGKEIVSGTSVFNEPAAVDAHANAQAVYDYYSKTFGRDSFDQNGARITSTVHVG KQWNNAAWNGVQMVYGDGDGSKFKPLSGSLDIVAHEITHAVTQYSAGLLYQGEPGALN ESISDIMGAMADRDDWEIGEDVYTPGIAGDSLRSLEDPSKQGNPDHYSNRYTGTEDYG GVHINSSIHNKAAYLLAEGGVHHGVQVEGIGREASEQIYYRALTYYVTASTDFSMMKQ AAIEAANDLYGEGSKQSASVEKAYEAVGIL*" gene 1186037..1187653 /gene="nprB" /locus_tag="BSU_11100" /old_locus_tag="BSU11100" downshifts 1187641 /Source="Nicolas_upshifts" /id="D603" /incds=0 /nref=2 /ntot=55 /MaxReadThrough="0.278770000000001" /MaxDrop="3.08544" /score="2.81939887" /energy="-8.6" /TU="NA" /idTUdmin="U890" /TUdmin=1760 /isTUend="FALSE" CDS complement(1187700..1188551) /gene="fakBB" /locus_tag="BSU_11110" /old_locus_tag="BSU11110" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); PubMedId: 25002480, 26774272, 27435445; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="fatty acid kinase fatty acid binding subunit B" /protein_id="NP_388992.1" /db_xref="EnsemblGenomes-Gn:BSU11110" /db_xref="EnsemblGenomes-Tr:CAB12951" /db_xref="GOA:P70945" /db_xref="InterPro:IPR003797" /db_xref="SubtiList:BG12244" /db_xref="UniProtKB/Swiss-Prot:P70945" /translation="MTVHLIADSATDLPRSYFEEKGIGFIPLRVSLGDKEFEDAVTIH ADQIFEAMQNGETPKTSQASPQTIKNVFLQYAETGDPALYIAFSSGLSGTYQTAVMIA NEVKEEFPDFDLRVIDSKCASLGYGLAVRHAADLCINGNTIQEIETSVKNFCSQLEHI FTVDDLTYLARGGRISKTSAFVGGLLNIKPLLQMEDGKLVPLEKIRGQKKLFKRIIEL MKERGDDWSNQTVGISYAANKEKATDMKHLIEEAFKPKEIIMHPISSAIGSHAGPGTL AIFFLRK*" gene complement(1187700..1188551) /gene="fakBB" /locus_tag="BSU_11110" /old_locus_tag="BSU11110" downshifts complement(1187717) /Source="Nicolas_upshifts" /id="D604" /incds=0 /nref=209 /ntot=263 /MaxReadThrough="0.727580000000001" /MaxDrop="6.86927" /score="-1.24586831" /energy="-7.7" /TU="NA" /idTUdmin="U892" /TUdmin=0 /isTUend="TRUE" promotor_-35 1188098..1188105 /Source="Nicolas_upshift_promotors" /id="U891" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.78021978021978" /psig="0.996003996003996" /xcortree=2481 /SigmaFactorBS="gtaaaaatgtgttcaagctggctgcaaaagtTCTTTACAgac gtttcaatttcTTGTATTGTATTCCCGTTGAtacagagatcggcagcatgccggacag c" /listShort="S395, yitT, S396, ipi" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1188120..1188139 /Source="Nicolas_upshift_promotors" /id="U891" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.78021978021978" /psig="0.996003996003996" /xcortree=2481 /SigmaFactorBS="gtaaaaatgtgttcaagctggctgcaaaagtTCTTTACAgac gtttcaatttcTTGTATTGTATTCCCGTTGAtacagagatcggcagcatgccggacag c" /listShort="S395, yitT, S396, ipi" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1188125..1188650 /Source="Nicolas_S_feature" /locus_tag="new_1188125_1188650" /HighExp="G180, Paraq, G135, G150, Oxctl, C30, H2O2, LBGstat, LBGexp, Lbexp" /AntisenseName="yitS" /AntisenseCor="-0.45830528686941202" /AntisenseRegPval="-14.6" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.996" /TUlongSig="NA" /TUlongPSig="NA" /label="S395" upshifts 1188127 /Source="Nicolas_upshifts" /id="U891" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.78021978021978" /psig="0.996003996003996" /xcortree=2481 /SigmaFactorBS="gtaaaaatgtgttcaagctggctgcaaaagtTCTTTACAgac gtttcaatttcTTGTATTGTATTCCCGTTGAtacagagatcggcagcatgccggacag c" /listShort="S395, yitT, S396, ipi" /GFF_Attribute="listLong" promotor_-10 complement(1188592..1188611) /Source="Nicolas_upshift_promotors" /id="U892" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.558441558441558" /psig="0.841158841158841" /xcortree=594 /SigmaFactorBS="gctctttcttctttattatgttttcccttaaaacaaatattt gaAcacgattttggcaaattaaTATGATATAGTTGGCTTAACtctcatgataacgagc g" /listShort="yitS" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1188615) /Source="Nicolas_upshifts" /id="U892" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.558441558441558" /psig="0.841158841158841" /xcortree=594 /SigmaFactorBS="gctctttcttctttattatgttttcccttaaaacaaatattt gaAcacgattttggcaaattaaTATGATATAGTTGGCTTAACtctcatgataacgagc g" /listShort="yitS" /GFF_Attribute="listLong" promotor_-35 1188629..1188634 /Source="Nicolas_upshift_promotors" /id="U893" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=738 /SigmaFactorBS="gttaagccaactatatcatattaatttgccaaaatcgTGTTC AaatatttgttttaaGGGAAAACATAATAAAGAAgaaagagcggaggaacatgccatg g" /listShort="yitT, S396, ipi" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 complement(1188631) /Source="Nicolas_upshift_promotors" /id="U892" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.558441558441558" /psig="0.841158841158841" /xcortree=594 /SigmaFactorBS="gctctttcttctttattatgttttcccttaaaacaaatattt gaAcacgattttggcaaattaaTATGATATAGTTGGCTTAACtctcatgataacgagc g" /listShort="yitS" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1188649..1188667 /Source="Nicolas_upshift_promotors" /id="U893" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=738 /SigmaFactorBS="gttaagccaactatatcatattaatttgccaaaatcgTGTTC AaatatttgttttaaGGGAAAACATAATAAAGAAgaaagagcggaggaacatgccatg g" /listShort="yitT, S396, ipi" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1188652 /Source="Nicolas_upshifts" /id="U893" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=738 /SigmaFactorBS="gttaagccaactatatcatattaatttgccaaaatcgTGTTC AaatatttgttttaaGGGAAAACATAATAAAGAAgaaagagcggaggaacatgccatg g" /listShort="yitT, S396, ipi" /GFF_Attribute="listLong" CDS 1188689..1189531 /gene="yitT" /locus_tag="BSU_11120" /old_locus_tag="BSU11120" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406, 23419162, 23824080; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral membrane protein" /protein_id="NP_388993.1" /db_xref="EnsemblGenomes-Gn:BSU11120" /db_xref="EnsemblGenomes-Tr:CAB12952" /db_xref="GOA:P39803" /db_xref="InterPro:IPR003740" /db_xref="InterPro:IPR019264" /db_xref="SubtiList:BG10850" /db_xref="UniProtKB/Swiss-Prot:P39803" /translation="MVLDQTKKLLIVIIGALLNAAGLNLFLIPADVYASGFTGVAQLL SSVVDQYAPFYISTGTLLFLLNIPVGILGWLKVGKSFTVYSILSVALTTLFMGILPET SLSHDILLNAVFGGVISAVGIGLTLKYGASTGGLDIVAMVLAKWKDKPVGTYFFILNG IIILTAGLLQGWEKALYTLVTLYVTTRVIDAIHTRHMKLTAMIVTKKADEIKEAIYGK MVRGITTVPAKGAFTNEQKEMMIIVITRYELYDLEKIVKEVDPKAFTNIVQTTGIFGF FRKD*" gene 1188689..1189531 /gene="yitT" /locus_tag="BSU_11120" /old_locus_tag="BSU11120" promotor_-35 1189184..1189192 /Source="Nicolas_upshift_promotors" /id="U894" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.968031968031968" /psig="0.968031968031968" /xcortree=467 /SigmaFactorBS="gcacgtatttcttcattctgaacgggattatcatcttgacgG CAGGATTAttgcaaggttGGGAGAAAGCATTATATACcctggttacactatatgtgac a" /listShort="S396, ipi" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1189203..1189221 /Source="Nicolas_upshift_promotors" /id="U894" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.968031968031968" /psig="0.968031968031968" /xcortree=467 /SigmaFactorBS="gcacgtatttcttcattctgaacgggattatcatcttgacgG CAGGATTAttgcaaggttGGGAGAAAGCATTATATACcctggttacactatatgtgac a" /listShort="S396, ipi" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1189203 /Source="Nicolas_upshifts" /id="U894" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.968031968031968" /psig="0.968031968031968" /xcortree=467 /SigmaFactorBS="gcacgtatttcttcattctgaacgggattatcatcttgacgG CAGGATTAttgcaaggttGGGAGAAAGCATTATATACcctggttacactatatgtgac a" /listShort="S396, ipi" /GFF_Attribute="listLong" S_feature 1189532..1189645 /Source="Nicolas_S_feature" /locus_tag="new_1189532_1189645" /HighExp="Etha, S8, Sw, M9-stat, S7, BC, Gly, S6, Salt, C30" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigH, SigB, SigA" /TUshortPSig="0.968, 0.998, 0.996" /TUlongSig="NA" /TUlongPSig="NA" /label="S396" CDS 1189646..1190005 /gene="ipi" /locus_tag="BSU_11130" /old_locus_tag="BSU11130" /function="16.8: Protect" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:8226659, 24555072" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8226659, 24555072; Product type f: factor" /codon_start=1 /transl_table=11 /product="intracellular proteinase inhibitor BsuPI" /protein_id="NP_388994.1" /db_xref="EnsemblGenomes-Gn:BSU11130" /db_xref="EnsemblGenomes-Tr:CAB12953" /db_xref="GOA:P39804" /db_xref="InterPro:IPR013783" /db_xref="InterPro:IPR020481" /db_xref="PDB:3ISY" /db_xref="SubtiList:BG10852" /db_xref="UniProtKB/Swiss-Prot:P39804" /translation="MENQEVVLSIDAIQEPEQIKFNMSLKNQSERAIEFQFSTGQKFE LVVYDSEHKERYRYSKEKMFTQAFQNLTLESGETYDFSDVWKEVPEPGTYEVKVTFKG RAENLKQVQAVQQFEVK*" gene 1189646..1190005 /gene="ipi" /locus_tag="BSU_11130" /old_locus_tag="BSU11130" downshifts 1189994 /Source="Nicolas_upshifts" /id="D605" /incds=0 /nref=34 /ntot=224 /MaxReadThrough="1.36729" /MaxDrop="5.6855" /score="43.7575824" /energy="-15.6" /TU="NA" /idTUdmin="U893" /TUdmin="-1" /isTUend="TRUE" CDS complement(1190036..1190233) /gene="yizC" /locus_tag="BSU_11139" /old_locus_tag="BSU11139" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein; genus orphan" /protein_id="YP_003097702.1" /db_xref="EnsemblGenomes-Gn:BSU11139" /db_xref="EnsemblGenomes-Tr:CAX52590" /db_xref="InterPro:IPR024217" /db_xref="UniProtKB/Swiss-Prot:C0H3Y5" /translation="MRNELFQQAKSFVQQAVMVTNGFEEGDQEQAILRAKNAVSSAYA NSTDAERQQLHQFQNQLDKLQ*" gene complement(1190036..1190233) /gene="yizC" /locus_tag="BSU_11139" /old_locus_tag="BSU11139" downshifts complement(1190049) /Source="Nicolas_upshifts" /id="D606" /incds=0 /nref=150 /ntot=257 /MaxReadThrough="1.42333" /MaxDrop="8.284" /score="2.35557074" /energy="-17.3" /TU="NA" /idTUdmin="U895" /TUdmin=0 /isTUend="TRUE" S_feature complement(1190234..1190430) /Source="Nicolas_S_feature" /locus_tag="new_1190234_1190430_c" /HighExp="S8, S6, S5, S7, nit, ferm, BT, G/S, Pyr, S4" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.99834599999999996" /TUshortSig="SigGF, SigA" /TUshortPSig="1, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S397" upshifts complement(1190430) /Source="Nicolas_upshifts" /id="U895" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=848 /SigmaFactorBS="aagaaggtccgtattaatttttcccaCTCATAAaccttactt tacccCACCATACTATTgaagacgactcatctcgtcaaagtatggaagggggcagtct c" /listShort="S397, yizC" /GFF_Attribute="listLong" promotor_-10 complement(1190432..1190443) /Source="Nicolas_upshift_promotors" /id="U895" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=848 /SigmaFactorBS="aagaaggtccgtattaatttttcccaCTCATAAaccttactt tacccCACCATACTATTgaagacgactcatctcgtcaaagtatggaagggggcagtct c" /listShort="S397, yizC" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(1190458..1190464) /Source="Nicolas_upshift_promotors" /id="U895" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=848 /SigmaFactorBS="aagaaggtccgtattaatttttcccaCTCATAAaccttactt tacccCACCATACTATTgaagacgactcatctcgtcaaagtatggaagggggcagtct c" /listShort="S397, yizC" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1190490..1191302) /gene="ribZC" /locus_tag="BSU_11140" /old_locus_tag="BSU11140" /function="4.9: Riboflavin, FMN, and FAD" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1b: Function from experimental evidences in the studied species; PubMedId: 25012491, 26316208; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="5-amino-6-ribitylamino-2,4(1H, 3H)-pyrimidinedione 5'-phosphate phosphatase (promiscuous)" /protein_id="NP_388995.1" /db_xref="EnsemblGenomes-Gn:BSU11140" /db_xref="EnsemblGenomes-Tr:CAB12954" /db_xref="GOA:P70947" /db_xref="InterPro:IPR000150" /db_xref="InterPro:IPR006379" /db_xref="InterPro:IPR023214" /db_xref="InterPro:IPR036412" /db_xref="SubtiList:BG12245" /db_xref="UniProtKB/Swiss-Prot:P70947" /translation="METKPYLIALDLDGTLLKDDKTISENTLHTIQRLKDDGHYVCIS TGRPYRSSSMYYQQMELTTPIVNFNGAFVHHPQDDSWGRYHTSLPLDVVKQLVDISES YNVHNVLAEVIDDVYFHYHDEHLIDAFNMNTTNVTVGDLRENLGEDVTSVLIHAKEED VPAIRSYLSDVHAEVIDHRRWAAPWHVIEIIKSGMNKAVGLQKISDYYGVPRERIIAF GDEDNDLEMLEFAGCGVAMGNGIDAVKQIANRTTATNEEDGVARFLKEYFSL*" gene complement(1190490..1191302) /gene="ribZC" /locus_tag="BSU_11140" /old_locus_tag="BSU11140" promotor_-10 complement(1191340..1191359) /Source="Nicolas_upshift_promotors" /id="U896" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.483516483516484" /psig=1 /xcortree=2075 /SigmaFactorBS="tgtgcccctccttaggataaccataatcataagtgtaacaTG TAGACAataaagatggtaaAAAGCTACACTGTAAGTAAGgcaaaacaagcaaaatcta a" /listShort="yitU, S397, yizC" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 1191360..1191367 /Source="Nicolas_upshift_promotors" /id="U897" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.98001998001998" /psig=1 /xcortree=1854 /SigmaFactorBS="tagattttgcttgttttgccttacttacagtgtagctttTTA CCATCtttattgtctaCATGTTACACTTATGATTATggttatcctaaggaggggcaca t" /listShort="yitV, yitW, S398, yitY, yitZ" /GFF_Attribute="listLong" /label="promotor_-35" upshifts complement(1191360) /Source="Nicolas_upshifts" /id="U896" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.483516483516484" /psig=1 /xcortree=2075 /SigmaFactorBS="tgtgcccctccttaggataaccataatcataagtgtaacaTG TAGACAataaagatggtaaAAAGCTACACTGTAAGTAAGgcaaaacaagcaaaatcta a" /listShort="yitU, S397, yizC" /GFF_Attribute="listLong" promotor_-35 complement(1191373..1191380) /Source="Nicolas_upshift_promotors" /id="U896" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.483516483516484" /psig=1 /xcortree=2075 /SigmaFactorBS="tgtgcccctccttaggataaccataatcataagtgtaacaTG TAGACAataaagatggtaaAAAGCTACACTGTAAGTAAGgcaaaacaagcaaaatcta a" /listShort="yitU, S397, yizC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1191379..1191398 /Source="Nicolas_upshift_promotors" /id="U897" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.98001998001998" /psig=1 /xcortree=1854 /SigmaFactorBS="tagattttgcttgttttgccttacttacagtgtagctttTTA CCATCtttattgtctaCATGTTACACTTATGATTATggttatcctaaggaggggcaca t" /listShort="yitV, yitW, S398, yitY, yitZ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1191381 /Source="Nicolas_upshifts" /id="U897" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.98001998001998" /psig=1 /xcortree=1854 /SigmaFactorBS="tagattttgcttgttttgccttacttacagtgtagctttTTA CCATCtttattgtctaCATGTTACACTTATGATTATggttatcctaaggaggggcaca t" /listShort="yitV, yitW, S398, yitY, yitZ" /GFF_Attribute="listLong" CDS 1191423..1192190 /gene="yitV" /locus_tag="BSU_11150" /old_locus_tag="BSU11150" /EC_number="3.1.-.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 28293230; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative carboxylesterase" /protein_id="NP_388996.1" /db_xref="EnsemblGenomes-Gn:BSU11150" /db_xref="EnsemblGenomes-Tr:CAB12955" /db_xref="GOA:P70948" /db_xref="InterPro:IPR001375" /db_xref="InterPro:IPR029058" /db_xref="SubtiList:BG12246" /db_xref="UniProtKB/Swiss-Prot:P70948" /translation="MIQIENQTVSGIPFLHIVKEENRHRAVPLVIFIHGFTSAKEHNL HIAYLLAEKGFRAVLPEALHHGERGEEMAVEELAGHFWDIVLNEIEEIGVLKNHFEKE GLIDGGRIGLAGTSMGGITTLGALTAYDWIKAGVSLMGSPNYVELFQQQIDHIQSQGI EIDVPEEKVQQLMKRLELRDLSLQPEKLQQRPLLFWHGAKDKVVPYAPTRKFYDTIKS HYSEQPERLQFIGDENADHKVPRAAVLKTIEWFETYL*" gene 1191423..1192190 /gene="yitV" /locus_tag="BSU_11150" /old_locus_tag="BSU11150" promotor_-35 1192199..1192205 /Source="Nicolas_upshift_promotors" /id="U898" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.723276723276723" /psig=1 /xcortree=2071 /SigmaFactorBS="aaacgattgaatggtttgaaacgtacttataaagcactaaGT TATTAacaagagctgaattTACGTTATACTGTAGAAAAAaggagtgagggaacgtgga a" /listShort="yitW, S398, yitY, yitZ" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1192219 /Source="Nicolas_upshifts" /id="U898" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.723276723276723" /psig=1 /xcortree=2071 /SigmaFactorBS="aaacgattgaatggtttgaaacgtacttataaagcactaaGT TATTAacaagagctgaattTACGTTATACTGTAGAAAAAaggagtgagggaacgtgga a" /listShort="yitW, S398, yitY, yitZ" /GFF_Attribute="listLong" promotor_-10 1192220..1192239 /Source="Nicolas_upshift_promotors" /id="U898" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.723276723276723" /psig=1 /xcortree=2071 /SigmaFactorBS="aaacgattgaatggtttgaaacgtacttataaagcactaaGT TATTAacaagagctgaattTACGTTATACTGTAGAAAAAaggagtgagggaacgtgga a" /listShort="yitW, S398, yitY, yitZ" /GFF_Attribute="listLong" /label="promotor_-10" CDS 1192254..1192562 /gene="yitW" /locus_tag="BSU_11160" /old_locus_tag="BSU11160" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 9209063; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative protein involved in Fe-S cluster assembly, PaaD-like" /protein_id="NP_388997.1" /db_xref="EnsemblGenomes-Gn:BSU11160" /db_xref="EnsemblGenomes-Tr:CAB12956" /db_xref="InterPro:IPR002744" /db_xref="InterPro:IPR034904" /db_xref="SubtiList:BG12247" /db_xref="UniProtKB/Swiss-Prot:P70949" /translation="MEEALKENIMGALEQVVDPELGVDIVNLGLVYDVDMDEDGLTHI TMTLTSMGCPLAPIIVDEVKKALADLPEVKDTEVHIVWNPPWTRDKMSRYAKIALGIQ *" gene 1192254..1192562 /gene="yitW" /locus_tag="BSU_11160" /old_locus_tag="BSU11160" downshifts 1192547 /Source="Nicolas_upshifts" /id="D607" /incds=0 /nref=3 /ntot=55 /MaxReadThrough="5.65659" /MaxDrop="4.5598" /score="14.9971829" /energy="-14.7" /TU="U897,U898" /idTUdmin="U897" /TUdmin="-2244" /isTUend="FALSE" S_feature 1192592..1192857 /Source="Nicolas_S_feature" /locus_tag="new_1192592_1192857" /HighExp="Etha, dia15, dia5, H2O2, LoTm, Salt, S6, Diami, S8, HiOs" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba=1 /TUshortSig="SigA, SigA" /TUshortPSig="1, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S398" CDS 1192858..1194288 /gene="yitY" /locus_tag="BSU_11170" /old_locus_tag="BSU11170" /EC_number="1.-.-.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12682299, 16956367; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative FMN/FAD-binding oxidoreductase" /protein_id="NP_388999.3" /db_xref="EnsemblGenomes-Gn:BSU11170" /db_xref="EnsemblGenomes-Tr:CAB12958" /db_xref="GOA:Q796P5" /db_xref="InterPro:IPR006094" /db_xref="InterPro:IPR016164" /db_xref="InterPro:IPR016166" /db_xref="InterPro:IPR016167" /db_xref="InterPro:IPR016169" /db_xref="InterPro:IPR036318" /db_xref="SubtiList:BG12249" /db_xref="UniProtKB/Swiss-Prot:Q796P5" /translation="MKKKLLAFALCTGAYAALFAYSVNSEQKTATSEMTDVSRLMPVK IKQTVKGQEEEMLIDTVKEANRKNIKISIAGAQHSMGGHTYYEDGIVLDMTGYNKILS LDQEKKTIRVQSGATWNDIQKYVNPYGLAVKVMQSQNIFTIGGSLSANAHGRDIRYGS LIDTVKSFRLLKADGMIITVTPKDDLFTAVIGGYGLFGVILDVTLELTDDELYVMKTE KMNYSTYSDYFSKHVKGNPDVRMHLARISTAKKGFLKDMYVTNYVLANHQDQLSSYSE LKEDEYTGATKFALGLSRRYEWGRNWLWDTQQSYFLSQNGTEISRNNVMRSESKFLEY ENNDNTDVLQEYFVPVKEYGSYIDDLRQTLSDEDLNLLNITIRYVQKNEKADLSYAKD DMFSLVLLINEGFSKEDQADTARIIRRMTDVAIKHGGSYYLPYMTYQTKAQMRQAYPK SEAFFQKKRTYDPDERFMNYFYQRYK*" gene 1192858..1194288 /gene="yitY" /locus_tag="BSU_11170" /old_locus_tag="BSU11170" CDS 1194333..1194827 /gene="yitZ" /locus_tag="BSU_11180" /old_locus_tag="BSU11180" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative transport protein" /protein_id="NP_389000.1" /db_xref="EnsemblGenomes-Gn:BSU11180" /db_xref="EnsemblGenomes-Tr:CAB12959" /db_xref="GOA:P70952" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG12250" /db_xref="UniProtKB/Swiss-Prot:P70952" /translation="MFFASSLIFPFYILFVKNIGSSYTQFGFSYGLFGLSGALIYPLL GRLSERFDSRYFLLLNSWGMAVLLLYVPHIGSVVQVYIVQVLLGLFGAMQKHGEKVLI ANFTDSGERGKKIGNYHFWTAVFSAAAIMLGGFLADFFTVQMIFYASSILYFLSGLMM MKTG*" gene 1194333..1194827 /gene="yitZ" /locus_tag="BSU_11180" /old_locus_tag="BSU11180" downshifts 1194791 /Source="Nicolas_upshifts" /id="D608" /incds=0 /nref=49 /ntot=208 /MaxReadThrough="1.74762" /MaxDrop="4.22077" /score="34.1294744" /energy="-13.2" /TU="NA" /idTUdmin="U897" /TUdmin=0 /isTUend="TRUE" promotor_-35 1194965..1194972 /Source="Nicolas_upshift_promotors" /id="U899" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.861138861138861" /psig="0.999000999001" /xcortree=2913 /SigmaFactorBS="gcggaattcccattgaacagaaaatttataaatgaataaaaa tattaaatatacGATTGAATtaatttttattcaTGTTATAATGTTAAATAATTtcaca a" /listShort="argC, argJ, argB, argD, carA, carB, argF, yjzC" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1194971 /Source="Nicolas_upshifts" /id="U899" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.861138861138861" /psig="0.999000999001" /xcortree=2913 /SigmaFactorBS="gcggaattcccattgaacagaaaatttataaatgaataaaaa tattaaatatacGATTGAATtaatttttattcaTGTTATAATGTTAAATAATTtcaca a" /listShort="argC, argJ, argB, argD, carA, carB, argF, yjzC" /GFF_Attribute="listLong" promotor_-10 1194986..1195005 /Source="Nicolas_upshift_promotors" /id="U899" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.861138861138861" /psig="0.999000999001" /xcortree=2913 /SigmaFactorBS="gcggaattcccattgaacagaaaatttataaatgaataaaaa tattaaatatacGATTGAATtaatttttattcaTGTTATAATGTTAAATAATTtcaca a" /listShort="argC, argJ, argB, argD, carA, carB, argF, yjzC" /GFF_Attribute="listLong" /label="promotor_-10" CDS 1195034..1196071 /gene="argC" /locus_tag="BSU_11190" /old_locus_tag="BSU11190" /EC_number="1.2.1.38" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:2117746, 3005232, 3106155, 6096674, 6096675, 8025667, 18455186" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 2117746, 3005232, 3106155, 6096674, 6096675, 8025667, 18455186; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="N-acetylglutamate gamma-semialdehyde dehydrogenase" /protein_id="NP_389001.2" /db_xref="EnsemblGenomes-Gn:BSU11190" /db_xref="EnsemblGenomes-Tr:CAB12960" /db_xref="GOA:P23715" /db_xref="InterPro:IPR000534" /db_xref="InterPro:IPR000706" /db_xref="InterPro:IPR012280" /db_xref="InterPro:IPR023013" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG10191" /db_xref="UniProtKB/Swiss-Prot:P23715" /translation="MKIGIVGATGYGGTELVRILSHHPHAEECILYSSSGEGNVYSEG YPHLTGLADQQLKPIDMNTIKHEIDIMFLAAPPGVSSELTPKLADAGITVIDLSGDLR IKEPAEYEKWYKRTAAPKAVIQEAVYGLAELNQLQIQQAKLIANPGCFPTAVLLGLAP LAQKKLLDESFVIVDAKTGVSGAGRKASMGTHFSELNDNFKIYKVNEHQHTPEIEQAL NEWQPGLGPITFSAHLVPMTRGIMATMYTRLTCDLTADDLHDLYSEFYQDSYFVRVRP KGQYPQTKEVYGSNFCDIAVTLDERTNRVTIVSVIDNLMKGAAGQAVQNFNLMNGWNE ETGLTITPIYP*" gene 1195034..1196071 /gene="argC" /locus_tag="BSU_11190" /old_locus_tag="BSU11190" CDS 1196091..1197311 /gene="argJ" /locus_tag="BSU_11200" /old_locus_tag="BSU11200" /EC_number="2.3.1.1" /EC_number="2.3.1.35" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:8025667, 10931207, 16409639, 24163341" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8025667, 10931207, 16409639, 24163341; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="ornithine acetyltransferase; amino-acid acetyltransferase" /protein_id="NP_389002.2" /db_xref="EnsemblGenomes-Gn:BSU11200" /db_xref="EnsemblGenomes-Tr:CAB12961" /db_xref="GOA:P36843" /db_xref="InterPro:IPR002813" /db_xref="InterPro:IPR016117" /db_xref="SubtiList:BG10192" /db_xref="UniProtKB/Swiss-Prot:P36843" /translation="MIQLSEDQIVKVTGDVSSPKGFQAKGVHCGLRYSKKDLGVIISE TPAVSAAVYTQSHFQAAPIKVTQDSLKHGPTLKAVIVNSAIANACTGEQGLKDAYTMR ESFASQLGIEPELVAVSSTGVIGEHLDMEKIHAGIELLKETPAGSGDFEEAILTTDTV IKQTCYELAIGGKTVTIGGAAKGSGMIHPNMATMLGFVTTDAAIEEKALQKALREITD VSFNQITVDGETSTNDMVLVMANGCAENECLTEDHPDWPVFKKALLLTCEDLAKEIAR DGEGATKLIEAQVQGAKNNLDANVIAKKIVGSNLVKTAVYGTDANWGRIIGAIGHSAA QVTAEEVEVYLGGQCLFKNNEPQPFSESIAKEYLEGDEITIVIKMAEGDGNGRAWGCD LTYDYIKINASYRT*" gene 1196091..1197311 /gene="argJ" /locus_tag="BSU_11200" /old_locus_tag="BSU11200" CDS 1197326..1198102 /gene="argB" /locus_tag="BSU_11210" /old_locus_tag="BSU11210" /EC_number="2.7.2.8" /experiment="publication(s) with functional evidences, PMID:3005232, 8473852" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 3005232, 8473852; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="N-acetylglutamate 5-phosphotransferase (acetylglutamate kinase)" /protein_id="NP_389003.1" /db_xref="EnsemblGenomes-Gn:BSU11210" /db_xref="EnsemblGenomes-Tr:CAB12962" /db_xref="GOA:P68729" /db_xref="InterPro:IPR001048" /db_xref="InterPro:IPR001057" /db_xref="InterPro:IPR004662" /db_xref="InterPro:IPR036393" /db_xref="SubtiList:BG10193" /db_xref="UniProtKB/Swiss-Prot:P68729" /translation="MKKTIVFKCGGSVIRELSEEFYQNLKELRASGWKLAIVHGGGPE ITNMLKRLNIKTEFSGGQRKTTKPVLEVAEMVLSGSVNKFFVAELAKHGLRAAGISGK DGGLLEADYLDPETYGEVGEIKKVDASMVNALMENGIIPVIAPLSMTSDCKTLNVNAD LAASAVAGALEADKLMFVTDVDGIMKEKQRLDVLTPKEIQMLIKQEVITGGMIPKVNS ALSALSDQVSEVMIVNGKGSFFAEQTFQGTKIVKAKEAVS*" gene 1197326..1198102 /gene="argB" /locus_tag="BSU_11210" /old_locus_tag="BSU11210" CDS 1198099..1199256 /gene="argD" /locus_tag="BSU_11220" /old_locus_tag="BSU11220" /EC_number="2.6.1.11" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 17012789; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="N-acetylornithine aminotransferase" /protein_id="NP_389004.2" /db_xref="EnsemblGenomes-Gn:BSU11220" /db_xref="EnsemblGenomes-Tr:CAB12963" /db_xref="GOA:P36839" /db_xref="InterPro:IPR004636" /db_xref="InterPro:IPR005814" /db_xref="InterPro:IPR015421" /db_xref="InterPro:IPR015422" /db_xref="InterPro:IPR015424" /db_xref="SubtiList:BG10194" /db_xref="UniProtKB/Swiss-Prot:P36839" /translation="MSSLFQTYGRWDIDIKKAKGTYVEDQNGKTYLDFIQGIAVSNLG HCHEAVTEAVKKQLDSVWHVSNLFQNSLQEQAAQKLAAHSAGDLVFFCNSGAEANEGA IKLARKATGKTKIITFLQSFHGRTYAGMAATGQDKIKTGFGPMLGGFHYLPYNDPSAF KALGEEGDIAAVMLETVQGEGGVNPASAEFLSAVQSFCKEKQALLIIDEIQTGIGRTG KGFAYEHFGLSPDIITVAKGLGNGFPVGAVIGKKQLGEAFTPGSHGTTFGGNMLAMAA VNATLQIVFQPDFLQEAADKGAFLKEQLEAELKSPFVKQIRGKGLMLGIECDGPVADI IAELQTLGLLVLPAGPNVIRLLPPLTVTKDEIAEAVSKLKQAIAHHSAVNQ*" gene 1198099..1199256 /gene="argD" /locus_tag="BSU_11220" /old_locus_tag="BSU11220" CDS 1199327..1200388 /gene="carA" /locus_tag="BSU_11230" /old_locus_tag="BSU11230" /EC_number="6.3.5.5" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:216664, 230177, 1116335" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 216664, 230177, 1116335; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="arginine-specific carbamoyl-phosphate synthetase(small subunit)" /protein_id="NP_389005.2" /db_xref="EnsemblGenomes-Gn:BSU11230" /db_xref="EnsemblGenomes-Tr:CAB12964" /db_xref="GOA:P36838" /db_xref="InterPro:IPR002474" /db_xref="InterPro:IPR006274" /db_xref="InterPro:IPR017926" /db_xref="InterPro:IPR029062" /db_xref="InterPro:IPR035686" /db_xref="InterPro:IPR036480" /db_xref="SubtiList:BG10195" /db_xref="UniProtKB/Swiss-Prot:P36838" /translation="MEGYLVLEDGTSFSGELDGHENCTGEAVFFTGMTGYQEVLTDPS YKGQIIVFTYPLIGNYGINEKDFESKKPQVKAAVVYEACDHFSHYEAVYSLKEYLQKW NIPLLTHVDTRAVVKKIRANGTMGATVTASKEGAEIALQPENVAEQASAQEISTFGDG NKHIALIDFGYKKSIASSLVKRGCKVTVVPYQQMEAVYNIKPDGIVLSNGPGDPKAIQ PYLGKIKSIISRFPTLGICLGHQLIALAFGGNTFKLPFGHRGANHPVIDRKTKRVFMT SQNHSYVVDEQSINEEELTIRFHHVNDTSVEGLAHKKLPVMSVQFHPEAHPGPAESEW IFDDYLKNVIPARREIAHA*" gene 1199327..1200388 /gene="carA" /locus_tag="BSU_11230" /old_locus_tag="BSU11230" misc_feature complement(1200222..1200241) /Source="Nicolas_upshift_promotors" /id="U900" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.869130869130869" /psig="0.949050949050949" /xcortree=2066 /SigmaFactorBS="gtggaattgaacactcatgacaggcagttttttatgggcaag cccttcaacTGACGTATCATTGACATGATgaaacctgatggtgagctcttcttcatta a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(1200232) /Source="Nicolas_upshifts" /id="U900" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.869130869130869" /psig="0.949050949050949" /xcortree=2066 /SigmaFactorBS="gtggaattgaacactcatgacaggcagttttttatgggcaag cccttcaacTGACGTATCATTGACATGATgaaacctgatggtgagctcttcttcatta a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS 1200381..1203473 /gene="carB" /locus_tag="BSU_11240" /old_locus_tag="BSU11240" /EC_number="6.3.5.5" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:216664, 1116335" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 216664, 1116335; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="arginine-specific carbamoyl-phosphate synthetase(large subunit)" /protein_id="NP_389006.3" /db_xref="EnsemblGenomes-Gn:BSU11240" /db_xref="EnsemblGenomes-Tr:CAB12965" /db_xref="GOA:P18185" /db_xref="InterPro:IPR005479" /db_xref="InterPro:IPR005480" /db_xref="InterPro:IPR005483" /db_xref="InterPro:IPR006275" /db_xref="InterPro:IPR011761" /db_xref="InterPro:IPR013815" /db_xref="InterPro:IPR016185" /db_xref="InterPro:IPR036897" /db_xref="SubtiList:BG10196" /db_xref="UniProtKB/Swiss-Prot:P18185" /translation="MPKDTSISSILVIGSGPIIIGQAAEFDYSGTQGCIALKEEGYRV ILVNSNPATIMTDEAFADEIYFEPLTAESLTAIIKKERPDGLLANLGGQTALNLAVEL EETGVLKEHGVKLLGTSVETIQKGEDREKFRSLMNELKQPVPESEIVDNEADALHFAE SIGFPVIIRPAYTLGGKGGGIAPDKEAFTAMIKQALLASPINQCLVEKSIAGFKEIEY EVMRDSNNTCITVCNMENIDPVGVHTGDSIVVAPSQTLTDEDYQMLRTASLTIISALD VVGGCNIQFALDPFSKQYYVIEVNPRVSRSSALASKATGYPIAKMAAKLAVGYTLDEL KNPLTGSTYASFEPALDYVIVKFPRWPFDKFKNADRKLGTKMKATGEVMAIERNLEAA IQKAAASLELKNIGTHLPELSGLSIDTLWDLAITPDDRRFFVVMELLSRSVSIDDIHE KTKIDPFFLHTFDNIIKLENRLMEAGSDLSFELLKKAKEKGFSDATIASLISKTEEEV RALRKEMGITPSFKIVDTCAAEFDAKTNYFYSTYFGETDGDISRKEKKRALIIGSGPI RIGQGVEFDYSAVHGVLTLQELGFETIMINNNPETVSTDYEIADRLYFEPMTTEHIVN VAEQENIDFAIVQFGGQTAINAAEALEKAGITLLGTSFQTLDVLEDRDQFYQLLDELG LKHAKGEIAYTKEEAASKASEIGYPVLIRPSYVIGGMGMIIVDSQAQLSQLLNDEDSM PYPILIDQYVSGKEVEIDLISDGEEVFIPTYTEHIERAGVHSGDSFAILPGPSITSGL QQGMKDAAQKIARKLSFKGIMNIQFVIDNGNILVLEVNPRASRTVPVVSKVMGVPMIP LATRLLAGASLKDLNPAVQNHHGVAVKFPVFSSHAIQDVDVKLGPEMKSTGEGMCVAY DSNSALKKIYTRVWSQKGSIYLQNVPEDVKELAENAGFTIHEGTFASWMEQEGNSLHI NLSGSEEARKERLEAMTHGIPVFTEEETVRAFLQSGSGHPQPVSLKDLYKKEVASCTQ *" gene 1200381..1203473 /gene="carB" /locus_tag="BSU_11240" /old_locus_tag="BSU11240" CDS 1203461..1204420 /gene="argF" /locus_tag="BSU_11250" /old_locus_tag="BSU11250" /EC_number="2.1.3.3" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:3099126, 6409881, 8025667, 9346304, 16585758, 26443366" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 3099126, 6409881, 8025667, 9346304, 16585758, 26443366; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="ornithine carbamoyltransferase" /protein_id="NP_389007.1" /db_xref="EnsemblGenomes-Gn:BSU11250" /db_xref="EnsemblGenomes-Tr:CAB12966" /db_xref="GOA:P18186" /db_xref="InterPro:IPR002292" /db_xref="InterPro:IPR006130" /db_xref="InterPro:IPR006131" /db_xref="InterPro:IPR006132" /db_xref="InterPro:IPR024904" /db_xref="InterPro:IPR036901" /db_xref="SubtiList:BG10197" /db_xref="UniProtKB/Swiss-Prot:P18186" /translation="MHTVTQTSLYGKDLLTLKDLSEEDINALLAEAGELKQNKIQPIF HGKTLAMIFEKSSTRTRVSFEAGMAQLGGSALFLSQKDLQLGRGETVADTAKVLSGYV DAIMIRTFEHEKVEELAKEADIPVINGLTDKYHPCQALADLLTIKEIKGKLKGVKVAY IGDGNNVAHSLMIGCAKMGCDISIASPKGYEVLDEAAEAAKTYALQSGSSVTLTDDPI EAVKDADVIYSDVFTSMGQEAEEQERLAVFAPYQVNAALVSHAKPDYTFLHCLPAHRE EEVTAEIIDGPNSAVFQQAENRLHVQKALLKAILYKGESSKNC*" gene 1203461..1204420 /gene="argF" /locus_tag="BSU_11250" /old_locus_tag="BSU11250" downshifts 1204383 /Source="Nicolas_upshifts" /id="D609" /incds=0 /nref=141 /ntot=268 /MaxReadThrough="4.29547" /MaxDrop="7.69347" /score="22.2660758" /energy="-11.1" /TU="U899" /idTUdmin="U899" /TUdmin="-305" /isTUend="FALSE" S_feature complement(1204423..1204697) /Source="Nicolas_S_feature" /locus_tag="new_1204423_1204697_c" /HighExp="G135, G180, Cold, LBGexp, G150, B60, LoTm, Paraq, Oxctl, H2O2" /AntisenseName="yjzC" /AntisenseCor="-0.37122740772860502" /AntisenseRegPval="-9.5" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S399" promotor_-35 1204448..1204454 /Source="Nicolas_upshift_promotors" /id="U901" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=943 /SigmaFactorBS="agcagtttttttgatggcAACATATtcacagccgcttagGCG CATACTACAgcaaaaaggaaaaggaggaaaaacagtgggacagcagcaccaattccgg c" /listShort="yjzC" /GFF_Attribute="listLong" /label="promotor_-35" downshifts complement(1204456) /Source="Nicolas_upshifts" /id="D610" /incds=0 /nref=33 /ntot=166 /MaxReadThrough="1.19008" /MaxDrop="5.22155" /score="16.2777759" /energy="-11.2" /TU="NA" /idTUdmin="U902" /TUdmin=0 /isTUend="TRUE" promotor_-10 1204469..1204480 /Source="Nicolas_upshift_promotors" /id="U901" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=943 /SigmaFactorBS="agcagtttttttgatggcAACATATtcacagccgcttagGCG CATACTACAgcaaaaaggaaaaggaggaaaaacagtgggacagcagcaccaattccgg c" /listShort="yjzC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1204490 /Source="Nicolas_upshifts" /id="U901" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=943 /SigmaFactorBS="agcagtttttttgatggcAACATATtcacagccgcttagGCG CATACTACAgcaaaaaggaaaaggaggaaaaacagtgggacagcagcaccaattccgg c" /listShort="yjzC" /GFF_Attribute="listLong" CDS 1204506..1204685 /gene="yjzC" /locus_tag="BSU_11260" /old_locus_tag="BSU11260" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 25859258" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_389008.1" /db_xref="EnsemblGenomes-Gn:BSU11260" /db_xref="EnsemblGenomes-Tr:CAB12967" /db_xref="InterPro:IPR025549" /db_xref="SubtiList:BG13223" /db_xref="UniProtKB/Swiss-Prot:O34585" /translation="MGQQHQFRPGQKAPNNGVYVEIGETGSMVKNPQKVHLSAGEMFP ETSNHNRLWTYKRKP*" gene 1204506..1204685 /gene="yjzC" /locus_tag="BSU_11260" /old_locus_tag="BSU11260" downshifts 1204695 /Source="Nicolas_upshifts" /id="D611" /incds=0 /nref=19 /ntot=53 /MaxReadThrough="0.25116" /MaxDrop="5.67653" /score="4.8153862" /energy="-10.9" /TU="NA" /idTUdmin="U899" /TUdmin=7 /isTUend="TRUE" CDS complement(1204731..1204916) /gene="yjzD" /locus_tag="BSU_11270" /old_locus_tag="BSU11270" /function="16.13: Shape" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:19775244" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 19775244; Product type f: factor" /codon_start=1 /transl_table=11 /product="forespore targeted protein" /protein_id="NP_389009.1" /db_xref="EnsemblGenomes-Gn:BSU11270" /db_xref="EnsemblGenomes-Tr:CAB12968" /db_xref="GOA:O34713" /db_xref="InterPro:IPR021324" /db_xref="SubtiList:BG13224" /db_xref="UniProtKB/Swiss-Prot:O34713" /translation="MRYIIAFIWTFLLSHMACYLVASMNSVTYNFKTSSVIAVVLYVL IMVLAEIMPMNKNASQH*" gene complement(1204731..1204916) /gene="yjzD" /locus_tag="BSU_11270" /old_locus_tag="BSU11270" downshifts complement(1204742) /Source="Nicolas_upshifts" /id="D612" /incds=0 /nref=215 /ntot=261 /MaxReadThrough="3.91391" /MaxDrop="6.26103" /score="9.62656276" /energy="-10.9" /TU="U902" /idTUdmin="U902" /TUdmin="-286" /isTUend="FALSE" promotor_-10 complement(1204945..1204964) /Source="Nicolas_upshift_promotors" /id="U902" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.94005994005994" /psig=1 /xcortree=3093 /SigmaFactorBS="atcagactcttttgtcacctcactttctgctaaaattggaTT CCCCCTtcgctttttgTATGGTATGATAACTTTTAGaatagaatgagaaggacgaggt g" /listShort="yjzD, S399" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1204962) /Source="Nicolas_upshifts" /id="U902" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.94005994005994" /psig=1 /xcortree=3093 /SigmaFactorBS="atcagactcttttgtcacctcactttctgctaaaattggaTT CCCCCTtcgctttttgTATGGTATGATAACTTTTAGaatagaatgagaaggacgaggt g" /listShort="yjzD, S399" /GFF_Attribute="listLong" promotor_-35 complement(1204975..1204982) /Source="Nicolas_upshift_promotors" /id="U902" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.94005994005994" /psig=1 /xcortree=3093 /SigmaFactorBS="atcagactcttttgtcacctcactttctgctaaaattggaTT CCCCCTtcgctttttgTATGGTATGATAACTTTTAGaatagaatgagaaggacgaggt g" /listShort="yjzD, S399" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1205017..1205023 /Source="Nicolas_upshift_promotors" /id="U903" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.972027972027972" /psig=1 /xcortree=3055 /SigmaFactorBS="gaatccaattttagcagaaagtgaggtgacaaaagagTCTGA TTcgtcacactttAATGGTAAAATATAAAACGTcaatcagtataatagccaaaaatgt a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1205035..1205054 /Source="Nicolas_upshift_promotors" /id="U903" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.972027972027972" /psig=1 /xcortree=3055 /SigmaFactorBS="gaatccaattttagcagaaagtgaggtgacaaaagagTCTGA TTcgtcacactttAATGGTAAAATATAAAACGTcaatcagtataatagccaaaaatgt a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1205040 /Source="Nicolas_upshifts" /id="U903" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.972027972027972" /psig=1 /xcortree=3055 /SigmaFactorBS="gaatccaattttagcagaaagtgaggtgacaaaagagTCTGA TTcgtcacactttAATGGTAAAATATAAAACGTcaatcagtataatagccaaaaatgt a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 1205097..1205106 /Source="Nicolas_upshift_promotors" /id="U904" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.956043956043956" /psig="0.956043956043956" /xcortree=1435 /SigmaFactorBS="ataaaacgtcaatcagtataatagccaaaaatgtaaaaggct aggactttaCCTTATTCGTttcttttctattTACATAAGATAGCGTGAGATgaagtgt g" /listShort="yjaU, yjaV, med" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1205106 /Source="Nicolas_upshifts" /id="U904" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.956043956043956" /psig="0.956043956043956" /xcortree=1435 /SigmaFactorBS="ataaaacgtcaatcagtataatagccaaaaatgtaaaaggct aggactttaCCTTATTCGTttcttttctattTACATAAGATAGCGTGAGATgaagtgt g" /listShort="yjaU, yjaV, med" /GFF_Attribute="listLong" promotor_-10 1205119..1205138 /Source="Nicolas_upshift_promotors" /id="U904" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.956043956043956" /psig="0.956043956043956" /xcortree=1435 /SigmaFactorBS="ataaaacgtcaatcagtataatagccaaaaatgtaaaaggct aggactttaCCTTATTCGTttcttttctattTACATAAGATAGCGTGAGATgaagtgt g" /listShort="yjaU, yjaV, med" /GFF_Attribute="listLong" /label="promotor_-10" CDS 1205165..1205899 /gene="yjaU" /locus_tag="BSU_11280" /old_locus_tag="BSU11280" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 18582593" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_389010.1" /db_xref="EnsemblGenomes-Gn:BSU11280" /db_xref="EnsemblGenomes-Tr:CAB12969" /db_xref="InterPro:IPR029058" /db_xref="SubtiList:BG13124" /db_xref="UniProtKB/Swiss-Prot:O35001" /translation="MGITERYFQLGTEHNVIHLPYRPNGFGIFILGDRTHFVGHDSSF WQQHYGRNQLLSMLMNEGYTLFNSNLFGRHWGAEKAVTYAKQLIHSVLKQEILNPKIH ILAEGMGALVADELLRFSPDHIRSAAMLNPCLDLQAHYESEKENKFFYKQFLKEVSKS YGISEKEAEAIRYKTIQSYPSGVPVHIWQRMTGAPYPYSVHAEVFKEKQQKQGSPVDM TFHLFEHPSRIYASICKFFHSHEKEL*" gene 1205165..1205899 /gene="yjaU" /locus_tag="BSU_11280" /old_locus_tag="BSU11280" S_feature complement(1205658..1206260) /Source="Nicolas_S_feature" /locus_tag="new_1205658_1206260_c" /HighExp="S8, S6, S7, C30, BT, S4, S5, Pyr, S3, C90" /AntisenseName="yjaV" /AntisenseCor="0.66207512383157796" /AntisenseRegPval="-34.6" /CDS_PredictionProba="NA" /TUshortSig="Sig-" /TUshortPSig="0.468" /TUlongSig="NA" /TUlongPSig="NA" /label="S400" promotor_-35 1205880..1205885 /Source="Nicolas_upshift_promotors" /id="U905" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1036 /SigmaFactorBS="atccaagcagaatttatgcatcaatttgcaaattctttcata GTCATGaaaaagaattatagaGAATATAATGACAACAGCCttctcttttgcggaggct g" /listShort="yjaV, med, comZ" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 1205898 /Source="Nicolas_upshifts" /id="D613" /incds=0 /nref=6 /ntot=47 /MaxReadThrough="5.56163" /MaxDrop="4.5381" /score="1.90624641" /energy="-10" /TU="U904,U905" /idTUdmin="U904" /TUdmin="-945" /isTUend="FALSE" upshifts 1205898 /Source="Nicolas_upshifts" /id="U905" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1036 /SigmaFactorBS="atccaagcagaatttatgcatcaatttgcaaattctttcata GTCATGaaaaagaattatagaGAATATAATGACAACAGCCttctcttttgcggaggct g" /listShort="yjaV, med, comZ" /GFF_Attribute="listLong" promotor_-10 1205901..1205919 /Source="Nicolas_upshift_promotors" /id="U905" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1036 /SigmaFactorBS="atccaagcagaatttatgcatcaatttgcaaattctttcata GTCATGaaaaagaattatagaGAATATAATGACAACAGCCttctcttttgcggaggct g" /listShort="yjaV, med, comZ" /GFF_Attribute="listLong" /label="promotor_-10" CDS 1205981..1206538 /gene="yjaV" /locus_tag="BSU_11290" /old_locus_tag="BSU11290" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 14523133; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative NAD(P) binding enzyme" /protein_id="NP_389011.2" /db_xref="EnsemblGenomes-Gn:BSU11290" /db_xref="EnsemblGenomes-Tr:CAB12970" /db_xref="SubtiList:BG13125" /db_xref="UniProtKB/Swiss-Prot:O34959" /translation="MESTLIVGADEFFGLSLCERMMDEGIHVDVVLAETEDKMRQMYL EERLMWLGRNELFRQLEHIGDQNYDTICIQFGSFLPLDQYDSPYILVYEEDRKEWDKR EKTGSEKTVILPKMYGPWKEETEEDGYYTNDVADELLRFLLEPSRHSKDQLFELQVTE KTSKEEAKTKIIEWKRQFSSIFDKY*" gene 1205981..1206538 /gene="yjaV" /locus_tag="BSU_11290" /old_locus_tag="BSU11290" promotor_-10 complement(1206240..1206259) /Source="Nicolas_upshift_promotors" /id="U906" /multdbtbs="-" /comp="M5" /sig="Sig-" /pcomp="0.467532467532468" /psig="0.467532467532468" /xcortree=771 /SigmaFactorBS="gcaggatcacggttttttccgagcctgttttttcacgtttat CCCATtcttttcggtcttcTTCATATACTAAAATATAAGgagaatcatattggtctaa a" /listShort="S400" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1206260) /Source="Nicolas_upshifts" /id="U906" /multdbtbs="-" /comp="M5" /sig="Sig-" /pcomp="0.467532467532468" /psig="0.467532467532468" /xcortree=771 /SigmaFactorBS="gcaggatcacggttttttccgagcctgttttttcacgtttat CCCATtcttttcggtcttcTTCATATACTAAAATATAAGgagaatcatattggtctaa a" /listShort="S400" /GFF_Attribute="listLong" promotor_-35 complement(1206274..1206278) /Source="Nicolas_upshift_promotors" /id="U906" /multdbtbs="-" /comp="M5" /sig="Sig-" /pcomp="0.467532467532468" /psig="0.467532467532468" /xcortree=771 /SigmaFactorBS="gcaggatcacggttttttccgagcctgttttttcacgtttat CCCATtcttttcggtcttcTTCATATACTAAAATATAAGgagaatcatattggtctaa a" /listShort="S400" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1206545..1206552 /Source="Nicolas_upshift_promotors" /id="U907" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.689310689310689" /psig=1 /xcortree=2121 /SigmaFactorBS="caattttcgacaaatattaagaaaaaCCTTCCATgtttcgag ttttctAGATACAATAAACGTATAAAaataatacatgttatagcttgtcaaaaggagt t" /listShort="med, comZ, S401" /listLong="fabHA, fabF" /label="promotor_-35" promotor_-10 1206567..1206586 /Source="Nicolas_upshift_promotors" /id="U907" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.689310689310689" /psig=1 /xcortree=2121 /SigmaFactorBS="caattttcgacaaatattaagaaaaaCCTTCCATgtttcgag ttttctAGATACAATAAACGTATAAAaataatacatgttatagcttgtcaaaaggagt t" /listShort="med, comZ, S401" /listLong="fabHA, fabF" /label="promotor_-10" upshifts 1206579 /Source="Nicolas_upshifts" /id="U907" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.689310689310689" /psig=1 /xcortree=2121 /SigmaFactorBS="caattttcgacaaatattaagaaaaaCCTTCCATgtttcgag ttttctAGATACAATAAACGTATAAAaataatacatgttatagcttgtcaaaaggagt t" /listShort="med, comZ, S401" /listLong="fabHA, fabF" CDS 1206629..1207582 /gene="med" /locus_tag="BSU_11300" /old_locus_tag="BSU11300" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:1203607, 21622736, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1203607, 21622736, 22720735; Product type lp: lipoprotein" /codon_start=1 /transl_table=11 /product="positive regulator of comK" /protein_id="NP_389012.2" /db_xref="EnsemblGenomes-Gn:BSU11300" /db_xref="EnsemblGenomes-Tr:CAB12971" /db_xref="GOA:O32436" /db_xref="InterPro:IPR003760" /db_xref="InterPro:IPR028082" /db_xref="SubtiList:BG13126" /db_xref="UniProtKB/Swiss-Prot:O32436" /translation="MITRLVMIFSVLLLLSGCGQTPFKGKIEKVGMLFPDTINDLVWG TKGYKGLLNIQSKYNVDVYYKEGVKTEEDIINAIEDFHKRGVNLLYGHGSEYAEVFNL VGEDYPDMEFVISNAKAKADNVTSVHFSGEAMGFFGGMTAAHMSKTNQVGVIASFTWQ PEVDGFIKGAKYENPDIEVNTKYTDHWDDDTTAVKLYQKMKNEGADVVYPAGDGYNVP VIQQIKKDGLYAIGYVTDQSDLGENTVLTSTVQNVDKAYEIIAEQFNKGTLEGGDHYY DLNTGVVEMGTFSPLVDQDFQQRIAKLIKTYNKTGELPKNE*" gene 1206629..1207582 /gene="med" /locus_tag="BSU_11300" /old_locus_tag="BSU11300" promotor_-35 1207246..1207250 /Source="Nicolas_upshift_promotors" /id="U908" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.924075924075924" /psig=1 /xcortree=1825 /SigmaFactorBS="tcagaaaatgaagaacgaaggcgcggaTGTTGtgtatcccgc cggagACGGGTATAATGTTCCTGTTattcagcaaatcaaaaaagacggtctttatgcc a" /listShort="comZ, S401" /listLong="fabHA, fabF" /label="promotor_-35" promotor_-10 1207266..1207285 /Source="Nicolas_upshift_promotors" /id="U908" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.924075924075924" /psig=1 /xcortree=1825 /SigmaFactorBS="tcagaaaatgaagaacgaaggcgcggaTGTTGtgtatcccgc cggagACGGGTATAATGTTCCTGTTattcagcaaatcaaaaaagacggtctttatgcc a" /listShort="comZ, S401" /listLong="fabHA, fabF" /label="promotor_-10" upshifts 1207279 /Source="Nicolas_upshifts" /id="U908" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.924075924075924" /psig=1 /xcortree=1825 /SigmaFactorBS="tcagaaaatgaagaacgaaggcgcggaTGTTGtgtatcccgc cggagACGGGTATAATGTTCCTGTTattcagcaaatcaaaaaagacggtctttatgcc a" /listShort="comZ, S401" /listLong="fabHA, fabF" CDS 1207597..1207788 /gene="comZ" /locus_tag="BSU_11310" /old_locus_tag="BSU11310" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 10940045; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative late competence gene" /protein_id="NP_389013.1" /db_xref="EnsemblGenomes-Gn:BSU11310" /db_xref="EnsemblGenomes-Tr:CAB12972" /db_xref="GOA:O32437" /db_xref="InterPro:IPR024558" /db_xref="SubtiList:BG13221" /db_xref="UniProtKB/Swiss-Prot:O32437" /translation="MQHEKSLEFLQIAMKYLPEAKEQLEKSGIELSMEAIQPFMNLFT TVMAEAYELGKSDAKSETE*" gene 1207597..1207788 /gene="comZ" /locus_tag="BSU_11310" /old_locus_tag="BSU11310" downshifts 1207767 /Source="Nicolas_upshifts" /id="D614" /incds=0 /nref=32 /ntot=192 /MaxReadThrough="4.56858" /MaxDrop="3.45953" /score="-7.49795364" /energy="-10.4" /TU="U907,U908" /idTUdmin="U905" /TUdmin=0 /isTUend="TRUE" S_feature 1207812..1208152 /Source="Nicolas_S_feature" /locus_tag="new_1207812_1208152" /HighExp="H2O2, C30, G135, Paraq, G180, G150, Oxctl, Cold, dia15, LPh" /AntisenseName="yjzB" /AntisenseCor="-0.34349942363230701" /AntisenseRegPval="-8.1" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="1, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S401" CDS complement(1207818..1208057) /gene="yjzB" /locus_tag="BSU_11320" /old_locus_tag="BSU11320" /experiment="publication(s) with functional evidences, PMID:16391061, 22171814, 27227299" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16391061, 22171814, 27227299; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="spore coat protein" /protein_id="NP_389014.1" /db_xref="EnsemblGenomes-Gn:BSU11320" /db_xref="EnsemblGenomes-Tr:CAB12973" /db_xref="SubtiList:BG13222" /db_xref="UniProtKB/Swiss-Prot:O34891" /translation="MQLDVFSRMMFGDAAKPTEEKEEEQQEEVSQVSQTNDEETINYM HIMDQIGSIMNSLDQIKPALKELAPMLSAIKKKIM*" gene complement(1207818..1208057) /gene="yjzB" /locus_tag="BSU_11320" /old_locus_tag="BSU11320" downshifts complement(1207834) /Source="Nicolas_upshifts" /id="D615" /incds=0 /nref=21 /ntot=48 /MaxReadThrough="1.43519" /MaxDrop="5.47891" /score="-7.75082002" /energy="-10.4" /TU="NA" /idTUdmin="U909" /TUdmin="-13" /isTUend="TRUE" promotor_-10 complement(1208070..1208089) /Source="Nicolas_upshift_promotors" /id="U909" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=1358 /SigmaFactorBS="ctaattctatcctattttttttcacatggcaatatattcGTC TAAACTAtcagttcatcttaCTCATAGAGTATGGTATATGgaaaggaggcgtatgcag t" /listShort="yjzB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1208091) /Source="Nicolas_upshifts" /id="U909" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=1358 /SigmaFactorBS="ctaattctatcctattttttttcacatggcaatatattcGTC TAAACTAtcagttcatcttaCTCATAGAGTATGGTATATGgaaaggaggcgtatgcag t" /listShort="yjzB" /GFF_Attribute="listLong" promotor_-35 complement(1208103..1208112) /Source="Nicolas_upshift_promotors" /id="U909" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=1358 /SigmaFactorBS="ctaattctatcctattttttttcacatggcaatatattcGTC TAAACTAtcagttcatcttaCTCATAGAGTATGGTATATGgaaaggaggcgtatgcag t" /listShort="yjzB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1208118..1208125 /Source="Nicolas_upshift_promotors" /id="U910" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.858141858141858" /psig=1 /xcortree=2188 /SigmaFactorBS="atgaactgatagtttagacgaataTATTGCCAtgtgaaaaaa aataGGATAGAATTAGTACCTGATactaataattgatcacaacctgattgatcttcta a" /listShort="fabHA, fabF" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1208140..1208159 /Source="Nicolas_upshift_promotors" /id="U910" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.858141858141858" /psig=1 /xcortree=2188 /SigmaFactorBS="atgaactgatagtttagacgaataTATTGCCAtgtgaaaaaa aataGGATAGAATTAGTACCTGATactaataattgatcacaacctgattgatcttcta a" /listShort="fabHA, fabF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1208154 /Source="Nicolas_upshifts" /id="U910" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.858141858141858" /psig=1 /xcortree=2188 /SigmaFactorBS="atgaactgatagtttagacgaataTATTGCCAtgtgaaaaaa aataGGATAGAATTAGTACCTGATactaataattgatcacaacctgattgatcttcta a" /listShort="fabHA, fabF" /GFF_Attribute="listLong" CDS 1208222..1209160 /gene="fabHA" /locus_tag="BSU_11330" /old_locus_tag="BSU11330" /EC_number="2.3.1.180" /EC_number="2.3.1.38" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:10629181, 11959561, 21542858, 25196128" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10629181, 11959561, 21542858, 25196128; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="beta-ketoacyl-acyl carrier protein synthase III 1" /protein_id="NP_389015.1" /db_xref="EnsemblGenomes-Gn:BSU11330" /db_xref="EnsemblGenomes-Tr:CAB12974" /db_xref="GOA:O34746" /db_xref="InterPro:IPR004655" /db_xref="InterPro:IPR013747" /db_xref="InterPro:IPR013751" /db_xref="InterPro:IPR016039" /db_xref="SubtiList:BG13127" /db_xref="UniProtKB/Swiss-Prot:O34746" /translation="MKAGILGVGRYIPEKVLTNHDLEKMVETSDEWIRTRTGIEERRI AADDVFSSHMAVAAAKNALEQAEVAAEDLDMILVATVTPDQSFPTVSCMIQEQLGAKK ACAMDISAACAGFMYGVVTGKQFIESGTYKHVLVVGVEKLSSITDWEDRNTAVLFGDG AGAAVVGPVSDDRGILSFELGADGTGGQHLYLNEKRHTIMNGREVFKFAVRQMGESCV NVIEKAGLSKEDVDFLIPHQANIRIMEAARERLELPVEKMSKTVHKYGNTSAASIPIS LVEELEAGKIKDGDVVVMVGFGGGLTWGAIAIRWGR*" gene 1208222..1209160 /gene="fabHA" /locus_tag="BSU_11330" /old_locus_tag="BSU11330" promotor_-35 1208299..1208308 /Source="Nicolas_upshift_promotors" /id="U911" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.978021978021978" /psig="0.978021978021978" /xcortree=1791 /SigmaFactorBS="tcctgagaaggttttaacaaatcatgatcttgaaaaaatggt TGAAACTTCTgacgagtggatTCGTACAAGAACAGGAatagaagaaagaagaatcgca g" /listShort="fabF" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1208317 /Source="Nicolas_upshifts" /id="U911" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.978021978021978" /psig="0.978021978021978" /xcortree=1791 /SigmaFactorBS="tcctgagaaggttttaacaaatcatgatcttgaaaaaatggt TGAAACTTCTgacgagtggatTCGTACAAGAACAGGAatagaagaaagaagaatcgca g" /listShort="fabF" /GFF_Attribute="listLong" promotor_-10 1208320..1208335 /Source="Nicolas_upshift_promotors" /id="U911" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp="0.978021978021978" /psig="0.978021978021978" /xcortree=1791 /SigmaFactorBS="tcctgagaaggttttaacaaatcatgatcttgaaaaaatggt TGAAACTTCTgacgagtggatTCGTACAAGAACAGGAatagaagaaagaagaatcgca g" /listShort="fabF" /GFF_Attribute="listLong" /label="promotor_-10" CDS 1209183..1210424 /gene="fabF" /locus_tag="BSU_11340" /old_locus_tag="BSU11340" /EC_number="2.3.1.41" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:11325930, 12682299, 16436705, 18384517, 21542858, 28196402" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11325930, 12682299, 16436705, 18384517, 21542858, 28196402; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="beta-ketoacyl-acyl carrier protein synthase II (involved in pimelate synthesis)" /protein_id="NP_389016.1" /db_xref="EnsemblGenomes-Gn:BSU11340" /db_xref="EnsemblGenomes-Tr:CAB12975" /db_xref="GOA:O34340" /db_xref="InterPro:IPR014030" /db_xref="InterPro:IPR014031" /db_xref="InterPro:IPR016039" /db_xref="InterPro:IPR017568" /db_xref="InterPro:IPR018201" /db_xref="InterPro:IPR020841" /db_xref="PDB:4LS5" /db_xref="PDB:4LS6" /db_xref="PDB:4LS7" /db_xref="PDB:4LS8" /db_xref="SubtiList:BG13128" /db_xref="UniProtKB/Swiss-Prot:O34340" /translation="MTKKRVVVTGLGALSPLGNDVDTSWNNAINGVSGIGPITRVDAE EYPAKVAAELKDFNVEDYMDKKEARKMDRFTQYAVVAAKMAVEDADLNITDEIAPRVG VWVGSGIGGLETLESQFEIFLTKGPRRVSPFFVPMMIPDMATGQISIALGAKGVNSCT VTACATGTNSIGDAFKVIQRGDADVMVTGGTEAPLTRMSFAGFSANKALSTNPDPKTA SRPFDKNRDGFVMGEGAGIIVLEELEHALARGAKIYGEIVGYGSTGDAYHITAPAQDG EGGARAMQEAIKDAGIAPEEIDYINAHGTSTYYNDKYETMAIKTVFGEHAHKLAVSST KSMTGHLLGAAGGIEAIFSILAIKEGVIPPTINIQTPDEECDLDYVPDEARRQELNYV LSNSLGFGGHNATLIFKKYQS*" gene 1209183..1210424 /gene="fabF" /locus_tag="BSU_11340" /old_locus_tag="BSU11340" promotor_-10 complement(1209397..1209415) /Source="Nicolas_upshift_promotors" /id="U912" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.813186813186813" /psig="0.813186813186813" /xcortree=777 /SigmaFactorBS="cggtaatgttaagatctgcatcttcaaccGCCATTttcgcag ccacaaccGCATATTGTGTAAAGCGGTccatttttctggcttcttttttatccatata a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1209405) /Source="Nicolas_upshifts" /id="U912" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.813186813186813" /psig="0.813186813186813" /xcortree=777 /SigmaFactorBS="cggtaatgttaagatctgcatcttcaaccGCCATTttcgcag ccacaaccGCATATTGTGTAAAGCGGTccatttttctggcttcttttttatccatata a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(1209431..1209436) /Source="Nicolas_upshift_promotors" /id="U912" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.813186813186813" /psig="0.813186813186813" /xcortree=777 /SigmaFactorBS="cggtaatgttaagatctgcatcttcaaccGCCATTttcgcag ccacaaccGCATATTGTGTAAAGCGGTccatttttctggcttcttttttatccatata a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 1210275 /Source="Nicolas_upshifts" /id="D616" /incds=1 /nref=1 /ntot=89 /MaxReadThrough="7.03006" /MaxDrop="2.1101" /score="54.6350161" /energy="-18.5" /TU="U910,U911" /idTUdmin="U911" /TUdmin="-132" /isTUend="FALSE" downshifts 1210408 /Source="Nicolas_upshifts" /id="D617" /incds=0 /nref=246 /ntot=274 /MaxReadThrough="0.58964" /MaxDrop="7.80446" /score="54.6350161" /energy="-18.5" /TU="NA" /idTUdmin="U911" /TUdmin=1 /isTUend="TRUE" promotor_-35 1210449..1210458 /Source="Nicolas_upshift_promotors" /id="U913" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1338 /SigmaFactorBS="tatcaatcataatcaagccaaaccggctgcccttaaAGGGTA GCCGgttttttttgtgTGCATAGGATTAAAAGAGGAggcgatcacatgagtgtagaac a" /listShort="yjaZ, S402, S403, appD, appF" /listLong="S404, appA, appA, appB, appC" /label="promotor_-35" promotor_-10 1210471..1210490 /Source="Nicolas_upshift_promotors" /id="U913" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1338 /SigmaFactorBS="tatcaatcataatcaagccaaaccggctgcccttaaAGGGTA GCCGgttttttttgtgTGCATAGGATTAAAAGAGGAggcgatcacatgagtgtagaac a" /listShort="yjaZ, S402, S403, appD, appF" /listLong="S404, appA, appA, appB, appC" /label="promotor_-10" upshifts 1210473 /Source="Nicolas_upshifts" /id="U913" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1338 /SigmaFactorBS="tatcaatcataatcaagccaaaccggctgcccttaaAGGGTA GCCGgttttttttgtgTGCATAGGATTAAAAGAGGAggcgatcacatgagtgtagaac a" /listShort="yjaZ, S402, S403, appD, appF" /listLong="S404, appA, appA, appB, appC" promotor_-35 1210485..1210493 /Source="Nicolas_upshift_promotors" /id="U914" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=544 /SigmaFactorBS="cggttttttttgtgtgcataggattaaaAGAGGAGGCgatca catgagTGTAGAACAAACATATAGCtggctcaggaaggccggttcaatagatgatttg g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 1210500..1211285 /gene="yjaZ" /locus_tag="BSU_11350" /old_locus_tag="BSU11350" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_389017.1" /db_xref="EnsemblGenomes-Gn:BSU11350" /db_xref="EnsemblGenomes-Tr:CAB12992" /db_xref="InterPro:IPR018728" /db_xref="SubtiList:BG13129" /db_xref="UniProtKB/Swiss-Prot:O31596" /translation="MSVEQTYSWLRKAGSIDDLAHYIIPLFSGAEKKNWKGILGHLQH HGMFKNIKEGIQTVSKLKEKGFYGHIQKEEQYLKNKWQGPDVPIVTLPVDERNRRIRL EFGSKSGLAFQDKMFLFLSSDLDFGSVSALMTHEYHHVCRLGHLTKEEKDVTLLDTII MEGLAEYAVYERFGRSQTAEWTTWYTPEQLQALYEKKIAPHRDIKRDNRLFPQLLFGK GYQPKMLGYAVGFNIVKKYLTASKASTADGLSIPAETFLDAML*" gene 1210500..1211285 /gene="yjaZ" /locus_tag="BSU_11350" /old_locus_tag="BSU11350" promotor_-10 1210505..1210523 /Source="Nicolas_upshift_promotors" /id="U914" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=544 /SigmaFactorBS="cggttttttttgtgtgcataggattaaaAGAGGAGGCgatca catgagTGTAGAACAAACATATAGCtggctcaggaaggccggttcaatagatgatttg g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1210517 /Source="Nicolas_upshifts" /id="U914" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=544 /SigmaFactorBS="cggttttttttgtgtgcataggattaaaAGAGGAGGCgatca catgagTGTAGAACAAACATATAGCtggctcaggaaggccggttcaatagatgatttg g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" S_feature 1211286..1211370 /Source="Nicolas_S_feature" /locus_tag="new_1211286_1211370" /HighExp="S6, S5, S8, S7, BT, S4, S3, B36, T5.0H, T4.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigK" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S402" promotor_-10 complement(1211302..1211320) /Source="Nicolas_upshift_promotors" /id="U915" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.838161838161838" /psig="0.838161838161838" /xcortree=1001 /SigmaFactorBS="tttatagttgtatattattacaatcattttgcaaaatcaAGA ATTttttaggataaatgTAATATTATTAATGAAATTccattattttatccttttaaag c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1211319) /Source="Nicolas_upshifts" /id="U915" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.838161838161838" /psig="0.838161838161838" /xcortree=1001 /SigmaFactorBS="tttatagttgtatattattacaatcattttgcaaaatcaAGA ATTttttaggataaatgTAATATTATTAATGAAATTccattattttatccttttaaag c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(1211335..1211340) /Source="Nicolas_upshift_promotors" /id="U915" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.838161838161838" /psig="0.838161838161838" /xcortree=1001 /SigmaFactorBS="tttatagttgtatattattacaatcattttgcaaaatcaAGA ATTttttaggataaatgTAATATTATTAATGAAATTccattattttatccttttaaag c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1211338..1211345 /Source="Nicolas_upshift_promotors" /id="U916" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.98001998001998" /psig="0.999000999001" /xcortree=2876 /SigmaFactorBS="ataatattacatttatcctaaaaaatTCTTGATTttgcaaaa tgattgTAATAATATACAACTATAAAatttttcgataattcaatattatttattattt c" /listShort="S403, appD, appF, S404, appA, appA, appB, appC, S405, yjbA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1211360..1211379 /Source="Nicolas_upshift_promotors" /id="U916" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.98001998001998" /psig="0.999000999001" /xcortree=2876 /SigmaFactorBS="ataatattacatttatcctaaaaaatTCTTGATTttgcaaaa tgattgTAATAATATACAACTATAAAatttttcgataattcaatattatttattattt c" /listShort="S403, appD, appF, S404, appA, appA, appB, appC, S405, yjbA" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1211372..1211476 /Source="Nicolas_S_feature" /locus_tag="new_1211372_1211476" /HighExp="LoTm, T4.0H, T3.0H, T5.0H, T3.30H, T2.30H, M9-stat, S1, T2.0H, T1.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigK" /TUshortPSig="0.999, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S403" upshifts 1211372 /Source="Nicolas_upshifts" /id="U916" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.98001998001998" /psig="0.999000999001" /xcortree=2876 /SigmaFactorBS="ataatattacatttatcctaaaaaatTCTTGATTttgcaaaa tgattgTAATAATATACAACTATAAAatttttcgataattcaatattatttattattt c" /listShort="S403, appD, appF, S404, appA, appA, appB, appC, S405, yjbA" /GFF_Attribute="listLong" CDS 1211477..1212463 /gene="appD" /locus_tag="BSU_11360" /old_locus_tag="BSU11360" /EC_number="3.6.3.-" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:7997159, 25755103, 26728191" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7997159, 25755103, 26728191; Product type t: transporter" /codon_start=1 /transl_table=11 /product="oligopeptide ABC transporter (ATP-binding protein)" /protein_id="NP_389018.1" /db_xref="EnsemblGenomes-Gn:BSU11360" /db_xref="EnsemblGenomes-Tr:CAB12993" /db_xref="GOA:P42064" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR013563" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG11085" /db_xref="UniProtKB/Swiss-Prot:P42064" /translation="MSTLLEVNNLKTYFFRKKEPIPAVDGVDFHISKGETVALVGESG SGKSITSLSIMGLVQSSGGKIMDGSIKLEDKDLTSFTENDYCKIRGNEVSMIFQEPMT SLNPVLTIGEQITEVLIYHKNMKKKEARQRAVELLQMVGFSRAEQIMKEYPHRLSGGM RQRVMIAIALSCNPKLLIADEPTTALDVTIQAQVLELMKDLCQKFNTSILLITHDLGV VSEAADRVIVMYCGQVVENATVDDLFLEPLHPYTEGLLTSIPVIDGEIDKLNAIKGSV PTPDNLPPGCRFAPRCPKAMDKCWTNQPSLLTHKSGRTVRCFLYEEEGAEQS*" gene 1211477..1212463 /gene="appD" /locus_tag="BSU_11360" /old_locus_tag="BSU11360" CDS 1212460..1213449 /gene="appF" /locus_tag="BSU_11370" /old_locus_tag="BSU11370" /EC_number="3.6.3.-" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:7997159, 25755103, 26728191, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7997159, 25755103, 26728191, 22720735; Product type t: transporter" /codon_start=1 /transl_table=11 /product="oligopeptide ABC transporter (ATP-binding protein)" /protein_id="NP_389019.2" /db_xref="EnsemblGenomes-Gn:BSU11370" /db_xref="EnsemblGenomes-Tr:CAB12994" /db_xref="GOA:P42065" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR013563" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG11086" /db_xref="UniProtKB/Swiss-Prot:P42065" /translation="MTAANQETILELRDVKKYFPIRSGLFQRKVGDVKAVDGVSFSLK KGETLGIVGESGCGKSTAGRTMIRLYKPTEGQILFKGQDISNLSEEKLRKSVRKNIQM VFQDPFASLNPRKTLRSIIKEPFNTHNMYTMRERNEKVEELLARVGLHPSFAGRYPHE FSGGQRQRIGIARALTLNPELIIADEPVSALDVSIQAQVINLMEELQEEFNLTYLFIS HDLSVVRHISDRVGVMYLGKMMELTGKHELYDNPLHPYTQALLSSVPVTRKRGSVKRE RIVLKGELPSPANPPKGCVFHTRCPVAKPICKEQIPEFKEAAPSHFVACHLYS*" gene 1212460..1213449 /gene="appF" /locus_tag="BSU_11370" /old_locus_tag="BSU11370" misc_feature 1213455..1213461 /Source="Nicolas_upshift_promotors" /id="U917" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.375624375624376" /psig="0.062937062937063" /xcortree=2877 /SigmaFactorBS="ttaaagaagctgctcccagccactttgtggcttgtcaccttt atagctaatgttgCCCGCACagctttgagagggggtatgcacactacataaacaacag c" /listShort="S404, appA, appA, appB, appC, S405, yjbA" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" S_feature 1213460..1213536 /Source="Nicolas_S_feature" /locus_tag="new_1213460_1213536" /HighExp="T2.0H, S1, M9-stat, T5.0H, T3.0H, T1.30H, S2, M0t90, T2.30H, BT" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="Sig-, SigA" /TUshortPSig="0.0629, 0.999" /TUlongSig="SigK" /TUlongPSig=1 /label="S404" upshifts 1213460 /Source="Nicolas_upshifts" /id="U917" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.375624375624376" /psig="0.062937062937063" /xcortree=2877 /SigmaFactorBS="ttaaagaagctgctcccagccactttgtggcttgtcaccttt atagctaatgttgCCCGCACagctttgagagggggtatgcacactacataaacaacag c" /listShort="S404, appA, appA, appB, appC, S405, yjbA" /GFF_Attribute="listLong" CDS 1213537..1214028 /gene="appAn" /locus_tag="BSU_11381" /old_locus_tag="BSU11381" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function; PubMedId : 15588833, 25355936; Product type rc: receptor" /pseudo /codon_start=1 /transl_table=11 /product="oligopeptide ABC transporter (oligopeptide-binding lipoprotein); N-terminal part of AppA" /translation="MKRRKTALMMLSVLMVLAIFLSACSGSKSSNSSAKKSAGKPQQG GDLVVGSIGEPTLFNSLYSTDDASTDIENMLYSFLTKTDEKLNVKLSLAESIKELDGG LAYDVKIKKGVKFHDGKELTADDVVFTYSVPLSKDYKGERGSTYEMLKSVEKKAITKS CLS*" gene 1213537..1214028 /gene="appAn" /locus_tag="BSU_11381" /old_locus_tag="BSU11381" /pseudo CDS 1214001..1215167 /gene="appAc" /locus_tag="BSU_11382" /old_locus_tag="BSU11382" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function; PubMedId: 7997159, 15588833, 26728191; Product type lp: lipoprotein" /pseudo /codon_start=1 /transl_table=11 /product="oligopeptide ABC transporter (oligopeptide-binding lipoprotein); C-terminal part of AppA" /translation="GDYEVLFKLKYKDGNFYNNALDSTAILPKHILGNVPIADLEENE FNRKKPIGSGPFKFKEWKQGQYIKLEANDDYFEGRPYLDTVTYKVIPDANAAVAQLQA GDINFFNVPATDYKTAEKFNNLKIVTDLALSYVYIGWNEKNELFKDKKVRQALTTALD RESIVSQVLDGDGEVAYIPESPLSWNYPKDIDVPKFEYNEKKAKQMLAEAGWKDTNGD GILDKDGKKFSFTLKTNQGNKVREDIAVVVQEQLKKIGIEVKTQIVEWSALVEQMNPP NWDFDAMVMGWSLSTFPDQYDIFHSSQIKKGLNYVWYKNAEADKLMKDAKSISDRKQY SKEYEQIYQKIAEDQPYTFLYYPNNHMAMPENLEGYKYHPKRDLYNIEKWWLAK*" gene 1214001..1215167 /gene="appAc" /locus_tag="BSU_11382" /old_locus_tag="BSU11382" /pseudo downshifts 1215158 /Source="Nicolas_upshifts" /id="D618" /incds=0 /nref=1 /ntot=49 /MaxReadThrough="7.71397" /MaxDrop="3.11667" /score="-1.00317393" /energy="-13.3" /TU="U916,U917" /idTUdmin="U913" /TUdmin=1715 /isTUend="FALSE" CDS 1215243..1216193 /gene="appB" /locus_tag="BSU_11390" /old_locus_tag="BSU11390" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:7997159, 15849754, 16850406, 26728191" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7997159, 15849754, 16850406, 26728191; Product type t: transporter" /codon_start=1 /transl_table=11 /product="oligopeptide ABC transporter (permease)" /protein_id="NP_389021.2" /db_xref="EnsemblGenomes-Gn:BSU11390" /db_xref="EnsemblGenomes-Tr:CAB12996" /db_xref="GOA:P42062" /db_xref="InterPro:IPR000515" /db_xref="InterPro:IPR035906" /db_xref="SubtiList:BG11088" /db_xref="UniProtKB/Swiss-Prot:P42062" /translation="MAAYIIRRTLMSIPILLGITILSFVIMKAAPGDPMTLMMDPKIS QADREQFIEKYGLNDPQYVQYLKWLGNMVQGDFGTSIVRKGTPVSELIMARLPNTLLL MLVSTILALMISIPFGVLSAKRPYSKIDYGITFTSFIGLAIPNFWFGLILIMVLSVNL GWFPTGGVETLNTEFNIFDRIHHLILPAFVLATADMAGLTRYTRSNMLDVLNQDYIRT ARAKGFKENRVLFKHGLRNALLPVITIFGLMIPSFIGGSVVVEQIFTWPGLGKLFVDS AFQRDYPVIMAMTVISAVLVVVGNLIADILYAIVDPRIEY*" gene 1215243..1216193 /gene="appB" /locus_tag="BSU_11390" /old_locus_tag="BSU11390" CDS 1216210..1217121 /gene="appC" /locus_tag="BSU_11400" /old_locus_tag="BSU11400" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:7997159, 15849754, 16850406, 26728191" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7997159, 15849754, 16850406, 26728191; Product type t: transporter" /codon_start=1 /transl_table=11 /product="oligopeptide ABC transporter (permease)" /protein_id="NP_389022.1" /db_xref="EnsemblGenomes-Gn:BSU11400" /db_xref="EnsemblGenomes-Tr:CAB12997" /db_xref="GOA:P42063" /db_xref="InterPro:IPR000515" /db_xref="InterPro:IPR025966" /db_xref="InterPro:IPR035906" /db_xref="SubtiList:BG11089" /db_xref="UniProtKB/Swiss-Prot:P42063" /translation="MSELQTTPSPEIRLKENISKKPETMTKIFWEKFSKNKLAILGAV ILFIIIMSAVFAPLIAPYPQEQQSLLDKYKAPGLEHLMGTDKFGRDIFSRILYGARVS LLVGFASVVGSILIGTVLGALAGYFRGIVDAVIMRVVDIVLSIPDIFLLITLVTIFKP GVDKLILIFCLTGWTTTARLVRGEFLSLRSREYVLAAKTIGTKTHKIIFSHILPNALG PIIVSATLKVGSVILAESALSYLGFGIQPPIASWGNMLQDAQNFTVMIQAWWYPLFPG LFILMTVLCFNFVGDGLRDALDPKNIK*" gene 1216210..1217121 /gene="appC" /locus_tag="BSU_11400" /old_locus_tag="BSU11400" downshifts 1217135 /Source="Nicolas_upshifts" /id="D619" /incds=0 /nref=62 /ntot=188 /MaxReadThrough="5.13927" /MaxDrop="5.50153" /score="22.0028545" /energy="-11.6" /TU="U916,U917" /idTUdmin="U916" /TUdmin="-923" /isTUend="FALSE" S_feature 1217180..1217287 /Source="Nicolas_S_feature" /locus_tag="new_1217180_1217287" /HighExp="LoTm, S1, S2, BT, T3.30H, T4.0H, T5.0H, T3.0H, Glu, T2.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="Sig-, SigA" /TUshortPSig="0.0629, 0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S405" promotor_-35 1217260..1217265 /Source="Nicolas_upshift_promotors" /id="U918" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1160 /SigmaFactorBS="cccagtgattccagatttcctcaatctctttGGAATAatttc tctatcccttGCCTATACTGTGGACAACAgtttttataaaagtgaggggttagagatg t" /listShort="yjbA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1217281..1217299 /Source="Nicolas_upshift_promotors" /id="U918" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1160 /SigmaFactorBS="cccagtgattccagatttcctcaatctctttGGAATAatttc tctatcccttGCCTATACTGTGGACAACAgtttttataaaagtgaggggttagagatg t" /listShort="yjbA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1217289 /Source="Nicolas_upshifts" /id="U918" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1160 /SigmaFactorBS="cccagtgattccagatttcctcaatctctttGGAATAatttc tctatcccttGCCTATACTGTGGACAACAgtttttataaaagtgaggggttagagatg t" /listShort="yjbA" /GFF_Attribute="listLong" CDS 1217326..1218078 /gene="yjbA" /locus_tag="BSU_11410" /old_locus_tag="BSU11410" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 11717292, 22882546; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative sporulation nucleic acid binding protein" /protein_id="NP_389023.1" /db_xref="EnsemblGenomes-Gn:BSU11410" /db_xref="EnsemblGenomes-Tr:CAB12998" /db_xref="InterPro:IPR020909" /db_xref="SubtiList:BG13130" /db_xref="UniProtKB/Swiss-Prot:O31597" /translation="MLFLHDVWVNWFEGEENGYNVCHFHEWRKEDTVELLDQVPLLRV PSVLFHYIENDLSELPKGLLEDVHQKSYIRKNHERTKLEYCFVVTDGIGILAVDTIGY TIPVRKSRLIPRQEQLVYEMVKDVEPETYEFEPKKLESSKEYHILSLAPEHVRGLTRK ERQIKQLMFMALDQLKGLKNRAEIGYWYTEWNPHMYEQIKRMSFEEIWDMLYNETIEG WSDKHLAFCENLIKGQPFFEKLWEMENESKVN*" gene 1217326..1218078 /gene="yjbA" /locus_tag="BSU_11410" /old_locus_tag="BSU11410" downshifts 1218058 /Source="Nicolas_upshifts" /id="D620" /incds=0 /nref=32 /ntot=112 /MaxReadThrough="1.07428" /MaxDrop="6.2264" /score="22.0028545" /energy="-11.6" /TU="NA" /idTUdmin="U916" /TUdmin=0 /isTUend="TRUE" CDS complement(1218113..1219105) /gene="trpS" /locus_tag="BSU_11420" /old_locus_tag="BSU11420" /EC_number="6.1.1.2" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:8950174, 10706627, 12682299, 24572018" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8950174, 10706627, 12682299, 24572018; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="tryptophanyl-tRNA synthetase" /protein_id="NP_389024.1" /db_xref="EnsemblGenomes-Gn:BSU11420" /db_xref="EnsemblGenomes-Tr:CAB12999" /db_xref="GOA:P21656" /db_xref="InterPro:IPR001412" /db_xref="InterPro:IPR002305" /db_xref="InterPro:IPR002306" /db_xref="InterPro:IPR014729" /db_xref="InterPro:IPR024109" /db_xref="PDB:3PRH" /db_xref="SubtiList:BG10799" /db_xref="UniProtKB/Swiss-Prot:P21656" /translation="MKQTIFSGIQPSGSVTLGNYIGAMKQFVELQHDYNSYFCIVDQH AITVPQDRLELRKNIRNLAALYLAVGLDPEKATLFIQSEVPAHAQAGWMMQCVAYIGE LERMTQFKDKSKGNEAVVSGLLTYPPLMAADILLYGTDLVPVGEDQKQHLELTRNLAE RFNKKYNDIFTIPEVKIPKVGARIMSLNDPLKKMSKSDPNQKAYITLLDEPKQLEKKI KSAVTDSEGIVKFDKENKPGVSNLLTIYSILGNTTIEELEAKYEGKGYGEFKGDLAEV VVNALKPIQDRYYELIESEELDRILDEGAERANRTANKMLKKMENAMGLGRKRR*" gene complement(1218113..1219105) /gene="trpS" /locus_tag="BSU_11420" /old_locus_tag="BSU11420" downshifts complement(1218134) /Source="Nicolas_upshifts" /id="D621" /incds=0 /nref=224 /ntot=255 /MaxReadThrough="1.77115" /MaxDrop="6.72647" /score="27.6275522" /energy="-11.6" /TU="U919" /idTUdmin="U919" /TUdmin="-22" /isTUend="TRUE" misc_RNA complement(1219164..1219378) /gene="tboWA" /locus_tag="BSU_misc_RNA_13" /product="T-box riboswitch specific of tryptophan tRNA" /experiment="publication(s) with functional evidences, PMID:8045882, 9098041, 10706627, 10943892, 11842119, 12165569, 12547201, 1317842" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8045882, 9098041, 10706627, 10943892, 11842119, 12165569, 12547201, 1317842; Product type n: RNA" /function="16.3: Control" gene complement(1219164..1219378) /gene="tboWA" /locus_tag="BSU_misc_RNA_13" downshifts complement(1219212) /Source="Nicolas_upshifts" /id="D622" /incds=0 /nref=37 /ntot=127 /MaxReadThrough="6.8472" /MaxDrop="5.13001" /score="25.1445248" /energy="-19" /TU="U919" /idTUdmin="U919" /TUdmin="-1100" /isTUend="FALSE" misc_feature complement(1219397..1219416) /Source="Nicolas_upshift_promotors" /id="U919" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.509490509490509" /psig="0.99100899100899" /xcortree=602 /SigmaFactorBS="tatttatattattacaattttactggaaaaaagaatgttttt tcatgatgacaaTTGGTTATAATTGATTTATAatgaagcaatcaaaagaaaagcttgc t" /listShort="NA, trpS" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(1219410) /Source="Nicolas_upshifts" /id="U919" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.509490509490509" /psig="0.99100899100899" /xcortree=602 /SigmaFactorBS="tatttatattattacaattttactggaaaaaagaatgttttt tcatgatgacaaTTGGTTATAATTGATTTATAatgaagcaatcaaaagaaaagcttgc t" /listShort="NA, trpS" /GFF_Attribute="listLong" promotor_-35 1219665..1219672 /Source="Nicolas_upshift_promotors" /id="U920" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.828171828171828" /psig=1 /xcortree=491 /SigmaFactorBS="aactaacgaagtttaaatattttaaattgataaaataaTATT GCAAtaaattatttgtttCATTATAATGAACTTGTTCActctattgttacagcttttt t" /listShort="S406, oppA, S407, oppB, oppC, oppD, oppF" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 1219686..1219848 /Source="Nicolas_S_feature" /locus_tag="new_1219686_1219848" /HighExp="S1, T3.0H, T3.30H, T2.30H, T4.0H, T5.0H, LoTm, T2.0H, M40t90, T1.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S406" promotor_-10 1219687..1219706 /Source="Nicolas_upshift_promotors" /id="U920" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.828171828171828" /psig=1 /xcortree=491 /SigmaFactorBS="aactaacgaagtttaaatattttaaattgataaaataaTATT GCAAtaaattatttgtttCATTATAATGAACTTGTTCActctattgttacagcttttt t" /listShort="S406, oppA, S407, oppB, oppC, oppD, oppF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1219687 /Source="Nicolas_upshifts" /id="U920" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.828171828171828" /psig=1 /xcortree=491 /SigmaFactorBS="aactaacgaagtttaaatattttaaattgataaaataaTATT GCAAtaaattatttgtttCATTATAATGAACTTGTTCActctattgttacagcttttt t" /listShort="S406, oppA, S407, oppB, oppC, oppD, oppF" /GFF_Attribute="listLong" CDS 1219849..1221486 /gene="oppA" /locus_tag="BSU_11430" /old_locus_tag="BSU11430" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:1901616, 11083832, 11401703, 12823818, 15588833, 23133654, 26176322, 22720735, 25355936" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1901616, 11083832, 11401703, 12823818, 15588833, 23133654, 26176322, 22720735, 25355936; Product type lp: lipoprotein" /codon_start=1 /transl_table=11 /product="oligopeptide ABC transporter (binding lipoprotein)" /protein_id="NP_389025.1" /db_xref="EnsemblGenomes-Gn:BSU11430" /db_xref="EnsemblGenomes-Tr:CAB13000" /db_xref="GOA:P24141" /db_xref="InterPro:IPR000914" /db_xref="InterPro:IPR023765" /db_xref="InterPro:IPR030678" /db_xref="SubtiList:BG10771" /db_xref="UniProtKB/Swiss-Prot:P24141" /translation="MKKRWSIVTLMLIFTLVLSACGFGGSGSNGEGKKDSKGKTTLNI NIKTEPFSLHPGLANDSVSGGVIRQTFEGLTRINADGEPEEGMASKIETSKDGKTYTF TIRDGVKWSNGDPVTAQDFEYAWKWALDPNNESQYAYQLYYIKGAEAANTGKGSLDDV AVKAVNDKTLKVELNNPTPYFTELTAFYTYMPINKKIAEKNKKWNTNAGDDYVSNGPF KMTAWKHSGSITLEKNDQYWDKDKVKLKKIDMVMINNNNTELKKFQAGELDWAGMPLG QLPTESLPTLKKDGSLHVEPIAGVYWYKFNTEAKPLDNVNIRKALTYSLDRQSIVKNV TQGEQIPAMAAVPPTMKGFEDNKEGYFKDNDVKTAKEYLEKGLKEMGLSKASDLPKIK LSYNTDDAHAKIAQAVQEMWKKNLGVDVELDNSEWNVYIDKLHSQDYQIGRMGWLGDF NDPINFLELFRDKNGGNNDTGWENPEFKKLLNQSQTETDKTKRAELLKKAEGIFIDEM PVAPIYFYTDTWVQDENLKGVIMPGTGEVYFRNAYFK*" gene 1219849..1221486 /gene="oppA" /locus_tag="BSU_11430" /old_locus_tag="BSU11430" downshifts 1221380 /Source="Nicolas_upshifts" /id="D623" /incds=1 /nref=8 /ntot=166 /MaxReadThrough="6.94127" /MaxDrop="3.3677" /score="-4.2761508" /energy="-15.6" /TU="U920" /idTUdmin="U916" /TUdmin=3322 /isTUend="FALSE" S_feature 1221487..1221593 /Source="Nicolas_S_feature" /locus_tag="new_1221487_1221593" /HighExp="S1, LoTm, T4.0H, BT, T3.30H, T3.0H, T5.0H, M0t90, T2.30H, T2.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S407" CDS 1221594..1222529 /gene="oppB" /locus_tag="BSU_11440" /old_locus_tag="BSU11440" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:1901616, 11401703, 15849754, 16850406, 17600541, 25355936" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1901616, 11401703, 15849754, 16850406, 17600541, 25355936; Product type t : transporter" /codon_start=1 /transl_table=11 /product="oligopeptide ABC transporter (permease)" /protein_id="NP_389026.1" /db_xref="EnsemblGenomes-Gn:BSU11440" /db_xref="EnsemblGenomes-Tr:CAB13001" /db_xref="GOA:P24138" /db_xref="InterPro:IPR000515" /db_xref="InterPro:IPR035906" /db_xref="SubtiList:BG10772" /db_xref="UniProtKB/Swiss-Prot:P24138" /translation="MLKYIGRRLVYMIITLFVIVTVTFFLMQAAPGGPFSGEKKLPPE IEANLNAHYGLDKPLFVQYVSYLKSVAMWDFGPSFKYKGQSVNDLISSGFPVSFTLGA EAILLALALGVLFGVIAALYHNKWQDYTVAILTIFGISVPSFIMAAVLQYVFSMKLGL FPVAGWDSWAYTFLPSIALASMPMAFIARLSRSSMIEVLNSDYIRTAKAKGLSRPAVT VRHAIRNALLPVVTYMGPMAAQVLTGSFIIETIFGIPGLGAHFVNSITNRDYTVIMGV TVFFSVILLLCVLIVDVLYGIIDPRIKLSKAKKGA*" gene 1221594..1222529 /gene="oppB" /locus_tag="BSU_11440" /old_locus_tag="BSU11440" promotor_-10 complement(1221637..1221656) /Source="Nicolas_upshift_promotors" /id="U921" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.508491508491508" /psig="0.97902097902098" /xcortree=1450 /SigmaFactorBS="gctttttctcacctgaaaatggcccgcccggtgctgCTTGCA TtaagaagaatgtcacAGTTACAATCACAAATAGTGtgataatcatatagactaagcg t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1221654) /Source="Nicolas_upshifts" /id="U921" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.508491508491508" /psig="0.97902097902098" /xcortree=1450 /SigmaFactorBS="gctttttctcacctgaaaatggcccgcccggtgctgCTTGCA TtaagaagaatgtcacAGTTACAATCACAAATAGTGtgataatcatatagactaagcg t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(1221672..1221678) /Source="Nicolas_upshift_promotors" /id="U921" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.508491508491508" /psig="0.97902097902098" /xcortree=1450 /SigmaFactorBS="gctttttctcacctgaaaatggcccgcccggtgctgCTTGCA TtaagaagaatgtcacAGTTACAATCACAAATAGTGtgataatcatatagactaagcg t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 1222533..1223450 /gene="oppC" /locus_tag="BSU_11450" /old_locus_tag="BSU11450" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:1901616, 11401703, 15849754, 16850406, 26782429" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1901616, 11401703, 15849754, 16850406, 26782429; Product type t : transporter" /codon_start=1 /transl_table=11 /product="oligopeptide ABC transporter (permease)" /protein_id="NP_389027.1" /db_xref="EnsemblGenomes-Gn:BSU11450" /db_xref="EnsemblGenomes-Tr:CAB13002" /db_xref="GOA:P24139" /db_xref="InterPro:IPR000515" /db_xref="InterPro:IPR025966" /db_xref="InterPro:IPR035906" /db_xref="SubtiList:BG10773" /db_xref="UniProtKB/Swiss-Prot:P24139" /translation="MQNIPKNMFEPAAANAGDAEKISKKSLSLWKDAMLRFRSNKLAM VGLIIIVLIILMAIFAPMFSRYDYSTTNLLNADKPPSKDHWFGTDDLGRDIFVRTWVG ARISIFIGVAAAVLDLLIGVIWGSISGFRGGRTDEIMMRIADILWAVPSLLMVILLMV VLPKGLFTIIIAMTITGWINMARIVRGQVLQLKNQEYVLASQTLGAKTSRLLFKHIVP NAMGSILVTMTLTVPTAIFTEAFLSYLGLGVPAPLASWGTMASDGLPALTYYPWRLFF PAGFICITMFGFNVVGDGLRDALDPKLRK*" gene 1222533..1223450 /gene="oppC" /locus_tag="BSU_11450" /old_locus_tag="BSU11450" CDS 1223455..1224531 /gene="oppD" /locus_tag="BSU_11460" /old_locus_tag="BSU11460" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:1901616, 11401703, 19202088, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1901616, 11401703, 19202088, 22720735; Product type t: transporter" /codon_start=1 /transl_table=11 /product="oligopeptide ABC transporter (ATP-binding protein)" /protein_id="NP_389028.1" /db_xref="EnsemblGenomes-Gn:BSU11460" /db_xref="EnsemblGenomes-Tr:CAB13003" /db_xref="GOA:P24136" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR013563" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG10774" /db_xref="UniProtKB/Swiss-Prot:P24136" /translation="MIRVTRLLEVKDLAISFKTYGGEVQAIRGVNFHLDKGETLAIVG ESGSGKSVTSQAIMKLIPMPPGYFKRGEILFEGKDLVPLSEKEMQNVRGKEIGMIFQD PMTSLNPTMKVGKQITEVLFKHEKISKEAAKKRAVELLELVGIPMPEKRVNQFPHEFS GGMRQRVVIAMALAANPKLLIADEPTTALDVTIQAQILELMKDLQKKIDTSIIFITHD LGVVANVADRVAVMYAGQIVETGTVDEIFYDPRHPYTWGLLASMPTLESSGEEELTAI PGTPPDLTNPPKGDAFALRSSYAMKIDFEQEPPMFKVSDTHYVKSWLLHPDAPKVEPP EAVKAKMRKLANTFEKPVLVREVE*" gene 1223455..1224531 /gene="oppD" /locus_tag="BSU_11460" /old_locus_tag="BSU11460" CDS 1224533..1225450 /gene="oppF" /locus_tag="BSU_11470" /old_locus_tag="BSU11470" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:1901616, 7997159, 11401703, 23133654, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1901616, 7997159, 11401703, 23133654, 22720735; Product type t : transporter" /codon_start=1 /transl_table=11 /product="oligopeptide ABC transporter (ATP-binding protein)" /protein_id="NP_389029.1" /db_xref="EnsemblGenomes-Gn:BSU11470" /db_xref="EnsemblGenomes-Tr:CAB13004" /db_xref="GOA:P24137" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR013563" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG10775" /db_xref="UniProtKB/Swiss-Prot:P24137" /translation="MTEKLLEIKHLKQHFVTPRGTVKAVDDLSFDIYKGETLGLVGES GCGKSTTGRSIIRLYEATDGEVLFNGENVHGRKSRKKLLEFNRKMQMIFQDPYASLNP RMTVADIIAEGLDIHKLAKTKKERMQRVHELLETVGLNKEHANRYPHEFSGGQRQRIG IARALAVDPEFIIADEPISALDVSIQAQVVNLMKELQKEKGLTYLFIAHDLSMVKYIS DRIGVMYFGKLVELAPADELYENPLHPYTKSLLSAIPLPDPDYERNRVRQKYDPSVHQ LKDGETMEFREVKPGHFVMCTEAEFKAFS*" gene 1224533..1225450 /gene="oppF" /locus_tag="BSU_11470" /old_locus_tag="BSU11470" downshifts 1225420 /Source="Nicolas_upshifts" /id="D624" /incds=0 /nref=21 /ntot=196 /MaxReadThrough="1.58906" /MaxDrop="5.17491" /score="28.2861081" /energy="-15.2" /TU="NA" /idTUdmin="U920" /TUdmin="-8" /isTUend="TRUE" promotor_-35 1225500..1225503 /Source="Nicolas_upshift_promotors" /id="U922" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.651348651348651" /psig="0.97002997002997" /xcortree=3166 /SigmaFactorBS="caatccttcaagagatttctcttgaaggatttttttgcgtct tcATAGaaagtgagaatgatAACATTTACAATTAGAGGAAaaagcggaggcgaaatac g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1225516 /Source="Nicolas_upshifts" /id="U922" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.651348651348651" /psig="0.97002997002997" /xcortree=3166 /SigmaFactorBS="caatccttcaagagatttctcttgaaggatttttttgcgtct tcATAGaaagtgagaatgatAACATTTACAATTAGAGGAAaaagcggaggcgaaatac g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 1225518..1225537 /Source="Nicolas_upshift_promotors" /id="U922" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.651348651348651" /psig="0.97002997002997" /xcortree=3166 /SigmaFactorBS="caatccttcaagagatttctcttgaaggatttttttgcgtct tcATAGaaagtgagaatgatAACATTTACAATTAGAGGAAaaagcggaggcgaaatac g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" CDS 1225557..1226774 /gene="yjbB" /locus_tag="BSU_11480" /old_locus_tag="BSU11480" /function="16.1: Circulate" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 14563878, 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative exporter" /protein_id="NP_389030.2" /db_xref="EnsemblGenomes-Gn:BSU11480" /db_xref="EnsemblGenomes-Tr:CAB13005" /db_xref="GOA:O31600" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG13131" /db_xref="UniProtKB/Swiss-Prot:O31600" /translation="MQFLHNKNVFALLLSQSFQSLAGVLVTIVLMVRIYQMTDSVFLA GLILSFMSFASIAASFCVSPVLRILGFKKVLAGANLLRAVFIILMAYSVTHHGQAFFW ITLLFVFCFSFAGAFFQPARFALLPIIVPKKQYVKANGVISLSNQLFLTAGWGLGGLL TYAVPFELVVGAAICLFVLSGASISVLHVNEEEAAGTAETASVRSIWKDLMIIPIVRD ITVMDMLEALAGSVWSSAILLAFTAAVLHETEVWWGMFNASYFIGAIVGSVIAIRFSS FFERNMGYAIMFSSLVMSALTLLFSFSPVPFLCALACAAMGPFYQVRDICQETMLQEV IPEQKRIGIMAAKNAILTPWSGVTYSIMGLVADAAGAKIAFIAAAALYIMTFLIALAQ PRLVHYRRENRVQ*" gene 1225557..1226774 /gene="yjbB" /locus_tag="BSU_11480" /old_locus_tag="BSU11480" promotor_-35 1226827..1226836 /Source="Nicolas_upshift_promotors" /id="U923" /multdbtbs="SigW,SigX" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=114 /SigmaFactorBS="cagctggctccgttttgctgaaaaaaaaaTGAAACCATGgcg gaagttcgcACGTCTTTATAGATGTaaggctgtttaaacaagaagaaatggggtatat c" /listShort="S408, yjbC, S409, spxA, S410" /listLong="S411, mecA" /label="promotor_-35" promotor_-10 1226849..1226864 /Source="Nicolas_upshift_promotors" /id="U923" /multdbtbs="SigW,SigX" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=114 /SigmaFactorBS="cagctggctccgttttgctgaaaaaaaaaTGAAACCATGgcg gaagttcgcACGTCTTTATAGATGTaaggctgtttaaacaagaagaaatggggtatat c" /listShort="S408, yjbC, S409, spxA, S410" /listLong="S411, mecA" /label="promotor_-10" S_feature 1226858..1226937 /Source="Nicolas_S_feature" /locus_tag="new_1226858_1226937" /HighExp="Etha, B60, M9-stat, T0.30H, Salt, T3.0H, T1.0H, T4.0H, T2.30H, T3.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigWXY" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S408" upshifts 1226858 /Source="Nicolas_upshifts" /id="U923" /multdbtbs="SigW,SigX" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=114 /SigmaFactorBS="cagctggctccgttttgctgaaaaaaaaaTGAAACCATGgcg gaagttcgcACGTCTTTATAGATGTaaggctgtttaaacaagaagaaatggggtatat c" /listShort="S408, yjbC, S409, spxA, S410" /listLong="S411, mecA" CDS 1226938..1227516 /gene="yjbC" /locus_tag="BSU_11490" /old_locus_tag="BSU11490" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 17158660, 17158663, 21815947; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative thiol oxidation management factor; putative acetyltransferase" /protein_id="NP_389031.2" /db_xref="EnsemblGenomes-Gn:BSU11490" /db_xref="EnsemblGenomes-Tr:CAB13006" /db_xref="GOA:O31601" /db_xref="InterPro:IPR000182" /db_xref="InterPro:IPR016181" /db_xref="SubtiList:BG13132" /db_xref="UniProtKB/Swiss-Prot:O31601" /translation="MNWYEKLSEYFPIEEMKSKAHMEALLKERSDIYHKDEGKHHILM FAEFDSFIFVDYLYVSKDARGQGLGGKLIAKLKKKNKPILLEVEPVDEDDTDTEKRLR FYQREHFKHAQSIGYRRRSLATNEVNKMEILYWSPKTESEEEILEAMKQTYENIHTYK DEKWYGESYEKTDEVLEIIDEEKQKNIFDQLS*" gene 1226938..1227516 /gene="yjbC" /locus_tag="BSU_11490" /old_locus_tag="BSU11490" S_feature 1227517..1227631 /Source="Nicolas_S_feature" /locus_tag="new_1227517_1227631" /HighExp="B60, Etha, Salt, T0.30H, M9-stat, LoTm, Gly, T1.0H, B36, Heat" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigWXY" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S409" promotor_-10 complement(1227568..1227587) /Source="Nicolas_upshift_promotors" /id="U924" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.507492507492508" /psig="0.622377622377622" /xcortree=51 /SigmaFactorBS="aaaaaggaatctttacaggtattaTACTATAAaaaagtaagt gtgAACAGTATCCTAAGAAAAAAatgtgtcaatccagcaaatttttaatgttcatgat a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1227572) /Source="Nicolas_upshifts" /id="U924" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.507492507492508" /psig="0.622377622377622" /xcortree=51 /SigmaFactorBS="aaaaaggaatctttacaggtattaTACTATAAaaaagtaagt gtgAACAGTATCCTAAGAAAAAAatgtgtcaatccagcaaatttttaatgttcatgat a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(1227601..1227608) /Source="Nicolas_upshift_promotors" /id="U924" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.507492507492508" /psig="0.622377622377622" /xcortree=51 /SigmaFactorBS="aaaaaggaatctttacaggtattaTACTATAAaaaagtaagt gtgAACAGTATCCTAAGAAAAAAatgtgtcaatccagcaaatttttaatgttcatgat a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" misc_feature 1227634..1227647 /Source="Nicolas_upshift_promotors" /id="U925" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.815184815184815" /psig="0.973026973026973" /xcortree=1536 /SigmaFactorBS="cttaggatactgttcacacttacttttttatagtataatacc tgtaaagattccttttttAGAGTAATTTCAATttaagaataaaatagatgttcatcct a" /listShort="spxA" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 1227634 /Source="Nicolas_upshifts" /id="U925" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.815184815184815" /psig="0.973026973026973" /xcortree=1536 /SigmaFactorBS="cttaggatactgttcacacttacttttttatagtataatacc tgtaaagattccttttttAGAGTAATTTCAATttaagaataaaatagatgttcatcct a" /listShort="spxA" /GFF_Attribute="listLong" CDS 1227697..1228092 /gene="spxA" /locus_tag="BSU_11500" /old_locus_tag="BSU11500" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:12642660, 14597697, 15659166, 16249335, 16740936, 18662407, 22307755, 23894131, 28484046, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12642660, 14597697, 15659166, 16249335, 16740936, 18662407, 22307755, 23894131, 28484046, 22720735; Product type r: regulator" /codon_start=1 /transl_table=11 /product="redox-sensitive regulator" /protein_id="NP_389032.1" /db_xref="EnsemblGenomes-Gn:BSU11500" /db_xref="EnsemblGenomes-Tr:CAB13007" /db_xref="GOA:O31602" /db_xref="InterPro:IPR006504" /db_xref="InterPro:IPR006660" /db_xref="InterPro:IPR023731" /db_xref="InterPro:IPR036249" /db_xref="PDB:1Z3E" /db_xref="PDB:3GFK" /db_xref="PDB:3IHQ" /db_xref="SubtiList:BG13133" /db_xref="UniProtKB/Swiss-Prot:O31602" /translation="MVTLYTSPSCTSCRKARAWLEEHEIPFVERNIFSEPLSIDEIKQ ILRMTEDGTDEIISTRSKVFQKLNVNVESMPLQDLYRLINEHPGLLRRPIIIDEKRLQ VGYNEDEIRRFLPRKVRSFQLREAQRLAN*" gene 1227697..1228092 /gene="spxA" /locus_tag="BSU_11500" /old_locus_tag="BSU11500" promotor_no_box complement(1227928..1228028) /Source="Nicolas_upshift_promotors" /id="U926" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.96103896103896" /psig="0.000999000999001" /xcortree=57 /SigmaFactorBS="ctgatttcgtcttcgttatatccgacctgcaaacgtttttcg tcaatgatgatcggacggcgaagcaaacctggatgctcgttgatcaagcggtacaaat c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts complement(1227968) /Source="Nicolas_upshifts" /id="U926" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.96103896103896" /psig="0.000999000999001" /xcortree=57 /SigmaFactorBS="ctgatttcgtcttcgttatatccgacctgcaaacgtttttcg tcaatgatgatcggacggcgaagcaaacctggatgctcgttgatcaagcggtacaaat c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" downshifts 1228090 /Source="Nicolas_upshifts" /id="D625" /incds=0 /nref=263 /ntot=269 /MaxReadThrough="4.34531" /MaxDrop="8.0579" /score="7.42972561" /energy="-8.8" /TU="U923" /idTUdmin="U925" /TUdmin=0 /isTUend="TRUE" S_feature 1228135..1228924 /Source="Nicolas_S_feature" /locus_tag="new_1228135_1228924" /HighExp="B60, B36, Etha, M9-stat, Salt, H2O2, Paraq, Cold, G180, G135" /AntisenseName="yjbE" /AntisenseCor="-0.18634010398760401" /AntisenseRegPval="-2.7" /CDS_PredictionProba="NA" /TUshortSig="SigWXY" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S410" CDS complement(1228135..1228791) /gene="yjbE" /locus_tag="BSU_11510" /old_locus_tag="BSU11510" /function="16.8: Protect" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative membrane protein of unknown function" /protein_id="NP_389033.1" /db_xref="EnsemblGenomes-Gn:BSU11510" /db_xref="EnsemblGenomes-Tr:CAB13008" /db_xref="GOA:O31603" /db_xref="InterPro:IPR005496" /db_xref="InterPro:IPR022301" /db_xref="SubtiList:BG13134" /db_xref="UniProtKB/Swiss-Prot:O31603" /translation="MEHDYLISLLVIVGIDLILGGDNAVVIAMASRHLPDKQRQQAII LGTFIAVAMRIGLTSAAVYLLNIPFLQCAGGIFLLYLGYQLLIEKKDTKHIKSSTSLW RAIRTIVLADLFMSLDNVIAVAGASHGEFSLVVIGLCVSVPVIIWGSKLIHIALEKIP LLIYAGSGLLAYTGGEMIVRDKKLSLFMAQHGTVETLLPILTVAFVILASIYYQQVEK *" gene complement(1228135..1228791) /gene="yjbE" /locus_tag="BSU_11510" /old_locus_tag="BSU11510" promotor_-10 complement(1228821..1228839) /Source="Nicolas_upshift_promotors" /id="U927" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=987 /SigmaFactorBS="cacctttgcctaaaaaacggcagatcaggcggctgatATCAT AaaatatgacctgtcTCATATAGTAGTAGTACAAgcgaaggactgaaagcgaggtgcc g" /listShort="yjbE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1228836) /Source="Nicolas_upshifts" /id="U927" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=987 /SigmaFactorBS="cacctttgcctaaaaaacggcagatcaggcggctgatATCAT AaaatatgacctgtcTCATATAGTAGTAGTACAAgcgaaggactgaaagcgaggtgcc g" /listShort="yjbE" /GFF_Attribute="listLong" promotor_-35 complement(1228854..1228859) /Source="Nicolas_upshift_promotors" /id="U927" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=987 /SigmaFactorBS="cacctttgcctaaaaaacggcagatcaggcggctgatATCAT AaaatatgacctgtcTCATATAGTAGTAGTACAAgcgaaggactgaaagcgaggtgcc g" /listShort="yjbE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1228897..1228904 /Source="Nicolas_upshift_promotors" /id="U928" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.845154845154845" /psig="0.998001998001998" /xcortree=622 /SigmaFactorBS="cgcctgatctgccgttttttaggcaaaggtgCATTTTTAttt cttttgtgacTGTTTTATCATAAAATAGAAatacaaaggaattcacactggccttggt t" /listShort="S411, mecA, S412, S413, coiA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1228918..1228937 /Source="Nicolas_upshift_promotors" /id="U928" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.845154845154845" /psig="0.998001998001998" /xcortree=622 /SigmaFactorBS="cgcctgatctgccgttttttaggcaaaggtgCATTTTTAttt cttttgtgacTGTTTTATCATAAAATAGAAatacaaaggaattcacactggccttggt t" /listShort="S411, mecA, S412, S413, coiA" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1228926..1229067 /Source="Nicolas_S_feature" /locus_tag="new_1228926_1229067" /HighExp="B60, Diami, Etha, dia5, LPhT, M9-stat, T5.0H, T3.0H, dia15, T0.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.998" /TUlongSig="SigWXY" /TUlongPSig=1 /label="S411" upshifts 1228926 /Source="Nicolas_upshifts" /id="U928" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.845154845154845" /psig="0.998001998001998" /xcortree=622 /SigmaFactorBS="cgcctgatctgccgttttttaggcaaaggtgCATTTTTAttt cttttgtgacTGTTTTATCATAAAATAGAAatacaaaggaattcacactggccttggt t" /listShort="S411, mecA, S412, S413, coiA" /GFF_Attribute="listLong" CDS 1228961..1229101 /locus_tag="BSU_11515" /old_locus_tag="BSU11515" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="YP_009513949.1" /translation="MVKVKMWTEWVKCSKVQLIGSLDVPSTSYIEGKVGKWKLKELTS IQ*" gene 1228961..1229101 /locus_tag="BSU_11515" /old_locus_tag="BSU11515" CDS 1229068..1229724 /gene="mecA" /locus_tag="BSU_11520" /old_locus_tag="BSU11520" /function="16.3: Control" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:10361283, 10447896, 16525504, 19801546, 21435029, 23595989" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10361283, 10447896, 16525504, 19801546, 21435029, 23595989; Product type f : factor" /codon_start=1 /transl_table=11 /product="adaptor protein controlling oligomerization of the AAA+ protein ClpC" /protein_id="NP_389034.1" /db_xref="EnsemblGenomes-Gn:BSU11520" /db_xref="EnsemblGenomes-Tr:CAB13009" /db_xref="GOA:P37958" /db_xref="InterPro:IPR008681" /db_xref="PDB:2Y1R" /db_xref="PDB:3J3R" /db_xref="PDB:3J3S" /db_xref="PDB:3J3T" /db_xref="PDB:3J3U" /db_xref="PDB:3JTP" /db_xref="PDB:3PXG" /db_xref="PDB:3PXI" /db_xref="SubtiList:BG10680" /db_xref="UniProtKB/Swiss-Prot:P37958" /translation="MEIERINEHTVKFYMSYGDIEDRGFDREEIWYNRERSEELFWEV MDEVHEEEEFAVEGPLWIQVQALDKGLEIIVTKAQLSKDGQKLELPIPEDKKQEPASE DLDALLDDFQKEEQAVNQEEKEQKLQFVLRFGDFEDVISLSKLNVNGSKTTLYSFENR YYLYVDFCNMTDEEVENQLSILLEYATESSISIHRLEEYGKLIISEHALETIKKHFAS *" gene 1229068..1229724 /gene="mecA" /locus_tag="BSU_11520" /old_locus_tag="BSU11520" downshifts 1229714 /Source="Nicolas_upshifts" /id="D626" /incds=0 /nref=120 /ntot=308 /MaxReadThrough="5.41786" /MaxDrop="7.67172" /score="32.2431225" /energy="-11.8" /TU="U928" /idTUdmin="U928" /TUdmin="-774" /isTUend="FALSE" CDS complement(1229719..1229841) /locus_tag="BSU_11525" /old_locus_tag="BSU11525" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="YP_009513950.1" /translation="MINSCSLYFLLVYMFLIFHISKMAFSCIKKTDFRKEIGLL*" gene complement(1229719..1229841) /locus_tag="BSU_11525" /old_locus_tag="BSU11525" S_feature 1229759..1229848 /Source="Nicolas_S_feature" /locus_tag="new_1229759_1229848" /HighExp="Etha, M9-stat, B60, dia15, T0.30H, Diami, C30, H2O2, dia5, S8" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S412" promotor_-35 1229827..1229835 /Source="Nicolas_upshift_promotors" /id="U929" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.876123876123876" /psig="0.876123876123876" /xcortree=2965 /SigmaFactorBS="aaatcaaaaacatatagacaagcagaaaatacagcgaACAGG AGTTgatcatctttTCCAGAAAGTATACTTCATctggaaaggagagatgacaattgtt t" /listShort="S413, coiA, pepF" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1229846..1229864 /Source="Nicolas_upshift_promotors" /id="U929" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.876123876123876" /psig="0.876123876123876" /xcortree=2965 /SigmaFactorBS="aaatcaaaaacatatagacaagcagaaaatacagcgaACAGG AGTTgatcatctttTCCAGAAAGTATACTTCATctggaaaggagagatgacaattgtt t" /listShort="S413, coiA, pepF" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1229850..1229914 /Source="Nicolas_S_feature" /locus_tag="new_1229850_1229914" /HighExp="Etha, G/S, GM 150, T-4.40H, S2, T-2.40H, Pyr, C90, M9-tran, T-3.40H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigH, SigA" /TUshortPSig="0.876, 0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S413" upshifts 1229850 /Source="Nicolas_upshifts" /id="U929" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.876123876123876" /psig="0.876123876123876" /xcortree=2965 /SigmaFactorBS="aaatcaaaaacatatagacaagcagaaaatacagcgaACAGG AGTTgatcatctttTCCAGAAAGTATACTTCATctggaaaggagagatgacaattgtt t" /listShort="S413, coiA, pepF" /GFF_Attribute="listLong" CDS 1229915..1231036 /gene="coiA" /locus_tag="BSU_11530" /old_locus_tag="BSU11530" /function="16.1: Circulate" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:10438773, 17630974, 23046409, 26880300" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10438773, 17630974, 23046409, 26880300; Product type s: structure" /codon_start=1 /transl_table=11 /product="protein involved in establishment of DNA transport in competence" /protein_id="NP_389035.1" /db_xref="EnsemblGenomes-Gn:BSU11530" /db_xref="EnsemblGenomes-Tr:CAB13010" /db_xref="GOA:O31604" /db_xref="InterPro:IPR010330" /db_xref="InterPro:IPR021176" /db_xref="SubtiList:BG13135" /db_xref="UniProtKB/Swiss-Prot:O31604" /translation="MFHLLGAQQNQKLKRRRFFCPVCGGELAVKLGLQKAPHFAHKQN KSCAIDIEPESAYHLEGKRQLYVWLKTQRASPILEPYIRTINQRPDVMARIKEHMLAV EYQCATIAPDVFQKRTEGFKQEGIIPQWIMGYSRLKRTASSFYQLSTFHWQFINASPY RELICYCPERRSFLRLSHIIPFYTNHSYSSVQTIPIHRAGAGDLFFTEPKPSIQYSGW TKAIHRFRHKPHRFNSKETNRLRLLFYEKRQTPFSFLPTEVFVPVRKGAVFKSPVFVW QGFLYLFMTDLGGKRAPIRFSAVLQQCKLHIHNKNIALRSECSEECLSEAVKQYIDFL CKKGFLRETQKEVYVLNQPAGGIHSMQDLIERDRSCFIE*" gene 1229915..1231036 /gene="coiA" /locus_tag="BSU_11530" /old_locus_tag="BSU11530" promotor_-35 1230690..1230696 /Source="Nicolas_upshift_promotors" /id="U930" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=156 /SigmaFactorBS="atgagaaacgacagacgcctttttcttttctgccgactgaag TGTTTGTtcctgttagaaaagGGGCAGTTTTTAAGAGTCCggtttttgtgtggcaggg g" /listShort="pepF" /listLong="S414, S415" /label="promotor_-35" upshifts 1230708 /Source="Nicolas_upshifts" /id="U930" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=156 /SigmaFactorBS="atgagaaacgacagacgcctttttcttttctgccgactgaag TGTTTGTtcctgttagaaaagGGGCAGTTTTTAAGAGTCCggtttttgtgtggcaggg g" /listShort="pepF" /listLong="S414, S415" promotor_-10 1230711..1230729 /Source="Nicolas_upshift_promotors" /id="U930" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=156 /SigmaFactorBS="atgagaaacgacagacgcctttttcttttctgccgactgaag TGTTTGTtcctgttagaaaagGGGCAGTTTTTAAGAGTCCggtttttgtgtggcaggg g" /listShort="pepF" /listLong="S414, S415" /label="promotor_-10" promotor_-35 1230922..1230930 /Source="Nicolas_upshift_promotors" /id="U931" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=546 /SigmaFactorBS="agcggttaaacagtatattgattttttgtgcaaGAAGGGATT tttaagggagaCTCAGAAAGAAGTATATGTgctgaatcagcctgcaggaggcatacac t" /listShort="pepF" /listLong="S414, S415" /label="promotor_-35" promotor_-10 1230942..1230960 /Source="Nicolas_upshift_promotors" /id="U931" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=546 /SigmaFactorBS="agcggttaaacagtatattgattttttgtgcaaGAAGGGATT tttaagggagaCTCAGAAAGAAGTATATGTgctgaatcagcctgcaggaggcatacac t" /listShort="pepF" /listLong="S414, S415" /label="promotor_-10" upshifts 1230949 /Source="Nicolas_upshifts" /id="U931" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=546 /SigmaFactorBS="agcggttaaacagtatattgattttttgtgcaaGAAGGGATT tttaagggagaCTCAGAAAGAAGTATATGTgctgaatcagcctgcaggaggcatacac t" /listShort="pepF" /listLong="S414, S415" promotor_-35 1231030..1231036 /Source="Nicolas_upshift_promotors" /id="U932" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=911 /SigmaFactorBS="tctcatagaaagagaccgcagctgttttatAGAATGAgtttg tcttatttgGCTCACCCTAAGacaaaggtggtgggcaggctgtgaaaggcacaaaagg a" /listShort="pepF" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1231051..1231062 /Source="Nicolas_upshift_promotors" /id="U932" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=911 /SigmaFactorBS="tctcatagaaagagaccgcagctgttttatAGAATGAgtttg tcttatttgGCTCACCCTAAGacaaaggtggtgggcaggctgtgaaaggcacaaaagg a" /listShort="pepF" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1231060 /Source="Nicolas_upshifts" /id="U932" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=911 /SigmaFactorBS="tctcatagaaagagaccgcagctgttttatAGAATGAgtttg tcttatttgGCTCACCCTAAGacaaaggtggtgggcaggctgtgaaaggcacaaaagg a" /listShort="pepF" /GFF_Attribute="listLong" CDS 1231083..1233095 /gene="pepF" /locus_tag="BSU_11540" /old_locus_tag="BSU11540" /function="16.11: Scavenge (Catabolism)" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11741842" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11741842; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="oligoendopeptidase F" /protein_id="NP_389036.2" /db_xref="EnsemblGenomes-Gn:BSU11540" /db_xref="EnsemblGenomes-Tr:CAB13011" /db_xref="GOA:O31605" /db_xref="InterPro:IPR001567" /db_xref="InterPro:IPR004438" /db_xref="InterPro:IPR013647" /db_xref="SubtiList:BG13136" /db_xref="UniProtKB/Swiss-Prot:O31605" /translation="MKGTKGKVFRVFTAFLAFVLFITAYDLTKGSEKPEDIHNTSLLR NSCFFNWLESKKTRGITMAEEKKANQLPDRSEVKAEDTWRLEDIFPSDEAWNKEFQAV KELIPNLSKYKGKLADSADHLYEALTYQDKVMERLGRLYTYAHMRSDQDTGNSFYQGL NDKAGNLYTQAASATAYLVPEILSIEEDKLQQFILEKEELKLYSHAIEEITKERPHVL SEKEEALLAEASEVLGSSSNTFSVLNNADITFPSIKDEDGNEKQITHGNFINFLESEN REVRKNAFDAVYKTYGQYKNTMATTLSGTVKKDNFYARVKKYKSAREAALSNNSIPEE VYDNLVKTINKHLPLLHRYIALRKKVLELDEVHIYDLYTPLVKDAGMKVTYEEAKDYM LKGLAPLGEEYASILKEGLENRWVDVYENKGKRNGAYSSGAYGTNPYILMNWHNNVNN LFTLVHEFGHSVHSYYTRKHQPYPYGNYSIFVAEVASTTNEALLGEYLLNNLEDEKQR LYILNHMLEGFRGTVFRQTMFAEFEHLIHTKAQEGEPLTPELLTNVYYDLNKKYFGDG MVIDKEIGLEWSRIPHFYYNYYVYQYATGYSAAQALSSQILKEGKPAVDRYIDFLKAG SSQYPIDVLKKAGVDMTSPEPIEAACKMFEEKLDEMEELLMKVKQS*" gene 1231083..1233095 /gene="pepF" /locus_tag="BSU_11540" /old_locus_tag="BSU11540" promotor_-35 1231158..1231165 /Source="Nicolas_upshift_promotors" /id="U933" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.802197802197802" /psig="0.926073926073926" /xcortree=3181 /SigmaFactorBS="cattcgttctcttcattactgcatatGATTTGACaaaaggca gtgaaaAACCGGAAGATATTCACAACacaagtttattgagaaacagctgttttttcaa t" /listShort="S414" /listLong="S415" /label="promotor_-35" promotor_-10 1231180..1231199 /Source="Nicolas_upshift_promotors" /id="U933" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.802197802197802" /psig="0.926073926073926" /xcortree=3181 /SigmaFactorBS="cattcgttctcttcattactgcatatGATTTGACaaaaggca gtgaaaAACCGGAAGATATTCACAACacaagtttattgagaaacagctgttttttcaa t" /listShort="S414" /listLong="S415" /label="promotor_-10" upshifts 1231192 /Source="Nicolas_upshifts" /id="U933" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.802197802197802" /psig="0.926073926073926" /xcortree=3181 /SigmaFactorBS="cattcgttctcttcattactgcatatGATTTGACaaaaggca gtgaaaAACCGGAAGATATTCACAACacaagtttattgagaaacagctgttttttcaa t" /listShort="S414" /listLong="S415" downshifts 1233042 /Source="Nicolas_upshifts" /id="D627" /incds=0 /nref=98 /ntot=339 /MaxReadThrough="4.70576" /MaxDrop="5.74441" /score="19.0969124" /energy="-15.2" /TU="U933" /idTUdmin="U931" /TUdmin=2 /isTUend="TRUE" S_feature 1233096..1233397 /Source="Nicolas_S_feature" /locus_tag="new_1233096_1233397" /HighExp="Etha, dia15, Diami, B60, M9-stat, S8, M0t90, dia5, B36, T0.30H" /AntisenseName="yizD" /AntisenseCor="-1.29003203536192E-2" /AntisenseRegPval="-0.1" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.926" /TUlongSig="SigH, SigB" /TUlongPSig="0.999, 0.999" /label="S414" CDS complement(1233133..1233300) /gene="yizD" /locus_tag="BSU_11549" /old_locus_tag="BSU11549" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="YP_003097703.1" /db_xref="EnsemblGenomes-Gn:BSU11549" /db_xref="EnsemblGenomes-Tr:CAX52593" /db_xref="GOA:C0H3Y6" /db_xref="UniProtKB/Swiss-Prot:C0H3Y6" /translation="MMSTLISIVCIAVFFCLNILGMMHMLPLYITSPLLFLSILFTLY RLNHRKTFKGF*" gene complement(1233133..1233300) /gene="yizD" /locus_tag="BSU_11549" /old_locus_tag="BSU11549" downshifts complement(1233146) /Source="Nicolas_upshifts" /id="D628" /incds=0 /nref=8 /ntot=61 /MaxReadThrough="1.527" /MaxDrop="5.54041" /score="-4.56163992" /energy="-15.2" /TU="NA" /idTUdmin="U934" /TUdmin="-8" /isTUend="TRUE" promotor_-10 complement(1233320..1233338) /Source="Nicolas_upshift_promotors" /id="U934" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1166 /SigmaFactorBS="acaacctctatgcttaatgttcatatttttgtcacaaAACAT AacgaagtgcattcacTCATATCCTTATAAGGAAAaaggacgaggaggaccgccatga t" /listShort="yizD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1233336) /Source="Nicolas_upshifts" /id="U934" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1166 /SigmaFactorBS="acaacctctatgcttaatgttcatatttttgtcacaaAACAT AacgaagtgcattcacTCATATCCTTATAAGGAAAaaggacgaggaggaccgccatga t" /listShort="yizD" /GFF_Attribute="listLong" promotor_-35 complement(1233354..1233359) /Source="Nicolas_upshift_promotors" /id="U934" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1166 /SigmaFactorBS="acaacctctatgcttaatgttcatatttttgtcacaaAACAT AacgaagtgcattcacTCATATCCTTATAAGGAAAaaggacgaggaggaccgccatga t" /listShort="yizD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1233390..1233397 /Source="Nicolas_upshift_promotors" /id="U935" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.583416583416583" /psig="0.883116883116883" /xcortree=90 /SigmaFactorBS="gtgaatgcacttcgttatgttttgtgacaaaaatatgaacat taagcatagAGGTTGTCaaaagtcgacatctTTTGTTATCATAAGGATGTGaaattga t" /listShort="S415" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 1233399..1233524 /Source="Nicolas_S_feature" /locus_tag="new_1233399_1233524" /HighExp="B36, T-1.10H, nit, T-0.40H, M9-tran, LoTm, Pyr, Etha, Salt, T0.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.883" /TUlongSig="SigA, SigH, SigB" /TUlongPSig="0.926, 0.999, 0.999" /label="S415" upshifts 1233399 /Source="Nicolas_upshifts" /id="U935" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.583416583416583" /psig="0.883116883116883" /xcortree=90 /SigmaFactorBS="gtgaatgcacttcgttatgttttgtgacaaaaatatgaacat taagcatagAGGTTGTCaaaagtcgacatctTTTGTTATCATAAGGATGTGaaattga t" /listShort="S415" /GFF_Attribute="listLong" misc_RNA 1233405..1233543 /gene="roxS" /locus_tag="BSU_misc_RNA_67" /product="small regulatory RNA (NO regulated)" /experiment="publication(s) with functional evidences, PMID:19682248, 19786493, 20511587, 20525796, 25643072, 28436820" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 19682248, 19786493, 20511587, 20525796, 25643072, 28436820; Product type n : RNA" gene 1233405..1233543 /gene="roxS" /locus_tag="BSU_misc_RNA_67" promotor_-10 1233412..1233431 /Source="Nicolas_upshift_promotors" /id="U935" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.583416583416583" /psig="0.883116883116883" /xcortree=90 /SigmaFactorBS="gtgaatgcacttcgttatgttttgtgacaaaaatatgaacat taagcatagAGGTTGTCaaaagtcgacatctTTTGTTATCATAAGGATGTGaaattga t" /listShort="S415" /GFF_Attribute="listLong" /label="promotor_-10" downshifts 1233481 /Source="Nicolas_upshifts" /id="D629" /incds=0 /nref=96 /ntot=135 /MaxReadThrough="3.50613" /MaxDrop="9.07209" /score="5.30186633" /energy="-11.6" /TU="U935" /idTUdmin="U933" /TUdmin=89 /isTUend="FALSE" CDS complement(1233614..1234513) /gene="spxH" /locus_tag="BSU_11550" /old_locus_tag="BSU11550" /function="16.3: Control" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:17293416, 17908206, 21378193, 22194450, 24942655, 25353645, 27191337, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 17293416, 17908206, 21378193, 22194450, 24942655, 25353645, 27191337, 22720735; Product type f: factor" /codon_start=1 /transl_table=11 /product="thiol management effector of SpxA degradation" /protein_id="NP_389037.2" /db_xref="EnsemblGenomes-Gn:BSU11550" /db_xref="EnsemblGenomes-Tr:CAB13012" /db_xref="GOA:O31606" /db_xref="InterPro:IPR036249" /db_xref="SubtiList:BG13137" /db_xref="UniProtKB/Swiss-Prot:O31606" /translation="MTNYQHELYFAHCHGHPKKPLEIYMFVDPLCPECWSLEPVIKKL KIRYGRFFTLRIIASASLTALNKKRKKHLLAEAWEKIASRSGMSCDGNVWFEQDQPLS SPYMAALAFKAAELQGRKAGMQFLRNMQESLFVSKKNITDENVLLEIAENTSLDLEEF KKDLHSQSAVKALQCDMKIAAEMDVSVNPTLTFFNTQHEDEGLKVPGSYSYDVYEEIL FEMLGDEPKPSETPPLECFIEYFRFVASKEIALVYDLSLEEVEKEMKKLAFAKKVAKV EAKHGMFWKSLSTYSDEYQSCEK*" gene complement(1233614..1234513) /gene="spxH" /locus_tag="BSU_11550" /old_locus_tag="BSU11550" downshifts complement(1233645) /Source="Nicolas_upshifts" /id="D630" /incds=0 /nref=185 /ntot=251 /MaxReadThrough="3.70729" /MaxDrop="5.65601" /score="17.9327625" /energy="-13.3" /TU="U937" /idTUdmin="U937" /TUdmin="-89" /isTUend="FALSE" promotor_-35 1233849..1233854 /Source="Nicolas_upshift_promotors" /id="U936" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1111 /SigmaFactorBS="ataaaacattctaaaggcggtgtttccgacggcttcggctcg tcgccaAGCATCtcaaataaaatttctTCATATACATCATATGAGTagctgccaggaa c" /listShort="S416" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1233861 /Source="Nicolas_upshifts" /id="U936" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1111 /SigmaFactorBS="ataaaacattctaaaggcggtgtttccgacggcttcggctcg tcgccaAGCATCtcaaataaaatttctTCATATACATCATATGAGTagctgccaggaa c" /listShort="S416" /GFF_Attribute="listLong" promotor_-10 1233870..1233888 /Source="Nicolas_upshift_promotors" /id="U936" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1111 /SigmaFactorBS="ataaaacattctaaaggcggtgtttccgacggcttcggctcg tcgccaAGCATCtcaaataaaatttctTCATATACATCATATGAGTagctgccaggaa c" /listShort="S416" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1233877..1235778 /Source="Nicolas_S_feature" /locus_tag="new_1233877_1235778" /HighExp="S6, S4, S5, S8, S3, S7, BT, B36, C30, T5.0H" /AntisenseName="yjbH" /AntisenseCor="-0.61019541931037402" /AntisenseRegPval="-28.1" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig="0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S416" CDS complement(1234510..1234908) /gene="yjbI" /locus_tag="BSU_11560" /old_locus_tag="BSU11560" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15866723, 17293416; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative thiol management oxidoreductase component" /protein_id="NP_389038.1" /db_xref="EnsemblGenomes-Gn:BSU11560" /db_xref="EnsemblGenomes-Tr:CAB13013" /db_xref="GOA:O31607" /db_xref="InterPro:IPR001486" /db_xref="InterPro:IPR009050" /db_xref="InterPro:IPR019795" /db_xref="PDB:1UX8" /db_xref="SubtiList:BG13138" /db_xref="UniProtKB/Swiss-Prot:O31607" /translation="MGQSFNAPYEAIGEELLSQLVDTFYERVASHPLLKPIFPSDLTE TARKQKQFLTQYLGGPPLYTEEHGHPMLRARHLPFPITNERADAWLSCMKDAMDHVGL EGEIREFLFGRLELTARHMVNQTEAEDRSS*" gene complement(1234510..1234908) /gene="yjbI" /locus_tag="BSU_11560" /old_locus_tag="BSU11560" S_feature complement(1234909..1235088) /Source="Nicolas_S_feature" /locus_tag="new_1234909_1235088_c" /HighExp="Diami, dia5, dia15, Etha, H2O2, C90, LoTm, Heat, Salt, M0t90" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="SigD, SigA" /TUlongPSig="1, 0.999" /label="S417" promotor_-10 complement(1235080..1235099) /Source="Nicolas_upshift_promotors" /id="U937" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.98101898101898" /psig=1 /xcortree=1912 /SigmaFactorBS="tccctctggtttttttgcgaagtgaaatctTACGCATTcctg atttttaTGTGATATGATATGAAATACaaaccccggctgtcagccgaaatgagtcatc a" /listShort="S417, yjbI, yjbH" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1235088) /Source="Nicolas_upshifts" /id="U937" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.98101898101898" /psig=1 /xcortree=1912 /SigmaFactorBS="tccctctggtttttttgcgaagtgaaatctTACGCATTcctg atttttaTGTGATATGATATGAAATACaaaccccggctgtcagccgaaatgagtcatc a" /listShort="S417, yjbI, yjbH" /GFF_Attribute="listLong" promotor_-35 complement(1235111..1235118) /Source="Nicolas_upshift_promotors" /id="U937" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.98101898101898" /psig=1 /xcortree=1912 /SigmaFactorBS="tccctctggtttttttgcgaagtgaaatctTACGCATTcctg atttttaTGTGATATGATATGAAATACaaaccccggctgtcagccgaaatgagtcatc a" /listShort="S417, yjbI, yjbH" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1235163..1235708) /gene="cwlQ" /locus_tag="BSU_11570" /old_locus_tag="BSU11570" /EC_number="3.2.1.-" /EC_number="3.2.1.17" /function="16.5: Explore" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:20609359" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 20609359; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="bifunctional muramidase and murein lytic transglycosylase" /protein_id="NP_389039.1" /db_xref="EnsemblGenomes-Gn:BSU11570" /db_xref="EnsemblGenomes-Tr:CAB13014" /db_xref="GOA:O31608" /db_xref="InterPro:IPR000189" /db_xref="InterPro:IPR008258" /db_xref="InterPro:IPR023346" /db_xref="SubtiList:BG13139" /db_xref="UniProtKB/Swiss-Prot:O31608" /translation="MLNSANTTAPSLLSAYGLNSYTSSNSGSVTKAAESTETAVADSA SNKHEANQIRSGDFSIDSAIKKAADKYGVDEKLIRAVIKQESGFNAKAVSGAGAMGLM QLMPSTASSLGVSNPLDPQQNVEGGTKYLKQMLDKYDGNVSMALAAYNAGPGNVDRYG GIPPFQETQNYVKKITSVYYA*" gene complement(1235163..1235708) /gene="cwlQ" /locus_tag="BSU_11570" /old_locus_tag="BSU11570" downshifts complement(1235187) /Source="Nicolas_upshifts" /id="D631" /incds=0 /nref=101 /ntot=222 /MaxReadThrough="4.1014" /MaxDrop="5.00847" /score="6.97790581" /energy="-9.1" /TU="U938,U939" /idTUdmin="U938" /TUdmin="-90" /isTUend="FALSE" S_feature complement(1235709..1235911) /Source="Nicolas_S_feature" /locus_tag="new_1235709_1235911_c" /HighExp="T0.30H, Gly, C90, GM 10, GM 45, M0t90, Lbstat, C30, Lbtran, GM 25" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigD, SigA" /TUshortPSig="1, 0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S418" CDS complement(1235912..1236484) /gene="yjbK" /locus_tag="BSU_11580" /old_locus_tag="BSU11580" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 9642185, 12456267, 16905149, 20509597, 26904951, 27881678; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="putative RNA/thiamine triphosphatase" /protein_id="NP_389040.1" /db_xref="EnsemblGenomes-Gn:BSU11580" /db_xref="EnsemblGenomes-Tr:CAB13015" /db_xref="GOA:O31609" /db_xref="InterPro:IPR009195" /db_xref="InterPro:IPR023577" /db_xref="InterPro:IPR033469" /db_xref="SubtiList:BG13140" /db_xref="UniProtKB/Swiss-Prot:O31609" /translation="MSQEIEIEFKNMLTKQEFKNIASALQLTEKDFTDQKNHYFDTDS FALKQKHAALRIRRKNGKYVLTLKEPADVGLLETHQQLSEVSDLAGFSVPEGPVKDQL HKLQIDTDAIQYFGSLATNRAEKETEKGLIVLDHSRYLNKEDYEIEFEAADWHEGRQA FEKLLQQFSIPQRETKNKILRFYEEKRKSI*" gene complement(1235912..1236484) /gene="yjbK" /locus_tag="BSU_11580" /old_locus_tag="BSU11580" promotor_-10 complement(1236057..1236075) /Source="Nicolas_upshift_promotors" /id="U938" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2803 /SigmaFactorBS="caaaccgtgcggaaaaagaaacagaaaaaggCTTAATAGttt tagaccacaGCCGATATTTAAATAAAGAggactatgaaattgaatttgaggcggcgga t" /listShort="S418, yjbJ" /listLong="S417, yjbI, yjbH" /label="promotor_-10" upshifts complement(1236066) /Source="Nicolas_upshifts" /id="U938" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2803 /SigmaFactorBS="caaaccgtgcggaaaaagaaacagaaaaaggCTTAATAGttt tagaccacaGCCGATATTTAAATAAAGAggactatgaaattgaatttgaggcggcgga t" /listShort="S418, yjbJ" /listLong="S417, yjbI, yjbH" promotor_-35 complement(1236088..1236095) /Source="Nicolas_upshift_promotors" /id="U938" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2803 /SigmaFactorBS="caaaccgtgcggaaaaagaaacagaaaaaggCTTAATAGttt tagaccacaGCCGATATTTAAATAAAGAggactatgaaattgaatttgaggcggcgga t" /listShort="S418, yjbJ" /listLong="S417, yjbI, yjbH" /label="promotor_-35" promotor_-10 complement(1236513..1236532) /Source="Nicolas_upshift_promotors" /id="U939" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.782217782217782" /psig="0.999000999001" /xcortree=2255 /SigmaFactorBS="acaaagtacagattcattttatcatatcgagctcgaTATTGA TAaacctaacatctaaAGAGATAATAGTAAAAATAAgatttacagggcggaaaggaag a" /listShort="yjbK, S418, yjbJ" /listLong="S417, yjbI, yjbH" /label="promotor_-10" upshifts complement(1236530) /Source="Nicolas_upshifts" /id="U939" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.782217782217782" /psig="0.999000999001" /xcortree=2255 /SigmaFactorBS="acaaagtacagattcattttatcatatcgagctcgaTATTGA TAaacctaacatctaaAGAGATAATAGTAAAAATAAgatttacagggcggaaaggaag a" /listShort="yjbK, S418, yjbJ" /listLong="S417, yjbI, yjbH" promotor_-35 1236546..1236549 /Source="Nicolas_upshift_promotors" /id="U940" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.534465534465534" /psig="0.994005994005994" /xcortree=2570 /SigmaFactorBS="ccctgtaaatcttatttttactattatctctttagatgttag gtTTATcaatatcgagctcgaTATGATAAAATGAATCTGTActttgtttaaaaaagga g" /listShort="yjbL, yjbM, ppnKA, yjbO" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 complement(1236547..1236554) /Source="Nicolas_upshift_promotors" /id="U939" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.782217782217782" /psig="0.999000999001" /xcortree=2255 /SigmaFactorBS="acaaagtacagattcattttatcatatcgagctcgaTATTGA TAaacctaacatctaaAGAGATAATAGTAAAAATAAgatttacagggcggaaaggaag a" /listShort="yjbK, S418, yjbJ" /listLong="S417, yjbI, yjbH" /label="promotor_-35" upshifts 1236562 /Source="Nicolas_upshifts" /id="U940" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.534465534465534" /psig="0.994005994005994" /xcortree=2570 /SigmaFactorBS="ccctgtaaatcttatttttactattatctctttagatgttag gtTTATcaatatcgagctcgaTATGATAAAATGAATCTGTActttgtttaaaaaagga g" /listShort="yjbL, yjbM, ppnKA, yjbO" /GFF_Attribute="listLong" promotor_-10 1236565..1236584 /Source="Nicolas_upshift_promotors" /id="U940" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.534465534465534" /psig="0.994005994005994" /xcortree=2570 /SigmaFactorBS="ccctgtaaatcttatttttactattatctctttagatgttag gtTTATcaatatcgagctcgaTATGATAAAATGAATCTGTActttgtttaaaaaagga g" /listShort="yjbL, yjbM, ppnKA, yjbO" /GFF_Attribute="listLong" /label="promotor_-10" CDS 1236609..1236977 /gene="yjbL" /locus_tag="BSU_11590" /old_locus_tag="BSU11590" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 22333191; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_389041.1" /db_xref="EnsemblGenomes-Gn:BSU11590" /db_xref="EnsemblGenomes-Tr:CAB13016" /db_xref="InterPro:IPR020908" /db_xref="SubtiList:BG13141" /db_xref="UniProtKB/Swiss-Prot:O31610" /translation="MQNRIEILNATLSDDQLRLACQTEGNEAERKPSGQMLVDSDHFA FVYILELADSFEYVIIKEHVWPELKQAHAQKIPVVLEAGDQTIELAGLHEELEYLLEN IKDNANYGEEMEEKVKRVFL*" gene 1236609..1236977 /gene="yjbL" /locus_tag="BSU_11590" /old_locus_tag="BSU11590" CDS 1237006..1237641 /gene="relP" /locus_tag="BSU_11600" /old_locus_tag="BSU11600" /EC_number="2.7.6.5" /function="16.1: Circulate" /function="16.14: Store" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:17714452, 18067544, 19447912, 24163341, 25331430, 26825398" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 17714452, 18067544, 19447912, 24163341, 25331430, 26825398; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="(p)ppGpp synthetase" /protein_id="NP_389042.1" /db_xref="EnsemblGenomes-Gn:BSU11600" /db_xref="EnsemblGenomes-Tr:CAB13017" /db_xref="GOA:O31611" /db_xref="InterPro:IPR007685" /db_xref="PDB:5DEC" /db_xref="PDB:5DED" /db_xref="PDB:5F2V" /db_xref="SubtiList:BG13142" /db_xref="UniProtKB/Swiss-Prot:O31611" /translation="MDDKQWERFLVPYRQAVEELKVKLKGIRTLYEYEDDHSPIEFVT GRVKPVASILEKARRKSIPLHEIETMQDIAGLRIMCQFVDDIQIVKEMLFARKDFTVV DQRDYIAEHKESGYRSYHLVVLYPLQTVSGEKHVLVEIQIRTLAMNFWATIEHSLNYK YSGNIPEKVKLRLQRASEAASRLDEEMSEIRGEVQEAQAAFSRKKKGSEQQ*" gene 1237006..1237641 /gene="relP" /locus_tag="BSU_11600" /old_locus_tag="BSU11600" CDS 1237660..1238460 /gene="ppnKA" /locus_tag="BSU_11610" /old_locus_tag="BSU11610" /EC_number="2.7.1.23" /function="16.14: Store" /function="16.7: Manage energy" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:12682299, 12897004, 16233726, 16511117, 18720024, 24048943" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12682299, 12897004, 16233726, 16511117, 18720024, 24048943; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="inorganic polyphosphate/ATP-NAD kinase (quinolate activated)" /protein_id="NP_389043.1" /db_xref="EnsemblGenomes-Gn:BSU11610" /db_xref="EnsemblGenomes-Tr:CAB13018" /db_xref="GOA:O31612" /db_xref="InterPro:IPR002504" /db_xref="InterPro:IPR016064" /db_xref="InterPro:IPR017437" /db_xref="InterPro:IPR017438" /db_xref="SubtiList:BG13143" /db_xref="UniProtKB/Swiss-Prot:O31612" /translation="MKFAVSSKGDQVSDTLKSKIQAYLLDFDMELDENEPEIVISVGG DGTLLYAFHRYSDRLDKTAFVGVHTGHLGFYADWVPHEIEKLVLAIAKTPYHTVEYPL LEVIVTYHENEREERYLALNECTIKSIEGSLVADVEIKGQLFETFRGDGLCLSTPSGS TAYNKALGGAIIHPSIRAIQLAEMASINNRVFRTVGSPLLLPSHHDCMIKPRNEVDFQ VTIDHLTLLHKDVKSIRCQVASEKVRFARFRPFPFWKRVQDSFIGKGE*" gene 1237660..1238460 /gene="ppnKA" /locus_tag="BSU_11610" /old_locus_tag="BSU11610" CDS 1238523..1239374 /gene="yjbO" /locus_tag="BSU_11620" /old_locus_tag="BSU11620" /EC_number="5.4.99.-" /function="16.8: Protect" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); Product type e: enzyme" /codon_start=1 /transl_table=11 /product="pseudouridylate synthase" /protein_id="NP_389044.1" /db_xref="EnsemblGenomes-Gn:BSU11620" /db_xref="EnsemblGenomes-Tr:CAB13019" /db_xref="GOA:O31613" /db_xref="InterPro:IPR002942" /db_xref="InterPro:IPR006145" /db_xref="InterPro:IPR006224" /db_xref="InterPro:IPR006225" /db_xref="InterPro:IPR020103" /db_xref="SubtiList:BG13144" /db_xref="UniProtKB/Swiss-Prot:O31613" /translation="MTVKEYAGELGISKRLLTDIKFGGGDLQINGEHVTVKYVLKEGD LLIVKFPEEQVSETLLAEPVPLDILYEDEHVLVINKQPYVSSIPSREHPSGSIANGII DHYQTTGVRATVHLVTRLDRDTSGIMLVAKHRFAHSILSSAQKNGLVKRRYAAVVHGR MAQMEGTVDAPIGRHPDSIIERTVTPDGQKAVTHFYVTCANDDMTSVALQLETGRTHQ IRVHMSYLGHPLCGDTLYGGTRQEIGRQALHSEHLSFIHPLTQENMRFHAPLPQDMSK LIKGENH*" gene 1238523..1239374 /gene="yjbO" /locus_tag="BSU_11620" /old_locus_tag="BSU11620" downshifts 1239333 /Source="Nicolas_upshifts" /id="D632" /incds=0 /nref=203 /ntot=256 /MaxReadThrough="0.25796" /MaxDrop="5.73002" /score="21.4914497" /energy="-12.8" /TU="NA" /idTUdmin="U940" /TUdmin=0 /isTUend="TRUE" CDS complement(1239387..1240121) /gene="prpE" /locus_tag="BSU_11630" /old_locus_tag="BSU11630" /EC_number="3.6.1.17" /function="16.3: Control" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:12059787, 16740944, 21092197, 23824080, 28516732" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12059787, 16740944, 21092197, 23824080, 28516732; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="phosphorylated protein phosphatase E and diadenosine-polyphosphate hydrolase" /protein_id="NP_389045.1" /db_xref="EnsemblGenomes-Gn:BSU11630" /db_xref="EnsemblGenomes-Tr:CAB13020" /db_xref="GOA:O31614" /db_xref="InterPro:IPR004843" /db_xref="InterPro:IPR023937" /db_xref="InterPro:IPR029052" /db_xref="SubtiList:BG13145" /db_xref="UniProtKB/Swiss-Prot:O31614" /translation="MAYDIISDIHGCYDEMTALIQKLGYTIKNGVPVHEEGRVLVFAG DLTDRGPKSIEVIRFVAGAYEKGAVRYVPGNHCNKLYRYLKGNPVKVMHGLETTAAEL EELSKDEKKSVSEQFMKLYETAPLYDILHNGELVVAHAGIRADDIGKYTRRVKDFVLY GDVTGETYPDGRPIRRDWAAAYNGKAWVVYGHTPVKEPRKVNRTINIDTGCVFGNQLT GFRFPEIETVSVPSSLPYDESRFRPI*" gene complement(1239387..1240121) /gene="prpE" /locus_tag="BSU_11630" /old_locus_tag="BSU11630" downshifts complement(1239409) /Source="Nicolas_upshifts" /id="D633" /incds=0 /nref=22 /ntot=152 /MaxReadThrough="1.18091" /MaxDrop="3.57735" /score="3.24324561" /energy="-12.8" /TU="NA" /idTUdmin="U938" /TUdmin="-4312" /isTUend="FALSE" promotor_-35 1240243..1240247 /Source="Nicolas_upshift_promotors" /id="U941" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.768231768231768" /psig="0.996003996003996" /xcortree=1820 /SigmaFactorBS="ttctaaacaggattaagaccttatcACTTTatttttcatcat caccCTTGTTAAAATCGCGTTATGttttttaaaaatgaggttttgttctctgagtgag a" /listShort="S419, yjbQ, NA" /listLong="tenA, tenI, thiO, thiS, thiG, thiF, thiD, fabI" /label="promotor_-35" promotor_-10 1240264..1240283 /Source="Nicolas_upshift_promotors" /id="U941" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.768231768231768" /psig="0.996003996003996" /xcortree=1820 /SigmaFactorBS="ttctaaacaggattaagaccttatcACTTTatttttcatcat caccCTTGTTAAAATCGCGTTATGttttttaaaaatgaggttttgttctctgagtgag a" /listShort="S419, yjbQ, NA" /listLong="tenA, tenI, thiO, thiS, thiG, thiF, thiD, fabI" /label="promotor_-10" upshifts 1240278 /Source="Nicolas_upshifts" /id="U941" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.768231768231768" /psig="0.996003996003996" /xcortree=1820 /SigmaFactorBS="ttctaaacaggattaagaccttatcACTTTatttttcatcat caccCTTGTTAAAATCGCGTTATGttttttaaaaatgaggttttgttctctgagtgag a" /listShort="S419, yjbQ, NA" /listLong="tenA, tenI, thiO, thiS, thiG, thiF, thiD, fabI" S_feature 1240279..1240355 /Source="Nicolas_S_feature" /locus_tag="new_1240279_1240355" /HighExp="H2O2, Diami, dia15, Paraq, Oxctl, Heat, G180, Salt, BMM, G135" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.996" /TUlongSig="NA" /TUlongPSig="NA" /label="S419" CDS 1240356..1242200 /gene="kefQ" /locus_tag="BSU_11640" /old_locus_tag="BSU11640" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 15849754, 16850406, 21742892, 24330391; Product type t: transporter" /codon_start=1 /transl_table=11 /product="gated K+/H+ antiporter" /protein_id="NP_389046.1" /db_xref="EnsemblGenomes-Gn:BSU11640" /db_xref="EnsemblGenomes-Tr:CAB13021" /db_xref="GOA:O31615" /db_xref="InterPro:IPR003148" /db_xref="InterPro:IPR006037" /db_xref="InterPro:IPR006153" /db_xref="InterPro:IPR036291" /db_xref="InterPro:IPR036721" /db_xref="SubtiList:BG13146" /db_xref="UniProtKB/Swiss-Prot:O31615" /translation="MAHTSVASLVVVLIVAFLTPILLHRFKLSIPVVVAEIIMGLIIG KSGLNLVVEGDTWLQTLSMLGFIFLMFLSGLEIDFSSFEKGKKKQFLPNGKEAPNTFA AASVIFVGIFILSLLLSYGFVLAGFIQNAFLMTLIISTISLGVVVPTLKEERIMNSNI GQIILLVAVIADLATMILLAVFSSLYGEDSGNMWLLMILFAAGVVLYFFGRVFKHRSF VQSMSKGTIQIGTRAIFTLIIVLVALSESLGAENILGAFLAGVLVSLLSPNKELVQQL DSFGYGFLIPIFFVMVGVKLDIWTLFQDKTILIMIPLLLLALLVSKIIPVMYLKKWYD NRTIFASGFLLTSTLSLVIAAATIGQQLHVISTNMSGALILVAVIASIFTPICFKKLY KREEQPEEKKTITFIGANQMTLPVTLELPEEEYDVRVVHVYQENAEEKLSESVFAVET ISDYEHETLESLGIFETDILVVATGNEDMNADIALLAKDKGTERVIASVGSPEHEAAL KEQGISIFSILLSTKTLLRALIEAPGVMKLLTNQESSLYQINMENSKYDGVILREFPL TGDVIFVRIFRGVDSIVPHGDTRLKLGDRLIVTGSRGYVTDLKKTLEG*" gene 1240356..1242200 /gene="kefQ" /locus_tag="BSU_11640" /old_locus_tag="BSU11640" misc_feature complement(1240683..1240702) /Source="Nicolas_upshift_promotors" /id="U942" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.995004995004995" /psig="0.996003996003996" /xcortree=3108 /SigmaFactorBS="taatcagggtcatcaaaaatgcattttggataaatccggcca agacgaacccataggacaagagcAATGATAAAATAAAAATACCgacgaaaataacaga t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(1240707) /Source="Nicolas_upshifts" /id="U942" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.995004995004995" /psig="0.996003996003996" /xcortree=3108 /SigmaFactorBS="taatcagggtcatcaaaaatgcattttggataaatccggcca agacgaacccataggacaagagcAATGATAAAATAAAAATACCgacgaaaataacaga t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 1242202..1242209 /Source="Nicolas_upshift_promotors" /id="U943" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.878121878121878" /psig="0.999000999001" /xcortree=2884 /SigmaFactorBS="taacggatcttaagaaaacattggaaggataaaTCTTGACCa aataaggattcgTGTTAATATAGAGGTGCAGAacaattcaatatgtattcgtttaacc a" /listShort="NA, tenA, tenI, thiO, thiS, thiG, thiF, thiD" /listLong="fabI" /label="promotor_-35" promotor_-10 1242223..1242242 /Source="Nicolas_upshift_promotors" /id="U943" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.878121878121878" /psig="0.999000999001" /xcortree=2884 /SigmaFactorBS="taacggatcttaagaaaacattggaaggataaaTCTTGACCa aataaggattcgTGTTAATATAGAGGTGCAGAacaattcaatatgtattcgtttaacc a" /listShort="NA, tenA, tenI, thiO, thiS, thiG, thiF, thiD" /listLong="fabI" /label="promotor_-10" upshifts 1242229 /Source="Nicolas_upshifts" /id="U943" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.878121878121878" /psig="0.999000999001" /xcortree=2884 /SigmaFactorBS="taacggatcttaagaaaacattggaaggataaaTCTTGACCa aataaggattcgTGTTAATATAGAGGTGCAGAacaattcaatatgtattcgtttaacc a" /listShort="NA, tenA, tenI, thiO, thiS, thiG, thiF, thiD" /listLong="fabI" misc_RNA 1242262..1242370 /gene="tswA" /locus_tag="BSU_misc_RNA_14" /product="thiamine pyrophosphate riboswitch" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 11470904, 12410317, 15862294, 16728979, 16962976, 17307816, 18179415, 18776013; Product type n: RNA" /function="16.3: Control" gene 1242262..1242370 /gene="tswA" /locus_tag="BSU_misc_RNA_14" downshifts 1242365 /Source="Nicolas_upshifts" /id="D634" /incds=0 /nref=20 /ntot=84 /MaxReadThrough="7.67021" /MaxDrop="5.27759" /score="34.8346124" /energy="-12.5" /TU="U943" /idTUdmin="U941" /TUdmin="-4" /isTUend="TRUE" CDS 1242449..1243159 /gene="tenA" /locus_tag="BSU_11650" /old_locus_tag="BSU11650" /EC_number="3.5.99.2" /function="4.11: Thiamine" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:15709744, 15858269, 16356850, 17618314, 18054064, 24311574" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15709744, 15858269, 16356850, 17618314, 18054064, 24311574; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="thiaminase II" /protein_id="NP_389047.1" /db_xref="EnsemblGenomes-Gn:BSU11650" /db_xref="EnsemblGenomes-Tr:CAB13022" /db_xref="GOA:P25052" /db_xref="InterPro:IPR004305" /db_xref="InterPro:IPR016084" /db_xref="InterPro:IPR027574" /db_xref="PDB:1TO9" /db_xref="PDB:1TYH" /db_xref="PDB:1YAF" /db_xref="PDB:1YAK" /db_xref="PDB:2QCX" /db_xref="SubtiList:BG10791" /db_xref="UniProtKB/Swiss-Prot:P25052" /translation="MKFSEECRSAAAEWWEGSFVHPFVQGIGDGTLPIDRFKYYVLQD SYYLTHFAKVQSFGAAYAKDLYTTGRMASHAQGTYEAEMALHREFAELLEISEEERKA FKPSPTAYSYTSHMYRSVLSGNFAEILAALLPCYWLYYEVGEKLLHCDPGHPIYQKWI GTYGGDWFRQQVEEQINRFDELAENSTEEVRAKMKENFVISSYYEYQFWGMAYRKEGW SDSAIKEVEECGASRHNG*" gene 1242449..1243159 /gene="tenA" /locus_tag="BSU_11650" /old_locus_tag="BSU11650" CDS 1243134..1243751 /gene="tenI" /locus_tag="BSU_11660" /old_locus_tag="BSU11660" /EC_number="5.3.99.10" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:15709744, 15858269, 16356850, 21534620" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15709744, 15858269, 16356850, 21534620; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="thiazole tautomerase" /protein_id="NP_389048.1" /db_xref="EnsemblGenomes-Gn:BSU11660" /db_xref="EnsemblGenomes-Tr:CAB13023" /db_xref="GOA:P25053" /db_xref="InterPro:IPR013785" /db_xref="InterPro:IPR022998" /db_xref="InterPro:IPR036206" /db_xref="PDB:1YAD" /db_xref="PDB:3QH2" /db_xref="SubtiList:BG10792" /db_xref="UniProtKB/Swiss-Prot:P25053" /translation="MELHAITDDSKPVEELARIIITIQNEVDFIHIRERSKSAADILK LLDLIFEGGIDKRKLVMNGRVDIALFSTIHRVQLPSGSFSPKQIRARFPHLHIGRSVH SLEEAVQAEKEDADYVLFGHVFETDCKKGLEGRGVSLLSDIKQRISIPVIAIGGMTPD RLRDVKQAGADGIAVMSGIFSSAEPLEAARRYSRKLKEMRYEKAL*" gene 1243134..1243751 /gene="tenI" /locus_tag="BSU_11660" /old_locus_tag="BSU11660" CDS 1243735..1244844 /gene="thiO" /locus_tag="BSU_11670" /old_locus_tag="BSU11670" /EC_number="1.4.3.19" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:9827558, 11744710, 12627963, 15105420, 19751796, 26443755" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9827558, 11744710, 12627963, 15105420, 19751796, 26443755; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="FAD-dependent glycine oxidase" /protein_id="NP_389049.1" /db_xref="EnsemblGenomes-Gn:BSU11670" /db_xref="EnsemblGenomes-Tr:CAB13024" /db_xref="GOA:O31616" /db_xref="InterPro:IPR006076" /db_xref="InterPro:IPR012727" /db_xref="InterPro:IPR036188" /db_xref="PDB:1NG3" /db_xref="PDB:1NG4" /db_xref="PDB:1RYI" /db_xref="PDB:3IF9" /db_xref="SubtiList:BG13147" /db_xref="UniProtKB/Swiss-Prot:O31616" /translation="MKRHYEAVVIGGGIIGSAIAYYLAKENKNTALFESGTMGGRTTS AAAGMLGAHAECEERDAFFDFAMHSQRLYKGLGEELYALSGVDIRQHNGGMFKLAFSE EDVLQLRQMDDLDSVSWYSKEEVLEKEPYASGDIFGASFIQDDVHVEPYFVCKAYVKA AKMLGAEIFEHTPVLHVERDGEALFIKTPSGDVWANHVVVASGVWSGMFFKQLGLNNA FLPVKGECLSVWNDDIPLTKTLYHDHCYIVPRKSGRLVVGATMKPGDWSETPDLGGLE SVMKKAKTMLPAIQNMKVDRFWAGLRPGTKDGKPYIGRHPEDSRILFAAGHFRNGILL APATGALISDLIMNKEVNQDWLHAFRIDRKEAVQI*" gene 1243735..1244844 /gene="thiO" /locus_tag="BSU_11670" /old_locus_tag="BSU11670" CDS 1244844..1245044 /gene="thiS" /locus_tag="BSU_11680" /old_locus_tag="BSU11680" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 10939241, 14567704, 14757766, 15489164, 22616866, 26443755; Product type c : carrier" /codon_start=1 /transl_table=11 /product="sulfur carrier for synthesis of hydroxyethylthiazole phosphate" /protein_id="NP_389050.1" /db_xref="EnsemblGenomes-Gn:BSU11680" /db_xref="EnsemblGenomes-Tr:CAB13025" /db_xref="GOA:O31617" /db_xref="InterPro:IPR003749" /db_xref="InterPro:IPR010035" /db_xref="InterPro:IPR012675" /db_xref="InterPro:IPR016155" /db_xref="PDB:1TYG" /db_xref="SubtiList:BG13148" /db_xref="UniProtKB/Swiss-Prot:O31617" /translation="MLQLNGKDVKWKKDTGTIQDLLASYQLENKIVIVERNKEIIGKE RYHEVELCDRDVIEIVHFVGGG*" gene 1244844..1245044 /gene="thiS" /locus_tag="BSU_11680" /old_locus_tag="BSU11680" CDS 1245041..1245811 /gene="thiG" /locus_tag="BSU_11690" /old_locus_tag="BSU11690" /EC_number="2.8.1.10" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:10939241, 12627963, 14567704, 14757766, 15489164, 22938038" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10939241, 12627963, 14567704, 14757766, 15489164, 22938038; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="hydroxyethylthiazole phosphate synthetase (thiamine biosynthesis)" /protein_id="NP_389051.1" /db_xref="EnsemblGenomes-Gn:BSU11690" /db_xref="EnsemblGenomes-Tr:CAB13026" /db_xref="GOA:O31618" /db_xref="InterPro:IPR008867" /db_xref="InterPro:IPR013785" /db_xref="InterPro:IPR033983" /db_xref="PDB:1TYG" /db_xref="PDB:1XM3" /db_xref="SubtiList:BG13149" /db_xref="UniProtKB/Swiss-Prot:O31618" /translation="MSMLTIGGKSFQSRLLLGTGKYPSFDIQKEAVAVSESDILTFAV RRMNIFEASQPNFLEQLDLSKYTLLPNTAGASTAEEAVRIARLAKASGLCDMIKVEVI GCSRSLLPDPVETLKASEQLLEEGFIVLPYTSDDVVLARKLEELGVHAIMPGASPIGS GQGILNPLNLSFIIEQAKVPVIVDAGIGSPKDAAYAMELGADGVLLNTAVSGADDPVK MARAMKLAVEAGRLSYEAGRIPLKQYGTASSPGEGLPV*" gene 1245041..1245811 /gene="thiG" /locus_tag="BSU_11690" /old_locus_tag="BSU11690" CDS 1245808..1246818 /gene="thiF" /locus_tag="BSU_11700" /old_locus_tag="BSU11700" /EC_number="2.7.7.73" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:10939241, 14567704, 14757766, 15489164, 16388576, 26443755" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10939241, 14567704, 14757766, 15489164, 16388576, 26443755; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="adenylate transferase and sulfur transferase (thiamine biosynthesis)" /protein_id="NP_389052.1" /db_xref="EnsemblGenomes-Gn:BSU11700" /db_xref="EnsemblGenomes-Tr:CAB13027" /db_xref="GOA:O31619" /db_xref="InterPro:IPR000594" /db_xref="InterPro:IPR035985" /db_xref="SubtiList:BG13150" /db_xref="UniProtKB/Swiss-Prot:O31619" /translation="MTGRYSRQELFAPIGPSGQKKLKEARAVIIGAGALGTASAEMLV RAGVGSVKIADRDYVEWSNLQRQQLYTEDDVKKEMPKAAAAERRLRSINSDVDVTGLV MDVTAENIFELIRDASIIVDAADNFETRLIVNDAAVKEGIPFLYGACVGSYGLTFTVV PGSTPCLHCLLDALPIGGATCDTAGIISPAVLQVAVFQVTDALKLLTGEECEPVLRSF DLWKNERSEVRAASLKHDACPSCGTKDFPFLSYENQTKAAVLCGRNTVQIRSSITKEA DLEALAGQLRQAGLEVAANPYLISCRSDDMKMVLFRDGRALIHGTNDIARAKSIYHKW IG*" gene 1245808..1246818 /gene="thiF" /locus_tag="BSU_11700" /old_locus_tag="BSU11700" CDS 1246837..1247652 /gene="thiD" /locus_tag="BSU_11710" /old_locus_tag="BSU11710" /EC_number="2.7.4.7" /EC_number="2.7.1.49" /function="16.11: Scavenge (Catabolism)" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:10939241, 12627963, 14973012, 16952958, 17012797, 26443755" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10939241, 12627963, 14973012, 16952958, 17012797, 26443755; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="phosphomethylpyrimidine kinase, 4-amino-5-hydroxymethyl-2-methylpyrimidine and 4-amino-5-hydroxymethyl-2-methylpyrimidine pyrophosphate kinase" /protein_id="NP_389053.1" /db_xref="EnsemblGenomes-Gn:BSU11710" /db_xref="EnsemblGenomes-Tr:CAB13028" /db_xref="GOA:O31620" /db_xref="InterPro:IPR004399" /db_xref="InterPro:IPR013749" /db_xref="InterPro:IPR029056" /db_xref="SubtiList:BG13151" /db_xref="UniProtKB/Swiss-Prot:O31620" /translation="MSIYKALTIAGSDSGGGAGIQADIKTFQELDVFGMSAITAVTAQ NTLGVHGVHPLTVETLRQQIDAVAEDLRPDAVKTGMLWNADMIEEVARKIDEYGFNRV IVDPVMIAKGGASLLRDESVATLKELLIPRSYAITPNVPEAETLTGMTISSLDDRKKA AEQLVKMGAQHVIIKGGHQPEDNHITDLLFDGSMFMQITHPYINTKHTHGTGCTFAAA LTAQTAKGDSIHQAFEVAANFVREAVENTLGIGSGHGPTNHFAFKRNSLNTSR*" gene 1246837..1247652 /gene="thiD" /locus_tag="BSU_11710" /old_locus_tag="BSU11710" downshifts 1247626 /Source="Nicolas_upshifts" /id="D635" /incds=0 /nref=128 /ntot=172 /MaxReadThrough="3.33485" /MaxDrop="5.0154" /score="3.40314581" /energy="-14.8" /TU="U943" /idTUdmin="U943" /TUdmin="-89" /isTUend="FALSE" promotor_-35 1247699..1247705 /Source="Nicolas_upshift_promotors" /id="U944" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.619380619380619" /psig=1 /xcortree=2189 /SigmaFactorBS="gtgatctcttttgcgtttgctacggtatgcgCTTTTCAtctg gacaaggtTATGATATGATAGGAATTAAgatcaggtactaatactatgtctttattaa a" /listShort="fabI, cotO" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1247718..1247737 /Source="Nicolas_upshift_promotors" /id="U944" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.619380619380619" /psig=1 /xcortree=2189 /SigmaFactorBS="gtgatctcttttgcgtttgctacggtatgcgCTTTTCAtctg gacaaggtTATGATATGATAGGAATTAAgatcaggtactaatactatgtctttattaa a" /listShort="fabI, cotO" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1247728 /Source="Nicolas_upshifts" /id="U944" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.619380619380619" /psig=1 /xcortree=2189 /SigmaFactorBS="gtgatctcttttgcgtttgctacggtatgcgCTTTTCAtctg gacaaggtTATGATATGATAGGAATTAAgatcaggtactaatactatgtctttattaa a" /listShort="fabI, cotO" /GFF_Attribute="listLong" CDS 1247788..1248564 /gene="fabI" /locus_tag="BSU_11720" /old_locus_tag="BSU11720" /EC_number="1.3.1.9" /function="16.2: Construct biomass (Anabolism)" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:11007778, 15105103, 21185310, 25355936" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11007778, 15105103, 21185310, 25355936; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="enoyl-acyl carrier protein reductase" /protein_id="NP_389054.2" /db_xref="EnsemblGenomes-Gn:BSU11720" /db_xref="EnsemblGenomes-Tr:CAB13029" /db_xref="GOA:P54616" /db_xref="InterPro:IPR002347" /db_xref="InterPro:IPR014358" /db_xref="InterPro:IPR036291" /db_xref="PDB:3OIF" /db_xref="PDB:3OIG" /db_xref="SubtiList:BG13152" /db_xref="UniProtKB/Swiss-Prot:P54616" /translation="MNFSLEGRNIVVMGVANKRSIAWGIARSLHEAGARLIFTYAGER LEKSVHELAGTLDRNDSIILPCDVTNDAEIETCFASIKEQVGVIHGIAHCIAFANKEE LVGEYLNTNRDGFLLAHNISSYSLTAVVKAARPMMTEGGSIVTLTYLGGELVMPNYNV MGVAKASLDASVKYLAADLGKENIRVNSISAGPIRTLSAKGISDFNSILKDIEERAPL RRTTTPEEVGDTAAFLFSDMSRGITGENLHVDSGFHITAR*" gene 1247788..1248564 /gene="fabI" /locus_tag="BSU_11720" /old_locus_tag="BSU11720" downshifts 1248553 /Source="Nicolas_upshifts" /id="D636" /incds=0 /nref=229 /ntot=313 /MaxReadThrough="3.12901" /MaxDrop="6.64182" /score="33.5478109" /energy="-11.8" /TU="U944" /idTUdmin="U944" /TUdmin="-416" /isTUend="FALSE" promotor_-35 1248612..1248617 /Source="Nicolas_upshift_promotors" /id="U945" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.968031968031968" /psig="0.968031968031968" /xcortree=1095 /SigmaFactorBS="tcaagcaatcccgaatagggattgcttttttatttCTTCTGa ttttcagctttctgTCATATAGATAGAATATGAcacaatcggagggatgaagatgtct a" /listShort="cotO" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1248633..1248651 /Source="Nicolas_upshift_promotors" /id="U945" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.968031968031968" /psig="0.968031968031968" /xcortree=1095 /SigmaFactorBS="tcaagcaatcccgaatagggattgcttttttatttCTTCTGa ttttcagctttctgTCATATAGATAGAATATGAcacaatcggagggatgaagatgtct a" /listShort="cotO" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1248637 /Source="Nicolas_upshifts" /id="U945" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.968031968031968" /psig="0.968031968031968" /xcortree=1095 /SigmaFactorBS="tcaagcaatcccgaatagggattgcttttttatttCTTCTGa ttttcagctttctgTCATATAGATAGAATATGAcacaatcggagggatgaagatgtct a" /listShort="cotO" /GFF_Attribute="listLong" promotor_-10 complement(1248649..1248663) /Source="Nicolas_upshift_promotors" /id="U946" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.997002997002997" /psig="0.001998001998002" /xcortree=1241 /SigmaFactorBS="gagcggttttttatccgcgtttcttttcttattaGACATctt catcCCTCCGATTGTGTCAtattctatctatatgacagaaagctgaaaatcagaagaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1248649) /Source="Nicolas_upshifts" /id="U946" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.997002997002997" /psig="0.001998001998002" /xcortree=1241 /SigmaFactorBS="gagcggttttttatccgcgtttcttttcttattaGACATctt catcCCTCCGATTGTGTCAtattctatctatatgacagaaagctgaaaatcagaagaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" CDS 1248665..1249348 /gene="cotO" /locus_tag="BSU_11730" /old_locus_tag="BSU11730" /function="16.13: Shape" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:16321932" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16321932; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="spore outer coat protein" /protein_id="NP_389055.1" /db_xref="EnsemblGenomes-Gn:BSU11730" /db_xref="EnsemblGenomes-Tr:CAB13030" /db_xref="GOA:O31622" /db_xref="InterPro:IPR025439" /db_xref="SubtiList:BG13153" /db_xref="UniProtKB/Swiss-Prot:O31622" /translation="MKMSNKKRNADKKPLMYIVQPDYAETTRSSMQEIVIKRKADKPA PPKAEEKPAYHEKQQEEAVAQDVLQEDQKPAAEPVSQQTQEAREPENIKSQEEQKAEP QAVEETVEHEPPKAEKKEEPALEARKPEKEPEAVHSADKAEEKAPPARKVKKPMSKMT IHEKIDFLTKLPHNMPRALCLIEANGRTYRGVIVGRRNDSVLLRTTGNGAPTELAIDD ITSLHPLGF*" gene 1248665..1249348 /gene="cotO" /locus_tag="BSU_11730" /old_locus_tag="BSU11730" promotor_-35 complement(1248671..1248675) /Source="Nicolas_upshift_promotors" /id="U946" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.997002997002997" /psig="0.001998001998002" /xcortree=1241 /SigmaFactorBS="gagcggttttttatccgcgtttcttttcttattaGACATctt catcCCTCCGATTGTGTCAtattctatctatatgacagaaagctgaaaatcagaagaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 1249343 /Source="Nicolas_upshifts" /id="D637" /incds=0 /nref=4 /ntot=40 /MaxReadThrough="3.37645" /MaxDrop="4.6587" /score="18.0229289" /energy="-13.4" /TU="U945" /idTUdmin="U945" /TUdmin="-66" /isTUend="FALSE" downshifts 1249431 /Source="Nicolas_upshifts" /id="D638" /incds=0 /nref=1 /ntot=29 /MaxReadThrough="2.44926" /MaxDrop="4.55934" /score="18.0229289" /energy="-13.4" /TU="NA" /idTUdmin="U945" /TUdmin=22 /isTUend="TRUE" CDS complement(1249442..1249888) /gene="cotZ" /locus_tag="BSU_11740" /old_locus_tag="BSU11740" /function="16.13: Shape" /function="16.8: Protect" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:7519271, 8509331, 19933362, 26341943, 27320701" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7519271, 8509331, 19933362, 26341943, 27320701; Product type s: structure" /codon_start=1 /transl_table=11 /product="spore coat protein (insoluble fraction, crust layer)" /protein_id="NP_389056.1" /db_xref="EnsemblGenomes-Gn:BSU11740" /db_xref="EnsemblGenomes-Tr:CAB13031" /db_xref="GOA:Q08312" /db_xref="InterPro:IPR019593" /db_xref="SubtiList:BG10499" /db_xref="UniProtKB/Swiss-Prot:Q08312" /translation="MSQKTSSCVREAVENIEDLQNAVEEDCPTGCHSKLLSVSHSLGD TVPFAIFTSKSTPLVAFGNVGELDNGPCFNTVFFRVERVHGSCATLSLLIAFDEHKHI LDFTDKDTVCEVFRLEKTNYCIEVDLDCFCAINCLNPRLINRTHHH*" gene complement(1249442..1249888) /gene="cotZ" /locus_tag="BSU_11740" /old_locus_tag="BSU11740" downshifts complement(1249463) /Source="Nicolas_upshifts" /id="D639" /incds=0 /nref=7 /ntot=50 /MaxReadThrough="8.44444" /MaxDrop="7.17581" /score="2.03943557" /energy="-9.3" /TU="U949" /idTUdmin="U950" /TUdmin=0 /isTUend="TRUE" S_feature complement(1249889..1250015) /Source="Nicolas_S_feature" /locus_tag="new_1249889_1250015_c" /HighExp="S8, S7, S6, BT, S5, B36, G/S, Pyr, B60, SMMPr" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigK, SigEF" /TUshortPSig="1, 0.993" /TUlongSig="NA" /TUlongPSig="NA" /label="S420" CDS complement(1250016..1250504) /gene="cotY" /locus_tag="BSU_11750" /old_locus_tag="BSU11750" /function="16.13: Shape" /function="16.8: Protect" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:7519271, 8509331, 14766913, 26341943, 26821119" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7519271, 8509331, 14766913, 26341943, 26821119; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="outer spore coat protein (crust layer, insolublefraction)" /protein_id="NP_389057.1" /db_xref="EnsemblGenomes-Gn:BSU11750" /db_xref="EnsemblGenomes-Tr:CAB13032" /db_xref="GOA:Q08311" /db_xref="InterPro:IPR019593" /db_xref="SubtiList:BG10498" /db_xref="UniProtKB/Swiss-Prot:Q08311" /translation="MSCGKTHGRHENCVCDAVEKILAEQEAVEEQCPTGCYTNLLNPT IAGKDTIPFLVFDKKGGLFSTFGNVGGFVDDMQCFESIFFRVEKLCDCCATLSILRPV DVKGDTLSVCHPCDPDFFGLEKTDFCIEVDLGCFCAIQCLSPELVDRTSPHKDKKHHH NG*" gene complement(1250016..1250504) /gene="cotY" /locus_tag="BSU_11750" /old_locus_tag="BSU11750" promotor_-35 1250184..1250190 /Source="Nicolas_upshift_promotors" /id="U947" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.53046953046953" /psig="0.653346653346653" /xcortree=1630 /SigmaFactorBS="agggtggcaaacacttaaggtATCGCCTttgacatcgaccgg GCGTAAAATAGACAGTGTTGcacagcaatcgcataatttttcgacgcggaagaaaatg g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1250205..1250224 /Source="Nicolas_upshift_promotors" /id="U947" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.53046953046953" /psig="0.653346653346653" /xcortree=1630 /SigmaFactorBS="agggtggcaaacacttaaggtATCGCCTttgacatcgaccgg GCGTAAAATAGACAGTGTTGcacagcaatcgcataatttttcgacgcggaagaaaatg g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1250223 /Source="Nicolas_upshifts" /id="U947" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.53046953046953" /psig="0.653346653346653" /xcortree=1630 /SigmaFactorBS="agggtggcaaacacttaaggtATCGCCTttgacatcgaccgg GCGTAAAATAGACAGTGTTGcacagcaatcgcataatttttcgacgcggaagaaaatg g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 1250500..1250504 /Source="Nicolas_upshift_promotors" /id="U948" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.997002997002997" /psig="0.002997002997003" /xcortree=1244 /SigmaFactorBS="tctcatgccggccatgggtttttccgcagCTCATtgatttca GCTCCTTCTTTATAGggtatttgactttagtccttaacaacatatgtacccgtgcccc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1250513..1250527 /Source="Nicolas_upshift_promotors" /id="U948" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.997002997002997" /psig="0.002997002997003" /xcortree=1244 /SigmaFactorBS="tctcatgccggccatgggtttttccgcagCTCATtgatttca GCTCCTTCTTTATAGggtatttgactttagtccttaacaacatatgtacccgtgcccc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1250531 /Source="Nicolas_upshifts" /id="U948" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.997002997002997" /psig="0.002997002997003" /xcortree=1244 /SigmaFactorBS="tctcatgccggccatgggtttttccgcagCTCATtgatttca GCTCCTTCTTTATAGggtatttgactttagtccttaacaacatatgtacccgtgcccc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 complement(1250541..1250560) /Source="Nicolas_upshift_promotors" /id="U949" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1280 /SigmaFactorBS="tattttccaagcatatgatgaatatatagacgttcACCCACA CCAagtggggcacgggTACATATGTTGTTAAGGACTaaagtcaaataccctataaaga a" /listShort="cotY, S420, cotZ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1250558) /Source="Nicolas_upshifts" /id="U949" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1280 /SigmaFactorBS="tattttccaagcatatgatgaatatatagacgttcACCCACA CCAagtggggcacgggTACATATGTTGTTAAGGACTaaagtcaaataccctataaaga a" /listShort="cotY, S420, cotZ" /GFF_Attribute="listLong" promotor_-35 complement(1250574..1250583) /Source="Nicolas_upshift_promotors" /id="U949" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1280 /SigmaFactorBS="tattttccaagcatatgatgaatatatagacgttcACCCACA CCAagtggggcacgggTACATATGTTGTTAAGGACTaaagtcaaataccctataaaga a" /listShort="cotY, S420, cotZ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(1250590..1250608) /Source="Nicolas_upshift_promotors" /id="U950" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.993006993006993" /psig="0.993006993006993" /xcortree=1006 /SigmaFactorBS="cttgtcctctaggacctaaaagcagagctaaaaacgctCTGC TTtttcttattttccaaGCATATGATGAATATATAGacgttcacccacaccaagtggg g" /listShort="cotY, S420, cotZ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1250607) /Source="Nicolas_upshifts" /id="U950" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.993006993006993" /psig="0.993006993006993" /xcortree=1006 /SigmaFactorBS="cttgtcctctaggacctaaaagcagagctaaaaacgctCTGC TTtttcttattttccaaGCATATGATGAATATATAGacgttcacccacaccaagtggg g" /listShort="cotY, S420, cotZ" /GFF_Attribute="listLong" promotor_-35 complement(1250624..1250629) /Source="Nicolas_upshift_promotors" /id="U950" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.993006993006993" /psig="0.993006993006993" /xcortree=1006 /SigmaFactorBS="cttgtcctctaggacctaaaagcagagctaaaaacgctCTGC TTtttcttattttccaaGCATATGATGAATATATAGacgttcacccacaccaagtggg g" /listShort="cotY, S420, cotZ" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 1250641 /Source="Nicolas_upshifts" /id="D640" /incds=0 /nref=1 /ntot=14 /MaxReadThrough="1.28604" /MaxDrop="4.18677" /score="-9.76125107" /energy="-10.4" /TU="NA" /idTUdmin="U948" /TUdmin=22 /isTUend="TRUE" CDS complement(1250656..1251174) /gene="cotX" /locus_tag="BSU_11760" /old_locus_tag="BSU11760" /function="16.13: Shape" /function="16.8: Protect" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:7519271, 8509331, 10400595, 10788508, 12031481, 19304857, 26821119" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7519271, 8509331, 10400595, 10788508, 12031481, 19304857, 26821119; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="spore coat protein (insoluble fraction)" /protein_id="NP_389058.1" /db_xref="EnsemblGenomes-Gn:BSU11760" /db_xref="EnsemblGenomes-Tr:CAB13033" /db_xref="GOA:Q08313" /db_xref="InterPro:IPR011428" /db_xref="SubtiList:BG10500" /db_xref="UniProtKB/Swiss-Prot:Q08313" /translation="MESRPYSWVALDPDCDHPLDDKEKDKEKHERKCHCDVCCNGNGF FGNDNAFIDQDLAQANLNKQVSDETIIIRDSCDINVTSTDVQAVTSVVTALNAAVVTA TLTSIADGVIAELVAQDLLQLTANKQVNRQKLLIECSRGVNVTTVDADIATLISTATN TLVAILVITLVL*" gene complement(1250656..1251174) /gene="cotX" /locus_tag="BSU_11760" /old_locus_tag="BSU11760" downshifts complement(1250680) /Source="Nicolas_upshifts" /id="D641" /incds=0 /nref=76 /ntot=102 /MaxReadThrough="1.79219" /MaxDrop="8.69761" /score="18.5755652" /energy="-10.4" /TU="U952" /idTUdmin="U952" /TUdmin="-29" /isTUend="FALSE" downshifts 1250685 /Source="Nicolas_upshifts" /id="D642" /incds=0 /nref=1 /ntot=8 /MaxReadThrough="1.2156" /MaxDrop="3.69222" /score="-9.76125107" /energy="-10.4" /TU="NA" /idTUdmin="U948" /TUdmin=66 /isTUend="FALSE" S_feature complement(1251175..1251272) /Source="Nicolas_S_feature" /locus_tag="new_1251175_1251272_c" /HighExp="S8, S7, S6, BT, B36, G/S, Pyr, S5, B60, SMMPr" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigK" /TUshortPSig="0.748" /TUlongSig="SigK" /TUlongPSig="0.98" /label="S421" CDS complement(1251273..1251590) /gene="cotW" /locus_tag="BSU_11770" /old_locus_tag="BSU11770" /function="16.5: Explore" /function="16.13: Shape" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:8509331, 19304857, 21665972, 25872412" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8509331, 19304857, 21665972, 25872412; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="spore coat protein (outemost layer)" /protein_id="NP_389059.1" /db_xref="EnsemblGenomes-Gn:BSU11770" /db_xref="EnsemblGenomes-Tr:CAB13034" /db_xref="GOA:Q08310" /db_xref="SubtiList:BG10497" /db_xref="UniProtKB/Swiss-Prot:Q08310" /translation="MSDNDKFKEELAKLPEVDPMTKMLVQNIFSKHGVTKDKMKKVSD EEKEMLLNLVKDLQAKSQALIENQKKKKEEAAAQEQKNTKPLSRREQLIEQIRQRRKN DNN*" gene complement(1251273..1251590) /gene="cotW" /locus_tag="BSU_11770" /old_locus_tag="BSU11770" CDS complement(1251631..1252017) /gene="cotV" /locus_tag="BSU_11780" /old_locus_tag="BSU11780" /function="16.13: Shape" /function="16.8: Protect" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:7519271, 8509331" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7519271, 8509331; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="spore coat protein (insoluble fraction)" /protein_id="NP_389060.1" /db_xref="EnsemblGenomes-Gn:BSU11780" /db_xref="EnsemblGenomes-Tr:CAB13035" /db_xref="GOA:Q08309" /db_xref="InterPro:IPR011428" /db_xref="SubtiList:BG10496" /db_xref="UniProtKB/Swiss-Prot:Q08309" /translation="MSFEEKVESLHPAIFEQLSSEFEQQIEVIDCENITIDTSHITAA LSIQAFVTTMIIVATQLVIADEDLADAVASEILILDSSQIKKRTIIKIINSRNIKITL SADEIITFVQILLQVLNSILSELDVL*" gene complement(1251631..1252017) /gene="cotV" /locus_tag="BSU_11780" /old_locus_tag="BSU11780" promotor_-35 1252013..1252017 /Source="Nicolas_upshift_promotors" /id="U951" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.99100899100899" /psig="0.005994005994006" /xcortree=1245 /SigmaFactorBS="ttgctcaaatattgcagggtgcagggattcgactttttcttc aaatGACATaaccttcACTCCTTTCTTATCCatactctatataatgcaaatggggtgc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1252025..1252039 /Source="Nicolas_upshift_promotors" /id="U951" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.99100899100899" /psig="0.005994005994006" /xcortree=1245 /SigmaFactorBS="ttgctcaaatattgcagggtgcagggattcgactttttcttc aaatGACATaaccttcACTCCTTTCTTATCCatactctatataatgcaaatggggtgc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1252027 /Source="Nicolas_upshifts" /id="U951" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.99100899100899" /psig="0.005994005994006" /xcortree=1245 /SigmaFactorBS="ttgctcaaatattgcagggtgcagggattcgactttttcttc aaatGACATaaccttcACTCCTTTCTTATCCatactctatataatgcaaatggggtgc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 complement(1252037..1252056) /Source="Nicolas_upshift_promotors" /id="U952" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp="0.748251748251748" /psig="0.748251748251748" /xcortree=1351 /SigmaFactorBS="catgaattgtatcttgtccggcagaaaattggttatttttat taTtCcGctctgcaccccattTGCATTATATAGAGTATGGAtaagaaaggagtgaagg t" /listShort="cotV, cotW, S421, cotX" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1252059) /Source="Nicolas_upshifts" /id="U952" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp="0.748251748251748" /psig="0.748251748251748" /xcortree=1351 /SigmaFactorBS="catgaattgtatcttgtccggcagaaaattggttatttttat taTtCcGctctgcaccccattTGCATTATATAGAGTATGGAtaagaaaggagtgaagg t" /listShort="cotV, cotW, S421, cotX" /GFF_Attribute="listLong" S_feature complement(1252061..1252565) /Source="Nicolas_S_feature" /locus_tag="new_1252061_1252565_c" /HighExp="S8, S6, S7, BT, S5, B36, Pyr, C30, G/S, nit" /AntisenseName="yjcA" /AntisenseCor="0.69838474492609404" /AntisenseRegPval="-39.9" /CDS_PredictionProba="NA" /TUshortSig="SigK" /TUshortPSig="0.98" /TUlongSig="NA" /TUlongPSig="NA" /label="S422" promotor_-35 complement(1252075) /Source="Nicolas_upshift_promotors" /id="U952" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp="0.748251748251748" /psig="0.748251748251748" /xcortree=1351 /SigmaFactorBS="catgaattgtatcttgtccggcagaaaattggttatttttat taTtCcGctctgcaccccattTGCATTATATAGAGTATGGAtaagaaaggagtgaagg t" /listShort="cotV, cotW, S421, cotX" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1252114..1252119 /Source="Nicolas_upshift_promotors" /id="U953" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1132 /SigmaFactorBS="aataaaaataaccaattttctgccggacaagatacaaTTCAT GaagaatagggttttgGCATATATGTGAAGGGATCatgattggcaaaggagtgaacga g" /listShort="yjcA, S423" /listLong="yjzK, yjcZ, S424, spoVIF, S425" /label="promotor_-35" promotor_-10 1252135..1252153 /Source="Nicolas_upshift_promotors" /id="U953" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1132 /SigmaFactorBS="aataaaaataaccaattttctgccggacaagatacaaTTCAT GaagaatagggttttgGCATATATGTGAAGGGATCatgattggcaaaggagtgaacga g" /listShort="yjcA, S423" /listLong="yjzK, yjcZ, S424, spoVIF, S425" /label="promotor_-10" upshifts 1252137 /Source="Nicolas_upshifts" /id="U953" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp=1 /psig=1 /xcortree=1132 /SigmaFactorBS="aataaaaataaccaattttctgccggacaagatacaaTTCAT GaagaatagggttttgGCATATATGTGAAGGGATCatgattggcaaaggagtgaacga g" /listShort="yjcA, S423" /listLong="yjzK, yjcZ, S424, spoVIF, S425" CDS 1252177..1252533 /gene="yjcA" /locus_tag="BSU_11790" /old_locus_tag="BSU11790" /function="16.8: Protect" /function="16.13: Shape" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:14523132, 15849754, 16850406" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14523132, 15849754, 16850406; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="sporulation-specific protein" /protein_id="NP_389061.1" /db_xref="EnsemblGenomes-Gn:BSU11790" /db_xref="EnsemblGenomes-Tr:CAB13036" /db_xref="GOA:O31623" /db_xref="InterPro:IPR010773" /db_xref="SubtiList:BG13154" /db_xref="UniProtKB/Swiss-Prot:O31623" /translation="MVINGLTIVLLSLAVFRLARLLVFDTIMAPLRSLFHEEKEEKDA DGNIETYIVIKGTGVRAFIGELLSCYWCTGVWCAGFLILCQAVIPQAAQWLILLLAIA GLAGIIETLVSKWLQE*" gene 1252177..1252533 /gene="yjcA" /locus_tag="BSU_11790" /old_locus_tag="BSU11790" promotor_-35 1252543..1252552 /Source="Nicolas_upshift_promotors" /id="U955" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1353 /SigmaFactorBS="gctcgtatcaaaatggctgcaagaataaggcgttaccACCAG CAACTttctgtcagaataCGCATAAAGTAGCATATAtgacataaggaaaggaagggga c" /listShort="S423, yjzK" /listLong="yjcZ, S424, spoVIF, S425" /label="promotor_-35" promotor_-10 complement(1252550..1252569) /Source="Nicolas_upshift_promotors" /id="U954" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.98001998001998" /psig="0.98001998001998" /xcortree=1256 /SigmaFactorBS="atgatgctgattcatttttgtccccttcctttcCTTATGTCA TatatgctactttaTGCGTATTCTGACAGAAAGTtgctggtggtaacgccttattctt g" /listShort="S422" /listLong="cotV, cotW, S421, cotX" /label="promotor_-10" CDS complement(1252558..1252791) /locus_tag="BSU_11798" /old_locus_tag="BSU11798" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /pseudo /codon_start=1 /transl_table=11 /product="protein remnant" /db_xref="PSEUDO:SOX90549.1" /translation="MLSETASLKKQKTGVLRFLCQAIEAFSFYFRTRSLSFLSFLIDT MNLYMEIFGKVYDADSFLSPSFPYVIYATLCVF*" gene complement(1252558..1252791) /locus_tag="BSU_11798" /old_locus_tag="BSU11798" /pseudo upshifts complement(1252565) /Source="Nicolas_upshifts" /id="U954" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.98001998001998" /psig="0.98001998001998" /xcortree=1256 /SigmaFactorBS="atgatgctgattcatttttgtccccttcctttcCTTATGTCA TatatgctactttaTGCGTATTCTGACAGAAAGTtgctggtggtaacgccttattctt g" /listShort="S422" /listLong="cotV, cotW, S421, cotX" S_feature 1252566..1252752 /Source="Nicolas_S_feature" /locus_tag="new_1252566_1252752" /HighExp="S8, S6, S7, BT, S5, B36, S4, S3, G/S, Pyr" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.26970100000000002" /TUshortSig="SigK, SigEF" /TUshortPSig="0.999, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S423" promotor_-10 1252566..1252583 /Source="Nicolas_upshift_promotors" /id="U955" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1353 /SigmaFactorBS="gctcgtatcaaaatggctgcaagaataaggcgttaccACCAG CAACTttctgtcagaataCGCATAAAGTAGCATATAtgacataaggaaaggaagggga c" /listShort="S423, yjzK" /listLong="yjcZ, S424, spoVIF, S425" /label="promotor_-10" upshifts 1252566 /Source="Nicolas_upshifts" /id="U955" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1353 /SigmaFactorBS="gctcgtatcaaaatggctgcaagaataaggcgttaccACCAG CAACTttctgtcagaataCGCATAAAGTAGCATATAtgacataaggaaaggaagggga c" /listShort="S423, yjzK" /listLong="yjcZ, S424, spoVIF, S425" promotor_-35 complement(1252583..1252592) /Source="Nicolas_upshift_promotors" /id="U954" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.98001998001998" /psig="0.98001998001998" /xcortree=1256 /SigmaFactorBS="atgatgctgattcatttttgtccccttcctttcCTTATGTCA TatatgctactttaTGCGTATTCTGACAGAAAGTtgctggtggtaacgccttattctt g" /listShort="S422" /listLong="cotV, cotW, S421, cotX" /label="promotor_-35" downshifts complement(1252609) /Source="Nicolas_upshifts" /id="D643" /incds=0 /nref=2 /ntot=13 /MaxReadThrough="3.12564" /MaxDrop="4.58782" /score="-6.14331629" /energy="-6.8" /TU="NA" /idTUdmin="U954" /TUdmin="-528" /isTUend="FALSE" downshifts 1252709 /Source="Nicolas_upshifts" /id="D644" /incds=0 /nref=3 /ntot=32 /MaxReadThrough="5.73879" /MaxDrop="3.6919" /score="33.8150878" /energy="-6.8" /TU="U953,U955" /idTUdmin="U953" /TUdmin="-66" /isTUend="FALSE" upshifts complement(1252763) /Source="Nicolas_upshifts" /id="U956" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.284715284715285" /psig="0.032967032967033" /xcortree=768 /SigmaFactorBS="ctcattcacttttatccccccgcttatgatatatgctgagcg agaCCGCCTCGttaaaaaaacaaaaaaccggagttctccggtttctttgccaggctat t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 1252764..1252773 /Source="Nicolas_upshift_promotors" /id="U957" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp="0.971028971028971" /psig="0.971028971028971" /xcortree=1288 /SigmaFactorBS="gaaaccggagaactccggttttttgttTTTTTAACGAggcgg tctcgctcAGCATATATCATAAGCGGGGggataaaagtgaatgagtttgaaaaatgga t" /listShort="yjzK, yjcZ, S424, spoVIF, S425" /GFF_Attribute="listLong" /label="promotor_-35" misc_feature complement(1252771..1252778) /Source="Nicolas_upshift_promotors" /id="U956" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.284715284715285" /psig="0.032967032967033" /xcortree=768 /SigmaFactorBS="ctcattcacttttatccccccgcttatgatatatgctgagcg agaCCGCCTCGttaaaaaaacaaaaaaccggagttctccggtttctttgccaggctat t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" promotor_-10 1252787..1252806 /Source="Nicolas_upshift_promotors" /id="U957" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp="0.971028971028971" /psig="0.971028971028971" /xcortree=1288 /SigmaFactorBS="gaaaccggagaactccggttttttgttTTTTTAACGAggcgg tctcgctcAGCATATATCATAAGCGGGGggataaaagtgaatgagtttgaaaaatgga t" /listShort="yjzK, yjcZ, S424, spoVIF, S425" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1252797 /Source="Nicolas_upshifts" /id="U957" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp="0.971028971028971" /psig="0.971028971028971" /xcortree=1288 /SigmaFactorBS="gaaaccggagaactccggttttttgttTTTTTAACGAggcgg tctcgctcAGCATATATCATAAGCGGGGggataaaagtgaatgagtttgaaaaatgga t" /listShort="yjzK, yjcZ, S424, spoVIF, S425" /GFF_Attribute="listLong" CDS 1252815..1253021 /gene="yjzK" /locus_tag="BSU_11799" /old_locus_tag="BSU11799" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="YP_003097704.1" /db_xref="EnsemblGenomes-Gn:BSU11799" /db_xref="EnsemblGenomes-Tr:CAX52594" /db_xref="UniProtKB/Swiss-Prot:C0H3Y7" /translation="MNEFEKWIEGRYEPHEQKQKEHEDTMGSIRKDLDAFDKAGLEFE DEIEELAEKTEALLKKHQAQYDQS*" gene 1252815..1253021 /gene="yjzK" /locus_tag="BSU_11799" /old_locus_tag="BSU11799" CDS 1252858..1253073 /gene="yjcB" /locus_tag="BSU_11800" /old_locus_tag="BSU11800" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:14523132" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14523132; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="sporulation-specific protein" /protein_id="YP_009513951.1" /translation="MNKSKKSMKTRWAVSEKTWMHLIKPVWNLKMRLKSWLKKRRPYL KNIKLNMINRKSANALCEYPSRSQQLT*" gene 1252858..1253073 /gene="yjcB" /locus_tag="BSU_11800" /old_locus_tag="BSU11800" promotor_-35 1253045..1253054 /Source="Nicolas_upshift_promotors" /id="U958" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1409 /SigmaFactorBS="tcaatcgtaaatccgcaaacgccctatgcgaatATCCAAGCC GatcccagcagctCACATAGTGTATAGAGAGTAaaggaggtgcttatctatgggcttt g" /listShort="yjcZ, S424, spoVIF, S425" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1253067..1253086 /Source="Nicolas_upshift_promotors" /id="U958" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1409 /SigmaFactorBS="tcaatcgtaaatccgcaaacgccctatgcgaatATCCAAGCC GatcccagcagctCACATAGTGTATAGAGAGTAaaggaggtgcttatctatgggcttt g" /listShort="yjcZ, S424, spoVIF, S425" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1253072 /Source="Nicolas_upshifts" /id="U958" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1409 /SigmaFactorBS="tcaatcgtaaatccgcaaacgccctatgcgaatATCCAAGCC GatcccagcagctCACATAGTGTATAGAGAGTAaaggaggtgcttatctatgggcttt g" /listShort="yjcZ, S424, spoVIF, S425" /GFF_Attribute="listLong" promotor_-10 complement(1253079..1253093) /Source="Nicolas_upshift_promotors" /id="U959" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.999000999001" /psig=0 /xcortree=690 /SigmaFactorBS="gccataacagccgccgccgtagccgccgccgaatccgtatcc aaagCCCATagataagcaCCTCCTTTACTCTCTatacactatgtgagctgctgggatc g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1253093) /Source="Nicolas_upshifts" /id="U959" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.999000999001" /psig=0 /xcortree=690 /SigmaFactorBS="gccataacagccgccgccgtagccgccgccgaatccgtatcc aaagCCCATagataagcaCCTCCTTTACTCTCTatacactatgtgagctgctgggatc g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(1253103..1253107) /Source="Nicolas_upshift_promotors" /id="U959" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.999000999001" /psig=0 /xcortree=690 /SigmaFactorBS="gccataacagccgccgccgtagccgccgccgaatccgtatcc aaagCCCATagataagcaCCTCCTTTACTCTCTatacactatgtgagctgctgggatc g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 1253103..1253252 /gene="yjcZ" /locus_tag="BSU_11809" /old_locus_tag="BSU11809" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 14523132, 20156992, 21670523; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="putative type I toxin" /protein_id="YP_003097705.1" /db_xref="EnsemblGenomes-Gn:BSU11809" /db_xref="EnsemblGenomes-Tr:CAX52595" /db_xref="GOA:C0H3Y8" /db_xref="InterPro:IPR010070" /db_xref="UniProtKB/Swiss-Prot:C0H3Y8" /translation="MGFGYGFGGGYGGGCYGGYAGGYGGGYGSTFVLLVVLFILLIIV GASFF*" gene 1253103..1253252 /gene="yjcZ" /locus_tag="BSU_11809" /old_locus_tag="BSU11809" downshifts 1253193 /Source="Nicolas_upshifts" /id="D645" /incds=0 /nref=4 /ntot=29 /MaxReadThrough="8.16203" /MaxDrop="4.48861" /score="1.53429015" /energy="-22.4" /TU="U957,U958" /idTUdmin="U955" /TUdmin=110 /isTUend="FALSE" S_feature 1253253..1253384 /Source="Nicolas_S_feature" /locus_tag="new_1253253_1253384" /HighExp="S7, BT, S8, B36, S6, G/S, Pyr, B60, S5, LoTm" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigK, SigK" /TUshortPSig="1, 0.971" /TUlongSig="SigK, SigEF" /TUlongPSig="0.999, 1" /label="S424" CDS 1253385..1253639 /gene="spoVIF" /locus_tag="BSU_11810" /old_locus_tag="BSU11810" /function="16.8: Protect" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:14523132, 14702409, 20435725" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14523132, 14702409, 20435725; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="sporulation-specific protein needed for heat resistance" /protein_id="NP_389063.2" /db_xref="EnsemblGenomes-Gn:BSU11810" /db_xref="EnsemblGenomes-Tr:CAB13038" /db_xref="GOA:O31625" /db_xref="InterPro:IPR025942" /db_xref="SubtiList:BG13156" /db_xref="UniProtKB/Swiss-Prot:O31625" /translation="MDNQFFKNIEKKTGVKMQDVMNLAGSLQNANFKDENTVRSVINR VAQMANRRVPKELEDKIVESITSGKEKLDFGTISKMMDNK*" gene 1253385..1253639 /gene="spoVIF" /locus_tag="BSU_11810" /old_locus_tag="BSU11810" downshifts 1253624 /Source="Nicolas_upshifts" /id="D646" /incds=0 /nref=40 /ntot=79 /MaxReadThrough="5.66609" /MaxDrop="5.8411" /score="7.68851688" /energy="-10.7" /TU="U957,U958" /idTUdmin="U955" /TUdmin=541 /isTUend="FALSE" downshifts complement(1253643) /Source="Nicolas_upshifts" /id="D647" /incds=0 /nref=3 /ntot=9 /MaxReadThrough="3.12148" /MaxDrop="4.34051" /score="24.4726468" /energy="-14.3" /TU="NA" /idTUdmin="U961" /TUdmin=88 /isTUend="FALSE" S_feature 1253669..1254769 /Source="Nicolas_S_feature" /locus_tag="new_1253669_1254769" /HighExp="S8, S6, S7, B36, S5, C30, BT, dia15, Diami, H2O2" /AntisenseName="yjcD" /AntisenseCor="-0.210610370451118" /AntisenseRegPval="-3.3" /CDS_PredictionProba="0.18426200000000001" /TUshortSig="SigK, SigK" /TUshortPSig="1, 0.971" /TUlongSig="SigK, SigEF" /TUlongPSig="0.999, 1" /label="S425" CDS complement(1253713..1255992) /gene="yjcD" /locus_tag="BSU_11820" /old_locus_tag="BSU11820" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 11544244, 16014871, 17114254, 22933559; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative ATP-dependent DNA helicase (sporulationassociated)" /protein_id="NP_389064.3" /db_xref="EnsemblGenomes-Gn:BSU11820" /db_xref="EnsemblGenomes-Tr:CAB13039" /db_xref="GOA:O31626" /db_xref="InterPro:IPR000212" /db_xref="InterPro:IPR014016" /db_xref="InterPro:IPR014017" /db_xref="InterPro:IPR027417" /db_xref="InterPro:IPR034739" /db_xref="SubtiList:BG13157" /db_xref="UniProtKB/Swiss-Prot:O31626" /translation="MKCARLNDRIIHLHTYSREHYQFLFEEGIKGHLFCSHCGKPVLL RLNIADPPEFIHRQPGDFPACEEACEPKPSKEGKKEDDQESGVIRLPKGKAIAADPSP AVTEWHRPRSIKPGTPFVPKTIEPDTSLFPSVGLNTDQLKAVTETEGPLLVLAGAGSG KTRVLTARAAHMIEHLGIPPENMLLVTFTTKAVAEMKERMANQYGLQPAKVRRIVTGT FHSLFYKILYHSNSAKWNGEHLLKMEWQREQYIKKALYEEGIDEKESPVDQALQQIGF WKNTYVPNERIPLKDEWEKQVYRLYEHYERQKKEHSQFDFDDMASACYELFIERPDLL EQYQSRFTYILIDEFQDINPVQYKIMQMLASPEQNLCCVGDDDQSIYAFRGSNPSFIL DFQKDYPGAKTIYLTANYRSTHPIVSSADIVVKKNKNRYAKTLEAARDDIQVPVLFYP YDEEEEATMVVSDIKEKIQNGASPEDFAVLYRTNSGGRAIYERLHQSSIPYTADRGVQ SFYSRRIVRQILAYLYASQNEDDTEAIKHLLPALFLKQSALNTLKALSITEDCTMIKA LAKLPDLKPFQLDKIKKIVPFFASLRTMKPVEAITFAEGKMGFSEYLKKRGNEGNKLE KGSDDLRDIKVVAKKFKTIPDFLAHVDHMRAAEKNRTDEHGVQLMTIHRSKGLEFKTV YVLGTVDGSIPHDFSLETARKGDEAALEEERRLLYVAMTRAKQHLYLSCPANRRGKTA NRSRFLYPLLQKARQPLHH*" gene complement(1253713..1255992) /gene="yjcD" /locus_tag="BSU_11820" /old_locus_tag="BSU11820" downshifts complement(1253731) /Source="Nicolas_upshifts" /id="D648" /incds=0 /nref=61 /ntot=171 /MaxReadThrough="2.59869" /MaxDrop="4.36061" /score="24.4726468" /energy="-14.3" /TU="NA" /idTUdmin="U961" /TUdmin=0 /isTUend="TRUE" S_feature complement(1255867..1256041) /Source="Nicolas_S_feature" /locus_tag="new_1255867_1256041_c" /HighExp="G180, G135, G150, H2O2, Paraq, Oxctl, LBGexp, dia15, dia0, MG 15" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S426" promotor_-35 1255920..1255928 /Source="Nicolas_upshift_promotors" /id="U960" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.868131868131868" /psig="0.868131868131868" /xcortree=958 /SigmaFactorBS="tgagaacaaaataaatgtccttttattccctcttcaaAGAGG AATTgataatgttcTCTCGAATATGTATGTAAAtgtatgattctatcattcagtcggg c" /listShort="S427, yjzE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1255939..1255957 /Source="Nicolas_upshift_promotors" /id="U960" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.868131868131868" /psig="0.868131868131868" /xcortree=958 /SigmaFactorBS="tgagaacaaaataaatgtccttttattccctcttcaaAGAGG AATTgataatgttcTCTCGAATATGTATGTAAAtgtatgattctatcattcagtcggg c" /listShort="S427, yjzE" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1255943..1256078 /Source="Nicolas_S_feature" /locus_tag="new_1255943_1256078" /HighExp="S4, S5, S3, S6, S7, S8, M9-stat, T4.0H, T3.0H, S2" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigH" /TUshortPSig="0.868" /TUlongSig="NA" /TUlongPSig="NA" /label="S427" upshifts 1255943 /Source="Nicolas_upshifts" /id="U960" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.868131868131868" /psig="0.868131868131868" /xcortree=958 /SigmaFactorBS="tgagaacaaaataaatgtccttttattccctcttcaaAGAGG AATTgataatgttcTCTCGAATATGTATGTAAAtgtatgattctatcattcagtcggg c" /listShort="S427, yjzE" /GFF_Attribute="listLong" promotor_-10 complement(1256029..1256048) /Source="Nicolas_upshift_promotors" /id="U961" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.987012987012987" /psig=1 /xcortree=2545 /SigmaFactorBS="cacccctctgctgtctcttttcccttaaacttACTTTttgaa acacatttctTTTGATATGATAGTCATTGTctgtaatgaacaccttttgattgggagg a" /listShort="S426, yjcD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1256040) /Source="Nicolas_upshifts" /id="U961" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.987012987012987" /psig=1 /xcortree=2545 /SigmaFactorBS="cacccctctgctgtctcttttcccttaaacttACTTTttgaa acacatttctTTTGATATGATAGTCATTGTctgtaatgaacaccttttgattgggagg a" /listShort="S426, yjcD" /GFF_Attribute="listLong" promotor_-35 1256056..1256062 /Source="Nicolas_upshift_promotors" /id="U962" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=197 /SigmaFactorBS="tcattacagacaatgactatcatatcaaaagaaatgTGTTTC AaaaagtaagtttaaGGGAAAAGAGACAGCAGAGgggtgggtattgtatgatatatgc a" /listShort="yjzE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 complement(1256064..1256068) /Source="Nicolas_upshift_promotors" /id="U961" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.987012987012987" /psig=1 /xcortree=2545 /SigmaFactorBS="cacccctctgctgtctcttttcccttaaacttACTTTttgaa acacatttctTTTGATATGATAGTCATTGTctgtaatgaacaccttttgattgggagg a" /listShort="S426, yjcD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1256077..1256095 /Source="Nicolas_upshift_promotors" /id="U962" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=197 /SigmaFactorBS="tcattacagacaatgactatcatatcaaaagaaatgTGTTTC AaaaagtaagtttaaGGGAAAAGAGACAGCAGAGgggtgggtattgtatgatatatgc a" /listShort="yjzE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1256080 /Source="Nicolas_upshifts" /id="U962" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=197 /SigmaFactorBS="tcattacagacaatgactatcatatcaaaagaaatgTGTTTC AaaaagtaagtttaaGGGAAAAGAGACAGCAGAGgggtgggtattgtatgatatatgc a" /listShort="yjzE" /GFF_Attribute="listLong" CDS 1256109..1256363 /gene="yjzE" /locus_tag="BSU_11839" /old_locus_tag="BSU11839" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function; PubMedId : 11976315, 23155385" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_003097706.1" /db_xref="EnsemblGenomes-Gn:BSU11839" /db_xref="EnsemblGenomes-Tr:CAX52596" /db_xref="UniProtKB/Swiss-Prot:C0H3Y9" /translation="MIYAGQIQNQQYAQYANRTIGHKQDYAGTEKISYVPFQRVYKEL EKQQENQTAAERKVNEMKRKRSLYKRLREKGMGTYINRYV*" gene 1256109..1256363 /gene="yjzE" /locus_tag="BSU_11839" /old_locus_tag="BSU11839" downshifts 1256339 /Source="Nicolas_upshifts" /id="D649" /incds=0 /nref=101 /ntot=248 /MaxReadThrough="3.69482" /MaxDrop="7.80206" /score="5.37568515" /energy="-6.1" /TU="U962" /idTUdmin="U960" /TUdmin=0 /isTUend="TRUE" downshifts complement(1256429) /Source="Nicolas_upshifts" /id="D650" /incds=0 /nref=78 /ntot=283 /MaxReadThrough="3.21062" /MaxDrop="7.8562" /score="-4.05705392" /energy="-6.1" /TU="U963" /idTUdmin="U963" /TUdmin="-36" /isTUend="FALSE" CDS complement(1256436..1256858) /gene="yjcF" /locus_tag="BSU_11840" /old_locus_tag="BSU11840" /EC_number="2.3.1.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative acetyltransferase" /protein_id="NP_389066.1" /db_xref="EnsemblGenomes-Gn:BSU11840" /db_xref="EnsemblGenomes-Tr:CAB13041" /db_xref="GOA:O31628" /db_xref="InterPro:IPR000182" /db_xref="InterPro:IPR016181" /db_xref="PDB:1Q2Y" /db_xref="SubtiList:BG13159" /db_xref="UniProtKB/Swiss-Prot:O31628" /translation="MKAVIAKNEEQLKDAFYVREEVFVKEQNVPAEEEIDELENESEH IVVYDGEKPVGAGRWRMKDGYGKLERICVLKSHRSAGVGGIIMKALEKAAADGGASGF ILNAQTQAVPFYKKHGYRVLSEKEFLDAGIPHLQMMKD*" gene complement(1256436..1256858) /gene="yjcF" /locus_tag="BSU_11840" /old_locus_tag="BSU11840" CDS complement(1256862..1257377) /gene="yjcG" /locus_tag="BSU_11850" /old_locus_tag="BSU11850" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12466548, 16511078, 17012785, 18473364, 25643072; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative RNA ligase or phosphoesterase" /protein_id="NP_389067.1" /db_xref="EnsemblGenomes-Gn:BSU11850" /db_xref="EnsemblGenomes-Tr:CAB13042" /db_xref="GOA:O31629" /db_xref="InterPro:IPR009097" /db_xref="InterPro:IPR022932" /db_xref="PDB:2D4G" /db_xref="SubtiList:BG13160" /db_xref="UniProtKB/Swiss-Prot:O31629" /translation="MKYGIVLFPSKKLQDLANSYRKRYDPSYSLIPPHLTLRASFECA EEKADQLVSHLRNIAKESHPLVLKMTKYSSFAPVNNVIYIKAEPTEELKTLNEKLYTG VLAGEQEYNFVPHVTVGQNLSDDEHSDVLGQLKMQEVSHEEIVDRFHLLYQLENGSWT VYETFLLGRGE*" gene complement(1256862..1257377) /gene="yjcG" /locus_tag="BSU_11850" /old_locus_tag="BSU11850" CDS complement(1257414..1258136) /gene="yjcH" /locus_tag="BSU_11860" /old_locus_tag="BSU11860" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 20941576; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative stress-related hydrolase" /protein_id="NP_389068.1" /db_xref="EnsemblGenomes-Gn:BSU11860" /db_xref="EnsemblGenomes-Tr:CAB13043" /db_xref="InterPro:IPR000801" /db_xref="InterPro:IPR029058" /db_xref="SubtiList:BG13161" /db_xref="UniProtKB/Swiss-Prot:O31630" /translation="MAPKNGTVQEKKFFSKELNEEMTLLVYLPSNYSPLYKYHVIIAQ DGHDYFRLGRIGRQVEELLSKREIDRSIIIGVPYKDVKERRNTYHPEGSKFSAYKRFI AHELVPFADDEYPTYQIGYGRTLIGDSLGATVSLMTALDYPNMFGNIIMQSPYVDKHV LEAVKQSDDIKHLSIYHQIGTKETDVHTTDGNILDFTEPNRELKQLLEKKLSDYDFEP FDGDHKWTYWQPLITPALKKML*" gene complement(1257414..1258136) /gene="yjcH" /locus_tag="BSU_11860" /old_locus_tag="BSU11860" misc_feature complement(1258175..1258194) /Source="Nicolas_upshift_promotors" /id="U963" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.999000999001" /psig=1 /xcortree=2938 /SigmaFactorBS="tttatttcaacacttttttcttcgtgtgccgaaccgtttaaa gagagaaatttctaataattCATGGTACAATAATTGAAAAtgcaagaaagtatagtga t" /listShort="yjcH, yjcG, yjcF" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(1258196) /Source="Nicolas_upshifts" /id="U963" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.999000999001" /psig=1 /xcortree=2938 /SigmaFactorBS="tttatttcaacacttttttcttcgtgtgccgaaccgtttaaa gagagaaatttctaataattCATGGTACAATAATTGAAAAtgcaagaaagtatagtga t" /listShort="yjcH, yjcG, yjcF" /GFF_Attribute="listLong" promotor_-35 1258245..1258252 /Source="Nicolas_upshift_promotors" /id="U964" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.986013986013986" /psig=1 /xcortree=2887 /SigmaFactorBS="tctctttaaacggttcggcacacgaagaaaaaagTGTTGAAA taaactgtgaattgCGCTAATATAAAACAATCAGaaaattgaaatcgatatttcttat c" /listShort="NA, metI, metC, S428" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1258267..1258286 /Source="Nicolas_upshift_promotors" /id="U964" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.986013986013986" /psig=1 /xcortree=2887 /SigmaFactorBS="tctctttaaacggttcggcacacgaagaaaaaagTGTTGAAA taaactgtgaattgCGCTAATATAAAACAATCAGaaaattgaaatcgatatttcttat c" /listShort="NA, metI, metC, S428" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1258271 /Source="Nicolas_upshifts" /id="U964" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.986013986013986" /psig=1 /xcortree=2887 /SigmaFactorBS="tctctttaaacggttcggcacacgaagaaaaaagTGTTGAAA taaactgtgaattgCGCTAATATAAAACAATCAGaaaattgaaatcgatatttcttat c" /listShort="NA, metI, metC, S428" /GFF_Attribute="listLong" misc_RNA 1258304..1258424 /gene="mswA" /locus_tag="BSU_misc_RNA_15" /product="S-adenosylmethionine riboswitch" /experiment="publication(s) with functional evidences, PMID:10094622, 12626738, 12910260, 17381305, 18039762" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10094622, 12626738, 12910260, 17381305, 18039762; Product type n: RNA" /function="16.3: Control" gene 1258304..1258424 /gene="mswA" /locus_tag="BSU_misc_RNA_15" downshifts 1258429 /Source="Nicolas_upshifts" /id="D651" /incds=0 /nref=8 /ntot=59 /MaxReadThrough="7.71668" /MaxDrop="5.0477" /score="31.1477774" /energy="-15.2" /TU="U964" /idTUdmin="U962" /TUdmin=2024 /isTUend="FALSE" CDS 1258492..1259613 /gene="metI" /locus_tag="BSU_11870" /old_locus_tag="BSU11870" /EC_number="2.5.1.49" /EC_number="2.5.1.48" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:10939241, 11832514, 22938038" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10939241, 11832514, 22938038; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="cystathionine gamma-synthase and O-acetylhomoserine thiolyase" /protein_id="NP_389069.1" /db_xref="EnsemblGenomes-Gn:BSU11870" /db_xref="EnsemblGenomes-Tr:CAB13044" /db_xref="GOA:O31631" /db_xref="InterPro:IPR000277" /db_xref="InterPro:IPR015421" /db_xref="InterPro:IPR015422" /db_xref="InterPro:IPR015424" /db_xref="SubtiList:BG13162" /db_xref="UniProtKB/Swiss-Prot:O31631" /translation="MSQHVETKLAQIGNRSDEVTGTVSAPIYLSTAYRHRGIGESTGF DYVRTKNPTRQLVEDAIANLENGARGLAFSSGMAAIQTIMALFKSGDELIVSSDLYGG TYRLFENEWKKYGLTFHYDDFSDEDCLRSKITPNTKAVFVETPTNPLMQEADIEHIAR ITKEHGLLLIVDNTFYTPVLQRPLELGADIVIHSATKYLGGHNDLLAGLVVVKDERLG EEMFQHQNAIGAVLPPFDSWLLMRGMKTLSLRMRQHQANAQELAAFLEEQEEISDVLY PGKGGMLSFRLQKEEWVNPFLKALKTICFAESLGGVESFITYPATQTHMDIPEEIRIA NGVCNRLLRFSVGIEHAEDLKEDLKQALCQVKEGAVSFE*" gene 1258492..1259613 /gene="metI" /locus_tag="BSU_11870" /old_locus_tag="BSU11870" CDS 1259606..1260778 /gene="metC" /locus_tag="BSU_11880" /old_locus_tag="BSU11880" /EC_number="4.4.1.8" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:10939241, 11832514, 11948165, 15760717" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10939241, 11832514, 11948165, 15760717; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="cystathionine beta-lyase" /protein_id="NP_389070.1" /db_xref="EnsemblGenomes-Gn:BSU11880" /db_xref="EnsemblGenomes-Tr:CAB13045" /db_xref="GOA:O31632" /db_xref="InterPro:IPR000277" /db_xref="InterPro:IPR015421" /db_xref="InterPro:IPR015422" /db_xref="InterPro:IPR015424" /db_xref="SubtiList:BG13163" /db_xref="UniProtKB/Swiss-Prot:O31632" /translation="MSKHNWTLETQLVHNPFKTDGGTGAVSVPIQHASTFHQSSFEEF GAYDYSRSGTPTRTALEETIAALEGGTRGFAFSSGMAAISTAFLLLSQGDHVLVTEDV YGGTFRMVTEVLTRFGIEHTFVDMTDRNEVARSIKPNTKVIYMETPSNPTLGITDIKA VVQLAKENGCLTFLDNTFMTPALQRPLDLGVDIVLHSATKFLSGHSDVLSGLAAVKDE ELGKQLYKLQNAFGAVLGVQDCWLVLRGLKTLQVRLEKASQTAQRLAEFFQKHPAVKR VYYPGLADHPGAETHKSQSTGAGAVLSFELESKEAVKKLVENVSLPVFAVSLGAVESI LSYPATMSHAAMPKEEREKRGITDGLLRLSVGVEHADDLEHDFEQALKEIAPVSVR*" gene 1259606..1260778 /gene="metC" /locus_tag="BSU_11880" /old_locus_tag="BSU11880" downshifts 1260761 /Source="Nicolas_upshifts" /id="D652" /incds=0 /nref=108 /ntot=205 /MaxReadThrough="4.73188" /MaxDrop="5.54268" /score="4.00424187" /energy="-9.2" /TU="U964" /idTUdmin="U964" /TUdmin="-1474" /isTUend="FALSE" misc_feature 1260795..1260813 /Source="Nicolas_upshift_promotors" /id="U965" /multdbtbs="-" /comp="M18" /sig="SigL" /pcomp="0.671328671328671" /psig="0.671328671328671" /xcortree=2911 /SigmaFactorBS="gctgaaagaaattgctccagtttcggttcgttaaaaaagaag ccggggatAGTCCGGCTTCTTTTATTAttgttcgtcatcaggattcagaatcgcgagg a" /listShort="S428" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 1260805 /Source="Nicolas_upshifts" /id="U965" /multdbtbs="-" /comp="M18" /sig="SigL" /pcomp="0.671328671328671" /psig="0.671328671328671" /xcortree=2911 /SigmaFactorBS="gctgaaagaaattgctccagtttcggttcgttaaaaaagaag ccggggatAGTCCGGCTTCTTTTATTAttgttcgtcatcaggattcagaatcgcgagg a" /listShort="S428" /GFF_Attribute="listLong" S_feature 1260806..1262335 /Source="Nicolas_S_feature" /locus_tag="new_1260806_1262335" /HighExp="MG 5, MG t5, MG 10, BMM, GM 25, MG 15, Glu, GM 15, GM 45, GM 10" /AntisenseName="yjcK" /AntisenseCor="0.123731990206979" /AntisenseRegPval="-1.4" /CDS_PredictionProba="NA" /TUshortSig="SigL, SigA" /TUshortPSig="0.671, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S428" CDS complement(1260811..1261356) /gene="yjcK" /locus_tag="BSU_11890" /old_locus_tag="BSU11890" /EC_number="2.3.1.267" /function="16.6: Maintain" /function="16.2: Construct biomass (Anabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 2828880; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative ribosomal-protein-alanine N-acetyltransferase" /protein_id="NP_389071.1" /db_xref="EnsemblGenomes-Gn:BSU11890" /db_xref="EnsemblGenomes-Tr:CAB13046" /db_xref="GOA:O31633" /db_xref="InterPro:IPR000182" /db_xref="InterPro:IPR016181" /db_xref="SubtiList:BG13164" /db_xref="UniProtKB/Swiss-Prot:O31633" /translation="MLKGKTIYVRPLEVTDAEENLGLQSENRDFFEQFSMIRADDYYT VEGQRKRITEYQERLEKDEEYHFGIFTASDDRLIGTVSLFQIIRGALQTAFIGYFLDK AHNGKGIMTEAVRLVVDYAFHELKLHRIEAGVMPRNLGSMRVLEKAGFHKEGIARKNV KINGVWEDHQVLAILNPDDEQ*" gene complement(1260811..1261356) /gene="yjcK" /locus_tag="BSU_11890" /old_locus_tag="BSU11890" downshifts complement(1260832) /Source="Nicolas_upshifts" /id="D653" /incds=0 /nref=14 /ntot=127 /MaxReadThrough="0.4032" /MaxDrop="4.23858" /score="-7.12102596" /energy="-7.3" /TU="NA" /idTUdmin="U966" /TUdmin="-17" /isTUend="TRUE" CDS complement(1261426..1262616) /gene="yjcL" /locus_tag="BSU_11900" /old_locus_tag="BSU11900" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral inner membrane protein; possibly aquaporin-related" /protein_id="NP_389072.1" /db_xref="EnsemblGenomes-Gn:BSU11900" /db_xref="EnsemblGenomes-Tr:CAB13047" /db_xref="GOA:O31634" /db_xref="InterPro:IPR008537" /db_xref="SubtiList:BG13165" /db_xref="UniProtKB/Swiss-Prot:O31634" /translation="MHSLISSDDVWVLWGFIAVWAAVSIGLEQRFKWASAVSGAIIAL AGAMVFTNVGVLPVESPVYDTVWSYVVPLAIPLLLFQINVRQIFKESRRLLFIFLISS VGTVLGSILAFFLLKQHIPYLDKIGGMISASYIGGGVNFAAMAAKFETPGEYVSATVV ADNFMMALLFFILISIPALKWFQRHYAMPFEEKVKADGNSGNSAESYWKRKDISLKDI AFNAGAAFALVAVSMKVSGYFKSIFSHPLLTGTLGDQYLVLTSLTVLIIFLFPRFFER LNGSQELGTFLIYLFFVVIGIPADLRLIVTNAPLILLFVFIIAISNLAVSLAAGKLFR VRLEEILLAVNATVGGPTTAAAMAIAKGWRELVAPIMLVGTLGYLIGNYVGTFMGNWF SSFL*" gene complement(1261426..1262616) /gene="yjcL" /locus_tag="BSU_11900" /old_locus_tag="BSU11900" promotor_-10 complement(1262642..1262661) /Source="Nicolas_upshift_promotors" /id="U966" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.448551448551449" /psig=1 /xcortree=2871 /SigmaFactorBS="ttttttagaaaaactttttttggACTTGCTGttccgttcccc ggcTATTATAATATGTCTTAATTttctaacaatagaggtgatggggttttgcattctt t" /listShort="yjcL, yjcK" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1262646) /Source="Nicolas_upshifts" /id="U966" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.448551448551449" /psig=1 /xcortree=2871 /SigmaFactorBS="ttttttagaaaaactttttttggACTTGCTGttccgttcccc ggcTATTATAATATGTCTTAATTttctaacaatagaggtgatggggttttgcattctt t" /listShort="yjcL, yjcK" /GFF_Attribute="listLong" promotor_-35 complement(1262676..1262683) /Source="Nicolas_upshift_promotors" /id="U966" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.448551448551449" /psig=1 /xcortree=2871 /SigmaFactorBS="ttttttagaaaaactttttttggACTTGCTGttccgttcccc ggcTATTATAATATGTCTTAATTttctaacaatagaggtgatggggttttgcattctt t" /listShort="yjcL, yjcK" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1262710..1262717 /Source="Nicolas_upshift_promotors" /id="U967" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.85914085914086" /psig=1 /xcortree=2414 /SigmaFactorBS="agccggggaacggaacagcaagtccaaaaaaagtttttctaa aaaagcaGTTGACGAatagaaggtaaggTTATATAATAGAACTTGTCAgaaagataac a" /listShort="trnSL-Val2, S430" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1262721 /Source="Nicolas_upshifts" /id="U967" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.85914085914086" /psig=1 /xcortree=2414 /SigmaFactorBS="agccggggaacggaacagcaagtccaaaaaaagtttttctaa aaaagcaGTTGACGAatagaaggtaaggTTATATAATAGAACTTGTCAgaaagataac a" /listShort="trnSL-Val2, S430" /GFF_Attribute="listLong" promotor_-10 1262731..1262750 /Source="Nicolas_upshift_promotors" /id="U967" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.85914085914086" /psig=1 /xcortree=2414 /SigmaFactorBS="agccggggaacggaacagcaagtccaaaaaaagtttttctaa aaaagcaGTTGACGAatagaaggtaaggTTATATAATAGAACTTGTCAgaaagataac a" /listShort="trnSL-Val2, S430" /GFF_Attribute="listLong" /label="promotor_-10" tRNA 1262789..1262861 /gene="trnSL-Val2" /locus_tag="BSU_tRNA_83" /product="tRNA-Val" /inference="profile:tRNAscan:1.23" /note="valine tRNA (GAC); Evidence 2a: Function from experimental evidences in other organisms; Product type n: RNA" /function="16.2: Construct biomass (Anabolism)" gene 1262789..1262861 /gene="trnSL-Val2" /locus_tag="BSU_tRNA_83" promotor_-10 complement(1262803..1262820) /Source="Nicolas_upshift_promotors" /id="U968" /multdbtbs="-" /comp="M20" /sig="Sig-" /pcomp="0.926073926073926" /psig="0.007992007992008" /xcortree=394 /SigmaFactorBS="gcaagggtttaagctatgattccgactgggCTCGAACcagcg acctctaccctgtcaAGGTAGCGCTCTCCCAGCtgagctacggaatcatgatatgtat g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1262817) /Source="Nicolas_upshifts" /id="U968" /multdbtbs="-" /comp="M20" /sig="Sig-" /pcomp="0.926073926073926" /psig="0.007992007992008" /xcortree=394 /SigmaFactorBS="gcaagggtttaagctatgattccgactgggCTCGAACcagcg acctctaccctgtcaAGGTAGCGCTCTCCCAGCtgagctacggaatcatgatatgtat g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(1262841..1262847) /Source="Nicolas_upshift_promotors" /id="U968" /multdbtbs="-" /comp="M20" /sig="Sig-" /pcomp="0.926073926073926" /psig="0.007992007992008" /xcortree=394 /SigmaFactorBS="gcaagggtttaagctatgattccgactgggCTCGAACcagcg acctctaccctgtcaAGGTAGCGCTCTCCCAGCtgagctacggaatcatgatatgtat g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 1262851 /Source="Nicolas_upshifts" /id="D654" /incds=0 /nref=17 /ntot=80 /MaxReadThrough="4.64061" /MaxDrop="5.10012" /score="20.8247903" /energy="-9.1" /TU="U967" /idTUdmin="U965" /TUdmin=550 /isTUend="FALSE" S_feature complement(1262876..1263611) /Source="Nicolas_S_feature" /locus_tag="new_1262876_1263611_c" /HighExp="M9-stat, Lbstat, M0t90, Pyr, T0.30H, M40t90, C30, S1, LPhT, T1.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S429" S_feature 1262896..1264544 /Source="Nicolas_S_feature" /locus_tag="new_1262896_1264544" /HighExp="Cold, C30, G135, G180, G150, Oxctl, Fru, HPh, Glu, UNK1" /AntisenseName="yjcM" /AntisenseCor="0.46809452811910301" /AntisenseRegPval="-15.3" /CDS_PredictionProba="0.27514300000000003" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S430" downshifts complement(1262905) /Source="Nicolas_upshifts" /id="D655" /incds=0 /nref=29 /ntot=192 /MaxReadThrough="1.23936" /MaxDrop="3.57085" /score="-4.98447688" /energy="-7.9" /TU="NA" /idTUdmin="U970" /TUdmin=0 /isTUend="TRUE" S_feature complement(1263613..1263701) /Source="Nicolas_S_feature" /locus_tag="new_1263613_1263701_c" /HighExp="aero, HPh, M0t45, SMM, dia0, GM 150, Mal, M/G, Mt0, LPh" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S431" downshifts complement(1263656) /Source="Nicolas_upshifts" /id="D656" /incds=0 /nref=34 /ntot=148 /MaxReadThrough="4.13737" /MaxDrop="4.5557" /score="11.73443" /energy="-14.2" /TU="U970" /idTUdmin="U970" /TUdmin="-751" /isTUend="FALSE" CDS complement(1263702..1264931) /gene="yjcM" /locus_tag="BSU_11910" /old_locus_tag="BSU11910" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 20011599" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein; phage island" /protein_id="NP_389073.1" /db_xref="EnsemblGenomes-Gn:BSU11910" /db_xref="EnsemblGenomes-Tr:CAB13048" /db_xref="InterPro:IPR024301" /db_xref="SubtiList:BG13166" /db_xref="UniProtKB/Swiss-Prot:O31635" /translation="MKKELLASLVLCLSLSPLVSTNEVFAATTNKETKENVSITNEIG YEKVKDMLEQQKYDFEHNTPLAHPKESKLTDSDEGVLLYSALSKVDKQKFHEFTYDID DVKTSEKNNKLIVEAYITRNFVFGVEKVTTSLGDNIKLEIPKTTSNKQSSQSTNTSNL SFSQVKNSSNQLNVIPLSNSSKQLNVTQLNNSSSTLQYENDEEYSSDVKLDEFLKKYK QEVKNDDKEEVKSEDKPVSMNFNAANSNQLTVTATSVKGYSGYAAMKYAEKYALKPNK NYKYYKDKDCTNFVSQALRAGRMPYFKEWKPYTDAWVNAGAFRSYILKAGGIKMKTVS DTYSNVKLGDVYHYDYHNKIGLRYADGWMDHTAIVTSRANMKLYVSYHSTNRLNVPRE YVTSKEGGKRYVSSIRN*" gene complement(1263702..1264931) /gene="yjcM" /locus_tag="BSU_11910" /old_locus_tag="BSU11910" downshifts complement(1263824) /Source="Nicolas_upshifts" /id="D657" /incds=1 /nref=4 /ntot=143 /MaxReadThrough="5.58558" /MaxDrop="3.45178" /score="11.73443" /energy="-14.2" /TU="U970" /idTUdmin="U970" /TUdmin="-919" /isTUend="FALSE" downshifts 1264501 /Source="Nicolas_upshifts" /id="D658" /incds=1 /nref=1 /ntot=48 /MaxReadThrough="3.19343" /MaxDrop="1.98614" /score="26.2462772" /energy="-24.7" /TU="NA" /idTUdmin="U967" /TUdmin=0 /isTUend="TRUE" S_feature complement(1264932..1265017) /Source="Nicolas_S_feature" /locus_tag="new_1264932_1265017_c" /HighExp="aero, SMM, T-3.40H, MG 150, Lbexp, SMMPr, GM 90, C90, nit, HPh" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S432" promotor_-35 1264972..1264979 /Source="Nicolas_upshift_promotors" /id="U969" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.97902097902098" /psig="0.998001998001998" /xcortree=2298 /SigmaFactorBS="aaatctaaatataagtaatatttatCATTTACAccaattgaa atatgGCATAAAATACATGTAATAAtataacataaaaataaatacataaaaaggtatc g" /listShort="yjcN, S433, yjzF, yjzG, yjcO, S434, yjcP, yjcQ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1264994..1265013 /Source="Nicolas_upshift_promotors" /id="U969" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.97902097902098" /psig="0.998001998001998" /xcortree=2298 /SigmaFactorBS="aaatctaaatataagtaatatttatCATTTACAccaattgaa atatgGCATAAAATACATGTAATAAtataacataaaaataaatacataaaaaggtatc g" /listShort="yjcN, S433, yjzF, yjzG, yjcO, S434, yjcP, yjcQ" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-10 complement(1265003..1265022) /Source="Nicolas_upshift_promotors" /id="U970" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.320679320679321" /psig="0.999000999001" /xcortree=2299 /SigmaFactorBS="gtataattttagttttctttttcattttttcctccgatacCT TTTTAtgtatttattttTATGTTATATTATTACATGTattttatgccatatttcaatt g" /listShort="S432, yjcM, S431, S429" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1265007 /Source="Nicolas_upshifts" /id="U969" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.97902097902098" /psig="0.998001998001998" /xcortree=2298 /SigmaFactorBS="aaatctaaatataagtaatatttatCATTTACAccaattgaa atatgGCATAAAATACATGTAATAAtataacataaaaataaatacataaaaaggtatc g" /listShort="yjcN, S433, yjzF, yjzG, yjcO, S434, yjcP, yjcQ" /GFF_Attribute="listLong" upshifts complement(1265021) /Source="Nicolas_upshifts" /id="U970" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.320679320679321" /psig="0.999000999001" /xcortree=2299 /SigmaFactorBS="gtataattttagttttctttttcattttttcctccgatacCT TTTTAtgtatttattttTATGTTATATTATTACATGTattttatgccatatttcaatt g" /listShort="S432, yjcM, S431, S429" /GFF_Attribute="listLong" promotor_-35 complement(1265035..1265041) /Source="Nicolas_upshift_promotors" /id="U970" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.320679320679321" /psig="0.999000999001" /xcortree=2299 /SigmaFactorBS="gtataattttagttttctttttcattttttcctccgatacCT TTTTAtgtatttattttTATGTTATATTATTACATGTattttatgccatatttcaatt g" /listShort="S432, yjcM, S431, S429" /GFF_Attribute="listLong" /label="promotor_-35" CDS 1265057..1265377 /gene="yjcN" /locus_tag="BSU_11920" /old_locus_tag="BSU11920" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein; phage island" /protein_id="NP_389074.1" /db_xref="EnsemblGenomes-Gn:BSU11920" /db_xref="EnsemblGenomes-Tr:CAB13049" /db_xref="SubtiList:BG13167" /db_xref="UniProtKB/Swiss-Prot:O31636" /translation="MKKKTKIILSLLAALIVILIVLPVLSPVVFTASSEKGAIRHEIY KRGYPYQSYFAVLQKREGDNESGNLYYVNWLDWKDETGQTPHLCYSKKSSDGEYEVSC GTGP*" gene 1265057..1265377 /gene="yjcN" /locus_tag="BSU_11920" /old_locus_tag="BSU11920" downshifts 1265387 /Source="Nicolas_upshifts" /id="D659" /incds=0 /nref=57 /ntot=233 /MaxReadThrough="3.73892" /MaxDrop="4.41989" /score="26.2462772" /energy="-24.7" /TU="U969" /idTUdmin="U967" /TUdmin=886 /isTUend="FALSE" S_feature 1265432..1265529 /Source="Nicolas_S_feature" /locus_tag="new_1265432_1265529" /HighExp="LoTm, B60, Cold, B36, T3.30H, T3.0H, T4.0H, T2.0H, Sw, M9-stat" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S433" CDS 1265530..1265661 /gene="yjzF" /locus_tag="BSU_11928" /old_locus_tag="BSU11928" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="YP_003097707.1" /db_xref="EnsemblGenomes-Gn:BSU11928" /db_xref="EnsemblGenomes-Tr:CAX52597" /db_xref="UniProtKB/Swiss-Prot:C0H3Z0" /translation="MKQSKKKPSQKQHERLDRFWQQMMNTNMQTLRRGKGGAYKRRK* " gene 1265530..1265661 /gene="yjzF" /locus_tag="BSU_11928" /old_locus_tag="BSU11928" CDS 1265677..1265850 /gene="yjzG" /locus_tag="BSU_11929" /old_locus_tag="BSU11929" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_003097708.1" /db_xref="EnsemblGenomes-Gn:BSU11929" /db_xref="EnsemblGenomes-Tr:CAX52598" /db_xref="UniProtKB/Swiss-Prot:C0H3Z1" /translation="MMKNGFAYKNGKLVNIFCGKEELYNELKAFLVKTFSINVKEVSR PSIYRRTKSKQLE*" gene 1265677..1265850 /gene="yjzG" /locus_tag="BSU_11929" /old_locus_tag="BSU11929" CDS 1265887..1266348 /gene="yjcO" /locus_tag="BSU_11930" /old_locus_tag="BSU11930" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative DNA binding protein; phage island" /protein_id="NP_389075.1" /db_xref="EnsemblGenomes-Gn:BSU11930" /db_xref="EnsemblGenomes-Tr:CAB13050" /db_xref="GOA:O31637" /db_xref="InterPro:IPR013324" /db_xref="SubtiList:BG13168" /db_xref="UniProtKB/Swiss-Prot:O31637" /translation="MTDQMIAWEIEEWIRDYKFMLREIKRLNRVLNKVDFISTKLTAT YGEEAGMPRGSAGVSQAELRQMDRRERRLHKYESIVHYLDNAMEHIEEEKHRIVYDCM MEGMSYTAIANHLDCSRDTIRKIKTAIIGNIVNKVKEANFLQYLNSFKSAV*" gene 1265887..1266348 /gene="yjcO" /locus_tag="BSU_11930" /old_locus_tag="BSU11930" promotor_-35 1266319..1266326 /Source="Nicolas_upshift_promotors" /id="U971" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.992007992007992" /psig="0.997002997002997" /xcortree=2045 /SigmaFactorBS="aataaagtcaaagaagccaactttctgcaaTATTTGAAttcg tttaaatcggCGGTGTAAAATGGGGGGCAGgatcggcgcggcggattattcctgcgtc a" /listShort="S434" /listLong="yjcP, yjcQ" /label="promotor_-35" promotor_-10 1266341..1266360 /Source="Nicolas_upshift_promotors" /id="U971" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.992007992007992" /psig="0.997002997002997" /xcortree=2045 /SigmaFactorBS="aataaagtcaaagaagccaactttctgcaaTATTTGAAttcg tttaaatcggCGGTGTAAAATGGGGGGCAGgatcggcgcggcggattattcctgcgtc a" /listShort="S434" /listLong="yjcP, yjcQ" /label="promotor_-10" S_feature 1266349..1266589 /Source="Nicolas_S_feature" /locus_tag="new_1266349_1266589" /HighExp="LoTm, B60, Cold, B36, Diami, S8, dia15, C30, dia5, LPhT" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.12525800000000001" /TUshortSig="SigA, SigA" /TUshortPSig="0.997, 0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S434" upshifts 1266349 /Source="Nicolas_upshifts" /id="U971" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.992007992007992" /psig="0.997002997002997" /xcortree=2045 /SigmaFactorBS="aataaagtcaaagaagccaactttctgcaaTATTTGAAttcg tttaaatcggCGGTGTAAAATGGGGGGCAGgatcggcgcggcggattattcctgcgtc a" /listShort="S434" /listLong="yjcP, yjcQ" promotor_-35 1266562..1266569 /Source="Nicolas_upshift_promotors" /id="U972" /multdbtbs="SigD" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2836 /SigmaFactorBS="caacagattcgttcgacaaattttgcaaattGTTAATCGata acttttcattCCCGATATTAAAAATGGGAgtgaattgtaaaatgaaaaaacagaaaaa t" /listShort="yjcP, yjcQ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1266583..1266601 /Source="Nicolas_upshift_promotors" /id="U972" /multdbtbs="SigD" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2836 /SigmaFactorBS="caacagattcgttcgacaaattttgcaaattGTTAATCGata acttttcattCCCGATATTAAAAATGGGAgtgaattgtaaaatgaaaaaacagaaaaa t" /listShort="yjcP, yjcQ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1266591 /Source="Nicolas_upshifts" /id="U972" /multdbtbs="SigD" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2836 /SigmaFactorBS="caacagattcgttcgacaaattttgcaaattGTTAATCGata acttttcattCCCGATATTAAAAATGGGAgtgaattgtaaaatgaaaaaacagaaaaa t" /listShort="yjcP, yjcQ" /GFF_Attribute="listLong" CDS 1266614..1267117 /gene="yjcP" /locus_tag="BSU_11940" /old_locus_tag="BSU11940" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 15033535" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein: phage island" /protein_id="NP_389076.1" /db_xref="EnsemblGenomes-Gn:BSU11940" /db_xref="EnsemblGenomes-Tr:CAB13051" /db_xref="GOA:O31638" /db_xref="SubtiList:BG13169" /db_xref="UniProtKB/Swiss-Prot:O31638" /translation="MKKQKNNKKKNIEKRNIEKRNIEEKNNEDLEELENAIYTYHKKE LLAFFLEKTRIGHDKEEYKRFQSLLYKLDIECLEFAISRFSHIDIIHDHSKYVPAFIP LFAAYLTMFFNFYEKHWGALSFAAGTIAAIVWIIAVERKHRNQAISIMKIFEQVKERK VKDRSKD*" gene 1266614..1267117 /gene="yjcP" /locus_tag="BSU_11940" /old_locus_tag="BSU11940" CDS 1267129..1267413 /gene="yjcQ" /locus_tag="BSU_11950" /old_locus_tag="BSU11950" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 15033535" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein; phage island" /protein_id="NP_389077.1" /db_xref="EnsemblGenomes-Gn:BSU11950" /db_xref="EnsemblGenomes-Tr:CAB13052" /db_xref="InterPro:IPR018597" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="PDB:2HGC" /db_xref="SubtiList:BG13170" /db_xref="UniProtKB/Swiss-Prot:O31639" /translation="MNKDKLRYAILKEIFEGNTPLSENDIGVTEDQFDDAVNFLKREG YIIGVHYSDDRPHLYKLGPELTEKGENYLKENGTWSKAYKTIKEIKDWIK*" gene 1267129..1267413 /gene="yjcQ" /locus_tag="BSU_11950" /old_locus_tag="BSU11950" downshifts 1267383 /Source="Nicolas_upshifts" /id="D660" /incds=0 /nref=215 /ntot=271 /MaxReadThrough="1.63272" /MaxDrop="7.26386" /score="22.0381158" /energy="-7.2" /TU="NA" /idTUdmin="U969" /TUdmin=0 /isTUend="TRUE" upshifts complement(1267415) /Source="Nicolas_upshifts" /id="U973" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.828171828171828" /psig="0.107892107892108" /xcortree=80 /SigmaFactorBS="tcctgagacttaccggaagcagtttacagggaacaaaaaaag caccCCGCaggatgctcttattatttaatccaatctttaatctctttaatggtcttat a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" misc_feature complement(1267426..1267429) /Source="Nicolas_upshift_promotors" /id="U973" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.828171828171828" /psig="0.107892107892108" /xcortree=80 /SigmaFactorBS="tcctgagacttaccggaagcagtttacagggaacaaaaaaag caccCCGCaggatgctcttattatttaatccaatctttaatctctttaatggtcttat a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" CDS 1267574..1268101 /gene="yjcR" /locus_tag="BSU_11960" /old_locus_tag="BSU11960" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 7489895, 7704261; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative phage-related nucleic acid binding terminase small subunit; phage island" /protein_id="NP_389078.1" /db_xref="EnsemblGenomes-Gn:BSU11960" /db_xref="EnsemblGenomes-Tr:CAB13053" /db_xref="GOA:O31640" /db_xref="InterPro:IPR009057" /db_xref="InterPro:IPR010332" /db_xref="SubtiList:BG13171" /db_xref="UniProtKB/Swiss-Prot:O31640" /translation="MAEKHIQAYKDYVKGMKYKDLAEKYGVSVNTIKSWKQRHGWERK KGAPIEKSVHTKKGGQPGNKNALGNNGGAPQKNQNAVTHGFFSKFLPEETLEIMEEIQ ERSPADMIWDQIQIQYAAILRAQKIMFVSDKEEMIKELKKKRSLISEVSEIEDGLVIS FSTWFRYRLYSETNT*" gene 1267574..1268101 /gene="yjcR" /locus_tag="BSU_11960" /old_locus_tag="BSU11960" promotor_-35 1268248..1268253 /Source="Nicolas_upshift_promotors" /id="U974" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.748251748251748" /psig="0.992007992007992" /xcortree=2218 /SigmaFactorBS="tacagcgattgattaactcgagcaatcaatgtcgcagttATA TTTatttttcaagaaAATGTTATAATGAAAAGCCAtaaaatgatgggagggggaattt c" /listShort="yjcS, S435, yjdA, S436" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1268266..1268285 /Source="Nicolas_upshift_promotors" /id="U974" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.748251748251748" /psig="0.992007992007992" /xcortree=2218 /SigmaFactorBS="tacagcgattgattaactcgagcaatcaatgtcgcagttATA TTTatttttcaagaaAATGTTATAATGAAAAGCCAtaaaatgatgggagggggaattt c" /listShort="yjcS, S435, yjdA, S436" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1268269 /Source="Nicolas_upshifts" /id="U974" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.748251748251748" /psig="0.992007992007992" /xcortree=2218 /SigmaFactorBS="tacagcgattgattaactcgagcaatcaatgtcgcagttATA TTTatttttcaagaaAATGTTATAATGAAAAGCCAtaaaatgatgggagggggaattt c" /listShort="yjcS, S435, yjdA, S436" /GFF_Attribute="listLong" CDS 1268275..1268592 /gene="yjcS" /locus_tag="BSU_11970" /old_locus_tag="BSU11970" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein; phage island" /protein_id="NP_389079.1" /db_xref="EnsemblGenomes-Gn:BSU11970" /db_xref="EnsemblGenomes-Tr:CAB13054" /db_xref="GOA:O31641" /db_xref="InterPro:IPR007138" /db_xref="InterPro:IPR011008" /db_xref="PDB:1Q8B" /db_xref="SubtiList:BG13172" /db_xref="UniProtKB/Swiss-Prot:O31641" /translation="MKSHKMMGGGISMHYITACLKIISDKDLNEIMKEFKKLEEETNK EEGCITFHAYPLEPSERKIMLWEIWENEEAVKIHFTKKHTIDVQKQELTEVEWLMKSN VND*" gene 1268275..1268592 /gene="yjcS" /locus_tag="BSU_11970" /old_locus_tag="BSU11970" S_feature 1268593..1268828 /Source="Nicolas_S_feature" /locus_tag="new_1268593_1268828" /HighExp="dia5, H2O2, dia15, dia0, Lbexp, Lbtran, C90, Oxctl, S1, aero" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.992" /TUlongSig="NA" /TUlongPSig="NA" /label="S435" CDS 1268829..1269584 /gene="yjdA" /locus_tag="BSU_11980" /old_locus_tag="BSU11980" /EC_number="1.1.1.-" /function="16.2: Construct biomass (Anabolism)" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 2243795; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative acyl-carrier protein oxidoreductase; phage island" /protein_id="NP_389080.1" /db_xref="EnsemblGenomes-Gn:BSU11980" /db_xref="EnsemblGenomes-Tr:CAB13055" /db_xref="GOA:O31642" /db_xref="InterPro:IPR002347" /db_xref="InterPro:IPR020904" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG13173" /db_xref="UniProtKB/Swiss-Prot:O31642" /translation="MSHSQEKIALITGASSQGDIGTAICRKLASQGIHIFFTHWNSDT AWIEEFQQEILRMGVRCEAMKIDLSDAHAAFTIHEKISDKLGYPSILINNAAHSASDN YVSLDAKSLDEHYAVNMRSNFLLCVEFARRFKKSNLISGRIINMTSGQDLGPLPGELA YAATKGAISAFTRSLSQELAPLGITVNAVNPGPTDSTWMTDEIRNFLSPKFPMGRIGT PDDAARMIAFLASDEAEWITGQIIHSEGGFIRG*" gene 1268829..1269584 /gene="yjdA" /locus_tag="BSU_11980" /old_locus_tag="BSU11980" S_feature 1269585..1269672 /Source="Nicolas_S_feature" /locus_tag="new_1269585_1269672" /HighExp="C90, S1, dia0, dia5, Mt0, Lbexp, Gly, H2O2, Oxctl, Lbtran" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.992" /TUlongSig="NA" /TUlongPSig="NA" /label="S436" downshifts 1269629 /Source="Nicolas_upshifts" /id="D661" /incds=0 /nref=89 /ntot=238 /MaxReadThrough="2.66489" /MaxDrop="5.39812" /score="-0.84766737" /energy="-14.2" /TU="NA" /idTUdmin="U974" /TUdmin="-20" /isTUend="TRUE" S_feature complement(1269672..1269732) /Source="Nicolas_S_feature" /locus_tag="new_1269672_1269732_c" /HighExp="Lbstat, BI, BT, nit, S2, ferm, B60, B36, M0t90, S3" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="NA" /TUshortPSig="NA" /TUlongSig="NA" /TUlongPSig="NA" /label="S437" downshifts complement(1269703) /Source="Nicolas_upshifts" /id="D662" /incds=0 /nref=80 /ntot=134 /MaxReadThrough="1.9707" /MaxDrop="7.43843" /score="-5.56180712" /energy="-14.2" /TU="NA" /idTUdmin="U975" /TUdmin=0 /isTUend="TRUE" CDS complement(1269733..1270080) /gene="yjdB" /locus_tag="BSU_11990" /old_locus_tag="BSU11990" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 16291680; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="putative exported protein; phage island" /protein_id="NP_389081.1" /db_xref="EnsemblGenomes-Gn:BSU11990" /db_xref="EnsemblGenomes-Tr:CAB13056" /db_xref="InterPro:IPR003343" /db_xref="InterPro:IPR008964" /db_xref="SubtiList:BG13174" /db_xref="UniProtKB/Swiss-Prot:O31643" /translation="MNFKKTVVSALSISALALSVSGVASAHEINSTPTEVKNISISPT HVIKIQDYNLPLKVGETYSVKNNSATRYWTDNQKVAEVDQNGLVTAKSKGKATITLFK GTAVFGKVYVTVY*" gene complement(1269733..1270080) /gene="yjdB" /locus_tag="BSU_11990" /old_locus_tag="BSU11990" promotor_-10 complement(1270112..1270130) /Source="Nicolas_upshift_promotors" /id="U975" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=507 /SigmaFactorBS="tcaattgatcgttcacatattattaacatttatttaCAAGGA AAAtaattactttTATTGAATTGTTATAGTGCaagacaaaaaactttaaaggagtgtt t" /listShort="yjdB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1270125) /Source="Nicolas_upshifts" /id="U975" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=507 /SigmaFactorBS="tcaattgatcgttcacatattattaacatttatttaCAAGGA AAAtaattactttTATTGAATTGTTATAGTGCaagacaaaaaactttaaaggagtgtt t" /listShort="yjdB" /GFF_Attribute="listLong" S_feature complement(1270127..1270583) /Source="Nicolas_S_feature" /locus_tag="new_1270127_1270583_c" /HighExp="T1.30H, T2.0H, T2.30H, T3.0H, M9-stat, T1.0H, Lbstat, T3.30H, M0t90, Lbtran" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.983" /TUlongSig="NA" /TUlongPSig="NA" /label="S438" promotor_-35 complement(1270141..1270149) /Source="Nicolas_upshift_promotors" /id="U975" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=507 /SigmaFactorBS="tcaattgatcgttcacatattattaacatttatttaCAAGGA AAAtaattactttTATTGAATTGTTATAGTGCaagacaaaaaactttaaaggagtgtt t" /listShort="yjdB" /GFF_Attribute="listLong" /label="promotor_-35" misc_feature 1270543..1270561 /Source="Nicolas_upshift_promotors" /id="U976" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.33966033966034" /psig="0.99100899100899" /xcortree=1564 /SigmaFactorBS="tttttccggaagcttcggtaaaaaacgaaacttttgtctcta tgatttTGTTTTATAATGTAAACGGtttcttatatagtatacttatactatcaatttg c" /listShort="manR" /listLong="manP, manA, S439, S440, yjdF, yjdI" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 1270555 /Source="Nicolas_upshifts" /id="U976" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.33966033966034" /psig="0.99100899100899" /xcortree=1564 /SigmaFactorBS="tttttccggaagcttcggtaaaaaacgaaacttttgtctcta tgatttTGTTTTATAATGTAAACGGtttcttatatagtatacttatactatcaatttg c" /listShort="manR" /listLong="manP, manA, S439, S440, yjdF, yjdI" promotor_-10 complement(1270561..1270580) /Source="Nicolas_upshift_promotors" /id="U977" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.572427572427572" /psig="0.983016983016983" /xcortree=327 /SigmaFactorBS="ttatgtattccatctgtttttctatccttcctgtcagtatct ACTTGAGCaaattgatagtatAAGTATACTATATAAGAAACcgtttacattataaaac a" /listShort="S438, yjdB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1270583) /Source="Nicolas_upshifts" /id="U977" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.572427572427572" /psig="0.983016983016983" /xcortree=327 /SigmaFactorBS="ttatgtattccatctgtttttctatccttcctgtcagtatct ACTTGAGCaaattgatagtatAAGTATACTATATAAGAAACcgtttacattataaaac a" /listShort="S438, yjdB" /GFF_Attribute="listLong" promotor_-35 complement(1270594..1270601) /Source="Nicolas_upshift_promotors" /id="U977" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.572427572427572" /psig="0.983016983016983" /xcortree=327 /SigmaFactorBS="ttatgtattccatctgtttttctatccttcctgtcagtatct ACTTGAGCaaattgatagtatAAGTATACTATATAAGAAACcgtttacattataaaac a" /listShort="S438, yjdB" /GFF_Attribute="listLong" /label="promotor_-35" CDS 1270631..1272577 /gene="manR" /locus_tag="BSU_12000" /old_locus_tag="BSU12000" /function="16.1: Circulate" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:10438772, 10960106, 23551403" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10438772, 10960106, 23551403; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional DNA-binding activator" /protein_id="NP_389082.2" /db_xref="EnsemblGenomes-Gn:BSU12000" /db_xref="EnsemblGenomes-Tr:CAB13057" /db_xref="GOA:O31644" /db_xref="InterPro:IPR002178" /db_xref="InterPro:IPR007737" /db_xref="InterPro:IPR011608" /db_xref="InterPro:IPR013011" /db_xref="InterPro:IPR013196" /db_xref="InterPro:IPR016152" /db_xref="InterPro:IPR036095" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036634" /db_xref="SubtiList:BG13175" /db_xref="UniProtKB/Swiss-Prot:O31644" /translation="MEYINTRQKEILYLLLSEPDDYLVVQDFADRVQCSEKTIRNDLK VIEDYLNEHSHAQLIRKPGLGVYLHIEEQERTWLSQQLHTEHFSSRQRSDKERMLHIA YDLLMNPKPVSAKDIAARHFVNRSSIKKDLYAVEEWLKRFDLTLVSRQRLGLKVEGNE RNKRKALARISDLIHNTAFTSQFIKSKFLHYEVDFVTKEIKSLQKKHSLYFTDETFES LLLHTLLMVRRIKMKQPISLSPKEMAAVKKKKEYQWTFACLQRLEPVFAIRFPEEEAV YLTLHILGGKVRYPLQTEENLENAVLPKVVGHLINRVSELKMMDFHKDQDLINGLNIH LNTVLQRLSYDLSVANPMLNDIKKMYPYLFHLIIDVLEDINQTFDLHIPEEEAAYLTL HFQAAIERMQGSSETHKKAVIVCHMGIGMSQLLRTKIERKYHQIAVMACIAKADLKDY IKKHEDIDLVISTIALENITVPHIVVSPLLEPGEEKKLSAFIRQLGESHRQKQKTFQM LNNTTPFLVFLQQEAEHRYKLIEQLATALFEKGYVDKDYAVHAVMREKMSATNIGSGI AIPHANAKFIKQSAIAIATLKEPLEWGNEKVSLVFMLAVKHEDQTMTKQLFSELSYLS EQPAFVQKLTKETNVMTFLSHLDY*" gene 1270631..1272577 /gene="manR" /locus_tag="BSU_12000" /old_locus_tag="BSU12000" downshifts 1272553 /Source="Nicolas_upshifts" /id="D663" /incds=0 /nref=3 /ntot=35 /MaxReadThrough="4.64475" /MaxDrop="3.79938" /score="28.4199725" /energy="-9.1" /TU="U976" /idTUdmin="U976" /TUdmin="-110" /isTUend="FALSE" promotor_-35 1272653..1272656 /Source="Nicolas_upshift_promotors" /id="U978" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.424575424575425" /psig="0.936063936063936" /xcortree=1565 /SigmaFactorBS="tttattaccggaacctatggtaaaaaaagcGATTttaatgag ctgatttCGGTATACAGTTGAGACAAGatcttattattcacactttaaaggaggtttc c" /listShort="manP, manA, S439, S440, yjdF, yjdI" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1272672..1272691 /Source="Nicolas_upshift_promotors" /id="U978" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.424575424575425" /psig="0.936063936063936" /xcortree=1565 /SigmaFactorBS="tttattaccggaacctatggtaaaaaaagcGATTttaatgag ctgatttCGGTATACAGTTGAGACAAGatcttattattcacactttaaaggaggtttc c" /listShort="manP, manA, S439, S440, yjdF, yjdI" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1272683 /Source="Nicolas_upshifts" /id="U978" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.424575424575425" /psig="0.936063936063936" /xcortree=1565 /SigmaFactorBS="tttattaccggaacctatggtaaaaaaagcGATTttaatgag ctgatttCGGTATACAGTTGAGACAAGatcttattattcacactttaaaggaggtttc c" /listShort="manP, manA, S439, S440, yjdF, yjdI" /GFF_Attribute="listLong" upshifts complement(1272695) /Source="Nicolas_upshifts" /id="U979" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.748251748251748" /psig="0.14985014985015" /xcortree=304 /SigmaFactorBS="tcggacaagatgtaatcgctaacagtttcataggaaaCCTCC TTTAAAGTGTgaataataagatcttgtctcaactgtataccgaaatcagctcattaaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" misc_feature complement(1272704..1272718) /Source="Nicolas_upshift_promotors" /id="U979" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.748251748251748" /psig="0.14985014985015" /xcortree=304 /SigmaFactorBS="tcggacaagatgtaatcgctaacagtttcataggaaaCCTCC TTTAAAGTGTgaataataagatcttgtctcaactgtataccgaaatcagctcattaaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" CDS 1272725..1274677 /gene="manP" /locus_tag="BSU_12010" /old_locus_tag="BSU12010" /EC_number="2.7.1.191" /function="16.1: Circulate" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:10627040, 10960106, 23551403" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10627040, 10960106, 23551403; Product type t: transporter" /codon_start=1 /transl_table=11 /product="phosphotransferase system (PTS) mannose-specificenzyme IIBCA component" /protein_id="NP_389083.2" /db_xref="EnsemblGenomes-Gn:BSU12010" /db_xref="EnsemblGenomes-Tr:CAB13058" /db_xref="GOA:O31645" /db_xref="InterPro:IPR002178" /db_xref="InterPro:IPR003352" /db_xref="InterPro:IPR003353" /db_xref="InterPro:IPR003501" /db_xref="InterPro:IPR004715" /db_xref="InterPro:IPR006327" /db_xref="InterPro:IPR013011" /db_xref="InterPro:IPR013014" /db_xref="InterPro:IPR016152" /db_xref="InterPro:IPR036095" /db_xref="PDB:2R48" /db_xref="SubtiList:BG13176" /db_xref="UniProtKB/Swiss-Prot:O31645" /translation="MKLLAITSCPNGIAHTYMAAENLQKAADRLGVSIKVETQGGIGV ENKLTEEEIREADAIIIAADRSVNKDRFIGKKLLSVGVQDGIRKPEELIQKALNGDIP VYRSATKSESGNHQEKKQNPIYRHLMNGVSFMVPFIVVGGLLIAVALTLGGEKTPKGL VIPDDSFWKTIEQIGSASFSFMIPILAGYIAYSIADKPGLVPGMIGGYIAATGSFYDS ASGAGFLGGIIAGFLAGYAALWIKKLKVPKAIQPIMPIIIIPVFASLIVGLAFVFLIG APVAQIFASLTVWLAGMKGSSSILLALILGAMISFDMGGPVNKVAFLFGSAMIGEGNY EIMGPIAVAICIPPIGLGIATFLGKRKFEASQREMGKAAFTMGLFGITEGAIPFAAQD PLRVIPSIMAGSMTGSVIAMIGNVGDRVAHGGPIVAVLGAVDHVLMFFIAVIAGSLVT ALFVNVLKKDITASPVLSETAPTSAPSEAAAANEIKQPIQSQKAEMSEFKKLTDIISP ELIEPNLSGETSDDIIDELIQKLSRRGALLSESGFKQAILNREQQGTTAIGMNIAIPH GKSEAVREPSVAFGIKRSGVDWNSLDGSEAKLIFMIAVPKESGGNQHLKILQMLSRKL MDDNYRERLLSVQTTEEAYKLLEEIE*" gene 1272725..1274677 /gene="manP" /locus_tag="BSU_12010" /old_locus_tag="BSU12010" CDS 1274692..1275639 /gene="manA" /locus_tag="BSU_12020" /old_locus_tag="BSU12020" /EC_number="5.3.1.8" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:10960106, 7934877, 20862359, 23551403" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10960106, 7934877, 20862359, 23551403; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="mannose-6 phosphate isomerase; cupin family" /protein_id="NP_389084.1" /db_xref="EnsemblGenomes-Gn:BSU12020" /db_xref="EnsemblGenomes-Tr:CAB13059" /db_xref="GOA:O31646" /db_xref="InterPro:IPR001250" /db_xref="InterPro:IPR011051" /db_xref="InterPro:IPR014628" /db_xref="InterPro:IPR014710" /db_xref="SubtiList:BG13177" /db_xref="UniProtKB/Swiss-Prot:O31646" /translation="MTTEPLFFKPVFKERIWGGTALADFGYTIPSQRTGECWAFAAHQ NGQSVVQNGMYKGFTLSELWEHHRHLFGQLEGDRFPLLTKILDADQDLSVQVHPNDEY ANIHENGELGKTECWYIIDCQKDAEIIYGHNATTKEELTTMIERGEWDELLRRVKVKP GDFFYVPSGTVHAIGKGILALETQQNSDTTYRLYDYDRKDAEGKLRELHLKKSIEVIE VPSIPERHTVHHEQIEDLLTTTLIECAYFSVGKWNLSGSASLKQQKPFLLISVIEGEG RMISGEYVYPFKKGDHMLLPYGLGEFKLEGYAECIVSHL*" gene 1274692..1275639 /gene="manA" /locus_tag="BSU_12020" /old_locus_tag="BSU12020" S_feature 1275640..1275738 /Source="Nicolas_S_feature" /locus_tag="new_1275640_1275738" /HighExp="Oxctl, Lbexp, Paraq, T0.30H, dia0, Diami, H2O2, dia5, Fru, G150" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.15168699999999999" /TUshortSig="SigA" /TUshortPSig="0.936" /TUlongSig="SigA" /TUlongPSig="0.991" /label="S439" promotor_-35 1275713..1275719 /Source="Nicolas_upshift_promotors" /id="U980" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.463536463536464" /psig="0.995004995004995" /xcortree=2151 /SigmaFactorBS="ctattctccagcaatgatctaaataaaataagaGTTTAATag ttggagaagaaaTGTTACACTCTTTTCTGTATatggtaaagaatgaaaaaacacgatt c" /listShort="S440, yjdF" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1275734..1275753 /Source="Nicolas_upshift_promotors" /id="U980" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.463536463536464" /psig="0.995004995004995" /xcortree=2151 /SigmaFactorBS="ctattctccagcaatgatctaaataaaataagaGTTTAATag ttggagaagaaaTGTTACACTCTTTTCTGTATatggtaaagaatgaaaaaacacgatt c" /listShort="S440, yjdF" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1275740..1275808 /Source="Nicolas_S_feature" /locus_tag="new_1275740_1275808" /HighExp="Oxctl, Lbexp, Paraq, T0.30H, dia0, Diami, dia5, Fru, H2O2, G150" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.995, 0.936" /TUlongSig="SigA" /TUlongPSig="0.991" /label="S440" upshifts 1275740 /Source="Nicolas_upshifts" /id="U980" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.463536463536464" /psig="0.995004995004995" /xcortree=2151 /SigmaFactorBS="ctattctccagcaatgatctaaataaaataagaGTTTAATag ttggagaagaaaTGTTACACTCTTTTCTGTATatggtaaagaatgaaaaaacacgatt c" /listShort="S440, yjdF" /GFF_Attribute="listLong" CDS 1275809..1276291 /gene="yjdF" /locus_tag="BSU_12030" /old_locus_tag="BSU12030" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 20139185" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_389085.1" /db_xref="EnsemblGenomes-Gn:BSU12030" /db_xref="EnsemblGenomes-Tr:CAB13060" /db_xref="InterPro:IPR016787" /db_xref="SubtiList:BG13178" /db_xref="UniProtKB/Swiss-Prot:O31647" /translation="MSVTFPSSGCPSFFNIFYEEGIVMKLTIYYDGQFWVGVVEVVDN GKLRAFRHLFGKEPRDSEVLEFVHNQLLNMMAQAEQEGVRLQGRRQKKINPKRLQRQV SKELKNAGVTSKAQEAIKLELEARKQKKKQIMKEQREHVKEQRYMLKKQKAKKKHRGK *" gene 1275809..1276291 /gene="yjdF" /locus_tag="BSU_12030" /old_locus_tag="BSU12030" downshifts 1276271 /Source="Nicolas_upshifts" /id="D664" /incds=0 /nref=220 /ntot=267 /MaxReadThrough="5.32805" /MaxDrop="7.35641" /score="7.68574519" /energy="-10.2" /TU="U978" /idTUdmin="U980" /TUdmin=1 /isTUend="TRUE" CDS complement(1276337..1276843) /gene="yjdG" /locus_tag="BSU_12040" /old_locus_tag="BSU12040" /EC_number="2.3.1.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative acetyltransferase" /protein_id="NP_389086.1" /db_xref="EnsemblGenomes-Gn:BSU12040" /db_xref="EnsemblGenomes-Tr:CAB13061" /db_xref="GOA:O31648" /db_xref="InterPro:IPR000182" /db_xref="InterPro:IPR016181" /db_xref="SubtiList:BG13179" /db_xref="UniProtKB/Swiss-Prot:O31648" /translation="MVLLETNRLRLQTIDIPLLDAASKQDHQAIKELGYETNGEWPNS DFFEAIPYFREILVKNNGTKGFDSWIIVKKDNYEIVGGTGFLGDPDENGMIEIGFATN KSHRRKGYCVEAAQKLINWALSRETVSRITARCEHDNLGSQKTLEKLGFILNHKSAEY KHWIYVTK*" gene complement(1276337..1276843) /gene="yjdG" /locus_tag="BSU_12040" /old_locus_tag="BSU12040" downshifts complement(1276361) /Source="Nicolas_upshifts" /id="D665" /incds=0 /nref=13 /ntot=154 /MaxReadThrough="2.51872" /MaxDrop="4.09551" /score="15.8830125" /energy="-9.9" /TU="NA" /idTUdmin="U984" /TUdmin=7 /isTUend="TRUE" misc_feature complement(1276868..1276887) /Source="Nicolas_upshift_promotors" /id="U981" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.654345654345654" /psig="0.775224775224775" /xcortree=679 /SigmaFactorBS="aattttttcatctttctctactgccaaggtaccagagaaaat tgttaTATGTTATCATTATTCCCAGtaaaaagaaaagaggattaaatatatggttctc c" /listShort="yjdG" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(1276874) /Source="Nicolas_upshifts" /id="U981" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.654345654345654" /psig="0.775224775224775" /xcortree=679 /SigmaFactorBS="aattttttcatctttctctactgccaaggtaccagagaaaat tgttaTATGTTATCATTATTCCCAGtaaaaagaaaagaggattaaatatatggttctc c" /listShort="yjdG" /GFF_Attribute="listLong" S_feature complement(1276876..1277061) /Source="Nicolas_S_feature" /locus_tag="new_1276876_1277061_c" /HighExp="S5, S4, S7, S6, S8, B36, LoTm, S3, B60, T1.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.289238" /TUshortSig="SigEF, SigWXY" /TUshortPSig="0.999, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S441" CDS complement(1277062..1277457) /gene="yjdH" /locus_tag="BSU_12050" /old_locus_tag="BSU12050" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12562816; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="putative spore coat protein" /protein_id="NP_389087.2" /db_xref="EnsemblGenomes-Gn:BSU12050" /db_xref="EnsemblGenomes-Tr:CAB13062" /db_xref="SubtiList:BG13180" /db_xref="UniProtKB/Swiss-Prot:O31649" /translation="MYHYFYGPALIPYFSHTHNPQRSPDFSERQRRREITLTVDGFVP PSSTEDLGDGFYSYAWTNQQVINPGEYLVCHLEGRDINVINGGFTPRDTAPLYAVASF PRRRNQWVIIIHNPVQTQRAISLYLIAKR*" gene complement(1277062..1277457) /gene="yjdH" /locus_tag="BSU_12050" /old_locus_tag="BSU12050" promotor_-10 complement(1277480..1277498) /Source="Nicolas_upshift_promotors" /id="U982" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1101 /SigmaFactorBS="ctatagcccattattagtctacatggaacaaaacaGGAATGa acaaataactcccACATACAATTTGTATGAATggaaaataaaggagtggttgctttgt a" /listShort="yjdH, S441, yjdG" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1277493) /Source="Nicolas_upshifts" /id="U982" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1101 /SigmaFactorBS="ctatagcccattattagtctacatggaacaaaacaGGAATGa acaaataactcccACATACAATTTGTATGAATggaaaataaaggagtggttgctttgt a" /listShort="yjdH, S441, yjdG" /GFF_Attribute="listLong" S_feature complement(1277495..1278195) /Source="Nicolas_S_feature" /locus_tag="new_1277495_1278195_c" /HighExp="T0.30H, T1.0H, T-0.40H, T1.30H, T0.0H, S0, T2.0H, Salt, T2.30H, T-1.10H" /AntisenseName="yjdI" /AntisenseCor="-0.383915151906285" /AntisenseRegPval="-10.1" /CDS_PredictionProba="NA" /TUshortSig="SigWXY" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S442" promotor_-35 complement(1277513..1277518) /Source="Nicolas_upshift_promotors" /id="U982" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1101 /SigmaFactorBS="ctatagcccattattagtctacatggaacaaaacaGGAATGa acaaataactcccACATACAATTTGTATGAATggaaaataaaggagtggttgctttgt a" /listShort="yjdH, S441, yjdG" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1277601..1277608 /Source="Nicolas_upshift_promotors" /id="U983" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.983016983016983" /psig=1 /xcortree=2214 /SigmaFactorBS="tgtccttccgttgattcaatgctagtaaCCTTGAAAatgcag gttaggaTGATAGAATTTACATATTACtgcaagaagttagacatacatcattttgata g" /listShort="yjdI" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1277622..1277641 /Source="Nicolas_upshift_promotors" /id="U983" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.983016983016983" /psig=1 /xcortree=2214 /SigmaFactorBS="tgtccttccgttgattcaatgctagtaaCCTTGAAAatgcag gttaggaTGATAGAATTTACATATTACtgcaagaagttagacatacatcattttgata g" /listShort="yjdI" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1277633 /Source="Nicolas_upshifts" /id="U983" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.983016983016983" /psig=1 /xcortree=2214 /SigmaFactorBS="tgtccttccgttgattcaatgctagtaaCCTTGAAAatgcag gttaggaTGATAGAATTTACATATTACtgcaagaagttagacatacatcattttgata g" /listShort="yjdI" /GFF_Attribute="listLong" CDS 1277686..1278165 /gene="trnE" /locus_tag="BSU_12060" /old_locus_tag="BSU12060" /function="16.6: Maintain" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 22128149; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="cys-tRNApro deacetylase; tRNA editing" /protein_id="NP_389088.1" /db_xref="EnsemblGenomes-Gn:BSU12060" /db_xref="EnsemblGenomes-Tr:CAB13063" /db_xref="GOA:O31650" /db_xref="InterPro:IPR004369" /db_xref="InterPro:IPR007214" /db_xref="InterPro:IPR036754" /db_xref="SubtiList:BG13181" /db_xref="UniProtKB/Swiss-Prot:O31650" /translation="MAKKMAKTNAVRLIEQQNISYEVLGYKTDGQPVDGISVAEKIGY SLKYVYKTLVAAAGTNHYYVFVVPVAEELDVKKAAKVTGEKKIEMIAMKELLAVTGYL RGGCSPIGMKKLFPTYIDASAETLDFIIVSAGKIGMQLKLAPQDLARSCDAAFAEIV* " gene 1277686..1278165 /gene="trnE" /locus_tag="BSU_12060" /old_locus_tag="BSU12060" downshifts 1278164 /Source="Nicolas_upshifts" /id="D666" /incds=0 /nref=4 /ntot=100 /MaxReadThrough="2.68858" /MaxDrop="3.19616" /score="-5.52314972" /energy="-12.5" /TU="NA" /idTUdmin="U978" /TUdmin=0 /isTUend="TRUE" CDS complement(1278205..1278399) /gene="yjzH" /locus_tag="BSU_12069" /old_locus_tag="BSU12069" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="YP_003097709.1" /db_xref="EnsemblGenomes-Gn:BSU12069" /db_xref="EnsemblGenomes-Tr:CAX52599" /db_xref="InterPro:IPR025234" /db_xref="UniProtKB/Swiss-Prot:C0H3Z2" /translation="MKEYEFVRVELSTMRRRPKEDYQQIIHDYAKRGWRFVQIFAPSI DGYGAAAYFEIIFERDAEKA*" gene complement(1278205..1278399) /gene="yjzH" /locus_tag="BSU_12069" /old_locus_tag="BSU12069" downshifts complement(1278240) /Source="Nicolas_upshifts" /id="D667" /incds=0 /nref=6 /ntot=144 /MaxReadThrough="7.83072" /MaxDrop="2.95935" /score="-6.07514027" /energy="-7" /TU="U984" /idTUdmin="U987" /TUdmin=220 /isTUend="FALSE" promotor_-10 complement(1278413..1278428) /Source="Nicolas_upshift_promotors" /id="U984" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1698 /SigmaFactorBS="tagtgagtgaaatatactttccgaccttaacctaggttttCG GAACTTCTcgctccattttACGTATACCTTAATAGgagggatcaaacgatgaaagaat a" /listShort="yjzH, S442, yjdH, S441, yjdG" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1278429) /Source="Nicolas_upshifts" /id="U984" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1698 /SigmaFactorBS="tagtgagtgaaatatactttccgaccttaacctaggttttCG GAACTTCTcgctccattttACGTATACCTTAATAGgagggatcaaacgatgaaagaat a" /listShort="yjzH, S442, yjdH, S441, yjdG" /GFF_Attribute="listLong" promotor_-35 complement(1278440..1278449) /Source="Nicolas_upshift_promotors" /id="U984" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1698 /SigmaFactorBS="tagtgagtgaaatatactttccgaccttaacctaggttttCG GAACTTCTcgctccattttACGTATACCTTAATAGgagggatcaaacgatgaaagaat a" /listShort="yjzH, S442, yjdH, S441, yjdG" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1278565..1278894) /gene="yjdJ" /locus_tag="BSU_12070" /old_locus_tag="BSU12070" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_389089.1" /db_xref="EnsemblGenomes-Gn:BSU12070" /db_xref="EnsemblGenomes-Tr:CAB13064" /db_xref="GOA:O31651" /db_xref="InterPro:IPR016508" /db_xref="InterPro:IPR025440" /db_xref="SubtiList:BG13182" /db_xref="UniProtKB/Swiss-Prot:O31651" /translation="MKGIFLVVQLGFSIMVFLFLAAVNWYQGSELVSDRFDWNYTAKL SKLLNGIDAVSSPKQISQLDFFIYSAKHYPVMSALMIISFLYVLAALFLLIYSVKCNK QEIHLDC*" gene complement(1278565..1278894) /gene="yjdJ" /locus_tag="BSU_12070" /old_locus_tag="BSU12070" promotor_-10 complement(1278931..1278950) /Source="Nicolas_upshift_promotors" /id="U985" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.428571428571429" /psig="0.994005994005994" /xcortree=3103 /SigmaFactorBS="aaatagacttgcgtttgagttgtatggaagtgaaATTGCAag aataacccatacGGTGGTAATATATTGTTTGAttttcccatattcatagatttggagg t" /listShort="yjdJ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1278944) /Source="Nicolas_upshifts" /id="U985" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.428571428571429" /psig="0.994005994005994" /xcortree=3103 /SigmaFactorBS="aaatagacttgcgtttgagttgtatggaagtgaaATTGCAag aataacccatacGGTGGTAATATATTGTTTGAttttcccatattcatagatttggagg t" /listShort="yjdJ" /GFF_Attribute="listLong" S_feature complement(1278946..1279513) /Source="Nicolas_S_feature" /locus_tag="new_1278946_1279513_c" /HighExp="S8, S6, nit, S7, ferm, S2, S5, M9-tran, M/G, GM 150" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigK" /TUshortPSig="0.987, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S443" promotor_-35 complement(1278965..1278970) /Source="Nicolas_upshift_promotors" /id="U985" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.428571428571429" /psig="0.994005994005994" /xcortree=3103 /SigmaFactorBS="aaatagacttgcgtttgagttgtatggaagtgaaATTGCAag aataacccatacGGTGGTAATATATTGTTTGAttttcccatattcatagatttggagg t" /listShort="yjdJ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1278998..1279002 /Source="Nicolas_upshift_promotors" /id="U986" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.913086913086913" /psig="0.996003996003996" /xcortree=2745 /SigmaFactorBS="tcttgcaatttcacttccatacaactcaaacgcaagTCTATt tttttgtttgttttTGGCTTATAATACCTGATGAtggaaaaagagtgcgggtttatag a" /listShort="S444" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1279018..1279037 /Source="Nicolas_upshift_promotors" /id="U986" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.913086913086913" /psig="0.996003996003996" /xcortree=2745 /SigmaFactorBS="tcttgcaatttcacttccatacaactcaaacgcaagTCTATt tttttgtttgttttTGGCTTATAATACCTGATGAtggaaaaagagtgcgggtttatag a" /listShort="S444" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1279022..1279523 /Source="Nicolas_S_feature" /locus_tag="new_1279022_1279523" /HighExp="LBGstat, C30, HPh, Oxctl, dia15, Paraq, T0.30H, C90, LBGtran, LPh" /AntisenseName="ctaO" /AntisenseCor="-0.43946575370083102" /AntisenseRegPval="-13.4" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.996" /TUlongSig="NA" /TUlongPSig="NA" /label="S444" upshifts 1279022 /Source="Nicolas_upshifts" /id="U986" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.913086913086913" /psig="0.996003996003996" /xcortree=2745 /SigmaFactorBS="tcttgcaatttcacttccatacaactcaaacgcaagTCTATt tttttgtttgttttTGGCTTATAATACCTGATGAtggaaaaagagtgcgggtttatag a" /listShort="S444" /GFF_Attribute="listLong" CDS complement(1279514..1280503) /gene="ctaO" /locus_tag="BSU_12080" /old_locus_tag="BSU12080" /EC_number="2.5.1.-" /function="16.10: Respire" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:10675592, 15491161, 15849754, 16850406" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10675592, 15491161, 15849754, 16850406; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="minor protoheme IX farnesyltransferase 1 (heme Osynthase)" /protein_id="NP_389090.2" /db_xref="EnsemblGenomes-Gn:BSU12080" /db_xref="EnsemblGenomes-Tr:CAB13065" /db_xref="GOA:O31652" /db_xref="InterPro:IPR000537" /db_xref="InterPro:IPR006369" /db_xref="InterPro:IPR030470" /db_xref="SubtiList:BG13183" /db_xref="UniProtKB/Swiss-Prot:O31652" /translation="MQFWGRRLFLENTRDSAAISETKYIKASNRVTIYDFIKLAKPGI IISNSIAAFGGFWIAFASAEKTLTGLAFLMTMVTAMLGTAFVMASGTVYNNYFDRHMD AKMARTRSRASVTGKMPPAMILTYGSVLGIAGLAMLYSLNPLTAFLGLAAFIFYAIIY TVWVKRTSVWSTFVGSFPGAAPPLMGYCAVTGDFSMTAVLLYTIMFLWQPPHFWAIGI RRKEEYRAAGVPLLPVVKGNHVTKIKMMQYIAVLVPVTLLFPFSLGTGHISPFYFLAA LVLGGIWIKKSIKGFKTDDDVKWAKDMFVYSLIYFCLLFFIMMIDSFMMFLIR*" gene complement(1279514..1280503) /gene="ctaO" /locus_tag="BSU_12080" /old_locus_tag="BSU12080" promotor_-10 complement(1280504..1280523) /Source="Nicolas_upshift_promotors" /id="U987" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.36963036963037" /psig="0.987012987012987" /xcortree=2978 /SigmaFactorBS="aatatcatgacaaatatgggaaataATTGTGattctgtcccc ctCTTGTTACGATAACAAAAGCatgcagttttgggggaggcgtctatttttggagaat a" /listShort="ctaO, S443, yjdJ" /listLong="yjzH" /label="promotor_-10" upshifts complement(1280507) /Source="Nicolas_upshifts" /id="U987" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.36963036963037" /psig="0.987012987012987" /xcortree=2978 /SigmaFactorBS="aatatcatgacaaatatgggaaataATTGTGattctgtcccc ctCTTGTTACGATAACAAAAGCatgcagttttgggggaggcgtctatttttggagaat a" /listShort="ctaO, S443, yjdJ" /listLong="yjzH" promotor_-35 complement(1280537..1280542) /Source="Nicolas_upshift_promotors" /id="U987" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.36963036963037" /psig="0.987012987012987" /xcortree=2978 /SigmaFactorBS="aatatcatgacaaatatgggaaataATTGTGattctgtcccc ctCTTGTTACGATAACAAAAGCatgcagttttgggggaggcgtctatttttggagaat a" /listShort="ctaO, S443, yjdJ" /listLong="yjzH" /label="promotor_-35" CDS complement(1280626..1280874) /gene="cotT" /locus_tag="BSU_12090" /old_locus_tag="BSU12090" /function="16.5: Explore" /function="16.13: Shape" /experiment="publication(s) with functional evidences, PMID:1391045, 1917883, 19933362" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1391045, 1917883, 19933362; Product type cp: cell process" /codon_start=1 /transl_table=11 /product="spore coat protein (inner coat)" /protein_id="NP_389091.2" /db_xref="EnsemblGenomes-Gn:BSU12090" /db_xref="EnsemblGenomes-Tr:CAB13066" /db_xref="GOA:P11863" /db_xref="SubtiList:BG10495" /db_xref="UniProtKB/Swiss-Prot:P11863" /translation="MDYPLNEQSFEQITPYDERQPYYYPRPRPPFYPPYYYPRPYYPF YPFYPRPPYYYPRPRPPYYPWYGYGGGYGGGYGGGYGY*" gene complement(1280626..1280874) /gene="cotT" /locus_tag="BSU_12090" /old_locus_tag="BSU12090" downshifts complement(1280636) /Source="Nicolas_upshifts" /id="D668" /incds=0 /nref=37 /ntot=82 /MaxReadThrough="5.73194" /MaxDrop="6.23577" /score="25.0951218" /energy="-8.4" /TU="U989" /idTUdmin="U990" /TUdmin=2 /isTUend="TRUE" promotor_-35 1280870..1280874 /Source="Nicolas_upshift_promotors" /id="U988" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp=1 /psig=0 /xcortree=705 /SigmaFactorBS="gggtaatttgttcaaatgactgttcattcaaagggtaaTCCA AgaggaaaaCCTCCCTAGCTTTTTttattccttttaccatattcctgatgcttaagtt g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1280883..1280897 /Source="Nicolas_upshift_promotors" /id="U988" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp=1 /psig=0 /xcortree=705 /SigmaFactorBS="gggtaatttgttcaaatgactgttcattcaaagggtaaTCCA AgaggaaaaCCTCCCTAGCTTTTTttattccttttaccatattcctgatgcttaagtt g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1280892 /Source="Nicolas_upshifts" /id="U988" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp=1 /psig=0 /xcortree=705 /SigmaFactorBS="gggtaatttgttcaaatgactgttcattcaaagggtaaTCCA AgaggaaaaCCTCCCTAGCTTTTTttattccttttaccatattcctgatgcttaagtt g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 complement(1280899..1280918) /Source="Nicolas_upshift_promotors" /id="U989" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1278 /SigmaFactorBS="ataaaaaaaaccgaatttcatgaatgtACATACACCCaactt aagcatcaGGAATATGGTAAAAGGAATAaaaaaagctagggaggttttcctcttggat t" /listShort="cotT, ctaO, S443" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1280908) /Source="Nicolas_upshifts" /id="U989" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1278 /SigmaFactorBS="ataaaaaaaaccgaatttcatgaatgtACATACACCCaactt aagcatcaGGAATATGGTAAAAGGAATAaaaaaagctagggaggttttcctcttggat t" /listShort="cotT, ctaO, S443" /GFF_Attribute="listLong" promotor_-35 complement(1280932..1280941) /Source="Nicolas_upshift_promotors" /id="U989" /multdbtbs="SigK" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1278 /SigmaFactorBS="ataaaaaaaaccgaatttcatgaatgtACATACACCCaactt aagcatcaGGAATATGGTAAAAGGAATAaaaaaagctagggaggttttcctcttggat t" /listShort="cotT, ctaO, S443" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1280989..1280996 /Source="Nicolas_upshift_promotors" /id="U991" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.713286713286713" /psig="0.994005994005994" /xcortree=1545 /SigmaFactorBS="ttttatgatgaaattccttaaaaaggATTGACATgaacttct aaatcTCATAGTATTACAAATGTGAaataaatgttactacaatgttacaaaaacattt c" /listShort="S445, yjeA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(1281003..1281022) /Source="Nicolas_upshift_promotors" /id="U990" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.433566433566434" /psig="0.684315684315684" /xcortree=2052 /SigmaFactorBS="atctatttagaaatgtttttgtaacattgTAGTAACAtttat ttcacattTGTAATACTATGAGATTTAGaagttcatgtcaatcctttttaaggaattt c" /listShort="cotT" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-10 1281010..1281029 /Source="Nicolas_upshift_promotors" /id="U991" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.713286713286713" /psig="0.994005994005994" /xcortree=1545 /SigmaFactorBS="ttttatgatgaaattccttaaaaaggATTGACATgaacttct aaatcTCATAGTATTACAAATGTGAaataaatgttactacaatgttacaaaaacattt c" /listShort="S445, yjeA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1281012) /Source="Nicolas_upshifts" /id="U990" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.433566433566434" /psig="0.684315684315684" /xcortree=2052 /SigmaFactorBS="atctatttagaaatgtttttgtaacattgTAGTAACAtttat ttcacattTGTAATACTATGAGATTTAGaagttcatgtcaatcctttttaaggaattt c" /listShort="cotT" /GFF_Attribute="listLong" upshifts 1281023 /Source="Nicolas_upshifts" /id="U991" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.713286713286713" /psig="0.994005994005994" /xcortree=1545 /SigmaFactorBS="ttttatgatgaaattccttaaaaaggATTGACATgaacttct aaatcTCATAGTATTACAAATGTGAaataaatgttactacaatgttacaaaaacattt c" /listShort="S445, yjeA" /GFF_Attribute="listLong" S_feature 1281024..1281127 /Source="Nicolas_S_feature" /locus_tag="new_1281024_1281127" /HighExp="Heat, T0.30H, T1.0H, ferm, Diami, dia5, T1.30H, M9-stat, T3.0H, T2.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.994" /TUlongSig="NA" /TUlongPSig="NA" /label="S445" promotor_-35 complement(1281036..1281043) /Source="Nicolas_upshift_promotors" /id="U990" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.433566433566434" /psig="0.684315684315684" /xcortree=2052 /SigmaFactorBS="atctatttagaaatgtttttgtaacattgTAGTAACAtttat ttcacattTGTAATACTATGAGATTTAGaagttcatgtcaatcctttttaaggaattt c" /listShort="cotT" /GFF_Attribute="listLong" /label="promotor_-35" CDS 1281128..1282531 /gene="pdaC" /locus_tag="BSU_12100" /old_locus_tag="BSU12100" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:14679227, 17878218, 22277649" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14679227, 17878218, 22277649; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="N-acetylmuramic acid deacetylase" /protein_id="NP_389092.1" /db_xref="EnsemblGenomes-Gn:BSU12100" /db_xref="EnsemblGenomes-Tr:CAB13067" /db_xref="GOA:O34798" /db_xref="InterPro:IPR002509" /db_xref="InterPro:IPR011330" /db_xref="InterPro:IPR017219" /db_xref="InterPro:IPR021729" /db_xref="InterPro:IPR025303" /db_xref="InterPro:IPR037126" /db_xref="SubtiList:BG13184" /db_xref="UniProtKB/Swiss-Prot:O34798" /translation="MLAKRIKWFHVLIAVVCVVGLIGFFHNHSLKKETVMNKVRTDSQ YGNVEIATLVNDGKTFNYAVNYPVFKNEKMDSALKRFAEKEVRQFQKETKDVDQEHTT KRNELNVDYKIVHYAKQTVAIVFNEYKYIGGAHGQTVKKTFNYDFSKQAFLSIDDIFK EDADYLHKLSLIAYHELKKNKDIAADDALLKEGTAPKKENFSRFAIKEDYIELYFDTY QVAAGYLGEQSIAIKKSLLKDILKEQYIDKAKNKNKIKEQKPKHEVISLPKEETVDPN QKVIALTFDDGPNPATTNQILDSLKKYKGHATFFVLGSRVQYYPETLIRMLKEGNEVG NHSWSHPLLTRLSVKEALKQINDTQDIIEKISGYRPTLVRPPYGGINDELRSQMKMDV ALWDVDPEDWKDRNKKTIVDRVMNQAGDGRTILIHDIYRTSADAADEIIKKLTDQGYQ LVTVSQLEEVKKQREAK*" gene 1281128..1282531 /gene="pdaC" /locus_tag="BSU_12100" /old_locus_tag="BSU12100" downshifts 1282520 /Source="Nicolas_upshifts" /id="D669" /incds=0 /nref=173 /ntot=238 /MaxReadThrough="1.38483" /MaxDrop="6.60322" /score="39.935002" /energy="-13.8" /TU="NA" /idTUdmin="U991" /TUdmin=0 /isTUend="TRUE" CDS complement(1282571..1283044) /gene="yjfA" /locus_tag="BSU_12110" /old_locus_tag="BSU12110" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_389093.1" /db_xref="EnsemblGenomes-Gn:BSU12110" /db_xref="EnsemblGenomes-Tr:CAB13068" /db_xref="InterPro:IPR021224" /db_xref="SubtiList:BG13185" /db_xref="UniProtKB/Swiss-Prot:O34554" /translation="MKRLFMKASLVLFAVVFVFAVKGAPAKAETHAYDGKSPYYNDCA SSGSTKKSSNLVNASNQVIGVVELKFSSTCKTAWAKITMNNTLTSGYEANAEITRNTD GKRYNCDSAGGNGKAVAGQKSCYTPMVYDLDPRTSYAFGKYSGPNLNVWATTGSY*" gene complement(1282571..1283044) /gene="yjfA" /locus_tag="BSU_12110" /old_locus_tag="BSU12110" downshifts complement(1282575) /Source="Nicolas_upshifts" /id="D670" /incds=0 /nref=33 /ntot=176 /MaxReadThrough="2.25434" /MaxDrop="5.38548" /score="20.5383759" /energy="-13.8" /TU="NA" /idTUdmin="U992" /TUdmin="-1" /isTUend="TRUE" promotor_-10 complement(1283066..1283084) /Source="Nicolas_upshift_promotors" /id="U992" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=1105 /SigmaFactorBS="ctccatcctcccggccgcctttattgttcacaaaaaagcaTG CATGttttgattgttcctCCATATGATTTATTGTTTGccatattaaggaggtcataaa t" /listShort="yjfA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1283084) /Source="Nicolas_upshifts" /id="U992" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=1105 /SigmaFactorBS="ctccatcctcccggccgcctttattgttcacaaaaaagcaTG CATGttttgattgttcctCCATATGATTTATTGTTTGccatattaaggaggtcataaa t" /listShort="yjfA" /GFF_Attribute="listLong" promotor_-35 complement(1283099..1283104) /Source="Nicolas_upshift_promotors" /id="U992" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.994005994005994" /psig="0.994005994005994" /xcortree=1105 /SigmaFactorBS="ctccatcctcccggccgcctttattgttcacaaaaaagcaTG CATGttttgattgttcctCCATATGATTTATTGTTTGccatattaaggaggtcataaa t" /listShort="yjfA" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1283169..1283336) /gene="yjfB" /locus_tag="BSU_12120" /old_locus_tag="BSU12120" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 15033535" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_389094.1" /db_xref="EnsemblGenomes-Gn:BSU12120" /db_xref="EnsemblGenomes-Tr:CAB13069" /db_xref="InterPro:IPR025906" /db_xref="SubtiList:BG13186" /db_xref="UniProtKB/Swiss-Prot:O34438" /translation="MDIPALSVAMHQASLAQNVNIALTKKRLDTAQQNADQTLKMIQH PTLGQTIDVKA*" gene complement(1283169..1283336) /gene="yjfB" /locus_tag="BSU_12120" /old_locus_tag="BSU12120" downshifts complement(1283172) /Source="Nicolas_upshifts" /id="D671" /incds=0 /nref=109 /ntot=232 /MaxReadThrough="3.53249" /MaxDrop="4.93218" /score="-9.08395816" /energy="-13.9" /TU="U993" /idTUdmin="U993" /TUdmin="-576" /isTUend="FALSE" promotor_-10 complement(1283348..1283366) /Source="Nicolas_upshift_promotors" /id="U993" /multdbtbs="SigD" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2829 /SigmaFactorBS="gggtcaacaagagaaattaagccatttttcaCTGTAAAAtca tacaaacccGCCGATAGGTAAGGCATAGgaggtggaaccatggatattcctgctttat c" /listShort="yjfB, yjfA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1283357) /Source="Nicolas_upshifts" /id="U993" /multdbtbs="SigD" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2829 /SigmaFactorBS="gggtcaacaagagaaattaagccatttttcaCTGTAAAAtca tacaaacccGCCGATAGGTAAGGCATAGgaggtggaaccatggatattcctgctttat c" /listShort="yjfB, yjfA" /GFF_Attribute="listLong" promotor_-35 complement(1283379..1283386) /Source="Nicolas_upshift_promotors" /id="U993" /multdbtbs="SigD" /comp="M10" /sig="SigD" /pcomp=1 /psig=1 /xcortree=2829 /SigmaFactorBS="gggtcaacaagagaaattaagccatttttcaCTGTAAAAtca tacaaacccGCCGATAGGTAAGGCATAGgaggtggaaccatggatattcctgctttat c" /listShort="yjfB, yjfA" /GFF_Attribute="listLong" /label="promotor_-35" CDS 1283463..1284362 /gene="yjfC" /locus_tag="BSU_12130" /old_locus_tag="BSU12130" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_389095.2" /db_xref="EnsemblGenomes-Gn:BSU12130" /db_xref="EnsemblGenomes-Tr:CAB13070" /db_xref="InterPro:IPR018728" /db_xref="SubtiList:BG13187" /db_xref="UniProtKB/Swiss-Prot:O34458" /translation="MNLVMEKTFEQYEKLFSMEEQKREDVFRYTMMRPFEKMWTAIQV PLKAKEPNGYDVIMAAKMLGYLDVRDAESGQKALQILKESHVSETAESALRQCIFFAE REQLRVNAKEIKFGLYIADPNKLQLQKGYCGFGGIPGFIHVWINPNSYNLPRIPSIIA HEFHHNVRFSYIDFHHGSVSVGDYLVIEGLAESFARELFGTERLGPWVTRFDHEDLQY SIDVINEVLDVKGFSEVSRYMFGDPIANDQGFKPAGLSAFAGYAVGYHAVQSFMNQHH ITISEATRLDAKTIISQCGLFST*" gene 1283463..1284362 /gene="yjfC" /locus_tag="BSU_12130" /old_locus_tag="BSU12130" CDS complement(1284371..1284769) /gene="yjgA" /locus_tag="BSU_12140" /old_locus_tag="BSU12140" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 15849754, 16850406" /codon_start=1 /transl_table=11 /product="conserved membrane protein" /protein_id="NP_389096.1" /db_xref="EnsemblGenomes-Gn:BSU12140" /db_xref="EnsemblGenomes-Tr:CAB13071" /db_xref="GOA:O35027" /db_xref="InterPro:IPR021257" /db_xref="SubtiList:BG13188" /db_xref="UniProtKB/Swiss-Prot:O35027" /translation="MKRNRWIYAVFTILIIGLGLGSRAFSSVLPDTLNTYLGDSLWAA MIFTGCGFLFRKLKTMITGIISLSFCFVIEFSQLYHAEWIDQIRDTSLGGLVLGYGFL WSDIEAYTIGIAACAAIELLVLGIKKRRCM*" gene complement(1284371..1284769) /gene="yjgA" /locus_tag="BSU_12140" /old_locus_tag="BSU12140" downshifts complement(1284401) /Source="Nicolas_upshifts" /id="D672" /incds=0 /nref=2 /ntot=27 /MaxReadThrough="2.86089" /MaxDrop="2.52307" /score="23.8106216" /energy="-10.1" /TU="U994,U995" /idTUdmin="U995" /TUdmin="-243" /isTUend="FALSE" promotor_-10 complement(1284798..1284817) /Source="Nicolas_upshift_promotors" /id="U994" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.915084915084915" /psig=1 /xcortree=1954 /SigmaFactorBS="caaaataaacaccctacgcggctattcagccgctttttTAGT GGACaaataaaagctataTTCCTTACAATACAGGGAGAtgaagcagagacggggtatc a" /listShort="yjgA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1284817) /Source="Nicolas_upshifts" /id="U994" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.915084915084915" /psig=1 /xcortree=1954 /SigmaFactorBS="caaaataaacaccctacgcggctattcagccgctttttTAGT GGACaaataaaagctataTTCCTTACAATACAGGGAGAtgaagcagagacggggtatc a" /listShort="yjgA" /GFF_Attribute="listLong" promotor_-35 complement(1284832..1284839) /Source="Nicolas_upshift_promotors" /id="U994" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.915084915084915" /psig=1 /xcortree=1954 /SigmaFactorBS="caaaataaacaccctacgcggctattcagccgctttttTAGT GGACaaataaaagctataTTCCTTACAATACAGGGAGAtgaagcagagacggggtatc a" /listShort="yjgA" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1284870..1285445) /gene="yjgB" /locus_tag="BSU_12150" /old_locus_tag="BSU12150" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 1580552" /codon_start=1 /transl_table=11 /product="putative exported protein" /protein_id="NP_389097.1" /db_xref="EnsemblGenomes-Gn:BSU12150" /db_xref="EnsemblGenomes-Tr:CAB13072" /db_xref="InterPro:IPR025453" /db_xref="PDB:4YGT" /db_xref="SubtiList:BG13189" /db_xref="UniProtKB/Swiss-Prot:O34960" /translation="MKKTMSAITAAAAVTSCFTGFGAASFSAPAKAAAQTNTLSENTN QSAAELVKNLYNTAYKGEMPQQAQGLTINKSTKGDVHAAFGEPERPVGGDNRFDLYHW NMGQPGYGFSYHKDMTISEIRYFGTGVERQLNLGGVTPEVLQKQLGPVNRVLTVPFTD EIDYVYDTGRYELHFVIGTDQTADHVNLKAK*" gene complement(1284870..1285445) /gene="yjgB" /locus_tag="BSU_12150" /old_locus_tag="BSU12150" downshifts complement(1284885) /Source="Nicolas_upshifts" /id="D673" /incds=0 /nref=3 /ntot=16 /MaxReadThrough="5.38565" /MaxDrop="3.9021" /score="23.8106216" /energy="-10.1" /TU="U995" /idTUdmin="U995" /TUdmin="-727" /isTUend="FALSE" promotor_-10 complement(1285464..1285482) /Source="Nicolas_upshift_promotors" /id="U995" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=183 /SigmaFactorBS="tacaacaactcaataaaacatacaaagcgcactcacaTGTTT CGttgcaaaaacacgGGGAAACGGAATGGTAGATcaattaggagggattaacatgaaa a" /listShort="yjgB, yjgA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1285479) /Source="Nicolas_upshifts" /id="U995" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=183 /SigmaFactorBS="tacaacaactcaataaaacatacaaagcgcactcacaTGTTT CGttgcaaaaacacgGGGAAACGGAATGGTAGATcaattaggagggattaacatgaaa a" /listShort="yjgB, yjgA" /GFF_Attribute="listLong" promotor_-35 complement(1285496..1285502) /Source="Nicolas_upshift_promotors" /id="U995" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=183 /SigmaFactorBS="tacaacaactcaataaaacatacaaagcgcactcacaTGTTT CGttgcaaaaacacgGGGAAACGGAATGGTAGATcaattaggagggattaacatgaaa a" /listShort="yjgB, yjgA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1285520..1285526 /Source="Nicolas_upshift_promotors" /id="U996" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=186 /SigmaFactorBS="ccgtgtttttgcaacgaaacatgtgagtgcgctttgtaTGTT TTAttgagttgttgtaaGGGAACTGAAATAGGTAATtcggtatataaagcaagaaagg g" /listShort="yjgC, yjgD, S446, yjhA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1285541..1285559 /Source="Nicolas_upshift_promotors" /id="U996" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=186 /SigmaFactorBS="ccgtgtttttgcaacgaaacatgtgagtgcgctttgtaTGTT TTAttgagttgttgtaaGGGAACTGAAATAGGTAATtcggtatataaagcaagaaagg g" /listShort="yjgC, yjgD, S446, yjhA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1285542 /Source="Nicolas_upshifts" /id="U996" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=186 /SigmaFactorBS="ccgtgtttttgcaacgaaacatgtgagtgcgctttgtaTGTT TTAttgagttgttgtaaGGGAACTGAAATAGGTAATtcggtatataaagcaagaaagg g" /listShort="yjgC, yjgD, S446, yjhA" /GFF_Attribute="listLong" CDS 1285591..1288548 /gene="yjgC" /locus_tag="BSU_12160" /old_locus_tag="BSU12160" /EC_number="1.2.1.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative molybdoenzyme; putative formate dehydrogenase" /protein_id="NP_389098.1" /db_xref="EnsemblGenomes-Gn:BSU12160" /db_xref="EnsemblGenomes-Tr:CAB13073" /db_xref="GOA:O34720" /db_xref="InterPro:IPR001041" /db_xref="InterPro:IPR006478" /db_xref="InterPro:IPR006656" /db_xref="InterPro:IPR006657" /db_xref="InterPro:IPR006963" /db_xref="InterPro:IPR009010" /db_xref="InterPro:IPR012675" /db_xref="InterPro:IPR017896" /db_xref="InterPro:IPR017900" /db_xref="InterPro:IPR019574" /db_xref="InterPro:IPR036010" /db_xref="SubtiList:BG13190" /db_xref="UniProtKB/Swiss-Prot:O34720" /translation="MAGKKTITINGVEMEASEEQTVLQLLNNSSIEVPQVCYHPSLGP IETCDTCIVSINGELKRSCSAELKDGDVIDTLSPDVKKAQVIGMDKILYNHELYCTVC DYNNGGCEIHNTVKEMKINHQSIPFDHKPYHKDESHPFYRYDPDQCILCGRCVEACQD VQVTETLTIDWERKRPRVIWDNDVPINESSCVSCGHCSTVCPCNAMMEKGMEGEAGYL TGINNETLRPMIEITKGVETGYGSILAISDMESAMRDERIKKTKTVCTYCGVGCSFDV WTKGRDILKVEPQEEAPANGISTCVKGKFGWDFVNSEERLTKPLIREGDHFREAEWEE ALLLIASKFTELKEAFGPDSLAFITSSKCTNEESYLMQKLARGVIGTNNVDNCSRYCQ SPATAGLFRTVGYGGDSGSITDIAQADLVLIIGSNTSESHPVLSTRIKRAHKLRGQKV IVADIRKHEMAERSDLFVQPRAGSDIVWLNAIAKYLIENGKADERFLRERVNGRDEYV KSLAPYTLEYAEEKTGIDQETLIQMAEMIGQADSVCALWAMGVTQHIGGSDTSTAISN LLLVTGNYGKPGAGSYPLRGHNNVQGASDFGSMPDRLPGYEKVTDEQVRQKYERVWGV PLPKEPGMTNHEMIEKIHSGQLKAMYVKGEEMGLVDSNINHVHAAYEKLDFFVVQDIF LSRTAEFADVVLPASPSLEKEGTFTNTERRIQRLYQVFEPLGESKPDWQIIMEVANKL GAGWLYEHPADIMEEAAKLSPIYAGVTYERLEGYNSLQWPVNADGKDSPLLFTERFPF PDGKAILYPVQWTEPKEFGEEYDIHVNNGRLLEHFHEGNLTYKSKGISEKTPEVFLEI SPELAAERGIQDGTLVRLTSPFGNVKVKCLITDRVKGKEVYLPMNDSGEAAINLLTGS HADKDTDTPAYKETSAKMEILKHDGISPLPKINHRNGNPQPQIGVQVHKKWARKDYIF PGDAVKRGMGHNG*" gene 1285591..1288548 /gene="yjgC" /locus_tag="BSU_12160" /old_locus_tag="BSU12160" CDS 1288541..1289101 /gene="yjgD" /locus_tag="BSU_12170" /old_locus_tag="BSU12170" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_389099.1" /db_xref="EnsemblGenomes-Gn:BSU12170" /db_xref="EnsemblGenomes-Tr:CAB13074" /db_xref="InterPro:IPR012440" /db_xref="SubtiList:BG13191" /db_xref="UniProtKB/Swiss-Prot:O34681" /translation="MAKAIKRIQKIEVTEEDQRKRDLREIEDALIDHKEAILETLHML GHMNERGVLPLLRGLFGQGDKVLDILVKKADTEETANTLKNLLLLFGTLGMLDVKQLE PLILKVNAGVASAVEQKNSEEKTGYFDIIRSLKDPEINKSITLLFSFLKGMGQDTKEL ERTTQPPEHQKHHQEPREKRGMNKRD*" gene 1288541..1289101 /gene="yjgD" /locus_tag="BSU_12170" /old_locus_tag="BSU12170" downshifts 1289094 /Source="Nicolas_upshifts" /id="D674" /incds=0 /nref=18 /ntot=84 /MaxReadThrough="5.25706" /MaxDrop="6.46184" /score="20.7921843" /energy="-15" /TU="U996" /idTUdmin="U996" /TUdmin="-819" /isTUend="FALSE" S_feature 1289139..1289257 /Source="Nicolas_S_feature" /locus_tag="new_1289139_1289257" /HighExp="Etha, Salt, Heat, S8, M9-stat, S7, LPhT, G135, C30, Sw" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigB" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S446" promotor_-35 1289235..1289238 /Source="Nicolas_upshift_promotors" /id="U997" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.779220779220779" /psig="0.998001998001998" /xcortree=2980 /SigmaFactorBS="tgatgaatgagatagaaataatcgttactttcttacCTGTta agaaaagggaaaaTCTGATTATAATAGAAATCGattactttagatgggggaacaatca t" /listShort="yjhA, yjhB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1289254..1289273 /Source="Nicolas_upshift_promotors" /id="U997" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.779220779220779" /psig="0.998001998001998" /xcortree=2980 /SigmaFactorBS="tgatgaatgagatagaaataatcgttactttcttacCTGTta agaaaagggaaaaTCTGATTATAATAGAAATCGattactttagatgggggaacaatca t" /listShort="yjhA, yjhB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1289259 /Source="Nicolas_upshifts" /id="U997" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.779220779220779" /psig="0.998001998001998" /xcortree=2980 /SigmaFactorBS="tgatgaatgagatagaaataatcgttactttcttacCTGTta agaaaagggaaaaTCTGATTATAATAGAAATCGattactttagatgggggaacaatca t" /listShort="yjhA, yjhB" /GFF_Attribute="listLong" CDS 1289298..1289939 /gene="yjhA" /locus_tag="BSU_12180" /old_locus_tag="BSU12180" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type lp: lipoprotein" /codon_start=1 /transl_table=11 /product="putative lipoprotein" /protein_id="NP_389100.1" /db_xref="EnsemblGenomes-Gn:BSU12180" /db_xref="EnsemblGenomes-Tr:CAB13075" /db_xref="GOA:O34725" /db_xref="InterPro:IPR029050" /db_xref="InterPro:IPR029051" /db_xref="PDB:3CFU" /db_xref="SubtiList:BG13192" /db_xref="UniProtKB/Swiss-Prot:O34725" /translation="MKKVLLLLFVLTIGLALSACSQSSDASEKEKPKEKKSQEELEKE LDKELKKGGEPKTKKDDQIHKIGETFKAGHTNFTVNKVDRVQKGEYMNVGGAVNEETK TIKDDEERLIIEVTMENIGEDSISYNFIGFDLRDKNDQSVRPVFSIEEKGRILMGGTL VSGKKVTGVLSYVIPKGEQKHYTLVYNPFLADTNSSNTEERVKDDIDYLVKLD*" gene 1289298..1289939 /gene="yjhA" /locus_tag="BSU_12180" /old_locus_tag="BSU12180" downshifts complement(1289307) /Source="Nicolas_upshifts" /id="D675" /incds=0 /nref=7 /ntot=57 /MaxReadThrough="2.5769" /MaxDrop="3.81596" /score="-9.34186213" /energy="-3" /TU="NA" /idTUdmin="U998" /TUdmin=1386 /isTUend="FALSE" downshifts 1289912 /Source="Nicolas_upshifts" /id="D676" /incds=0 /nref=24 /ntot=186 /MaxReadThrough="4.29897" /MaxDrop="3.4683" /score="19.6571267" /energy="-17" /TU="U997" /idTUdmin="U996" /TUdmin="-1" /isTUend="TRUE" CDS 1290018..1290644 /gene="yjhB" /locus_tag="BSU_12190" /old_locus_tag="BSU12190" /EC_number="3.6.1.-" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12483591, 16513759; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative ADP-ribose pyrophosphatase" /protein_id="NP_389101.2" /db_xref="EnsemblGenomes-Gn:BSU12190" /db_xref="EnsemblGenomes-Tr:CAB13076" /db_xref="GOA:C0SPC3" /db_xref="InterPro:IPR000086" /db_xref="InterPro:IPR015797" /db_xref="SubtiList:BG13193" /db_xref="UniProtKB/Swiss-Prot:C0SPC3" /translation="MIKVQTKWLERAQRIRAIAQAGLAFSKDVYDRERYEELMKLSAE MMADYSEKDIEVITDLWQGEKGYPTPKADVRGAVFRENQILLVREKHDELWSLPGGFC EIGLSPAENVVKEIKEESGYDTEPSRLLAVLDSHKHSHPPQPYHYYKIFIACSMTDGQ GETGIETNHAAFFPEDRLPPLSPKRNTPSQLSMLFDFLRHPDKKTIFD*" gene 1290018..1290644 /gene="yjhB" /locus_tag="BSU_12190" /old_locus_tag="BSU12190" downshifts 1290646 /Source="Nicolas_upshifts" /id="D677" /incds=0 /nref=97 /ntot=202 /MaxReadThrough="0.597580000000001" /MaxDrop="6.62023" /score="12.2319602" /energy="-7" /TU="NA" /idTUdmin="U997" /TUdmin=7 /isTUend="TRUE" downshifts complement(1290649) /Source="Nicolas_upshifts" /id="D678" /incds=0 /nref=1 /ntot=9 /MaxReadThrough="0.18907" /MaxDrop="3.31161" /score="10.5815896" /energy="-7" /TU="NA" /idTUdmin="U998" /TUdmin=44 /isTUend="FALSE" CDS complement(1290675..1290953) /gene="yjiA" /locus_tag="BSU_12200" /old_locus_tag="BSU12200" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function; PubMedId : 14563871" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="NP_389102.1" /db_xref="EnsemblGenomes-Gn:BSU12200" /db_xref="EnsemblGenomes-Tr:CAB13077" /db_xref="SubtiList:BG13194" /db_xref="UniProtKB/Swiss-Prot:O34679" /translation="MAAQTDYKKQVVGILLSLAFVLFVFSFSERHEKPLVEGKKQENW HTVVDKASVKIYGSRLVEENKLKQKLGHKQADSILTLLKLANEKHITL*" gene complement(1290675..1290953) /gene="yjiA" /locus_tag="BSU_12200" /old_locus_tag="BSU12200" downshifts complement(1290693) /Source="Nicolas_upshifts" /id="D679" /incds=0 /nref=162 /ntot=247 /MaxReadThrough="1.96302" /MaxDrop="5.98058" /score="10.5815896" /energy="-7" /TU="NA" /idTUdmin="U998" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(1290982..1290993) /Source="Nicolas_upshift_promotors" /id="U998" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.632367632367632" /psig="0.972027972027972" /xcortree=575 /SigmaFactorBS="gtctctgttttcaaccaaatgcactaactccaaaaatgactt tcccattatgtaaaataaTTTGGTTcTATGATTAAATAgaaggtaaaaggtgaaggag a" /listShort="yjiA" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-35 complement(1290995..1291001) /Source="Nicolas_upshift_promotors" /id="U998" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.632367632367632" /psig="0.972027972027972" /xcortree=575 /SigmaFactorBS="gtctctgttttcaaccaaatgcactaactccaaaaatgactt tcccattatgtaaaataaTTTGGTTcTATGATTAAATAgaaggtaaaaggtgaaggag a" /listShort="yjiA" /GFF_Attribute="listLong" /label="promotor_-35" upshifts complement(1291001) /Source="Nicolas_upshifts" /id="U998" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.632367632367632" /psig="0.972027972027972" /xcortree=575 /SigmaFactorBS="gtctctgttttcaaccaaatgcactaactccaaaaatgactt tcccattatgtaaaataaTTTGGTTcTATGATTAAATAgaaggtaaaaggtgaaggag a" /listShort="yjiA" /GFF_Attribute="listLong" S_feature complement(1291003..1291419) /Source="Nicolas_S_feature" /locus_tag="new_1291003_1291419_c" /HighExp="S6, S7, S8, S5, BT, C30, Pyr, G/S, C90, B36" /AntisenseName="yjiB" /AntisenseCor="-0.25565388711625397" /AntisenseRegPval="-4.7" /CDS_PredictionProba="NA" /TUshortSig="SigK" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S447" upshifts 1291171 /Source="Nicolas_upshifts" /id="U999" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.766233766233766" /psig=1 /xcortree=3183 /SigmaFactorBS="tatgcctaaggtcacgttgtgagccaaaacagcagtgcagaa tagaaaaaaattgaaagatTATGGTAAGATGAACGAAATtcgagggggaatatatgat g" /listShort="S448, yjiB, yjiC" /GFF_Attribute="listLong" misc_feature 1291172..1291191 /Source="Nicolas_upshift_promotors" /id="U999" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.766233766233766" /psig=1 /xcortree=3183 /SigmaFactorBS="tatgcctaaggtcacgttgtgagccaaaacagcagtgcagaa tagaaaaaaattgaaagatTATGGTAAGATGAACGAAATtcgagggggaatatatgat g" /listShort="S448, yjiB, yjiC" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" S_feature 1291189..1291343 /Source="Nicolas_S_feature" /locus_tag="new_1291189_1291343" /HighExp="BC, T5.0H, T4.0H, C90, Sw, T3.30H, Lbstat, Diami, dia5, S2" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.995811" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S448" CDS 1291344..1292534 /gene="cypE" /locus_tag="BSU_12210" /old_locus_tag="BSU12210" /EC_number="1.14.-.-" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:25587700" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 25587700; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="cytochrome P450 CYP109B1, monooxygenase" /protein_id="NP_389103.1" /db_xref="EnsemblGenomes-Gn:BSU12210" /db_xref="EnsemblGenomes-Tr:CAB13078" /db_xref="GOA:O34374" /db_xref="InterPro:IPR001128" /db_xref="InterPro:IPR002397" /db_xref="InterPro:IPR017972" /db_xref="InterPro:IPR036396" /db_xref="PDB:4RM4" /db_xref="SubtiList:BG13195" /db_xref="UniProtKB/Swiss-Prot:O34374" /translation="MNVLNRRQALQRALLNGKNKQDAYHPFPWYESMRKDAPVSFDEE NQVWSVFLYDDVKKVVGDKELFSSCMPQQTSSIGNSIINMDPPKHTKIRSVVNKAFTP RVMKQWEPRIQEITDELIQKFQGRSEFDLVHDFSYPLPVIVISELLGVPSAHMEQFKA WSDLLVSTPKDKSEEAEKAFLEERDKCEEELAAFFAGIIEEKRNKPEQDIISILVEAE ETGEKLSGEELIPFCTLLLVAGNETTTNLISNAMYSILETPGVYEELRSHPELMPQAV EEALRFRAPAPVLRRIAKRDTEIGGHLIKEGDMVLAFVASANRDEAKFDRPHMFDIRR HPNPHIAFGHGIHFCLGAPLARLEANIALTSLISAFPHMECVSITPIENSVIYGLKSF RVKM*" gene 1291344..1292534 /gene="cypE" /locus_tag="BSU_12210" /old_locus_tag="BSU12210" promotor_-10 complement(1291417..1291436) /Source="Nicolas_upshift_promotors" /id="U1000" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1374 /SigmaFactorBS="ggttttcttcatcaaaggaaACAGGCGCATcctttctcatcg aTTCATACCATGGAAACGGATgatacgcatcctgtttgtttttcccattgagcagcgc t" /listShort="S447, yjiA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1291419) /Source="Nicolas_upshifts" /id="U1000" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1374 /SigmaFactorBS="ggttttcttcatcaaaggaaACAGGCGCATcctttctcatcg aTTCATACCATGGAAACGGATgatacgcatcctgtttgtttttcccattgagcagcgc t" /listShort="S447, yjiA" /GFF_Attribute="listLong" promotor_-35 complement(1291450..1291459) /Source="Nicolas_upshift_promotors" /id="U1000" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp=1 /psig=1 /xcortree=1374 /SigmaFactorBS="ggttttcttcatcaaaggaaACAGGCGCATcctttctcatcg aTTCATACCATGGAAACGGATgatacgcatcctgtttgtttttcccattgagcagcgc t" /listShort="S447, yjiA" /GFF_Attribute="listLong" /label="promotor_-35" CDS 1292557..1293735 /gene="ppuG" /locus_tag="BSU_12220" /old_locus_tag="BSU12220" /EC_number="2.4.1.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 24893262, 27444326; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="polyphenols TDP-rhamnosyltransferase, promiscuous" /protein_id="NP_389104.1" /db_xref="EnsemblGenomes-Gn:BSU12220" /db_xref="EnsemblGenomes-Tr:CAB13079" /db_xref="GOA:O34539" /db_xref="InterPro:IPR002213" /db_xref="InterPro:IPR006326" /db_xref="InterPro:IPR007235" /db_xref="SubtiList:BG13196" /db_xref="UniProtKB/Swiss-Prot:O34539" /translation="MKKYHISMINIPAYGHVNPTLALVEKLCEKGHRVTYATTEEFAP AVQQAGGEALIYHTSLNIDPKQIREMMEKNDAPLSLLKESLSILPQLEELYKDDQPDL IIYDFVALAGKLFAEKLNVPVIKLCSSYAQNESFQLGNEDMLKKIREAEAEFKAYLEQ EKLPAVSFEQLAVPEALNIVFMPKSFQIQHETFDDRFCFVGPSLGERKEKESLLIDKD DRPLMLISLGTAFNAWPEFYKMCIKAFRDSSWQVIMSVGKTIDPESLEDIPANFTIRQ SVPQLEVLEKADLFISHGGMNSTMEAMNAGVPLVVIPQMYEQELTANRVDELGLGVYL PKEEVTVSSLQEAVQAVSSDQELLSRVKNMQKDVKEAGGAERAAAEIEAFMKKSAVPQ *" gene 1292557..1293735 /gene="ppuG" /locus_tag="BSU_12220" /old_locus_tag="BSU12220" CDS complement(1293776..1293964) /gene="yjzI" /locus_tag="BSU_12229" /old_locus_tag="BSU12229" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences" /codon_start=1 /transl_table=11 /product="putative phage protein" /protein_id="YP_003097710.1" /db_xref="EnsemblGenomes-Gn:BSU12229" /db_xref="EnsemblGenomes-Tr:CAX52600" /db_xref="UniProtKB/Swiss-Prot:C0H3Z3" /translation="METKKEEYETKGYDTSIVYEFNEYPDARSGRCDNCDYTLFKSSV KGGKFLRECRRCGMKKNI*" gene complement(1293776..1293964) /gene="yjzI" /locus_tag="BSU_12229" /old_locus_tag="BSU12229" downshifts complement(1293792) /Source="Nicolas_upshifts" /id="D680" /incds=0 /nref=94 /ntot=231 /MaxReadThrough="-0.1433" /MaxDrop="5.1712" /score="13.0160925" /energy="-9.5" /TU="NA" /idTUdmin="U1001" /TUdmin=3 /isTUend="TRUE" promotor_-10 complement(1293990..1294009) /Source="Nicolas_upshift_promotors" /id="U1001" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.34965034965035" /psig="0.993006993006993" /xcortree=2410 /SigmaFactorBS="agataaacccaacctcctaaaatcCATTGAAtacgccggaag ctTGCTGTAAGATAAACAGCAGacacgtcttgtaacggaggatcgacatggaaaccaa a" /listShort="yjzI" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1293993) /Source="Nicolas_upshifts" /id="U1001" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.34965034965035" /psig="0.993006993006993" /xcortree=2410 /SigmaFactorBS="agataaacccaacctcctaaaatcCATTGAAtacgccggaag ctTGCTGTAAGATAAACAGCAGacacgtcttgtaacggaggatcgacatggaaaccaa a" /listShort="yjzI" /GFF_Attribute="listLong" promotor_-35 complement(1294023..1294029) /Source="Nicolas_upshift_promotors" /id="U1001" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.34965034965035" /psig="0.993006993006993" /xcortree=2410 /SigmaFactorBS="agataaacccaacctcctaaaatcCATTGAAtacgccggaag ctTGCTGTAAGATAAACAGCAGacacgtcttgtaacggaggatcgacatggaaaccaa a" /listShort="yjzI" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1294051..1294058 /Source="Nicolas_upshift_promotors" /id="U1002" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.356643356643357" /psig="0.982017982017982" /xcortree=2379 /SigmaFactorBS="tcaatggattttaggaggttgggtttaTCTTGATTtctccct tggtttgCGCCAAAATAGCTTTATTAAgcttatatacataaaaagcctatgcaaagag g" /listShort="yjjA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1294073..1294092 /Source="Nicolas_upshift_promotors" /id="U1002" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.356643356643357" /psig="0.982017982017982" /xcortree=2379 /SigmaFactorBS="tcaatggattttaggaggttgggtttaTCTTGATTtctccct tggtttgCGCCAAAATAGCTTTATTAAgcttatatacataaaaagcctatgcaaagag g" /listShort="yjjA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1294084 /Source="Nicolas_upshifts" /id="U1002" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.356643356643357" /psig="0.982017982017982" /xcortree=2379 /SigmaFactorBS="tcaatggattttaggaggttgggtttaTCTTGATTtctccct tggtttgCGCCAAAATAGCTTTATTAAgcttatatacataaaaagcctatgcaaagag g" /listShort="yjjA" /GFF_Attribute="listLong" promotor_-10 complement(1294099..1294118) /Source="Nicolas_upshift_promotors" /id="U1003" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.868131868131868" /psig="0.868131868131868" /xcortree=1376 /SigmaFactorBS="cgttttccaagtaacccttttccCATACCCGtttcctctcct cttTGCATAGGCTTTTTATGTATataagcttaataaagctattttggcgcaaaccaag g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1294103) /Source="Nicolas_upshifts" /id="U1003" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.868131868131868" /psig="0.868131868131868" /xcortree=1376 /SigmaFactorBS="cgttttccaagtaacccttttccCATACCCGtttcctctcct cttTGCATAGGCTTTTTATGTATataagcttaataaagctattttggcgcaaaccaag g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(1294133..1294140) /Source="Nicolas_upshift_promotors" /id="U1003" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.868131868131868" /psig="0.868131868131868" /xcortree=1376 /SigmaFactorBS="cgttttccaagtaacccttttccCATACCCGtttcctctcct cttTGCATAGGCTTTTTATGTATataagcttaataaagctattttggcgcaaaccaag g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 1294138..1294950 /gene="yjjA" /locus_tag="BSU_12230" /old_locus_tag="BSU12230" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative enzyme" /protein_id="NP_389105.1" /db_xref="EnsemblGenomes-Gn:BSU12230" /db_xref="EnsemblGenomes-Tr:CAB13080" /db_xref="GOA:O34394" /db_xref="InterPro:IPR003754" /db_xref="InterPro:IPR036108" /db_xref="SubtiList:BG13197" /db_xref="UniProtKB/Swiss-Prot:O34394" /translation="MGKGLLGKRVAIGGSRKTEEISTIIEKQGGIPVIRPLQGTVYLA EKQVEPDLRTFAEEKADWVIFTTGIGLETLVDMAEKIGLKDEFLQAIRQAKAACRGYK TLSALKKLGITPEASDEDGTTRGLIRSLEPHDFSGKTVMVQLHGEKAPALMAFLEEKG ASVLPILPYQHIPPEEETVERLCRELMNDEVDAVCFTTAIQVRSLFDFAKGRGYINEV KKVFEERAIAAAVGKVTAEALREEGITRLLAPEIERMGAMIVELAKYYEEKE*" gene 1294138..1294950 /gene="yjjA" /locus_tag="BSU_12230" /old_locus_tag="BSU12230" downshifts 1294929 /Source="Nicolas_upshifts" /id="D681" /incds=0 /nref=196 /ntot=254 /MaxReadThrough="3.61369" /MaxDrop="5.73094" /score="10.6328997" /energy="-14.5" /TU="U1002" /idTUdmin="U1002" /TUdmin="-22" /isTUend="TRUE" CDS complement(1294996..1295748) /gene="yjkA" /locus_tag="BSU_12240" /old_locus_tag="BSU12240" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative ABC transporter (permease)" /protein_id="NP_389106.1" /db_xref="EnsemblGenomes-Gn:BSU12240" /db_xref="EnsemblGenomes-Tr:CAB13081" /db_xref="GOA:O34684" /db_xref="InterPro:IPR005226" /db_xref="SubtiList:BG13198" /db_xref="UniProtKB/Swiss-Prot:O34684" /translation="MDYLSLSLTMIFVLIALFLSKSFKAGVEKDMIIATIRAAVQLLI IGYVLSLIFRGDHPVFILLMVLLMLAVAAQNVIKRKKNTIGSFWRVFAALAIVEIVTQ GILLSLHIIPLTARYVIPISGMVIGNSMVLSSLFLNRLNSEVGVRKEEIQLILSLGGT PKQSIQRILTSAMKMSMIPTLESQKTLGLVQLPGMMTGQILAGADPIQAVRFQLLIVF TTMASAALTCVILSVLTYPSLFTVHQQLKQNE*" gene complement(1294996..1295748) /gene="yjkA" /locus_tag="BSU_12240" /old_locus_tag="BSU12240" downshifts complement(1295005) /Source="Nicolas_upshifts" /id="D682" /incds=0 /nref=5 /ntot=153 /MaxReadThrough="0.924970000000001" /MaxDrop="3.5673" /score="13.1058081" /energy="-12.8" /TU="NA" /idTUdmin="U1001" /TUdmin="-1210" /isTUend="FALSE" CDS complement(1295748..1296500) /gene="yjkB" /locus_tag="BSU_12250" /old_locus_tag="BSU12250" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative ABC transporter (ATP-binding protein)" /protein_id="NP_389107.1" /db_xref="EnsemblGenomes-Gn:BSU12250" /db_xref="EnsemblGenomes-Tr:CAB13082" /db_xref="GOA:O34756" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR005670" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG13199" /db_xref="UniProtKB/Swiss-Prot:O34756" /translation="MEANDQTQNIPAISFRSVRKSYKQDGQTYDVLQDVTGDIQQGAI VAVLGPSGSGKSTLLSMCNLMRTPDSGEVNIYGKEVREWNVNELRRTAALAFQSAPVL DGTVRDNLSLVQRLHQSQLYSPEKLASLAGLPPELLDRSARDLSGGQRQRLSLARTLS NPSSILLLDEITSALDPVSALEIEELIKRQHQEKKWTVMWVTHNMEQAKRIADTIWFM ADGRLLEIAETDTFFSAPQHEAAKEFLKGGTR*" gene complement(1295748..1296500) /gene="yjkB" /locus_tag="BSU_12250" /old_locus_tag="BSU12250" CDS complement(1296620..1297594) /gene="yjlA" /locus_tag="BSU_12260" /old_locus_tag="BSU12260" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 14627822, 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative permease" /protein_id="NP_389108.1" /db_xref="EnsemblGenomes-Gn:BSU12260" /db_xref="EnsemblGenomes-Tr:CAB13083" /db_xref="GOA:O34428" /db_xref="InterPro:IPR032713" /db_xref="SubtiList:BG13200" /db_xref="UniProtKB/Swiss-Prot:O34428" /translation="MKAIVIGILASLFFAVTFILNRAMELSGGSWLWSSSLRFIFMVP FLCLIVIMRGTFTPLLLEMRKKPFYWIKWSFVGFVLFYAPITFAAAYGPGWLIAGTWQ ITIVAGVLLSPLFYVKQDMPGGPQLIRQKIPLVSLGTSVIILIGAALIQLQHAESLSG RMLLFSVLPVVIAAFAYPLGNRRMLEEYGGRLDTFQRVLGMTLASLPFWLILAAYGWW SDGLPTASQTVQSFIVAVSSGIIATVLFFWATDMVRDNPQKLAAVEATQSGEVIFALL GEIVLLSGVFPSLLSFAGLFIIIAGMMLHTFASQPRKPKKKAQSNLTA*" gene complement(1296620..1297594) /gene="yjlA" /locus_tag="BSU_12260" /old_locus_tag="BSU12260" downshifts complement(1296655) /Source="Nicolas_upshifts" /id="D683" /incds=0 /nref=1 /ntot=95 /MaxReadThrough="1.84381" /MaxDrop="2.54799" /score="4.80318278" /energy="-14.5" /TU="NA" /idTUdmin="U1004" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(1297615..1297634) /Source="Nicolas_upshift_promotors" /id="U1004" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.451548451548452" /psig="0.997002997002997" /xcortree=2386 /SigmaFactorBS="tccacatatagcggttcgccaaacatgatgtttttctcatga ttcCATTGATCtgcatgataccgaaTAGTATAGTATAAAAAAATAatgccagaatgag g" /listShort="yjlA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1297641) /Source="Nicolas_upshifts" /id="U1004" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.451548451548452" /psig="0.997002997002997" /xcortree=2386 /SigmaFactorBS="tccacatatagcggttcgccaaacatgatgtttttctcatga ttcCATTGATCtgcatgataccgaaTAGTATAGTATAAAAAAATAatgccagaatgag g" /listShort="yjlA" /GFF_Attribute="listLong" S_feature complement(1297643..1300149) /Source="Nicolas_S_feature" /locus_tag="new_1297643_1300149_c" /HighExp="Lbstat, S2, M0t90, nit, BT, M40t90, ferm, BC, C30, Gly" /AntisenseName="ndh" /AntisenseCor="-0.74506751931257098" /AntisenseRegPval="-48.1" /CDS_PredictionProba="NA" /TUshortSig="SigH" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S449" promotor_-35 complement(1297649..1297656) /Source="Nicolas_upshift_promotors" /id="U1004" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.451548451548452" /psig="0.997002997002997" /xcortree=2386 /SigmaFactorBS="tccacatatagcggttcgccaaacatgatgtttttctcatga ttcCATTGATCtgcatgataccgaaTAGTATAGTATAAAAAAATAatgccagaatgag g" /listShort="yjlA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1297677..1297683 /Source="Nicolas_upshift_promotors" /id="U1005" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=269 /SigmaFactorBS="atcatgcagatcaatggaatcatgagaaaaacatcaTGTTTG GcgaaccgctatatgTGGAAGACAAAAAAGGGAGgtgaaattgatggaaagagagaca c" /listShort="yjlB, S450, S451, rex, ndh" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1297698..1297716 /Source="Nicolas_upshift_promotors" /id="U1005" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=269 /SigmaFactorBS="atcatgcagatcaatggaatcatgagaaaaacatcaTGTTTG GcgaaccgctatatgTGGAAGACAAAAAAGGGAGgtgaaattgatggaaagagagaca c" /listShort="yjlB, S450, S451, rex, ndh" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1297701 /Source="Nicolas_upshifts" /id="U1005" /multdbtbs="-" /comp="M11" /sig="SigB" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=269 /SigmaFactorBS="atcatgcagatcaatggaatcatgagaaaaacatcaTGTTTG GcgaaccgctatatgTGGAAGACAAAAAAGGGAGgtgaaattgatggaaagagagaca c" /listShort="yjlB, S450, S451, rex, ndh" /GFF_Attribute="listLong" CDS 1297726..1298223 /gene="yjlB" /locus_tag="BSU_12270" /old_locus_tag="BSU12270" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 10704478" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein; cupin family" /protein_id="NP_389109.1" /db_xref="EnsemblGenomes-Gn:BSU12270" /db_xref="EnsemblGenomes-Tr:CAB13084" /db_xref="GOA:O34612" /db_xref="InterPro:IPR006045" /db_xref="InterPro:IPR011051" /db_xref="InterPro:IPR014500" /db_xref="InterPro:IPR014710" /db_xref="SubtiList:BG13201" /db_xref="UniProtKB/Swiss-Prot:O34612" /translation="MERETQTYFFPDDGRIPNHPDFPLVVYQNALKDTGLAERIVTRH GWSNSWSGSVFPYHHYHSNTHEVLIALRREAVIQFGGEKGAAIPFKSGDAVVIPAGVG HKKLSSSPDFTVLGAYPGGVQYDMKTGKPNEREEAVKQIKQAALPANDPITGKREPLL EIWVK*" gene 1297726..1298223 /gene="yjlB" /locus_tag="BSU_12270" /old_locus_tag="BSU12270" S_feature 1298224..1298337 /Source="Nicolas_S_feature" /locus_tag="new_1298224_1298337" /HighExp="Etha, M9-stat, B60, Salt, Gly, LPhT, Heat, Sw, HiTm, B36" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigB" /TUshortPSig="0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S450" promotor_-35 1298317..1298321 /Source="Nicolas_upshift_promotors" /id="U1006" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.618381618381618" /psig=1 /xcortree=2641 /SigmaFactorBS="agctccatataaattaatttcataatcgaagcaattcaCGTT CaaattttgttcaaaaAGTGTTATCATATAGAAGGTaatcgaattggagttttttgtg t" /listShort="S451, rex, ndh" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1298337..1298356 /Source="Nicolas_upshift_promotors" /id="U1006" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.618381618381618" /psig=1 /xcortree=2641 /SigmaFactorBS="agctccatataaattaatttcataatcgaagcaattcaCGTT CaaattttgttcaaaaAGTGTTATCATATAGAAGGTaatcgaattggagttttttgtg t" /listShort="S451, rex, ndh" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1298339..1298611 /Source="Nicolas_S_feature" /locus_tag="new_1298339_1298611" /HighExp="LBGtran, dia5, Lbexp, LBGexp, dia0, HPh, aero, LPh, BMM, MG 25" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigB" /TUshortPSig="1, 0.998" /TUlongSig="NA" /TUlongPSig="NA" /label="S451" upshifts 1298339 /Source="Nicolas_upshifts" /id="U1006" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.618381618381618" /psig=1 /xcortree=2641 /SigmaFactorBS="agctccatataaattaatttcataatcgaagcaattcaCGTT CaaattttgttcaaaaAGTGTTATCATATAGAAGGTaatcgaattggagttttttgtg t" /listShort="S451, rex, ndh" /GFF_Attribute="listLong" CDS 1298612..1299034 /gene="yjlC" /locus_tag="BSU_12280" /old_locus_tag="BSU12280" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 16513748, 17015645, 22720735" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_389110.1" /db_xref="EnsemblGenomes-Gn:BSU12280" /db_xref="EnsemblGenomes-Tr:CAB13085" /db_xref="InterPro:IPR012440" /db_xref="SubtiList:BG13202" /db_xref="UniProtKB/Swiss-Prot:O34633" /translation="MPETIDQTNASVSQSQQDLIDQLLKPEVQESLTVLVDQLPKLTE LVNILTKSYDFAQSVATDEVLKSDTVGAITEILEPVKETAKEVAATAIEAKDRAEASN ETIGLFGLLRMLKDPQAQKLFRFANSYLEVMNERENQK*" gene 1298612..1299034 /gene="yjlC" /locus_tag="BSU_12280" /old_locus_tag="BSU12280" CDS 1299074..1300252 /gene="ndh" /locus_tag="BSU_12290" /old_locus_tag="BSU12290" /EC_number="1.6.99.-" /function="16.10: Respire" /experiment="publication(s) with functional evidences, PMID:6816592, 16513748, 17015645, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 6816592, 16513748, 17015645, 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="NADH dehydrogenase" /protein_id="NP_389111.1" /db_xref="EnsemblGenomes-Gn:BSU12290" /db_xref="EnsemblGenomes-Tr:CAB13086" /db_xref="GOA:P80861" /db_xref="InterPro:IPR023753" /db_xref="InterPro:IPR036188" /db_xref="SubtiList:BG13203" /db_xref="UniProtKB/Swiss-Prot:P80861" /translation="MSKHIVILGAGYGGVLSALTVRKHYTKEQARVTVVNKYPTHQII TELHRLAAGNVSEKAVAMPLEKLFKGKDIDLKIAEVSSFSVDKKEVALADGSTLTYDA LVVGLGSVTAYFGIPGLEENSMVLKSAADANKVFQHVEDRVREYSKTKNEADATILIG GGGLTGVELVGELADIMPNLAKKYGVDHKEIKLKLVEAGPKILPVLPDDLIERATASL EKRGVEFLTGLPVTNVEGNVIDLKDGSKVVANTFVWTGGVQGNPLVGESGLEVNRGRA TVNDFLQSTSHEDVFVAGDSAVYFGPDGRPYPPTAQIAWQMGELIGYNLFAYLEGKTL ETFKPVNSGTLASLGRKDAVAIIGANSTPLKGLPASLMKEASNVRYLTHIKGLFSLAY *" gene 1299074..1300252 /gene="ndh" /locus_tag="BSU_12290" /old_locus_tag="BSU12290" promotor_no_box 1300083..1300183 /Source="Nicolas_upshift_promotors" /id="U1007" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.59040959040959" /psig="0.015984015984016" /xcortree=1732 /SigmaFactorBS="tcaagccagtaaactctggtacacttgcaagccttggacgca aagacgcggttgccatcattggtgctaattctacaccgcttaaaggtcttcctgcttc c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" promotor_-10 complement(1300141..1300159) /Source="Nicolas_upshift_promotors" /id="U1008" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=506 /SigmaFactorBS="cgtacattacttgcttctttcatcaaggaaGCAGGAAGAcct ttaagcggTGTAGAATTAGCACCAATGatggcaaccgcgtctttgcgtccaaggcttg c" /listShort="S449, yjlA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1300143 /Source="Nicolas_upshifts" /id="U1007" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.59040959040959" /psig="0.015984015984016" /xcortree=1732 /SigmaFactorBS="tcaagccagtaaactctggtacacttgcaagccttggacgca aagacgcggttgccatcattggtgctaattctacaccgcttaaaggtcttcctgcttc c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" upshifts complement(1300149) /Source="Nicolas_upshifts" /id="U1008" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=506 /SigmaFactorBS="cgtacattacttgcttctttcatcaaggaaGCAGGAAGAcct ttaagcggTGTAGAATTAGCACCAATGatggcaaccgcgtctttgcgtccaaggcttg c" /listShort="S449, yjlA" /GFF_Attribute="listLong" promotor_-35 complement(1300171..1300179) /Source="Nicolas_upshift_promotors" /id="U1008" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp=1 /psig=1 /xcortree=506 /SigmaFactorBS="cgtacattacttgcttctttcatcaaggaaGCAGGAAGAcct ttaagcggTGTAGAATTAGCACCAATGatggcaaccgcgtctttgcgtccaaggcttg c" /listShort="S449, yjlA" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 1300251 /Source="Nicolas_upshifts" /id="D684" /incds=0 /nref=220 /ntot=278 /MaxReadThrough="2.01042" /MaxDrop="8.69373" /score="30.6421047" /energy="-23.1" /TU="NA" /idTUdmin="U1005" /TUdmin="-2" /isTUend="TRUE" promotor_-35 1300360..1300367 /Source="Nicolas_upshift_promotors" /id="U1009" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.694305694305694" /psig="0.935064935064935" /xcortree=1573 /SigmaFactorBS="ttttcaaaaaagaGATTGATCccaaaggaatataaAGGTAAA ATAAAAACAAATCaaaatgttaacgttaacattttgaaatagaatgaaagacggtgag g" /listShort="uxaC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1300382..1300401 /Source="Nicolas_upshift_promotors" /id="U1009" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.694305694305694" /psig="0.935064935064935" /xcortree=1573 /SigmaFactorBS="ttttcaaaaaagaGATTGATCccaaaggaatataaAGGTAAA ATAAAAACAAATCaaaatgttaacgttaacattttgaaatagaatgaaagacggtgag g" /listShort="uxaC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1300407 /Source="Nicolas_upshifts" /id="U1009" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.694305694305694" /psig="0.935064935064935" /xcortree=1573 /SigmaFactorBS="ttttcaaaaaagaGATTGATCccaaaggaatataaAGGTAAA ATAAAAACAAATCaaaatgttaacgttaacattttgaaatagaatgaaagacggtgag g" /listShort="uxaC" /GFF_Attribute="listLong" CDS 1300450..1301871 /gene="uxaC" /locus_tag="BSU_12300" /old_locus_tag="BSU12300" /EC_number="5.3.1.12" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 9579062, 9882655; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="galacturonate isomerase" /protein_id="NP_389112.1" /db_xref="EnsemblGenomes-Gn:BSU12300" /db_xref="EnsemblGenomes-Tr:CAB13087" /db_xref="GOA:O34808" /db_xref="InterPro:IPR003766" /db_xref="InterPro:IPR032466" /db_xref="SubtiList:BG13204" /db_xref="UniProtKB/Swiss-Prot:O34808" /translation="MEPFMGKNFLLKNETAVSLYHNYAKDMPIIDYHCHLSPKEIYEN KTFQNITEAWLYGDHYKWRIMRANGIEETYITGDAPDEEKFMAWAKTVPMAIGNPLYN WTHLELQRFFGIYEILNEKSGSAIWKQTNKLLKGEGFGARDLIVKSNVKVVCTTDDPV DSLEYHLLLKEDKDFPVSVLPGFRPDKGLEINREGFPEWVQALEDAAAISITTYDEFL KALEKRVRFFHSAGGRVSDHAIDTMVFAETTKEEAGRIFSDRLQGTEVSCEDEKKFKT YTLQFLCGLYAELDWAMQFHINALRNTNTKMMKRLGPDTGYDSMNDEEIAKPLYKLLN SVEMKNQLPKTILYSLNPNDNYVIASMINSFQDGITPGKIQFGTAWWFNDTKDGMLDQ MKALSNVGLFSRFIGMLTDSRSFLSYTRHEYFRRIVCNLIGEWVENGEVPRDMELLGS IVQGICYDNAKHYFQFQEEKANV*" gene 1300450..1301871 /gene="uxaC" /locus_tag="BSU_12300" /old_locus_tag="BSU12300" CDS 1301939..1303318 /gene="exuM" /locus_tag="BSU_12310" /old_locus_tag="BSU12310" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 9882655, 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative Na+:altronate/mannonate symporter" /protein_id="NP_389113.1" /db_xref="EnsemblGenomes-Gn:BSU12310" /db_xref="EnsemblGenomes-Tr:CAB13088" /db_xref="GOA:O34961" /db_xref="InterPro:IPR001927" /db_xref="InterPro:IPR018043" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG13205" /db_xref="UniProtKB/Swiss-Prot:O34961" /translation="MRTELANKVVSVETEKRLSLKEKMSYGFGDFGNGFMFDLGQIYL LKYFTDVAGIPAAMAGGIFLVSKLFAAITDPIVGSSIDYRKNIGKRGKFRPYLLIGSI VLAVLTVLIFLSPNVSTTGKLIYAYASYMIWGIGYSFVNIPYGSLGAAMTQNSEDRTS ISTFRQIGSLGALFITSVAVMPLLVKFDNPKVGYPVVMGLFAALGVFWFYICYRNCKE RIIISEAPKEKLTLSSVVKTFITNKPLLTLVLMTIFSISAYNIKSAMLVYFAQYNLGN VELMAYMNFIIIGSSFLGVVFLPKLVKMFGKKRTAMIGFGISVAADLINFMLPSNVYV FTILASIAFIGISIPNGITWALVSDIIDYGEWKSGERKEATTYSLFNFSRKLAQSLSG FLSGIGLGIIGYVPNAVQTAQALIGIKALLLLYPAIALALAMFIIGFLYKLTDQQHAQ IVQDLHQKS*" gene 1301939..1303318 /gene="exuM" /locus_tag="BSU_12310" /old_locus_tag="BSU12310" promotor_-10 complement(1302458..1302477) /Source="Nicolas_upshift_promotors" /id="U1010" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.988011988011988" /psig="0.999000999001" /xcortree=2077 /SigmaFactorBS="cgggtagccgaccttcggattatcaAACTTGACgagcagcgg catcACGGCCACACTTGTGATAAAcaaggcgccaagtgatccgatttggcggaacgtc g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1302463) /Source="Nicolas_upshifts" /id="U1010" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.988011988011988" /psig="0.999000999001" /xcortree=2077 /SigmaFactorBS="cgggtagccgaccttcggattatcaAACTTGACgagcagcgg catcACGGCCACACTTGTGATAAAcaaggcgccaagtgatccgatttggcggaacgtc g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(1302491..1302498) /Source="Nicolas_upshift_promotors" /id="U1010" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.988011988011988" /psig="0.999000999001" /xcortree=2077 /SigmaFactorBS="cgggtagccgaccttcggattatcaAACTTGACgagcagcgg catcACGGCCACACTTGTGATAAAcaaggcgccaagtgatccgatttggcggaacgtc g" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1303343 /Source="Nicolas_upshifts" /id="U1011" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.926073926073926" /psig="0.926073926073926" /xcortree=1048 /SigmaFactorBS="gctcagatcgttcaggatcttcatcaaaagagctgacaatat aatataaagaatatttaaaataatttgtAAATAAAAtgtgtttgtaggggtttcgctt g" /listShort="S452, yjmC, yjmD, uxuA, uxuB, exuT, exuR" /GFF_Attribute="listLong" misc_feature 1303353..1303360 /Source="Nicolas_upshift_promotors" /id="U1011" /multdbtbs="SigE" /comp="M3" /sig="SigEF" /pcomp="0.926073926073926" /psig="0.926073926073926" /xcortree=1048 /SigmaFactorBS="gctcagatcgttcaggatcttcatcaaaagagctgacaatat aatataaagaatatttaaaataatttgtAAATAAAAtgtgtttgtaggggtttcgctt g" /listShort="S452, yjmC, yjmD, uxuA, uxuB, exuT, exuR" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" S_feature 1303355..1303422 /Source="Nicolas_S_feature" /locus_tag="new_1303355_1303422" /HighExp="S4, S5, S6, S3, S8, S7, T5.0H, T4.0H, T3.30H, M9-stat" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigEF" /TUshortPSig="0.926" /TUlongSig="NA" /TUlongPSig="NA" /label="S452" CDS 1303423..1304436 /gene="yjmC" /locus_tag="BSU_12320" /old_locus_tag="BSU12320" /EC_number="1.1.1.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 9579062, 9882655, 16788182; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative oxidoreductase" /protein_id="NP_389114.1" /db_xref="EnsemblGenomes-Gn:BSU12320" /db_xref="EnsemblGenomes-Tr:CAB13089" /db_xref="GOA:O34736" /db_xref="InterPro:IPR003767" /db_xref="InterPro:IPR036111" /db_xref="SubtiList:BG13206" /db_xref="UniProtKB/Swiss-Prot:O34736" /translation="MKTITIAAEEAKELVWQKLDGAGLNERDAEKVADVLVHADLRNV HSHGVLHTEHYVNRLLAGGINPGAQPVFKETGPVTGVLDGDDGFGHVNCDMAMDHAID MAKKKGVGMVTAVNSSHCGALSYFVQKAADEKLIGMAMTHTDSIVVPFGGRTPILGTN PIAYGVPAKHKKPFILDMATSKVAFGKILQAREEGKEIPEGWGVDENGEAVTDPDKVV SLSTFGGPKGYGLSIVVDVFSGLLAGAAFGPHIAKMYNGLDQKRKLGHYVCAINPSFF TDWDTFLEQMDAMIDELQQSPPAVGFERVYVPGEIEQLHEERNKKNGISIARSVYEFL KSR*" gene 1303423..1304436 /gene="yjmC" /locus_tag="BSU_12320" /old_locus_tag="BSU12320" CDS 1304442..1305461 /gene="yjmD" /locus_tag="BSU_12330" /old_locus_tag="BSU12330" /EC_number="1.1.1.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 9579062, 9882655; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative oxidoreductase" /protein_id="NP_389115.1" /db_xref="EnsemblGenomes-Gn:BSU12330" /db_xref="EnsemblGenomes-Tr:CAB13090" /db_xref="GOA:O35045" /db_xref="InterPro:IPR002328" /db_xref="InterPro:IPR011032" /db_xref="InterPro:IPR013149" /db_xref="InterPro:IPR013154" /db_xref="InterPro:IPR020843" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG13207" /db_xref="UniProtKB/Swiss-Prot:O35045" /translation="MKAVQVRKAYDLVTAEVKKPVLSKDDEVLVKVKRVGICGSDMHI YHGTNPLATLPRVIGHEVTGQVEAVGANVQSLKPGDHVVIEPISYCGSCYACRKGRPN VCAKLSVFGVHEDGGMREYIVLPERQLHAVSKDLPWEEAVMAEPYTIGAQAVWRGQVE KGDTVLIQGAGPIGICVLKMAKLAGAAVMMTDLNNERLAFAKENGADAVVNVQAEHVA ERVLEWTGNEGANVVIDAVCLPETFALSIEAVSPAGHVVVLGFDERAAQISQLPITKK EVTITGSRLQTNQFPKVVELLNGGRLMHNGLVTHTFSVDDVHHAFQFIKEHPDQVRKA VITFD*" gene 1304442..1305461 /gene="yjmD" /locus_tag="BSU_12330" /old_locus_tag="BSU12330" CDS 1305486..1306565 /gene="uxuA" /locus_tag="BSU_12340" /old_locus_tag="BSU12340" /EC_number="4.2.1.8" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 9579062, 9882655, 10368143, 25145794; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="D-mannonate dehydratase" /protein_id="NP_389116.1" /db_xref="EnsemblGenomes-Gn:BSU12340" /db_xref="EnsemblGenomes-Tr:CAB13091" /db_xref="GOA:O34346" /db_xref="InterPro:IPR004628" /db_xref="InterPro:IPR036237" /db_xref="SubtiList:BG13208" /db_xref="UniProtKB/Swiss-Prot:O34346" /translation="MNMTFRWYGRGNDTVTLEYVKQIPGVKGIVWALHQKPVGDVWEK EEIRAETEYIQSYGFHAEVVESVNVHEAIKLGNEERGRYIENYKQTIRNLAGFGVKVI CYNFMPVFDWTRTDMFRPLEDGSTALFFEKAKVESLDPQELIRTVEEASDMTLPGWEP EKLARIKELFAAYRTVDEEKLWDNLSFFLQEILPVAEAYGVQMAIHPDDPPWPIFGLP RIITGEASYKKLRAISDSPSNCITLCTGSMGANPANDMVEIAKTYAGIAPFSHIRNVK IYENGDFIETSHLTKDGSINIQGVMEELHKQDYEGYVRPDHGRHLWGEQCRPGYGLYD RALGIMYLNGLWDAYEAMAKKEVGI*" gene 1305486..1306565 /gene="uxuA" /locus_tag="BSU_12340" /old_locus_tag="BSU12340" CDS 1306562..1307398 /gene="uxuB" /locus_tag="BSU_12350" /old_locus_tag="BSU12350" /EC_number="1.1.1.57" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 9579062, 9882655, 10368143; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="fructuronate reductase" /protein_id="NP_389117.1" /db_xref="EnsemblGenomes-Gn:BSU12350" /db_xref="EnsemblGenomes-Tr:CAB13092" /db_xref="GOA:O34896" /db_xref="InterPro:IPR002347" /db_xref="InterPro:IPR020904" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG13209" /db_xref="UniProtKB/Swiss-Prot:O34896" /translation="MIPLHENLAGKTAVITGGSGVLCSAMARELARHGMKVAILNRTA EKGQAVVKEITAAGGTACAVAADVLDRMSLERAKEDILGQFGAVDLLINGAGGNHPDA ITDVETYEEAGEGQSFFDMDERGFLTVFSTNFTGAFLASQVFGKELLKADSPAIINLS SMSAYSPMTKVPAYSAAKASINNFTMWMAVHFAETGLRVNAIAPGFFLTKQNHDLLIN QDGTFTSRSHKIIAGTPMKRFGKPEDLLGTLLWLADESYSGFVTGITVPVDGGFMAYS GV*" gene 1306562..1307398 /gene="uxuB" /locus_tag="BSU_12350" /old_locus_tag="BSU12350" CDS 1307446..1308714 /gene="exuT" /locus_tag="BSU_12360" /old_locus_tag="BSU12360" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 8320243, 9579062, 9882655, 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="hexuronate transporter" /protein_id="NP_389118.1" /db_xref="EnsemblGenomes-Gn:BSU12360" /db_xref="EnsemblGenomes-Tr:CAB13093" /db_xref="GOA:O34456" /db_xref="InterPro:IPR000849" /db_xref="InterPro:IPR004744" /db_xref="InterPro:IPR011701" /db_xref="InterPro:IPR020846" /db_xref="InterPro:IPR036259" /db_xref="SubtiList:BG13210" /db_xref="UniProtKB/Swiss-Prot:O34456" /translation="MFSKDKLPVILFLFLAGVINYLDRSALSIAAPFIQDDLTLSATQ MGLIFSSFSIGYAIFNFLGGVASDRYGAKLTLFVAMVVWSLFSGAVALAFGFVSLLII RILFGMGEGPLSATINKMVNNWFPPTQRASVIGVTNSGTPLGGAISGPIVGMIAVAFS WKVSFVLIMIIGLIWAVLWFKFVKEKPQETIKEAPAIKAETSPGEKIPLTFYLKQKTV LFTAFAFFAYNYILFFFLTWFPSYLVDERGLSVESMSVITVIPWILGFIGLAAGGFVS DYVYKKTARKGVLFSRKVVLVTCLFSSAVLIGFAGLVATTAGAVTLVALSVFFLYLTG AIYWAVIQDVVDQNNVGSVGGFMHFLANTAGIIGPALTGFIVDQTGTFSGAFLLAGGL AVFASLAVIRFVRPIIGKPAGTEAENPVSY*" gene 1307446..1308714 /gene="exuT" /locus_tag="BSU_12360" /old_locus_tag="BSU12360" promotor_-35 1308658..1308661 /Source="Nicolas_upshift_promotors" /id="U1012" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.637362637362637" /psig="0.005994005994006" /xcortree=1486 /SigmaFactorBS="ctggctgtcttcgcttcacttgctgtgattcgttttgtcCGT CcaatcattggtaagcCAGCGggaacagaagctgagaatcctgtgtcttattaatctg g" /listShort="exuR" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1308677..1308681 /Source="Nicolas_upshift_promotors" /id="U1012" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.637362637362637" /psig="0.005994005994006" /xcortree=1486 /SigmaFactorBS="ctggctgtcttcgcttcacttgctgtgattcgttttgtcCGT CcaatcattggtaagcCAGCGggaacagaagctgagaatcctgtgtcttattaatctg g" /listShort="exuR" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1308679 /Source="Nicolas_upshifts" /id="U1012" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.637362637362637" /psig="0.005994005994006" /xcortree=1486 /SigmaFactorBS="ctggctgtcttcgcttcacttgctgtgattcgttttgtcCGT CcaatcattggtaagcCAGCGggaacagaagctgagaatcctgtgtcttattaatctg g" /listShort="exuR" /GFF_Attribute="listLong" misc_feature 1308747..1308766 /Source="Nicolas_upshift_promotors" /id="U1013" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.966033966033966" /psig=1 /xcortree=3107 /SigmaFactorBS="agaagctgagaatcctgtgtcttattaatctggaaatatagt gggagaggcggtatgtttGATGATACAATATACAGTAAataatcgcagccggtatgat a" /listShort="exuR" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 1308747 /Source="Nicolas_upshifts" /id="U1013" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.966033966033966" /psig=1 /xcortree=3107 /SigmaFactorBS="agaagctgagaatcctgtgtcttattaatctggaaatatagt gggagaggcggtatgtttGATGATACAATATACAGTAAataatcgcagccggtatgat a" /listShort="exuR" /GFF_Attribute="listLong" CDS 1308802..1309803 /gene="exuR" /locus_tag="BSU_12370" /old_locus_tag="BSU12370" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:9579062, 9882655" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9579062, 9882655; Product type r: regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator (LacI family)" /protein_id="NP_389119.1" /db_xref="EnsemblGenomes-Gn:BSU12370" /db_xref="EnsemblGenomes-Tr:CAB13094" /db_xref="GOA:Q9JMQ1" /db_xref="InterPro:IPR000843" /db_xref="InterPro:IPR010982" /db_xref="InterPro:IPR028082" /db_xref="SubtiList:BG13211" /db_xref="UniProtKB/Swiss-Prot:Q9JMQ1" /translation="MVTIKDIAKLANVSHTTVSRALNNSPYIKEHTKKKILELAEQLN YTPNVNAKSLAMQKSHTIGLFFTSITNGTSHSFFADTIKGVNQAISEDYNLYVRGIDD LKNYDSVTPMRYDGIILMSQSDIDNSFIYHIREKNIPLVVLNRDIDDRTITNILSNDK EGSQEAVEYFIQSGHQDIAIIEGIEGFKSSQQRKEGYLSALIQHHIPIKHEYSVKGQY DMESGFQAMERLLALPNPPTAVFCSNDDMAIGAMNAIFAKGLRVPDDISVIGFDDIGF SQYITPRLSTVKRPVEKISVLGAQKLLSLISEPETKAEKILENTEFMVRDSVRRLTT* " gene 1308802..1309803 /gene="exuR" /locus_tag="BSU_12370" /old_locus_tag="BSU12370" promotor_no_box complement(1309485..1309585) /Source="Nicolas_upshift_promotors" /id="U1014" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.915084915084915" /psig="0.024975024975025" /xcortree=19 /SigmaFactorBS="cgcgcaggccctttgcgaatatcgcattcatcgctccgattg ccatgtcatcattcgaacaaaaaacagcggttggaggattcggcagtgccagcagccg c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts complement(1309525) /Source="Nicolas_upshifts" /id="U1014" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.915084915084915" /psig="0.024975024975025" /xcortree=19 /SigmaFactorBS="cgcgcaggccctttgcgaatatcgcattcatcgctccgattg ccatgtcatcattcgaacaaaaaacagcggttggaggattcggcagtgccagcagccg c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" downshifts 1309779 /Source="Nicolas_upshifts" /id="D685" /incds=0 /nref=2 /ntot=132 /MaxReadThrough="2.47166" /MaxDrop="3.11543" /score="12.2153519" /energy="-7.4" /TU="NA" /idTUdmin="U1011" /TUdmin=0 /isTUend="TRUE" CDS 1309880..1311322 /gene="uxaB" /locus_tag="BSU_12380" /old_locus_tag="BSU12380" /EC_number="1.1.1.58" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 9579062, 9882655; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="tagaturonate reductase (altronate oxidoreductase)" /protein_id="NP_389120.1" /db_xref="EnsemblGenomes-Gn:BSU12380" /db_xref="EnsemblGenomes-Tr:CAB13095" /db_xref="GOA:O34354" /db_xref="InterPro:IPR000669" /db_xref="InterPro:IPR008927" /db_xref="InterPro:IPR013118" /db_xref="InterPro:IPR013131" /db_xref="InterPro:IPR013328" /db_xref="InterPro:IPR023668" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG13212" /db_xref="UniProtKB/Swiss-Prot:O34354" /translation="MQKLNKNVYDHYTQYPEKILQFGEGNFLRGFIDWQIDQLNQHTD FNGSVAVVQPRGSEKIKRLNEQDGLYTLFLQGMKDGEAVNEHMIINSISRGIDLFSDY EAYKELASSERLRFIISNTTEAGIVCDEKDRLEDRPQKTFPGKLTAFLYFRYQAFKGD QTKGCVLIPCELIENNGEKLRETVLHYAHLWKLEEGFTQWIHEANTFCNSLVDRIVPG FPVDSIDEITADLGYQDDLIVVGEQYYLWVIEGPDWIGKELPFAAAGLHTKIVSDLTP YRTKKVRILNGAHTAMTPVALLYGLKTVRDAVEHPEVGRFIRELIDDEILPVLKMEGL SQYADDVLNRFKNPYIKHYLESIALNAISKFKTRNLPTLKEYAEQKGQLPERLVFSFS ALLYFYHDNETLQDDPAVLQFFKEVWCQEDGDMLRIASRVLGEQRLWGADLNEIPKLT DRVAVYLNHIHELGMQRALEQYCIQGGEVR*" gene 1309880..1311322 /gene="uxaB" /locus_tag="BSU_12380" /old_locus_tag="BSU12380" CDS 1311319..1312812 /gene="uxaA" /locus_tag="BSU_12390" /old_locus_tag="BSU12390" /EC_number="4.2.1.7" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 9579062, 9882655; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="altronate dehydratase" /protein_id="NP_389121.2" /db_xref="EnsemblGenomes-Gn:BSU12390" /db_xref="EnsemblGenomes-Tr:CAB13096" /db_xref="GOA:O34673" /db_xref="InterPro:IPR007392" /db_xref="InterPro:IPR013974" /db_xref="SubtiList:BG13213" /db_xref="UniProtKB/Swiss-Prot:O34673" /translation="MKSFIKIHKQDNVLLALRDIQKGERLHAYGVSIEVKDDIKRGHK IALQSIKENDSIVKYGFPIGHASQDISIGEHIHVHNTKTNLSDIQLYSYTPRFDENPY SNENRTFKGFRRENGDAGVRNELWIVPTVGCVNGIAEKMLQRFVRETGDIAPFDNVLV LKHQYGCSQLGDDHENTKQILLNAIRHPNAGGVLVLGLGCENNELARMKEALQDVNLK RVKFLESQSVTDEMEAGVALLKEIHEAAKGDKREDIPLSELKIGLKCGGSDGFSGITA NPLLGRFSDYLIAQGGSTVLTEVPEMFGAETILMQRAANEEVFHKIVDLINDFKQYFI KHDQPVYENPSPGNKAGGISTLEDKSLGCTQKAGISPVTDVLKYGEVLKTKGLTLLSA PGNDLIASSALAAAGCQIVLFTTGRGTPFGTFVPTVKVATNTELYEAKPHWIDFNAGL LAEDDVHEEYVLREFIHYMIEVASGQLVNHEKNDFKELAIFKSGVTL*" gene 1311319..1312812 /gene="uxaA" /locus_tag="BSU_12390" /old_locus_tag="BSU12390" CDS complement(1312851..1313615) /gene="yjnA" /locus_tag="BSU_12400" /old_locus_tag="BSU12400" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406, 16885442; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative permease" /protein_id="NP_389122.1" /db_xref="EnsemblGenomes-Gn:BSU12400" /db_xref="EnsemblGenomes-Tr:CAB13097" /db_xref="GOA:O34578" /db_xref="InterPro:IPR002781" /db_xref="SubtiList:BG13214" /db_xref="UniProtKB/Swiss-Prot:O34578" /translation="MSVSIILMGLFVGALVGLTGVGGAALLTPLLIVLGINPSIAVGT DLVYNSITKLFGVASHWRQKTINFKLVKYLAIGSIPSASLAIGILHLFPAFHQHQEEI IKHALGYVLTLVAISIIVRLFLDRKLRPNRWQLMPLENKRALTILIGVVFGFIVGLTS IGSGSLFAIAMIYLFNMKASQIVGTDIAHAFLLVTAAGILNASFGSVDYMLAANLLLG SIPGVLIGSHLSPRFSPRPLQFIMASIILVSGLKLI*" gene complement(1312851..1313615) /gene="yjnA" /locus_tag="BSU_12400" /old_locus_tag="BSU12400" downshifts complement(1312870) /Source="Nicolas_upshifts" /id="D686" /incds=0 /nref=96 /ntot=170 /MaxReadThrough="1.34004" /MaxDrop="4.60564" /score="6.47747687" /energy="-11.3" /TU="NA" /idTUdmin="U1015" /TUdmin="-1" /isTUend="TRUE" promotor_-10 complement(1313644..1313663) /Source="Nicolas_upshift_promotors" /id="U1015" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.378621378621379" /psig="0.995004995004995" /xcortree=1735 /SigmaFactorBS="aatttcaagcaactaacgtgcaaaaattcaaaaaatttAATT GATtaacgcgtcctaaTCATATATAATCTGATAAAAatagtcgggttttcaggaggcc t" /listShort="yjnA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1313661) /Source="Nicolas_upshifts" /id="U1015" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.378621378621379" /psig="0.995004995004995" /xcortree=1735 /SigmaFactorBS="aatttcaagcaactaacgtgcaaaaattcaaaaaatttAATT GATtaacgcgtcctaaTCATATATAATCTGATAAAAatagtcgggttttcaggaggcc t" /listShort="yjnA" /GFF_Attribute="listLong" S_feature complement(1313663..1313744) /Source="Nicolas_S_feature" /locus_tag="new_1313663_1313744_c" /HighExp="S6, S8, S7, S5, BT, G/S, B36, Pyr, B60, nit" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigK" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S453" promotor_-35 complement(1313677..1313683) /Source="Nicolas_upshift_promotors" /id="U1015" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.378621378621379" /psig="0.995004995004995" /xcortree=1735 /SigmaFactorBS="aatttcaagcaactaacgtgcaaaaattcaaaaaatttAATT GATtaacgcgtcctaaTCATATATAATCTGATAAAAatagtcgggttttcaggaggcc t" /listShort="yjnA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(1313727..1313746) /Source="Nicolas_upshift_promotors" /id="U1016" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1284 /SigmaFactorBS="cttttttttgcgcctttagtacttctcgatttcgtCCAGACA CTCattatagggcaaaTGAATAGAGATATTGAGCATaccaaaatttcaagcaactaac g" /listShort="S453, yjnA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1313744) /Source="Nicolas_upshifts" /id="U1016" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1284 /SigmaFactorBS="cttttttttgcgcctttagtacttctcgatttcgtCCAGACA CTCattatagggcaaaTGAATAGAGATATTGAGCATaccaaaatttcaagcaactaac g" /listShort="S453, yjnA" /GFF_Attribute="listLong" promotor_-35 complement(1313760..1313769) /Source="Nicolas_upshift_promotors" /id="U1016" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1284 /SigmaFactorBS="cttttttttgcgcctttagtacttctcgatttcgtCCAGACA CTCattatagggcaaaTGAATAGAGATATTGAGCATaccaaaatttcaagcaactaac g" /listShort="S453, yjnA" /GFF_Attribute="listLong" /label="promotor_-35" downshifts complement(1313837) /Source="Nicolas_upshifts" /id="D687" /incds=0 /nref=192 /ntot=236 /MaxReadThrough="2.6067" /MaxDrop="6.40442" /score="13.4353262" /energy="-7.4" /TU="NA" /idTUdmin="U1017" /TUdmin=0 /isTUend="TRUE" CDS complement(1313840..1314304) /gene="yjoA" /locus_tag="BSU_12410" /old_locus_tag="BSU12410" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 20497499; Product type f: factor" /codon_start=1 /transl_table=11 /product="putative DNA-binding protein" /protein_id="NP_389123.1" /db_xref="EnsemblGenomes-Gn:BSU12410" /db_xref="EnsemblGenomes-Tr:CAB13098" /db_xref="GOA:O34334" /db_xref="InterPro:IPR007837" /db_xref="InterPro:IPR034660" /db_xref="PDB:3DKA" /db_xref="SubtiList:BG13215" /db_xref="UniProtKB/Swiss-Prot:O34334" /translation="MCQSNQIVSHFLSHRNVTNELAEKISKDHYSYKPAETSMSAEEL VKHILTSFHLFANVIKEGNASPFQNKQEETETDLNVLAKTYTEKTVAILEQLTEEQLD REIDLTSAFGRKVTGRALLQLAMEHEIHHKGNLFVYVREMGHTELPFYQQRM*" gene complement(1313840..1314304) /gene="yjoA" /locus_tag="BSU_12410" /old_locus_tag="BSU12410" promotor_-10 complement(1314336..1314355) /Source="Nicolas_upshift_promotors" /id="U1017" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.926073926073926" /psig="0.985014985014985" /xcortree=1796 /SigmaFactorBS="ttgacatagcattttgtttcatcccacagcatatTACTTGTG aattcataaccgtTGATATAGGATTTCATTGCAccatttatttttacatatggaggag a" /listShort="yjoA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1314350) /Source="Nicolas_upshifts" /id="U1017" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.926073926073926" /psig="0.985014985014985" /xcortree=1796 /SigmaFactorBS="ttgacatagcattttgtttcatcccacagcatatTACTTGTG aattcataaccgtTGATATAGGATTTCATTGCAccatttatttttacatatggaggag a" /listShort="yjoA" /GFF_Attribute="listLong" promotor_-35 complement(1314369..1314376) /Source="Nicolas_upshift_promotors" /id="U1017" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.926073926073926" /psig="0.985014985014985" /xcortree=1796 /SigmaFactorBS="ttgacatagcattttgtttcatcccacagcatatTACTTGTG aattcataaccgtTGATATAGGATTTCATTGCAccatttatttttacatatggaggag a" /listShort="yjoA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1314390..1314399 /Source="Nicolas_upshift_promotors" /id="U1018" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1674 /SigmaFactorBS="tcaacggttatgaattcacaagtaatatgctgtgggaTGAAA CAAAAtgctatgtcaaTCGTATATATAACGTTcacaaaacatgaaatggagtataaac a" /listShort="yjoB" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1314411..1314426 /Source="Nicolas_upshift_promotors" /id="U1018" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1674 /SigmaFactorBS="tcaacggttatgaattcacaagtaatatgctgtgggaTGAAA CAAAAtgctatgtcaaTCGTATATATAACGTTcacaaaacatgaaatggagtataaac a" /listShort="yjoB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1314413 /Source="Nicolas_upshifts" /id="U1018" /multdbtbs="SigW" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1674 /SigmaFactorBS="tcaacggttatgaattcacaagtaatatgctgtgggaTGAAA CAAAAtgctatgtcaaTCGTATATATAACGTTcacaaaacatgaaatggagtataaac a" /listShort="yjoB" /GFF_Attribute="listLong" CDS 1314453..1315724 /gene="yjoB" /locus_tag="BSU_12420" /old_locus_tag="BSU12420" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:14757246" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 14757246; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="informational ATPase possibly involved in protein degradation" /protein_id="NP_389124.1" /db_xref="EnsemblGenomes-Gn:BSU12420" /db_xref="EnsemblGenomes-Tr:CAB13099" /db_xref="GOA:O34703" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR003959" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG13216" /db_xref="UniProtKB/Swiss-Prot:O34703" /translation="MTNIPFIYQYEEKENERAAAGYGTFGYLITRIEETLYDQYGVFY ELYASDDPNTEYWELLVEDVRSGSLEPEHVAYIFEKLEKKTFAYDEDEKEPDYTVHKS IRNSVYAYPEKGVAFARIPYFQDGSIMSFDCLFAVNDEKMRAFLEGVRPRLWEKSKRK VTVFTDGDGGTSREQEAIVREVQRSQVIMNPLLKKEIYRSIDQFFHSDKSFYQTYDIP YKRGILLYGPPGNGKTTLVKSIAGSIDAPVAYWQITEFTSSETIEEVFQAARRLAPAV LVIEDIDSMPEDVRSFFLNTLDGATSKEGLFLIGTTNYPEEIDPGLMNRAGRFDRAYE IGLPDEELRLEYMKMRGFGIFLSEGEIKNAAKLTEGFSFAQLGELYVSSALQWHQEGN HHIETMVKDMTGEQRKSQRGSWMERNKVGFH*" gene 1314453..1315724 /gene="yjoB" /locus_tag="BSU_12420" /old_locus_tag="BSU12420" downshifts 1315697 /Source="Nicolas_upshifts" /id="D688" /incds=0 /nref=31 /ntot=186 /MaxReadThrough="2.4959" /MaxDrop="3.90459" /score="20.8794231" /energy="-13" /TU="NA" /idTUdmin="U1018" /TUdmin=0 /isTUend="TRUE" promotor_-35 1315803..1315810 /Source="Nicolas_upshift_promotors" /id="U1019" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.943056943056943" /psig="0.998001998001998" /xcortree=469 /SigmaFactorBS="ttgcggttagccgaaattcgacaattgcggttattttgcgTT CTTCTTtttcttgtaaaTATGATAAAATATGACATATctcgggtaattcaaaaggggg g" /listShort="rapA, phrA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1315822..1315841 /Source="Nicolas_upshift_promotors" /id="U1019" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.943056943056943" /psig="0.998001998001998" /xcortree=469 /SigmaFactorBS="ttgcggttagccgaaattcgacaattgcggttattttgcgTT CTTCTTtttcttgtaaaTATGATAAAATATGACATATctcgggtaattcaaaaggggg g" /listShort="rapA, phrA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1315823 /Source="Nicolas_upshifts" /id="U1019" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.943056943056943" /psig="0.998001998001998" /xcortree=469 /SigmaFactorBS="ttgcggttagccgaaattcgacaattgcggttattttgcgTT CTTCTTtttcttgtaaaTATGATAAAATATGACATATctcgggtaattcaaaaggggg g" /listShort="rapA, phrA" /GFF_Attribute="listLong" upshifts complement(1315846) /Source="Nicolas_upshifts" /id="U1020" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.996003996003996" /psig="0.001998001998002" /xcortree=720 /SigmaFactorBS="ccgacataagaggacggaatcgtctgcttcaTCCTCaattaa tcCCCCCTTTTGAATTAcccgagatatgtcatattttatcatatttacaagaaaaaga a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-10 complement(1315848..1315862) /Source="Nicolas_upshift_promotors" /id="U1020" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.996003996003996" /psig="0.001998001998002" /xcortree=720 /SigmaFactorBS="ccgacataagaggacggaatcgtctgcttcaTCCTCaattaa tcCCCCCTTTTGAATTAcccgagatatgtcatattttatcatatttacaagaaaaaga a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" CDS 1315869..1317005 /gene="rapA" /locus_tag="BSU_12430" /old_locus_tag="BSU12430" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11587784, 15805512, 15916600, 22267516, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11587784, 15805512, 15916600, 22267516, 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="response regulator aspartate phosphatase" /protein_id="NP_389125.1" /db_xref="EnsemblGenomes-Gn:BSU12430" /db_xref="EnsemblGenomes-Tr:CAB13100" /db_xref="GOA:Q00828" /db_xref="InterPro:IPR011990" /db_xref="InterPro:IPR013026" /db_xref="InterPro:IPR019734" /db_xref="SubtiList:BG10652" /db_xref="UniProtKB/Swiss-Prot:Q00828" /translation="MRMKQTIPSSYVGLKINEWYTHIRQFHVAEAERVKLEVEREIED MEEDQDLLLYYSLMEFRHRVMLDYIKPFGEDTSQLEFSELLEDIEGNQYKLTGLLEYY FNFFRGMYEFKQKMFVSAMMYYKRAEKNLALVSDDIEKAEFAFKMAEIFYNLKQTYVS MSYAVQALETYQMYETYTVRRIQCEFVIAGNYDDMQYPERALPHLELALDLAKKEGNP RLISSALYNLGNCYEKMGELQKAAEYFGKSVSICKSEKFDNLPHSIYSLTQVLYKQKN DAEAQKKYREGLEIARQYSDELFVELFQFLHALYGKNIDTESVSHTFQFLEEHMLYPY IEELAHDAAQFYIENGQPEKALSFYEKMVHAQKQIQRGDCLYEI*" gene 1315869..1317005 /gene="rapA" /locus_tag="BSU_12430" /old_locus_tag="BSU12430" promotor_-35 complement(1315871..1315875) /Source="Nicolas_upshift_promotors" /id="U1020" /multdbtbs="-" /comp="M15" /sig="Sig-" /pcomp="0.996003996003996" /psig="0.001998001998002" /xcortree=720 /SigmaFactorBS="ccgacataagaggacggaatcgtctgcttcaTCCTCaattaa tcCCCCCTTTTGAATTAcccgagatatgtcatattttatcatatttacaagaaaaaga a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 1316995..1317129 /gene="phrA" /locus_tag="BSU_12440" /old_locus_tag="BSU12440" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:1378051, 10629174, 11587784, 16816200, 17666034, 19380751, 20238180, 22267516" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1378051, 10629174, 11587784, 16816200, 17666034, 19380751, 20238180, 22267516; Product type f: factor" /codon_start=1 /transl_table=11 /product="secreted inhibitor of the activity of phosphatase RapA (quorum sensing)" /protein_id="NP_389126.1" /db_xref="EnsemblGenomes-Gn:BSU12440" /db_xref="EnsemblGenomes-Tr:CAB13101" /db_xref="SubtiList:BG10653" /db_xref="UniProtKB/Swiss-Prot:Q00829" /translation="MKSKWMSGLLLVAVGFSFTQVMVHAGETANTEGKTFHIAARNQT *" gene 1316995..1317129 /gene="phrA" /locus_tag="BSU_12440" /old_locus_tag="BSU12440" downshifts 1317127 /Source="Nicolas_upshifts" /id="D689" /incds=0 /nref=257 /ntot=265 /MaxReadThrough="2.54197" /MaxDrop="9.28084" /score="10.6385823" /energy="-17" /TU="U1019" /idTUdmin="U1019" /TUdmin="-22" /isTUend="TRUE" CDS complement(1317157..1317414) /gene="yjpA" /locus_tag="BSU_12450" /old_locus_tag="BSU12450" /function="18.1: Enzymes of unknown specificity" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15779043; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative enzyme" /protein_id="NP_389127.2" /db_xref="EnsemblGenomes-Gn:BSU12450" /db_xref="EnsemblGenomes-Tr:CAB13102" /db_xref="InterPro:IPR005545" /db_xref="InterPro:IPR011008" /db_xref="SubtiList:BG13217" /db_xref="UniProtKB/Swiss-Prot:O34446" /translation="MYTYLMLTMRTEKFNQEHVAGHYEFLDRLQAEKRLKMFGPFSDA TGGAYVIEADSLEEAAEIGHADPLVASGSSELTIKEWKLKK*" gene complement(1317157..1317414) /gene="yjpA" /locus_tag="BSU_12450" /old_locus_tag="BSU12450" downshifts complement(1317178) /Source="Nicolas_upshifts" /id="D690" /incds=0 /nref=201 /ntot=255 /MaxReadThrough="0.7939" /MaxDrop="6.43836" /score="0.0520712077" /energy="-3.2" /TU="NA" /idTUdmin="U1021" /TUdmin=0 /isTUend="TRUE" misc_feature complement(1317428..1317447) /Source="Nicolas_upshift_promotors" /id="U1021" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.97902097902098" /psig=1 /xcortree=3193 /SigmaFactorBS="ggtggcattcgtaggacgaaaagctcatatcatctatcaccg taatatggataaaTGTGTTAAACTGAAGTTCACggagggtctgaatatgtatacatat t" /listShort="yjpA" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(1317442) /Source="Nicolas_upshifts" /id="U1021" /multdbtbs="-" /comp="M4" /sig="SigA" /pcomp="0.97902097902098" /psig=1 /xcortree=3193 /SigmaFactorBS="ggtggcattcgtaggacgaaaagctcatatcatctatcaccg taatatggataaaTGTGTTAAACTGAAGTTCACggagggtctgaatatgtatacatat t" /listShort="yjpA" /GFF_Attribute="listLong" misc_feature 1317486..1317504 /Source="Nicolas_upshift_promotors" /id="U1022" /multdbtbs="-" /comp="M12" /sig="Sig-" /pcomp=1 /psig=0 /xcortree=1524 /SigmaFactorBS="agtttaacacatttatccatattacggtgatagatgatatga gcttttcGTCCTACGAATGCCACCTAtttatgaaaaaagaaaaggagagatgataggt g" /listShort="xlyB" /listLong="yjqB, yjqC" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 1317497 /Source="Nicolas_upshifts" /id="U1022" /multdbtbs="-" /comp="M12" /sig="Sig-" /pcomp=1 /psig=0 /xcortree=1524 /SigmaFactorBS="agtttaacacatttatccatattacggtgatagatgatatga gcttttcGTCCTACGAATGCCACCTAtttatgaaaaaagaaaaggagagatgataggt g" /listShort="xlyB" /listLong="yjqB, yjqC" CDS 1317535..1318488 /gene="xlyB" /locus_tag="BSU_12460" /old_locus_tag="BSU12460" /EC_number="3.5.1.28" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:8760915, 9555893" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8760915, 9555893; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; N-acetylmuramoyl-L-alanine amidase" /protein_id="NP_389128.1" /db_xref="EnsemblGenomes-Gn:BSU12460" /db_xref="EnsemblGenomes-Tr:CAB13103" /db_xref="GOA:O34391" /db_xref="InterPro:IPR002477" /db_xref="InterPro:IPR002502" /db_xref="InterPro:IPR018392" /db_xref="InterPro:IPR036365" /db_xref="InterPro:IPR036366" /db_xref="InterPro:IPR036505" /db_xref="InterPro:IPR036779" /db_xref="SubtiList:BG12699" /db_xref="UniProtKB/Swiss-Prot:O34391" /translation="MSIPVKKNLVSEAKYALKCPNAMSAEYITIHNTANDASAANEIS YMIGNTSSTSFHFAVDDQEVIQGLPLNRNAWHTGDGTNGPGNRKSIGVEICYSKSGGP KYEAAEALAISFVAQLLKERGWGIDRVRKHQDWSGKYCPHRILSEGRWDQVKAAIEKE LNGGVSAKKAAVSSSASEYHVKKGDTLSGIAASHGASVKTLQSINHITDPNHIKIGQV IKLPQTASASKSHAASSYPLPSGVIKVTSPLTQGTKVKQVQTALAALYFYPDKGAKNH GVDGVYGPKTANAVKRFQSVSGLTADGIYGPKTKAKMEEKL*" gene 1317535..1318488 /gene="xlyB" /locus_tag="BSU_12460" /old_locus_tag="BSU12460" promotor_no_box 1318383..1318483 /Source="Nicolas_upshift_promotors" /id="U1023" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.543456543456543" /psig="0.013986013986014" /xcortree=1484 /SigmaFactorBS="cccgaaaacagctaatgcagtgaaacgttttcagtctgtcag cggtttaacggctgatgggatttacggtccgaaaacgaaagcgaagatggaggaaaag c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts 1318443 /Source="Nicolas_upshifts" /id="U1023" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.543456543456543" /psig="0.013986013986014" /xcortree=1484 /SigmaFactorBS="cccgaaaacagctaatgcagtgaaacgttttcagtctgtcag cggtttaacggctgatgggatttacggtccgaaaacgaaagcgaagatggaggaaaag c" /GFF_Attribute="listShort" /GFF_Attribute="listLong" downshifts 1318492 /Source="Nicolas_upshifts" /id="D691" /incds=0 /nref=8 /ntot=146 /MaxReadThrough="3.91295" /MaxDrop="4.29119" /score="10.6385823" /energy="-17" /TU="U1022" /idTUdmin="U1023" /TUdmin="-17" /isTUend="TRUE" downshifts complement(1318497) /Source="Nicolas_upshifts" /id="D692" /incds=0 /nref=2 /ntot=163 /MaxReadThrough="2.88318" /MaxDrop="3.60856" /score="14.6077768" /energy="-16" /TU="U1024" /idTUdmin="U1024" /TUdmin="-22" /isTUend="TRUE" CDS complement(1318528..1318905) /gene="yjqA" /locus_tag="BSU_12470" /old_locus_tag="BSU12470" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="NP_389129.1" /db_xref="EnsemblGenomes-Gn:BSU12470" /db_xref="EnsemblGenomes-Tr:CAB13104" /db_xref="InterPro:IPR011993" /db_xref="InterPro:IPR012544" /db_xref="InterPro:IPR037063" /db_xref="SubtiList:BG13218" /db_xref="UniProtKB/Swiss-Prot:O34593" /translation="MGFIDGLLGNASTLSTAAVQEELAHILLEGEKVEAAFKLVRDLI VFTDKRLILVDKQGITGKKTEFQSIPYKSISRFSVETAGRFDLDSELKIWISGAELPA VSKQFKKDESIYDIQKVLAAVCM*" gene complement(1318528..1318905) /gene="yjqA" /locus_tag="BSU_12470" /old_locus_tag="BSU12470" promotor_-10 complement(1318925..1318944) /Source="Nicolas_upshift_promotors" /id="U1024" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.304695304695305" /psig="0.993006993006993" /xcortree=2203 /SigmaFactorBS="cccctttaccagtcagcaccagtttactctactcatCTATGA AtgaaaacctttttTATAGTATGATTTGATAGAAtacgcagaggaggtatatgatggg g" /listShort="yjqA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1318940) /Source="Nicolas_upshifts" /id="U1024" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.304695304695305" /psig="0.993006993006993" /xcortree=2203 /SigmaFactorBS="cccctttaccagtcagcaccagtttactctactcatCTATGA AtgaaaacctttttTATAGTATGATTTGATAGAAtacgcagaggaggtatatgatggg g" /listShort="yjqA" /GFF_Attribute="listLong" promotor_-35 1318950..1318954 /Source="Nicolas_upshift_promotors" /id="U1025" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.522477522477522" /psig="0.993006993006993" /xcortree=2682 /SigmaFactorBS="tcctctgcgtattctatcaaatcatactataaaaaaGGTTTt cattcatagatgagTAGAGTAAACTGGTGCTGACtggtaaaggggggcgttcaagatg g" /listShort="yjqB, yjqC" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 complement(1318958..1318964) /Source="Nicolas_upshift_promotors" /id="U1024" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.304695304695305" /psig="0.993006993006993" /xcortree=2203 /SigmaFactorBS="cccctttaccagtcagcaccagtttactctactcatCTATGA AtgaaaacctttttTATAGTATGATTTGATAGAAtacgcagaggaggtatatgatggg g" /listShort="yjqA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1318970..1318989 /Source="Nicolas_upshift_promotors" /id="U1025" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.522477522477522" /psig="0.993006993006993" /xcortree=2682 /SigmaFactorBS="tcctctgcgtattctatcaaatcatactataaaaaaGGTTTt cattcatagatgagTAGAGTAAACTGGTGCTGACtggtaaaggggggcgttcaagatg g" /listShort="yjqB, yjqC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1318974 /Source="Nicolas_upshifts" /id="U1025" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.522477522477522" /psig="0.993006993006993" /xcortree=2682 /SigmaFactorBS="tcctctgcgtattctatcaaatcatactataaaaaaGGTTTt cattcatagatgagTAGAGTAAACTGGTGCTGACtggtaaaggggggcgttcaagatg g" /listShort="yjqB, yjqC" /GFF_Attribute="listLong" CDS 1319011..1319613 /gene="pghB" /locus_tag="BSU_12480" /old_locus_tag="BSU12480" /EC_number="3.4.19.-" /function="16.5: Explore" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); PubMedId: 8760915, 15466572, 26158264; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; gamma-polyglutamate hydrolase" /protein_id="NP_389130.1" /db_xref="EnsemblGenomes-Gn:BSU12480" /db_xref="EnsemblGenomes-Tr:CAB13105" /db_xref="InterPro:IPR008585" /db_xref="SubtiList:BG13219" /db_xref="UniProtKB/Swiss-Prot:O34785" /translation="MEDMYDSFAALSASESEYRIIYEEKNGSELIVLGPHGGRIEPGV SELVRAFSDRCSIYLFEGLKQRNNRSLHLTSIRFDEPLALEKVNDHHYALAFHGYYDP KIPHTLVGGADRKKAKLICERLNEAGFSAELTNEKDRLAGVHPNNIVNRTKREMGLQL EVSTAQRNALFRNFGCRDKSYIQNDLFDRYVEAVKLGFYT*" gene 1319011..1319613 /gene="pghB" /locus_tag="BSU_12480" /old_locus_tag="BSU12480" promotor_-35 1319625..1319634 /Source="Nicolas_upshift_promotors" /id="U1026" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1363 /SigmaFactorBS="cttggcttttatacataaaactagacgggACCTGCACGGttg gcctattccTTCATACGCTGGGGTTGTGCgaaagtgtggggaggaatgattcatgttt t" /listShort="yjqC" /GFF_Attribute="listLong" /label="promotor_-35" S_feature complement(1319640..1320569) /Source="Nicolas_S_feature" /locus_tag="new_1319640_1320569_c" /HighExp="M40t90, M40t45, H2O2, Cold, LBGstat, Etha, Sw, T0.30H, Heat, T1.0H" /AntisenseName="yjqC" /AntisenseCor="-0.110813865274572" /AntisenseRegPval="-1.2" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S454" promotor_-10 1319647..1319666 /Source="Nicolas_upshift_promotors" /id="U1026" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1363 /SigmaFactorBS="cttggcttttatacataaaactagacgggACCTGCACGGttg gcctattccTTCATACGCTGGGGTTGTGCgaaagtgtggggaggaatgattcatgttt t" /listShort="yjqC" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1319656 /Source="Nicolas_upshifts" /id="U1026" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=1363 /SigmaFactorBS="cttggcttttatacataaaactagacgggACCTGCACGGttg gcctattccTTCATACGCTGGGGTTGTGCgaaagtgtggggaggaatgattcatgttt t" /listShort="yjqC" /GFF_Attribute="listLong" CDS 1319690..1320526 /gene="xpdC" /locus_tag="BSU_12490" /old_locus_tag="BSU12490" /EC_number="1.11.1.-" /function="16.5: Explore" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 8760915, 15466572, 22752169, 27362423; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; manganese-containing peroxidase" /protein_id="NP_389131.2" /db_xref="EnsemblGenomes-Gn:BSU12490" /db_xref="EnsemblGenomes-Tr:CAB13106" /db_xref="GOA:O34423" /db_xref="InterPro:IPR007760" /db_xref="InterPro:IPR009078" /db_xref="InterPro:IPR012347" /db_xref="InterPro:IPR027407" /db_xref="SubtiList:BG13220" /db_xref="UniProtKB/Swiss-Prot:O34423" /translation="MFYHIKELQYQAKPAHPDPVYAKKLQEVLGGQFGEISVMMQYLF QGFNCRADAKYKDLLYDVGTEEIGHVEMLATMISRLLDNAPADVQEDAYKSNPAIAAV MSGMNPQHAIVSGLGAMASDSEGYPWNAKYIISSGNLLADFRANLNAEAQGRLQVTRL YAMTDDPGVRDMLSFLIARDTYHQNMWYAAIKELEERERDIVVPTTFPRELEKQEVSY DLFNFSRGDESSQGRWAHGEAFDGRGEFRYIPAPIAFASAPHLKPAPMWLHNTVPPMS KC*" gene 1319690..1320526 /gene="xpdC" /locus_tag="BSU_12490" /old_locus_tag="BSU12490" downshifts 1320514 /Source="Nicolas_upshifts" /id="D693" /incds=0 /nref=4 /ntot=53 /MaxReadThrough="2.02835" /MaxDrop="3.83938" /score="0.0878183333" /energy="-20.1" /TU="NA" /idTUdmin="U1026" /TUdmin=0 /isTUend="TRUE" CDS complement(1320570..1321166) /gene="xkdA" /locus_tag="BSU_12500" /old_locus_tag="BSU12500" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:8760915, 16267290, 22933559" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8760915, 16267290, 22933559; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; putative peptidase" /protein_id="NP_389132.3" /db_xref="EnsemblGenomes-Gn:BSU12500" /db_xref="EnsemblGenomes-Tr:CAB13107" /db_xref="InterPro:IPR010359" /db_xref="SubtiList:BG10993" /db_xref="UniProtKB/Swiss-Prot:P39780" /translation="MGDYLSHLEEYVKNLYGRLGITSPHHIDMLKIAKDLDIWVHFED MGSMMVKYDGMYSIVLNQKKSREEQWEDFGHELCHVLKHAGNHFQMNKLFRELQEFQA NQFMYHFCVPTFMLLQMELPQWRSQALATIAAVFRVTKEFADKRLDMFERRKAGIQFQ KRLAYLLSHKRPNAYEEGDQQHLQVAEEKALYHIGKNI*" gene complement(1320570..1321166) /gene="xkdA" /locus_tag="BSU_12500" /old_locus_tag="BSU12500" S_feature complement(1321205..1321328) /Source="Nicolas_S_feature" /locus_tag="new_1321205_1321328_c" /HighExp="HiTm, MG 10, MG 5, MG-0.1, MG 25, GM 120, MG 45, GM 15, Lbtran, LBGstat" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.999" /TUlongSig="NA" /TUlongPSig="NA" /label="S455" downshifts complement(1321248) /Source="Nicolas_upshifts" /id="D694" /incds=0 /nref=10 /ntot=151 /MaxReadThrough="4.55391" /MaxDrop="3.62157" /score="-8.64059763" /energy="-7.9" /TU="U1027" /idTUdmin="U1027" /TUdmin="-1582" /isTUend="FALSE" CDS complement(1321329..1321670) /gene="xre" /locus_tag="BSU_12510" /old_locus_tag="BSU12510" /function="16.3: Control" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:8083175, 20889742" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8083175, 20889742; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX transcriptional regulator" /protein_id="NP_389133.1" /db_xref="EnsemblGenomes-Gn:BSU12510" /db_xref="EnsemblGenomes-Tr:CAB13108" /db_xref="GOA:P23789" /db_xref="InterPro:IPR001387" /db_xref="InterPro:IPR010982" /db_xref="SubtiList:BG10994" /db_xref="UniProtKB/Swiss-Prot:P23789" /translation="MIGGRLKSLRGKRTQEEIASHIGVSRARYSHYENGRSEPDYDTL QKLADYFQVTTDYLLTGKDKKSDDDMFSDPDLQLAYRDMQDFSPESKQQAIEFINYLK EKEKNRKPKNK*" gene complement(1321329..1321670) /gene="xre" /locus_tag="BSU_12510" /old_locus_tag="BSU12510" promotor_-10 complement(1321702..1321721) /Source="Nicolas_upshift_promotors" /id="U1027" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.448551448551449" /psig="0.999000999001" /xcortree=3029 /SigmaFactorBS="tcaagttatttttgatactttttttatcataaCTTTATTttg atacattttGTATCTATAATCATAAGTAAcgtagggagtttaaaaaagagaggtcata g" /listShort="xre, S455, xkdA, S454" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1321712) /Source="Nicolas_upshifts" /id="U1027" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.448551448551449" /psig="0.999000999001" /xcortree=3029 /SigmaFactorBS="tcaagttatttttgatactttttttatcataaCTTTATTttg atacattttGTATCTATAATCATAAGTAAcgtagggagtttaaaaaagagaggtcata g" /listShort="xre, S455, xkdA, S454" /GFF_Attribute="listLong" promotor_-35 complement(1321734..1321740) /Source="Nicolas_upshift_promotors" /id="U1027" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.448551448551449" /psig="0.999000999001" /xcortree=3029 /SigmaFactorBS="tcaagttatttttgatactttttttatcataaCTTTATTttg atacattttGTATCTATAATCATAAGTAAcgtagggagtttaaaaaagagaggtcata g" /listShort="xre, S455, xkdA, S454" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1321768..1321771 /Source="Nicolas_upshift_promotors" /id="U1028" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.811188811188811" /psig=1 /xcortree=1519 /SigmaFactorBS="tcaaaataaagttatgataaaaaaagtatcaaaaataaCTTG atgatacagaatgtATCGTTTATACTTGGTAACAtccgatacaaaatgtatcaaaaaa g" /listShort="yjzJ" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1321786..1321805 /Source="Nicolas_upshift_promotors" /id="U1028" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.811188811188811" /psig=1 /xcortree=1519 /SigmaFactorBS="tcaaaataaagttatgataaaaaaagtatcaaaaataaCTTG atgatacagaatgtATCGTTTATACTTGGTAACAtccgatacaaaatgtatcaaaaaa g" /listShort="yjzJ" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1321790 /Source="Nicolas_upshifts" /id="U1028" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.811188811188811" /psig=1 /xcortree=1519 /SigmaFactorBS="tcaaaataaagttatgataaaaaaagtatcaaaaataaCTTG atgatacagaatgtATCGTTTATACTTGGTAACAtccgatacaaaatgtatcaaaaaa g" /listShort="yjzJ" /GFF_Attribute="listLong" CDS 1321848..1322027 /gene="yjzJ" /locus_tag="BSU_12519" /old_locus_tag="BSU12519" /function="18: Unknown function" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="YP_003097711.1" /db_xref="EnsemblGenomes-Gn:BSU12519" /db_xref="EnsemblGenomes-Tr:CAX52601" /db_xref="UniProtKB/Swiss-Prot:C0H3Z4" /translation="MYPIQIVFSENPIDQRHLGQSGGTISFTACGLPVFHFETQEQFQ AYMMLKGEAAYNEKR*" gene 1321848..1322027 /gene="yjzJ" /locus_tag="BSU_12519" /old_locus_tag="BSU12519" CDS 1322014..1322850 /gene="xkdB" /locus_tag="BSU_12520" /old_locus_tag="BSU12520" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="NP_389134.2" /db_xref="EnsemblGenomes-Gn:BSU12520" /db_xref="EnsemblGenomes-Tr:CAB13109" /db_xref="GOA:P39781" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG10995" /db_xref="UniProtKB/Swiss-Prot:P39781" /translation="MKNDKSYPFPTYSGLLNSEHYDKIGPALWLFLWFISSTTKEIEK DGVSWGIVLGHKPLKAREMAAVFGVSEKTVRRWLELLENHDYIKAVRAPYGLMISVKH SKKFSFRSDNTVHGSLKERPFSPQTPDTNDRTDIDKTNKYTAADDAVDHIAKRFTQLR SAQEGRTVYPSSRDYQAIARIVAIGVPVTQTIKWLEECFQAFENRRTAASETIKAFRY CSKFIEDRFFAQQAKKNAAIQHERMKKHDKTNNRTDFGRAEKRETSITGGQTGRIRRK QV*" gene 1322014..1322850 /gene="xkdB" /locus_tag="BSU_12520" /old_locus_tag="BSU12520" CDS 1322750..1323550 /gene="xkdC" /locus_tag="BSU_12530" /old_locus_tag="BSU12530" /function="18: Unknown function" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type h : extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; putative DNA binding protein" /protein_id="NP_389135.2" /db_xref="EnsemblGenomes-Gn:BSU12530" /db_xref="EnsemblGenomes-Tr:CAB13110" /db_xref="GOA:P39782" /db_xref="InterPro:IPR002611" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG10996" /db_xref="UniProtKB/Swiss-Prot:P39782" /translation="MTKRTIEQILDELRRGRRPLLADKPAESDASRYDCLRCKDQGGY LVRQNGLEVWTMCSCMAERKVKRLLGASEITHAFRQLGFKEFRTEGKPQAIKDAFECT KEYVADYEQIKDCRKNSIALLGQPGSGKTHLLTAAANELMRTCYVPVIYFPFVEGFTD LKNDFALLEAKLNRMKQADVLFIDDLFKPVNGKPRATDWQLEQMYSVLNYRYLNHKPI LLSSELTIEGLVRVDEALGTRIYEMCSDYLVIIKGAAYELNHRLEGVR*" gene 1322750..1323550 /gene="xkdC" /locus_tag="BSU_12530" /old_locus_tag="BSU12530" CDS 1323550..1323717 /gene="ykzK" /locus_tag="BSU_12539" /old_locus_tag="BSU12539" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="YP_003097712.1" /db_xref="EnsemblGenomes-Gn:BSU12539" /db_xref="EnsemblGenomes-Tr:CAX52602" /db_xref="UniProtKB/Swiss-Prot:C0H3Z5" /translation="MCKLCQTKKVIVEHTGIGVVFHPCPNCRSGTDLTPVIQKLEQML TAGKARLNIYD*" gene 1323550..1323717 /gene="ykzK" /locus_tag="BSU_12539" /old_locus_tag="BSU12539" CDS 1323802..1324152 /gene="xkdD" /locus_tag="BSU_12540" /old_locus_tag="BSU12540" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="NP_389136.1" /db_xref="EnsemblGenomes-Gn:BSU12540" /db_xref="EnsemblGenomes-Tr:CAB13111" /db_xref="SubtiList:BG10997" /db_xref="UniProtKB/Swiss-Prot:P39783" /translation="MKVLAKTKQAEKSPAPWRAVPCGDTKPIYIYSAYSEEEKERFPY SNGRLIAAVFDLSSYSQKSNASLMAAAPELLEASKAALDFLKGNSIHSKERIIQLLEK AEASAAPKRGGNKT*" gene 1323802..1324152 /gene="xkdD" /locus_tag="BSU_12540" /old_locus_tag="BSU12540" CDS 1324149..1324355 /gene="xtrA" /locus_tag="BSU_12550" /old_locus_tag="BSU12550" /experiment="publication(s) with functional evidences, PMID:8760915" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8760915; Product type h : extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved protein of unknown function" /protein_id="NP_389137.1" /db_xref="EnsemblGenomes-Gn:BSU12550" /db_xref="EnsemblGenomes-Tr:CAB13112" /db_xref="InterPro:IPR035530" /db_xref="SubtiList:BG11559" /db_xref="UniProtKB/Swiss-Prot:P54344" /translation="MIHPKKLLHIDSVTLKSQLEDGKIRVIIVDGIKQEAWITEAPEH GKTLVETRKGDLARVEFEIGYKLN*" gene 1324149..1324355 /gene="xtrA" /locus_tag="BSU_12550" /old_locus_tag="BSU12550" CDS 1324471..1324980 /gene="xpf" /locus_tag="BSU_12560" /old_locus_tag="BSU12560" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 8083174, 25176138; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; putative RNA polymerase PBSX sigma factor-like" /protein_id="NP_389138.1" /db_xref="EnsemblGenomes-Gn:BSU12560" /db_xref="EnsemblGenomes-Tr:CAB13113" /db_xref="GOA:P39784" /db_xref="InterPro:IPR013249" /db_xref="InterPro:IPR013324" /db_xref="InterPro:IPR014284" /db_xref="InterPro:IPR036388" /db_xref="SubtiList:BG10998" /db_xref="UniProtKB/Swiss-Prot:P39784" /translation="MQDLLFEYKRTLKQTRIQYKPLAEADESVLSAEELKDKKIIRNM ITDLEYVTEWLEKGRQPGIRRAIDRRDVYQRLMIKDPRIIESFSSAMMFEPDGQVSEE DRDRIREALALLTDREKEMFLLHKVECFSYERIADLLGVKKSTVQTTIKRASLKMQRQ QEEMNRSLA*" gene 1324471..1324980 /gene="xpf" /locus_tag="BSU_12560" /old_locus_tag="BSU12560" misc_feature 1324987..1325005 /Source="Nicolas_upshift_promotors" /id="U1029" /multdbtbs="-" /comp="M12" /sig="Sig-" /pcomp=1 /psig=0 /xcortree=1522 /SigmaFactorBS="agacagcaggaagaaatgaatcgatcacttgcctgaaagctt GTCATACGTTTGCCACCTAtaagtgaatagagcatgacactaagcggctggctgatca g" /listShort="S456, xtmA, xtmB, xkdE, xkdF, xkdG, ykzL, xkdH, xkdI, xkdJ, ykzM, xkdK, xkdM, S457, xkdN, xkzB, xkdO, xkdP, xkdQ, xkdR, xkdS, xkdT, xkdU, xkzA, xkdV, xkdW, xkdX, xepA, xhlA, xhlB, xlyA" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" S_feature 1325005..1325095 /Source="Nicolas_S_feature" /locus_tag="new_1325005_1325095" /HighExp="HPh, M40t90, LPh, MG 120, MG 150, MG 90, LBGexp, MG 60, dia0, Lbexp" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.467804" /TUshortSig="Sig-" /TUshortPSig=0 /TUlongSig="NA" /TUlongPSig="NA" /label="S456" upshifts 1325005 /Source="Nicolas_upshifts" /id="U1029" /multdbtbs="-" /comp="M12" /sig="Sig-" /pcomp=1 /psig=0 /xcortree=1522 /SigmaFactorBS="agacagcaggaagaaatgaatcgatcacttgcctgaaagctt GTCATACGTTTGCCACCTAtaagtgaatagagcatgacactaagcggctggctgatca g" /listShort="S456, xtmA, xtmB, xkdE, xkdF, xkdG, ykzL, xkdH, xkdI, xkdJ, ykzM, xkdK, xkdM, S457, xkdN, xkzB, xkdO, xkdP, xkdQ, xkdR, xkdS, xkdT, xkdU, xkzA, xkdV, xkdW, xkdX, xepA, xhlA, xhlB, xlyA" /GFF_Attribute="listLong" CDS 1325096..1325893 /gene="xtmA" /locus_tag="BSU_12570" /old_locus_tag="BSU12570" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 8083174; Product type h : extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; prophage terminase (small subunit)" /protein_id="NP_389139.1" /db_xref="EnsemblGenomes-Gn:BSU12570" /db_xref="EnsemblGenomes-Tr:CAB13114" /db_xref="GOA:P39785" /db_xref="InterPro:IPR005335" /db_xref="InterPro:IPR018925" /db_xref="SubtiList:BG10999" /db_xref="UniProtKB/Swiss-Prot:P39785" /translation="MKTQQREQALAIYQQHQGKITNRAIADTIGVSAKTIGIWKKQDK WKEALFSASKNEQKQRPINNDELNERQRLFCLYYVKSFNATQSAIKAGYSPDSAHVTG SRLLKNEKVAAEIRRIKKEMVNEMFIEAMDVLQVYIKIAFADITDYVTFGKKEVQAVG KSGPLFDEDDNPIMKEISFVDVKDSGLVDGTIVTEAKLGKEGIAIKLADKMKALEKLS LYFDLFPDQFKQKIENEKLKLAKQKAEKTDDSQEPIEIMIKRKERKS*" gene 1325096..1325893 /gene="xtmA" /locus_tag="BSU_12570" /old_locus_tag="BSU12570" CDS 1325890..1327191 /gene="xtmB" /locus_tag="BSU_12580" /old_locus_tag="BSU12580" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); PubMedId: 17945256, 19347993; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; prophage terminase (large subunit)" /protein_id="NP_389140.1" /db_xref="EnsemblGenomes-Gn:BSU12580" /db_xref="EnsemblGenomes-Tr:CAB13115" /db_xref="GOA:P39786" /db_xref="InterPro:IPR006437" /db_xref="InterPro:IPR035412" /db_xref="InterPro:IPR035413" /db_xref="SubtiList:BG11000" /db_xref="UniProtKB/Swiss-Prot:P39786" /translation="MIVKEINPHFEDYVFNWEQTYQFLVGGYGSSKSYHTALKIVLKL LKEKRTALVIREVFDTHRDSTFALFQEVIEELGLTKAVASLSSPLQLRFHNGSRIMFK GMDNPAKLKSVHNISLIWIEECSEVKYEGFKELIGRLRHPELKLHMICTTNPVGTSNW TYRHFFRDERKKRFVLDDSELYEKRTIVKGDTYYHHSTANDNLFLPESYVKQLDGLKE YDPDLYRIARKGRFGVNGIRVLPQFEVLPHDQVKKCIAAISKPIFRTGMDFGFEESYN AVVRLAVDPEKKYLYIYWEYYQNKMTDDRTAEELREFIETQELIKADSAEPKSIQYFR QQGFRMVGARKFPGSRLQYTKKVKRFKKIFCSDRCENVIYELETLTYAKDKNGALIED EFTIDPHTLSAIWYALDDYEVADMKETAHKRMRPNRERRRS*" gene 1325890..1327191 /gene="xtmB" /locus_tag="BSU_12580" /old_locus_tag="BSU12580" CDS 1327195..1328682 /gene="xkdE" /locus_tag="BSU_12590" /old_locus_tag="BSU12590" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); PubMedId: 23027764, 23419885; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; phage capsid portal protein" /protein_id="NP_389141.2" /db_xref="EnsemblGenomes-Gn:BSU12590" /db_xref="EnsemblGenomes-Tr:CAB13116" /db_xref="InterPro:IPR006430" /db_xref="InterPro:IPR006944" /db_xref="InterPro:IPR016753" /db_xref="SubtiList:BG11540" /db_xref="UniProtKB/Swiss-Prot:P54325" /translation="MHNQTVRATVFKANAAAPQTKQIYEDDFSELYGEDIIAPPYNII ELKTIAEYSTILQQCIDAYRVNITGFGFDVEYTFDVNASDVDQAKKKRAEKDWARLEA FYKCLHFDESAEMILGYAIEDREKTGNGFMEVLRDGAGKPAGIEYLDVKYMRVCGAGE PVEVSFVYEENGKMKRIKRQKRFRKYVQMINGKKVFFKEYGDPRKMDIRTGEYVNTLA EKYQANEAIHLKIGSGVYGVPRWIGNIVNLYGARKAEELNFMYFKQGRHVPAAITVEN GMLSEASYRELQEYMNDLEGVENAHKFLLIEAEGIAKEKDLHGGEDITPVSVEIKSLA EILQNDALFLEYDEKSRNKLRSAFRLPPLYTGEAQEYNRATADTARKITEEQVFQPER KTLVNKLNTLLLPELNIHDVRLTLKGPDFRDPLEIAKVLGPFITAGAVSPNDLRDLAG RVLGKTLEEWPEDIYKRPAGQDAEKTNLAALMQELKESIEDIKTS*" gene 1327195..1328682 /gene="xkdE" /locus_tag="BSU_12590" /old_locus_tag="BSU12590" promotor_-35 1328204..1328213 /Source="Nicolas_upshift_promotors" /id="U1030" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1235 /SigmaFactorBS="gaaatcaaatctttggctgaaattcTCCAAAACGAcgccttg tttctTGAATACGATGAAAAAAGCAgaaataagctgcgttccgcgttccgtctccccc c" /listShort="xkdF, xkdG, ykzL, xkdH, xkdI, xkdJ, ykzM, xkdK, xkdM, S457, xkdN, xkzB, xkdO, xkdP, xkdQ, xkdR, xkdS, xkdT, xkdU, xkzA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1328226..1328245 /Source="Nicolas_upshift_promotors" /id="U1030" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1235 /SigmaFactorBS="gaaatcaaatctttggctgaaattcTCCAAAACGAcgccttg tttctTGAATACGATGAAAAAAGCAgaaataagctgcgttccgcgttccgtctccccc c" /listShort="xkdF, xkdG, ykzL, xkdH, xkdI, xkdJ, ykzM, xkdK, xkdM, S457, xkdN, xkzB, xkdO, xkdP, xkdQ, xkdR, xkdS, xkdT, xkdU, xkzA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1328239 /Source="Nicolas_upshifts" /id="U1030" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=1235 /SigmaFactorBS="gaaatcaaatctttggctgaaattcTCCAAAACGAcgccttg tttctTGAATACGATGAAAAAAGCAgaaataagctgcgttccgcgttccgtctccccc c" /listShort="xkdF, xkdG, ykzL, xkdH, xkdI, xkdJ, ykzM, xkdK, xkdM, S457, xkdN, xkzB, xkdO, xkdP, xkdQ, xkdR, xkdS, xkdT, xkdU, xkzA" /GFF_Attribute="listLong" CDS 1328702..1329529 /gene="xkdF" /locus_tag="BSU_12600" /old_locus_tag="BSU12600" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="NP_389142.2" /db_xref="EnsemblGenomes-Gn:BSU12600" /db_xref="EnsemblGenomes-Tr:CAB13117" /db_xref="InterPro:IPR027924" /db_xref="SubtiList:BG11541" /db_xref="UniProtKB/Swiss-Prot:P54326" /translation="MARELRNAKISFVSYVDKAANQTEFFFTKSAEPPSFEKKVRLFT KSEQDEQKLVYGIVYEPDVPDAHGDFMTAEEIEKAAHGFLAEAREIDINHSFEGGTGV VVESYVAPDDFMIGSKRITKGSWVLVTRASDEVWEQIKAGIITGYSMAGTADVYEEEP VEKAGFFSVFKQMLADKTGKETEEMRKEDMKESFEHALYPLLKRLERIEKNTDTEEKP EQTGDDERLKKLVEDMLAPLIERIEALEKARGASKQTADDTGGNTEQVKKSIWSGLL* " gene 1328702..1329529 /gene="xkdF" /locus_tag="BSU_12600" /old_locus_tag="BSU12600" CDS 1329555..1330490 /gene="xkdG" /locus_tag="BSU_12610" /old_locus_tag="BSU12610" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12897825; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; putative phage chromosome binding protein" /protein_id="NP_389143.1" /db_xref="EnsemblGenomes-Gn:BSU12610" /db_xref="EnsemblGenomes-Tr:CAB13118" /db_xref="GOA:P54327" /db_xref="InterPro:IPR024455" /db_xref="SubtiList:BG11542" /db_xref="UniProtKB/Swiss-Prot:P54327" /translation="MRNQEIIRKAEMSLSALKSGGLMNPAQASAFIRMVQNTPTIFSE SRVIQMENDSQKFEKIGFGQRILRAAQEGKALSNDELTVPTTSTVQLNTKEVIAEINI TYDTLENNIEKDGLQQTIMQILAERAAVDIEELIVNGDTASADPYLAQLDGIRKQAVS HIVDMNGEELSRATFKKGLKAVPPKYLRIPQEFRFYTSHGLEVEWKDRVADRQTNLGD QAVQGGLSTAFGVPVKGVSNIQPYTVGEGDAQYDASDIILTHPKNIILGFSRNIRIEV DKDIRSRKFIIVLTAKLDSKFEEEDACAKLINVKE*" gene 1329555..1330490 /gene="xkdG" /locus_tag="BSU_12610" /old_locus_tag="BSU12610" CDS 1330512..1330895 /gene="ykzL" /locus_tag="BSU_12619" /old_locus_tag="BSU12619" /function="18: Unknown function" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="YP_003097713.1" /db_xref="EnsemblGenomes-Gn:BSU12619" /db_xref="EnsemblGenomes-Tr:CAX52603" /db_xref="InterPro:IPR013514" /db_xref="InterPro:IPR036558" /db_xref="UniProtKB/Swiss-Prot:C0H3Z6" /translation="MLIEPTDVASYSVYDRVKNRPEELLAQDIIEAEAEAALITGHRF EDSLYDPLPGKVKLALVKLAQYFALVNSDESASSSYQYEKMGDYSYTVSGEGRIQRPE VYHLLEEFIKPGYVPESSRLKVRSL*" gene 1330512..1330895 /gene="ykzL" /locus_tag="BSU_12619" /old_locus_tag="BSU12619" CDS 1330892..1331248 /gene="xkdH" /locus_tag="BSU_12620" /old_locus_tag="BSU12620" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="NP_389144.1" /db_xref="EnsemblGenomes-Gn:BSU12620" /db_xref="EnsemblGenomes-Tr:CAB13119" /db_xref="InterPro:IPR024556" /db_xref="PDB:3F3B" /db_xref="SubtiList:BG11543" /db_xref="UniProtKB/Swiss-Prot:P54328" /translation="MSYRQMLIHRCDIYHEAAQAPSAGRFGIPADRLQPVISYPDTPD EQDVPCYFTEKTQQLIQEEPDQTVYHSFLVHFPLSADIRVNDKIIWENHKYILKLPKR IRHHHWEVVAVRDESL*" gene 1330892..1331248 /gene="xkdH" /locus_tag="BSU_12620" /old_locus_tag="BSU12620" CDS 1331245..1331730 /gene="xkdI" /locus_tag="BSU_12630" /old_locus_tag="BSU12630" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="NP_389145.1" /db_xref="EnsemblGenomes-Gn:BSU12630" /db_xref="EnsemblGenomes-Tr:CAB13120" /db_xref="InterPro:IPR010064" /db_xref="SubtiList:BG11544" /db_xref="UniProtKB/Swiss-Prot:P54329" /translation="MKIAGLKQLNTALKEAASGGFSRQASRWLEECGQDFLEIVQSEL ISTQTIDTEKLLSSFEKGAEDNLWIVQSGGLSLEVGTQLDYASFLNDGHWTSKQDVRW VPGRFQGSRFIYDPAASTGMALKRKWIPGTGYWDHALLLYEQLFEKSLESKLRQWLKK L*" gene 1331245..1331730 /gene="xkdI" /locus_tag="BSU_12630" /old_locus_tag="BSU12630" CDS 1331743..1332183 /gene="xkdJ" /locus_tag="BSU_12640" /old_locus_tag="BSU12640" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="NP_389146.1" /db_xref="EnsemblGenomes-Gn:BSU12640" /db_xref="EnsemblGenomes-Tr:CAB13121" /db_xref="SubtiList:BG11545" /db_xref="UniProtKB/Swiss-Prot:P54330" /translation="MNSETGSIMAFLYSRWSVPIYERELPDHFQVPSLYVPPPSVFEE TDTVSTFKKTYSLNVKLFHLDSVQALDEADRLADAIREARNMIPLLSESGEKTGDMVR ISQIETRVGDRGEAAMVIRWSSRYYYHKTEQPVLQDIDMNSGVK*" gene 1331743..1332183 /gene="xkdJ" /locus_tag="BSU_12640" /old_locus_tag="BSU12640" CDS 1332187..1332405 /gene="ykzM" /locus_tag="BSU_12649" /old_locus_tag="BSU12649" /function="17.2: Prophage functions" /function="18: Unknown function" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="YP_003097714.1" /db_xref="EnsemblGenomes-Gn:BSU12649" /db_xref="EnsemblGenomes-Tr:CAX52604" /db_xref="UniProtKB/Swiss-Prot:C0H3Z7" /translation="MSKDKQQKKAVHTKSREALFDTADLIKHAKELFGVKPDILQGAL FGVDQPRMTKSEANQLIQTFLTKEVMSS*" gene 1332187..1332405 /gene="ykzM" /locus_tag="BSU_12649" /old_locus_tag="BSU12649" CDS 1332402..1333802 /gene="xkdK" /locus_tag="BSU_12650" /old_locus_tag="BSU12650" /function="17.2: Prophage functions" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="NP_389147.2" /db_xref="EnsemblGenomes-Gn:BSU12650" /db_xref="EnsemblGenomes-Tr:CAB13122" /db_xref="InterPro:IPR020287" /db_xref="InterPro:IPR035089" /db_xref="InterPro:IPR035326" /db_xref="SubtiList:BG11546" /db_xref="UniProtKB/Swiss-Prot:P54331" /translation="MNGGTFTTGKEKERAGIYFNFKTTAQERVSLSERGTVALPVASS WGEAKTFVSISSVEDLNKKVGLSIDDPSLLLLREAKKNAKTVLMYRLTEGVRASADIA EGVKATAVYGGTKGNDIIIRINQNVLDANSFDVTTYMDESEVDKQTVKKAEELTANGY VTFTGTGDLSSTIPLTGSEGDTAAETLNASAGIRLSGGTDKAPVNSDYTDFLAAAETE SFDVIALPVAEGDQLKATFAAFIKRLRDGQGQKVQGVTANYAGDYEGIINVTEGVLLE DGTEVTPDKATAWVAGASAGATFNQSLTFVEYEGAVDVLHRLDHDTIVERLGKGEFLF TFDARDKSVSVEKDINSLVTFTAEKNKKFAKNKIVRVLDAVNNDLTRELKALIKSRKG SGSDIPASEDGLQYVKTMITQYMTTLQDAGGITGFDSDEDITISMNEDRDGFLIDLAV QPVDAAEKFYFNVEVN*" gene 1332402..1333802 /gene="xkdK" /locus_tag="BSU_12650" /old_locus_tag="BSU12650" CDS 1333804..1334247 /gene="xkdM" /locus_tag="BSU_12660" /old_locus_tag="BSU12660" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="NP_389148.1" /db_xref="EnsemblGenomes-Gn:BSU12660" /db_xref="EnsemblGenomes-Tr:CAB13123" /db_xref="InterPro:IPR018989" /db_xref="PDB:2GUJ" /db_xref="PDB:5LI2" /db_xref="SubtiList:BG11547" /db_xref="UniProtKB/Swiss-Prot:P54332" /translation="MALKAQNTISGKEGRLFLDGEEMAHIKTFEANVEKNKSEVNIMG RRMTGHKTTGANGTGTATFYKVTSKFVLLMMDYVKKGSDPYFTLQAVLDDQSSGRGTE RVTLYDVNFDSAKIASLDVDSEALEEEVPFTFEDFDVPEKLSDTF*" gene 1333804..1334247 /gene="xkdM" /locus_tag="BSU_12660" /old_locus_tag="BSU12660" S_feature 1334248..1334338 /Source="Nicolas_S_feature" /locus_tag="new_1334248_1334338" /HighExp="M40t90, HPh, LPh, MG 120, MG 150, MG 90, MG 60, Gly, dia0, LBGexp" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigK, Sig-" /TUshortPSig="0.999, 0" /TUlongSig="NA" /TUlongPSig="NA" /label="S457" CDS 1334339..1334785 /gene="xkdN" /locus_tag="BSU_12671" /old_locus_tag="BSU12671" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="NP_389149.2" /db_xref="EnsemblGenomes-Gn:BSU12671" /db_xref="EnsemblGenomes-Tr:CAB13124" /db_xref="InterPro:IPR014986" /db_xref="SubtiList:BG11548" /db_xref="UniProtKB/Swiss-Prot:P54333" /translation="MSEKNENVYDLSFFMPGKTIEAEEIKVPISKRFVDKKGNVIPFI LKPITTERIDELEKENTTFKNVKGRGRVKDLDSQRFYARIAIESTIYPDFRSKDLREA YKTADPVEVAKRVLSVGGEYANWLNKAIEINGFEDDLEDLEEEAKN*" gene 1334339..1334785 /gene="xkdN" /locus_tag="BSU_12671" /old_locus_tag="BSU12671" CDS 1334815..1334964 /gene="xkzB" /locus_tag="BSU_12672" /old_locus_tag="BSU12672" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="YP_003097715.1" /db_xref="EnsemblGenomes-Gn:BSU12672" /db_xref="EnsemblGenomes-Tr:CAX52605" /db_xref="UniProtKB/Swiss-Prot:C0H3Z8" /translation="MYYAMHELHYSPSQLLELYEAPKHFKALLFGLIGYKLDLLEKES RRGGN*" gene 1334815..1334964 /gene="xkzB" /locus_tag="BSU_12672" /old_locus_tag="BSU12672" CDS 1334966..1338964 /gene="xkdO" /locus_tag="BSU_12680" /old_locus_tag="BSU12680" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 20665904; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; putative tape measure protein" /protein_id="NP_389150.2" /db_xref="EnsemblGenomes-Gn:BSU12680" /db_xref="EnsemblGenomes-Tr:CAB13125" /db_xref="InterPro:IPR008258" /db_xref="InterPro:IPR023346" /db_xref="SubtiList:BG11549" /db_xref="UniProtKB/Swiss-Prot:P54334" /translation="MAKLTARFDLEDKVSKKLKRIHKGFQEVEKKVKTINRQIKISIR AEDQAFYRLRKINDYIILKFAKSLEIKVVLDDQVTSKLDAIERKLKRLPKETKLTVSL VDRTAAAYKKIKKMLSNQKLSFLLIPDDKVTSTVKRIIGYIKKNLKNGYTVKLKVIDE ITKTVNRLTALLRKFEKTYYVKVVVKTKISDKINKKESLINKETSKKESDKSSDKGSD KNSDQKPGWVGKIKGWLKDWWTKSAWPWIKDTLNEIGKAFLDRFKERLIEKLKNDVFD KIIDKILGPQKKDDSGENSDTDKKVLNRNTGGNCCCDCCEGGISPGTKNKKTYRKKKS PTKAPNRTLKVPGEVIRRRQSGTPAESAPRTSGSKLKNWLGGLKSLGKDSSKLGKAFR GMGKAVPYVGSALAVFDLAGINKDNAGEKVGSIGGRIAGAEAGATAGAEAGATIGSFV GPEGTAIGGAIGGIGGGLVGGIGGEEAGKNIGKMFDTSKLKESISNSLFNKEWWSGKW NSISDTANGAITWIEDTWSKVSTWFDQYVFTPIYNVAVPVINFIVGLFAYAWDGILAV WNIVYPWFKDNVWDPISGAVTNVATTIWTGLCNAWTVISGIWSTVSTWFMDNVWNPVS EAVTTAATWIWSKINDAWTIISNIWTGVSNWFYDNVWNPIVKKVEDIKTSIKEKFDDA RKFFEDAWDGIETWFNEHVKDPLVKVSEKIAEKFQWLFDLKDSVGGFVAKVIHRGEEV THLKKKPIKKDSKEKKTSSKPTTNNIFAQSPSNNNMTVFQQALDQNATGGYITKPTIS WIGEAGKEFVIPVDNNRGRGKMLLSQAASKLGMQVVDDMGAASSSGGSPASVSGGAAV SPLSGTASPVMNTANLTGQASTLGQQFSEGFGKGISDQPVKMEDWKKKNINTPFTQMI SASPNYGKQMVSGYAKGQSGTATGTDGFLQSKVKTPFQATVSKSSSWGTGTVKGFAQG QNSTQTGTAQYVSTHVDKPFLRSKDTSNSWGSGLIGNFVTGMNSKSSEVKQAAKDMAK RVEQAFREELDIHSPSRVMMSLGRFASVGVVKGLDSVDVKKYAEKQAGSLAAAYSGMG AVGGNVKQWLMAAIMATKTPLSWLSGLMTIAQYESGGNPNSINLWDSNAKAGNPSQGL MQTVPTTFNAHKAPGMGNIRNPIHNAAAAIGYIKSRYGSIDNVPGIKSLKRGGPYVGY ANGGLITKEQIARVGEGNKREWIIPEERGIRGRYLLQRAAQALGMEVTDPSQSQQSEL SSGQVSAVTSASRPTAAVSGSKEIYIQFNGDQHFHNGQDAESLAAKIKQALIDELQKD INIGTKGVVAFD*" gene 1334966..1338964 /gene="xkdO" /locus_tag="BSU_12680" /old_locus_tag="BSU12680" promotor_-10 complement(1335370..1335388) /Source="Nicolas_upshift_promotors" /id="U1031" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp="0.975024975024975" /psig="0.975024975024975" /xcortree=2788 /SigmaFactorBS="gatgacctttagttttactgtgtatccgttTTTCAAATtttt cttaatataACCGATAATCCTTTTAACTgtagaagtaaccttgtcatctggaatcaaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1335379) /Source="Nicolas_upshifts" /id="U1031" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp="0.975024975024975" /psig="0.975024975024975" /xcortree=2788 /SigmaFactorBS="gatgacctttagttttactgtgtatccgttTTTCAAATtttt cttaatataACCGATAATCCTTTTAACTgtagaagtaaccttgtcatctggaatcaaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(1335402..1335409) /Source="Nicolas_upshift_promotors" /id="U1031" /multdbtbs="-" /comp="M10" /sig="SigD" /pcomp="0.975024975024975" /psig="0.975024975024975" /xcortree=2788 /SigmaFactorBS="gatgacctttagttttactgtgtatccgttTTTCAAATtttt cttaatataACCGATAATCCTTTTAACTgtagaagtaaccttgtcatctggaatcaaa a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 1336396 /Source="Nicolas_upshifts" /id="D695" /incds=1 /nref=1 /ntot=43 /MaxReadThrough="6.12795" /MaxDrop="2.89794" /score="11.201424" /energy="-12.1" /TU="U1029,U1030" /idTUdmin="U1030" /TUdmin="-6645" /isTUend="FALSE" promotor_-10 complement(1336610..1336622) /Source="Nicolas_upshift_promotors" /id="U1032" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.887112887112887" /psig="0.887112887112887" /xcortree=951 /SigmaFactorBS="aaccacgggtagacaatgttccatactgccaatatgccatcc caGGCATAGgcaaacaatcctaCTATAAAATTAATtacaggtacagcaacattatata t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1336626) /Source="Nicolas_upshifts" /id="U1032" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.887112887112887" /psig="0.887112887112887" /xcortree=951 /SigmaFactorBS="aaccacgggtagacaatgttccatactgccaatatgccatcc caGGCATAGgcaaacaatcctaCTATAAAATTAATtacaggtacagcaacattatata t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(1336636..1336642) /Source="Nicolas_upshift_promotors" /id="U1032" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.887112887112887" /psig="0.887112887112887" /xcortree=951 /SigmaFactorBS="aaccacgggtagacaatgttccatactgccaatatgccatcc caGGCATAGgcaaacaatcctaCTATAAAATTAATtacaggtacagcaacattatata t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 1338957..1339616 /gene="xkdP" /locus_tag="BSU_12690" /old_locus_tag="BSU12690" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type h : extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; putative murein binding protein" /protein_id="NP_389151.2" /db_xref="EnsemblGenomes-Gn:BSU12690" /db_xref="EnsemblGenomes-Tr:CAB13126" /db_xref="InterPro:IPR018392" /db_xref="InterPro:IPR036779" /db_xref="SubtiList:BG11550" /db_xref="UniProtKB/Swiss-Prot:P54335" /translation="MTKSVYEFWISQGKDKLRLPVLPDQLSISNTVQNETVKVAKFGD LTFIDEQGAKEISFSSFFPKKYSPIAEYQNFPSPENAITKIEKWMKAKKPVQFLITGT KVNLTCSIEGFSYSEGQQDIGDRSFDIQLKEYKTASPRKIKQKKKTKAKRPSKAAPKT YTVKKGDTLWDIAGRFYGNSTQWRKIWNANKTAMIKRSKRNIRQPGHWIFPGQKLKIP Q*" gene 1338957..1339616 /gene="xkdP" /locus_tag="BSU_12690" /old_locus_tag="BSU12690" CDS 1339632..1340609 /gene="xkdQ" /locus_tag="BSU_12700" /old_locus_tag="BSU12700" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="NP_389152.1" /db_xref="EnsemblGenomes-Gn:BSU12700" /db_xref="EnsemblGenomes-Tr:CAB13127" /db_xref="SubtiList:BG11551" /db_xref="UniProtKB/Swiss-Prot:P54336" /translation="MIELFVIKDTEWLELVAESVSLEGHRYQAPRSIEATIVTKQGDQ TYYSVSEGDTVLFKWKGKELFRGIVFARTPDEHTLAFSAYDMLQYLVKNQDMYVFSNQ RADQIIRRIASDFQIPTTSIANTGHTIKSLVIKNDTTLYDIILKALKQTKSQTGRHYQ LYSEKGKLGLRAWPDPSEVWVLETGVNITGYQYSTSINDTATRVVLRRQKDNKTYKAS AKDSSGLNKYGVLQYTETVTDDINQAQLQQRADVRLAEKKGVKKELKNIQAVGIPEVQ SGLPVYISIPEAGIKKTYWVDTDRHEFKGTKHTMTIDVVEKNTMPEGVS*" gene 1339632..1340609 /gene="xkdQ" /locus_tag="BSU_12700" /old_locus_tag="BSU12700" CDS 1340609..1340875 /gene="xkdR" /locus_tag="BSU_12710" /old_locus_tag="BSU12710" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="NP_389153.1" /db_xref="EnsemblGenomes-Gn:BSU12710" /db_xref="EnsemblGenomes-Tr:CAB13128" /db_xref="InterPro:IPR022555" /db_xref="SubtiList:BG11552" /db_xref="UniProtKB/Swiss-Prot:P54337" /translation="MRLSEAIKHLAVGAVDAESPVELLPAEVVSVSPVEIKLKENSKL IIPEDAIIIPKRMQSGGDDALEPGDRLMTAALTGGQSFFILDKV*" gene 1340609..1340875 /gene="xkdR" /locus_tag="BSU_12710" /old_locus_tag="BSU12710" CDS 1340932..1341357 /gene="xkdS" /locus_tag="BSU_12720" /old_locus_tag="BSU12720" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="NP_389154.1" /db_xref="EnsemblGenomes-Gn:BSU12720" /db_xref="EnsemblGenomes-Tr:CAB13129" /db_xref="InterPro:IPR020288" /db_xref="SubtiList:BG11553" /db_xref="UniProtKB/Swiss-Prot:P54338" /translation="MALTPEVEFEDIEVESEVIETSQTYKIDFENGRITNELITGLEA IRQFVYIALQTERYAYSIYSHNVGNELQDVLTDHETTDAYKKMEIPRLIEEALVYDDR ISAVTDFEIEKQGDAFHVSFVVETDEGTLEIEEVIGEDV*" gene 1340932..1341357 /gene="xkdS" /locus_tag="BSU_12720" /old_locus_tag="BSU12720" CDS 1341350..1342396 /gene="xkdT" /locus_tag="BSU_12730" /old_locus_tag="BSU12730" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 18077713; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; putative base plate assembly protein" /protein_id="NP_389155.1" /db_xref="EnsemblGenomes-Gn:BSU12730" /db_xref="EnsemblGenomes-Tr:CAB13130" /db_xref="InterPro:IPR006949" /db_xref="SubtiList:BG11554" /db_xref="UniProtKB/Swiss-Prot:P54339" /translation="MFEDQTFEAIMERMLNSISADIDTREGSVIYNALAPAAAELAKS YIWLDTVLELVFSDTAQGEFLDRRAAEAGIERTAATKAVRAGEFTSGVTIPVGSRFYV DNLYFQYTADGTLICETPGEAGNANLTGRNLLSLDTIPGLETAIVKEILIPGREEEGD DSLRERYFTRVRREAVSANKMHYKEWAEEVDGVGKAKIFPLWNGEGTVKIVVTNANLE PASPILIQKVKDYIDPEPGQGEGQAPIGAVVTVESAVWKEVEISAEVLPEINHSIDEV KSEIEEGVLNFFKKMAFEDNVIRLSQINNIVYNSPSVSDYSNIQINGTSENLVLSDVE IPKLGQVKIIEQTR*" gene 1341350..1342396 /gene="xkdT" /locus_tag="BSU_12730" /old_locus_tag="BSU12730" CDS 1342380..1342958 /gene="xkdU" /locus_tag="BSU_12740" /old_locus_tag="BSU12740" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="NP_389156.1" /db_xref="EnsemblGenomes-Gn:BSU12740" /db_xref="EnsemblGenomes-Tr:CAB13131" /db_xref="InterPro:IPR018755" /db_xref="SubtiList:BG11555" /db_xref="UniProtKB/Swiss-Prot:P54340" /translation="MSKQDDMRAYLPPFLTSLKEMAELLKAEAPEFDKQNDSIFDLTD QLFVPTATWGLSRWEKILNVPRESGDTDEIRRLRLISKMSNIPPITYRAIEQAVNRFL KNPSAQVRLLPGEYRFNVDINVDDLQHMNELIEAIENMKPAHLAYTLRGGLNETLRIK DTVILNHRRYRTASELKVGYSVTLNNNEVVLT*" gene 1342380..1342958 /gene="xkdU" /locus_tag="BSU_12740" /old_locus_tag="BSU12740" CDS 1342955..1343227 /gene="xkzA" /locus_tag="BSU_12749" /old_locus_tag="BSU12749" /function="18: Unknown function" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="YP_003097716.1" /db_xref="EnsemblGenomes-Gn:BSU12749" /db_xref="EnsemblGenomes-Tr:CAX52606" /db_xref="UniProtKB/Swiss-Prot:C0H3Z9" /translation="MISTIYRERTAADLKSRIDHVLLNGQKTEIVELAIDGATVTVLT KREEDIKHIETVQIFDELGNVITERKTDLDVSENRTLDFRFTFEVV*" gene 1342955..1343227 /gene="xkzA" /locus_tag="BSU_12749" /old_locus_tag="BSU12749" CDS 1343230..1345293 /gene="xkdV" /locus_tag="BSU_12750" /old_locus_tag="BSU12750" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="NP_389158.1" /db_xref="EnsemblGenomes-Gn:BSU12750" /db_xref="EnsemblGenomes-Tr:CAB13132" /db_xref="InterPro:IPR008983" /db_xref="SubtiList:BG11556" /db_xref="UniProtKB/Swiss-Prot:P54341" /translation="MAYEEKTDWLPDDPINEDDVNRWEKGIKDAHTDLAAHKNDMNNP HNTTKAQIGLGNVDNVQQASKTEFNEHNHDSTRHITSVERDEWNAKETPAGAQYKADQ AEANAKAYTDNFAARRDNPNQVTKAQVGLGNVENVKQASLADFDAHLSNSKVHVSEGE RNKWNAAQLIKLTGDDGKRIQLQDGTDILTLSSGFYCAVGQSVVNNPVEGDAAWYNYD IVEGGSGRKTIVAYQSWGSMMWIGMVHTDGEFRGWKQIATTDFIDRVQTELDLHENDK TNPHSVTKQQVGLGNVENVKQETPDGAQKKADTALNQSKDYTNSTAFITRPLNSITDA NDLNLPPGTYRLDTNYMNANPVLQNQFPLNDNRTGLLIIYPSANKWATRQDWFSISTK TLYTRVAVNGTDYSGWYILENSEGSQNKADKALADAKNYVETNYTNQKLTVLTGSNAI QDARISGNDYKYGITFMDIGANNTTGYPLTYGFVKNEKHSNYRFTQYFYGNADTTSGS YDHVGTWIRHWWADSGWTAWQKISGFAHANIGTTGRQALIKGENNKIKYNRIIKDSHK LFDTKNNRFVASHAGMHLVSASLYIENTERYSNFELYVYVNGTKYKLMNQFRMPTPSN NSDNEFNATVTGSVTVPLDAGDYVEIYVYVGYSGDVTRYVTDSNGALNYFDVLELGGR NYPRV*" gene 1343230..1345293 /gene="xkdV" /locus_tag="BSU_12750" /old_locus_tag="BSU12750" CDS 1345305..1345634 /gene="xkdW" /locus_tag="BSU_12760" /old_locus_tag="BSU12760" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="NP_389159.1" /db_xref="EnsemblGenomes-Gn:BSU12760" /db_xref="EnsemblGenomes-Tr:CAB13133" /db_xref="InterPro:IPR019094" /db_xref="InterPro:IPR035950" /db_xref="PDB:2HG7" /db_xref="SubtiList:BG11557" /db_xref="UniProtKB/Swiss-Prot:P54342" /translation="MILYDAIMYKYPNAVSRKDFELRNDGNGSYIEKWNLRAPLPTQA ELETWWEELQKNPPYEPPDQVELLAQELSQEKLARKQLEELNKTLGNELSDIKLSLLS LKGDYAE*" gene 1345305..1345634 /gene="xkdW" /locus_tag="BSU_12760" /old_locus_tag="BSU12760" CDS 1345631..1345795 /gene="xkdX" /locus_tag="BSU_12770" /old_locus_tag="BSU12770" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; conserved hypothetical protein" /protein_id="NP_389160.1" /db_xref="EnsemblGenomes-Gn:BSU12770" /db_xref="EnsemblGenomes-Tr:CAB13134" /db_xref="InterPro:IPR010022" /db_xref="SubtiList:BG11558" /db_xref="UniProtKB/Swiss-Prot:P54343" /translation="MNYWVLALYYEWATTDMVKQALAYEDCSIQDLAEGVNKKLITAD QYKEITGKAM*" gene 1345631..1345795 /gene="xkdX" /locus_tag="BSU_12770" /old_locus_tag="BSU12770" CDS 1345839..1346678 /gene="xepA" /locus_tag="BSU_12780" /old_locus_tag="BSU12780" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:7921239, 9555893" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7921239, 9555893; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; lytic exoenzyme" /protein_id="NP_389161.2" /db_xref="EnsemblGenomes-Gn:BSU12780" /db_xref="EnsemblGenomes-Tr:CAB13135" /db_xref="SubtiList:BG10959" /db_xref="UniProtKB/Swiss-Prot:P39797" /translation="MVKYQYEFPLDKAGKAGAVKPYRGGKNDFVTPVSNLSGVAEILT NAALKATEAYSQLGQDRLGAVLISKVKGWAYADREGTLFIEESDNNNVWTTTAAVNVA AGVLTATDWVYLSKRYYRFRYVNGNLQQSEFVLYQSVGAGEMDVRVNEKTPLQIDFAE NQTHDGRLKVEARKTFDFVFHENAESASEGAALPVDGAAHLLVEVYGTAEMSEVKFWG KSVSGQKLPIRGVKTDDATTASSTLGKAEAWAFDIKGFKEIIMEIISITGGTLSVKGT AVS*" gene 1345839..1346678 /gene="xepA" /locus_tag="BSU_12780" /old_locus_tag="BSU12780" misc_feature 1346685..1346703 /Source="Nicolas_upshift_promotors" /id="U1033" /multdbtbs="-" /comp="M12" /sig="Sig-" /pcomp="0.892107892107892" /psig="0.018981018981019" /xcortree=1520 /SigmaFactorBS="tatcaccggcggtactctttcggtaaaagggaccgcggtttc ataatagtctCGGCCCTCGGAAGGGAGGTgatctgcatgtgaaggaggagtgagagat g" /listShort="xhlA, xhlB, xlyA" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts 1346693 /Source="Nicolas_upshifts" /id="U1033" /multdbtbs="-" /comp="M12" /sig="Sig-" /pcomp="0.892107892107892" /psig="0.018981018981019" /xcortree=1520 /SigmaFactorBS="tatcaccggcggtactctttcggtaaaagggaccgcggtttc ataatagtctCGGCCCTCGGAAGGGAGGTgatctgcatgtgaaggaggagtgagagat g" /listShort="xhlA, xhlB, xlyA" /GFF_Attribute="listLong" CDS 1346731..1347000 /gene="xhlA" /locus_tag="BSU_12790" /old_locus_tag="BSU12790" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:7921239, 9555893, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7921239, 9555893, 22720735; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; putative enzyme" /protein_id="NP_389162.1" /db_xref="EnsemblGenomes-Gn:BSU12790" /db_xref="EnsemblGenomes-Tr:CAB13136" /db_xref="GOA:P39798" /db_xref="InterPro:IPR019715" /db_xref="SubtiList:BG10960" /db_xref="UniProtKB/Swiss-Prot:P39798" /translation="MQQEADVNVFQQDLADMKGEHKALEQRVSALERVSDRQDQQIMT LNEKLNKIEENTTWIKRTITGAIITAVSTGIIGGAIAIMYSLLQH*" gene 1346731..1347000 /gene="xhlA" /locus_tag="BSU_12790" /old_locus_tag="BSU12790" CDS 1347013..1347276 /gene="xhlB" /locus_tag="BSU_12800" /old_locus_tag="BSU12800" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:2110147, 9555893" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 2110147, 9555893; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; holin" /protein_id="NP_389163.1" /db_xref="EnsemblGenomes-Gn:BSU12800" /db_xref="EnsemblGenomes-Tr:CAB13137" /db_xref="GOA:Q99163" /db_xref="InterPro:IPR006479" /db_xref="SubtiList:BG10961" /db_xref="UniProtKB/Swiss-Prot:Q99163" /translation="MNTFDKGTVIRTVLLLIALINQTMLMLGKSPLDIQEEQVNQLAD ALYSAGSIAFTIGTTLAAWFKNNYVTEKGKKQRDLLRDNNLTK*" gene 1347013..1347276 /gene="xhlB" /locus_tag="BSU_12800" /old_locus_tag="BSU12800" CDS 1347289..1348182 /gene="xlyA" /locus_tag="BSU_12810" /old_locus_tag="BSU12810" /EC_number="3.5.1.28" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:7921239, 9555893" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7921239, 9555893; Product type h: extrachromosomal origin" /codon_start=1 /transl_table=11 /product="phage PBSX; N-acetylmuramoyl-L-alanine amidase" /protein_id="NP_389164.1" /db_xref="EnsemblGenomes-Gn:BSU12810" /db_xref="EnsemblGenomes-Tr:CAB13138" /db_xref="GOA:P39800" /db_xref="InterPro:IPR002477" /db_xref="InterPro:IPR002502" /db_xref="InterPro:IPR018392" /db_xref="InterPro:IPR036365" /db_xref="InterPro:IPR036366" /db_xref="InterPro:IPR036505" /db_xref="InterPro:IPR036779" /db_xref="PDB:3HMB" /db_xref="PDB:3RDR" /db_xref="SubtiList:BG10962" /db_xref="UniProtKB/Swiss-Prot:P39800" /translation="MVNIIQDFIPVGANNRPGYAMTPLYITVHNTANTAVGADAAAHA RYLKNPDTTTSWHFTVDDTEIYQHLPLNENGWHAGDGNGSGNRASIGIEICENADGDF AKATANAQWLIKTLMAEHNISLANVVPHKYWSGKECPRKLLDTWDSFKAGIGGGGSQT YVVKQGDTLTSIARAFGVTVAQLQEWNNIEDPNLIRVGQVLIVSAPSAAEKPELYPLP DGIIQLTTPYTSGEHVFQVQRALAALYFYPDKGAVNNGIDGVYGPKTADAVARFQSVN GLTADGIYGPATKEKIAAQLS*" gene 1347289..1348182 /gene="xlyA" /locus_tag="BSU_12810" /old_locus_tag="BSU12810" downshifts 1348191 /Source="Nicolas_upshifts" /id="D696" /incds=0 /nref=29 /ntot=162 /MaxReadThrough="3.77255" /MaxDrop="5.00305" /score="30.9009227" /energy="-12.5" /TU="U1029,U1033" /idTUdmin="U1029" /TUdmin="-152" /isTUend="FALSE" S_feature complement(1348200..1348403) /Source="Nicolas_S_feature" /locus_tag="new_1348200_1348403_c" /HighExp="S8, S6, S7, BT, B36, S5, S4, G/S, Pyr, B60" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigEF" /TUshortPSig="1, 0.798" /TUlongSig="NA" /TUlongPSig="NA" /label="S458" CDS complement(1348219..1348356) /gene="spoIISC" /locus_tag="BSU_12815" /old_locus_tag="BSU12815" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 1c: Function from experimental evidences in the studied genus; PubMedId: 11371520, 18096016, 20863891, 21147767, 25039482, 26300872, 27294956; Product type r: regulator" /codon_start=1 /transl_table=11 /product="three component toxin / antitoxin / antitoxin SpoIISABC, antitoxin C" /protein_id="YP_009513952.1" /translation="MSGDTVKKLVRRVKFVDYGRFGLSGYSLRVRERSAGIIKKLKKK K*" gene complement(1348219..1348356) /gene="spoIISC" /locus_tag="BSU_12815" /old_locus_tag="BSU12815" downshifts complement(1348243) /Source="Nicolas_upshifts" /id="D697" /incds=0 /nref=31 /ntot=215 /MaxReadThrough="2.75573" /MaxDrop="4.3776" /score="24.0186344" /energy="-12.5" /TU="U1034" /idTUdmin="U1035" /TUdmin=0 /isTUend="TRUE" CDS complement(1348442..1348612) /gene="spoIISB" /locus_tag="BSU_12820" /old_locus_tag="BSU12820" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11371520, 18096016, 20863891, 21147767, 25039482, 26300872, 27294956" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11371520, 18096016, 20863891, 21147767, 25039482, 26300872, 27294956; Product type f: factor" /codon_start=1 /transl_table=11 /product="three-component apoptotic control system component B (antitoxin B)" /protein_id="NP_389165.1" /db_xref="EnsemblGenomes-Gn:BSU12820" /db_xref="EnsemblGenomes-Tr:CAB13139" /db_xref="GOA:O34800" /db_xref="InterPro:IPR025897" /db_xref="PDB:3O6Q" /db_xref="SubtiList:BG12678" /db_xref="UniProtKB/Swiss-Prot:O34800" /translation="MERAFQNRCEPRAAKPFKILKKRSTTSVASYQVSPHTARIFKEN ERLIDEYKRKKA*" gene complement(1348442..1348612) /gene="spoIISB" /locus_tag="BSU_12820" /old_locus_tag="BSU12820" downshifts complement(1348448) /Source="Nicolas_upshifts" /id="D698" /incds=0 /nref=6 /ntot=86 /MaxReadThrough="4.69899" /MaxDrop="3.0872" /score="24.0186344" /energy="-12.5" /TU="U1034,U1035" /idTUdmin="U1035" /TUdmin="-205" /isTUend="FALSE" CDS complement(1348612..1349358) /gene="spoIISA" /locus_tag="BSU_12830" /old_locus_tag="BSU12830" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11371520, 18096016, 20863891, 21147767, 25039482, 26300872, 27294956" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11371520, 18096016, 20863891, 21147767, 25039482, 26300872, 27294956; Product type f: factor" /codon_start=1 /transl_table=11 /product="three-component apoptosis factor (ABC toxin/antitoxin/antitoxin system)" /protein_id="NP_389166.1" /db_xref="EnsemblGenomes-Gn:BSU12830" /db_xref="EnsemblGenomes-Tr:CAB13140" /db_xref="GOA:O34853" /db_xref="InterPro:IPR025940" /db_xref="PDB:3O6Q" /db_xref="SubtiList:BG12677" /db_xref="UniProtKB/Swiss-Prot:O34853" /translation="MVLFFQIMVWCIVAGLGLYVYATWRFEAKVKEKMSAIRKTWYLL FVLGAMVYWTYEPTSLFTHWERYLIVAVSFALIDAFIFLSAYVKKLAGSELETDTREI LEENNEMLHMYLNRLKTYQYLLKNEPIHVYYGSIDAYAEGIDKLLKTYADKMNLTASL CHYSTQADKDRLTEHMDDPADVQTRLDRKDVYYDQYGKVVLIPFTIETQNYVIKLTSD SIVTEFDYLLFTSLTSIYDLVLPIEEEGEG*" gene complement(1348612..1349358) /gene="spoIISA" /locus_tag="BSU_12830" /old_locus_tag="BSU12830" promotor_-10 complement(1349193..1349212) /Source="Nicolas_upshift_promotors" /id="U1034" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.724275724275724" /psig=1 /xcortree=623 /SigmaFactorBS="tcaaagaaaaaatgtccgccattcggaaaacttggTATTTGC TgtttgttctgggcgcTATGGTATACTGGACATATGagcccacttccctatttaccca c" /listShort="spoIISB, S458" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1349210) /Source="Nicolas_upshifts" /id="U1034" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.724275724275724" /psig=1 /xcortree=623 /SigmaFactorBS="tcaaagaaaaaatgtccgccattcggaaaacttggTATTTGC TgtttgttctgggcgcTATGGTATACTGGACATATGagcccacttccctatttaccca c" /listShort="spoIISB, S458" /GFF_Attribute="listLong" promotor_-35 complement(1349228..1349235) /Source="Nicolas_upshift_promotors" /id="U1034" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.724275724275724" /psig=1 /xcortree=623 /SigmaFactorBS="tcaaagaaaaaatgtccgccattcggaaaacttggTATTTGC TgtttgttctgggcgcTATGGTATACTGGACATATGagcccacttccctatttaccca c" /listShort="spoIISB, S458" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(1349384..1349402) /Source="Nicolas_upshift_promotors" /id="U1035" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.798201798201798" /psig="0.798201798201798" /xcortree=1112 /SigmaFactorBS="cttctgtcaaaggagcggtttttttgatggaacaGGAAAAcc atccggatctctcGAATACAATAAGCAGAACCtatttcagatgtgagggattcgaata t" /listShort="spoIISA, spoIISB, S458" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1349397) /Source="Nicolas_upshifts" /id="U1035" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.798201798201798" /psig="0.798201798201798" /xcortree=1112 /SigmaFactorBS="cttctgtcaaaggagcggtttttttgatggaacaGGAAAAcc atccggatctctcGAATACAATAAGCAGAACCtatttcagatgtgagggattcgaata t" /listShort="spoIISA, spoIISB, S458" /GFF_Attribute="listLong" promotor_-35 complement(1349418..1349423) /Source="Nicolas_upshift_promotors" /id="U1035" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.798201798201798" /psig="0.798201798201798" /xcortree=1112 /SigmaFactorBS="cttctgtcaaaggagcggtttttttgatggaacaGGAAAAcc atccggatctctcGAATACAATAAGCAGAACCtatttcagatgtgagggattcgaata t" /listShort="spoIISA, spoIISB, S458" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1349468..1350469) /gene="pitB" /locus_tag="BSU_12840" /old_locus_tag="BSU12840" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2b: Function from indirect experimental evidences (e.g. phenotypes); PubMedId: 10784039, 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative low-affinity inorganic phosphate transporter" /protein_id="NP_389167.2" /db_xref="EnsemblGenomes-Gn:BSU12840" /db_xref="EnsemblGenomes-Tr:CAB13141" /db_xref="GOA:O34436" /db_xref="InterPro:IPR001204" /db_xref="SubtiList:BG13226" /db_xref="UniProtKB/Swiss-Prot:O34436" /translation="MDILLILTILIVICALAFDFINGFHDTANAIATSVSTKALKPRH AIILAAVMNFVGAMTFTGVAKTITKDIVDPYTLENGSVVILAALLAAIAWNLITWYYG IPSSSSHAIIGAIAGAAIAAAGFAALNYKGFIKIIEALILSPIIAFVLGFILYSIVKL IFKDSNLAKTNKQFRRVQIVTAALQSYTHGTNDAQKAMGIITMALITANLHTSANDIP TWVQFACATAMGLGTSIGGWKIIKTVGGKIMKIRPVNGVSADLTGAAIIFGATFIHLP VSTTHVISSSILGVGASHRVKGVNWGTAKRMLITWVITLPISATLGAIAYFILNMIF* " gene complement(1349468..1350469) /gene="pitB" /locus_tag="BSU_12840" /old_locus_tag="BSU12840" downshifts complement(1349497) /Source="Nicolas_upshifts" /id="D699" /incds=0 /nref=205 /ntot=253 /MaxReadThrough="3.49591" /MaxDrop="5.81942" /score="21.8061263" /energy="-11" /TU="U1036,U1038" /idTUdmin="U1037" /TUdmin=0 /isTUend="TRUE" CDS complement(1350482..1351099) /gene="ykaA" /locus_tag="BSU_12850" /old_locus_tag="BSU12850" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 9696772, 14563871; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative PitB transporter accessory protein" /protein_id="NP_389168.1" /db_xref="EnsemblGenomes-Gn:BSU12850" /db_xref="EnsemblGenomes-Tr:CAB13142" /db_xref="InterPro:IPR018445" /db_xref="SubtiList:BG13225" /db_xref="UniProtKB/Swiss-Prot:O34454" /translation="MIRRKKDKFSLLLTEIAKNIDETAEYFVNFKVTNQTTLKEFADT LKEYETKGDNHVHVMIKELNKAFITPIEREDILQLTNSLDDVLDGIEHFSAMMEIFSI TSSDEHIDKFSGYIRECAKEILITIELLAENRLKDIQPHAIKIKEYEHSCDNLHRKSL KNLFGNETDPIKVIQYREIYETLEEIADSCQSVANNLETIIMKNA*" gene complement(1350482..1351099) /gene="ykaA" /locus_tag="BSU_12850" /old_locus_tag="BSU12850" promotor_-10 complement(1351135..1351154) /Source="Nicolas_upshift_promotors" /id="U1036" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.933066933066933" /psig="0.996003996003996" /xcortree=2607 /SigmaFactorBS="aagatacgtttttttcgactttaCCTGTtttttttcgacaaa aGGCTATATAATAATTTGATGtgtgcattgttcattcaaactatggagggtttttaat g" /listShort="ykaA, pit" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1351137) /Source="Nicolas_upshifts" /id="U1036" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.933066933066933" /psig="0.996003996003996" /xcortree=2607 /SigmaFactorBS="aagatacgtttttttcgactttaCCTGTtttttttcgacaaa aGGCTATATAATAATTTGATGtgtgcattgttcattcaaactatggagggtttttaat g" /listShort="ykaA, pit" /GFF_Attribute="listLong" S_feature complement(1351139..1351236) /Source="Nicolas_S_feature" /locus_tag="new_1351139_1351236_c" /HighExp="H2O2, Etha, dia15, Diami, Paraq, Heat, dia5, Salt, LBGstat, Oxctl" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA, SigA" /TUshortPSig="0.972, 0.987" /TUlongSig="SigA" /TUlongPSig="0.992" /label="S459" promotor_-35 complement(1351170..1351174) /Source="Nicolas_upshift_promotors" /id="U1036" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.933066933066933" /psig="0.996003996003996" /xcortree=2607 /SigmaFactorBS="aagatacgtttttttcgactttaCCTGTtttttttcgacaaa aGGCTATATAATAATTTGATGtgtgcattgttcattcaaactatggagggtttttaat g" /listShort="ykaA, pit" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(1351216..1351235) /Source="Nicolas_upshift_promotors" /id="U1037" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.962037962037962" /psig="0.972027972027972" /xcortree=641 /SigmaFactorBS="atatactttttacgttaagcagaaagtttttgcaaacttGGG TCGTTtttttaaagcgaagTAGGTCAAAATAAGGAGACAcgatttatcaaaaaagtca a" /listShort="S459, ykaA, pit" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1351236) /Source="Nicolas_upshifts" /id="U1037" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.962037962037962" /psig="0.972027972027972" /xcortree=641 /SigmaFactorBS="atatactttttacgttaagcagaaagtttttgcaaacttGGG TCGTTtttttaaagcgaagTAGGTCAAAATAAGGAGACAcgatttatcaaaaaagtca a" /listShort="S459, ykaA, pit" /GFF_Attribute="listLong" promotor_-35 complement(1351250..1351257) /Source="Nicolas_upshift_promotors" /id="U1037" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.962037962037962" /psig="0.972027972027972" /xcortree=641 /SigmaFactorBS="atatactttttacgttaagcagaaagtttttgcaaacttGGG TCGTTtttttaaagcgaagTAGGTCAAAATAAGGAGACAcgatttatcaaaaaagtca a" /listShort="S459, ykaA, pit" /GFF_Attribute="listLong" /label="promotor_-35" misc_feature complement(1351281..1351300) /Source="Nicolas_upshift_promotors" /id="U1038" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.677322677322677" /psig="0.987012987012987" /xcortree=1829 /SigmaFactorBS="ggaaccgttttttggtgaaacagaagataaaagttgacagga aaaacacaactTTTGATATACTTTTTACGTTaagcagaaagtttttgcaaacttgggt c" /listShort="S459, ykaA, pit" /GFF_Attribute="listLong" /label="promotor_single_box" /note="Geneious type: promotor_single_box" upshifts complement(1351293) /Source="Nicolas_upshifts" /id="U1038" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.677322677322677" /psig="0.987012987012987" /xcortree=1829 /SigmaFactorBS="ggaaccgttttttggtgaaacagaagataaaagttgacagga aaaacacaactTTTGATATACTTTTTACGTTaagcagaaagtttttgcaaacttgggt c" /listShort="S459, ykaA, pit" /GFF_Attribute="listLong" CDS complement(1351375..1352691) /gene="steT" /locus_tag="BSU_12860" /old_locus_tag="BSU12860" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15849754, 16850406, 17344220, 19419962, 20610400" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15849754, 16850406, 17344220, 19419962, 20610400; Product type t : transporter" /codon_start=1 /transl_table=11 /product="serine / threonine exchanger" /protein_id="NP_389169.1" /db_xref="EnsemblGenomes-Gn:BSU12860" /db_xref="EnsemblGenomes-Tr:CAB13143" /db_xref="GOA:O34739" /db_xref="InterPro:IPR002293" /db_xref="SubtiList:BG13227" /db_xref="UniProtKB/Swiss-Prot:O34739" /translation="MHTEDNGLKKEIGLLFALTLVIGTIIGSGVFMKPGAVLAYSGDS KMALFAWLLGGILTLAGGLTIAEIGTQIPKTGGLYTYLEEVYGEFWGFLCGWVQIIIY GPAIIGALGLYFGSLMANLFGWGSGLSKVIGIIAVLFLCVINIIGTKYGGFVQTLTTI GKLIPIACIIVFGLWKGDQHIFTAVNESISDMNFGAAILATLFAYDGWILLAALGGEM KNPEKLLPRAMTGGLLIVTAIYIFINFALLHILSANEIVTLGENATSTAATMLFGSIG GKLISVGIIVSIFGCLNGKVLSFPRVSFAMAERKQLPFAEKLSHVHPSFRTPWIAISF QIALALIMMLISNPDKLSEISIFMIYIFYVMAFFAVFILRKRAKGEKRAYSVPLYPFM PILAIAGSFFVLGSTLITDTMSCGLSILIGLAGLPVYYGMKKRKAS*" gene complement(1351375..1352691) /gene="steT" /locus_tag="BSU_12860" /old_locus_tag="BSU12860" downshifts complement(1351390) /Source="Nicolas_upshifts" /id="D700" /incds=0 /nref=3 /ntot=92 /MaxReadThrough="3.59461" /MaxDrop="3.97157" /score="23.3119204" /energy="-14.4" /TU="U1039" /idTUdmin="U1039" /TUdmin="-88" /isTUend="FALSE" promotor_-10 complement(1352738..1352757) /Source="Nicolas_upshift_promotors" /id="U1039" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.633366633366633" /psig="0.992007992007992" /xcortree=2632 /SigmaFactorBS="gtacacaaagcaaatttcgaaaatcagaaaatttattttATT TcacttttctaaaatAGGGTTTACAATATGAAAAAatagattcttcaacatgaagctt c" /listShort="ykbA" /listLong="S459, ykaA, pit" /label="promotor_-10" upshifts complement(1352754) /Source="Nicolas_upshifts" /id="U1039" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.633366633366633" /psig="0.992007992007992" /xcortree=2632 /SigmaFactorBS="gtacacaaagcaaatttcgaaaatcagaaaatttattttATT TcacttttctaaaatAGGGTTTACAATATGAAAAAatagattcttcaacatgaagctt c" /listShort="ykbA" /listLong="S459, ykaA, pit" promotor_-35 complement(1352772..1352775) /Source="Nicolas_upshift_promotors" /id="U1039" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.633366633366633" /psig="0.992007992007992" /xcortree=2632 /SigmaFactorBS="gtacacaaagcaaatttcgaaaatcagaaaatttattttATT TcacttttctaaaatAGGGTTTACAATATGAAAAAatagattcttcaacatgaagctt c" /listShort="ykbA" /listLong="S459, ykaA, pit" /label="promotor_-35" promotor_-35 1352974..1352981 /Source="Nicolas_upshift_promotors" /id="U1040" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.774225774225774" /psig="0.964035964035964" /xcortree=632 /SigmaFactorBS="tgaacgaaccttcggtgaagctgataTGTTGACTttctcatg cgaataAAATACTTTGTTATTAGAACaataaatatacaattatgatatgatatctcga a" /listShort="S460, mhqA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1352996..1353015 /Source="Nicolas_upshift_promotors" /id="U1040" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.774225774225774" /psig="0.964035964035964" /xcortree=632 /SigmaFactorBS="tgaacgaaccttcggtgaagctgataTGTTGACTttctcatg cgaataAAATACTTTGTTATTAGAACaataaatatacaattatgatatgatatctcga a" /listShort="S460, mhqA" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1353008..1353079 /Source="Nicolas_S_feature" /locus_tag="new_1353008_1353079" /HighExp="Etha, dia15, Salt, Heat, dia5, Diami, H2O2, M9-stat, MG 25, BMM" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.964" /TUlongSig="NA" /TUlongPSig="NA" /label="S460" upshifts 1353008 /Source="Nicolas_upshifts" /id="U1040" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.774225774225774" /psig="0.964035964035964" /xcortree=632 /SigmaFactorBS="tgaacgaaccttcggtgaagctgataTGTTGACTttctcatg cgaataAAATACTTTGTTATTAGAACaataaatatacaattatgatatgatatctcga a" /listShort="S460, mhqA" /GFF_Attribute="listLong" CDS 1353080..1354030 /gene="mhqA" /locus_tag="BSU_12870" /old_locus_tag="BSU12870" /EC_number="1.13.11.-" /function="16.11: Scavenge (Catabolism)" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:17407181, 17725564" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 17407181, 17725564; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="hydroquinone-specific extradiol dioxygenase" /protein_id="NP_389170.1" /db_xref="EnsemblGenomes-Gn:BSU12870" /db_xref="EnsemblGenomes-Tr:CAB13144" /db_xref="GOA:O34689" /db_xref="InterPro:IPR004360" /db_xref="InterPro:IPR029068" /db_xref="SubtiList:BG13228" /db_xref="UniProtKB/Swiss-Prot:O34689" /translation="MKVNGIHHVSALTADAQKNLDFYKKVLGLKLVKKSVNQDEPTMY HLFYGDEVANPGTELTFFEIPRIAPFHAGTNSISSIGLRVPGTEALHYWKERFEEQQV THSGISKRAGRDILAFQDHEGQRLVLTADEEGKGYGLPVKQSGIPEEFSFRGLGPVEL TVPYAEPTLHVLTNILGFTEISREPVEGQGTAVILESGEGGAATEIHLIERNDLPRER QGKGSVHHVAFRVRDEEELAGWHRIISREGFSNSGIVERYYFKALYFREPNGILFELS TDGPGFMVDENLDELGQTIALPPYLEHRRAEIEAKLKPIQ*" gene 1353080..1354030 /gene="mhqA" /locus_tag="BSU_12870" /old_locus_tag="BSU12870" downshifts 1354018 /Source="Nicolas_upshifts" /id="D701" /incds=0 /nref=95 /ntot=231 /MaxReadThrough="0.70251" /MaxDrop="5.11652" /score="51.2936135" /energy="-17.5" /TU="NA" /idTUdmin="U1040" /TUdmin="-2" /isTUend="TRUE" CDS 1354131..1354277 /locus_tag="BSU_12875" /old_locus_tag="BSU12875" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_009513953.1" /translation="MLIGRNGLKPFANMGDWYGMASAKILSLFINSLFIFACYTISKL DKKE*" gene 1354131..1354277 /locus_tag="BSU_12875" /old_locus_tag="BSU12875" CDS 1354285..1356435 /gene="ykcB" /locus_tag="BSU_12880" /old_locus_tag="BSU12880" /EC_number="2.4.1.-" /function="16.13: Shape" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406, 18175906; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative membrane glycosyl transferase" /protein_id="NP_389171.2" /db_xref="EnsemblGenomes-Gn:BSU12880" /db_xref="EnsemblGenomes-Tr:CAB13145" /db_xref="GOA:O34575" /db_xref="SubtiList:BG13229" /db_xref="UniProtKB/Swiss-Prot:O34575" /translation="MEKKKRELDIVLLLILLASAFLNIYNIWKDDTVNPYYTAAVTSM MQSFHNFFYASFDAAGFITVDKPPVTYQIQTISALIFGMHGWSVILPQALAGVGSVLL MYLLIKPTFGKTAARIASFVMACTPIAVAVARTNNVDALLVFFLLLATWLLFKAIRKG KLIWLLAAFFVVGVGFNTKMLQAYMILPAFLLFYLIAANATIKKKIVSLVSALAVLAA VSLSWPLIVDNIPASKRPYIGSSQTNSVLELAFGYNGIQRLTGQNSGGGQGAPNKDAS KEMSSSDNTQAPPNQSSSNSSSSDGKSSNGNMAAPPSNGQMPSGGQGGPPSGGDGGQG GPGGDGGKGGTGTGSKMQSGSGMFGTGTPGPLRLFQQELSDQISWLLPFAIFGIAGLL IAGARERRRLSVEQKETVFWVAWLVPIAGFFSVAEFFHHYYLIMLAPPIAALVGAGWV ALVHLYRNQTGWKAWLLPGAIIATTGFELFILRNYNDQIGVGWSIGVGVIGVLSAIAL LLFKQRQKPFSYYVSLAALLALLVMPMYWASTPLLYGGNSSLPETGPQLASMSGKGMG MSDATVNEKLIKYLEENNSGAEYLFATTDSNTAAPYIIKTKKAVMAIGGYSGSDPAIT LTQFKKLVKEGKVKYFLASGMGRGGNNDIVEWVEKNGKEVASEKWQSSSDQKTENTDS ADTSSSKASGENGKMGGPGGMNQSATLYELHADE*" gene 1354285..1356435 /gene="ykcB" /locus_tag="BSU_12880" /old_locus_tag="BSU12880" promotor_no_box 1355174..1355274 /Source="Nicolas_upshift_promotors" /id="U1041" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.608391608391608" /psig="0.000999000999001" /xcortree=1488 /SigmaFactorBS="catcaagcgatggtaaatcctcaaatggcaatatggcggcgc ctccatccaatggccaaatgccaagcggcggtcaaggaggccctccaagcggcggaga t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts 1355234 /Source="Nicolas_upshifts" /id="U1041" /multdbtbs="-" /comp="M13" /sig="Sig-" /pcomp="0.608391608391608" /psig="0.000999000999001" /xcortree=1488 /SigmaFactorBS="catcaagcgatggtaaatcctcaaatggcaatatggcggcgc ctccatccaatggccaaatgccaagcggcggtcaaggaggccctccaagcggcggaga t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" downshifts 1355322 /Source="Nicolas_upshifts" /id="D702" /incds=1 /nref=4 /ntot=10 /MaxReadThrough="0.56615" /MaxDrop="4.44711" /score="51.2936135" /energy="-17.5" /TU="NA" /idTUdmin="U1041" /TUdmin=0 /isTUend="TRUE" CDS 1356447..1357418 /gene="ykcC" /locus_tag="BSU_12890" /old_locus_tag="BSU12890" /EC_number="2.4.-.-" /function="16.2: Construct biomass (Anabolism)" /function="16.13: Shape" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative glycosyltransferase" /protein_id="NP_389172.2" /db_xref="EnsemblGenomes-Gn:BSU12890" /db_xref="EnsemblGenomes-Tr:CAB13146" /db_xref="GOA:O34319" /db_xref="InterPro:IPR001173" /db_xref="InterPro:IPR029044" /db_xref="SubtiList:BG13230" /db_xref="UniProtKB/Swiss-Prot:O34319" /translation="MSRHIQYSIVVPVYNEELVIHETYQRLKEVMDQTKENYELLFVN DGSKDRSIEILREHSLIDPRVKIIDFSRNFGHQIAITAGMDYAQGNAIVVIDADLQDP PELILEMIEKWKEGYEVVYAVRTKRKGETFFKKQTAAMFYRLLSGMTDIDIPIDTGDF RLMDRKVCDEMKRLKEKNPFVRGLVSWVGFKQTAVEYVRDERLAGETKYPLKKMLKLS MDGITTFSHKPLKLASYAGILMSGTGFLYMFIVLYLKLFTDSTITGWSSLIVIQLLFS GIVLLILGVIGEYIGRIYDEAKDRPLYIVQKSYGIENKRLYRDQHMS*" gene 1356447..1357418 /gene="ykcC" /locus_tag="BSU_12890" /old_locus_tag="BSU12890" S_feature complement(1356775..1357416) /Source="Nicolas_S_feature" /locus_tag="new_1356775_1357416_c" /HighExp="T-0.40H, T0.0H, Salt, T0.30H, T-1.10H, C30, T-1.40H, S0, H2O2, T1.0H" /AntisenseName="ykcC" /AntisenseCor="9.6017422892053297E-4" /AntisenseRegPval=0 /CDS_PredictionProba="NA" /TUshortSig="SigWXY" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S461" downshifts complement(1357461) /Source="Nicolas_upshifts" /id="D703" /incds=0 /nref=9 /ntot=114 /MaxReadThrough="4.36795" /MaxDrop="4.15844" /score="4.98888048" /energy="-19.1" /TU="U1042" /idTUdmin="U1044" /TUdmin=489 /isTUend="FALSE" S_feature complement(1357486..1357852) /Source="Nicolas_S_feature" /locus_tag="new_1357486_1357852_c" /HighExp="T1.0H, T1.30H, T0.30H, T2.0H, T0.0H, T2.30H, T-0.40H, T3.0H, Salt, T-1.10H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.99893799999999999" /TUshortSig="SigWXY" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S462" downshifts complement(1357529) /Source="Nicolas_upshifts" /id="D704" /incds=0 /nref=17 /ntot=157 /MaxReadThrough="6.61192" /MaxDrop="3.74411" /score="4.98888048" /energy="-19.1" /TU="U1042" /idTUdmin="U1044" /TUdmin=421 /isTUend="FALSE" promotor_-10 complement(1357832..1357847) /Source="Nicolas_upshift_promotors" /id="U1042" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1700 /SigmaFactorBS="agcggtctgaggctttttattagataaaagacctaattgttc taTGAAACTTTCtgacgagatatCCGTATATCATACAGAttgacatcattcacatcag a" /listShort="S462, S461" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1357852) /Source="Nicolas_upshifts" /id="U1042" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1700 /SigmaFactorBS="agcggtctgaggctttttattagataaaagacctaattgttc taTGAAACTTTCtgacgagatatCCGTATATCATACAGAttgacatcattcacatcag a" /listShort="S462, S461" /GFF_Attribute="listLong" promotor_-35 complement(1357859..1357868) /Source="Nicolas_upshift_promotors" /id="U1042" /multdbtbs="-" /comp="M9" /sig="SigWXY" /pcomp=1 /psig=1 /xcortree=1700 /SigmaFactorBS="agcggtctgaggctttttattagataaaagacctaattgttc taTGAAACTTTCtgacgagatatCCGTATATCATACAGAttgacatcattcacatcag a" /listShort="S462, S461" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1357936..1359285) /gene="htrA" /locus_tag="BSU_12900" /old_locus_tag="BSU12900" /EC_number="3.4.21.107" /function="16.6: Maintain" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:10692364, 11133960, 11555295, 12823817, 24362423" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10692364, 11133960, 11555295, 12823817, 24362423; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="membrane bound serine protease Do, quality control protease and chaperone (heat-shock protein)" /protein_id="NP_389173.2" /db_xref="EnsemblGenomes-Gn:BSU12900" /db_xref="EnsemblGenomes-Tr:CAB13147" /db_xref="GOA:O34358" /db_xref="InterPro:IPR001478" /db_xref="InterPro:IPR001940" /db_xref="InterPro:IPR009003" /db_xref="InterPro:IPR036034" /db_xref="SubtiList:BG12608" /db_xref="UniProtKB/Swiss-Prot:O34358" /translation="MDNYRDENRTKGNENEVFLTKENDQSASYSARNVIHDQEKKKRG FGWFRPLLGGVIGGSLALGIYTFTPLGDHDSQDTAKQSSSQQQTQSVTATSTSSESKK SSSSSSAFKSEDSSKISDMVEDLSPAIVGITNLQAQSNSSLFGSSSSDSSEDTESGSG SGVIFKKENGKAYIITNNHVVEGASSLKVSLYDGTEVTAKLVGSDSLTDLAVLQISDD HVTKVANFGDSSDLRTGETVIAIGDPLGKDLSRTVTQGIVSGVDRTVSMSTSAGETSI NVIQTDAAINPGNSGGPLLNTDGKIVGINSMKISEDDVEGIGFAIPSNDVKPIAEELL SKGQIERPYIGVSMLDLEQVPQNYQEGTLGLFGSQLNKGVYIREVASGSPAEKAGLKA EDIIIGLKGKEIDTGSELRNILYKDAKIGDTVEVKILRNGKEMTKKIKLDQKEEKTS* " gene complement(1357936..1359285) /gene="htrA" /locus_tag="BSU_12900" /old_locus_tag="BSU12900" downshifts complement(1357950) /Source="Nicolas_upshifts" /id="D705" /incds=0 /nref=198 /ntot=244 /MaxReadThrough="2.95586" /MaxDrop="5.35972" /score="30.7234179" /energy="-19.9" /TU="NA" /idTUdmin="U1044" /TUdmin=0 /isTUend="TRUE" promotor_-35 1359325..1359332 /Source="Nicolas_upshift_promotors" /id="U1043" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.948051948051948" /psig="0.999000999001" /xcortree=2991 /SigmaFactorBS="tcatgttcactccgtttctctattttcacatgtctatttaTA TTGATAggtttatgacttgaGTTTATCATAAACAAAAACTgtgggataaaaatgaaaa g" /GFF_Attribute="listShort" /listLong="proG" /label="promotor_-35" promotor_-10 complement(1359337..1359356) /Source="Nicolas_upshift_promotors" /id="U1044" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.865134865134865" /psig="0.998001998001998" /xcortree=1763 /SigmaFactorBS="tttccgcactttttcacaatttcccataatcttttcattttT ATCCCACagtttttgttTATGATAAACTCAAGTCATAaacctatcaatataaatagac a" /listShort="htrA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1359345 /Source="Nicolas_upshifts" /id="U1043" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.948051948051948" /psig="0.999000999001" /xcortree=2991 /SigmaFactorBS="tcatgttcactccgtttctctattttcacatgtctatttaTA TTGATAggtttatgacttgaGTTTATCATAAACAAAAACTgtgggataaaaatgaaaa g" /GFF_Attribute="listShort" /listLong="proG" promotor_-10 1359347..1359366 /Source="Nicolas_upshift_promotors" /id="U1043" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.948051948051948" /psig="0.999000999001" /xcortree=2991 /SigmaFactorBS="tcatgttcactccgtttctctattttcacatgtctatttaTA TTGATAggtttatgacttgaGTTTATCATAAACAAAAACTgtgggataaaaatgaaaa g" /GFF_Attribute="listShort" /listLong="proG" /label="promotor_-10" upshifts complement(1359355) /Source="Nicolas_upshifts" /id="U1044" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.865134865134865" /psig="0.998001998001998" /xcortree=1763 /SigmaFactorBS="tttccgcactttttcacaatttcccataatcttttcattttT ATCCCACagtttttgttTATGATAAACTCAAGTCATAaacctatcaatataaatagac a" /listShort="htrA" /GFF_Attribute="listLong" S_feature complement(1359357..1359439) /Source="Nicolas_S_feature" /locus_tag="new_1359357_1359439_c" /HighExp="Etha, dia5, S8, S6, T2.0H, T3.30H, dia15, T5.0H, BC, Diami" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.682" /TUlongSig="NA" /TUlongPSig="NA" /label="S463" promotor_-35 complement(1359367..1359374) /Source="Nicolas_upshift_promotors" /id="U1044" /multdbtbs="SigA" /comp="M4" /sig="SigA" /pcomp="0.865134865134865" /psig="0.998001998001998" /xcortree=1763 /SigmaFactorBS="tttccgcactttttcacaatttcccataatcttttcattttT ATCCCACagtttttgttTATGATAAACTCAAGTCATAaacctatcaatataaatagac a" /listShort="htrA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1359396..1359402 /Source="Nicolas_upshift_promotors" /id="U1045" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.390609390609391" /psig="0.994005994005994" /xcortree=2259 /SigmaFactorBS="aaaaactgtgggataaaaatgaaaagattatgggaaATTGTG AaaaagtgcggaaaaCGGTACACTTCATATTGTATatgaaaggactgagtcgatggaa c" /listShort="proG" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1359417..1359436 /Source="Nicolas_upshift_promotors" /id="U1045" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.390609390609391" /psig="0.994005994005994" /xcortree=2259 /SigmaFactorBS="aaaaactgtgggataaaaatgaaaagattatgggaaATTGTG AaaaagtgcggaaaaCGGTACACTTCATATTGTATatgaaaggactgagtcgatggaa c" /listShort="proG" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1359420 /Source="Nicolas_upshifts" /id="U1045" /multdbtbs="-" /comp="M17" /sig="SigA" /pcomp="0.390609390609391" /psig="0.994005994005994" /xcortree=2259 /SigmaFactorBS="aaaaactgtgggataaaaatgaaaagattatgggaaATTGTG AaaaagtgcggaaaaCGGTACACTTCATATTGTATatgaaaggactgagtcgatggaa c" /listShort="proG" /GFF_Attribute="listLong" promotor_-10 complement(1359422..1359441) /Source="Nicolas_upshift_promotors" /id="U1046" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.416583416583417" /psig="0.682317682317682" /xcortree=624 /SigmaFactorBS="tcatatccgccatgctgccatatccaatcaatccaatctGTT CcatcgactcagtcctTTCATATACAATATGAAGTGtaccgttttccgcactttttca c" /listShort="S463, htrA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1359439) /Source="Nicolas_upshifts" /id="U1046" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.416583416583417" /psig="0.682317682317682" /xcortree=624 /SigmaFactorBS="tcatatccgccatgctgccatatccaatcaatccaatctGTT CcatcgactcagtcctTTCATATACAATATGAAGTGtaccgttttccgcactttttca c" /listShort="S463, htrA" /GFF_Attribute="listLong" CDS 1359454..1360272 /gene="proCC" /locus_tag="BSU_12910" /old_locus_tag="BSU12910" /EC_number="1.5.1.2" /function="16.8: Protect" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:11418582" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11418582; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="redundant pyrroline-5-carboxylate reductase" /protein_id="NP_389174.1" /db_xref="EnsemblGenomes-Gn:BSU12910" /db_xref="EnsemblGenomes-Tr:CAB13148" /db_xref="GOA:Q00777" /db_xref="InterPro:IPR000304" /db_xref="InterPro:IPR008927" /db_xref="InterPro:IPR028939" /db_xref="InterPro:IPR029036" /db_xref="InterPro:IPR036291" /db_xref="SubtiList:BG10841" /db_xref="UniProtKB/Swiss-Prot:Q00777" /translation="MEQIGLIGYGSMADMIARQLLKHEQIKENELFIETRTKGERLRA LMSDYPNVSADPLENWANTCQLILICVPPLHVIETMRRLYPYVNRNTHIVSIAAGVPL RLLEAETEAGISRVIPAITSEAEAGISLVVHSEALAAEKKERLNELLSVFSRVREIKE SNLDVASNLTSSAPGFIAAIFEELALSAVRNSSLSKEEAFDFLIHSLYGTGKMLIEKN MSFEETLERVATKGGITGEGAEVIHASVPDVFDEVFERTLRKYELLTEQVGKQT*" gene 1359454..1360272 /gene="proCC" /locus_tag="BSU_12910" /old_locus_tag="BSU12910" promotor_-35 complement(1359457..1359460) /Source="Nicolas_upshift_promotors" /id="U1046" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.416583416583417" /psig="0.682317682317682" /xcortree=624 /SigmaFactorBS="tcatatccgccatgctgccatatccaatcaatccaatctGTT CcatcgactcagtcctTTCATATACAATATGAAGTGtaccgttttccgcactttttca c" /listShort="S463, htrA" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 1360250 /Source="Nicolas_upshifts" /id="D706" /incds=0 /nref=90 /ntot=220 /MaxReadThrough="1.3818" /MaxDrop="4.43155" /score="-5.08770006" /energy="-5.3" /TU="NA" /idTUdmin="U1045" /TUdmin=0 /isTUend="TRUE" promotor_-35 1360329..1360336 /Source="Nicolas_upshift_promotors" /id="U1047" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.984015984015984" /psig=1 /xcortree=2874 /SigmaFactorBS="tttatcactgaatgattgagatttttcccagttaTATTGCAT ttttcctcttttttTAATATAATTTGTTAGAATAttcataatttagtaaaaaaggagg a" /listShort="dppA, dppB, dppC, dppD, dppE, ykfA, ykfB, ykfC, ykfD, S465" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1360351..1360370 /Source="Nicolas_upshift_promotors" /id="U1047" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.984015984015984" /psig=1 /xcortree=2874 /SigmaFactorBS="tttatcactgaatgattgagatttttcccagttaTATTGCAT ttttcctcttttttTAATATAATTTGTTAGAATAttcataatttagtaaaaaaggagg a" /listShort="dppA, dppB, dppC, dppD, dppE, ykfA, ykfB, ykfC, ykfD, S465" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1360355 /Source="Nicolas_upshifts" /id="U1047" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.984015984015984" /psig=1 /xcortree=2874 /SigmaFactorBS="tttatcactgaatgattgagatttttcccagttaTATTGCAT ttttcctcttttttTAATATAATTTGTTAGAATAttcataatttagtaaaaaaggagg a" /listShort="dppA, dppB, dppC, dppD, dppE, ykfA, ykfB, ykfC, ykfD, S465" /GFF_Attribute="listLong" CDS 1360401..1361225 /gene="dppA" /locus_tag="BSU_12920" /old_locus_tag="BSU12920" /EC_number="3.4.11.-" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:11069674, 11473256, 19340926" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11069674, 11473256, 19340926; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="D-alanyl-aminopeptidase" /protein_id="NP_389175.2" /db_xref="EnsemblGenomes-Gn:BSU12920" /db_xref="EnsemblGenomes-Tr:CAB13149" /db_xref="GOA:P26902" /db_xref="InterPro:IPR007035" /db_xref="InterPro:IPR027476" /db_xref="InterPro:IPR033824" /db_xref="InterPro:IPR036177" /db_xref="PDB:1HI9" /db_xref="SubtiList:BG10842" /db_xref="UniProtKB/Swiss-Prot:P26902" /translation="MKLYMSVDMEGISGLPDDTFVDSGKRNYERGRLIMTEEANYCIA EAFNSGCTEVLVNDSHSKMNNLMVEKLHPEADLISGDVKPFSMVEGLDDTFRGALFLG YHARASTPGVMSHSMIFGVRHFYINDRPVGELGLNAYVAGYYDVPVLMVAGDDRAAKE AEELIPNVTTAAVKQTISRSAVKCLSPAKAGRLLTEKTAFALQNKDKVKPLTPPDRPV LSIEFANYGQAEWANLMPGTEIKTGTTTVQFQAKDMLEAYQAMLVMTELAMRTSFC*" gene 1360401..1361225 /gene="dppA" /locus_tag="BSU_12920" /old_locus_tag="BSU12920" CDS 1361242..1362168 /gene="dppB" /locus_tag="BSU_12930" /old_locus_tag="BSU12930" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:1766370, 7536291, 15849754, 16850406" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1766370, 7536291, 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="dipeptide ABC transporter (permease)" /protein_id="NP_389176.1" /db_xref="EnsemblGenomes-Gn:BSU12930" /db_xref="EnsemblGenomes-Tr:CAB13150" /db_xref="GOA:P26903" /db_xref="InterPro:IPR000515" /db_xref="InterPro:IPR035906" /db_xref="SubtiList:BG10843" /db_xref="UniProtKB/Swiss-Prot:P26903" /translation="MARYMIKRFWAMAATILVITTLTFVLMKVIPGSPFNEERGTNEA VQKNLEAYYHLDDPLIFQYIFYLKSIITFDFGPSIKKPSDSVNDMLERGFPVSFELGM TAIVIAVISGLVLGVIAALRRNGFLDYAAMSLAVLGISIPNFILATLLIQQFAVNLKL FPAATWTSPIHMVLPTAALAVGPMAIIARLTRSSMVEVLTQDYIRTAKAKGLSPFKII VKHALRNALMPVITVLGTLVASILTGSFVIEKIFAIPGMGKYFVESINQRDYPVIMGT TVFYSVILIIMLFLVDLAYGLLDPRIKLHKKG*" gene 1361242..1362168 /gene="dppB" /locus_tag="BSU_12930" /old_locus_tag="BSU12930" CDS 1362174..1363136 /gene="dppC" /locus_tag="BSU_12940" /old_locus_tag="BSU12940" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:1766370, 7536291, 15849754, 16850406" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 1766370, 7536291, 15849754, 16850406; Product type t: transporter" /codon_start=1 /transl_table=11 /product="dipeptide ABC transporter (permease)" /protein_id="NP_389177.1" /db_xref="EnsemblGenomes-Gn:BSU12940" /db_xref="EnsemblGenomes-Tr:CAB13151" /db_xref="GOA:P26904" /db_xref="InterPro:IPR000515" /db_xref="InterPro:IPR025966" /db_xref="InterPro:IPR035906" /db_xref="SubtiList:BG10844" /db_xref="UniProtKB/Swiss-Prot:P26904" /translation="MNLPVQTDERQPEQHNQVPDEWFVLNQEKNREADSVKRPSLSYT QDAWRRLKKNKLAMAGLFILLFLFVMAVIGPFLSPHSVVRQSLTEQNLPPSADHWFGT DELGRDVFTRTWYGARISLFVGVMAALIDFLIGVIYGGVAGYKGGRIDSIMMRIIEVL YGLPYLLVVILLMVLMGPGLGTIIVALTVTGWVGMARIVRGQVLQIKNYEYVLASKTF GAKTFRIIRKNLLPNTMGAIIVQMTLTVPAAIFAESFLSFLGLGIQAPFASWGVMAND GLPTILSGHWWRLFFPAFFISLTMYAFNVLGDGLQDALDPKLRR*" gene 1362174..1363136 /gene="dppC" /locus_tag="BSU_12940" /old_locus_tag="BSU12940" promotor_-35 1362868..1362873 /Source="Nicolas_upshift_promotors" /id="U1048" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=761 /SigmaFactorBS="cgcgaaaacctttcgcatcatccggaagaatttgctgcCGAA TActatgggagcgatcaTCGTACAAATGACATTAACcgtacctgccgccatattcgca g" /listShort="dppD, dppE, ykfA, ykfB, ykfC, ykfD, S465" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1362889..1362907 /Source="Nicolas_upshift_promotors" /id="U1048" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=761 /SigmaFactorBS="cgcgaaaacctttcgcatcatccggaagaatttgctgcCGAA TActatgggagcgatcaTCGTACAAATGACATTAACcgtacctgccgccatattcgca g" /listShort="dppD, dppE, ykfA, ykfB, ykfC, ykfD, S465" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1362890 /Source="Nicolas_upshifts" /id="U1048" /multdbtbs="-" /comp="M3" /sig="SigEF" /pcomp="0.997002997002997" /psig="0.997002997002997" /xcortree=761 /SigmaFactorBS="cgcgaaaacctttcgcatcatccggaagaatttgctgcCGAA TActatgggagcgatcaTCGTACAAATGACATTAACcgtacctgccgccatattcgca g" /listShort="dppD, dppE, ykfA, ykfB, ykfC, ykfD, S465" /GFF_Attribute="listLong" CDS 1363141..1364148 /gene="dppD" /locus_tag="BSU_12950" /old_locus_tag="BSU12950" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:7536291" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7536291; Product type t : transporter" /codon_start=1 /transl_table=11 /product="dipeptide ABC transporter (ATP-binding subunit)" /protein_id="NP_389178.1" /db_xref="EnsemblGenomes-Gn:BSU12950" /db_xref="EnsemblGenomes-Tr:CAB13152" /db_xref="GOA:P26905" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR013563" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG10845" /db_xref="UniProtKB/Swiss-Prot:P26905" /translation="MEKVLSVQNLHVSFTTYGGTVQAVRGVSFDLYKGETFAIVGESG CGKSVTSQSIMGLLPPYSAKVTDGRILFKNKDLCRLSDKEMRGIRGADISMIFQDPMT ALNPTLTVGDQLGEALLRHKKMSKKAARKEVLSMLSLVGIPDPGERLKQYPHQFSGGM RQRIVIAMALICEPDILIADEPTTALDVTIQAQILELFKEIQRKTDVSVILITHDLGV VAQVADRVAVMYAGKMAEIGTRKDIFYQPQHPYTKGLLGSVPRLDLNGAELTPIDGTP PDLFSPPPGCPFAARCPNRMVVCDRVYPGQTIRSDSHTVNCWLQDQRAEHAVLSGDAK D*" gene 1363141..1364148 /gene="dppD" /locus_tag="BSU_12950" /old_locus_tag="BSU12950" CDS 1364151..1365800 /gene="dppE" /locus_tag="BSU_12960" /old_locus_tag="BSU12960" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:7783641, 8793880, 11390694" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 7783641, 8793880, 11390694; Product type lp: lipoprotein" /codon_start=1 /transl_table=11 /product="dipeptide ABC transporter (dipeptide-binding lipoprotein)" /protein_id="NP_389179.2" /db_xref="EnsemblGenomes-Gn:BSU12960" /db_xref="EnsemblGenomes-Tr:CAB13153" /db_xref="GOA:P26906" /db_xref="InterPro:IPR000914" /db_xref="InterPro:IPR023765" /db_xref="InterPro:IPR030678" /db_xref="SubtiList:BG10846" /db_xref="UniProtKB/Swiss-Prot:P26906" /translation="MKRGKRMKRVKKLWGMGLALGLSFALMGCTANEQAGKEGSHDKA KTSGEKVLYVNNENEPTSFDPPIGFNNVSWQPLNNIMEGLTRLGKDHEPEPAMAEKWS VSKDNKTYTFTIRENAKWTNGDPVTAGDFEYAWKRMLDPKKGASSAFLGYFIEGGEAY NSGKGKKDDVKVTAKDDRTLEVTLEAPQKYFLSVVSNPAYFPVNEKVDKDNPKWFAES DTFVGNGPFKLTEWKHDDSITMEKSDTYWDKDTVKLDKVKWAMVSDRNTDYQMFQSGE LDTAYVPAELSDQLLDQDNVNIVDQAGLYFYRFNVNMEPFQNENIRKAFAMAVDQEEI VKYVTKNNEKPAHAFVSPGFTQPDGKDFREAGGDLIKPNESKAKQLLEKGMKEENYNK LPAITLTYSTKPEHKKIAEAIQQKLKNSLGVDVKLANMEWNVFLEDQKALKFQFSQSS FLPDYADPISFLEAFQTGNSMNRTGWANKEYDQLIKQAKNEADEKTRFSLMHQAEELL INEAPIIPVYFYNQVHLQNEQVKGIVRHPVGYIDLKWADKN*" gene 1364151..1365800 /gene="dppE" /locus_tag="BSU_12960" /old_locus_tag="BSU12960" downshifts 1365794 /Source="Nicolas_upshifts" /id="D707" /incds=0 /nref=2 /ntot=25 /MaxReadThrough="6.73127" /MaxDrop="3.5888" /score="22.838155" /energy="-13.9" /TU="U1047,U1048" /idTUdmin="U1048" /TUdmin="-4469" /isTUend="FALSE" CDS 1365888..1366847 /gene="ldcA" /locus_tag="BSU_12970" /old_locus_tag="BSU12970" /EC_number="3.4.17.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 10428950, 15101989, 18535144, 20944232, 24123814; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="muropeptide L,D-carboxypeptidase" /protein_id="NP_389180.2" /db_xref="EnsemblGenomes-Gn:BSU12970" /db_xref="EnsemblGenomes-Tr:CAB13154" /db_xref="GOA:O34851" /db_xref="InterPro:IPR003507" /db_xref="InterPro:IPR027461" /db_xref="InterPro:IPR027478" /db_xref="InterPro:IPR029062" /db_xref="SubtiList:BG13231" /db_xref="UniProtKB/Swiss-Prot:O34851" /translation="MKGVFSLNYKPKALNKGDTVGVIAPASPPDPKKLDTALLFLEEL GLQVKLGKALKNQHGYLAGQDDERLADLHEMFRDDEVKAVLCACGGFGTGRIAAGIDF SLIRKHPKIFWGYSDITFLHTAIHQNTGLVTFHGPMLSTDIGLDDVHPLTKASYKQLF QETEFTYTEELSPLTELVPGKAEGELVGGNLSLLTSTLGTPFEIDTRGKLLFIEDIDE EPYQIDRMLNQLKMGGKLTDAAGILVCDFHNCVPVKREKSLSLEQVLEDYIISAGRPA LRGFKIGHCSPSIAVPIGAKAAMNTAEKTAVIEAGVSEGALKT*" gene 1365888..1366847 /gene="ldcA" /locus_tag="BSU_12970" /old_locus_tag="BSU12970" CDS 1366844..1367944 /gene="aeeB" /locus_tag="BSU_12980" /old_locus_tag="BSU12980" /EC_number="5.1.1.20" /function="16.11: Scavenge (Catabolism)" /function="16.5: Explore" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:11747447, 11747448, 15101989" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11747447, 11747448, 15101989; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="L-Ala-D/L-Glu epimerase" /protein_id="NP_389181.1" /db_xref="EnsemblGenomes-Gn:BSU12980" /db_xref="EnsemblGenomes-Tr:CAB13155" /db_xref="GOA:O34508" /db_xref="InterPro:IPR013341" /db_xref="InterPro:IPR013342" /db_xref="InterPro:IPR029017" /db_xref="InterPro:IPR029065" /db_xref="InterPro:IPR034390" /db_xref="InterPro:IPR036849" /db_xref="PDB:1JPM" /db_xref="PDB:1TKK" /db_xref="SubtiList:BG13232" /db_xref="UniProtKB/Swiss-Prot:O34508" /translation="MKIIRIETSRIAVPLTKPFKTALRTVYTAESVIVRITYDSGAVG WGEAPPTLVITGDSMDSIESAIHHVLKPALLGKSLAGYEAILHDIQHLLTGNMSAKAA VEMALYDGWAQMCGLPLYQMLGGYRDTLETDYTVSVNSPEEMAADAENYLKQGFQTLK IKVGKDDIATDIARIQEIRKRVGSAVKLRLDANQGWRPKEAVTAIRKMEDAGLGIELV EQPVHKDDLAGLKKVTDATDTPIMADESVFTPRQAFEVLQTRSADLINIKLMKAGGIS GAEKINAMAEACGVECMVGSMIETKLGITAAAHFAASKRNITRFDFDAPLMLKTDVFN GGITYSGSTISMPGKPGLGIIGAALLKGEKEQ*" gene 1366844..1367944 /gene="aeeB" /locus_tag="BSU_12980" /old_locus_tag="BSU12980" CDS 1367941..1368831 /gene="eepC" /locus_tag="BSU_12990" /old_locus_tag="BSU12990" /EC_number="3.4.-.-" /function="16.11: Scavenge (Catabolism)" /function="16.5: Explore" /experiment="publication(s) with functional evidences, PMID:15101989, 20944232" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15101989, 20944232; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="gamma-D-glutamyl-L-diaminoacid endopeptidase" /protein_id="NP_389182.2" /db_xref="EnsemblGenomes-Gn:BSU12990" /db_xref="EnsemblGenomes-Tr:CAB13156" /db_xref="GOA:O35010" /db_xref="InterPro:IPR000064" /db_xref="SubtiList:BG13233" /db_xref="UniProtKB/Swiss-Prot:O35010" /translation="MMHTVISAVANIWTAPDSPRPSDQFMLQPTVMIRDWLERMTYDE RLGLCTDNVIQTQVLFGEKVLVTAEQGEWVSVIVPSQPSRKDPRGYPGWMKKYQLEKT KPIHTQHDVMISKPAAFLYRSNGEKEIELSFLTVLPLIAKENGYFKVSTVFGERFVRQ SDAVPVSQQKGTAEDIIQTGAFFLGLPYLWGGISGFGFDCSGFMYSIFKANGYSIPRD AGDQAKAGKGVPLDDMKAGDLLFFAYEEGKGAIHHVGLYVGGGKMLHSPKTGKSIEIL TLTETIYEKELCAVRRCFSE*" gene 1367941..1368831 /gene="eepC" /locus_tag="BSU_12990" /old_locus_tag="BSU12990" CDS 1368844..1369833 /gene="ykfD" /locus_tag="BSU_13000" /old_locus_tag="BSU13000" /function="16.1: Circulate" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15101989; Product type t: transporter" /codon_start=1 /transl_table=11 /product="putative cell wall oligopeptide ABC transporter (ATP binding protein)" /protein_id="NP_389183.2" /db_xref="EnsemblGenomes-Gn:BSU13000" /db_xref="EnsemblGenomes-Tr:CAB13157" /db_xref="GOA:C0SP98" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR013563" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG13234" /db_xref="UniProtKB/Swiss-Prot:C0SP98" /translation="MRRLPLLEVSQLKMHFDAGKKRTVKAVDGVTFQIREGETFGLVG ESGCGKSTLGRVLMRLYQPTEGSVTYRGTNLHALSEKEQFAFNRKLQMIFQDPYASLN PRMTVREIILEPMEIHNLYNTHKARLLVVDELLEAVGLHPDFGSRYPHEFSGGQRQRI GIARALSLNPEFIVADEPISALDVSVQAQVVNLLKRLQKEKGLTFLFIAHDLSMVKHI SDRIGVMYLGHMMEITESGTLYREPLHPYTKALLSSIPIPDPELEDKRERILLKGELP SPVNPPSGCVFRTRCPEAMPECGESRPQLQEIEPGRFVACHLYRNAETKEKVR*" gene 1368844..1369833 /gene="ykfD" /locus_tag="BSU_13000" /old_locus_tag="BSU13000" S_feature complement(1369127..1369854) /Source="Nicolas_S_feature" /locus_tag="new_1369127_1369854_c" /HighExp="Etha, S7, Gly, M40t90, C30, H2O2, M0t90, dia15, T1.0H, S8" /AntisenseName="ykfD" /AntisenseCor="-6.3474114158352593E-2" /AntisenseRegPval="-0.5" /CDS_PredictionProba="NA" /TUshortSig="SigB" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S464" downshifts 1369823 /Source="Nicolas_upshifts" /id="D708" /incds=0 /nref=1 /ntot=91 /MaxReadThrough="5.08319" /MaxDrop="3.1399" /score="-3.10371155" /energy="-13.9" /TU="U1047,U1048" /idTUdmin="U1048" /TUdmin="-440" /isTUend="FALSE" S_feature 1369868..1371036 /Source="Nicolas_S_feature" /locus_tag="new_1369868_1371036" /HighExp="T3.30H, T4.0H, T3.0H, T5.0H, T2.30H, T2.0H, S1, M9-stat, T1.30H, HiOs" /AntisenseName="ykgB" /AntisenseCor="-0.33524952291190102" /AntisenseRegPval="-7.8" /CDS_PredictionProba="NA" /TUshortSig="SigEF, SigA" /TUshortPSig="0.997, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S465" CDS complement(1369876..1370925) /gene="pgl" /locus_tag="BSU_13010" /old_locus_tag="BSU13010" /EC_number="3.1.1.31" /function="16.2: Construct biomass (Anabolism)" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:22960854, 28032445" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 22960854, 28032445; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="6-phosphogluconolactonase" /protein_id="NP_389184.1" /db_xref="EnsemblGenomes-Gn:BSU13010" /db_xref="EnsemblGenomes-Tr:CAB13158" /db_xref="GOA:O34499" /db_xref="InterPro:IPR011048" /db_xref="InterPro:IPR015943" /db_xref="InterPro:IPR019405" /db_xref="SubtiList:BG13236" /db_xref="UniProtKB/Swiss-Prot:O34499" /translation="MTKYIGYVGTYTKGGSEGIYSFELDTEKKALSEPKLAAKLGNPT YVATNKNNTILYSIEKADGQGGVAAYQIDKNSGELTFLNHQLIDGPSPCHVSVDDQNQ FVLTANYHSGKVHVFPVQEDGSLQSPVSEAAHTGKGPHERQEKPHTHYAGFTPEHNYV VAVDLGIDKLYTYKLKDGVLTESGSHSFAPGAGPRHIAFHPKEKYAYVMTELSNEVIA LEYNPTAGEFREIQVVSAIPDDFTDNSQGSAIHVTQDGRFVYVANRGHDSIAVFEVNQ YSGELAFVERVSTEGNWPRDFVFDPTEGFLVASNEETGNLVLFERDKETGRLTLLPST VSVPYPVCVKFLHQV*" gene complement(1369876..1370925) /gene="pgl" /locus_tag="BSU_13010" /old_locus_tag="BSU13010" downshifts complement(1369899) /Source="Nicolas_upshifts" /id="D709" /incds=0 /nref=208 /ntot=262 /MaxReadThrough="5.12776" /MaxDrop="6.0668" /score="24.6986564" /energy="-15.6" /TU="U1050" /idTUdmin="U1049" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(1370952..1370971) /Source="Nicolas_upshift_promotors" /id="U1049" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.524475524475524" /psig="0.996003996003996" /xcortree=2235 /SigmaFactorBS="ggcgaatgaagaatcttcccctttttcatgTTTTGAACagct tattttatcaAGATACGTTAATATAGAGGTgacatcatttttaagggggaaatcgcat g" /listShort="ykgB" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1370963) /Source="Nicolas_upshifts" /id="U1049" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.524475524475524" /psig="0.996003996003996" /xcortree=2235 /SigmaFactorBS="ggcgaatgaagaatcttcccctttttcatgTTTTGAACagct tattttatcaAGATACGTTAATATAGAGGTgacatcatttttaagggggaaatcgcat g" /listShort="ykgB" /GFF_Attribute="listLong" promotor_-35 complement(1370986..1370993) /Source="Nicolas_upshift_promotors" /id="U1049" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.524475524475524" /psig="0.996003996003996" /xcortree=2235 /SigmaFactorBS="ggcgaatgaagaatcttcccctttttcatgTTTTGAACagct tattttatcaAGATACGTTAATATAGAGGTgacatcatttttaagggggaaatcgcat g" /listShort="ykgB" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1371015..1371875) /gene="ddaH" /locus_tag="BSU_13020" /old_locus_tag="BSU13020" /EC_number="3.5.3.18" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 27258038; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="N(G),N(G)-dimethylarginine dimethylaminohydrolase" /protein_id="NP_389185.2" /db_xref="EnsemblGenomes-Gn:BSU13020" /db_xref="EnsemblGenomes-Tr:CAB13159" /db_xref="GOA:O34497" /db_xref="InterPro:IPR033199" /db_xref="SubtiList:BG13235" /db_xref="UniProtKB/Swiss-Prot:O34497" /translation="MDVSIPKSQHKTVCRTEYGTLQKVILCKPEHMTIKDVINETQKH FEDDNIHVKTANDQHSRLVEALRSHNVEVVLLPVRDGLPEQVFTRDIGFVIGEKAFLS SMTEPIRQGEEAVIKDFFHSQGISYTRMLDTSIEGGDVIIDDDIVYVGISQRTDISAI GQLEEALPEYTIVPVKLHEKFLHLDCVFNIISESEALIYSQAIEPDAADMLAKRYDLI EVPEDEQFTLGTNVLSIGKKTIISLPGNRHVNQQLSKRGYHIIEIDLSEIIKSGGSFR CCTMPLIRGE*" gene complement(1371015..1371875) /gene="ddaH" /locus_tag="BSU_13020" /old_locus_tag="BSU13020" promotor_-10 complement(1371900..1371918) /Source="Nicolas_upshift_promotors" /id="U1050" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=242 /SigmaFactorBS="aaacaatattctcttccatttgtctaaaatttaaaatGGTTT AAtgattttcatgatgaGGGAATAATAAATGTATTCttcacactttaggaggaaaaac a" /listShort="ykgA, ykgB, S464" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1371917) /Source="Nicolas_upshifts" /id="U1050" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=242 /SigmaFactorBS="aaacaatattctcttccatttgtctaaaatttaaaatGGTTT AAtgattttcatgatgaGGGAATAATAAATGTATTCttcacactttaggaggaaaaac a" /listShort="ykgA, ykgB, S464" /GFF_Attribute="listLong" promotor_-35 complement(1371934..1371940) /Source="Nicolas_upshift_promotors" /id="U1050" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=242 /SigmaFactorBS="aaacaatattctcttccatttgtctaaaatttaaaatGGTTT AAtgattttcatgatgaGGGAATAATAAATGTATTCttcacactttaggaggaaaaac a" /listShort="ykgA, ykgB, S464" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1371949..1371956 /Source="Nicolas_upshift_promotors" /id="U1051" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.933066933066933" /psig=1 /xcortree=2004 /SigmaFactorBS="cctcatcatgaaaatcattaaaccattttaaaTTTTAGACaa atggaagagaaTATTGTTTAATAGGAGAATAtaagtgcatttagctaaaagatcagac a" /listShort="ykhA, S466, hmp" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1371970..1371989 /Source="Nicolas_upshift_promotors" /id="U1051" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.933066933066933" /psig=1 /xcortree=2004 /SigmaFactorBS="cctcatcatgaaaatcattaaaccattttaaaTTTTAGACaa atggaagagaaTATTGTTTAATAGGAGAATAtaagtgcatttagctaaaagatcagac a" /listShort="ykhA, S466, hmp" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1371977 /Source="Nicolas_upshifts" /id="U1051" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.933066933066933" /psig=1 /xcortree=2004 /SigmaFactorBS="cctcatcatgaaaatcattaaaccattttaaaTTTTAGACaa atggaagagaaTATTGTTTAATAGGAGAATAtaagtgcatttagctaaaagatcagac a" /listShort="ykhA, S466, hmp" /GFF_Attribute="listLong" CDS 1372035..1372553 /gene="ykhA" /locus_tag="BSU_13030" /old_locus_tag="BSU13030" /EC_number="3.1.2.-" /function="16.11: Scavenge (Catabolism)" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 12426338, 18247525, 24623648, 24722906; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="promiscuous acyl-CoA thioesterase" /protein_id="NP_389186.2" /db_xref="EnsemblGenomes-Gn:BSU13030" /db_xref="EnsemblGenomes-Tr:CAB13160" /db_xref="GOA:P49851" /db_xref="InterPro:IPR006683" /db_xref="InterPro:IPR029069" /db_xref="InterPro:IPR033120" /db_xref="SubtiList:BG11417" /db_xref="UniProtKB/Swiss-Prot:P49851" /translation="METPETRFCKESKVVKTSRVFPLDTNNHNTLFGGKLMSYIDDIA SISAARHCRRETVTASMDSVDFLKPIGQKDSVCLESYVTWVGTSSMEVFVKVIKEHLM TGERELAATSFLTFVALDSNGKPVPVPRVVPETEEEIMLHNTAVQRANERKNRKRHSQ ALANALGTDKPW*" gene 1372035..1372553 /gene="ykhA" /locus_tag="BSU_13030" /old_locus_tag="BSU13030" downshifts 1372544 /Source="Nicolas_upshifts" /id="D710" /incds=0 /nref=34 /ntot=265 /MaxReadThrough="4.66856" /MaxDrop="4.77681" /score="24.0889455" /energy="-10.9" /TU="U1051" /idTUdmin="U1051" /TUdmin="-1436" /isTUend="FALSE" promotor_-35 1372618..1372624 /Source="Nicolas_upshift_promotors" /id="U1052" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=854 /SigmaFactorBS="tgttttgggtttttttgtacttttcaatggtgattattacaa TGGTTAGtccgtttttgctaGGGGATTCTATAaaaaagcaacaaatgtcatgttaaat t" /listShort="S466, hmp" /listLong="S467, ykjA, ykkA" /label="promotor_-35" S_feature 1372636..1372742 /Source="Nicolas_S_feature" /locus_tag="new_1372636_1372742" /HighExp="Etha, S5, S6, S8, nit, S7, ferm, S4, dia15, dia5" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigGF, SigA" /TUshortPSig="0.998, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S466" upshifts 1372636 /Source="Nicolas_upshifts" /id="U1052" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=854 /SigmaFactorBS="tgttttgggtttttttgtacttttcaatggtgattattacaa TGGTTAGtccgtttttgctaGGGGATTCTATAaaaaagcaacaaatgtcatgttaaat t" /listShort="S466, hmp" /listLong="S467, ykjA, ykkA" promotor_-10 1372638..1372649 /Source="Nicolas_upshift_promotors" /id="U1052" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.998001998001998" /psig="0.998001998001998" /xcortree=854 /SigmaFactorBS="tgttttgggtttttttgtacttttcaatggtgattattacaa TGGTTAGtccgtttttgctaGGGGATTCTATAaaaaagcaacaaatgtcatgttaaat t" /listShort="S466, hmp" /listLong="S467, ykjA, ykkA" /label="promotor_-10" promotor_-35 1372717..1372720 /Source="Nicolas_upshift_promotors" /id="U1053" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.452547452547453" /psig="0.99000999000999" /xcortree=1618 /SigmaFactorBS="ttgtgacaactttattaaagattcattttagatATATctttt attcgtaagaTCATGTATTTTAAAGATATAttttaaatacatcttttcgaaaggattg t" /listShort="hmp, S467, ykjA, ykkA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1372736..1372755 /Source="Nicolas_upshift_promotors" /id="U1053" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.452547452547453" /psig="0.99000999000999" /xcortree=1618 /SigmaFactorBS="ttgtgacaactttattaaagattcattttagatATATctttt attcgtaagaTCATGTATTTTAAAGATATAttttaaatacatcttttcgaaaggattg t" /listShort="hmp, S467, ykjA, ykkA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1372744 /Source="Nicolas_upshifts" /id="U1053" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.452547452547453" /psig="0.99000999000999" /xcortree=1618 /SigmaFactorBS="ttgtgacaactttattaaagattcattttagatATATctttt attcgtaagaTCATGTATTTTAAAGATATAttttaaatacatcttttcgaaaggattg t" /listShort="hmp, S467, ykjA, ykkA" /GFF_Attribute="listLong" CDS 1372792..1373991 /gene="hmpA" /locus_tag="BSU_13040" /old_locus_tag="BSU13040" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:10658656, 10972836, 12469342, 15231799, 15751990, 16261196, 16517672, 17293416, 24214949, 26786044" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10658656, 10972836, 12469342, 15231799, 15751990, 16261196, 16517672, 17293416, 24214949, 26786044; Product type c: carrier" /codon_start=1 /transl_table=11 /product="flavohemoglobin" /protein_id="NP_389187.1" /db_xref="EnsemblGenomes-Gn:BSU13040" /db_xref="EnsemblGenomes-Tr:CAB13161" /db_xref="GOA:P49852" /db_xref="InterPro:IPR000971" /db_xref="InterPro:IPR001221" /db_xref="InterPro:IPR001433" /db_xref="InterPro:IPR008333" /db_xref="InterPro:IPR009050" /db_xref="InterPro:IPR017927" /db_xref="InterPro:IPR017938" /db_xref="InterPro:IPR023950" /db_xref="SubtiList:BG11418" /db_xref="UniProtKB/Swiss-Prot:P49852" /translation="MLDNKTIEIIKSTVPVLQQHGETITGRFYDRMFQDHPELLNIFN QTNQKKKTQRTALANAVIAAAANIDQLGNIIPVVKQIGHKHRSIGIKPEHYPIVGKYL LIAIKDVLGDAATPDIMQAWEKAYGVIADAFIGIEKDMYEQAEEQAGGWKEYKPFVIA KKERESKEITSFYLKPEDSKPLPEFQAGQYISIKVRIPDSEYTHIRQYSLSDMPGKDY YRISVKKDGVVSSYLHDGLQEGDSIEISAPAGDFVLDHASQKDLVLISAGVGITPMIS MLKTSVSKQPERQILFIHAAKNSEYHALRHEVEEAAKHSAVKTAFVYREPTEEDRAGD LHFHEGQIDQQFLKELIANTDADYYICGSPSFITAMHKLVSELGSAPESIHYELFGPQ LSLAQSV*" gene 1372792..1373991 /gene="hmpA" /locus_tag="BSU_13040" /old_locus_tag="BSU13040" downshifts 1373980 /Source="Nicolas_upshifts" /id="D711" /incds=0 /nref=10 /ntot=59 /MaxReadThrough="6.06442" /MaxDrop="4.19301" /score="11.2868967" /energy="-9.3" /TU="U1053" /idTUdmin="U1051" /TUdmin=0 /isTUend="TRUE" S_feature 1374025..1374396 /Source="Nicolas_S_feature" /locus_tag="new_1374025_1374396" /HighExp="nit, B36, B60, Etha, BI, M40t90, LBGtran, M0t90, BT, S6" /AntisenseName="ykzH" /AntisenseCor="7.6554747052539299E-2" /AntisenseRegPval="-0.7" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.99" /TUlongSig="SigGF" /TUlongPSig="0.998" /label="S467" CDS complement(1374068..1374292) /gene="ykzH" /locus_tag="BSU_13050" /old_locus_tag="BSU13050" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_389188.1" /db_xref="EnsemblGenomes-Gn:BSU13050" /db_xref="EnsemblGenomes-Tr:CAB13162" /db_xref="SubtiList:BG13336" /db_xref="UniProtKB/Swiss-Prot:O31653" /translation="MKNQKSNTLWPFDLPLAPQPEGYQQQTIDRLAGLELRMKQLIRA IEVNNELLRTMQEQQNRVCTNGSGSVIVRM*" gene complement(1374068..1374292) /gene="ykzH" /locus_tag="BSU_13050" /old_locus_tag="BSU13050" promotor_-35 1374372..1374378 /Source="Nicolas_upshift_promotors" /id="U1054" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=927 /SigmaFactorBS="gttcaggcgatatgcacgttcgcctagacactgaTGCATAGa gggcctgccacgGGGCACAATAGGctcaatatgaccagcggatggaggtaaagatcgg t" /listShort="ykjA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1374392..1374403 /Source="Nicolas_upshift_promotors" /id="U1054" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=927 /SigmaFactorBS="gttcaggcgatatgcacgttcgcctagacactgaTGCATAGa gggcctgccacgGGGCACAATAGGctcaatatgaccagcggatggaggtaaagatcgg t" /listShort="ykjA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1374398 /Source="Nicolas_upshifts" /id="U1054" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=927 /SigmaFactorBS="gttcaggcgatatgcacgttcgcctagacactgaTGCATAGa gggcctgccacgGGGCACAATAGGctcaatatgaccagcggatggaggtaaagatcgg t" /listShort="ykjA" /GFF_Attribute="listLong" CDS 1374437..1375168 /gene="ykjA" /locus_tag="BSU_13060" /old_locus_tag="BSU13060" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved membrane protein of unknown function" /protein_id="NP_389189.1" /db_xref="EnsemblGenomes-Gn:BSU13060" /db_xref="EnsemblGenomes-Tr:CAB13163" /db_xref="GOA:P49853" /db_xref="InterPro:IPR007353" /db_xref="InterPro:IPR023090" /db_xref="SubtiList:BG11419" /db_xref="UniProtKB/Swiss-Prot:P49853" /translation="MLWMVWVFLLKPVIVFSIAYILFRLAGKKAVSQMNNFDLLLTFA IGTIISEPILTSKLPMSIYYAGAFLVLYLIMSKLSLSNKWRWLLVVSPTVLIRNGDID ERGLRKERLTVNELLGKLREKGYADPADIDLAIIEETGEVSVIPKEEARAVQVRDLNM EAERNFIPIPLILDGEILDHNLKYLQKNRSWLFEKLEEKGYSPKLLSSIILGTMNARG DISLDLNTANEPQHDPYLYKPGNNN*" gene 1374437..1375168 /gene="ykjA" /locus_tag="BSU_13060" /old_locus_tag="BSU13060" downshifts 1375146 /Source="Nicolas_upshifts" /id="D712" /incds=0 /nref=14 /ntot=29 /MaxReadThrough="2.84532" /MaxDrop="4.44655" /score="17.2468985" /energy="-7.2" /TU="U1053" /idTUdmin="U1054" /TUdmin=0 /isTUend="TRUE" promotor_-35 1375207..1375215 /Source="Nicolas_upshift_promotors" /id="U1055" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=551 /SigmaFactorBS="ctctctcttgtaatgagagcttttttcttttttAAAGGGAAT ttttgtttggTGTCAAATGTACCTAGTTAggaggggaactgaacatgaaggacttatc c" /listShort="ykkA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1375226..1375244 /Source="Nicolas_upshift_promotors" /id="U1055" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=551 /SigmaFactorBS="ctctctcttgtaatgagagcttttttcttttttAAAGGGAAT ttttgtttggTGTCAAATGTACCTAGTTAggaggggaactgaacatgaaggacttatc c" /listShort="ykkA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1375234 /Source="Nicolas_upshifts" /id="U1055" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=551 /SigmaFactorBS="ctctctcttgtaatgagagcttttttcttttttAAAGGGAAT ttttgtttggTGTCAAATGTACCTAGTTAggaggggaactgaacatgaaggacttatc c" /listShort="ykkA" /GFF_Attribute="listLong" CDS 1375260..1375787 /gene="ykkA" /locus_tag="BSU_13070" /old_locus_tag="BSU13070" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_389190.1" /db_xref="EnsemblGenomes-Gn:BSU13070" /db_xref="EnsemblGenomes-Tr:CAB13164" /db_xref="InterPro:IPR024775" /db_xref="InterPro:IPR034660" /db_xref="SubtiList:BG11420" /db_xref="UniProtKB/Swiss-Prot:P49854" /translation="MKDLSIRNDMAPTVSLLYSAVEENSLRLASIVSHMTHSELYYKG RCQTKNSTAQLLHHITNVDIRWVWRIKENRIPDHIEQAYGPMTDESGRLPEPVNQPDL DELLKRHQHVVEKLKSVCFTLTENALNQPLSFEGDTATIRWGIWHMADHNRYHQAHIE ALKKEWKQDVAKYER*" gene 1375260..1375787 /gene="ykkA" /locus_tag="BSU_13070" /old_locus_tag="BSU13070" CDS 1375777..1376295 /gene="ykkB" /locus_tag="BSU_13080" /old_locus_tag="BSU13080" /function="16.8: Protect" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 12793527; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative N-acetyltransferase" /protein_id="NP_389191.1" /db_xref="EnsemblGenomes-Gn:BSU13080" /db_xref="EnsemblGenomes-Tr:CAB13165" /db_xref="GOA:P49855" /db_xref="InterPro:IPR000182" /db_xref="InterPro:IPR016181" /db_xref="SubtiList:BG11421" /db_xref="UniProtKB/Swiss-Prot:P49855" /translation="MNAKTKLVTDRIRLRCMEDRDQATLFGLLFNDPDVMTYYSGLKD KRQTREWVNWNQRNEKGYGVSLWIAEDKRTGEFLGQCGIVPQQIENQTVMEIGYMFAR RHWGNGYAQEAARACLDYGFNERQFGKMAALIDPGNKASIRVAEKIGMHYSKTIRKWN KPIAVYERKSYN*" gene 1375777..1376295 /gene="ykkB" /locus_tag="BSU_13080" /old_locus_tag="BSU13080" promotor_-35 1376289..1376296 /Source="Nicolas_upshift_promotors" /id="U1056" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.838161838161838" /psig=1 /xcortree=3144 /SigmaFactorBS="gaataaaccgatcgcggtatatgaaagaaaatcttaCAATTG AAagatagagctgagTTTAGTATCATGATATCATGtaaagttttctagggttccgcat g" /listShort="NA, ykkC, ykkD" /listLong="purU" /label="promotor_-35" promotor_-10 1376310..1376329 /Source="Nicolas_upshift_promotors" /id="U1056" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.838161838161838" /psig=1 /xcortree=3144 /SigmaFactorBS="gaataaaccgatcgcggtatatgaaagaaaatcttaCAATTG AAagatagagctgagTTTAGTATCATGATATCATGtaaagttttctagggttccgcat g" /listShort="NA, ykkC, ykkD" /listLong="purU" /label="promotor_-10" upshifts 1376313 /Source="Nicolas_upshifts" /id="U1056" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.838161838161838" /psig=1 /xcortree=3144 /SigmaFactorBS="gaataaaccgatcgcggtatatgaaagaaaatcttaCAATTG AAagatagagctgagTTTAGTATCATGATATCATGtaaagttttctagggttccgcat g" /listShort="NA, ykkC, ykkD" /listLong="purU" misc_RNA 1376328..1376439 /gene="gdwA" /locus_tag="BSU_misc_RNA_16" /product="guanidine-sensing riboswitch (binds free guanidinium)" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 17908319, 21317561, 27989440, 28001368, 28017522, 28107646, 28212758; Product type n: RNA" gene 1376328..1376439 /gene="gdwA" /locus_tag="BSU_misc_RNA_16" downshifts 1376402 /Source="Nicolas_upshifts" /id="D713" /incds=0 /nref=205 /ntot=246 /MaxReadThrough="3.70824" /MaxDrop="6.58389" /score="30.3456563" /energy="-18.5" /TU="U1056" /idTUdmin="U1056" /TUdmin="-789" /isTUend="FALSE" CDS 1376517..1376855 /gene="gdnC" /locus_tag="BSU_13090" /old_locus_tag="BSU13090" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:10735877, 10931887, 15096624, 28001372" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10735877, 10931887, 15096624, 28001372; Product type t: transporter" /codon_start=1 /transl_table=11 /product="guanidinium efflux transporter subunit" /protein_id="NP_389192.1" /db_xref="EnsemblGenomes-Gn:BSU13090" /db_xref="EnsemblGenomes-Tr:CAB13166" /db_xref="GOA:P49856" /db_xref="InterPro:IPR000390" /db_xref="SubtiList:BG11422" /db_xref="UniProtKB/Swiss-Prot:P49856" /translation="MKWGLVVLAAVFEVVWVIGLKHADSALTWSGTAIGIIFSFYLLM KATHSLPVGTVYAVFTGLGTAGTVLSEIVLFHEPVGWPKLLLIGVLLIGVIGLKLVTQ DETEEKGGEA*" gene 1376517..1376855 /gene="gdnC" /locus_tag="BSU_13090" /old_locus_tag="BSU13090" CDS 1376855..1377172 /gene="gdnD" /locus_tag="BSU_13100" /old_locus_tag="BSU13100" /function="16.8: Protect" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:10735877, 10931887, 15096624, 28001372" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10735877, 10931887, 15096624, 28001372; Product type t: transporter" /codon_start=1 /transl_table=11 /product="guanidinium efflux transporter subunit" /protein_id="NP_389193.1" /db_xref="EnsemblGenomes-Gn:BSU13100" /db_xref="EnsemblGenomes-Tr:CAB13167" /db_xref="GOA:P49857" /db_xref="InterPro:IPR000390" /db_xref="SubtiList:BG11423" /db_xref="UniProtKB/Swiss-Prot:P49857" /translation="MLHWISLLCAGCLEMAGVALMNQYAKEKSVKWVLLIIVGFAASF SLLSYAMETTPMGTAYAVWTGIGTAGGALIGILFYKEQKDAKRIFFIALILCSAVGLK ILS*" gene 1376855..1377172 /gene="gdnD" /locus_tag="BSU_13100" /old_locus_tag="BSU13100" promotor_-35 1377172..1377175 /Source="Nicolas_upshift_promotors" /id="U1057" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.647352647352647" /psig="0.998001998001998" /xcortree=2582 /SigmaFactorBS="tcagcagttggtttaaaaattctgtcataAATTgatttttat caaatcTTCAGTATAATGGATAAATAgtttagacttacaaagataagagggattattc a" /listShort="purU, NA, proB, proA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1377191..1377210 /Source="Nicolas_upshift_promotors" /id="U1057" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.647352647352647" /psig="0.998001998001998" /xcortree=2582 /SigmaFactorBS="tcagcagttggtttaaaaattctgtcataAATTgatttttat caaatcTTCAGTATAATGGATAAATAgtttagacttacaaagataagagggattattc a" /listShort="purU, NA, proB, proA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1377203 /Source="Nicolas_upshifts" /id="U1057" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.647352647352647" /psig="0.998001998001998" /xcortree=2582 /SigmaFactorBS="tcagcagttggtttaaaaattctgtcataAATTgatttttat caaatcTTCAGTATAATGGATAAATAgtttagacttacaaagataagagggattattc a" /listShort="purU, NA, proB, proA" /GFF_Attribute="listLong" CDS 1377243..1378145 /gene="purU" /locus_tag="BSU_13110" /old_locus_tag="BSU13110" /EC_number="3.5.1.10" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 8226647, 24108189; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="formyltetrahydrofolate hydrolase" /protein_id="NP_389194.2" /db_xref="EnsemblGenomes-Gn:BSU13110" /db_xref="EnsemblGenomes-Tr:CAB13168" /db_xref="GOA:O34990" /db_xref="InterPro:IPR002376" /db_xref="InterPro:IPR002912" /db_xref="InterPro:IPR004810" /db_xref="InterPro:IPR036477" /db_xref="SubtiList:BG13237" /db_xref="UniProtKB/Swiss-Prot:O34990" /translation="MKSYMTQRLDEYRDGNEDKGRLLVSCPDQPGIVSAVSAFLFEHG ANIIESNQYTTDPEGGRFFLRIEFDCAGIREKKSSLQAAFASVAEKFDMTWSLTLASE LKRVAIFVSKELHCLHELIWEWQTGNLMAEIAVVISNHEEARELVERLNIPFHYMKAN KDIRAEVEKKQLELLEQYDVDVIVLARYMQILTPDFVSAHPNRIINIHHSFLPAFIGA NPYKRAYERGVKLIGATSHYVTNDLDEGPIIEQDIERVDHRDNAEALKNIGRTIERSV LARAVKWHLEDRVIVHENKTIVFN*" gene 1377243..1378145 /gene="purU" /locus_tag="BSU_13110" /old_locus_tag="BSU13110" downshifts 1378136 /Source="Nicolas_upshifts" /id="D714" /incds=0 /nref=91 /ntot=226 /MaxReadThrough="3.55628" /MaxDrop="5.02155" /score="16.8011006" /energy="-13.1" /TU="U1057" /idTUdmin="U1056" /TUdmin=945 /isTUend="FALSE" promotor_-35 1378192..1378198 /Source="Nicolas_upshift_promotors" /id="U1058" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.482517482517482" /psig="0.998001998001998" /xcortree=3136 /SigmaFactorBS="agactgcaagaggcccgcgcaatgcgggctatttttgatgac aaaaaaCCTTGACaagtgtcttttttCTTTGCATAATATAAAAAAAtcattgagcgtt g" /listShort="NA, proB, proA" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1378204 /Source="Nicolas_upshifts" /id="U1058" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.482517482517482" /psig="0.998001998001998" /xcortree=3136 /SigmaFactorBS="agactgcaagaggcccgcgcaatgcgggctatttttgatgac aaaaaaCCTTGACaagtgtcttttttCTTTGCATAATATAAAAAAAtcattgagcgtt g" /listShort="NA, proB, proA" /GFF_Attribute="listLong" promotor_-10 1378212..1378231 /Source="Nicolas_upshift_promotors" /id="U1058" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.482517482517482" /psig="0.998001998001998" /xcortree=3136 /SigmaFactorBS="agactgcaagaggcccgcgcaatgcgggctatttttgatgac aaaaaaCCTTGACaagtgtcttttttCTTTGCATAATATAAAAAAAtcattgagcgtt g" /listShort="NA, proB, proA" /GFF_Attribute="listLong" /label="promotor_-10" misc_RNA 1378233..1378443 /gene="pswB" /locus_tag="BSU_misc_RNA_17" /product="T-box riboswitch specific of proline tRNA" /experiment="publication(s) with functional evidences, PMID:11917026, 12749771, 19932103, 21233158" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11917026, 12749771, 19932103, 21233158; Product type n: RNA" /function="16.3: Control" gene 1378233..1378443 /gene="pswB" /locus_tag="BSU_misc_RNA_17" downshifts 1378401 /Source="Nicolas_upshifts" /id="D715" /incds=0 /nref=4 /ntot=52 /MaxReadThrough="6.91996" /MaxDrop="3.8361" /score="29.5878921" /energy="-17.6" /TU="U1057,U1058" /idTUdmin="U1056" /TUdmin=1210 /isTUend="FALSE" CDS 1378496..1379593 /gene="proB" /locus_tag="BSU_13120" /old_locus_tag="BSU13120" /EC_number="2.7.2.11" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:16958849, 8083159, 21233158, 21784929" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16958849, 8083159, 21233158, 21784929; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="glutamate 5-kinase" /protein_id="NP_389195.2" /db_xref="EnsemblGenomes-Gn:BSU13120" /db_xref="EnsemblGenomes-Tr:CAB13169" /db_xref="GOA:P39820" /db_xref="InterPro:IPR001048" /db_xref="InterPro:IPR001057" /db_xref="InterPro:IPR002478" /db_xref="InterPro:IPR005715" /db_xref="InterPro:IPR011529" /db_xref="InterPro:IPR015947" /db_xref="InterPro:IPR019797" /db_xref="InterPro:IPR036393" /db_xref="InterPro:IPR036974" /db_xref="SubtiList:BG10963" /db_xref="UniProtKB/Swiss-Prot:P39820" /translation="MKKQRIVVKIGSSSLTNSKGSIDEAKIREHVQAISVLKKAGHEM ILITSGAVAAGFSSLGYPSRPVTIKGKQAAAAVGQTLLMQQYMNQFKQYSLTPGQILL TRNDFSKRERYRNAYATIMELLERGVIPIINENDSTSVEELTFGDNDMLSALVSGLIH ADQLMILTDINGLYDANPNENPEAKRFDYLPEITPELLGYAGSAGSKVGTGGMKSKLL ATQTALSLGVKVFIGTGSGEQKLADILDGRGDGTYIGDKELSSVNNTRQWIQFHSPIS GEIIIDAGAEEAMIHNGSSLLPAGVVGVNGSFPKGAVVEVRGPGGVIGKGQTHYSSEE IMEAKGKRSDELDFEKTFEVIHRNDWVNVKD*" gene 1378496..1379593 /gene="proB" /locus_tag="BSU_13120" /old_locus_tag="BSU13120" promotor_-35 1378683..1378685 /Source="Nicolas_upshift_promotors" /id="U1059" /multdbtbs="-" /comp="M20" /sig="Sig-" /pcomp="0.365634365634366" /psig="0.206793206793207" /xcortree=1776 /SigmaFactorBS="gattctgattacctcgggtgccgtagcggcggggttttccag cctcggttatccatCCCgTCCCGttaccatcaaaggaaaacaggcggcggccgcggtc g" /listShort="proA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1378687..1378691 /Source="Nicolas_upshift_promotors" /id="U1059" /multdbtbs="-" /comp="M20" /sig="Sig-" /pcomp="0.365634365634366" /psig="0.206793206793207" /xcortree=1776 /SigmaFactorBS="gattctgattacctcgggtgccgtagcggcggggttttccag cctcggttatccatCCCgTCCCGttaccatcaaaggaaaacaggcggcggccgcggtc g" /listShort="proA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1378687 /Source="Nicolas_upshifts" /id="U1059" /multdbtbs="-" /comp="M20" /sig="Sig-" /pcomp="0.365634365634366" /psig="0.206793206793207" /xcortree=1776 /SigmaFactorBS="gattctgattacctcgggtgccgtagcggcggggttttccag cctcggttatccatCCCgTCCCGttaccatcaaaggaaaacaggcggcggccgcggtc g" /listShort="proA" /GFF_Attribute="listLong" CDS 1379605..1380852 /gene="proA" /locus_tag="BSU_13130" /old_locus_tag="BSU13130" /EC_number="1.2.1.41" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:16958849, 8083159, 21784929, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 16958849, 8083159, 21784929, 22720735; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="gamma-glutamyl phosphate reductase" /protein_id="NP_389196.2" /db_xref="EnsemblGenomes-Gn:BSU13130" /db_xref="EnsemblGenomes-Tr:CAB13170" /db_xref="GOA:P39821" /db_xref="InterPro:IPR000965" /db_xref="InterPro:IPR012134" /db_xref="InterPro:IPR015590" /db_xref="InterPro:IPR016161" /db_xref="InterPro:IPR016162" /db_xref="InterPro:IPR020593" /db_xref="SubtiList:BG10964" /db_xref="UniProtKB/Swiss-Prot:P39821" /translation="MSEVSVKAKLAKEAAAEMIMKTTAEKDEALSLIANGLRKELDFL LAENAKDIVNGKENGLTPDIIDRLSLDEKRIRDIADAVELLIDLADPIGDSLETIEKE NGLFIEKIRVPLGVVGMIYEARPNVTVDAATLCLKTGNAVVLRGSSSAIHSNKALVSV IYRALEQSALPIHAVQLIEDTSRETAKELFTLNDGLDVLIPRGGKKLIDLVVRESTVP VLETGAGNCHIFIDETAKPQMAEKVVVNAKTQRPSVCNAIESLLIHKAWARQHGKELL DQLENAGVEIRGDELVCELHPSSKQASKEDWETEFLAPVLSVKTVENVQEAVKHIQQY GTNHSEAILTENDKNAVYFQTAVDAAAVYHNASTRFTDGFEFGYGAEIGISTQKLHAR GPMGLPALTSTKYIIKGTGQIRE*" gene 1379605..1380852 /gene="proA" /locus_tag="BSU_13130" /old_locus_tag="BSU13130" downshifts 1380843 /Source="Nicolas_upshifts" /id="D716" /incds=0 /nref=120 /ntot=228 /MaxReadThrough="4.1607" /MaxDrop="6.017" /score="11.118012" /energy="-11" /TU="U1058" /idTUdmin="U1059" /TUdmin=0 /isTUend="TRUE" promotor_-35 1380914..1380921 /Source="Nicolas_upshift_promotors" /id="U1060" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.947052947052947" /psig=1 /xcortree=3016 /SigmaFactorBS="ttacgagataagcttttttatacgcgaaaAATTGACAtttca aatttaattGTGTACAATTTAATTGTATAaaatatattgggggaatgaaaaatgagtc a" /listShort="ohrA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1380936..1380955 /Source="Nicolas_upshift_promotors" /id="U1060" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.947052947052947" /psig=1 /xcortree=3016 /SigmaFactorBS="ttacgagataagcttttttatacgcgaaaAATTGACAtttca aatttaattGTGTACAATTTAATTGTATAaaatatattgggggaatgaaaaatgagtc a" /listShort="ohrA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1380945 /Source="Nicolas_upshifts" /id="U1060" /multdbtbs="SigA" /comp="M14" /sig="SigA" /pcomp="0.947052947052947" /psig=1 /xcortree=3016 /SigmaFactorBS="ttacgagataagcttttttatacgcgaaaAATTGACAtttca aatttaattGTGTACAATTTAATTGTATAaaatatattgggggaatgaaaaatgagtc a" /listShort="ohrA" /GFF_Attribute="listLong" CDS 1380978..1381403 /gene="ohrA" /locus_tag="BSU_13140" /old_locus_tag="BSU13140" /EC_number="1.11.1.15" /function="16.6: Maintain" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:11418552, 17502599, 21749987, 24184231" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11418552, 17502599, 21749987, 24184231; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="peroxiredoxin" /protein_id="NP_389197.1" /db_xref="EnsemblGenomes-Gn:BSU13140" /db_xref="EnsemblGenomes-Tr:CAB13171" /db_xref="GOA:O34762" /db_xref="InterPro:IPR003718" /db_xref="InterPro:IPR015946" /db_xref="InterPro:IPR019953" /db_xref="InterPro:IPR036102" /db_xref="SubtiList:BG13238" /db_xref="UniProtKB/Swiss-Prot:O34762" /translation="MSQPLFTATVSAVGGREGKVISSDRVLELDVAMPGTPRAKKLEK ATNPEQLFAAGYAACFDSALQLVARTERVKVETEVTANVSLLKDEADQGYKLGVTLQV KGEGVSASELEALVKKAHGVCPYSKATSGNIDVTLEVAE*" gene 1380978..1381403 /gene="ohrA" /locus_tag="BSU_13140" /old_locus_tag="BSU13140" downshifts 1381392 /Source="Nicolas_upshifts" /id="D717" /incds=0 /nref=57 /ntot=174 /MaxReadThrough="0.0429100000000009" /MaxDrop="3.90314" /score="30.9245751" /energy="-16.6" /TU="NA" /idTUdmin="U1060" /TUdmin="-1" /isTUend="TRUE" CDS complement(1381434..1381877) /gene="ohrR" /locus_tag="BSU_13150" /old_locus_tag="BSU13150" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11983871, 17502599, 18363800, 20094649, 21749987, 24184231" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11983871, 17502599, 18363800, 20094649, 21749987, 24184231; Product type r : regulator" /codon_start=1 /transl_table=11 /product="transcriptional regulator sensing organic peroxides" /protein_id="NP_389198.1" /db_xref="EnsemblGenomes-Gn:BSU13150" /db_xref="EnsemblGenomes-Tr:CAB13172" /db_xref="GOA:O34777" /db_xref="InterPro:IPR000835" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="PDB:1Z91" /db_xref="PDB:1Z9C" /db_xref="SubtiList:BG13239" /db_xref="UniProtKB/Swiss-Prot:O34777" /translation="MENKFDHMKLENQLCFLLYASSREMTKQYKPLLDKLNITYPQYL ALLLLWEHETLTVKKMGEQLYLDSGTLTPMLKRMEQQGLITRKRSEEDERSVLISLTE DGALLKEKAVDIPGTILGLSKQSGEDLKQLKSALYTLLETLHQKN*" gene complement(1381434..1381877) /gene="ohrR" /locus_tag="BSU_13150" /old_locus_tag="BSU13150" downshifts complement(1381468) /Source="Nicolas_upshifts" /id="D718" /incds=0 /nref=105 /ntot=232 /MaxReadThrough="-0.17111" /MaxDrop="4.73026" /score="34.7008532" /energy="-16.6" /TU="NA" /idTUdmin="U1061" /TUdmin=1 /isTUend="TRUE" promotor_-10 complement(1381904..1381923) /Source="Nicolas_upshift_promotors" /id="U1061" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.672327672327672" /psig=1 /xcortree=2020 /SigmaFactorBS="tctttttaaacatgctatgtttgccgagaATAGgaaaagtga ggtttTTCAGATACAATAGAATCGAatgacaaaaaagagttggtgaacaaaatggaaa a" /listShort="ohrR" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1381910) /Source="Nicolas_upshifts" /id="U1061" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.672327672327672" /psig=1 /xcortree=2020 /SigmaFactorBS="tctttttaaacatgctatgtttgccgagaATAGgaaaagtga ggtttTTCAGATACAATAGAATCGAatgacaaaaaagagttggtgaacaaaatggaaa a" /listShort="ohrR" /GFF_Attribute="listLong" promotor_-35 complement(1381938..1381941) /Source="Nicolas_upshift_promotors" /id="U1061" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.672327672327672" /psig=1 /xcortree=2020 /SigmaFactorBS="tctttttaaacatgctatgtttgccgagaATAGgaaaagtga ggtttTTCAGATACAATAGAATCGAatgacaaaaaagagttggtgaacaaaatggaaa a" /listShort="ohrR" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1381959..1381965 /Source="Nicolas_upshift_promotors" /id="U1062" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=232 /SigmaFactorBS="aacctcacttttcctattctcggcaaacatagcaTGTTTAAa aagatcagaaagGGAAATATAACAACTAGATacaaataaggaggttgggaaatatggc a" /listShort="ohrB, ykzN, S468" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1381979..1381997 /Source="Nicolas_upshift_promotors" /id="U1062" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=232 /SigmaFactorBS="aacctcacttttcctattctcggcaaacatagcaTGTTTAAa aagatcagaaagGGAAATATAACAACTAGATacaaataaggaggttgggaaatatggc a" /listShort="ohrB, ykzN, S468" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1381985 /Source="Nicolas_upshifts" /id="U1062" /multdbtbs="SigB" /comp="M11" /sig="SigB" /pcomp=1 /psig=1 /xcortree=232 /SigmaFactorBS="aacctcacttttcctattctcggcaaacatagcaTGTTTAAa aagatcagaaagGGAAATATAACAACTAGATacaaataaggaggttgggaaatatggc a" /listShort="ohrB, ykzN, S468" /GFF_Attribute="listLong" CDS 1382020..1382430 /gene="ohrB" /locus_tag="BSU_13160" /old_locus_tag="BSU13160" /EC_number="1.11.1.15" /function="16.6: Maintain" /function="16.8: Protect" /experiment="publication(s) with functional evidences, PMID:9696771, 11418552, 18084074" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 9696771, 11418552, 18084074; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="organic hydroperoxide resistance reductase B" /protein_id="NP_389199.1" /db_xref="EnsemblGenomes-Gn:BSU13160" /db_xref="EnsemblGenomes-Tr:CAB13173" /db_xref="GOA:P80242" /db_xref="InterPro:IPR003718" /db_xref="InterPro:IPR015946" /db_xref="InterPro:IPR019953" /db_xref="InterPro:IPR036102" /db_xref="PDB:2BJO" /db_xref="SubtiList:BG19021" /db_xref="UniProtKB/Swiss-Prot:P80242" /translation="MALFTAKVTARGGRAGHITSDDGVLDFDIVMPNAKKEGQTGTNP EQLFAAGYAACFGGALEHVAKEQNIEIDSEIEGQVSLMKDESDGGFKIGVTLVVNTKD LDREKAQELVNAAHEFCPYSKATRGNVDVKLELK*" gene 1382020..1382430 /gene="ohrB" /locus_tag="BSU_13160" /old_locus_tag="BSU13160" downshifts 1382408 /Source="Nicolas_upshifts" /id="D719" /incds=0 /nref=7 /ntot=145 /MaxReadThrough="8.17185" /MaxDrop="4.0663" /score="17.6512157" /energy="-12.1" /TU="U1062" /idTUdmin="U1062" /TUdmin="-855" /isTUend="FALSE" CDS 1382457..1382627 /gene="ykzN" /locus_tag="BSU_13169" /old_locus_tag="BSU13169" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 5: Unknown function" /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="YP_003097717.1" /db_xref="EnsemblGenomes-Gn:BSU13169" /db_xref="EnsemblGenomes-Tr:CAX52607" /db_xref="UniProtKB/Swiss-Prot:C0H400" /translation="MFFGVGHAGRAQIYDKTSEKRLKHAFKPKVTDEAGGWHGVCRAE LRVYAVLYLHRA*" gene 1382457..1382627 /gene="ykzN" /locus_tag="BSU_13169" /old_locus_tag="BSU13169" S_feature 1382628..1383305 /Source="Nicolas_S_feature" /locus_tag="new_1382628_1383305" /HighExp="Etha, Salt, M9-stat, Sw, B60, LPhT, B36, Heat, Gly, BC" /AntisenseName="guaD" /AntisenseCor="-5.7732597431508298E-2" /AntisenseRegPval="-0.5" /CDS_PredictionProba="NA" /TUshortSig="SigB" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S468" CDS complement(1382677..1383147) /gene="guaN" /locus_tag="BSU_13170" /old_locus_tag="BSU13170" /EC_number="3.5.4.3" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:11101664, 15180998" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11101664, 15180998; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="guanine deaminase" /protein_id="NP_389200.1" /db_xref="EnsemblGenomes-Gn:BSU13170" /db_xref="EnsemblGenomes-Tr:CAB13174" /db_xref="GOA:O34598" /db_xref="InterPro:IPR002125" /db_xref="InterPro:IPR016192" /db_xref="InterPro:IPR016193" /db_xref="PDB:1TIY" /db_xref="PDB:1WKQ" /db_xref="SubtiList:BG13240" /db_xref="UniProtKB/Swiss-Prot:O34598" /translation="MNHETFLKRAVTLACEGVNAGIGGPFGAVIVKDGAIIAEGQNNV TTSNDPTAHAEVTAIRKACKVLGAYQLDDCILYTSCEPCPMCLGAIYWARPKAVFYAA EHTDAAEAGFDDSFIYKEIDKPAEERTIPFYQVTLTEHLSPFQAWRNFANKKEY*" gene complement(1382677..1383147) /gene="guaN" /locus_tag="BSU_13170" /old_locus_tag="BSU13170" downshifts complement(1382701) /Source="Nicolas_upshifts" /id="D720" /incds=0 /nref=25 /ntot=112 /MaxReadThrough="0.698199999999999" /MaxDrop="4.30578" /score="-6.41557266" /energy="-13.5" /TU="NA" /idTUdmin="U1063" /TUdmin=0 /isTUend="TRUE" promotor_-10 complement(1383169..1383188) /Source="Nicolas_upshift_promotors" /id="U1063" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.434565434565435" /psig="0.933066933066933" /xcortree=790 /SigmaFactorBS="atcccccaaatactttgtttattttgcacttttttaagAATG ttctttgcattctttTCGGCTATACTAATAACACTctattgacaggagggattgggat g" /listShort="guaD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1383185) /Source="Nicolas_upshifts" /id="U1063" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.434565434565435" /psig="0.933066933066933" /xcortree=790 /SigmaFactorBS="atcccccaaatactttgtttattttgcacttttttaagAATG ttctttgcattctttTCGGCTATACTAATAACACTctattgacaggagggattgggat g" /listShort="guaD" /GFF_Attribute="listLong" S_feature complement(1383187..1383294) /Source="Nicolas_S_feature" /locus_tag="new_1383187_1383294_c" /HighExp="BMM, MG 10, MG 15, MG 5, MG t5, GM 25, B36, Gly, B60, GM 90" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="Sig-, SigA" /TUshortPSig="0.044, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S469" promotor_-35 complement(1383204..1383207) /Source="Nicolas_upshift_promotors" /id="U1063" /multdbtbs="SigA" /comp="M19" /sig="SigA" /pcomp="0.434565434565435" /psig="0.933066933066933" /xcortree=790 /SigmaFactorBS="atcccccaaatactttgtttattttgcacttttttaagAATG ttctttgcattctttTCGGCTATACTAATAACACTctattgacaggagggattgggat g" /listShort="guaD" /GFF_Attribute="listLong" /label="promotor_-35" downshifts 1383263 /Source="Nicolas_upshifts" /id="D721" /incds=0 /nref=9 /ntot=34 /MaxReadThrough="0.95942" /MaxDrop="5.95076" /score="15.2916843" /energy="-11.5" /TU="NA" /idTUdmin="U1062" /TUdmin=0 /isTUend="TRUE" CDS complement(1383320..1385608) /gene="metE" /locus_tag="BSU_13180" /old_locus_tag="BSU13180" /EC_number="2.1.1.14" /function="16.2: Construct biomass (Anabolism)" /experiment="publication(s) with functional evidences, PMID:8755891, 10094622, 12910260, 16086852, 16194229, 17012790, 17611193, 21749987, 22938038, 24313874" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 8755891, 10094622, 12910260, 16086852, 16194229, 17012790, 17611193, 21749987, 22938038, 24313874; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="cobalamin-independent methionine synthase" /protein_id="NP_389201.2" /db_xref="EnsemblGenomes-Gn:BSU13180" /db_xref="EnsemblGenomes-Tr:CAB13175" /db_xref="GOA:P80877" /db_xref="InterPro:IPR002629" /db_xref="InterPro:IPR006276" /db_xref="InterPro:IPR013215" /db_xref="SubtiList:BG12616" /db_xref="UniProtKB/Swiss-Prot:P80877" /translation="MTTIKTSNLGFPRIGLNREWKKALEAYWKGSTDKDTFLKQIDEL FLSAVKTQIDQQIDVVPVSDFTQYDHVLDTAVSFNWIPKRFRHLTDATDTYFAIARGI KDAVSSEMTKWFNTNYHYIVPEYDESIEFRLTRNKQLEDYRRIKQEYGVETKPVIVGP YTFVTLAKGYEPSEAKAIQKRLVPLYVQLLKELEEEGVKWVQIDEPALVTASSEDVRG AKELFESITSELSSLNVLLQTYFDSVDAYEELISYPVQGIGLDFVHDKGRNLEQLKTH GFPTDKVLAAGVIDGRNIWKADLEERLDAVLDILSIAKVDELWIQPSSSLLHVPVAKH PDEHLEKDLLNGLSYAKEKLAELTALKEGLVSGKAAISEEIQQAKADIQALKQFATGA NSEQKKELEQLTDKDFKRPIPFEERLALQNESLGLPLLPTTTIGSFPQSAEVRSARQK WRKAEWSDEQYQNFINAETKRWIDIQEELELDVLVHGEFERTDMVEYFGEKLAGFAFT KYAWVQSYGSRCVRPPVIYGDVEFIEPMTVKDTVYAQSLTSKHVKGMLTGPVTILNWS FPRNDISRKEIAFQIGLALRKEVKALEDAGIQIIQVDEPALREGLPLKTRDWDEYLTW AAEAFRLTTSSVKNETQIHTHMCYSNFEDIVDTINDLDADVITIEHSRSHGGFLDYLK NHPYLKGLGLGVYDIHSPRVPSTEEMYNIIVDALAVCPTDRFWVNPDCGLKTRQQEET VAALKNMVEAAKQARAQQTQLV*" gene complement(1383320..1385608) /gene="metE" /locus_tag="BSU_13180" /old_locus_tag="BSU13180" downshifts complement(1383339) /Source="Nicolas_upshifts" /id="D722" /incds=0 /nref=212 /ntot=239 /MaxReadThrough="5.25958" /MaxDrop="7.50935" /score="29.3354648" /energy="-11.5" /TU="U1064,U1065" /idTUdmin="U1063" /TUdmin="-638" /isTUend="FALSE" S_feature complement(1385609..1385671) /Source="Nicolas_S_feature" /locus_tag="new_1385609_1385671_c" /HighExp="MG 15, MG 5, MG t5, BMM, T-1.40H, MG 25, MG 10, GM 25, Mal, Etha" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="Sig-, SigA, SigA" /TUshortPSig="0.044, 1, 0.587" /TUlongSig="NA" /TUlongPSig="NA" /label="S470" promotor_no_box complement(1385631..1385731) /Source="Nicolas_upshift_promotors" /id="U1064" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.332667332667333" /psig="0.043956043956044" /xcortree=3023 /SigmaFactorBS="agtgttttacgtagaaaagcctctttctctcatgggaaagag gctttttgttgtgagaaaacctcttagcagcctgtatccgcgggtgaaagagagtgtt t" /listShort="S470, metE, S469, guaD" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts complement(1385671) /Source="Nicolas_upshifts" /id="U1064" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.332667332667333" /psig="0.043956043956044" /xcortree=3023 /SigmaFactorBS="agtgttttacgtagaaaagcctctttctctcatgggaaagag gctttttgttgtgagaaaacctcttagcagcctgtatccgcgggtgaaagagagtgtt t" /listShort="S470, metE, S469, guaD" /GFF_Attribute="listLong" misc_RNA complement(1385736..1385891) /gene="mswB" /locus_tag="BSU_misc_RNA_18" /product="S-adenosylmethionine riboswitch" /experiment="publication(s) with functional evidences, PMID:10094622, 12626738, 12910260, 17381305, 18039762, 22543867" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10094622, 12626738, 12910260, 17381305, 18039762, 22543867; Product type n : RNA" /function="16.3: Control" gene complement(1385736..1385891) /gene="mswB" /locus_tag="BSU_misc_RNA_18" downshifts complement(1385737) /Source="Nicolas_upshifts" /id="D723" /incds=0 /nref=55 /ntot=106 /MaxReadThrough="8.12248" /MaxDrop="6.4813" /score="24.0596293" /energy="-16.2" /TU="U1065,U1066" /idTUdmin="U1066" /TUdmin="-308" /isTUend="FALSE" promotor_-10 complement(1385924..1385943) /Source="Nicolas_upshift_promotors" /id="U1065" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.992007992007992" /psig=1 /xcortree=2888 /SigmaFactorBS="acatcatgtaaataaaaatttcaaattctaTGTTGACAatga atttgaattacTGTTAAGATTACCAACAAATgattcaacttttcaaaaaattaataac a" /listShort="NA, S470, metE, S469, guaD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1385936) /Source="Nicolas_upshifts" /id="U1065" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.992007992007992" /psig=1 /xcortree=2888 /SigmaFactorBS="acatcatgtaaataaaaatttcaaattctaTGTTGACAatga atttgaattacTGTTAAGATTACCAACAAATgattcaacttttcaaaaaattaataac a" /listShort="NA, S470, metE, S469, guaD" /GFF_Attribute="listLong" S_feature complement(1385938..1386023) /Source="Nicolas_S_feature" /locus_tag="new_1385938_1386023_c" /HighExp="BT, BC, B36, M9-stat, T5.0H, S3, S6, T4.0H, S5, T0.30H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.587" /TUlongSig="NA" /TUlongPSig="NA" /label="S471" promotor_-35 complement(1385959..1385966) /Source="Nicolas_upshift_promotors" /id="U1065" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.992007992007992" /psig=1 /xcortree=2888 /SigmaFactorBS="acatcatgtaaataaaaatttcaaattctaTGTTGACAatga atttgaattacTGTTAAGATTACCAACAAATgattcaacttttcaaaaaattaataac a" /listShort="NA, S470, metE, S469, guaD" /GFF_Attribute="listLong" /label="promotor_-35" CDS complement(1386024..1386983) /gene="ispA" /locus_tag="BSU_13190" /old_locus_tag="BSU13190" /EC_number="3.4.21.-" /function="16.6: Maintain" /function="16.11: Scavenge (Catabolism)" /experiment="publication(s) with functional evidences, PMID:3087947, 14680823, 23569278" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 3087947, 14680823, 23569278; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="intracellular serine protease" /protein_id="NP_389202.1" /db_xref="EnsemblGenomes-Gn:BSU13190" /db_xref="EnsemblGenomes-Tr:CAB13176" /db_xref="GOA:P11018" /db_xref="InterPro:IPR000209" /db_xref="InterPro:IPR015500" /db_xref="InterPro:IPR022398" /db_xref="InterPro:IPR023827" /db_xref="InterPro:IPR023828" /db_xref="InterPro:IPR034202" /db_xref="InterPro:IPR036852" /db_xref="SubtiList:BG10674" /db_xref="UniProtKB/Swiss-Prot:P11018" /translation="MNGEIRLIPYVTNEQIMDVNELPEGIKVIKAPEMWAKGVKGKNI KVAVLDTGCDTSHPDLKNQIIGGKNFTDDDGGKEDAISDYNGHGTHVAGTIAANDSNG GIAGVAPEASLLIVKVLGGENGSGQYEWIINGINYAVEQKVDIISMSLGGPSDVPELK EAVKNAVKNGVLVVCAAGNEGDGDERTEELSYPAAYNEVIAVGSVSVARELSEFSNAN KEIDLVAPGENILSTLPNKKYGKLTGTSMAAPHVSGALALIKSYEEESFQRKLSESEV FAQLIRRTLPLDIAKTLAGNGFLYLTAPDELAEKAEQSHLLTL*" gene complement(1386024..1386983) /gene="ispA" /locus_tag="BSU_13190" /old_locus_tag="BSU13190" S_feature complement(1386984..1387035) /Source="Nicolas_S_feature" /locus_tag="new_1386984_1387035_c" /HighExp="BT, B36, BC, T5.0H, M9-stat, T0.30H, T3.30H, T3.0H, T4.0H, S6" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.587" /TUlongSig="NA" /TUlongPSig="NA" /label="S472" promotor_-10 complement(1387028..1387047) /Source="Nicolas_upshift_promotors" /id="U1066" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.358641358641359" /psig="0.587412587412587" /xcortree=465 /SigmaFactorBS="tgtatcctattttttcaaaatgcttcaaatggcTCTGTCCga gcgcttgctttTTTCATATAATATGAGGCAAcacccttgaatccacttgcaagcataa a" /listShort="S472, ispA, S471, NA, S470, metE" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1387040) /Source="Nicolas_upshifts" /id="U1066" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.358641358641359" /psig="0.587412587412587" /xcortree=465 /SigmaFactorBS="tgtatcctattttttcaaaatgcttcaaatggcTCTGTCCga gcgcttgctttTTTCATATAATATGAGGCAAcacccttgaatccacttgcaagcataa a" /listShort="S472, ispA, S471, NA, S470, metE" /GFF_Attribute="listLong" promotor_-35 complement(1387061..1387067) /Source="Nicolas_upshift_promotors" /id="U1066" /multdbtbs="SigA" /comp="M7" /sig="SigA" /pcomp="0.358641358641359" /psig="0.587412587412587" /xcortree=465 /SigmaFactorBS="tgtatcctattttttcaaaatgcttcaaatggcTCTGTCCga gcgcttgctttTTTCATATAATATGAGGCAAcacccttgaatccacttgcaagcataa a" /listShort="S472, ispA, S471, NA, S470, metE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1387152..1387155 /Source="Nicolas_upshift_promotors" /id="U1067" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.3996003996004" /psig=1 /xcortree=2359 /SigmaFactorBS="gaattagtaatcttcaaaatattggatggcttcaacatgtat gaCTGGgattcaactgtaagtCAAGTTATAATAGTGTTGGGgaaaggagcagtgtcat g" /listShort="rsbRB" /GFF_Attribute="listLong" /label="promotor_-35" upshifts 1387168 /Source="Nicolas_upshifts" /id="U1067" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.3996003996004" /psig=1 /xcortree=2359 /SigmaFactorBS="gaattagtaatcttcaaaatattggatggcttcaacatgtat gaCTGGgattcaactgtaagtCAAGTTATAATAGTGTTGGGgaaaggagcagtgtcat g" /listShort="rsbRB" /GFF_Attribute="listLong" promotor_-10 1387171..1387190 /Source="Nicolas_upshift_promotors" /id="U1067" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.3996003996004" /psig=1 /xcortree=2359 /SigmaFactorBS="gaattagtaatcttcaaaatattggatggcttcaacatgtat gaCTGGgattcaactgtaagtCAAGTTATAATAGTGTTGGGgaaaggagcagtgtcat g" /listShort="rsbRB" /GFF_Attribute="listLong" /label="promotor_-10" CDS 1387206..1388039 /gene="rsbRB" /locus_tag="BSU_13200" /old_locus_tag="BSU13200" /function="16.8: Protect" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:15312768, 15583165, 17158665" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15312768, 15583165, 17158665; Product type f: factor" /codon_start=1 /transl_table=11 /product="component of the anxiosome (stressosome)" /protein_id="NP_389203.1" /db_xref="EnsemblGenomes-Gn:BSU13200" /db_xref="EnsemblGenomes-Tr:CAB13177" /db_xref="InterPro:IPR002645" /db_xref="InterPro:IPR036513" /db_xref="SubtiList:BG12609" /db_xref="UniProtKB/Swiss-Prot:O34860" /translation="MKLNEKLYAFFSEHVEQMAEEWIETMEESDPNSLYALHNATVTE ELKEQDREFYRHLNYMYVLPEKQFLEEFQEWVIELTNDQKHLDTPVQYVIREFMRNRR LYTKYFEKFAEENESAFEPGEKQKWADLIVKVFDFTIYTFVDHAEMNAKQQLNAQREM ILELSSPVITLSKSTALLPLVGDIDTERAKFILENTLQACAKRRVEHLLIDLSGVVVV DTMVAHQIFKLIEALNLIGVRSTLSGIRPEIAQTAVQLGIDFSNITIKTNLAQALNYH Q*" gene 1387206..1388039 /gene="rsbRB" /locus_tag="BSU_13200" /old_locus_tag="BSU13200" downshifts 1388015 /Source="Nicolas_upshifts" /id="D724" /incds=0 /nref=219 /ntot=254 /MaxReadThrough="3.01586" /MaxDrop="6.07238" /score="22.2655638" /energy="-12.1" /TU="NA" /idTUdmin="U1067" /TUdmin=0 /isTUend="TRUE" CDS complement(1388070..1388834) /gene="thiX" /locus_tag="BSU_13210" /old_locus_tag="BSU13210" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15849754, 16291685, 16356850, 16850406, 18931129" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15849754, 16291685, 16356850, 16850406, 18931129; Product type t : transporter" /codon_start=1 /transl_table=11 /product="thiamine transporter, transmembrane T component" /protein_id="NP_389204.1" /db_xref="EnsemblGenomes-Gn:BSU13210" /db_xref="EnsemblGenomes-Tr:CAB13178" /db_xref="GOA:O34572" /db_xref="InterPro:IPR003339" /db_xref="SubtiList:BG13248" /db_xref="UniProtKB/Swiss-Prot:O34572" /translation="MKQPLHLINPTVKAAAVFCCVVMLSFIYNPYTPACFYIIIVAGV LLAAGIPLKKWLLFTIPFLILAFGCVWTAAVFGKVPTTPDNFLFQAGPISINSDNVSV GISLGFRILCFSALSMMFVFTTDPILFMLSLVQQCRLSPKLAYGVIAGFRFLPLLKDE VQLIQQAHKIRGGAAESGIINKISALKRYTIPLLASAIRKAERTALAMESKGFTGSRN RTYYRTLSVNRRDWVFFCLVLLLFAGSFLVSLCFAS*" gene complement(1388070..1388834) /gene="thiX" /locus_tag="BSU_13210" /old_locus_tag="BSU13210" downshifts complement(1388091) /Source="Nicolas_upshifts" /id="D725" /incds=0 /nref=143 /ntot=164 /MaxReadThrough="0.824010000000001" /MaxDrop="6.67697" /score="34.7739353" /energy="-12.1" /TU="NA" /idTUdmin="U1069" /TUdmin=0 /isTUend="TRUE" CDS complement(1388809..1390452) /gene="thiW" /locus_tag="BSU_13220" /old_locus_tag="BSU13220" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15849754, 16291685, 16356850, 16850406, 18931129" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15849754, 16291685, 16356850, 16850406, 18931129; Product type t : transporter" /codon_start=1 /transl_table=11 /product="thiamine ABC transporter (ATP-binding subunit)" /protein_id="NP_389205.2" /db_xref="EnsemblGenomes-Gn:BSU13220" /db_xref="EnsemblGenomes-Tr:CAB13179" /db_xref="GOA:O34362" /db_xref="InterPro:IPR003439" /db_xref="InterPro:IPR003593" /db_xref="InterPro:IPR017871" /db_xref="InterPro:IPR027417" /db_xref="SubtiList:BG13249" /db_xref="UniProtKB/Swiss-Prot:O34362" /translation="MQAFDELLTVEQLSFSYEEDEKPVFQDISFELQKGECVLLLGPS GCGKSSLALCLNGLYPEACDGIQSGHVFLFQKPVTDAETSETITQHAGVVFQDPDQQF CMLTVEDEIAFGLENLQIPKEEMTEKINAVLEKLRITHLKEKMISTLSGGQKQKVALA CILAMEPELIILDEPTSLLDPFSAREFVHLMKDLQREKGFSLLVIEHQLDEWAPWIER TIVLDKSGKKALDGLTKNLFQHEAETLKKLGIAIPKVCHLQEKLSMPFTLSKEMLFKE PIPAGHVKKKKAPSGESVLEVSSLSFARGQQAIFKDISFSLREGSLTALVGPNGTGKS TLLSVLASLMKPQSGKILLYDQPLQKYKEKELRKRMGFVFQNPEHQFVTDTVYDELLF GQKANAETEKKAQHLLQRFGLAHLADHHPFAISQGQKRRLSVATMLMHDVKVLLLDEP TFGQDARTAAECMEMIQRIKAEGTAVLMITHDMELVSSYADSVLVLHDTGLAFDGSPA QLFSQETGLVQKAKLTLPLLYEWMAFQEEVRDEATVTSH*" gene complement(1388809..1390452) /gene="thiW" /locus_tag="BSU_13220" /old_locus_tag="BSU13220" CDS complement(1390439..1391038) /gene="thiV" /locus_tag="BSU_13230" /old_locus_tag="BSU13230" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15849754, 16291685, 16356850, 16850406, 27447050, 22720735" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15849754, 16291685, 16356850, 16850406, 27447050, 22720735; Product type t : transporter" /codon_start=1 /transl_table=11 /product="thiamine transporter, permease component" /protein_id="NP_389206.2" /db_xref="EnsemblGenomes-Gn:BSU13230" /db_xref="EnsemblGenomes-Tr:CAB13180" /db_xref="GOA:O34738" /db_xref="InterPro:IPR017195" /db_xref="PDB:5EDL" /db_xref="SubtiList:BG13250" /db_xref="UniProtKB/Swiss-Prot:O34738" /translation="MKSWKVKEIVIMSVISIVFAVVYLLFTHFGNVLAGMFGPIAYEP IYGIWFIVSVIAAYMIRKPGAALVSEIIAALVECLLGNPSGPMVIVIGIVQGLGAEAV FLATRWKAYSLPVLMLAGMGSSVASFIYDLFVSGYAAYSPGYLLIMLVIRLISGALLA GLLGKAVSDSLAYTGVLNGMALGKELKKKRKRASEHASL*" gene complement(1390439..1391038) /gene="thiV" /locus_tag="BSU_13230" /old_locus_tag="BSU13230" CDS complement(1391040..1391642) /gene="thiU" /locus_tag="BSU_13240" /old_locus_tag="BSU13240" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15451668, 16291685, 16356850, 20471400" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15451668, 16291685, 16356850, 20471400; Product type f: factor" /codon_start=1 /transl_table=11 /product="thiamine-binding protein (oxidation stress protein)" /protein_id="NP_389207.1" /db_xref="EnsemblGenomes-Gn:BSU13240" /db_xref="EnsemblGenomes-Tr:CAB13181" /db_xref="GOA:O34911" /db_xref="InterPro:IPR011522" /db_xref="InterPro:IPR015835" /db_xref="InterPro:IPR029756" /db_xref="PDB:1S7H" /db_xref="PDB:1S99" /db_xref="PDB:1SBR" /db_xref="SubtiList:BG13251" /db_xref="UniProtKB/Swiss-Prot:O34911" /translation="MEHICGTSRIAGFRFSLYPMTDDFISVIKSALKKTDTSKVWTKT DHISTVLRGSIDHVFDAAKAIYLHAANSEQHIVMNGTFSIGCPGDTQGDTYLSKGDKR VNEDAVRGLKAEAPCQFALYPMNEPDYMGLIMEAVDIAKAQGTFVQGVHYASELDGDA HDVFSTLEAVFRMAEQQTNHITMTVNLSANSPSRKNRKQG*" gene complement(1391040..1391642) /gene="thiU" /locus_tag="BSU_13240" /old_locus_tag="BSU13240" downshifts complement(1391720) /Source="Nicolas_upshifts" /id="D726" /incds=0 /nref=28 /ntot=88 /MaxReadThrough="7.47395" /MaxDrop="5.73297" /score="19.7469386" /energy="-10.9" /TU="U1069" /idTUdmin="U1069" /TUdmin="-3629" /isTUend="FALSE" misc_RNA complement(1391739..1391851) /gene="tswB" /locus_tag="BSU_misc_RNA_19" /product="thiamine pyrophosphate riboswitch" /note="Evidence 2a: Function from experimental evidences in other organisms; PubMedId: 11470904, 12410317, 15862294, 16728979, 16962976, 17307816, 18179415, 18776013; Product type n: RNA" /function="16.3: Control" gene complement(1391739..1391851) /gene="tswB" /locus_tag="BSU_misc_RNA_19" promotor_-35 1391852..1391855 /Source="Nicolas_upshift_promotors" /id="U1068" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.425574425574426" /psig="0.987012987012987" /xcortree=1848 /SigmaFactorBS="tcagccaaaacagcacccctagtgctttccGTATacaatttt ttattttGACATCATAATAGATGATAAgaatcattttgtaaacaacgaaatcattttt t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 complement(1391866..1391885) /Source="Nicolas_upshift_promotors" /id="U1069" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.917082917082917" /psig=1 /xcortree=2882 /SigmaFactorBS="accatcctctcccgtccctatatgaaaaaaatgatttcgtTG TTTACAaaatgattcttatcATCTATTATGATGTCAAAATaaaaaattgtatacggaa a" /listShort="NA, thiU, thiV, thiW, thiX" /GFF_Attribute="listLong" /label="promotor_-10" promotor_-10 1391871..1391890 /Source="Nicolas_upshift_promotors" /id="U1068" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.425574425574426" /psig="0.987012987012987" /xcortree=1848 /SigmaFactorBS="tcagccaaaacagcacccctagtgctttccGTATacaatttt ttattttGACATCATAATAGATGATAAgaatcattttgtaaacaacgaaatcattttt t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1391882 /Source="Nicolas_upshifts" /id="U1068" /multdbtbs="-" /comp="M7" /sig="SigA" /pcomp="0.425574425574426" /psig="0.987012987012987" /xcortree=1848 /SigmaFactorBS="tcagccaaaacagcacccctagtgctttccGTATacaatttt ttattttGACATCATAATAGATGATAAgaatcattttgtaaacaacgaaatcattttt t" /GFF_Attribute="listShort" /GFF_Attribute="listLong" upshifts complement(1391887) /Source="Nicolas_upshifts" /id="U1069" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.917082917082917" /psig=1 /xcortree=2882 /SigmaFactorBS="accatcctctcccgtccctatatgaaaaaaatgatttcgtTG TTTACAaaatgattcttatcATCTATTATGATGTCAAAATaaaaaattgtatacggaa a" /listShort="NA, thiU, thiV, thiW, thiX" /GFF_Attribute="listLong" promotor_-35 complement(1391900..1391907) /Source="Nicolas_upshift_promotors" /id="U1069" /multdbtbs="-" /comp="M14" /sig="SigA" /pcomp="0.917082917082917" /psig=1 /xcortree=2882 /SigmaFactorBS="accatcctctcccgtccctatatgaaaaaaatgatttcgtTG TTTACAaaatgattcttatcATCTATTATGATGTCAAAATaaaaaattgtatacggaa a" /listShort="NA, thiU, thiV, thiW, thiX" /GFF_Attribute="listLong" /label="promotor_-35" CDS 1391953..1392639 /gene="ykoG" /locus_tag="BSU_13250" /old_locus_tag="BSU13250" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11717295" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11717295; Product type r: regulator" /codon_start=1 /transl_table=11 /product="two-component response regulator [YkoH]" /protein_id="NP_389208.1" /db_xref="EnsemblGenomes-Gn:BSU13250" /db_xref="EnsemblGenomes-Tr:CAB13182" /db_xref="GOA:O34903" /db_xref="InterPro:IPR001789" /db_xref="InterPro:IPR001867" /db_xref="InterPro:IPR011006" /db_xref="InterPro:IPR036388" /db_xref="SubtiList:BG13252" /db_xref="UniProtKB/Swiss-Prot:O34903" /translation="MEKGHILIVEDEEKIARVLQLELEYEGYSVTIKHNGTEGLDAAA EGGYSLVLLDVMLPGLSGLEVLRRLRKTDSQTPVILLTARDSIPDKVTGLDIGANDYV TKPFEIEELLARIRAALRQNGTKTEDIGTFLTYDDLRVNEKTREVRRGDKEVELTPRE FDLLVYMLKHPQQVLTREQILSSVWGFDYIGDTNVVDVYIRYIRKKLDYPYEKQLIHT IRGVGYAIKG*" gene 1391953..1392639 /gene="ykoG" /locus_tag="BSU_13250" /old_locus_tag="BSU13250" CDS 1392643..1394007 /gene="ykoH" /locus_tag="BSU_13260" /old_locus_tag="BSU13260" /EC_number="2.7.13.3" /function="16.12: Sense" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:11717295" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11717295; Product type rc: receptor" /codon_start=1 /transl_table=11 /product="two-component sensor histidine kinase [YkoG]" /protein_id="NP_389209.1" /db_xref="EnsemblGenomes-Gn:BSU13260" /db_xref="EnsemblGenomes-Tr:CAB13183" /db_xref="GOA:O34638" /db_xref="InterPro:IPR003594" /db_xref="InterPro:IPR003660" /db_xref="InterPro:IPR003661" /db_xref="InterPro:IPR004358" /db_xref="InterPro:IPR005467" /db_xref="InterPro:IPR036097" /db_xref="InterPro:IPR036890" /db_xref="SubtiList:BG13253" /db_xref="UniProtKB/Swiss-Prot:O34638" /translation="MKLKTKIHLYTSISLLILLILVHTAVYLIFSSALTSKDAARLAD ETDNIAEALRAAETEGVALQDMLQAYLPANGMVRVVNGDQKAVMTITKEKAYKDFPLS FHSGETADVRKPDGKLFAEAAVPVIWTDGQVVSLQLVERLENTEESLFLLKIILIAAS AAVCIASFFAGSLLARRIINPIRRLMITMKDIQRDKEFKTISLEGQSNDELYQMGLTF NEMAMMLKEHYDKQQQFVQDASHELKTPLTIIESYSSLMKRWGAKKPEVLEESIEAIH SEAVHMKKLTNQLLALAKSHQGLEVDLKTIDLIKAARAVMQTLQSVYQRDILLETDKE SLLVKADEERIKQLLTILLDNAIKYSEKPIEMSAGTRNGRPFLSVRDEGIGIPEEHIP HLFERFYRADEARNRKTGGTGLGLSIAKQIADEHGIELSVKSKPGQGTAVTMQFSEQN GGGR*" gene 1392643..1394007 /gene="ykoH" /locus_tag="BSU_13260" /old_locus_tag="BSU13260" CDS 1394004..1394684 /gene="ykoI" /locus_tag="BSU_13270" /old_locus_tag="BSU13270" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 11717295; Product type m : membranecomponent" /codon_start=1 /transl_table=11 /product="conserved membrane protein of unknown function" /protein_id="NP_389210.1" /db_xref="EnsemblGenomes-Gn:BSU13270" /db_xref="EnsemblGenomes-Tr:CAB13184" /db_xref="GOA:O34551" /db_xref="InterPro:IPR014722" /db_xref="InterPro:IPR025711" /db_xref="SubtiList:BG13254" /db_xref="UniProtKB/Swiss-Prot:O34551" /translation="MTKTIKTVSFAAAAILVVIICTFLIIRQTHENVLSKETVVKKVE ASYEGKVTKATQSKDKKTYDITLENPKGTYFVKADAISADILSMNRVKAVNPSAMTEK EAEHLALERVPGTVKKQTRQSQVATYTIQKEDGKTYEVKVDMQAKTVLSADQISSKDQ QKTPITKKEAKTIAERKTGGTADDADLEESEGTLIFEVDVDLPDNKEATVKINAYTGK VANIVYED*" gene 1394004..1394684 /gene="ykoI" /locus_tag="BSU_13270" /old_locus_tag="BSU13270" promotor_-35 1394713..1394718 /Source="Nicolas_upshift_promotors" /id="U1070" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.352647352647353" /psig="0.748251748251748" /xcortree=658 /SigmaFactorBS="aagactgacggtttctcatcaaattctcatcttgctCTCGTT ttcctttcatgttgaGTATGTAAACTGTACTCATacaaaacaaaggagggctcacaaa t" /listShort="ykoJ, ykzD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1394734..1394752 /Source="Nicolas_upshift_promotors" /id="U1070" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.352647352647353" /psig="0.748251748251748" /xcortree=658 /SigmaFactorBS="aagactgacggtttctcatcaaattctcatcttgctCTCGTT ttcctttcatgttgaGTATGTAAACTGTACTCATacaaaacaaaggagggctcacaaa t" /listShort="ykoJ, ykzD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1394737 /Source="Nicolas_upshifts" /id="U1070" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.352647352647353" /psig="0.748251748251748" /xcortree=658 /SigmaFactorBS="aagactgacggtttctcatcaaattctcatcttgctCTCGTT ttcctttcatgttgaGTATGTAAACTGTACTCATacaaaacaaaggagggctcacaaa t" /listShort="ykoJ, ykzD" /GFF_Attribute="listLong" CDS 1394776..1395288 /gene="ykoJ" /locus_tag="BSU_13280" /old_locus_tag="BSU13280" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 17209068; Product type ph: phenotype" /codon_start=1 /transl_table=11 /product="putative exported protein" /protein_id="NP_389211.1" /db_xref="EnsemblGenomes-Gn:BSU13280" /db_xref="EnsemblGenomes-Tr:CAB13185" /db_xref="InterPro:IPR025711" /db_xref="SubtiList:BG13255" /db_xref="UniProtKB/Swiss-Prot:O35012" /translation="MLKKKWMVGLLAGCLAAGGFSYNAFATENNENRQASSKTDALTE QEAEAIAKTVVDGTVEDIDRDLYNGKEVYEVEIEKEGEDYDVYVDIHTKQALNDPLKE KAEQVAITKEEAEEIALKQTGGTVTESKLDEDDGAYIYEMEIQTKQGTETEFEISAKD GRIIKQEIDD*" gene 1394776..1395288 /gene="ykoJ" /locus_tag="BSU_13280" /old_locus_tag="BSU13280" downshifts 1395274 /Source="Nicolas_upshifts" /id="D727" /incds=0 /nref=52 /ntot=228 /MaxReadThrough="3.74302" /MaxDrop="6.03059" /score="28.1760649" /energy="-13.7" /TU="U1070" /idTUdmin="U1070" /TUdmin="-198" /isTUend="FALSE" promotor_-35 1395319..1395325 /Source="Nicolas_upshift_promotors" /id="U1071" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=922 /SigmaFactorBS="gatgactaatcaaaacccccgctgcagcgggggtttttcATG ATAAgaaaccttcttttGGACAATCTAAGtagaaaaggaggcgaaacgcatggaaaag a" /listShort="ykzD" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1395339..1395350 /Source="Nicolas_upshift_promotors" /id="U1071" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=922 /SigmaFactorBS="gatgactaatcaaaacccccgctgcagcgggggtttttcATG ATAAgaaaccttcttttGGACAATCTAAGtagaaaaggaggcgaaacgcatggaaaag a" /listShort="ykzD" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1395340 /Source="Nicolas_upshifts" /id="U1071" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.999000999001" /psig="0.999000999001" /xcortree=922 /SigmaFactorBS="gatgactaatcaaaacccccgctgcagcgggggtttttcATG ATAAgaaaccttcttttGGACAATCTAAGtagaaaaggaggcgaaacgcatggaaaag a" /listShort="ykzD" /GFF_Attribute="listLong" CDS 1395371..1395508 /gene="ykzD" /locus_tag="BSU_13290" /old_locus_tag="BSU13290" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_389212.1" /db_xref="EnsemblGenomes-Gn:BSU13290" /db_xref="EnsemblGenomes-Tr:CAB13186" /db_xref="InterPro:IPR022608" /db_xref="SubtiList:BG13332" /db_xref="UniProtKB/Swiss-Prot:O34405" /translation="MEKKEEQYINQAEYVPHPTKEGEYALFLHETYHLLSEDDETQTT E*" gene 1395371..1395508 /gene="ykzD" /locus_tag="BSU_13290" /old_locus_tag="BSU13290" downshifts 1395481 /Source="Nicolas_upshifts" /id="D728" /incds=0 /nref=7 /ntot=31 /MaxReadThrough="1.81189" /MaxDrop="3.56977" /score="-4.52149284" /energy="-5.9" /TU="NA" /idTUdmin="U1070" /TUdmin=9 /isTUend="TRUE" promotor_-35 1395567..1395574 /Source="Nicolas_upshift_promotors" /id="U1072" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.55044955044955" /psig=1 /xcortree=2735 /SigmaFactorBS="tccgtaattgtgatgtaagcgcatttattacttttttGAGTT GACatagcttgtttttTTCTGTAATCTCAGTGTGTCaattcaattaggaacttcgtta g" /listShort="S473, S474, mgtE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1395588..1395607 /Source="Nicolas_upshift_promotors" /id="U1072" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.55044955044955" /psig=1 /xcortree=2735 /SigmaFactorBS="tccgtaattgtgatgtaagcgcatttattacttttttGAGTT GACatagcttgtttttTTCTGTAATCTCAGTGTGTCaattcaattaggaacttcgtta g" /listShort="S473, S474, mgtE" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1395590..1395909 /Source="Nicolas_S_feature" /locus_tag="new_1395590_1395909" /HighExp="LBGstat, LBGtran, M40t45, MG 25, Mt0, Salt, MG 45, LPhT, BMM, MG t5" /AntisenseName="ykzO" /AntisenseCor="-0.16301119751811899" /AntisenseRegPval="-2.1" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S473" upshifts 1395590 /Source="Nicolas_upshifts" /id="U1072" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.55044955044955" /psig=1 /xcortree=2735 /SigmaFactorBS="tccgtaattgtgatgtaagcgcatttattacttttttGAGTT GACatagcttgtttttTTCTGTAATCTCAGTGTGTCaattcaattaggaacttcgtta g" /listShort="S473, S474, mgtE" /GFF_Attribute="listLong" misc_RNA 1395622..1395775 /gene="swmG" /locus_tag="BSU_misc_RNA_68" /product="magnesium riboswitch" /experiment="publication(s) with functional evidences, PMID:15096624, 17803910, 21315082, 28455443" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15096624, 17803910, 21315082, 28455443; Product type n: RNA" /function="16.12: Sense" /function="16.3: Control" gene 1395622..1395775 /gene="swmG" /locus_tag="BSU_misc_RNA_68" promotor_-35 1395887..1395896 /Source="Nicolas_upshift_promotors" /id="U1073" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.876123876123876" /psig="0.876123876123876" /xcortree=1632 /SigmaFactorBS="ccaatcaaaggaggtgcggagtatggattctccccaTTCGAG TCAAtctgaagaagtaCCCATATACTATGACAGCAAgacaattgattacacgatgagg a" /listShort="S474, mgtE" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1395909..1395928 /Source="Nicolas_upshift_promotors" /id="U1073" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.876123876123876" /psig="0.876123876123876" /xcortree=1632 /SigmaFactorBS="ccaatcaaaggaggtgcggagtatggattctccccaTTCGAG TCAAtctgaagaagtaCCCATATACTATGACAGCAAgacaattgattacacgatgagg a" /listShort="S474, mgtE" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1395911..1396012 /Source="Nicolas_S_feature" /locus_tag="new_1395911_1396012" /HighExp="LBGstat, LBGtran, M40t45, Mt0, LPhT, Paraq, MG t5, MG 25, MG 60, Salt" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="0.99773400000000001" /TUshortSig="SigK, SigA" /TUshortPSig="0.876, 1" /TUlongSig="NA" /TUlongPSig="NA" /label="S474" upshifts 1395911 /Source="Nicolas_upshifts" /id="U1073" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.876123876123876" /psig="0.876123876123876" /xcortree=1632 /SigmaFactorBS="ccaatcaaaggaggtgcggagtatggattctccccaTTCGAG TCAAtctgaagaagtaCCCATATACTATGACAGCAAgacaattgattacacgatgagg a" /listShort="S474, mgtE" /GFF_Attribute="listLong" CDS 1396013..1397368 /gene="mgtE" /locus_tag="BSU_13300" /old_locus_tag="BSU13300" /function="16.1: Circulate" /experiment="publication(s) with functional evidences, PMID:15096624, 22970223, 24415722, 24968120, 25182490" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 15096624, 22970223, 24415722, 24968120, 25182490; Product type t : transporter" /codon_start=1 /transl_table=11 /product="magnesium transporter" /protein_id="NP_389213.1" /db_xref="EnsemblGenomes-Gn:BSU13300" /db_xref="EnsemblGenomes-Tr:CAB13187" /db_xref="GOA:O34442" /db_xref="InterPro:IPR000644" /db_xref="InterPro:IPR006667" /db_xref="InterPro:IPR006668" /db_xref="InterPro:IPR006669" /db_xref="InterPro:IPR036739" /db_xref="SubtiList:BG13256" /db_xref="UniProtKB/Swiss-Prot:O34442" /translation="MVQNMTYDELILRIIILLRDGKIRDFRSVIDELQPYDMAFIFKE MPEKHRARYLSYLTVDDITDMIGELEREFQLVVLNKVGKTKATLAMNKMDNDDLAQLL EEMDEELKEQLLSSMEASESKAVQLLMNYPADSAGRMMTNRYVWIPQHYTVKDAVVKL KSFAEIAESINYLYVINESKQLVGVLSYRDLILGEPEEKVQDLMFTRVISADALQDQE EVARLIERYDFLAIPVVEENNVLVGIVTVDDIIDVVIREADEDYEKFAASGKDITFDT KAYVAAYRRLPWLILLLFIGLISGSIISYFEDALKQVVALAFFMPMVSGMTGNTGTQS LAVVIRGLSKEEMNKKTIVRLIFREFRTSIFIGAVCSVLIAIVSIIWQGNALLGFVVA SSLFLTLIIGTMSGTIIPIILHKLKVDPAIASGPLITTLNDILSLLIYFGIATAFIHS L*" gene 1396013..1397368 /gene="mgtE" /locus_tag="BSU_13300" /old_locus_tag="BSU13300" downshifts 1397359 /Source="Nicolas_upshifts" /id="D729" /incds=0 /nref=160 /ntot=239 /MaxReadThrough="1.02063" /MaxDrop="7.38933" /score="-4.14569718" /energy="-8.9" /TU="NA" /idTUdmin="U1072" /TUdmin="-4" /isTUend="TRUE" CDS complement(1397411..1397743) /gene="tnrA" /locus_tag="BSU_13310" /old_locus_tag="BSU13310" /function="16.3: Control" /experiment="publication(s) with functional evidences, PMID:10231480, 12823818, 15916606, 16547045, 17085574, 17183219, 21435182, 23535029, 26635369" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 10231480, 12823818, 15916606, 16547045, 17085574, 17183219, 21435182, 23535029, 26635369; Product type r: regulator" /codon_start=1 /transl_table=11 /product="nitrogen sensing transcriptional regulator" /protein_id="NP_389214.1" /db_xref="EnsemblGenomes-Gn:BSU13310" /db_xref="EnsemblGenomes-Tr:CAB13188" /db_xref="GOA:Q45666" /db_xref="InterPro:IPR000551" /db_xref="InterPro:IPR009061" /db_xref="PDB:4S0R" /db_xref="SubtiList:BG11805" /db_xref="UniProtKB/Swiss-Prot:Q45666" /translation="MTTEDHSYKDKKVISIGIVSELTGLSVRQIRYYEERKLIYPQRS SRGTRKYSFADVERLMDIANKREDGVQTAEILKDMRKKEQMLKNDPQVRKKMLEGQLN AHFRYKNR*" gene complement(1397411..1397743) /gene="tnrA" /locus_tag="BSU_13310" /old_locus_tag="BSU13310" promotor_-10 complement(1397759..1397778) /Source="Nicolas_upshift_promotors" /id="U1074" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.625374625374625" /psig="0.99100899100899" /xcortree=1709 /SigmaFactorBS="tttgatgttagaaaatatgacaagcgtcagGTTTTTtctctt tgttttttaTATACTATTATCAAAAGACAtccaggggtggaaaaatgaccacagaaga t" /listShort="tnrA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1397769) /Source="Nicolas_upshifts" /id="U1074" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.625374625374625" /psig="0.99100899100899" /xcortree=1709 /SigmaFactorBS="tttgatgttagaaaatatgacaagcgtcagGTTTTTtctctt tgttttttaTATACTATTATCAAAAGACAtccaggggtggaaaaatgaccacagaaga t" /listShort="tnrA" /GFF_Attribute="listLong" S_feature complement(1397771..1398159) /Source="Nicolas_S_feature" /locus_tag="new_1397771_1398159_c" /HighExp="M9-stat, BC, LoTm, T1.30H, T0.30H, T2.0H, S8, C30, T4.0H, T2.30H" /AntisenseName="ykzB" /AntisenseCor="-3.3870578787867499E-2" /AntisenseRegPval="-0.2" /CDS_PredictionProba="NA" /TUshortSig="SigA" /TUshortPSig="0.92" /TUlongSig="NA" /TUlongPSig="NA" /label="S475" promotor_-35 complement(1397794..1397799) /Source="Nicolas_upshift_promotors" /id="U1074" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.625374625374625" /psig="0.99100899100899" /xcortree=1709 /SigmaFactorBS="tttgatgttagaaaatatgacaagcgtcagGTTTTTtctctt tgttttttaTATACTATTATCAAAAGACAtccaggggtggaaaaatgaccacagaaga t" /listShort="tnrA" /GFF_Attribute="listLong" /label="promotor_-35" promotor_no_box 1397831..1397931 /Source="Nicolas_upshift_promotors" /id="U1075" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.375624375624376" /psig="0.295704295704296" /xcortree=315 /SigmaFactorBS="agaagatttttgaaaaaatacggaagaaaaattaacaagaat aatgcgtaacacccaagcgcgttttatcctttatgtaacgaatcaaacgaggaggaag g" /listShort="ykzB, ykoL" /GFF_Attribute="listLong" /label="promotor_no_box" upshifts 1397891 /Source="Nicolas_upshifts" /id="U1075" /multdbtbs="-" /comp="M21" /sig="Sig-" /pcomp="0.375624375624376" /psig="0.295704295704296" /xcortree=315 /SigmaFactorBS="agaagatttttgaaaaaatacggaagaaaaattaacaagaat aatgcgtaacacccaagcgcgttttatcctttatgtaacgaatcaaacgaggaggaag g" /listShort="ykzB, ykoL" /GFF_Attribute="listLong" CDS 1397938..1398093 /gene="ykzB" /locus_tag="BSU_13320" /old_locus_tag="BSU13320" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 10671441" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_389215.1" /db_xref="EnsemblGenomes-Gn:BSU13320" /db_xref="EnsemblGenomes-Tr:CAB13189" /db_xref="SubtiList:BG13330" /db_xref="UniProtKB/Swiss-Prot:O34923" /translation="MEEEKAVSLAKEIIELDIKRDEMLETFMQLAGEQAFQLLRSVQN GQYRKSS*" gene 1397938..1398093 /gene="ykzB" /locus_tag="BSU_13320" /old_locus_tag="BSU13320" promotor_-35 1398102..1398109 /Source="Nicolas_upshift_promotors" /id="U1076" /multdbtbs="SigA" /comp="M6" /sig="Sig-" /pcomp="0.985014985014985" /psig="0.006993006993007" /xcortree=10 /SigmaFactorBS="caataccgaaaatcttcgtaaacataaatTCTTTACAttaga tTCATACCACGTTCATTTAaaaagagtatcttttgtataggatacctcaaaatgaagg a" /listShort="ykoL, S476, ykoM" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1398116..1398133 /Source="Nicolas_upshift_promotors" /id="U1076" /multdbtbs="SigA" /comp="M6" /sig="Sig-" /pcomp="0.985014985014985" /psig="0.006993006993007" /xcortree=10 /SigmaFactorBS="caataccgaaaatcttcgtaaacataaatTCTTTACAttaga tTCATACCACGTTCATTTAaaaagagtatcttttgtataggatacctcaaaatgaagg a" /listShort="ykoL, S476, ykoM" /GFF_Attribute="listLong" /label="promotor_-10" upshifts 1398133 /Source="Nicolas_upshifts" /id="U1076" /multdbtbs="SigA" /comp="M6" /sig="Sig-" /pcomp="0.985014985014985" /psig="0.006993006993007" /xcortree=10 /SigmaFactorBS="caataccgaaaatcttcgtaaacataaatTCTTTACAttaga tTCATACCACGTTCATTTAaaaagagtatcttttgtataggatacctcaaaatgaagg a" /listShort="ykoL, S476, ykoM" /GFF_Attribute="listLong" promotor_-10 complement(1398144..1398163) /Source="Nicolas_upshift_promotors" /id="U1077" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.394605394605395" /psig="0.92007992007992" /xcortree=3030 /SigmaFactorBS="tcgttctttttctaaagcggatttcaataaattactCATAGC GtcctccttcatttTGAGGTATCCTATACAAAAGatactctttttaaatgaacgtggt a" /listShort="S475, tnrA" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1398159) /Source="Nicolas_upshifts" /id="U1077" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.394605394605395" /psig="0.92007992007992" /xcortree=3030 /SigmaFactorBS="tcgttctttttctaaagcggatttcaataaattactCATAGC GtcctccttcatttTGAGGTATCCTATACAAAAGatactctttttaaatgaacgtggt a" /listShort="S475, tnrA" /GFF_Attribute="listLong" promotor_-35 complement(1398177..1398183) /Source="Nicolas_upshift_promotors" /id="U1077" /multdbtbs="-" /comp="M19" /sig="SigA" /pcomp="0.394605394605395" /psig="0.92007992007992" /xcortree=3030 /SigmaFactorBS="tcgttctttttctaaagcggatttcaataaattactCATAGC GtcctccttcatttTGAGGTATCCTATACAAAAGatactctttttaaatgaacgtggt a" /listShort="S475, tnrA" /GFF_Attribute="listLong" /label="promotor_-35" CDS 1398181..1398363 /gene="ykoL" /locus_tag="BSU_13330" /old_locus_tag="BSU13330" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms; PubMedId: 10671441" /codon_start=1 /transl_table=11 /product="conserved protein of unknown function" /protein_id="NP_389216.1" /db_xref="EnsemblGenomes-Gn:BSU13330" /db_xref="EnsemblGenomes-Tr:CAB13190" /db_xref="SubtiList:BG13257" /db_xref="UniProtKB/Swiss-Prot:O34763" /translation="MSNLLKSALEKERRHYSEKLYQIGVYNKEVMNKMTISELRKEYA YFFRSITNHKNYPYTR*" gene 1398181..1398363 /gene="ykoL" /locus_tag="BSU_13330" /old_locus_tag="BSU13330" downshifts 1398331 /Source="Nicolas_upshifts" /id="D730" /incds=0 /nref=2 /ntot=8 /MaxReadThrough="3.83398" /MaxDrop="4.6651" /score="19.6832496" /energy="-11.2" /TU="U1076" /idTUdmin="U1075" /TUdmin=0 /isTUend="TRUE" promotor_-35 1398388..1398396 /Source="Nicolas_upshift_promotors" /id="U1078" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=361 /SigmaFactorBS="atacaagataatgtataaggatttttttgcttttaGAAGGAA TTtctcgaattaTAGCGAATACGTATAGTAAgggactgaactcttattatatgtaagg g" /listShort="S476, ykoM" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1398407..1398425 /Source="Nicolas_upshift_promotors" /id="U1078" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=361 /SigmaFactorBS="atacaagataatgtataaggatttttttgcttttaGAAGGAA TTtctcgaattaTAGCGAATACGTATAGTAAgggactgaactcttattatatgtaagg g" /listShort="S476, ykoM" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1398413..1398495 /Source="Nicolas_S_feature" /locus_tag="new_1398413_1398495" /HighExp="T3.0H, M9-stat, T1.30H, T2.30H, Lbstat, T3.30H, Lbtran, S2, T4.0H, T2.0H" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigH, Sig-" /TUshortPSig="0.996, 0.00699" /TUlongSig="NA" /TUlongPSig="NA" /label="S476" upshifts 1398413 /Source="Nicolas_upshifts" /id="U1078" /multdbtbs="-" /comp="M1" /sig="SigH" /pcomp="0.996003996003996" /psig="0.996003996003996" /xcortree=361 /SigmaFactorBS="atacaagataatgtataaggatttttttgcttttaGAAGGAA TTtctcgaattaTAGCGAATACGTATAGTAAgggactgaactcttattatatgtaagg g" /listShort="S476, ykoM" /GFF_Attribute="listLong" CDS 1398496..1398960 /gene="ykoM" /locus_tag="BSU_13340" /old_locus_tag="BSU13340" /function="16.3: Control" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type r: regulator" /codon_start=1 /transl_table=11 /product="putative transcriptional regulator (MarR family)" /protein_id="NP_389217.1" /db_xref="EnsemblGenomes-Gn:BSU13340" /db_xref="EnsemblGenomes-Tr:CAB13191" /db_xref="GOA:O34949" /db_xref="InterPro:IPR000835" /db_xref="InterPro:IPR023187" /db_xref="InterPro:IPR036388" /db_xref="InterPro:IPR036390" /db_xref="SubtiList:BG13258" /db_xref="UniProtKB/Swiss-Prot:O34949" /translation="MMRLSFNEEEVERAMNLYRVFARAFKSVSEHSIRDSKEHGFNPT EFAVLELLYTRGPQKLQQIGSRLLLVSGNVTYVIDKLERNGFLVREQDPKDKRSVYAH LTDKGNEYLDKIYPIHALRIARAFSGLSPDEQDQLIVLLKKAGIHSQHLLFR*" gene 1398496..1398960 /gene="ykoM" /locus_tag="BSU_13340" /old_locus_tag="BSU13340" downshifts 1398945 /Source="Nicolas_upshifts" /id="D731" /incds=0 /nref=70 /ntot=210 /MaxReadThrough="2.86787" /MaxDrop="5.38705" /score="24.8730632" /energy="-9.8" /TU="U1078" /idTUdmin="U1078" /TUdmin="-112" /isTUend="FALSE" CDS complement(1398975..1400096) /gene="ykoN" /locus_tag="BSU_13350" /old_locus_tag="BSU13350" /EC_number="2.4.1.-" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative glycosyltransferase" /protein_id="NP_389218.2" /db_xref="EnsemblGenomes-Gn:BSU13350" /db_xref="EnsemblGenomes-Tr:CAB13192" /db_xref="GOA:C0SPB9" /db_xref="InterPro:IPR009695" /db_xref="SubtiList:BG13259" /db_xref="UniProtKB/Swiss-Prot:C0SPB9" /translation="MKNILIFPFLSISTGHHHVADALQAELESQGLAAEKIDIFSHSY RRLEKLSSVAYLKWIQYFPKTYSGIYRLLACGEFQHDKRYFMYEWLFTQQMRHILQEK QPDIAFCTHALPSYLLNRLKPEYPNLTVVNVYTDFFVNQLWGRKNIDYHFVPSTEVKK QLISEGIDQNNIYLTGIPVHQNFEMESADTLQHHPPYTIIITGGSMGVGGILKWVQEL SPGGKILYKILCGRNEKLYSYVKSLHHPLIEAIPYLHSKAEMNRLYEQATGIMTKPGG VTISECLQKRLPVFIYHALPGQEEMNLNLLHERKLVTDMRNWDMQKAEEYIAAFFQSN EQMKEYKKHVNGYLGEMSDRKIKDVLKRIIWKQKNTLLK*" gene complement(1398975..1400096) /gene="ykoN" /locus_tag="BSU_13350" /old_locus_tag="BSU13350" promotor_-35 1399384..1399392 /Source="Nicolas_upshift_promotors" /id="U1079" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.97902097902098" /psig="0.97902097902098" /xcortree=1311 /SigmaFactorBS="cctcaatcaaggggtggtgtaaacttttgacatagGAGTAGA GCttttcgtttctgcCGCATAATATTTTGTATAAGatctttccgcctggcgacagttc c" /listShort="S477, ykoP" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-10 1399406..1399425 /Source="Nicolas_upshift_promotors" /id="U1079" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.97902097902098" /psig="0.97902097902098" /xcortree=1311 /SigmaFactorBS="cctcaatcaaggggtggtgtaaacttttgacatagGAGTAGA GCttttcgtttctgcCGCATAATATTTTGTATAAGatctttccgcctggcgacagttc c" /listShort="S477, ykoP" /GFF_Attribute="listLong" /label="promotor_-10" S_feature 1399409..1400187 /Source="Nicolas_S_feature" /locus_tag="new_1399409_1400187" /HighExp="S6, S8, S7, S5, BT, B36, S4, S3, Pyr, G/S" /AntisenseName="ykoN" /AntisenseCor="0.84084970563549499" /AntisenseRegPval="-72.400000000000006" /CDS_PredictionProba="NA" /TUshortSig="SigK" /TUshortPSig="0.979" /TUlongSig="NA" /TUlongPSig="NA" /label="S477" upshifts 1399409 /Source="Nicolas_upshifts" /id="U1079" /multdbtbs="-" /comp="M5" /sig="SigK" /pcomp="0.97902097902098" /psig="0.97902097902098" /xcortree=1311 /SigmaFactorBS="cctcaatcaaggggtggtgtaaacttttgacatagGAGTAGA GCttttcgtttctgcCGCATAATATTTTGTATAAGatctttccgcctggcgacagttc c" /listShort="S477, ykoP" /GFF_Attribute="listLong" promotor_-10 complement(1400125..1400136) /Source="Nicolas_upshift_promotors" /id="U1080" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.99100899100899" /psig="0.99100899100899" /xcortree=819 /SigmaFactorBS="aaggaaacaagttttcatcttttcaccttccttatgatcaaa aacaccCTTATATtttgtgaacgttctCCTCAAAATATAgttgccatatttttttagg a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1400145) /Source="Nicolas_upshifts" /id="U1080" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.99100899100899" /psig="0.99100899100899" /xcortree=819 /SigmaFactorBS="aaggaaacaagttttcatcttttcaccttccttatgatcaaa aacaccCTTATATtttgtgaacgttctCCTCAAAATATAgttgccatatttttttagg a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(1400151..1400157) /Source="Nicolas_upshift_promotors" /id="U1080" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp="0.99100899100899" /psig="0.99100899100899" /xcortree=819 /SigmaFactorBS="aaggaaacaagttttcatcttttcaccttccttatgatcaaa aacaccCTTATATtttgtgaacgttctCCTCAAAATATAgttgccatatttttttagg a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" CDS 1400188..1400739 /gene="ykoP" /locus_tag="BSU_13360" /old_locus_tag="BSU13360" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 4: Unknown function but conserved in otherorganisms" /codon_start=1 /transl_table=11 /product="conserved hypothetical protein" /protein_id="NP_389219.2" /db_xref="EnsemblGenomes-Gn:BSU13360" /db_xref="EnsemblGenomes-Tr:CAB13193" /db_xref="SubtiList:BG13260" /db_xref="UniProtKB/Swiss-Prot:O34495" /translation="MKTCFLSIWRVVDPIYFFFSRLSLIDNDQKSVFRVRLTKYKGHH VVLSDGTHIRKNDVLVKIHLHNIKLIRELQSIESAVRKGIIIYQKVYQSMPLLLDYIN NHKKSEKIKGIIGITMLDKGVERLGFDVITPVNPFYRCFKKVSHVPILYLTSKPVSLR HLPNSSYLFISKEKLQKTYQKKD*" gene 1400188..1400739 /gene="ykoP" /locus_tag="BSU_13360" /old_locus_tag="BSU13360" downshifts 1400707 /Source="Nicolas_upshifts" /id="D732" /incds=0 /nref=4 /ntot=25 /MaxReadThrough="3.31887" /MaxDrop="3.7149" /score="-2.92393792" /energy="-7" /TU="U1079" /idTUdmin="U1079" /TUdmin="-242" /isTUend="FALSE" CDS complement(1400767..1401579) /gene="ykoQ" /locus_tag="BSU_13370" /old_locus_tag="BSU13370" /EC_number="3.1.-.-" /function="16.11: Scavenge (Catabolism)" /function="16.6: Maintain" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative metallophosphoesterase" /protein_id="NP_389220.1" /db_xref="EnsemblGenomes-Gn:BSU13370" /db_xref="EnsemblGenomes-Tr:CAB13194" /db_xref="GOA:O35040" /db_xref="InterPro:IPR004843" /db_xref="InterPro:IPR029052" /db_xref="SubtiList:BG13261" /db_xref="UniProtKB/Swiss-Prot:O35040" /translation="MFTILLSLAILVFVPFLYKANRNTKDVKVNTISIDQKDGLPARK KLNILHLSDLHLENISVSPEELYHLTKDQPVDIIALTGDFLDRKRNIPKLAGYLNALQ KLKPAYGMYAVFGNHDYVLKEEDFQRLKRVLEENGCITLQNEHVRIETAAGPVNIIGI DDYSTNRSNITGSYQSLENGYHLVLTHDPNIILDMKDVHYDYLLSGHFHGGQIHWPKP YHLVKMGKLVRMNMIKGLHYHHDKPFYISEGLGQTGVNIRVGSRPEVTFHQI*" gene complement(1400767..1401579) /gene="ykoQ" /locus_tag="BSU_13370" /old_locus_tag="BSU13370" promotor_-10 complement(1401539..1401558) /Source="Nicolas_upshift_promotors" /id="U1081" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.485514485514486" /psig="0.997002997002997" /xcortree=2484 /SigmaFactorBS="acttactatactgatagaagggaggggatatattttGTTTAC aatcttactttcaTTGGCCATACTCGTATTTGTgccatttctatataaagcgaaccgc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-10" upshifts complement(1401553) /Source="Nicolas_upshifts" /id="U1081" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.485514485514486" /psig="0.997002997002997" /xcortree=2484 /SigmaFactorBS="acttactatactgatagaagggaggggatatattttGTTTAC aatcttactttcaTTGGCCATACTCGTATTTGTgccatttctatataaagcgaaccgc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" promotor_-35 complement(1401572..1401577) /Source="Nicolas_upshift_promotors" /id="U1081" /multdbtbs="-" /comp="M16" /sig="SigA" /pcomp="0.485514485514486" /psig="0.997002997002997" /xcortree=2484 /SigmaFactorBS="acttactatactgatagaagggaggggatatattttGTTTAC aatcttactttcaTTGGCCATACTCGTATTTGTgccatttctatataaagcgaaccgc a" /GFF_Attribute="listShort" /GFF_Attribute="listLong" /label="promotor_-35" promotor_-35 1401680..1401686 /Source="Nicolas_upshift_promotors" /id="U1082" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=939 /SigmaFactorBS="aattaatgggtagagacaggttgaaaaacggattgtcatatg aTGAATGAtttggaagggaaaAGGGATAATAAAttttgacacatgaggcagaacatgc c" /listShort="S478, ykoS, ykoT" /GFF_Attribute="listLong" /label="promotor_-35" S_feature 1401697..1401771 /Source="Nicolas_S_feature" /locus_tag="new_1401697_1401771" /HighExp="S5, S6, S7, S4, S8, T5.0H, ferm, nit, S3, Pyr" /AntisenseName="NA" /AntisenseCor="NA" /AntisenseRegPval="NA" /CDS_PredictionProba="NA" /TUshortSig="SigGF" /TUshortPSig=1 /TUlongSig="NA" /TUlongPSig="NA" /label="S478" upshifts 1401697 /Source="Nicolas_upshifts" /id="U1082" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=939 /SigmaFactorBS="aattaatgggtagagacaggttgaaaaacggattgtcatatg aTGAATGAtttggaagggaaaAGGGATAATAAAttttgacacatgaggcagaacatgc c" /listShort="S478, ykoS, ykoT" /GFF_Attribute="listLong" promotor_-10 1401700..1401711 /Source="Nicolas_upshift_promotors" /id="U1082" /multdbtbs="-" /comp="M8" /sig="SigGF" /pcomp=1 /psig=1 /xcortree=939 /SigmaFactorBS="aattaatgggtagagacaggttgaaaaacggattgtcatatg aTGAATGAtttggaagggaaaAGGGATAATAAAttttgacacatgaggcagaacatgc c" /listShort="S478, ykoS, ykoT" /GFF_Attribute="listLong" /label="promotor_-10" CDS 1401772..1403466 /gene="ykoS" /locus_tag="BSU_13380" /old_locus_tag="BSU13380" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; PubMedId: 15849754, 16850406; Product type m: membrane component" /codon_start=1 /transl_table=11 /product="putative integral membrane protein" /protein_id="NP_389221.1" /db_xref="EnsemblGenomes-Gn:BSU13380" /db_xref="EnsemblGenomes-Tr:CAB13195" /db_xref="GOA:O34830" /db_xref="SubtiList:BG13262" /db_xref="UniProtKB/Swiss-Prot:O34830" /translation="MLRLMRQQKKETYYLWIALFLLLLYVSPLFILKEDAHIRVHDNL DSNIAWYKVLADSGEIVGKVDAAIPQIINGLPRDAFGTEWSGIVWLHAFFSSMTAYAI SQTVTRVVAFFGMYVLLKKHIIPEPKAAFIRIGVSLAFALTPFWPSGMLSTLGYPLAL WAFLNIRKGDISWREWLTLGLLPLYSSFVLGFFFFLAGMACFWLYDAITKRRWNLMFL GSIAFMTSIYLFVEYRLVYSMLFEHAPMHRIEFISSRHDVWHSLRLSIKNFVYGHNHV MTVHTVVILPILMVVFAALLFKRNRTKPENVYLFLCVLNYGLSLWYAFWFNKIWAVPK QKFAFLAEFNFARFHFLRPLVIYVSFALALYLIWRMGKGWKWLVYAAVAAQLMVLAPF NEEYTYGVHYNAPTFREFYASEQFKEIKEYIGRPQDSYRVASIGLHPSIAQYNGFYTL DTYNNLYPLSYKYEFRKIIEKELEKNSRLKQYFDEWGSRCYLFVDELGKRYDFKKNSK KTINNLQLNTDVFKKMGGRYIFSSVPIMNAEQNHLALVKTFDHKDSAWRIYLYETR*" gene 1401772..1403466 /gene="ykoS" /locus_tag="BSU_13380" /old_locus_tag="BSU13380" CDS 1403479..1404492 /gene="ykoT" /locus_tag="BSU_13390" /old_locus_tag="BSU13390" /EC_number="2.-.-.-" /function="16.2: Construct biomass (Anabolism)" /function="16.13: Shape" /inference="ab initio prediction:AMIGene:2.0" /note="Evidence 3: Putative function from multiple computational evidences; Product type e: enzyme" /codon_start=1 /transl_table=11 /product="putative glycosyltransferase" /protein_id="NP_389222.1" /db_xref="EnsemblGenomes-Gn:BSU13390" /db_xref="EnsemblGenomes-Tr:CAB13196" /db_xref="GOA:O34755" /db_xref="InterPro:IPR001173" /db_xref="InterPro:IPR029044" /db_xref="SubtiList:BG13263" /db_xref="UniProtKB/Swiss-Prot:O34755" /translation="MKQSQPVLTIVVPCFNEEEVFQETSHQLTEVVDDLIEEKLIAED SKILFVDDGSKDRTWALIAMESIRNKKVTGLKLACNVGHQKALLAGLHKAKNRSDCVI SIDADLQDDISVIRDFMLKYHEGCEIVYGVRRSRKTDTFFKRTTALGFYRLMNKLGIK LIYNHADFRLMNKRSLEELERYPEANLFLRGIVPMIGFKSAEVLYDRKERFAGKTKYP LKKMLSFAFNGITSFSVAPIRFFTLLGFVLFFLSAVAGIGAFIQKLLGHTNAGWASLI ISIWFLGGLQLMGIGIIGEYIGTIFSEVKRRPKYAIDIDLYNEQLSPLQRQEKERLEK KYS*" gene 1403479..1404492 /gene="ykoT" /locus_tag="BSU_13390" /old_locus_tag="BSU13390" downshifts 1404477 /Source="Nicolas_upshifts" /id="D733" /incds=0 /nref=13 /ntot=35 /MaxReadThrough="0.53349" /MaxDrop="4.80671" /score="19.4012674" /energy="-13.7" /TU="NA" /idTUdmin="U1082" /TUdmin=8 /isTUend="TRUE" CDS complement(1404518..1406353) /gene="ligD" /locus_tag="BSU_13400" /old_locus_tag="BSU13400" /EC_number="6.5.1.1" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:12215643, 16497325, 17293412, 23691176, 25355514, 26826709" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 12215643, 16497325, 17293412, 23691176, 25355514, 26826709; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="ATP-dependent DNA ligase subunit; 5'-2-deoxyribose-5-phosphate (dRP) lyase" /protein_id="NP_389223.1" /db_xref="EnsemblGenomes-Gn:BSU13400" /db_xref="EnsemblGenomes-Tr:CAB13197" /db_xref="GOA:O34398" /db_xref="InterPro:IPR012310" /db_xref="InterPro:IPR014143" /db_xref="InterPro:IPR014145" /db_xref="InterPro:IPR014146" /db_xref="InterPro:IPR033652" /db_xref="SubtiList:BG13264" /db_xref="UniProtKB/Swiss-Prot:O34398" /translation="MAFTMQPVLTSSPPIGAEWRYEVKYDGYRCILRIHSSGVTLTSR NGVELSSTFPEITQFAKTAFQHLEKELPLTLDGEIVCLVNPCRADFEHLQVRGRLKRP DKIQESANARPCCFLAFDLLERSGEDVTLLSYLDRKKSLRELISAAKLPASPDPYAKE TIQSIPCYDHFDQLWEMVIKYDGEGIVAKKTNSKWLEKKRSSDWLKYKNFKQAYVCIT GFNPNNGFLTVSVLKNGIMTPIASVSHGMRDEEKSAIREIMEQHGHQTPSGEFTLEPS ICAAVQYLTILQGTLREVSFIGFEFQMDWTECTYAQVIRHSKPVHPKLQFTSLDKIIF EKNKKTKEDFIQYMIEVSDYLLPFLKNRAVTVIRYPHGSRSESFFQKNKPDYAPDFVQ SFYDGSHEHIVCEDMSTLLWLCNQLALEFHVPFQTIKSRRPAEIVIDLDPPSRDDFLM AVQAANELKRLLDSFGITSYPKLSGNKGIQLYIPLSPEAFTYEETRQFTQLIAEYCTN AFPELFTTERLIKNRHCKLYLDYLQHAEGKTIICPYSTRGNELGTVAAPLYWHEVQSS LTPALFTIDTVIDRIKKQGCPFFDFYRNPQDEPLSAILHQLKKKS*" gene complement(1404518..1406353) /gene="ligD" /locus_tag="BSU_13400" /old_locus_tag="BSU13400" downshifts complement(1404567) /Source="Nicolas_upshifts" /id="D734" /incds=0 /nref=10 /ntot=54 /MaxReadThrough="0.67916" /MaxDrop="5.08051" /score="-8.48510187" /energy="-13.7" /TU="NA" /idTUdmin="U1083" /TUdmin=0 /isTUend="TRUE" CDS complement(1406357..1407292) /gene="ligV" /locus_tag="BSU_13410" /old_locus_tag="BSU13410" /function="16.6: Maintain" /experiment="publication(s) with functional evidences, PMID:11095673, 12215643, 16497325, 16780573, 23691176, 25355514" /note="Evidence 1a: Function from experimental evidences in the studied strain; PubMedId: 11095673, 12215643, 16497325, 16780573, 23691176, 25355514; Product type e : enzyme" /codon_start=1 /transl_table=11 /product="ATP-dependent DNA ligase subunit Ku;