http://subtiwiki.uni-goettingen.de/wiki//api.php?action=feedcontributions&user=134.76.70.252&feedformat=atom
SubtiWiki - User contributions [en]
2024-03-29T11:40:43Z
User contributions
MediaWiki 1.30.0
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Zwf&diff=204966
Zwf
2014-04-17T14:23:30Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: Zwf}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YybB&diff=204965
YybB
2014-04-17T14:23:28Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YybB}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YyaF&diff=204964
YyaF
2014-04-17T14:23:27Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YyaF}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YxxG&diff=204963
YxxG
2014-04-17T14:23:23Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YxxG}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YxxD&diff=204962
YxxD
2014-04-17T14:23:19Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YxxD}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YxjH&diff=204961
YxjH
2014-04-17T14:23:17Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YxjH}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YxiG&diff=204960
YxiG
2014-04-17T14:23:12Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YxiG}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YxiE&diff=204959
YxiE
2014-04-17T14:23:12Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YxiE}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YxbD&diff=204958
YxbD
2014-04-17T14:23:10Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YxbD}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YxbC&diff=204956
YxbC
2014-04-17T14:23:05Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YxbC}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YxbB&diff=204955
YxbB
2014-04-17T14:23:02Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YxbB}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YwtE&diff=204954
YwtE
2014-04-17T14:22:59Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YwtE}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YwqG&diff=204953
YwqG
2014-04-17T14:22:59Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YwqG}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=SsbB&diff=204952
SsbB
2014-04-17T14:22:58Z
<p>134.76.70.252: </p>
<hr />
<div>* '''Description:''' single-strand DNA-binding protein <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''ssbB''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ywpH ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || single-strand DNA-binding protein <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || required for efficient genetic transformation<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU36310 ssbB]<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=SsbB SsbB]<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 12 kDa, 6.876 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 339 bp, 113 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[glcR]]'', ''[[ywpG]]''<br />
|-<br />
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU36310 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU36310 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU36310 DNA_with_flanks]<br />
|-<br />
|-<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:ywpH_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ssbB_3740206_3740547_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ssbB_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU36310]]<br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[DNA replication]]}},<br />
{{SubtiWiki category|[[genetic competence]]}},<br />
{{SubtiWiki category|[[DNA repair/ recombination]]}},<br />
{{SubtiWiki category|[[phosphoproteins]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[ComK regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU36310<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU36310&redirect=T BSU36310]<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ywpH-glcR.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12502]<br />
<br />
=== Additional information===<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
** binds and protects internalized foreign ssDNA {{PubMed|22373918}}<br />
<br />
* '''Protein family:'''<br />
<br />
* '''Paralogous protein(s):''' [[SsbA]]<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''[[Domains]]:''' <br />
<br />
* '''Modification:''' <br />
** phosphorylated on Arg-55 {{PubMed|22517742}}<br />
** phosphorylated on Tyr by [[PtkA]], dephosphorylated by [[PtpZ]] {{PubMed|16549871}}<br />
<br />
* '''[[Cofactors]]:'''<br />
<br />
* '''Effectors of protein activity:''' phosphorylation strongly increases DNA-binding activity {{PubMed|16549871}}<br />
<br />
* '''[[SubtInteract|Interactions]]:'''<br />
** forms tetramers {{PubMed|22373918}}<br />
** [[SsbB]]-[[ComFA]] {{PubMed|17630974}}<br />
** [[SsbB]]-[[CoiA]] {{PubMed|17630974}}<br />
** [[SsbB]]-[[DprA]] {{PubMed|17630974}}<br />
** [[SsbB]]-[[RecA]] {{PubMed|17630974}}<br />
<br />
* '''[[Localization]]:''' <br />
** localizes to cell poles in competent cells [http://www.ncbi.nlm.nih.gov/pubmed/16009133 PubMed]<br />
** localizes to the DNA entry pole during transformation {{PubMed|22373918}}<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU36310&redirect=T BSU36310]<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore/explore.do?structureId= 3VDY 3VDY] (in complex with ssDNA) {{PubMed|22373918}}<br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/C0SPB6 C0SPB6]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU36310]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
* '''Operon:''' <br />
** ''[[ssbB]]'' {{PubMed|22383849}}<br />
** ''[[ssbB]]-[[glcR]]'' {{PubMed|14762004}} (this is unlikely according to {{PubMed|22383849}})<br />
<br />
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ssbB_3740206_3740547_-1 ssbB] {{PubMed|22383849}}<br />
<br />
* '''[[Sigma factor]]:''' <br />
<br />
* '''Regulation:''' <br />
** expressed at the onset of stationary phase {{PubMed|14762004}}<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[ComK]]: transcription activation {{PubMed|11948146}}<br />
<br />
* '''Additional information:'''<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium): 144 {{PubMed|24696501}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 617 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 473 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 1758 {{PubMed|21395229}}<br />
<br />
=Biological materials =<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:''' for expression, purification in E. coli with N-terminal His-tag, pRSETA available in Gerth lab<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
== Reviews ==<br />
<pubmed> 22933559 </pubmed><br />
== Original publications ==<br />
<pubmed>16009133,17630974, 22373918,16549871,14762004 11948146 22383849 22517742 23536821 23779106</pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YwpB&diff=204951
YwpB
2014-04-17T14:22:53Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YwpB}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YwnH&diff=204950
YwnH
2014-04-17T14:22:51Z
<p>134.76.70.252: </p>
<hr />
<div>* '''Description:''' similar to phosphinothricin acetyltransferase <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''ywnH''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU36560 ywnH]<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 18 kDa, 5.277 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 489 bp, 163 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[spoIIQ]]'', ''[[ywnG]]''<br />
|-<br />
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU36560 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU36560 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU36560 DNA_with_flanks]<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:ywnH_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ywnH_3760694_3761185_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ywnH_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU36560]]<br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[resistance against toxins/ antibiotics]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU36560<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU36560&redirect=T BSU36560]<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12486]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' Acetyl-CoA + phosphinothricin = CoA + N-acetylphosphinothricin (according to Swiss-Prot) <br />
<br />
* '''Protein family:''' PAT/BAR subfamily (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:'''<br />
<br />
* '''Localization:'''<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU36560&redirect=T BSU36560]<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1VHS 1VHS] <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P71043 P71043]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU36560]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/2.3.1.183 2.3.1.183]<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
<br />
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ywnH_3760694_3761185_1 ywnH] {{PubMed|22383849}}<br />
<br />
* '''Sigma factor:''' <br />
<br />
* '''Regulation:''' <br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:'''<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium): 158 {{PubMed|24696501}}<br />
** number of protein molecules per cell (complex medium with amino acids, without glucose): 445 {{PubMed|24696501}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 568 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 442 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 465 {{PubMed|21395229}}<br />
<br />
=Biological materials =<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
[[Category:Protein-coding genes]]</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=MaeA&diff=204949
MaeA
2014-04-17T14:22:50Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: MaeA}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YwjH&diff=204948
YwjH
2014-04-17T14:22:49Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YwjH}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YwjB&diff=204947
YwjB
2014-04-17T14:22:46Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YwjB}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=CysL&diff=204946
CysL
2014-04-17T14:22:44Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: CysL}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=BacF&diff=204945
BacF
2014-04-17T14:22:42Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: BacF}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=BacD&diff=204944
BacD
2014-04-17T14:22:40Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: BacD}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=BacB&diff=204943
BacB
2014-04-17T14:22:36Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: BacB}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=GlxA&diff=204942
GlxA
2014-04-17T14:22:33Z
<p>134.76.70.252: </p>
<hr />
<div>* '''Description:''' glyoxalase I <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''glxA''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ipa-18r, ywbC ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || glyoxalase I <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || detoxification of methylglyoxal<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU38370 glxA]<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=ywbC glxA]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 14 kDa, 4.429 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 378 bp, 126 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ywbD]]'', ''[[ywbB]]''<br />
|-<br />
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU38370 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU38370 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU38370 DNA_with_flanks]<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:ywbC_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ywbC_3937135_3937515_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ywbC_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU38370]]<br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[resistance against oxidative and electrophile stress]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU38370<br />
<br />
===Phenotypes of a mutant ===<br />
* increased sensitivity to methylglyoxal {{PubMed|24330391}}<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ywbC.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10564]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
** methylglyoxal + BSH --> S-lactoyl-bacillithiol (BSH) {{PubMed|24330391}}<br />
<br />
* '''Protein family:''' glyoxalase I family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''[[Domains]]:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''[[Cofactors]]:'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''[[SubtInteract|Interactions]]:'''<br />
<br />
* '''[[Localization]]:'''<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P39586 P39586]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU38370]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''glxA'' {{PubMed|9353933}}<br />
<br />
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ywbC_3937135_3937515_1 glxA] {{PubMed|22383849}}<br />
<br />
* '''[[Sigma factor]]:''' <br />
<br />
* '''Regulation:''' <br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:'''<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium): 229 {{PubMed|24696501}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 3299 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 1387 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 2906 {{PubMed|21395229}}<br />
<br />
=Biological materials =<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<pubmed>9353933 24330391 </pubmed><br />
[[Category:Protein-coding genes]]</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YwaA&diff=204941
YwaA
2014-04-17T14:22:31Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YwaA}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YvlB&diff=204940
YvlB
2014-04-17T14:22:28Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YvlB}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=CysJ&diff=204939
CysJ
2014-04-17T14:22:26Z
<p>134.76.70.252: </p>
<hr />
<div>* '''Description:''' sulfite reductase (NADPH2) <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''cysJ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yvgQ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || sulfite reductase (NADPH2) <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || sulfite reduction<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU33440 cysJ]<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=cysJ cysJ]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 64 kDa, 5.49 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1713 bp, 571 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[nhaK]]'', ''[[cysI]]''<br />
|-<br />
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU33440 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU33440 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU33440 DNA_with_flanks]<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yvgQ_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=cysI_3430598_3432313_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:cysJ_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU33440]]<br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[sulfur metabolism]]}},<br />
[[most abundant proteins]]<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[CysL regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU33430<br />
<br />
===Phenotypes of a mutant ===<br />
* unable to grow with sulfate or sulfite as the only sulfur source {{PubMed|12169591}}<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU33440&redirect=T BSU33440]<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yvgRQ.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG14099]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:'''<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''[[Domains]]:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''[[Cofactors]]:''' contains an iron-sulfur cluster<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''[[SubtInteract|Interactions]]:'''<br />
<br />
* '''[[Localization]]:'''<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU33440&redirect=T BSU33440]<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O32214 O32214]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU33430]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
* '''Operon:''' ''[[cysI]]-[[cysJ]]'' {{PubMed|12169591}}<br />
<br />
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=cysI_3430598_3432313_-1 cysJ] {{PubMed|22383849}}<br />
<br />
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|12169591}}<br />
<br />
* '''Regulation:''' <br />
** induced by sulfite, sulfate, and thiosulfate ([[CysL]]) {{PubMed|12169591}}<br />
** repressed by casamino acids [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed] <br />
<br />
* '''Regulatory mechanism:''' <br />
** [[CysL]]: transcription activation {{PubMed|12169591}}<br />
<br />
* '''Additional information:'''<br />
** belongs to the 100 [[most abundant proteins]] {{PubMed|15378759}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium): 2899 {{PubMed|24696501}}<br />
** number of protein molecules per cell (complex medium with amino acids, without glucose): 1652 {{PubMed|24696501}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 1863 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 824 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 899 {{PubMed|21395229}}<br />
<br />
=Biological materials =<br />
* '''Mutant:'''<br />
** 1A802 ( ''cysJ''::''kan''), {{PubMed|11445163}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A802&Search=1A802 BGSC]<br />
** 1A934 ( ''cysJ''::''kan''), {{PubMed|12169591}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A934&Search=1A934 BGSC]<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>15378759,12169591,12107147, 11445163 </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=CysI&diff=204938
CysI
2014-04-17T14:22:23Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: CysI}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=LutB&diff=204937
LutB
2014-04-17T14:22:21Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: LutB}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=LutA&diff=204936
LutA
2014-04-17T14:22:19Z
<p>134.76.70.252: </p>
<hr />
<div>* '''Description:''' lactate catabolic enzyme <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''lutA''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yvfV''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || lactate oxidase<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || lactate utilization<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU34050 lutA]<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=lutA lutA]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 26 kDa, 6.25 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 714 bp, 238 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[lutB]]'', ''[[yvfU]]''<br />
|-<br />
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU34050 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU34050 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU34050 DNA_with_flanks]<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yvfV_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yvfV_3494985_3495701_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:lutA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU34050]]<br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[utilization of specific carbon sources]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[FbpB regulon]]}},<br />
{{SubtiWiki regulon|[[FsrA regulon]]}},<br />
{{SubtiWiki regulon|[[LutR regulon]]}},<br />
{{SubtiWiki regulon|[[SinR regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU34050<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
no growth with lactate as the single carbon source [http://www.ncbi.nlm.nih.gov/sites/entrez/19201793 PubMed]<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU34050&redirect=T BSU34050]<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12447]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' oxidation of lactate to pyruvate [http://www.ncbi.nlm.nih.gov/sites/entrez/19201793 PubMed]<br />
<br />
* '''Protein family:'''<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''[[Domains]]:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''[[Cofactors]]:'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''[[SubtInteract|Interactions]]:'''<br />
<br />
* '''[[Localization]]:'''<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU34050&redirect=T BSU34050]<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O07020 O07020]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU34050]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''[[lutA]]-[[lutB]]-[[lutC]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/19201793 PubMed]<br />
<br />
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yvfV_3494985_3495701_-1 lutA] {{PubMed|22383849}}<br />
<br />
* '''[[Sigma factor]]:''' <br />
<br />
* '''Regulation:''' induction by lactate [http://www.ncbi.nlm.nih.gov/sites/entrez/19201793 PubMed]<br />
** repressed by [[SinR]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19201793 PubMed]<br />
** part of the iron sparing response, down-regulation in a'' [[fur]]'' mutant ([[Fur]], [[FsrA]], [[FpbB]]) {{PubMed|22427629}}<br />
<br />
* '''Regulatory mechanism:''' dual repression by [[LutR]] (inducer lactate) and [[SinR]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19201793 PubMed]<br />
** [[SinR]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/19201793 PubMed]<br />
** [[FsrA]]: translational repression {{PubMed|22427629}} <br />
** [[FbpB]]: acts as RNA chaperone, increases interaction between ''[[fsrA]]'' and ''[[lutA]]-[[lutB]]-[[lutC]]'' RNAs {{PubMed|22427629}} <br />
<br />
* '''Additional information:'''<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium): 289 {{PubMed|24696501}}<br />
** number of protein molecules per cell (complex medium with amino acids, without glucose): 2918 {{PubMed|24696501}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 799 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 738 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 1342 {{PubMed|21395229}}<br />
<br />
=Biological materials =<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:''' GP1612 amyE::p(lutA-lacZ cat), constructed with pGP2149 based on [[pAC5]], available in [[ Jörg Stülke]]'s lab<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
[[Richard Losick]], Harvard Univ., Cambridge, USA [http://www.mcb.harvard.edu/Losick/ homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>22427629,16430695,19201793 </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YvdT&diff=204935
YvdT
2014-04-17T14:22:17Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YvdT}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YvdF&diff=204934
YvdF
2014-04-17T14:22:15Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YvdF}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YvcT&diff=204933
YvcT
2014-04-17T14:22:13Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YvcT}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YvcN&diff=204932
YvcN
2014-04-17T14:22:12Z
<p>134.76.70.252: </p>
<hr />
<div>* '''Description:''' unknown <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yvcN''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU34730 yvcN]<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 28 kDa, 5.582 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 762 bp, 254 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yvzJ]]'', ''[[crh]]''<br />
|-<br />
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU34730 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU34730 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU34730 DNA_with_flanks]<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yvcN_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yvcN_3568527_3569291_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yvcN_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU34730]]<br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[proteins of unknown function]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU34730<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU34730&redirect=T BSU34730]<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12404]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:''' arylamine N-acetyltransferase family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''[[SubtInteract|Interactions]]:'''<br />
<br />
* '''[[Localization]]:'''<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU34730&redirect=T BSU34730]<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O06977 O06977]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU34730]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
The gene is annotated in KEGG as an ortholog of EC 2.3.1.5 and is marked in Swiss-Prot as “uncharacterized acetyltransferase” (EC 2.3.1.-). No EC annotation is available in MetaCyc.No literature/ experimental evidence supporting the annotation is available. {{PubMed|19935659}}<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''[[yvcI]]-[[yvcJ]]-[[yvcK]]-[[yvcL]]-[[crh]]-[[yvcN]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/9237995 PubMed]<br />
<br />
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yvcN_3568527_3569291_-1 yvcN] {{PubMed|22383849}}<br />
<br />
* '''Sigma factor:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16272399 PubMed]<br />
<br />
* '''Regulation:''' very weak stimuation of expression by citrate and succinate [http://www.ncbi.nlm.nih.gov/sites/entrez/16272399 PubMed]<br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:'''<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium): 84 {{PubMed|24696501}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 363 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 290 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 680 {{PubMed|21395229}}<br />
<br />
=Biological materials =<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>9237995 16272399, </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YvcK&diff=204931
YvcK
2014-04-17T14:22:10Z
<p>134.76.70.252: </p>
<hr />
<div>* '''Description:''' essential for growth under gluconeogenetic conditions, required for correct localization of [[ponA|PBP1]] <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yvcK''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || localization of [[ponA|PBP1]] <br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU34760 yvcK]<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 34 kDa, 5.408 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 951 bp, 317 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yvcL]]'', ''[[yvcJ]]''<br />
|-<br />
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU34760 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU34760 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU34760 DNA_with_flanks]<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yvcK_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yvcK_3570546_3571499_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yvcK_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU34760]]<br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[carbon core metabolism]]}}, {{SubtiWiki category|[[cell shape]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
[[Efp-dependent proteins]]<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU34760<br />
<br />
===Phenotypes of a mutant ===<br />
* unable to grow with gluconeogenic substrates as single carbon source {{PubMed|16272399}}<br />
* filamentous or L-shape-like aberrant morphologies (suppressed by Mg++) {{PubMed|16272399}}, this is supressed by overexpression of [[MreB]] or by deletion of ''[[ponA]]'' ([[ponA|PBP1]] ) {{PubMed|21320184}}<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU34760&redirect=T BSU34760]<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12401]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:''' UPF0052 family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''[[SubtInteract|Interactions]]:'''<br />
<br />
* '''[[Localization]]:''' localized as a helical-like pattern {{PubMed|21320184}}<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU34760&redirect=T BSU34760]<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O06974 O06974]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU34760]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''[[yvcI]]-[[yvcJ]]-[[yvcK]]-[[yvcL]]-[[crh]]-[[yvcN]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/9237995 PubMed]<br />
<br />
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yvcK_3570546_3571499_-1 yvcK] {{PubMed|22383849}}<br />
<br />
* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16272399 PubMed]<br />
<br />
* '''Regulation:''' very weak stimuation of expression by citrate and succinate [http://www.ncbi.nlm.nih.gov/sites/entrez/16272399 PubMed]<br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:'''<br />
** [[translation]] is likely to require [[Efp]] due to the presence of several consecutive proline residues {{PubMed|23239624,23239623}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium): 96 {{PubMed|24696501}}<br />
** number of protein molecules per cell (complex medium with amino acids, without glucose): 246 {{PubMed|24696501}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 555 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 282 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 459 {{PubMed|21395229}}<br />
<br />
=Biological materials =<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:''' pGP736 (N-terminal Strep-tag, purification from ''B. subtilis'', for [[SPINE]], in [[pGP380]]), available in [[Stülke]] lab<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Boris Görke| Görke]] lab<br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
[[Boris Görke]], University of Göttingen, Germany<br />
[http://wwwuser.gwdg.de/~genmibio/goerke.html Homepage]<br />
<br />
[[Anne Galinier]], University of Marseille, France<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
==Reviews==<br />
{{PubMed|21371139}}<br />
<br />
==Original publications==<br />
<pubmed>9237995 16272399, 21320184 </pubmed><br />
[[Category:Protein-coding genes]]</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YvcI&diff=204930
YvcI
2014-04-17T14:22:08Z
<p>134.76.70.252: </p>
<hr />
<div>* '''Description:''' [[Nudix hydrolase]]<br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yvcI''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU34780 yvcI]<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 18 kDa, 4.993 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 474 bp, 158 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yvcJ]]'', ''[[trxB]]''<br />
|-<br />
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU34780 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU34780 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU34780 DNA_with_flanks]<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yvcI_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yvcI_3572413_3572889_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yvcI_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU34780]]<br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[DNA repair/ recombination]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[CcpA regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU34780<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU34780&redirect=T BSU34780]<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12399]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:''' [[Nudix hydrolase]]<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''[[SubtInteract|Interactions]]:'''<br />
<br />
* '''[[Localization]]:'''<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU34780&redirect=T BSU34780]<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O06972 O06972]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU34780]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''[[yvcI]]-[[yvcJ]]-[[yvcK]]-[[yvcL]]-[[crh]]-[[yvcN]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/9237995 PubMed]<br />
<br />
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yvcI_3572413_3572889_-1 yvcI] {{PubMed|22383849}}<br />
<br />
* '''Sigma factor:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16272399 PubMed]<br />
<br />
* '''Regulation:''' repressed by glucose (4.5-fold) ([[CcpA]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed], very weak stimuation of expression by citrate and succinate [http://www.ncbi.nlm.nih.gov/sites/entrez/16272399 PubMed]<br />
<br />
* '''Regulatory mechanism:''' [[CcpA]]: transcription repression <br />
<br />
* '''Additional information:'''<br />
** A [[ncRNA]] is predicted between ''[[yvcI]]'' and ''[[trxB]]'' {{PubMed|20525796}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium): 67 {{PubMed|24696501}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 601 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 472 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 816 {{PubMed|21395229}}<br />
<br />
=Biological materials =<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>12850135 9237995 16272399, 20525796</pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=LutC&diff=204929
LutC
2014-04-17T14:22:06Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: LutC}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YvbK&diff=204928
YvbK
2014-04-17T14:22:04Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YvbK}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YvbH&diff=204927
YvbH
2014-04-17T14:22:02Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YvbH}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=AzoR2&diff=204926
AzoR2
2014-04-17T14:22:00Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: AzoR2}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=IolW&diff=204925
IolW
2014-04-17T14:21:58Z
<p>134.76.70.252: </p>
<hr />
<div>* '''Description:''' scyllo-inositol dehydrogenase, general stress protein <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yvaA''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || scyllo-inositol dehydrogenase <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU33530 iolW]<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 39 kDa, 5.457 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1074 bp, 358 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[csoR]]'', ''[[azoR2]]''<br />
|-<br />
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU33530 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU33530 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU33530 DNA_with_flanks]<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yvaA_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yvaA_3444329_3445405_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:iolW_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU33530]]<br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[utilization of specific carbon sources]]}},<br />
{{SubtiWiki category|[[general stress proteins (controlled by SigB)]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[SigB regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU33530<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU33530&redirect=T BSU33530]<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG14057]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:''' gfo/idh/mocA family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):''' [[YfiI]], [[NtdC]], [[YrbE]], [[YteT]], [[YulF]], [[IolG]]<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''[[SubtInteract|Interactions]]:'''<br />
<br />
* '''[[Localization]]:'''<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU33530&redirect=T BSU33530]<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=3GFG 3GFG]<br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O32223 O32223]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU33530]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
<br />
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yvaA_3444329_3445405_1 iolW] {{PubMed|22383849}}<br />
<br />
* '''Sigma factor:''' [[SigB]] [http://www.ncbi.nlm.nih.gov/pubmed/15805528 PubMed] <br />
<br />
* '''Regulation:''' <br />
** induced by stress ([[SigB]]) [http://www.ncbi.nlm.nih.gov/pubmed/15805528 PubMed]<br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:'''<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium): 313 {{PubMed|24696501}}<br />
** number of protein molecules per cell (complex medium with amino acids, without glucose): 1480 {{PubMed|24696501}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 5476 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 3799 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 6429 {{PubMed|21395229}}<br />
<br />
=Biological materials =<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>15805528, 20133360 24325193 </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=SufA&diff=204924
SufA
2014-04-17T14:21:56Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: SufA}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YutJ&diff=204923
YutJ
2014-04-17T14:21:54Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YutJ}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YutF&diff=204922
YutF
2014-04-17T14:21:52Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YutF}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=SufC&diff=204921
SufC
2014-04-17T14:21:50Z
<p>134.76.70.252: </p>
<hr />
<div>* '''Description:''' [[ABC transporter]] (ATP-binding protein), synthesis of Fe-S clusters <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yurY''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''sufC ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed] <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || [[ABC transporter]] (ATP-binding protein)<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || synthesis of Fe-S clusters <br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU32710 sufC]<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=SufC SufC]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 28 kDa, 4.621 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 783 bp, 261 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[sufD]]'', ''[[yuzK]]''<br />
|-<br />
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU32710 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU32710 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU32710 DNA_with_flanks]<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yurY_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=sufC_3359995_3360780_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:sufC_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU32710]]<br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[ABC transporters]]}},<br />
{{SubtiWiki category|[[iron metabolism]]}},<br />
{{SubtiWiki category|[[essential genes]]}},<br />
{{SubtiWiki category|[[phosphoproteins]]}},<br />
[[most abundant proteins]]<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU32710<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU32710&redirect=T BSU32710]<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG14011]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:''' Ycf16 subfamily (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''[[Domains]]:''' <br />
<br />
* '''Modification:''' phosphorylated on ser/ thr/ tyr [http://www.ncbi.nlm.nih.gov/pubmed/16493705 PubMed] <br />
<br />
* '''[[Cofactors]]:'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''[[SubtInteract|Interactions]]:'''<br />
<br />
* '''[[Localization]]:'''<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU32710&redirect=T BSU32710]<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P80866 P80866]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU32710]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''[[sufC]]-[[sufD]]-[[sufS]]-[[sufU]]-[[sufB]]'' {{PubMed|22383849}}<br />
<br />
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=sufC_3359995_3360780_-1 sufC] {{PubMed|22383849}}<br />
<br />
* '''[[Sigma factor]]:''' <br />
<br />
* '''Regulation:''' <br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:'''<br />
** belongs to the 100 [[most abundant proteins]] {{PubMed|15378759}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium): 3638 {{PubMed|24696501}}<br />
** number of protein molecules per cell (complex medium with amino acids, without glucose): 9447 {{PubMed|24696501}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 18937 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 8637 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 7943 {{PubMed|21395229}}<br />
<br />
=Biological materials =<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>10092453, 20097860,16493705, 22383849 15378759</pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=SufD&diff=204920
SufD
2014-04-17T14:21:48Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: SufD}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=SufB&diff=204919
SufB
2014-04-17T14:21:46Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: SufB}}<br />
</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=FrlB&diff=204918
FrlB
2014-04-17T14:21:43Z
<p>134.76.70.252: </p>
<hr />
<div>* '''Description:''' fructoselysine-6-P-glycosidase <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''frlB''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yurP ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || fructoselysine-6-P-glycosidase <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || metabolism of aminoacylated fructose<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU32610 frlB]<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=frlB frlB]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 36 kDa, 5.442 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 984 bp, 328 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[frlO]]'', ''[[yurQ]]''<br />
|-<br />
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU32610 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU32610 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU32610 DNA_with_flanks]<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yurP_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=frlB_3351110_3352096_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:frlB_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU32610]]<br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[utilization of specific carbon sources]]}},<br />
{{SubtiWiki category|[[utilization of nitrogen sources other than amino acids]]}},<br />
{{SubtiWiki category|[[membrane proteins]]}},<br />
{{SubtiWiki category|[[phosphoproteins]]}},<br />
[[most abundant proteins]]<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[CodY regulon]]}}, {{SubtiWiki regulon|[[FrlR regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU32610<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU32610&redirect=T BSU32610]<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yurRQPONML.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG14002]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:'''<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''[[Domains]]:''' <br />
<br />
* '''Modification:'''<br />
** phosphorylated on Arg-48 {{PubMed|22517742}}<br />
<br />
* '''[[Cofactors]]:'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''[[SubtInteract|Interactions]]:''' <br />
<br />
* '''[[Localization]]:''' membrane associated [http://www.ncbi.nlm.nih.gov/pubmed/18763711 PubMed]<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU32610&redirect=T BSU32610]<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=3EUA 3EUA] <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O32157 O32157]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU32610]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
* '''Operon:''' <br />
** ''[[frlB]]-[[frlO]]-[[frlN]]-[[frlM]]-[[frlD]]'' {{PubMed|23175651,21347729}}<br />
** ''[[frlB]]-[[frlO]]'' {{PubMed|23175651}}<br />
** ''[[frlB]]'' {{PubMed|23175651}}<br />
<br />
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=frlB_3351110_3352096_-1 frlB] {{PubMed|22383849}}<br />
<br />
* '''[[Sigma factor]]:''' <br />
<br />
* '''Regulation:''' <br />
**'' [[frlB]]'': repressed during growth in the presence of branched chain amino acids ([[CodY]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/12618455 PubMed]<br />
** ''[[frlB]]'': induced in the presence of fructosamine ([[FrlR]]) {{PubMed|21397556}}<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[CodY]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/12618455 PubMed1], [http://www.ncbi.nlm.nih.gov/sites/entrez/18083814 PubMed2]<br />
** [[FrlR]]: transcription repression {{PubMed|21397556}}<br />
<br />
* '''Additional information:'''<br />
** the mRNA is substantially stabilized upon depletion of [[Rny|RNase Y]] {{PubMed|21815947}}<br />
** the ''[[frlB]]-[[frlO]]-[[frlN]]-[[frlM]]-[[frlD]]'' operon is not expressed in a ''[[cshA]]'' mutant {{PubMed|23175651}}<br />
** belongs to the 100 [[most abundant proteins]] {{PubMed|15378759}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium): 3695 {{PubMed|24696501}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 9758 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 5339 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 6442 {{PubMed|21395229}}<br />
<br />
=Biological materials =<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<pubmed>22517742 23175651 21815947 15556630,18083814,12618455, 21347729, 18763711, 21398478 15378759</pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=FrlD&diff=204917
FrlD
2014-04-17T14:21:40Z
<p>134.76.70.252: </p>
<hr />
<div>* '''Description:''' fructosamine kinase <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''frlD''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yurL ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || fructosamine kinase <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || metabolism of sugar amines<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU32570 frlD]<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=frlD frlD]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 30 kDa, 4.909 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 852 bp, 284 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[frlR]]'', ''[[frlM]]''<br />
|-<br />
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU32570 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU32570 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU32570 DNA_with_flanks]<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yurL_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=frlD_3347051_3347905_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:frlD_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU32570]]<br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[utilization of specific carbon sources]]}},<br />
{{SubtiWiki category|[[utilization of nitrogen sources other than amino acids]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[CodY regulon]]}}, {{SubtiWiki regulon|[[FrlR regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU32570<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU32570&redirect=T BSU32570]<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yurRQPONML.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13998]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:''' carbohydrate kinase pfkB family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''[[SubtInteract|Interactions]]:''' <br />
<br />
* '''[[Localization]]:'''<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU32570&redirect=T BSU32570]<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O32153 O32153]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU32570]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
* '''Operon:''' <br />
** ''[[frlB]]-[[frlO]]-[[frlN]]-[[frlM]]-[[frlD]]'' {{PubMed|23175651,21347729}}<br />
<br />
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=frlD_3347051_3347905_-1 frlD] {{PubMed|22383849}}<br />
<br />
* '''Sigma factor:''' <br />
<br />
* '''Regulation:''' <br />
**'' [[frlB]]'': repressed during growth in the presence of branched chain amino acids ([[CodY]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/12618455 PubMed]<br />
** ''[[frlB]]'': induced in the presence of fructosamine ([[FrlR]]) {{PubMed|21397556}}<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[CodY]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/12618455 PubMed1], [http://www.ncbi.nlm.nih.gov/sites/entrez/18083814 PubMed2]<br />
** [[FrlR]]: transcription repression {{PubMed|21397556}}<br />
<br />
* '''Additional information:'''<br />
** the mRNA is substantially stabilized upon depletion of [[Rny|RNase Y]] {{PubMed|21815947}}<br />
** the ''[[frlB]]-[[frlO]]-[[frlN]]-[[frlM]]-[[frlD]]'' operon is not expressed in a ''[[cshA]]'' mutant {{PubMed|23175651}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium): 828 {{PubMed|24696501}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 9042 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 3514 {{PubMed|21395229}}<br />
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 4350 {{PubMed|21395229}}<br />
<br />
=Biological materials =<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<pubmed> 23175651 21815947 15556630,16153181, 21347729,12618455, 21398478</pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
134.76.70.252
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YurJ&diff=204916
YurJ
2014-04-17T14:21:37Z
<p>134.76.70.252: </p>
<hr />
<div>{{#bank: YurJ}}<br />
</div>
134.76.70.252