SubtiWiki - User contributions [en]

Sandbox

2013-11-11T14:10:42Z

Czschiedrich: Undo revision 194476 by 134.76.70.252 (talk)

* '''Achtung:''' [[transcription factors activating transcription at SigL-dependent promoters |transcriptional activator]] of the ''[[acoA]]-[[acoB]]-[[acoC]]-[[acoL]]'' operon 
{| align="right" border="1" cellpadding="2"
|-Hallo
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''acoR''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yfjG, yzcB ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || [[transcription factors activating transcription at SigL-dependent promoters |transcriptional activator]] (for [[SigL]]-dependent promoter)
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of acetoin utilization
|-
|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=BSU33900 eno]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/Eno Eno]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 66 kDa, 7.884
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1815 bp, 605 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[acoL]]'', ''[[sspH]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU00100 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU00100 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU00100 Advanced_DNA]
|-
|colspan="2" | '''Genetic context''' [[Image:acoR_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=acoR_883758_885575_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:acoR_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU33900]]
|-
|}

__TOC__
 
 
 
 
 

 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[utilization of specific carbon sources]]}},
{{SubtiWiki category|[[transcription factors and their control]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[CcpA regulon]]}}
=The [[AcoR regulon]]: =
* ''[[acoA]]-[[acoB]]-[[acoC]]-[[acoL]]''

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU08100

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/acoR-sspH.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11790]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:'''

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''

* '''[[Localization]]:'''

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/O31551 O31551]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU08100]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[acoR]]-[[sspH]]'' {{PubMed|11274109}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=acoR_883758_885575_1 acoR] {{PubMed|22383849}}

* '''Sigma factor:''' [[SigA]] {{PubMed|22900538}}

* '''Regulation:'''
** repressed by glucose (3.7-fold) ([[CcpA]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]

* '''Regulatory mechanism:'''
** [[CcpA]]: transcription repression [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''
** 1S112 (no resistance), {{PubMed|3125155}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1S112&Search=1S112 BGSC]

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Michel Debarbouille]], Pasteur Institute, Paris, France [http://www.pasteur.fr/ip/easysite/go/03b-00000m-0ob/recherche/departements-scientifiques/microbiologie/unites-et-groupes/unite-de-biologie-des-bacteries-pathogenes-a-gram-positif/les-membres-de-l-equipe Homepage]

=Your additional remarks=

=References=

<pubmed>11274109,10368162, 22900538,12850135 </pubmed>

[[Category:Protein-coding genes]]hello

Sandbox

2013-11-11T13:29:43Z

Czschiedrich:

NrgB

2013-11-11T09:54:02Z

Czschiedrich:

* '''Description:''' nitrogen-regulated PII-like protein 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''nrgB''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''glnK''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || nitrogen-regulated PII-like protein
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of ammonium uptake
|-
|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=BSU36520 nrgB]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/NrgB NrgB]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/glutamate.html Ammonium/ glutamate]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 12 kDa, 8.825
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 348 bp, 116 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[nrgA]]'', ''[[bcrC]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU36520 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU36520 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU36520 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:nrgB_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=glnK_3758016_3758366_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:nrgB_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU36520]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[biosynthesis/ acquisition of amino acids]]}}, [[glutamate metabolism]],
{{SubtiWiki category|[[transcription factors and their control]]}},
{{SubtiWiki category|[[membrane proteins]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[TnrA regulon]]}}

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU36520

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/nrgAB.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10870]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:''' P(II) protein family (according to Swiss-Prot)

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''
** [[NrgA]]-[[NrgB]] [http://www.ncbi.nlm.nih.gov/sites/entrez/14600241 PubMed]
** [[TnrA]]-[[NrgB]] [http://www.ncbi.nlm.nih.gov/sites/entrez/17001076 PubMed]
** [[GlnA]]-[[NrgB]] {{PubMed|21435182}}

* '''[[Localization]]:''' cell membrane, via [[NrgA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/14600241 PubMed]

=== Database entries ===

* '''Structure:''' [http://www.ebi.ac.uk/pdbe-srv/view/entry/2nuu/summary 2NUU] (the complex with [[NrgA]], from ''E. coli'') {{PubMed|17220269}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/Q07428 Q07428]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU36520]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=
* '''Operon:''' ''[[nrgA]]-[[nrgB]]'' {{PubMed|8282685}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=glnK_3758016_3758366_1 nrgB] {{PubMed|22383849}}

* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|8282685}}

* '''Regulation:''' induced by ammonium limitation
** induced by ammonium limitation ([[TnrA]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/8799114 PubMed]

* '''Regulatory mechanism:'''
** [[TnrA]]: transcription activation [http://www.ncbi.nlm.nih.gov/sites/entrez/8799114 PubMed]

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' GP259 (cat), GP255 (nrgAB, cat), both available in the [[Stülke]] lab

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:'''

* '''Antibody:''' available in [[Jörg Stülke]] lab

=Labs working on this gene/protein=

[[Susan Fisher]], Boston, USA [http://www.bumc.bu.edu/microbiology/research/susan-h-fisher-phd/ homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed>10637624 18182294 11238986 </pubmed>
==Original publications==
<pubmed>23010999 12823818,,8799114,17001076 , 14600241 ,8282685 ,1670935 17220269 23535029 23818625 21435182</pubmed>

[[Category:Protein-coding genes]]

AbrB

2013-11-01T13:29:34Z

Czschiedrich: /* Biological materials */

* '''Description:''' transcriptional regulator of transition state genes 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''abrB''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''cpsX, tolB ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || transcriptional regulator
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of gene expression during the transition from growth to stationary phase
|-
|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=BSU00370 abrB]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/AbrB AbrB]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm], [http://subtiwiki.uni-goettingen.de/pathways/histidine.html His], [http://subtiwiki.uni-goettingen.de/pathways/aspartate_asparagine.html Asp, Asn], [http://subtiwiki.uni-goettingen.de/pathways/phosphorelay.html Phosphorelay], [http://subtiwiki.uni-goettingen.de/pathways/glutamate.html Ammonium/ glutamate], [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism], [http://subtiwiki.uni-goettingen.de/pathways/carbohydrate_metabolic_pathways.html Sugar catabolism], [http://subtiwiki.uni-goettingen.de/pathways/other_nitrogen_sources/index.html Alternative nitrogen sources], [http://subtiwiki.uni-goettingen.de/wiki/index.php/Protein_secretion Protein secretion]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 10 kDa, 6.57
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 282 bp, 94 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yabC]]'', ''[[metS]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU00370 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU00370 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU00370 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:abrB_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=abrB_44848_45138_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:abrB_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU00370]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[transition state regulators]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[AbrB regulon]]}},
{{SubtiWiki regulon|[[Spo0A regulon]]}}
=The [[AbrB regulon]]=
=The gene=

=== Basic information ===

* '''Locus tag:''' BSU00370

===Phenotypes of a mutant ===

No swarming motility on B medium. [http://www.ncbi.nlm.nih.gov/sites/entrez/19202088 PubMed]

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/abrB.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10100]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:'''

* '''Paralogous protein(s):''' [[Abh]], [[SpoVT]] (only N-terminal domain)

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:''' phosphorylated on Ser-86 {{PubMed|20509597}}

* '''Cofactor(s):'''

* '''Effectors of protein activity:''' interaction with [[AbbA]] results in inactivation of AbrB [http://www.ncbi.nlm.nih.gov/sites/entrez/18840696 PubMed]

* '''[[SubtInteract|Interactions]]:'''
** [[AbrB]]-[[AbbA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/18840696 PubMed]
** [[AbrB]]-[[AbrB]] {{PubMed|20817675}}
** [[AbrB]]-[[Abh]] {{PubMed|20817675}}

* '''[[Localization]]:'''

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1Z0R 1Z0R] (N-terminal DNA recognition domain), [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=32611 NCBI] [http://www.ncbi.nlm.nih.gov/sites/entrez/16223496 PubMed]

* '''UniProt:''' [http://www.uniprot.org/uniprot/P08874 P08874]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU00370]

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''abrB'' [http://www.ncbi.nlm.nih.gov/sites/entrez/3145384 PubMed]

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=abrB_44848_45138_-1 abrB] {{PubMed|22383849}}

* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/3145384 PubMed]

* '''Regulation:''' expressed at the onset of stationary phase [http://www.ncbi.nlm.nih.gov/sites/entrez/3145384 PubMed]
** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/2106683,15687200 PubMed]
** repressed during logrithmic growth ([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/2504584 PubMed]

* '''Regulatory mechanism:''' repressed by [[Spo0A]]-P [http://www.ncbi.nlm.nih.gov/sites/entrez/3145384 PubMed]
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/2106683,15687200 PubMed]
** [[AbrB]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/2504584 PubMed]

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' TT731 (aphA3)
** 1A935 (''abrB''::''cat''), {{PubMed|11886552}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A935&Search=1A935 BGSC]
** GP1548 (''abrB''::''ermC''), available in [[Stülke]] lab

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab

* '''Antibody:'''

=Labs working on this gene/protein=

[[Richard Losick]], Harvard Univ., Cambridge, USA [http://www.mcb.harvard.edu/Losick/ homepage]

[[Mark Strauch]], Baltimore, USA [http://lifesciences.umaryland.edu/Pages/faculty_profile.aspx?ID=212 homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed>11964117 19995980 11931565 19202088,18326573</pubmed>
==The [[AbrB regulon]]: ==
<pubmed>20817675,18840696 23580539</pubmed>
==Other original publications==
<pubmed> 19581368 ,3145384,2437099,8878039,2504584, 11377867,1850083,2106683,12586407, 12076816,17660417, 2554317,18430133,7768874, 2507867, 1766371, 15687200,1908787,2106683,15687200, 2504584,3145384 8821944 8576231 11101897 11395475 11583849 11751836 12123659 12076816 12591885 15610005 16223496 16159768 16702211 17660417 17720793 7592460, 19465659 20509597 15101989 19202088,18326573</pubmed>
[[Category:Protein-coding genes]]

TasA

2013-11-01T13:28:46Z

Czschiedrich: /* Biological materials */

* '''Description:''' major component of biofilm matrix, forms amyloid fibers 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''tasA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''cotN, yqhF ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || major component of biofilm matrix
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || [[biofilm formation]]
|-
|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=BSU24620 tasA]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/TasA TasA]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm], [http://subtiwiki.uni-goettingen.de/wiki/index.php/Protein_secretion Protein secretion]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 28 kDa, 5.442
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 783 bp, 261 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[sinR]]'', ''[[sipW]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24620 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24620 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24620 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:tasA_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=tasA_2553081_2553866_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:tasA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24620]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[biofilm formation]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[AbrB regulon]]}},
{{SubtiWiki regulon|[[RemA regulon]]}},
{{SubtiWiki regulon|[[SinR regulon]]}}

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU24620

===Phenotypes of a mutant ===
* altered cell death pattern in colonies {{PubMed|23012477}}

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yqxM-sipW-tasA.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11697]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' forms amyloid fibers that bind cells together in the biofilm {{PubMed|20080671}}

* '''Protein family:''' peptidase M73 family (according to Swiss-Prot)

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''
** forms fibers of variable length and 10-15 nm in width {{PubMed|20080671}}
** [[TapA]]-[[TasA]] {{PubMed|21477127}}
** [[SipW]]-[[TasA]] {{PubMed|10049401}}

* '''[[Localization]]:'''
** extracellular (signal peptide) [http://www.ncbi.nlm.nih.gov/pubmed/18957862 PubMed], secretion requires [[SipW]] {{PubMed|10049401}}
** membrane [http://www.ncbi.nlm.nih.gov/pubmed/18763711 PubMed]

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P54507 P54507]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24620]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[tapA]]-[[sipW]]-[[tasA]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/16430695 PubMed]

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=tasA_2553081_2553866_-1 tasA] {{PubMed|22383849}}

* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16430695 PubMed]

* '''Regulation:'''
** repressed by casamino acids [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed]
** repressed by [[SinR]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16430695 PubMed]
** repressed during logrithmic growth ([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/10464223,17720793 PubMed]

* '''Regulatory mechanism:'''
** [[AbrB]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/10464223,17720793 PubMed]
** [[SinR]]: transcription repression {{PubMed|16430695}}
** [[RemA]]: transcription activation {{PubMed|23646920}}

* '''Additional information:'''
** induction by sequestration of [[SinR]] by [[SinI]] or [[SlrA]] {{PubMed|15661000,19788541}} or by SlrR {{PubMed|20351052}}
** the ''[[tapA]]-[[sipW]]-[[tasA]]'' operon is not expressed in a ''[[ymdB]]'' mutant {{PubMed|21856853}}
** the amount of the mRNA is substantially decreased upon depletion of [[Rny|RNase Y]] (this is likely due to the increased stability of the ''[[sinR]]'' mRNA) {{PubMed|21815947}}

=Biological materials =

* '''Mutant:'''
** 1S121 ( ''tasA''::''spec''), {{PubMed|10049401}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1S121&Search=1S121 BGSC]
** GP1672 (''sinR-tasA''::''cat''), available in [[Stülke]] lab
** GP1663 (''yghG-sinI-sinR-tasA''), available in [[Stülke]] lab

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:'''

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=
==Reviews==
<pubmed>20735481 20351052 21488983</pubmed>

==Original publications==

<pubmed>23352144 23352134 23632024 23012477 21815947 21856853 18047568,16430695,16430696,10368135,18430133, 18647168 , 10464223,17720793,18957862 12107147 18763711, 20080671 10049401 23646920</pubmed>

[[Category:Protein-coding genes]]

SinR

2013-11-01T13:27:44Z

Czschiedrich: /* Biological materials */

* '''Description:''' transcriptional regulator of post-exponential-phase responses genes 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''sinR''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''sin, flaD ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || transcriptional regulator of post-exponential-phase responses genes
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of [[biofilm formation]]
|-
|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=BSU24610 sinR]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/SinR SinR]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm], [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism], [http://subtiwiki.uni-goettingen.de/wiki/index.php/Protein_secretion Protein secretion]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 12 kDa, 7.177
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 333 bp, 111 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[sinI]]'', ''[[tasA]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24610 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24610 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24610 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:sinR_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=sinR_2552653_2552988_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:sinR_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24610]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[transcription factors and their control]]}},
{{SubtiWiki category|[[transition state regulators]]}},
{{SubtiWiki category|[[biofilm formation]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[AbrB regulon]]}},
{{SubtiWiki regulon|[[ScoC regulon]]}},
{{SubtiWiki regulon|[[Spo0A regulon]]}}

=The [[SinR regulon]]=

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU24610

===Phenotypes of a mutant ===
* the mutation suppresses the galactose toxicity to a'' [[galE]]'' mutant {{PubMed|22893383}}
=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sinIR.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10754]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''
** transcription regulator of biofilm genes, acts as a true repressor of the ''[[tapA]]-[[sipW]]-[[tasA]]'' operon and as an anti-activator (prevents binding of the activator protein [[RemA]]) of the ''[[epsA]]-[[epsB]]-[[epsC]]-[[epsD]]-[[epsE]]-[[epsF]]-[[epsG]]-[[epsH]]-[[epsI]]-[[epsJ]]-[[epsK]]-[[epsL]]-[[epsM]]-[[epsN]]-[[epsO]]'' operon {{PubMed|23646920}}
** acts as co-repressor for [[SlrR]] {{PubMed|20351052}}

* '''Protein family:'''

* '''Paralogous protein(s):''' [[SlrR]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''
** DNA-binding N-terminal domain (aa 1-69) {{PubMed|21708175}}
** [[SinI]]-binding C-terminal domain (aa 74-111) {{PubMed|21708175}}

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''
** [[SinI]] and [[SlrA]] are antagonists to [[SinR]] {{PubMed|19788541}}
** [[SlrR]] is also antagonist of [[SinR]] {{PubMed|20351052}}

* '''[[SubtInteract|Interactions]]:'''
** [[SlrA]]-[[SinR]] {{PubMed|19788541}}, K(D) 10.6 nM {{PubMed|23430750}}
** [[SlrR]]-[[SinR]] {{PubMed|20351052}}, K(D) 47.5 nM {{PubMed|23430750}}, [[Veg]] may inhibit this interaction {{PubMed|23378512}}
** [[SinR]]-[[SinI]] {{PubMed|9799632}}, K(D) 1.8 nM {{PubMed|23430750}}
** [[SinR]]-[[ScoC]]

* '''[[Localization]]:'''

=== Database entries ===

* '''Structure:'''
** [http://www.rcsb.org/pdb/explore.do?structureId=3QQ6 3QQ6] (N-terminal domain, aa 1-69) {{PubMed|21708175}}
** [http://www.rcsb.org/pdb/explore.do?structureId=2YAL 2YAL] (C-terminal domain, aa 74-111) {{PubMed|21708175}}
** [http://www.rcsb.org/pdb/explore.do?structureId=1B0N 1B0N] (complex [[SinR]]-[[SinI]]) {{PubMed|9799632}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/P06533 P06533]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24610]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:'''
** ''[[sinI]]-[[sinR]]'' {{PubMed|3125149}}
** ''[[sinR]]'' {{PubMed|3125149}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=sinR_2552653_2552988_1 sinR] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''
** ''[[sinI]]'': [[SigA]] {{PubMed|3125149}}
** ''[[sinR]]'': [[SigA]] {{PubMed|3125149}}

* '''Regulation:'''
** ''[[sinI]]'': repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed]
** ''[[sinI]]'': repressed during exponential growth ([[ScoC]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]
** ''[[sinI]]'': repressed during logrithmic growth ([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]
** ''[[sinI]]'': repressed during vegetative growth ([[SinR]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1664536 PubMed]

* '''Regulatory mechanism:'''
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed]
** [[ScoC]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]
** [[AbrB]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]
** [[SinR]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1664536 PubMed]

* '''Additional information:'''
** the mRNA is substantially stabilized upon depletion of [[Rny|RNase Y]] (the half-life of the mRNA increases from 3.5 to 13 min) {{PubMed|21815947}}

=Biological materials =

* '''Mutant:''' TMB079 ''sinR::spec'', GP736 (tetR), available in [[Stülke]] lab
** 1S97 (''sinR''::''phleo''), {{PubMed|8422983}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1S97&Search=1S97 BGSC]
** GP1672 (''sinR-tasA''::''cat''), available in [[Stülke]] lab
** GP1663 (''yghG-sinI-sinR-tasA''), available in [[Stülke]] lab

* '''Expression vector:'''
** N-terminal Strep-tag, for [[SPINE]], expression in ''B. subtilis'', in [[pGP380]]: pGP1083 , available in [[Stülke]] lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab

* '''FLAG-tag construct:''' GP960 (spc, based on [[pGP1331]]), available in the [[Stülke]] lab

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=
==Reviews==
<pubmed>20395361 20541494 23353768 </pubmed>
==Modelling of the [[SinI]]/[[SinR]] switch==
<pubmed> 21095906 </pubmed>
==Original publications==
<pubmed> 22893383 23378512 23430750 23475644 21856853 21815947 22329926,21326214,21708175 8955328, 15661000,8878039, 16923912,15104138,16430695,16430696,18047568,18430133,11751836,1906467,11751836,7635837,11751836, 19201793, 10547280, 15104138, 9799632 19788541 19898538 3125149 8932324 20351052 20923420 8422983 9685500 9158733 23646920 23660663</pubmed>

[[Category:Protein-coding genes]]

SinI

2013-11-01T13:26:32Z

Czschiedrich: /* Biological materials */

* '''Description:''' antagonist of [[SinR]], drives [[SlrR]] from the [[SlrR]](LOW) to the [[SlrR]](HIGH) state 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''sinI''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || antagonist of [[SinR]]
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of [[biofilm formation]]
|-
|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=BSU24600 sinI]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/SinI SinI]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 6 kDa, 6.333
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 171 bp, 57 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqhG]]'', ''[[sinR]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24600 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24600 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24600 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:sinI_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=sinI_2552446_2552619_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:sinI_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24600]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[transcription factors and their control]]}},
{{SubtiWiki category|[[transition state regulators]]}},
{{SubtiWiki category|[[biofilm formation]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[AbrB regulon]]}},
{{SubtiWiki regulon|[[ScoC regulon]]}},
{{SubtiWiki regulon|[[Spo0A regulon]]}}

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU24600

===Phenotypes of a mutant ===
* altered cell death pattern in colonies {{PubMed|23012477}}

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sinIR.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10753]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:'''

* '''Paralogous protein(s):''' [[SlrA]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''
** [[SinR]]-[[SinI]] {{PubMed|9799632}}, K(D) 1.8 nM {{PubMed|23430750}}

* '''[[Localization]]:'''

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1B0N 1B0N] (complex [[SinR]]-[[SinI]]) {{PubMed|9799632}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/P23308 P23308]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24600]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[sinI]]-[[sinR]]'' {{PubMed|3125149}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=sinI_2552446_2552619_1 sinI] {{PubMed|22383849}}

* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|3125149}}

* '''Regulation:'''
** activated under conditions that trigger sporulation by ([[Spo0A]]) interaction [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed],{{PubMed|21326214}}
** repressed during exponential growth ([[ScoC]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]
** repressed during logrithmic growth ([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]
** repressed during vegetative growth ([[SinR]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1664536 PubMed]

* '''Regulatory mechanism:'''
** [[Spo0A]]: transcription activation, in a portion of cells [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed]
** [[ScoC]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]
** [[AbrB]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]
** [[SinR]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1664536 PubMed]

* '''Additional information:'''
** the mRNA is substantially stabilized upon depletion of [[Rny|RNase Y]] {{PubMed|21815947}}

=Biological materials =

* '''Mutant:'''
** GP959 (spc), available in [[Stülke]] lab
** DS91 (spc) NCIB3610 derivate, available in [[Stülke]] lab
** 1S98 ( ''sinI''::''kan''), {{PubMed|11466285}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1S98&Search=1S98 BGSC]
** GP1663 (''yghG-sinI-sinR-tasA''), available in [[Stülke]] lab

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab

* '''FLAG-tag construct (C-term):''' GP935 (kan), available in [[Stülke]] lab

* '''Antibody:'''

=Labs working on this gene/ protein=

=Your additional remarks=

=References=
==Reviews==
<pubmed> 20541494 </pubmed>
==Modelling of the [[SinI]]/[[SinR]] switch==
<pubmed> 21095906 </pubmed>
==Original publications==
<pubmed>23430750 23012477,21326214 21815947 3125149 15661000,18047568,,11751836,1906467,11751836,7635837,11751836, 10547280, 15104138, 9799632 20923420 8422983 </pubmed>

[[Category:Protein-coding genes]]

YqhG

2013-11-01T13:25:55Z

Czschiedrich: /* Biological materials */

* '''Description:''' unknown 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yqhG''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
|-
|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=BSU24590 yqhG]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 30 kDa, 5.981
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 792 bp, 264 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqhH]]'', ''[[sinI]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24590 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24590 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24590 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:yqhG_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhG_2551469_2552263_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:yqhG_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24590]]
|-
|}

__TOC__
 
 
 
 
 

 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[sporulation proteins]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[SigF regulon]]}}

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU24590

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' no entry

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11698]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:'''

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''

* '''[[Localization]]:'''

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P54508 P54508]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24590]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[yqhH]]-[[yqhG]]''

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhG_2551469_2552263_1 yqhG] {{PubMed|22383849}}

* '''Sigma factor:''' [[SigF]] {{PubMed|16497325}}

* '''Regulation:''' expressed early during sporulation in the forespore ([[SigF]]) {{PubMed|16497325}}

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''
** GP1663 (''yghG-sinI-sinR-tasA''), available in [[Stülke]] lab

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:'''

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>16497325,, </pubmed>

[[Category:Protein-coding genes]]

YqhG

2013-11-01T13:25:09Z

Czschiedrich: /* Biological materials */

* '''Description:''' unknown 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yqhG''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
|-
|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=BSU24590 yqhG]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 30 kDa, 5.981
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 792 bp, 264 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqhH]]'', ''[[sinI]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24590 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24590 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24590 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:yqhG_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhG_2551469_2552263_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:yqhG_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24590]]
|-
|}

__TOC__
 
 
 
 
 

 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[sporulation proteins]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[SigF regulon]]}}

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU24590

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' no entry

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11698]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:'''

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''

* '''[[Localization]]:'''

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P54508 P54508]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24590]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[yqhH]]-[[yqhG]]''

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhG_2551469_2552263_1 yqhG] {{PubMed|22383849}}

* '''Sigma factor:''' [[SigF]] {{PubMed|16497325}}

* '''Regulation:''' expressed early during sporulation in the forespore ([[SigF]]) {{PubMed|16497325}}

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' GP1663 (''yghG-sinI-sinR-tasA''), available in [[Stülke]] lab

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:'''

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>16497325,, </pubmed>

[[Category:Protein-coding genes]]

SinR

2013-11-01T13:22:38Z

Czschiedrich: /* Biological materials */

* '''Description:''' transcriptional regulator of post-exponential-phase responses genes 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''sinR''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''sin, flaD ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || transcriptional regulator of post-exponential-phase responses genes
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of [[biofilm formation]]
|-
|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=BSU24610 sinR]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/SinR SinR]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm], [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism], [http://subtiwiki.uni-goettingen.de/wiki/index.php/Protein_secretion Protein secretion]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 12 kDa, 7.177
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 333 bp, 111 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[sinI]]'', ''[[tasA]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24610 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24610 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24610 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:sinR_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=sinR_2552653_2552988_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:sinR_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24610]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[transcription factors and their control]]}},
{{SubtiWiki category|[[transition state regulators]]}},
{{SubtiWiki category|[[biofilm formation]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[AbrB regulon]]}},
{{SubtiWiki regulon|[[ScoC regulon]]}},
{{SubtiWiki regulon|[[Spo0A regulon]]}}

=The [[SinR regulon]]=

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU24610

===Phenotypes of a mutant ===
* the mutation suppresses the galactose toxicity to a'' [[galE]]'' mutant {{PubMed|22893383}}
=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sinIR.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10754]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''
** transcription regulator of biofilm genes, acts as a true repressor of the ''[[tapA]]-[[sipW]]-[[tasA]]'' operon and as an anti-activator (prevents binding of the activator protein [[RemA]]) of the ''[[epsA]]-[[epsB]]-[[epsC]]-[[epsD]]-[[epsE]]-[[epsF]]-[[epsG]]-[[epsH]]-[[epsI]]-[[epsJ]]-[[epsK]]-[[epsL]]-[[epsM]]-[[epsN]]-[[epsO]]'' operon {{PubMed|23646920}}
** acts as co-repressor for [[SlrR]] {{PubMed|20351052}}

* '''Protein family:'''

* '''Paralogous protein(s):''' [[SlrR]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''
** DNA-binding N-terminal domain (aa 1-69) {{PubMed|21708175}}
** [[SinI]]-binding C-terminal domain (aa 74-111) {{PubMed|21708175}}

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''
** [[SinI]] and [[SlrA]] are antagonists to [[SinR]] {{PubMed|19788541}}
** [[SlrR]] is also antagonist of [[SinR]] {{PubMed|20351052}}

* '''[[SubtInteract|Interactions]]:'''
** [[SlrA]]-[[SinR]] {{PubMed|19788541}}, K(D) 10.6 nM {{PubMed|23430750}}
** [[SlrR]]-[[SinR]] {{PubMed|20351052}}, K(D) 47.5 nM {{PubMed|23430750}}, [[Veg]] may inhibit this interaction {{PubMed|23378512}}
** [[SinR]]-[[SinI]] {{PubMed|9799632}}, K(D) 1.8 nM {{PubMed|23430750}}
** [[SinR]]-[[ScoC]]

* '''[[Localization]]:'''

=== Database entries ===

* '''Structure:'''
** [http://www.rcsb.org/pdb/explore.do?structureId=3QQ6 3QQ6] (N-terminal domain, aa 1-69) {{PubMed|21708175}}
** [http://www.rcsb.org/pdb/explore.do?structureId=2YAL 2YAL] (C-terminal domain, aa 74-111) {{PubMed|21708175}}
** [http://www.rcsb.org/pdb/explore.do?structureId=1B0N 1B0N] (complex [[SinR]]-[[SinI]]) {{PubMed|9799632}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/P06533 P06533]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24610]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:'''
** ''[[sinI]]-[[sinR]]'' {{PubMed|3125149}}
** ''[[sinR]]'' {{PubMed|3125149}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=sinR_2552653_2552988_1 sinR] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''
** ''[[sinI]]'': [[SigA]] {{PubMed|3125149}}
** ''[[sinR]]'': [[SigA]] {{PubMed|3125149}}

* '''Regulation:'''
** ''[[sinI]]'': repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed]
** ''[[sinI]]'': repressed during exponential growth ([[ScoC]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]
** ''[[sinI]]'': repressed during logrithmic growth ([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]
** ''[[sinI]]'': repressed during vegetative growth ([[SinR]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1664536 PubMed]

* '''Regulatory mechanism:'''
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed]
** [[ScoC]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]
** [[AbrB]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]
** [[SinR]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1664536 PubMed]

* '''Additional information:'''
** the mRNA is substantially stabilized upon depletion of [[Rny|RNase Y]] (the half-life of the mRNA increases from 3.5 to 13 min) {{PubMed|21815947}}

=Biological materials =

* '''Mutant:''' TMB079 ''sinR::spec'', GP736 (tetR), available in [[Stülke]] lab
** 1S97 ( ''sinR''::''phleo''), {{PubMed|8422983}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1S97&Search=1S97 BGSC]
** GP1672 (''sinR-tasA''::''cat''), available in [[Stülke]] lab
** GP1663 (''yghG-sinI-sinR-tasA''), available in [[Stülke]] lab

* '''Expression vector:'''
** N-terminal Strep-tag, for [[SPINE]], expression in ''B. subtilis'', in [[pGP380]]: pGP1083 , available in [[Stülke]] lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab

* '''FLAG-tag construct:''' GP960 (spc, based on [[pGP1331]]), available in the [[Stülke]] lab

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=
==Reviews==
<pubmed>20395361 20541494 23353768 </pubmed>
==Modelling of the [[SinI]]/[[SinR]] switch==
<pubmed> 21095906 </pubmed>
==Original publications==
<pubmed> 22893383 23378512 23430750 23475644 21856853 21815947 22329926,21326214,21708175 8955328, 15661000,8878039, 16923912,15104138,16430695,16430696,18047568,18430133,11751836,1906467,11751836,7635837,11751836, 19201793, 10547280, 15104138, 9799632 19788541 19898538 3125149 8932324 20351052 20923420 8422983 9685500 9158733 23646920 23660663</pubmed>

[[Category:Protein-coding genes]]

AbrB

2013-11-01T13:16:38Z

Czschiedrich: /* Biological materials */

* '''Description:''' transcriptional regulator of transition state genes 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''abrB''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''cpsX, tolB ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || transcriptional regulator
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of gene expression during the transition from growth to stationary phase
|-
|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=BSU00370 abrB]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/AbrB AbrB]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm], [http://subtiwiki.uni-goettingen.de/pathways/histidine.html His], [http://subtiwiki.uni-goettingen.de/pathways/aspartate_asparagine.html Asp, Asn], [http://subtiwiki.uni-goettingen.de/pathways/phosphorelay.html Phosphorelay], [http://subtiwiki.uni-goettingen.de/pathways/glutamate.html Ammonium/ glutamate], [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism], [http://subtiwiki.uni-goettingen.de/pathways/carbohydrate_metabolic_pathways.html Sugar catabolism], [http://subtiwiki.uni-goettingen.de/pathways/other_nitrogen_sources/index.html Alternative nitrogen sources], [http://subtiwiki.uni-goettingen.de/wiki/index.php/Protein_secretion Protein secretion]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 10 kDa, 6.57
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 282 bp, 94 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yabC]]'', ''[[metS]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU00370 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU00370 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU00370 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:abrB_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=abrB_44848_45138_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:abrB_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU00370]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[transition state regulators]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[AbrB regulon]]}},
{{SubtiWiki regulon|[[Spo0A regulon]]}}
=The [[AbrB regulon]]=
=The gene=

=== Basic information ===

* '''Locus tag:''' BSU00370

===Phenotypes of a mutant ===

No swarming motility on B medium. [http://www.ncbi.nlm.nih.gov/sites/entrez/19202088 PubMed]

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/abrB.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10100]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:'''

* '''Paralogous protein(s):''' [[Abh]], [[SpoVT]] (only N-terminal domain)

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:''' phosphorylated on Ser-86 {{PubMed|20509597}}

* '''Cofactor(s):'''

* '''Effectors of protein activity:''' interaction with [[AbbA]] results in inactivation of AbrB [http://www.ncbi.nlm.nih.gov/sites/entrez/18840696 PubMed]

* '''[[SubtInteract|Interactions]]:'''
** [[AbrB]]-[[AbbA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/18840696 PubMed]
** [[AbrB]]-[[AbrB]] {{PubMed|20817675}}
** [[AbrB]]-[[Abh]] {{PubMed|20817675}}

* '''[[Localization]]:'''

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1Z0R 1Z0R] (N-terminal DNA recognition domain), [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=32611 NCBI] [http://www.ncbi.nlm.nih.gov/sites/entrez/16223496 PubMed]

* '''UniProt:''' [http://www.uniprot.org/uniprot/P08874 P08874]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU00370]

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''abrB'' [http://www.ncbi.nlm.nih.gov/sites/entrez/3145384 PubMed]

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=abrB_44848_45138_-1 abrB] {{PubMed|22383849}}

* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/3145384 PubMed]

* '''Regulation:''' expressed at the onset of stationary phase [http://www.ncbi.nlm.nih.gov/sites/entrez/3145384 PubMed]
** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/2106683,15687200 PubMed]
** repressed during logrithmic growth ([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/2504584 PubMed]

* '''Regulatory mechanism:''' repressed by [[Spo0A]]-P [http://www.ncbi.nlm.nih.gov/sites/entrez/3145384 PubMed]
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/2106683,15687200 PubMed]
** [[AbrB]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/2504584 PubMed]

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' TT731 (aphA3)
** 1A935 ( ''abrB''::''cat''), {{PubMed|11886552}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A935&Search=1A935 BGSC]
** GP1548 ( ''abrB''::''ermC'')

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab

* '''Antibody:'''

=Labs working on this gene/protein=

[[Richard Losick]], Harvard Univ., Cambridge, USA [http://www.mcb.harvard.edu/Losick/ homepage]

[[Mark Strauch]], Baltimore, USA [http://lifesciences.umaryland.edu/Pages/faculty_profile.aspx?ID=212 homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed>11964117 19995980 11931565 19202088,18326573</pubmed>
==The [[AbrB regulon]]: ==
<pubmed>20817675,18840696 23580539</pubmed>
==Other original publications==
<pubmed> 19581368 ,3145384,2437099,8878039,2504584, 11377867,1850083,2106683,12586407, 12076816,17660417, 2554317,18430133,7768874, 2507867, 1766371, 15687200,1908787,2106683,15687200, 2504584,3145384 8821944 8576231 11101897 11395475 11583849 11751836 12123659 12076816 12591885 15610005 16223496 16159768 16702211 17660417 17720793 7592460, 19465659 20509597 15101989 19202088,18326573</pubmed>
[[Category:Protein-coding genes]]

Crh

2011-11-18T16:04:04Z

Czschiedrich:

* '''Description:''' "Carbon-flux regulating [[HPr]]", former known as "Catabolite repression [[HPr]]-like protein", control of flux through the harmful methylglyoxal pathway, minor cofactor of the [[CcpA]] transcription factor 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''crh''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yvcM''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || Carbon-flux regulating [[HPr]]
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of carbon flux
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/Crh Crh]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 9,2 kDa, 4.70
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 255 bp, 85 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yvcN]]'', ''[[yvcL]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB15479]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:crh_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[transcription factors and their control]]}},
{{SubtiWiki category|[[phosphoproteins]]}}

= This gene is a member of the following [[regulons]] =

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU34740

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' no entry

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12403]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:''' [[PtsH|HPr]] family

* '''Paralogous protein(s):''' [[PtsH|HPr]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:''' [[PtsH|HPr]] domain (1–85)

* '''Modification:''' phosphorylation on Ser46 by [[HprK]] [http://www.ncbi.nlm.nih.gov/sites/entrez/9237995 PubMed]

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''
** Crh-[[GapA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/17142398 PubMed]
** Crh-[[CcpA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12972249 PubMed]
** [[HprK]]-Crh [http://www.ncbi.nlm.nih.gov/sites/entrez/12009882 PubMed]
** [[Crh]]-[[MgsA]] (only non-phosphorylated [[Crh]] interacts with [[MgsA]]) {{PubMed|21992469}}

* '''[[Localization]]:'''

=== Database entries ===

* '''Structure:'''
** [http://www.rcsb.org/pdb/explore.do?structureId=2AK7 2AK7] (dimeric Crh-Ser46-P)
** [http://www.rcsb.org/pdb/explore.do?structureId=1ZVV 1ZVV] ([[CcpA]]-Crh-DNA complex)
** [http://www.rcsb.org/pdb/explore.do?structureId=2RLZ 2RLZ] (dimer)
** [http://www.rcsb.org/pdb/explore.do?structureId=1MU4 1MU4]
** [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=24634 NCBI], dimer
** [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=64943 NCBI], [[CcpA]]-Crh-DNA complex
** [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=52326 NCBI], dimeric phosphor-Crh
** [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=39567 NCBI]
* '''UniProt:''' [http://www.uniprot.org/uniprot/O06976 O06976]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU34740]

=== Additional information===

Crh does not possess the phosphorylation site used for [[PTS]] phosphotransfer (His-15 in [[PtsH]]), it can only be phosphorylated on Ser-46

=Expression and regulation=

* '''Operon:''' ''[[yvcI]]-[[yvcJ]]-[[yvcK]]-[[yvcL]]-[[crh]]-[[yvcN]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/9237995 PubMed]

* '''Sigma factor:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16272399 PubMed]

* '''Regulation:''' very weak stimuation of expression by citrate and succinate [http://www.ncbi.nlm.nih.gov/sites/entrez/16272399 PubMed]

* '''Regulatory mechanism:'''

* '''Additional information:''' Crh is weakly expressed. This results in part from a poorly conserved ribosomal binding site of the mRNA. [http://www.ncbi.nlm.nih.gov/sites/entrez/15126459 PubMed]

=Biological materials =

* '''Mutant:''' GP860 (aphA3), QB7097 (spc), available in [[Stülke]] lab

* '''Expression vector:'''
** pGP641 (N-terminal Strep-tag, purification from ''B. subtilis'', for [[SPINE]], in [[pGP380]]), available in [[Stülke]] lab
** pGP734 (C-terminal Strep-tag, purification from ''B. subtilis'', for [[SPINE]], in [[pGP382]]), available in [[Stülke]] lab

* '''lacZ fusion:''' see ''[[yvcI]]''

* '''GFP fusion:'''

* '''two-hybrid system:''' ''[[crh]]'', ''crh(Ser46Asp)'', ''crh(Ser46Ala)'' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Boris Görke| Görke]] lab

* '''FLAG-tag construct:
** GP69 (spc, based on [[pGP1331]]), available in the [[Boris Görke]] and [[Stülke]] labs
** pGP1200 ''crh''(Ser46Ala) (spc, based on [[pGP1331]]), available in the [[Stülke]] lab

=Labs working on this gene/protein=

[[Boris Görke]], University of Göttingen, Germany
[http://wwwuser.gwdg.de/~genmibio/goerke.html Homepage]

[[Anne Galinier]], University of Marseille, France

[[Wolfgang Hillen]], Erlangen University, Germany [http://www.biologie.uni-erlangen.de/mibi/index2.html Homepage]

[[Richard Brennan]], Houston, Texas, USA [http://www.mdanderson.org/departments/biochem/display.cfm?id=556ef368-6c81-4043-b74f350d41dd06cb&method=displayfull&pn=a8427ebd-d0ff-11d4-80fd00508b603a14 Homepage]

=Your additional remarks=

=References=

<pubmed>12972249 9973552 9237995 16272399 15126459 10217795 17142398 16316990, 12009882 10589728 12670692 11916384 11361076 11361074 18320329 18284240 16411239 21992469</pubmed>

[[Category:Protein-coding genes]]

Crh

2011-11-10T09:15:38Z

Czschiedrich:

* '''Description:''' "Catabolite repression [[HPr]]-like protein", control of flux through the harmful methylglyoxal pathway, minor cofactor of the [[CcpA]] transcription factor 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''crh''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yvcM''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || catabolite repression [[HPr]]-like protein
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of carbon flux
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/Crh Crh]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 9,2 kDa, 4.70
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 255 bp, 85 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yvcN]]'', ''[[yvcL]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB15479]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:crh_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[transcription factors and their control]]}},
{{SubtiWiki category|[[phosphoproteins]]}}

= This gene is a member of the following [[regulons]] =

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU34740

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' no entry

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12403]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:''' [[PtsH|HPr]] family

* '''Paralogous protein(s):''' [[PtsH|HPr]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:''' [[PtsH|HPr]] domain (1–85)

* '''Modification:''' phosphorylation on Ser46 by [[HprK]] [http://www.ncbi.nlm.nih.gov/sites/entrez/9237995 PubMed]

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''
** Crh-[[GapA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/17142398 PubMed]
** Crh-[[CcpA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12972249 PubMed]
** [[HprK]]-Crh [http://www.ncbi.nlm.nih.gov/sites/entrez/12009882 PubMed]
** [[Crh]]-[[MgsA]] (only non-phosphorylated [[Crh]] interacts with [[MgsA]]) {{PubMed|21992469}}

* '''[[Localization]]:'''

=== Database entries ===

* '''Structure:'''
** [http://www.rcsb.org/pdb/explore.do?structureId=2AK7 2AK7] (dimeric Crh-Ser46-P)
** [http://www.rcsb.org/pdb/explore.do?structureId=1ZVV 1ZVV] ([[CcpA]]-Crh-DNA complex)
** [http://www.rcsb.org/pdb/explore.do?structureId=2RLZ 2RLZ] (dimer)
** [http://www.rcsb.org/pdb/explore.do?structureId=1MU4 1MU4]
** [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=24634 NCBI], dimer
** [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=64943 NCBI], [[CcpA]]-Crh-DNA complex
** [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=52326 NCBI], dimeric phosphor-Crh
** [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=39567 NCBI]
* '''UniProt:''' [http://www.uniprot.org/uniprot/O06976 O06976]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU34740]

=== Additional information===

Crh does not possess the phosphorylation site used for [[PTS]] phosphotransfer (His-15 in [[PtsH]]), it can only be phosphorylated on Ser-46

=Expression and regulation=

* '''Operon:''' ''[[yvcI]]-[[yvcJ]]-[[yvcK]]-[[yvcL]]-[[crh]]-[[yvcN]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/9237995 PubMed]

* '''Sigma factor:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16272399 PubMed]

* '''Regulation:''' very weak stimuation of expression by citrate and succinate [http://www.ncbi.nlm.nih.gov/sites/entrez/16272399 PubMed]

* '''Regulatory mechanism:'''

* '''Additional information:''' Crh is weakly expressed. This results in part from a poorly conserved ribosomal binding site of the mRNA. [http://www.ncbi.nlm.nih.gov/sites/entrez/15126459 PubMed]

=Biological materials =

* '''Mutant:''' GP860 (aphA3), QB7097 (spc), available in [[Stülke]] lab

* '''Expression vector:'''
** pGP641 (N-terminal Strep-tag, purification from ''B. subtilis'', for [[SPINE]], in [[pGP380]]), available in [[Stülke]] lab
** pGP734 (C-terminal Strep-tag, purification from ''B. subtilis'', for [[SPINE]], in [[pGP382]]), available in [[Stülke]] lab

* '''lacZ fusion:''' see ''[[yvcI]]''

* '''GFP fusion:'''

* '''two-hybrid system:''' ''[[crh]]'', ''crh(Ser46Asp)'', ''crh(Ser46Ala)'' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Boris Görke| Görke]] lab

* '''FLAG-tag construct:
** GP69 (spc, based on [[pGP1331]]), available in the [[Boris Görke]] and [[Stülke]] labs
** pGP1200 ''crh''(Ser46Ala) (spc, based on [[pGP1331]]), available in the [[Stülke]] lab

=Labs working on this gene/protein=

[[Boris Görke]], University of Göttingen, Germany
[http://wwwuser.gwdg.de/~genmibio/goerke.html Homepage]

[[Anne Galinier]], University of Marseille, France

[[Wolfgang Hillen]], Erlangen University, Germany [http://www.biologie.uni-erlangen.de/mibi/index2.html Homepage]

[[Richard Brennan]], Houston, Texas, USA [http://www.mdanderson.org/departments/biochem/display.cfm?id=556ef368-6c81-4043-b74f350d41dd06cb&method=displayfull&pn=a8427ebd-d0ff-11d4-80fd00508b603a14 Homepage]

=Your additional remarks=

=References=

<pubmed>12972249 9973552 9237995 16272399 15126459 10217795 17142398 16316990, 12009882 10589728 12670692 11916384 11361076 11361074 18320329 18284240 16411239 21992469</pubmed>

[[Category:Protein-coding genes]]

PAC6

2011-09-22T14:40:36Z

Czschiedrich:

[[File:PAC6.jpeg|250px|thumb|right|'''pAC6: click to enlarge''']]

vector for the construction of transcriptional ''lacZ'' fusions that can be integrated at the ''amyE'' site

does not replicate in ''B. subtilis'', integrates into the ''amyE'' site

constructed in the Rapoport lab

in ''E. coli'': ampicillin resistance

in ''B. subtilis'': chloramphenicol resistance

similar vectors: [[pAC5]], [[pAC7]]

sequencing primer:
*'''PAC5R:''' 5’-CTGCAAGCGATAAGTTGG-3’
*'''PAC5F:''' 5’-GCGTAGCGAAAAATCCTTTTC-3‘
*'''Catcheckrev:''' 5‘-GTCTGCTTTCTTCATTAGAATCAATCC-3’

<pubmed> 11902727 </pubmed>

PtsG

2010-09-14T18:28:13Z

Czschiedrich: /* Biological materials */

* '''Description:''' [[trigger enzymes|trigger enzyme]]: major glucose permease of the [[PTS]], EIICBA(Glc) and control of [[GlcT]] activity 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''ptsG''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ptsX, crr''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || [[trigger enzymes|trigger enzyme]]: glucose-specific enzyme IICBA component of the [[PTS]]
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || glucose transport and phosphorylation, control of [[GlcT]] activity
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism], [http://subtiwiki.uni-goettingen.de/pathways/carbohydrate_metabolic_pathways.html Sugar catabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 75,3 kDa, 5.40
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 2097 bp, 699 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[glcT]]'', ''[[ptsH]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13262]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:ptsG_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13890

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ptsGHI.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10198]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' transport and phosphorylation of glucose, receives a phosphate from [[PtsH |HPr]] at the IIA domain (His-620), the phosphate group is then transferred to the IIB domain (Cys-461) an finally to the incoming glucose. In the absence of glucose, PtsG phosphorylates and thereby inactivates the transcriptional antiterminator [[GlcT]].

* '''Protein family:''' [[PTS]] permease, glucose permease (Glc) family [http://www.ncbi.nlm.nih.gov/pubmed/10627040 PubMed], [[PTS]] enzyme II

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''
** 11x transmembrane domain (16–36, 89–109, 139–159, 180–200, 233–253, 283–303, 313–333, 338–358, 365–385, 388–408)
** PTS EIIC domain ( 1-424)
** PTS EIIB domain (439–520)
** PTS EIIA domain (568–672)

* '''Modification:''' transient phosphorylation ([[PtsH|HPr]]-dependent) on His-620, then internal phosphotransfer from His-620 to Cys-461

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''Interactions:''' [[PtsH|HPr]]-[[PtsG]] {{PubMed|8418852}}, PtsG-[[GlcT]] (for phosphorylation of [[GlcT]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/14527945 PubMed]

* '''Localization:''' membrane protein [http://www.ncbi.nlm.nih.gov/sites/entrez/18763711 PubMed]

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1AX3 1AX3] (IIA domain), [http://www.rcsb.org/pdb/explore.do?structureId=1GPR 1GPR] (IIA domain), IIA domain [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=56258 NCBI], NMR IIA domain [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=55395 NCBI]

* '''UniProt:''' [http://www.uniprot.org/uniprot/P20166 P20166]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13890]

* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.1.69 2.7.1.69]

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' {{PubMed|11902727}}

* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|11902727}}

* '''Regulation:'''
** expression activated by glucose (32 fold) ([[GlcT]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]
** subject to negative stringent control upon lysine starvation {{PubMed|20081037}}

* '''Regulatory mechanism:'''
** transcriptional antitermination via the [[GlcT]]-dependent [[RNA switch]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+9765562 PubMed]
** stringent response: due to presence of guanine at +1 position of the transcript {{PubMed|20081037}}

* '''Additional information:'''

=Biological materials =

* '''Mutants:''' all available in [[Stülke]] lab
** GP474 (cat)
** QB5436 (spc)
** QB5445 (erm)
** GP778 (replacement of ''[[glcT]]'' and the ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' operon by a spc cassette)
** GP926 (substitution of ''[[glcT]]'' and ''[[ptsG]]'' by a tet cassette)

* '''Expression vector:'''
** pGP123 (domains BA, in [[pWH844]]), available in [[Stülke]] lab
** pGP141 (domains BA, mut: H620D, in [[pWH844]]), available in [[Stülke]] lab
** pGP428 (EIIB, in [[pWH844]]), available in [[Stülke]] lab
** pGP437(EIIA in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab

* '''lacZ fusion:'''
** pGP34 ([[pAC5]]), available in [[Stülke]] lab
** pGP66 ([[pAC7]]), available in [[Stülke]] lab
** pGP606 (mutant terminator, [[pAC6]]), available in [[Stülke]] lab
** pGP532 ([[pAC7]]), available in [[Stülke]] lab
** series of promoter deletions are available in [[pAC5]] and [[pAC6]], available in [[Stülke]] lab
** series of RAT mutants are available in [[pAC6]], available in [[Stülke]] lab

* '''GFP fusion:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Stülke|Jörg Stülke]], University of Göttingen, Germany
[http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 18086213 </pubmed>
==Original publications==
<pubmed>10627040 ,12850135 ,18763711 ,11902727 ,9765562 ,9513271 ,1956301 ,10543968 ,17074746 ,15155854 ,14527945 ,1508157 ,2120236 9593197 8418852 1581296 1316146 1733770 1942043 1911744 1906345 20081037 </pubmed>

[[Category:Protein-coding genes]]

GlcT

2010-09-14T18:26:32Z

Czschiedrich: /* Biological materials */

* '''Description:''' [[PRD-containing transcription factors|Transcriptional antiterminator]] , controls expression of the ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' operon 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''glcT''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ykwA''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || [[PRD-containing transcription factors|transcriptional antiterminator]] of the ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' operon
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of glucose uptake
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 33,0 kDa, 7.01
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 855 bp, 285 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykvZ]]'', ''[[ptsG]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13261]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:glcT_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13880

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' no entry

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12593]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' [[PRD-containing transcription factors|transcription antiterminator]] , RNA-binding protein, binds the ''[[ptsG]]'' RAT sequence

* '''Protein family:''' [[PRD-containing transcription factors|transcription antiterminator]] of the BglG/ [[SacY]] family

* '''Paralogous protein(s):''' [[LicT]], [[SacT]], [[SacY]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''
** RNA-binding domain (N-terminal, constitutive antiterminator)
** 2x PTS regulation domains (PRDs) (C-terminal, neg. regulated by [[PtsG]])

* '''Modification:''' phosphorylation (His104)

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''Interactions:''' [[PtsH]]-[[GlcT]]

* '''Localization:'''

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/search/structidSearch.do?structureId=3GWH 3GWH] (PRD-II) {{PubMed|19684596}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/O31691 O31691]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13880]

=== Additional information===

=Expression and regulation=

* '''Operon:'''

* '''Sigma factor:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' available in [[Stülke]] lab:
** GP109 (in frame deletion)
** GP778 (replacement of ''[[glcT]]'' and the ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' operon by a spc cassette)
** GP926 (substitution of ''[[glcT]]'' and ''[[ptsG]]'' by a tet cassette)

* '''Expression vector:'''
** pGP124 (full length, in [[pWH844]]), available in [[Stülke]] lab
** pGP114 (amino acids 1-60, RNA-binding domain, in [[pWH844]]), available in [[Stülke]] lab
** pGP230 (amino acids 1-60, RNA-binding domain with thrombin cleavage site, in [[pWH844]]), available in [[Stülke]] lab
** pGP164 (both PRDs, in [[pWH844]]), in addition diverse expression vectors for phosphorylation site mutants and for RBD mutants (all in [[pWH844]]), available in [[Stülke]] lab
** pGP424 (PRDI, in [[pWH844]]), available in [[Stülke]] lab
** pGP425 (PRDII, in [[pWH844]]), available in [[Stülke]] lab
** pGP442 (PRDI, in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab
** pGP443 (PRDII, in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab
** pGP575 (amino acids 1-60, RNA-binding domain with Strep-tag, in [[pGP574]]), available in [[Stülke]] lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Stülke|Jörg Stülke]], University of Göttingen, Germany
[http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 9663674 18086213 </pubmed>
==Original publications==
<pubmed>11902727 9765562 12437213 10543968 17074746 15155854 14527945 , 19684596 </pubmed>

[[Category:Protein-coding genes]]

GlcT

2010-09-14T18:25:25Z

Czschiedrich: /* Biological materials */

* '''Description:''' [[PRD-containing transcription factors|Transcriptional antiterminator]] , controls expression of the ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' operon 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''glcT''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ykwA''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || [[PRD-containing transcription factors|transcriptional antiterminator]] of the ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' operon
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of glucose uptake
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 33,0 kDa, 7.01
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 855 bp, 285 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykvZ]]'', ''[[ptsG]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13261]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:glcT_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13880

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' no entry

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12593]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' [[PRD-containing transcription factors|transcription antiterminator]] , RNA-binding protein, binds the ''[[ptsG]]'' RAT sequence

* '''Protein family:''' [[PRD-containing transcription factors|transcription antiterminator]] of the BglG/ [[SacY]] family

* '''Paralogous protein(s):''' [[LicT]], [[SacT]], [[SacY]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''
** RNA-binding domain (N-terminal, constitutive antiterminator)
** 2x PTS regulation domains (PRDs) (C-terminal, neg. regulated by [[PtsG]])

* '''Modification:''' phosphorylation (His104)

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''Interactions:''' [[PtsH]]-[[GlcT]]

* '''Localization:'''

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/search/structidSearch.do?structureId=3GWH 3GWH] (PRD-II) {{PubMed|19684596}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/O31691 O31691]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13880]

=== Additional information===

=Expression and regulation=

* '''Operon:'''

* '''Sigma factor:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' available in [[Stülke]] lab:
** GP109 (in frame deletion)
** GP778 (replacement of ''[[glcT]]'' and the ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' operon by a spc cassette)
** GP926 (substitution of ''[[glcT]]'' and ''ptsG'' by a tet cassette)

* '''Expression vector:'''
** pGP124 (full length, in [[pWH844]]), available in [[Stülke]] lab
** pGP114 (amino acids 1-60, RNA-binding domain, in [[pWH844]]), available in [[Stülke]] lab
** pGP230 (amino acids 1-60, RNA-binding domain with thrombin cleavage site, in [[pWH844]]), available in [[Stülke]] lab
** pGP164 (both PRDs, in [[pWH844]]), in addition diverse expression vectors for phosphorylation site mutants and for RBD mutants (all in [[pWH844]]), available in [[Stülke]] lab
** pGP424 (PRDI, in [[pWH844]]), available in [[Stülke]] lab
** pGP425 (PRDII, in [[pWH844]]), available in [[Stülke]] lab
** pGP442 (PRDI, in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab
** pGP443 (PRDII, in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab
** pGP575 (amino acids 1-60, RNA-binding domain with Strep-tag, in [[pGP574]]), available in [[Stülke]] lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Stülke|Jörg Stülke]], University of Göttingen, Germany
[http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 9663674 18086213 </pubmed>
==Original publications==
<pubmed>11902727 9765562 12437213 10543968 17074746 15155854 14527945 , 19684596 </pubmed>

[[Category:Protein-coding genes]]

PtsI

2010-09-13T13:15:45Z

Czschiedrich: /* Biological materials */

* '''Description:''' Enzyme I, general (non sugar-specific) component of the [[PTS]]. Enzyme I transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein ([[PtsH |HPr]]) 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''ptsI''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || phosphotransferase system ([[PTS]]) enzyme I
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || [[PTS]]-dependent sugar transport
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 62,9 kDa, 4.59
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1710 bp, 570 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ptsH]]'', ''[[splA]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13264]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:ptsI_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13910

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ptsGHI.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10201]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' Phosphoenolpyruvate + protein L-histidine = pyruvate + protein N(pi)-phospho-L-histidine (according to Swiss-Prot) PEP-dependent autophosphorylation on His-189, transfer of the phosphoryl group to [[PtsH |HPr]] (His-15)

* '''Protein family:''' PEP-utilizing enzyme family (according to Swiss-Prot) PEP-utilizing enzyme family

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''
**HPr binding site (N-Terminal Domain)
**pyruvate binding site (C-Terminal Domain)
**pyrophosphate/phosphate carrier histidine (central Domain)

* '''Modification:'''
** transient autophosphorylation on His-189
** ''in vivo'' also phosphorylated on Ser-34 or Ser-36 [http://www.ncbi.nlm.nih.gov/pubmed/17218307 PubMed]

* '''Cofactor(s):''' Magnesium

* '''Effectors of protein activity:'''

* '''Interactions:'''

* '''Localization:''' cytoplasm (according to Swiss-Prot)

=== Database entries ===

* '''Structure:''' [http://www.proteopedia.org/wiki/index.php/2wqd 2WQD] (Enzyme I from ''Staphylococcus aureus'') {{PubMed|19801641}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/P08838 P08838]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13910]

* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.3.9 2.7.3.9] 2.7.3.9]

=== Additional information===

=Expression and regulation=

* '''Operon:'''
** ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' {{PubMed|11902727}}
**''[[ptsH]]-[[ptsI]]'' {{PubMed|11902727}}

* '''[[Sigma factor]]:'''
** ''[[ptsG]]'': [[SigA]] {{PubMed|11902727}}
** ''[[ptsH]]'': [[SigA]] {{PubMed|11902727}}

* '''Regulation:'''
** expression activated by glucose (2 fold) ([[GlcT]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]
** the ''[[ptsH]]'' promoter is constitutive {{PubMed|11902727}}
** subject to negative stringent control upon amino acid limitation (due to control of'' [[ptsG]]'' transcription initiation) {{PubMed|20081037}}

* '''Regulatory mechanism:'''
** ''[[ptsG]]'': transcriptional antitermination via the [[GlcT]]-dependent [[RNA switch]] {{PubMed|9765562}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' available in [[Stülke]] lab
** GP864 (ermC)
** GP778 (replacement of ''glcT'' and the ''ptsGHI'' operon by a spc cassette)

* '''Expression vector:'''
** pAG3 (His-tag), available in [[Galinier]] lab
** for expression, purification in ''E. coli'', in [[pWH844]]: pGP813 available in [[Stülke]] lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Josef Deutscher]], Paris-Grignon, France

[[Stülke|Jörg Stülke]], University of Göttingen, Germany [http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

=Your additional remarks=

=References=

<pubmed>12850135 17218307, 9721285 20081037 19801641 </pubmed>

[[Category:Protein-coding genes]]

PtsH

2010-09-13T13:14:14Z

Czschiedrich: /* Biological materials */

* '''Description:''' HPr, General component of the sugar phosphotransferase system ([[PTS]]). 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''ptsH''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || histidine-containing phosphocarrier protein HPr of the [[PTS]]
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || [[PTS]]-dependent sugar transport and carbon catabolite repression
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism], [http://subtiwiki.uni-goettingen.de/pathways/carbohydrate_metabolic_pathways.html Sugar catabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 9,1 kDa, 4.58
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 264 bp, 88 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ptsG]]'', ''[[ptsI]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13263]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:ptsH_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13900

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ptsGHI.html]

* '''SubtiList entry:'''[http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10200]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' Protein HPr N(pi)-phospho-L-histidine + protein EIIA = protein HPr + protein EIIA N(tau)-phospho-L-histidine (according to Swiss-Prot) Protein HPr N(pi)-phospho-L-histidine + protein EIIA = protein [[PtsH|HPr]] + protein EIIA N(tau)-phospho-L-histidine

* '''Protein family:''' HPr domain (according to Swiss-Prot) HPr family

* '''Paralogous protein(s):''' [[Crh]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:''' HPr Domain (2–88)

* '''Modification:'''
** transient phosphorylation by [[PtsI |Enzyme I]] of the PTS on His-15
** regulatory phosphorylation on Ser-46 by [[HprK]] [http://www.ncbi.nlm.nih.gov/sites/entrez/2507315 PubMed]
** an extensive study on ''in vivo'' HPr phosphorylation can be found in Singh et al. (2008) [http://www.ncbi.nlm.nih.gov/sites/entrez/18757537 PubMed]
** weak phosphorylation on Ser-12 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed]
** ''in vitro'' phosphorylated by [[PrkC]] on Ser-12 {{PubMed|20389117}}

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''Interactions:'''
** [[PtsH|HPr]]-[[PtsG]] {{PubMed|8418852}}, [[PtsH]]-[[MtlF]] {{PubMed|20444094}}, [[ManP]]-[[PtsH|HPr]]
** [[PtsH|HPr]]-[[LicT]], [[PtsH|HPr]]-[[SacY]], [[PtsH|HPr]]-[[SacT]], [[PtsH|HPr]]-[[GlcT]]
** [[PtsH|HPr]]-[[GlpK]]
** [[GapA]]-[[PtsH|HPr]] [http://www.ncbi.nlm.nih.gov/sites/entrez/17142398 PubMed]
** [[PtsH|HPr]]-[[MtlR]] {{PubMed|20444094}}, [[PtsH|HPr]]-[[LicR]], [[PtsH|HPr]]-[[LevR]],[[PtsH|HPr]]-[[ManR]]
** [[PtsH|HPr(Ser-46)-P]]-[[CcpA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12432959 PubMed], [[PtsH|HPr]]-[[RbsR]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16519689 PubMed]
** [[HprK]]-[[PtsH|HPr]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12009882 PubMed], [[PtsI|Enzyme I]]-[[PtsH|HPr]]
** [[PtsH|HPr(His)-P]]-[[YesS]] {{PubMed|19651770}}

* '''Localization:''' cytoplasm (according to Swiss-Prot), Cytoplasm [http://www.ncbi.nlm.nih.gov/sites/entrez/16395550 PubMed]

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1KKM 1KKM] (complex of L. casei HprK with B. subtilis HPr-Ser-P), [http://www.rcsb.org/pdb/explore.do?structureId=1KKL 1KKL] (complex of Lactobacillus casei HprK with B. subtilis HPr), [http://www.rcsb.org/pdb/explore.do?structureId=2HID 2HID] (NMR)

* '''UniProt:''' [http://www.uniprot.org/uniprot/P08877 P08877]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13900]

* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.11.- 2.7.11.-]

=== Additional information===

=Expression and regulation=

* '''Operon:'''
** ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' {{PubMed|11902727}}
**''[[ptsH]]-[[ptsI]]'' {{PubMed|11902727}}

* '''[[Sigma factor]]:'''
** ''[[ptsG]]'': [[SigA]] {{PubMed|11902727}}
** ''[[ptsH]]'': [[SigA]] {{PubMed|11902727}}

* '''Regulation:'''
** expression activated by glucose (2 fold) ([[GlcT]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]
** the ''[[ptsH]]'' promoter is constitutive {{PubMed|11902727}}
** subject to negative stringent control upon amino acid limitation (due to control of'' [[ptsG]]'' transcription initiation) {{PubMed|20081037}}

* '''Regulatory mechanism:'''
** ''[[ptsG]]'': transcriptional antitermination via the [[GlcT]]-dependent [[RNA switch]] {{PubMed|9765562}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' available in [[Stülke]] lab
** MZ303 (cat)
** GP507 ptsH1 (S46A)
** GP506 (ptsH-H15A)
** GP778 (replacement of ''glcT'' and the ''ptsGHI'' operon by a spc cassette)

* '''Expression vector:'''
** pGP438 (with N-terminal Strep-tag, in [[pGP172]]), available in [[Stülke]] lab
** pAG2 (His-tag), available in [[Anne Galinier]] lab
** pGP371(expression / purification of HPr-S46A, with His-tag from ''E. coli'', in [[pWH844]]), available in [[Stülke]] lab
** pGP1415 (HPr, expression in ''B. subtilis'', from [[pBQ200]]), available in [[Stülke]] lab
** pGP961 (HPr, expression in ''B. subtilis'' with N-terminal Strep-tag, for [[SPINE]], available in [[Stülke]] lab
** pGP1416 (HPr-H15A, expression in ''B. subtilis'', from [[pBQ200]]), available in [[Stülke]] lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Boris Görke| Görke]] lab

* '''Antibody:''' available in [[Stülke]] lab

=Labs working on this gene/protein=

[[Josef Deutscher]], Paris-Grignon, France

[[Stülke|Jörg Stülke]], University of Göttingen, Germany [http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

[[Wolfgang Hillen]], Erlangen University, Germany [http://www.biologie.uni-erlangen.de/mibi/index2.html Homepage]

[[Richard Brennan]], Houston, Texas, USA [http://www.mdanderson.org/departments/biochem/display.cfm?id=556ef368-6c81-4043-b74f350d41dd06cb&method=displayfull&pn=a8427ebd-d0ff-11d4-80fd00508b603a14 Homepage]

[[Boris Görke]], University of Göttingen, Germany [http://wwwuser.gwdg.de/~genmibio/goerke.html Homepage]

[[Anne Galinier]], University of Marseille, France

=Your additional remarks=

=References=

<pubmed>16519689,,12850135 17218307 16519689 17142398 12359875 1577686 9162046 11929549 9336834 7803390, 7623661, 2846556, 8169206, 9973552, 15126459, 10048041, 12169607, 9622354, 10217795, 17693724, 18757537 , 9202047 , 7592487, 15369672 , 14527945, 2507315 8580838 19651770 8418852 1303754 1549615 20081037 20389117 20444094 </pubmed>

[[Category:Protein-coding genes]]

PtsG

2010-09-13T13:13:05Z

Czschiedrich: /* Biological materials */

* '''Description:''' [[trigger enzymes|trigger enzyme]]: major glucose permease of the [[PTS]], EIICBA(Glc) and control of [[GlcT]] activity 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''ptsG''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ptsX, crr''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || [[trigger enzymes|trigger enzyme]]: glucose-specific enzyme IICBA component of the [[PTS]]
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || glucose transport and phosphorylation, control of [[GlcT]] activity
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism], [http://subtiwiki.uni-goettingen.de/pathways/carbohydrate_metabolic_pathways.html Sugar catabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 75,3 kDa, 5.40
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 2097 bp, 699 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[glcT]]'', ''[[ptsH]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13262]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:ptsG_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13890

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ptsGHI.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10198]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' transport and phosphorylation of glucose, receives a phosphate from [[PtsH |HPr]] at the IIA domain (His-620), the phosphate group is then transferred to the IIB domain (Cys-461) an finally to the incoming glucose. In the absence of glucose, PtsG phosphorylates and thereby inactivates the transcriptional antiterminator [[GlcT]].

* '''Protein family:''' [[PTS]] permease, glucose permease (Glc) family [http://www.ncbi.nlm.nih.gov/pubmed/10627040 PubMed], [[PTS]] enzyme II

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''
** 11x transmembrane domain (16–36, 89–109, 139–159, 180–200, 233–253, 283–303, 313–333, 338–358, 365–385, 388–408)
** PTS EIIC domain ( 1-424)
** PTS EIIB domain (439–520)
** PTS EIIA domain (568–672)

* '''Modification:''' transient phosphorylation ([[PtsH|HPr]]-dependent) on His-620, then internal phosphotransfer from His-620 to Cys-461

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''Interactions:''' [[PtsH|HPr]]-[[PtsG]] {{PubMed|8418852}}, PtsG-[[GlcT]] (for phosphorylation of [[GlcT]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/14527945 PubMed]

* '''Localization:''' membrane protein [http://www.ncbi.nlm.nih.gov/sites/entrez/18763711 PubMed]

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1AX3 1AX3] (IIA domain), [http://www.rcsb.org/pdb/explore.do?structureId=1GPR 1GPR] (IIA domain), IIA domain [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=56258 NCBI], NMR IIA domain [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=55395 NCBI]

* '''UniProt:''' [http://www.uniprot.org/uniprot/P20166 P20166]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13890]

* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.1.69 2.7.1.69]

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' {{PubMed|11902727}}

* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|11902727}}

* '''Regulation:'''
** expression activated by glucose (32 fold) ([[GlcT]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]
** subject to negative stringent control upon lysine starvation {{PubMed|20081037}}

* '''Regulatory mechanism:'''
** transcriptional antitermination via the [[GlcT]]-dependent [[RNA switch]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+9765562 PubMed]
** stringent response: due to presence of guanine at +1 position of the transcript {{PubMed|20081037}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' available in [[Stülke]] lab
** GP474 (cat)
** QB5436 (spc)
** QB5445 (erm)
** GP778 (replacement of ''glcT'' and the ''ptsGHI'' operon by a spc cassette)
** GP926 (substitution of ''glcT'' and ''ptsG'' by a tet cassette)

* '''Expression vector:'''
** pGP123 (domains BA, in [[pWH844]]), available in [[Stülke]] lab
** pGP141 (domains BA, mut: H620D, in [[pWH844]]), available in [[Stülke]] lab
** pGP428 (EIIB, in [[pWH844]]), available in [[Stülke]] lab
** pGP437(EIIA in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab

* '''lacZ fusion:'''
** pGP34 ([[pAC5]]), available in [[Stülke]] lab
** pGP66 ([[pAC7]]), available in [[Stülke]] lab
** pGP606 (mutant terminator, [[pAC6]]), available in [[Stülke]] lab
** pGP532 ([[pAC7]]), available in [[Stülke]] lab
** series of promoter deletions are available in [[pAC5]] and [[pAC6]], available in [[Stülke]] lab
** series of RAT mutants are available in [[pAC6]], available in [[Stülke]] lab

* '''GFP fusion:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Stülke|Jörg Stülke]], University of Göttingen, Germany
[http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 18086213 </pubmed>
==Original publications==
<pubmed>10627040 ,12850135 ,18763711 ,11902727 ,9765562 ,9513271 ,1956301 ,10543968 ,17074746 ,15155854 ,14527945 ,1508157 ,2120236 9593197 8418852 1581296 1316146 1733770 1942043 1911744 1906345 20081037 </pubmed>

[[Category:Protein-coding genes]]

PtsG

2010-09-13T13:11:57Z

Czschiedrich: /* Biological materials */

* '''Description:''' [[trigger enzymes|trigger enzyme]]: major glucose permease of the [[PTS]], EIICBA(Glc) and control of [[GlcT]] activity 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''ptsG''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ptsX, crr''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || [[trigger enzymes|trigger enzyme]]: glucose-specific enzyme IICBA component of the [[PTS]]
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || glucose transport and phosphorylation, control of [[GlcT]] activity
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism], [http://subtiwiki.uni-goettingen.de/pathways/carbohydrate_metabolic_pathways.html Sugar catabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 75,3 kDa, 5.40
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 2097 bp, 699 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[glcT]]'', ''[[ptsH]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13262]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:ptsG_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13890

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ptsGHI.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10198]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' transport and phosphorylation of glucose, receives a phosphate from [[PtsH |HPr]] at the IIA domain (His-620), the phosphate group is then transferred to the IIB domain (Cys-461) an finally to the incoming glucose. In the absence of glucose, PtsG phosphorylates and thereby inactivates the transcriptional antiterminator [[GlcT]].

* '''Protein family:''' [[PTS]] permease, glucose permease (Glc) family [http://www.ncbi.nlm.nih.gov/pubmed/10627040 PubMed], [[PTS]] enzyme II

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''
** 11x transmembrane domain (16–36, 89–109, 139–159, 180–200, 233–253, 283–303, 313–333, 338–358, 365–385, 388–408)
** PTS EIIC domain ( 1-424)
** PTS EIIB domain (439–520)
** PTS EIIA domain (568–672)

* '''Modification:''' transient phosphorylation ([[PtsH|HPr]]-dependent) on His-620, then internal phosphotransfer from His-620 to Cys-461

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''Interactions:''' [[PtsH|HPr]]-[[PtsG]] {{PubMed|8418852}}, PtsG-[[GlcT]] (for phosphorylation of [[GlcT]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/14527945 PubMed]

* '''Localization:''' membrane protein [http://www.ncbi.nlm.nih.gov/sites/entrez/18763711 PubMed]

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1AX3 1AX3] (IIA domain), [http://www.rcsb.org/pdb/explore.do?structureId=1GPR 1GPR] (IIA domain), IIA domain [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=56258 NCBI], NMR IIA domain [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=55395 NCBI]

* '''UniProt:''' [http://www.uniprot.org/uniprot/P20166 P20166]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13890]

* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.1.69 2.7.1.69]

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' {{PubMed|11902727}}

* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|11902727}}

* '''Regulation:'''
** expression activated by glucose (32 fold) ([[GlcT]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]
** subject to negative stringent control upon lysine starvation {{PubMed|20081037}}

* '''Regulatory mechanism:'''
** transcriptional antitermination via the [[GlcT]]-dependent [[RNA switch]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+9765562 PubMed]
** stringent response: due to presence of guanine at +1 position of the transcript {{PubMed|20081037}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' available in [[Stülke]] lab
** GP474 (cat)
** QB5436 (spc)
** QB5445 (erm)
** GP778 (replacement of ''glcT'' and the ''ptsGHI'' operon by a spc cassette)
** GP926 (substitution of ''glcT'' and ''ptsG'' by a tet cassette)

* '''Expression vector:'''
** pGP123 (domains BA, in [[pWH844]]), available in [[Stülke]] lab
** pGP141 (domains BA, mut: H620D, in [[pWH844]]), available in [[Stülke]] lab
** pGP428 (EIIB, in [[pWH844]]), available in [[Stülke]] lab
** pGP437(EIIA in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab

* '''lacZ fusion:'''
** pGP34 ([[pAC5]]), available in [[Stülke]] lab
** pGP66 ([[pAC7]]), available in [[Stülke]] lab
** pGP606 (mutant terminator, [[pAC6]]), available in [[Stülke]] lab
** pGP532 ([[pAC7]]), available in [[Stülke]] lab
** series of promoter deletions are available in [[pAC5]] and [[pAC6]], available in [[Stülke]] lab
** series of RAT mutants are available in [[pAC6]], available in [[Stülke]] lab

* '''GFP fusion:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Stülke|Jörg Stülke]], University of Göttingen, Germany
[http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 18086213 </pubmed>
==Original publications==
<pubmed>10627040 ,12850135 ,18763711 ,11902727 ,9765562 ,9513271 ,1956301 ,10543968 ,17074746 ,15155854 ,14527945 ,1508157 ,2120236 9593197 8418852 1581296 1316146 1733770 1942043 1911744 1906345 20081037 </pubmed>

[[Category:Protein-coding genes]]

GlcT

2010-09-13T13:09:59Z

Czschiedrich: /* Biological materials */

* '''Description:''' [[PRD-containing transcription factors|Transcriptional antiterminator]] , controls expression of the ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' operon 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''glcT''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ykwA''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || [[PRD-containing transcription factors|transcriptional antiterminator]] of the ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' operon
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of glucose uptake
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 33,0 kDa, 7.01
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 855 bp, 285 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykvZ]]'', ''[[ptsG]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13261]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:glcT_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13880

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' no entry

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12593]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' [[PRD-containing transcription factors|transcription antiterminator]] , RNA-binding protein, binds the ''[[ptsG]]'' RAT sequence

* '''Protein family:''' [[PRD-containing transcription factors|transcription antiterminator]] of the BglG/ [[SacY]] family

* '''Paralogous protein(s):''' [[LicT]], [[SacT]], [[SacY]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''
** RNA-binding domain (N-terminal, constitutive antiterminator)
** 2x PTS regulation domains (PRDs) (C-terminal, neg. regulated by [[PtsG]])

* '''Modification:''' phosphorylation (His104)

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''Interactions:''' [[PtsH]]-[[GlcT]]

* '''Localization:'''

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/search/structidSearch.do?structureId=3GWH 3GWH] (PRD-II) {{PubMed|19684596}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/O31691 O31691]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13880]

=== Additional information===

=Expression and regulation=

* '''Operon:'''

* '''Sigma factor:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' available in [[Stülke]] lab:
** GP109 (in frame deletion)
** GP778 (replacement of ''glcT'' and the ''ptsGHI'' operon by a spc cassette)
** GP926 (substitution of ''glcT'' and ''ptsG'' by a tet cassette)

* '''Expression vector:'''
** pGP124 (full length, in [[pWH844]]), available in [[Stülke]] lab
** pGP114 (amino acids 1-60, RNA-binding domain, in [[pWH844]]), available in [[Stülke]] lab
** pGP230 (amino acids 1-60, RNA-binding domain with thrombin cleavage site, in [[pWH844]]), available in [[Stülke]] lab
** pGP164 (both PRDs, in [[pWH844]]), in addition diverse expression vectors for phosphorylation site mutants and for RBD mutants (all in [[pWH844]]), available in [[Stülke]] lab
** pGP424 (PRDI, in [[pWH844]]), available in [[Stülke]] lab
** pGP425 (PRDII, in [[pWH844]]), available in [[Stülke]] lab
** pGP442 (PRDI, in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab
** pGP443 (PRDII, in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab
** pGP575 (amino acids 1-60, RNA-binding domain with Strep-tag, in [[pGP574]]), available in [[Stülke]] lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Stülke|Jörg Stülke]], University of Göttingen, Germany
[http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 9663674 18086213 </pubmed>
==Original publications==
<pubmed>11902727 9765562 12437213 10543968 17074746 15155854 14527945 , 19684596 </pubmed>

[[Category:Protein-coding genes]]

GlcT

2010-09-13T13:08:11Z

Czschiedrich: /* Biological materials */

* '''Description:''' [[PRD-containing transcription factors|Transcriptional antiterminator]] , controls expression of the ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' operon 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''glcT''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ykwA''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || [[PRD-containing transcription factors|transcriptional antiterminator]] of the ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' operon
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of glucose uptake
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 33,0 kDa, 7.01
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 855 bp, 285 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykvZ]]'', ''[[ptsG]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13261]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:glcT_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13880

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' no entry

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12593]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' [[PRD-containing transcription factors|transcription antiterminator]] , RNA-binding protein, binds the ''[[ptsG]]'' RAT sequence

* '''Protein family:''' [[PRD-containing transcription factors|transcription antiterminator]] of the BglG/ [[SacY]] family

* '''Paralogous protein(s):''' [[LicT]], [[SacT]], [[SacY]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''
** RNA-binding domain (N-terminal, constitutive antiterminator)
** 2x PTS regulation domains (PRDs) (C-terminal, neg. regulated by [[PtsG]])

* '''Modification:''' phosphorylation (His104)

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''Interactions:''' [[PtsH]]-[[GlcT]]

* '''Localization:'''

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/search/structidSearch.do?structureId=3GWH 3GWH] (PRD-II) {{PubMed|19684596}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/O31691 O31691]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13880]

=== Additional information===

=Expression and regulation=

* '''Operon:'''

* '''Sigma factor:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' available in [[Stülke]] lab:
** GP109 (in frame deletion)
** GP778 (replacement of ''glcT'' and the ''ptsGHI'' operon by a spc cassette)
** GP926 (substitution of ''glct'' and ''ptsG'' by a tet cassette)

* '''Expression vector:'''
** pGP124 (full length, in [[pWH844]]), available in [[Stülke]] lab
** pGP114 (amino acids 1-60, RNA-binding domain, in [[pWH844]]), available in [[Stülke]] lab
** pGP230 (amino acids 1-60, RNA-binding domain with thrombin cleavage site, in [[pWH844]]), available in [[Stülke]] lab
** pGP164 (both PRDs, in [[pWH844]]), in addition diverse expression vectors for phosphorylation site mutants and for RBD mutants (all in [[pWH844]]), available in [[Stülke]] lab
** pGP424 (PRDI, in [[pWH844]]), available in [[Stülke]] lab
** pGP425 (PRDII, in [[pWH844]]), available in [[Stülke]] lab
** pGP442 (PRDI, in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab
** pGP443 (PRDII, in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab
** pGP575 (amino acids 1-60, RNA-binding domain with Strep-tag, in [[pGP574]]), available in [[Stülke]] lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Stülke|Jörg Stülke]], University of Göttingen, Germany
[http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 9663674 18086213 </pubmed>
==Original publications==
<pubmed>11902727 9765562 12437213 10543968 17074746 15155854 14527945 , 19684596 </pubmed>

[[Category:Protein-coding genes]]

GlcT

2010-09-13T13:03:36Z

Czschiedrich: /* Biological materials */

* '''Description:''' [[PRD-containing transcription factors|Transcriptional antiterminator]] , controls expression of the ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' operon 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''glcT''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ykwA''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || [[PRD-containing transcription factors|transcriptional antiterminator]] of the ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' operon
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of glucose uptake
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 33,0 kDa, 7.01
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 855 bp, 285 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykvZ]]'', ''[[ptsG]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13261]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:glcT_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13880

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' no entry

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12593]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' [[PRD-containing transcription factors|transcription antiterminator]] , RNA-binding protein, binds the ''[[ptsG]]'' RAT sequence

* '''Protein family:''' [[PRD-containing transcription factors|transcription antiterminator]] of the BglG/ [[SacY]] family

* '''Paralogous protein(s):''' [[LicT]], [[SacT]], [[SacY]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''
** RNA-binding domain (N-terminal, constitutive antiterminator)
** 2x PTS regulation domains (PRDs) (C-terminal, neg. regulated by [[PtsG]])

* '''Modification:''' phosphorylation (His104)

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''Interactions:''' [[PtsH]]-[[GlcT]]

* '''Localization:'''

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/search/structidSearch.do?structureId=3GWH 3GWH] (PRD-II) {{PubMed|19684596}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/O31691 O31691]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13880]

=== Additional information===

=Expression and regulation=

* '''Operon:'''

* '''Sigma factor:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' GP109 (in frame deletion), GP778 (replacement of ''glcT'' and the ''ptsGHI'' operon by a spc cassette), GP926 (substitution of ''glct'' and ''ptsG'' by a tet cassette), available in [[Stülke]] lab

* '''Expression vector:'''
** pGP124 (full length, in [[pWH844]]), available in [[Stülke]] lab
** pGP114 (amino acids 1-60, RNA-binding domain, in [[pWH844]]), available in [[Stülke]] lab
** pGP230 (amino acids 1-60, RNA-binding domain with thrombin cleavage site, in [[pWH844]]), available in [[Stülke]] lab
** pGP164 (both PRDs, in [[pWH844]]), in addition diverse expression vectors for phosphorylation site mutants and for RBD mutants (all in [[pWH844]]), available in [[Stülke]] lab
** pGP424 (PRDI, in [[pWH844]]), available in [[Stülke]] lab
** pGP425 (PRDII, in [[pWH844]]), available in [[Stülke]] lab
** pGP442 (PRDI, in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab
** pGP443 (PRDII, in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab
** pGP575 (amino acids 1-60, RNA-binding domain with Strep-tag, in [[pGP574]]), available in [[Stülke]] lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Stülke|Jörg Stülke]], University of Göttingen, Germany
[http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 9663674 18086213 </pubmed>
==Original publications==
<pubmed>11902727 9765562 12437213 10543968 17074746 15155854 14527945 , 19684596 </pubmed>

[[Category:Protein-coding genes]]

GlcT

2010-09-13T12:59:37Z

Czschiedrich: /* Biological materials */

* '''Description:''' [[PRD-containing transcription factors|Transcriptional antiterminator]] , controls expression of the ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' operon 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''glcT''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ykwA''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || [[PRD-containing transcription factors|transcriptional antiterminator]] of the ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' operon
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of glucose uptake
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 33,0 kDa, 7.01
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 855 bp, 285 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykvZ]]'', ''[[ptsG]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13261]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:glcT_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13880

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' no entry

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12593]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' [[PRD-containing transcription factors|transcription antiterminator]] , RNA-binding protein, binds the ''[[ptsG]]'' RAT sequence

* '''Protein family:''' [[PRD-containing transcription factors|transcription antiterminator]] of the BglG/ [[SacY]] family

* '''Paralogous protein(s):''' [[LicT]], [[SacT]], [[SacY]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''
** RNA-binding domain (N-terminal, constitutive antiterminator)
** 2x PTS regulation domains (PRDs) (C-terminal, neg. regulated by [[PtsG]])

* '''Modification:''' phosphorylation (His104)

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''Interactions:''' [[PtsH]]-[[GlcT]]

* '''Localization:'''

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/search/structidSearch.do?structureId=3GWH 3GWH] (PRD-II) {{PubMed|19684596}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/O31691 O31691]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13880]

=== Additional information===

=Expression and regulation=

* '''Operon:'''

* '''Sigma factor:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' GP109 (in frame deletion), GP778 (replacement of ''glcT'' and the ''ptsGHI'' operon by a spc cassette), GP926 (substitution of ''glct'' and ''ptsG'' by a tet cassette),
available in [[Stülke]] lab

* '''Expression vector:'''
** pGP124 (full length, in [[pWH844]]), available in [[Stülke]] lab
** pGP114 (amino acids 1-60, RNA-binding domain, in [[pWH844]]), available in [[Stülke]] lab
** pGP230 (amino acids 1-60, RNA-binding domain with thrombin cleavage site, in [[pWH844]]), available in [[Stülke]] lab
** pGP164 (both PRDs, in [[pWH844]]), in addition diverse expression vectors for phosphorylation site mutants and for RBD mutants (all in [[pWH844]]), available in [[Stülke]] lab
** pGP424 (PRDI, in [[pWH844]]), available in [[Stülke]] lab
** pGP425 (PRDII, in [[pWH844]]), available in [[Stülke]] lab
** pGP442 (PRDI, in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab
** pGP443 (PRDII, in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab
** pGP575 (amino acids 1-60, RNA-binding domain with Strep-tag, in [[pGP574]]), available in [[Stülke]] lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Stülke|Jörg Stülke]], University of Göttingen, Germany
[http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 9663674 18086213 </pubmed>
==Original publications==
<pubmed>11902727 9765562 12437213 10543968 17074746 15155854 14527945 , 19684596 </pubmed>

[[Category:Protein-coding genes]]

GlcT

2010-09-13T12:58:55Z

Czschiedrich: /* Biological materials */

* '''Description:''' [[PRD-containing transcription factors|Transcriptional antiterminator]] , controls expression of the ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' operon 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''glcT''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ykwA''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || [[PRD-containing transcription factors|transcriptional antiterminator]] of the ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' operon
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of glucose uptake
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 33,0 kDa, 7.01
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 855 bp, 285 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykvZ]]'', ''[[ptsG]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13261]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:glcT_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13880

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' no entry

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12593]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' [[PRD-containing transcription factors|transcription antiterminator]] , RNA-binding protein, binds the ''[[ptsG]]'' RAT sequence

* '''Protein family:''' [[PRD-containing transcription factors|transcription antiterminator]] of the BglG/ [[SacY]] family

* '''Paralogous protein(s):''' [[LicT]], [[SacT]], [[SacY]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''
** RNA-binding domain (N-terminal, constitutive antiterminator)
** 2x PTS regulation domains (PRDs) (C-terminal, neg. regulated by [[PtsG]])

* '''Modification:''' phosphorylation (His104)

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''Interactions:''' [[PtsH]]-[[GlcT]]

* '''Localization:'''

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/search/structidSearch.do?structureId=3GWH 3GWH] (PRD-II) {{PubMed|19684596}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/O31691 O31691]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13880]

=== Additional information===

=Expression and regulation=

* '''Operon:'''

* '''Sigma factor:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' GP109 (in frame deletion), GP778 (replacement of ''glcT'' and the ''ptsGHI'' operon by a spc cassette), GP926 (substitution of ''glct'' and ''ptsG'' by a tet cassette), available in [[Stülke]] lab

* '''Expression vector:'''
** pGP124 (full length, in [[pWH844]]), available in [[Stülke]] lab
** pGP114 (amino acids 1-60, RNA-binding domain, in [[pWH844]]), available in [[Stülke]] lab
** pGP230 (amino acids 1-60, RNA-binding domain with thrombin cleavage site, in [[pWH844]]), available in [[Stülke]] lab
** pGP164 (both PRDs, in [[pWH844]]), in addition diverse expression vectors for phosphorylation site mutants and for RBD mutants (all in [[pWH844]]), available in [[Stülke]] lab
** pGP424 (PRDI, in [[pWH844]]), available in [[Stülke]] lab
** pGP425 (PRDII, in [[pWH844]]), available in [[Stülke]] lab
** pGP442 (PRDI, in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab
** pGP443 (PRDII, in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab
** pGP575 (amino acids 1-60, RNA-binding domain with Strep-tag, in [[pGP574]]), available in [[Stülke]] lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Stülke|Jörg Stülke]], University of Göttingen, Germany
[http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 9663674 18086213 </pubmed>
==Original publications==
<pubmed>11902727 9765562 12437213 10543968 17074746 15155854 14527945 , 19684596 </pubmed>

[[Category:Protein-coding genes]]

PtsI

2010-09-13T12:47:05Z

Czschiedrich: /* Biological materials */

* '''Description:''' Enzyme I, general (non sugar-specific) component of the [[PTS]]. Enzyme I transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein ([[PtsH |HPr]]) 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''ptsI''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || phosphotransferase system ([[PTS]]) enzyme I
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || [[PTS]]-dependent sugar transport
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 62,9 kDa, 4.59
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1710 bp, 570 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ptsH]]'', ''[[splA]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13264]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:ptsI_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13910

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ptsGHI.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10201]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' Phosphoenolpyruvate + protein L-histidine = pyruvate + protein N(pi)-phospho-L-histidine (according to Swiss-Prot) PEP-dependent autophosphorylation on His-189, transfer of the phosphoryl group to [[PtsH |HPr]] (His-15)

* '''Protein family:''' PEP-utilizing enzyme family (according to Swiss-Prot) PEP-utilizing enzyme family

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''
**HPr binding site (N-Terminal Domain)
**pyruvate binding site (C-Terminal Domain)
**pyrophosphate/phosphate carrier histidine (central Domain)

* '''Modification:'''
** transient autophosphorylation on His-189
** ''in vivo'' also phosphorylated on Ser-34 or Ser-36 [http://www.ncbi.nlm.nih.gov/pubmed/17218307 PubMed]

* '''Cofactor(s):''' Magnesium

* '''Effectors of protein activity:'''

* '''Interactions:'''

* '''Localization:''' cytoplasm (according to Swiss-Prot)

=== Database entries ===

* '''Structure:''' [http://www.proteopedia.org/wiki/index.php/2wqd 2WQD] (Enzyme I from ''Staphylococcus aureus'') {{PubMed|19801641}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/P08838 P08838]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13910]

* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.3.9 2.7.3.9] 2.7.3.9]

=== Additional information===

=Expression and regulation=

* '''Operon:'''
** ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' {{PubMed|11902727}}
**''[[ptsH]]-[[ptsI]]'' {{PubMed|11902727}}

* '''[[Sigma factor]]:'''
** ''[[ptsG]]'': [[SigA]] {{PubMed|11902727}}
** ''[[ptsH]]'': [[SigA]] {{PubMed|11902727}}

* '''Regulation:'''
** expression activated by glucose (2 fold) ([[GlcT]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]
** the ''[[ptsH]]'' promoter is constitutive {{PubMed|11902727}}
** subject to negative stringent control upon amino acid limitation (due to control of'' [[ptsG]]'' transcription initiation) {{PubMed|20081037}}

* '''Regulatory mechanism:'''
** ''[[ptsG]]'': transcriptional antitermination via the [[GlcT]]-dependent [[RNA switch]] {{PubMed|9765562}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' GP864 (ermC), GP778 (replacement of ''glcT'' and the ''ptsGHI'' operon by a spc cassette), available in [[Stülke]] lab

* '''Expression vector:'''
** pAG3 (His-tag), available in [[Galinier]] lab
** for expression, purification in ''E. coli'', in [[pWH844]]: pGP813 available in [[Stülke]] lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Josef Deutscher]], Paris-Grignon, France

[[Stülke|Jörg Stülke]], University of Göttingen, Germany [http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

=Your additional remarks=

=References=

<pubmed>12850135 17218307, 9721285 20081037 19801641 </pubmed>

[[Category:Protein-coding genes]]

GlcT

2010-09-13T12:43:29Z

Czschiedrich: /* Biological materials */

* '''Description:''' [[PRD-containing transcription factors|Transcriptional antiterminator]] , controls expression of the ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' operon 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''glcT''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ykwA''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || [[PRD-containing transcription factors|transcriptional antiterminator]] of the ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' operon
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of glucose uptake
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 33,0 kDa, 7.01
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 855 bp, 285 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykvZ]]'', ''[[ptsG]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13261]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:glcT_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13880

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' no entry

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12593]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' [[PRD-containing transcription factors|transcription antiterminator]] , RNA-binding protein, binds the ''[[ptsG]]'' RAT sequence

* '''Protein family:''' [[PRD-containing transcription factors|transcription antiterminator]] of the BglG/ [[SacY]] family

* '''Paralogous protein(s):''' [[LicT]], [[SacT]], [[SacY]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''
** RNA-binding domain (N-terminal, constitutive antiterminator)
** 2x PTS regulation domains (PRDs) (C-terminal, neg. regulated by [[PtsG]])

* '''Modification:''' phosphorylation (His104)

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''Interactions:''' [[PtsH]]-[[GlcT]]

* '''Localization:'''

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/search/structidSearch.do?structureId=3GWH 3GWH] (PRD-II) {{PubMed|19684596}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/O31691 O31691]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13880]

=== Additional information===

=Expression and regulation=

* '''Operon:'''

* '''Sigma factor:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' GP109 (in frame deletion), GP778 (replacement of ''glcT'' and the ''ptsGHI'' operon by a spc cassette), available in [[Stülke]] lab

* '''Expression vector:'''
** pGP124 (full length, in [[pWH844]]), available in [[Stülke]] lab
** pGP114 (amino acids 1-60, RNA-binding domain, in [[pWH844]]), available in [[Stülke]] lab
** pGP230 (amino acids 1-60, RNA-binding domain with thrombin cleavage site, in [[pWH844]]), available in [[Stülke]] lab
** pGP164 (both PRDs, in [[pWH844]]), in addition diverse expression vectors for phosphorylation site mutants and for RBD mutants (all in [[pWH844]]), available in [[Stülke]] lab
** pGP424 (PRDI, in [[pWH844]]), available in [[Stülke]] lab
** pGP425 (PRDII, in [[pWH844]]), available in [[Stülke]] lab
** pGP442 (PRDI, in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab
** pGP443 (PRDII, in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab
** pGP575 (amino acids 1-60, RNA-binding domain with Strep-tag, in [[pGP574]]), available in [[Stülke]] lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Stülke|Jörg Stülke]], University of Göttingen, Germany
[http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 9663674 18086213 </pubmed>
==Original publications==
<pubmed>11902727 9765562 12437213 10543968 17074746 15155854 14527945 , 19684596 </pubmed>

[[Category:Protein-coding genes]]

GlcT

2010-09-13T12:42:18Z

Czschiedrich: /* Biological materials */

* '''Description:''' [[PRD-containing transcription factors|Transcriptional antiterminator]] , controls expression of the ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' operon 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''glcT''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ykwA''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || [[PRD-containing transcription factors|transcriptional antiterminator]] of the ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' operon
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of glucose uptake
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 33,0 kDa, 7.01
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 855 bp, 285 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykvZ]]'', ''[[ptsG]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13261]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:glcT_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13880

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' no entry

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12593]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' [[PRD-containing transcription factors|transcription antiterminator]] , RNA-binding protein, binds the ''[[ptsG]]'' RAT sequence

* '''Protein family:''' [[PRD-containing transcription factors|transcription antiterminator]] of the BglG/ [[SacY]] family

* '''Paralogous protein(s):''' [[LicT]], [[SacT]], [[SacY]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''
** RNA-binding domain (N-terminal, constitutive antiterminator)
** 2x PTS regulation domains (PRDs) (C-terminal, neg. regulated by [[PtsG]])

* '''Modification:''' phosphorylation (His104)

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''Interactions:''' [[PtsH]]-[[GlcT]]

* '''Localization:'''

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/search/structidSearch.do?structureId=3GWH 3GWH] (PRD-II) {{PubMed|19684596}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/O31691 O31691]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13880]

=== Additional information===

=Expression and regulation=

* '''Operon:'''

* '''Sigma factor:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' GP109 (in frame deletion), GP778 (replacement of glcT and the ptsGHI operon by a spc cassette), available in [[Stülke]] lab

* '''Expression vector:'''
** pGP124 (full length, in [[pWH844]]), available in [[Stülke]] lab
** pGP114 (amino acids 1-60, RNA-binding domain, in [[pWH844]]), available in [[Stülke]] lab
** pGP230 (amino acids 1-60, RNA-binding domain with thrombin cleavage site, in [[pWH844]]), available in [[Stülke]] lab
** pGP164 (both PRDs, in [[pWH844]]), in addition diverse expression vectors for phosphorylation site mutants and for RBD mutants (all in [[pWH844]]), available in [[Stülke]] lab
** pGP424 (PRDI, in [[pWH844]]), available in [[Stülke]] lab
** pGP425 (PRDII, in [[pWH844]]), available in [[Stülke]] lab
** pGP442 (PRDI, in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab
** pGP443 (PRDII, in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab
** pGP575 (amino acids 1-60, RNA-binding domain with Strep-tag, in [[pGP574]]), available in [[Stülke]] lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Stülke|Jörg Stülke]], University of Göttingen, Germany
[http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 9663674 18086213 </pubmed>
==Original publications==
<pubmed>11902727 9765562 12437213 10543968 17074746 15155854 14527945 , 19684596 </pubmed>

[[Category:Protein-coding genes]]

PtsI

2010-09-13T12:41:16Z

Czschiedrich: /* Biological materials */

* '''Description:''' Enzyme I, general (non sugar-specific) component of the [[PTS]]. Enzyme I transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein ([[PtsH |HPr]]) 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''ptsI''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || phosphotransferase system ([[PTS]]) enzyme I
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || [[PTS]]-dependent sugar transport
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 62,9 kDa, 4.59
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1710 bp, 570 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ptsH]]'', ''[[splA]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13264]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:ptsI_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13910

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ptsGHI.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10201]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' Phosphoenolpyruvate + protein L-histidine = pyruvate + protein N(pi)-phospho-L-histidine (according to Swiss-Prot) PEP-dependent autophosphorylation on His-189, transfer of the phosphoryl group to [[PtsH |HPr]] (His-15)

* '''Protein family:''' PEP-utilizing enzyme family (according to Swiss-Prot) PEP-utilizing enzyme family

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''
**HPr binding site (N-Terminal Domain)
**pyruvate binding site (C-Terminal Domain)
**pyrophosphate/phosphate carrier histidine (central Domain)

* '''Modification:'''
** transient autophosphorylation on His-189
** ''in vivo'' also phosphorylated on Ser-34 or Ser-36 [http://www.ncbi.nlm.nih.gov/pubmed/17218307 PubMed]

* '''Cofactor(s):''' Magnesium

* '''Effectors of protein activity:'''

* '''Interactions:'''

* '''Localization:''' cytoplasm (according to Swiss-Prot)

=== Database entries ===

* '''Structure:''' [http://www.proteopedia.org/wiki/index.php/2wqd 2WQD] (Enzyme I from ''Staphylococcus aureus'') {{PubMed|19801641}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/P08838 P08838]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13910]

* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.3.9 2.7.3.9] 2.7.3.9]

=== Additional information===

=Expression and regulation=

* '''Operon:'''
** ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' {{PubMed|11902727}}
**''[[ptsH]]-[[ptsI]]'' {{PubMed|11902727}}

* '''[[Sigma factor]]:'''
** ''[[ptsG]]'': [[SigA]] {{PubMed|11902727}}
** ''[[ptsH]]'': [[SigA]] {{PubMed|11902727}}

* '''Regulation:'''
** expression activated by glucose (2 fold) ([[GlcT]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]
** the ''[[ptsH]]'' promoter is constitutive {{PubMed|11902727}}
** subject to negative stringent control upon amino acid limitation (due to control of'' [[ptsG]]'' transcription initiation) {{PubMed|20081037}}

* '''Regulatory mechanism:'''
** ''[[ptsG]]'': transcriptional antitermination via the [[GlcT]]-dependent [[RNA switch]] {{PubMed|9765562}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' GP864 (ermC), GP778 (replacement of glcT and the ptsGHI operon by a spc cassette), available in [[Stülke]] lab

* '''Expression vector:'''
** pAG3 (His-tag), available in [[Galinier]] lab
** for expression, purification in ''E. coli'', in [[pWH844]]: pGP813 available in [[Stülke]] lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Josef Deutscher]], Paris-Grignon, France

[[Stülke|Jörg Stülke]], University of Göttingen, Germany [http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

=Your additional remarks=

=References=

<pubmed>12850135 17218307, 9721285 20081037 19801641 </pubmed>

[[Category:Protein-coding genes]]

PtsH

2010-09-13T12:40:07Z

Czschiedrich: /* Biological materials */

* '''Description:''' HPr, General component of the sugar phosphotransferase system ([[PTS]]). 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''ptsH''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || histidine-containing phosphocarrier protein HPr of the [[PTS]]
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || [[PTS]]-dependent sugar transport and carbon catabolite repression
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism], [http://subtiwiki.uni-goettingen.de/pathways/carbohydrate_metabolic_pathways.html Sugar catabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 9,1 kDa, 4.58
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 264 bp, 88 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ptsG]]'', ''[[ptsI]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13263]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:ptsH_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13900

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ptsGHI.html]

* '''SubtiList entry:'''[http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10200]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' Protein HPr N(pi)-phospho-L-histidine + protein EIIA = protein HPr + protein EIIA N(tau)-phospho-L-histidine (according to Swiss-Prot) Protein HPr N(pi)-phospho-L-histidine + protein EIIA = protein [[PtsH|HPr]] + protein EIIA N(tau)-phospho-L-histidine

* '''Protein family:''' HPr domain (according to Swiss-Prot) HPr family

* '''Paralogous protein(s):''' [[Crh]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:''' HPr Domain (2–88)

* '''Modification:'''
** transient phosphorylation by [[PtsI |Enzyme I]] of the PTS on His-15
** regulatory phosphorylation on Ser-46 by [[HprK]] [http://www.ncbi.nlm.nih.gov/sites/entrez/2507315 PubMed]
** an extensive study on ''in vivo'' HPr phosphorylation can be found in Singh et al. (2008) [http://www.ncbi.nlm.nih.gov/sites/entrez/18757537 PubMed]
** weak phosphorylation on Ser-12 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed]
** ''in vitro'' phosphorylated by [[PrkC]] on Ser-12 {{PubMed|20389117}}

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''Interactions:'''
** [[PtsH|HPr]]-[[PtsG]] {{PubMed|8418852}}, [[PtsH]]-[[MtlF]] {{PubMed|20444094}}, [[ManP]]-[[PtsH|HPr]]
** [[PtsH|HPr]]-[[LicT]], [[PtsH|HPr]]-[[SacY]], [[PtsH|HPr]]-[[SacT]], [[PtsH|HPr]]-[[GlcT]]
** [[PtsH|HPr]]-[[GlpK]]
** [[GapA]]-[[PtsH|HPr]] [http://www.ncbi.nlm.nih.gov/sites/entrez/17142398 PubMed]
** [[PtsH|HPr]]-[[MtlR]] {{PubMed|20444094}}, [[PtsH|HPr]]-[[LicR]], [[PtsH|HPr]]-[[LevR]],[[PtsH|HPr]]-[[ManR]]
** [[PtsH|HPr(Ser-46)-P]]-[[CcpA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12432959 PubMed], [[PtsH|HPr]]-[[RbsR]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16519689 PubMed]
** [[HprK]]-[[PtsH|HPr]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12009882 PubMed], [[PtsI|Enzyme I]]-[[PtsH|HPr]]
** [[PtsH|HPr(His)-P]]-[[YesS]] {{PubMed|19651770}}

* '''Localization:''' cytoplasm (according to Swiss-Prot), Cytoplasm [http://www.ncbi.nlm.nih.gov/sites/entrez/16395550 PubMed]

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1KKM 1KKM] (complex of L. casei HprK with B. subtilis HPr-Ser-P), [http://www.rcsb.org/pdb/explore.do?structureId=1KKL 1KKL] (complex of Lactobacillus casei HprK with B. subtilis HPr), [http://www.rcsb.org/pdb/explore.do?structureId=2HID 2HID] (NMR)

* '''UniProt:''' [http://www.uniprot.org/uniprot/P08877 P08877]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13900]

* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.11.- 2.7.11.-]

=== Additional information===

=Expression and regulation=

* '''Operon:'''
** ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' {{PubMed|11902727}}
**''[[ptsH]]-[[ptsI]]'' {{PubMed|11902727}}

* '''[[Sigma factor]]:'''
** ''[[ptsG]]'': [[SigA]] {{PubMed|11902727}}
** ''[[ptsH]]'': [[SigA]] {{PubMed|11902727}}

* '''Regulation:'''
** expression activated by glucose (2 fold) ([[GlcT]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]
** the ''[[ptsH]]'' promoter is constitutive {{PubMed|11902727}}
** subject to negative stringent control upon amino acid limitation (due to control of'' [[ptsG]]'' transcription initiation) {{PubMed|20081037}}

* '''Regulatory mechanism:'''
** ''[[ptsG]]'': transcriptional antitermination via the [[GlcT]]-dependent [[RNA switch]] {{PubMed|9765562}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' MZ303 (cat), GP507 ptsH1 (S46A), GP506 (ptsH-H15A), GP778 (replacement of ''glcT'' and the ''ptsGHI'' operon by a spc cassette), available in [[Stülke]] lab

* '''Expression vector:'''
** pGP438 (with N-terminal Strep-tag, in [[pGP172]]), available in [[Stülke]] lab
** pAG2 (His-tag), available in [[Anne Galinier]] lab
** pGP371(expression / purification of HPr-S46A, with His-tag from ''E. coli'', in [[pWH844]]), available in [[Stülke]] lab
** pGP1415 (HPr, expression in ''B. subtilis'', from [[pBQ200]]), available in [[Stülke]] lab
** pGP961 (HPr, expression in ''B. subtilis'' with N-terminal Strep-tag, for [[SPINE]], available in [[Stülke]] lab
** pGP1416 (HPr-H15A, expression in ''B. subtilis'', from [[pBQ200]]), available in [[Stülke]] lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Boris Görke| Görke]] lab

* '''Antibody:''' available in [[Stülke]] lab

=Labs working on this gene/protein=

[[Josef Deutscher]], Paris-Grignon, France

[[Stülke|Jörg Stülke]], University of Göttingen, Germany [http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

[[Wolfgang Hillen]], Erlangen University, Germany [http://www.biologie.uni-erlangen.de/mibi/index2.html Homepage]

[[Richard Brennan]], Houston, Texas, USA [http://www.mdanderson.org/departments/biochem/display.cfm?id=556ef368-6c81-4043-b74f350d41dd06cb&method=displayfull&pn=a8427ebd-d0ff-11d4-80fd00508b603a14 Homepage]

[[Boris Görke]], University of Göttingen, Germany [http://wwwuser.gwdg.de/~genmibio/goerke.html Homepage]

[[Anne Galinier]], University of Marseille, France

=Your additional remarks=

=References=

<pubmed>16519689,,12850135 17218307 16519689 17142398 12359875 1577686 9162046 11929549 9336834 7803390, 7623661, 2846556, 8169206, 9973552, 15126459, 10048041, 12169607, 9622354, 10217795, 17693724, 18757537 , 9202047 , 7592487, 15369672 , 14527945, 2507315 8580838 19651770 8418852 1303754 1549615 20081037 20389117 20444094 </pubmed>

[[Category:Protein-coding genes]]

PtsH

2010-09-13T12:39:33Z

Czschiedrich: /* Biological materials */

* '''Description:''' HPr, General component of the sugar phosphotransferase system ([[PTS]]). 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''ptsH''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || histidine-containing phosphocarrier protein HPr of the [[PTS]]
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || [[PTS]]-dependent sugar transport and carbon catabolite repression
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism], [http://subtiwiki.uni-goettingen.de/pathways/carbohydrate_metabolic_pathways.html Sugar catabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 9,1 kDa, 4.58
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 264 bp, 88 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ptsG]]'', ''[[ptsI]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13263]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:ptsH_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13900

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ptsGHI.html]

* '''SubtiList entry:'''[http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10200]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' Protein HPr N(pi)-phospho-L-histidine + protein EIIA = protein HPr + protein EIIA N(tau)-phospho-L-histidine (according to Swiss-Prot) Protein HPr N(pi)-phospho-L-histidine + protein EIIA = protein [[PtsH|HPr]] + protein EIIA N(tau)-phospho-L-histidine

* '''Protein family:''' HPr domain (according to Swiss-Prot) HPr family

* '''Paralogous protein(s):''' [[Crh]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:''' HPr Domain (2–88)

* '''Modification:'''
** transient phosphorylation by [[PtsI |Enzyme I]] of the PTS on His-15
** regulatory phosphorylation on Ser-46 by [[HprK]] [http://www.ncbi.nlm.nih.gov/sites/entrez/2507315 PubMed]
** an extensive study on ''in vivo'' HPr phosphorylation can be found in Singh et al. (2008) [http://www.ncbi.nlm.nih.gov/sites/entrez/18757537 PubMed]
** weak phosphorylation on Ser-12 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed]
** ''in vitro'' phosphorylated by [[PrkC]] on Ser-12 {{PubMed|20389117}}

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''Interactions:'''
** [[PtsH|HPr]]-[[PtsG]] {{PubMed|8418852}}, [[PtsH]]-[[MtlF]] {{PubMed|20444094}}, [[ManP]]-[[PtsH|HPr]]
** [[PtsH|HPr]]-[[LicT]], [[PtsH|HPr]]-[[SacY]], [[PtsH|HPr]]-[[SacT]], [[PtsH|HPr]]-[[GlcT]]
** [[PtsH|HPr]]-[[GlpK]]
** [[GapA]]-[[PtsH|HPr]] [http://www.ncbi.nlm.nih.gov/sites/entrez/17142398 PubMed]
** [[PtsH|HPr]]-[[MtlR]] {{PubMed|20444094}}, [[PtsH|HPr]]-[[LicR]], [[PtsH|HPr]]-[[LevR]],[[PtsH|HPr]]-[[ManR]]
** [[PtsH|HPr(Ser-46)-P]]-[[CcpA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12432959 PubMed], [[PtsH|HPr]]-[[RbsR]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16519689 PubMed]
** [[HprK]]-[[PtsH|HPr]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12009882 PubMed], [[PtsI|Enzyme I]]-[[PtsH|HPr]]
** [[PtsH|HPr(His)-P]]-[[YesS]] {{PubMed|19651770}}

* '''Localization:''' cytoplasm (according to Swiss-Prot), Cytoplasm [http://www.ncbi.nlm.nih.gov/sites/entrez/16395550 PubMed]

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1KKM 1KKM] (complex of L. casei HprK with B. subtilis HPr-Ser-P), [http://www.rcsb.org/pdb/explore.do?structureId=1KKL 1KKL] (complex of Lactobacillus casei HprK with B. subtilis HPr), [http://www.rcsb.org/pdb/explore.do?structureId=2HID 2HID] (NMR)

* '''UniProt:''' [http://www.uniprot.org/uniprot/P08877 P08877]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13900]

* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.11.- 2.7.11.-]

=== Additional information===

=Expression and regulation=

* '''Operon:'''
** ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' {{PubMed|11902727}}
**''[[ptsH]]-[[ptsI]]'' {{PubMed|11902727}}

* '''[[Sigma factor]]:'''
** ''[[ptsG]]'': [[SigA]] {{PubMed|11902727}}
** ''[[ptsH]]'': [[SigA]] {{PubMed|11902727}}

* '''Regulation:'''
** expression activated by glucose (2 fold) ([[GlcT]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]
** the ''[[ptsH]]'' promoter is constitutive {{PubMed|11902727}}
** subject to negative stringent control upon amino acid limitation (due to control of'' [[ptsG]]'' transcription initiation) {{PubMed|20081037}}

* '''Regulatory mechanism:'''
** ''[[ptsG]]'': transcriptional antitermination via the [[GlcT]]-dependent [[RNA switch]] {{PubMed|9765562}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' MZ303 (cat), GP507 ptsH1 (S46A), GP506 (ptsH-H15A), GGP778 (replacement of ''glcT'' and the ''ptsGHI'' operon by a spc cassette), available in [[Stülke]] lab

* '''Expression vector:'''
** pGP438 (with N-terminal Strep-tag, in [[pGP172]]), available in [[Stülke]] lab
** pAG2 (His-tag), available in [[Anne Galinier]] lab
** pGP371(expression / purification of HPr-S46A, with His-tag from ''E. coli'', in [[pWH844]]), available in [[Stülke]] lab
** pGP1415 (HPr, expression in ''B. subtilis'', from [[pBQ200]]), available in [[Stülke]] lab
** pGP961 (HPr, expression in ''B. subtilis'' with N-terminal Strep-tag, for [[SPINE]], available in [[Stülke]] lab
** pGP1416 (HPr-H15A, expression in ''B. subtilis'', from [[pBQ200]]), available in [[Stülke]] lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Boris Görke| Görke]] lab

* '''Antibody:''' available in [[Stülke]] lab

=Labs working on this gene/protein=

[[Josef Deutscher]], Paris-Grignon, France

[[Stülke|Jörg Stülke]], University of Göttingen, Germany [http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

[[Wolfgang Hillen]], Erlangen University, Germany [http://www.biologie.uni-erlangen.de/mibi/index2.html Homepage]

[[Richard Brennan]], Houston, Texas, USA [http://www.mdanderson.org/departments/biochem/display.cfm?id=556ef368-6c81-4043-b74f350d41dd06cb&method=displayfull&pn=a8427ebd-d0ff-11d4-80fd00508b603a14 Homepage]

[[Boris Görke]], University of Göttingen, Germany [http://wwwuser.gwdg.de/~genmibio/goerke.html Homepage]

[[Anne Galinier]], University of Marseille, France

=Your additional remarks=

=References=

<pubmed>16519689,,12850135 17218307 16519689 17142398 12359875 1577686 9162046 11929549 9336834 7803390, 7623661, 2846556, 8169206, 9973552, 15126459, 10048041, 12169607, 9622354, 10217795, 17693724, 18757537 , 9202047 , 7592487, 15369672 , 14527945, 2507315 8580838 19651770 8418852 1303754 1549615 20081037 20389117 20444094 </pubmed>

[[Category:Protein-coding genes]]

PtsH

2010-09-13T12:39:05Z

Czschiedrich: /* Biological materials */

* '''Description:''' HPr, General component of the sugar phosphotransferase system ([[PTS]]). 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''ptsH''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || histidine-containing phosphocarrier protein HPr of the [[PTS]]
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || [[PTS]]-dependent sugar transport and carbon catabolite repression
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism], [http://subtiwiki.uni-goettingen.de/pathways/carbohydrate_metabolic_pathways.html Sugar catabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 9,1 kDa, 4.58
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 264 bp, 88 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ptsG]]'', ''[[ptsI]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13263]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:ptsH_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13900

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ptsGHI.html]

* '''SubtiList entry:'''[http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10200]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' Protein HPr N(pi)-phospho-L-histidine + protein EIIA = protein HPr + protein EIIA N(tau)-phospho-L-histidine (according to Swiss-Prot) Protein HPr N(pi)-phospho-L-histidine + protein EIIA = protein [[PtsH|HPr]] + protein EIIA N(tau)-phospho-L-histidine

* '''Protein family:''' HPr domain (according to Swiss-Prot) HPr family

* '''Paralogous protein(s):''' [[Crh]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:''' HPr Domain (2–88)

* '''Modification:'''
** transient phosphorylation by [[PtsI |Enzyme I]] of the PTS on His-15
** regulatory phosphorylation on Ser-46 by [[HprK]] [http://www.ncbi.nlm.nih.gov/sites/entrez/2507315 PubMed]
** an extensive study on ''in vivo'' HPr phosphorylation can be found in Singh et al. (2008) [http://www.ncbi.nlm.nih.gov/sites/entrez/18757537 PubMed]
** weak phosphorylation on Ser-12 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed]
** ''in vitro'' phosphorylated by [[PrkC]] on Ser-12 {{PubMed|20389117}}

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''Interactions:'''
** [[PtsH|HPr]]-[[PtsG]] {{PubMed|8418852}}, [[PtsH]]-[[MtlF]] {{PubMed|20444094}}, [[ManP]]-[[PtsH|HPr]]
** [[PtsH|HPr]]-[[LicT]], [[PtsH|HPr]]-[[SacY]], [[PtsH|HPr]]-[[SacT]], [[PtsH|HPr]]-[[GlcT]]
** [[PtsH|HPr]]-[[GlpK]]
** [[GapA]]-[[PtsH|HPr]] [http://www.ncbi.nlm.nih.gov/sites/entrez/17142398 PubMed]
** [[PtsH|HPr]]-[[MtlR]] {{PubMed|20444094}}, [[PtsH|HPr]]-[[LicR]], [[PtsH|HPr]]-[[LevR]],[[PtsH|HPr]]-[[ManR]]
** [[PtsH|HPr(Ser-46)-P]]-[[CcpA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12432959 PubMed], [[PtsH|HPr]]-[[RbsR]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16519689 PubMed]
** [[HprK]]-[[PtsH|HPr]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12009882 PubMed], [[PtsI|Enzyme I]]-[[PtsH|HPr]]
** [[PtsH|HPr(His)-P]]-[[YesS]] {{PubMed|19651770}}

* '''Localization:''' cytoplasm (according to Swiss-Prot), Cytoplasm [http://www.ncbi.nlm.nih.gov/sites/entrez/16395550 PubMed]

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1KKM 1KKM] (complex of L. casei HprK with B. subtilis HPr-Ser-P), [http://www.rcsb.org/pdb/explore.do?structureId=1KKL 1KKL] (complex of Lactobacillus casei HprK with B. subtilis HPr), [http://www.rcsb.org/pdb/explore.do?structureId=2HID 2HID] (NMR)

* '''UniProt:''' [http://www.uniprot.org/uniprot/P08877 P08877]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13900]

* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.11.- 2.7.11.-]

=== Additional information===

=Expression and regulation=

* '''Operon:'''
** ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' {{PubMed|11902727}}
**''[[ptsH]]-[[ptsI]]'' {{PubMed|11902727}}

* '''[[Sigma factor]]:'''
** ''[[ptsG]]'': [[SigA]] {{PubMed|11902727}}
** ''[[ptsH]]'': [[SigA]] {{PubMed|11902727}}

* '''Regulation:'''
** expression activated by glucose (2 fold) ([[GlcT]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]
** the ''[[ptsH]]'' promoter is constitutive {{PubMed|11902727}}
** subject to negative stringent control upon amino acid limitation (due to control of'' [[ptsG]]'' transcription initiation) {{PubMed|20081037}}

* '''Regulatory mechanism:'''
** ''[[ptsG]]'': transcriptional antitermination via the [[GlcT]]-dependent [[RNA switch]] {{PubMed|9765562}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' MZ303 (cat), GP507 ptsH1 (S46A), GP506 (ptsH-H15A), GGP778 (replacement of ''glcT'' and the ''ptsGHI'' operon by a spc cassette),
available in [[Stülke]] lab

* '''Expression vector:'''
** pGP438 (with N-terminal Strep-tag, in [[pGP172]]), available in [[Stülke]] lab
** pAG2 (His-tag), available in [[Anne Galinier]] lab
** pGP371(expression / purification of HPr-S46A, with His-tag from ''E. coli'', in [[pWH844]]), available in [[Stülke]] lab
** pGP1415 (HPr, expression in ''B. subtilis'', from [[pBQ200]]), available in [[Stülke]] lab
** pGP961 (HPr, expression in ''B. subtilis'' with N-terminal Strep-tag, for [[SPINE]], available in [[Stülke]] lab
** pGP1416 (HPr-H15A, expression in ''B. subtilis'', from [[pBQ200]]), available in [[Stülke]] lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Boris Görke| Görke]] lab

* '''Antibody:''' available in [[Stülke]] lab

=Labs working on this gene/protein=

[[Josef Deutscher]], Paris-Grignon, France

[[Stülke|Jörg Stülke]], University of Göttingen, Germany [http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

[[Wolfgang Hillen]], Erlangen University, Germany [http://www.biologie.uni-erlangen.de/mibi/index2.html Homepage]

[[Richard Brennan]], Houston, Texas, USA [http://www.mdanderson.org/departments/biochem/display.cfm?id=556ef368-6c81-4043-b74f350d41dd06cb&method=displayfull&pn=a8427ebd-d0ff-11d4-80fd00508b603a14 Homepage]

[[Boris Görke]], University of Göttingen, Germany [http://wwwuser.gwdg.de/~genmibio/goerke.html Homepage]

[[Anne Galinier]], University of Marseille, France

=Your additional remarks=

=References=

<pubmed>16519689,,12850135 17218307 16519689 17142398 12359875 1577686 9162046 11929549 9336834 7803390, 7623661, 2846556, 8169206, 9973552, 15126459, 10048041, 12169607, 9622354, 10217795, 17693724, 18757537 , 9202047 , 7592487, 15369672 , 14527945, 2507315 8580838 19651770 8418852 1303754 1549615 20081037 20389117 20444094 </pubmed>

[[Category:Protein-coding genes]]

PtsG

2010-09-13T12:38:01Z

Czschiedrich: /* Biological materials */

* '''Description:''' [[trigger enzymes|trigger enzyme]]: major glucose permease of the [[PTS]], EIICBA(Glc) and control of [[GlcT]] activity 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''ptsG''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ptsX, crr''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || [[trigger enzymes|trigger enzyme]]: glucose-specific enzyme IICBA component of the [[PTS]]
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || glucose transport and phosphorylation, control of [[GlcT]] activity
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism], [http://subtiwiki.uni-goettingen.de/pathways/carbohydrate_metabolic_pathways.html Sugar catabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 75,3 kDa, 5.40
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 2097 bp, 699 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[glcT]]'', ''[[ptsH]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13262]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:ptsG_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13890

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ptsGHI.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10198]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' transport and phosphorylation of glucose, receives a phosphate from [[PtsH |HPr]] at the IIA domain (His-620), the phosphate group is then transferred to the IIB domain (Cys-461) an finally to the incoming glucose. In the absence of glucose, PtsG phosphorylates and thereby inactivates the transcriptional antiterminator [[GlcT]].

* '''Protein family:''' [[PTS]] permease, glucose permease (Glc) family [http://www.ncbi.nlm.nih.gov/pubmed/10627040 PubMed], [[PTS]] enzyme II

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''
** 11x transmembrane domain (16–36, 89–109, 139–159, 180–200, 233–253, 283–303, 313–333, 338–358, 365–385, 388–408)
** PTS EIIC domain ( 1-424)
** PTS EIIB domain (439–520)
** PTS EIIA domain (568–672)

* '''Modification:''' transient phosphorylation ([[PtsH|HPr]]-dependent) on His-620, then internal phosphotransfer from His-620 to Cys-461

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''Interactions:''' [[PtsH|HPr]]-[[PtsG]] {{PubMed|8418852}}, PtsG-[[GlcT]] (for phosphorylation of [[GlcT]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/14527945 PubMed]

* '''Localization:''' membrane protein [http://www.ncbi.nlm.nih.gov/sites/entrez/18763711 PubMed]

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1AX3 1AX3] (IIA domain), [http://www.rcsb.org/pdb/explore.do?structureId=1GPR 1GPR] (IIA domain), IIA domain [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=56258 NCBI], NMR IIA domain [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=55395 NCBI]

* '''UniProt:''' [http://www.uniprot.org/uniprot/P20166 P20166]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13890]

* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.1.69 2.7.1.69]

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' {{PubMed|11902727}}

* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|11902727}}

* '''Regulation:'''
** expression activated by glucose (32 fold) ([[GlcT]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]
** subject to negative stringent control upon lysine starvation {{PubMed|20081037}}

* '''Regulatory mechanism:'''
** transcriptional antitermination via the [[GlcT]]-dependent [[RNA switch]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+9765562 PubMed]
** stringent response: due to presence of guanine at +1 position of the transcript {{PubMed|20081037}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' GP474 (cat), QB5436 (spc), QB5445 (erm), GP778 (replacement of ''glcT'' and the ''ptsGHI'' operon by a spc cassette) available in [[Stülke]] lab

* '''Expression vector:'''
** pGP123 (domains BA, in [[pWH844]]), available in [[Stülke]] lab
** pGP141 (domains BA, mut: H620D, in [[pWH844]]), available in [[Stülke]] lab
** pGP428 (EIIB, in [[pWH844]]), available in [[Stülke]] lab
** pGP437(EIIA in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab

* '''lacZ fusion:'''
** pGP34 ([[pAC5]]), available in [[Stülke]] lab
** pGP66 ([[pAC7]]), available in [[Stülke]] lab
** pGP606 (mutant terminator, [[pAC6]]), available in [[Stülke]] lab
** pGP532 ([[pAC7]]), available in [[Stülke]] lab
** series of promoter deletions are available in [[pAC5]] and [[pAC6]], available in [[Stülke]] lab
** series of RAT mutants are available in [[pAC6]], available in [[Stülke]] lab

* '''GFP fusion:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Stülke|Jörg Stülke]], University of Göttingen, Germany
[http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 18086213 </pubmed>
==Original publications==
<pubmed>10627040 ,12850135 ,18763711 ,11902727 ,9765562 ,9513271 ,1956301 ,10543968 ,17074746 ,15155854 ,14527945 ,1508157 ,2120236 9593197 8418852 1581296 1316146 1733770 1942043 1911744 1906345 20081037 </pubmed>

[[Category:Protein-coding genes]]

PtsH

2010-09-13T12:36:12Z

Czschiedrich: /* Biological materials */

* '''Description:''' HPr, General component of the sugar phosphotransferase system ([[PTS]]). 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''ptsH''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || histidine-containing phosphocarrier protein HPr of the [[PTS]]
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || [[PTS]]-dependent sugar transport and carbon catabolite repression
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism], [http://subtiwiki.uni-goettingen.de/pathways/carbohydrate_metabolic_pathways.html Sugar catabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 9,1 kDa, 4.58
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 264 bp, 88 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ptsG]]'', ''[[ptsI]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13263]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:ptsH_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13900

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ptsGHI.html]

* '''SubtiList entry:'''[http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10200]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' Protein HPr N(pi)-phospho-L-histidine + protein EIIA = protein HPr + protein EIIA N(tau)-phospho-L-histidine (according to Swiss-Prot) Protein HPr N(pi)-phospho-L-histidine + protein EIIA = protein [[PtsH|HPr]] + protein EIIA N(tau)-phospho-L-histidine

* '''Protein family:''' HPr domain (according to Swiss-Prot) HPr family

* '''Paralogous protein(s):''' [[Crh]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:''' HPr Domain (2–88)

* '''Modification:'''
** transient phosphorylation by [[PtsI |Enzyme I]] of the PTS on His-15
** regulatory phosphorylation on Ser-46 by [[HprK]] [http://www.ncbi.nlm.nih.gov/sites/entrez/2507315 PubMed]
** an extensive study on ''in vivo'' HPr phosphorylation can be found in Singh et al. (2008) [http://www.ncbi.nlm.nih.gov/sites/entrez/18757537 PubMed]
** weak phosphorylation on Ser-12 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed]
** ''in vitro'' phosphorylated by [[PrkC]] on Ser-12 {{PubMed|20389117}}

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''Interactions:'''
** [[PtsH|HPr]]-[[PtsG]] {{PubMed|8418852}}, [[PtsH]]-[[MtlF]] {{PubMed|20444094}}, [[ManP]]-[[PtsH|HPr]]
** [[PtsH|HPr]]-[[LicT]], [[PtsH|HPr]]-[[SacY]], [[PtsH|HPr]]-[[SacT]], [[PtsH|HPr]]-[[GlcT]]
** [[PtsH|HPr]]-[[GlpK]]
** [[GapA]]-[[PtsH|HPr]] [http://www.ncbi.nlm.nih.gov/sites/entrez/17142398 PubMed]
** [[PtsH|HPr]]-[[MtlR]] {{PubMed|20444094}}, [[PtsH|HPr]]-[[LicR]], [[PtsH|HPr]]-[[LevR]],[[PtsH|HPr]]-[[ManR]]
** [[PtsH|HPr(Ser-46)-P]]-[[CcpA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12432959 PubMed], [[PtsH|HPr]]-[[RbsR]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16519689 PubMed]
** [[HprK]]-[[PtsH|HPr]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12009882 PubMed], [[PtsI|Enzyme I]]-[[PtsH|HPr]]
** [[PtsH|HPr(His)-P]]-[[YesS]] {{PubMed|19651770}}

* '''Localization:''' cytoplasm (according to Swiss-Prot), Cytoplasm [http://www.ncbi.nlm.nih.gov/sites/entrez/16395550 PubMed]

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1KKM 1KKM] (complex of L. casei HprK with B. subtilis HPr-Ser-P), [http://www.rcsb.org/pdb/explore.do?structureId=1KKL 1KKL] (complex of Lactobacillus casei HprK with B. subtilis HPr), [http://www.rcsb.org/pdb/explore.do?structureId=2HID 2HID] (NMR)

* '''UniProt:''' [http://www.uniprot.org/uniprot/P08877 P08877]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13900]

* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.11.- 2.7.11.-]

=== Additional information===

=Expression and regulation=

* '''Operon:'''
** ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' {{PubMed|11902727}}
**''[[ptsH]]-[[ptsI]]'' {{PubMed|11902727}}

* '''[[Sigma factor]]:'''
** ''[[ptsG]]'': [[SigA]] {{PubMed|11902727}}
** ''[[ptsH]]'': [[SigA]] {{PubMed|11902727}}

* '''Regulation:'''
** expression activated by glucose (2 fold) ([[GlcT]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]
** the ''[[ptsH]]'' promoter is constitutive {{PubMed|11902727}}
** subject to negative stringent control upon amino acid limitation (due to control of'' [[ptsG]]'' transcription initiation) {{PubMed|20081037}}

* '''Regulatory mechanism:'''
** ''[[ptsG]]'': transcriptional antitermination via the [[GlcT]]-dependent [[RNA switch]] {{PubMed|9765562}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' MZ303 (cat), GP507 ptsH1 (S46A), GP506 (ptsH-H15A), GP778 (replacement of the ptsGHI operon by a spc cassette), available in [[Stülke]] lab

* '''Expression vector:'''
** pGP438 (with N-terminal Strep-tag, in [[pGP172]]), available in [[Stülke]] lab
** pAG2 (His-tag), available in [[Anne Galinier]] lab
** pGP371(expression / purification of HPr-S46A, with His-tag from ''E. coli'', in [[pWH844]]), available in [[Stülke]] lab
** pGP1415 (HPr, expression in ''B. subtilis'', from [[pBQ200]]), available in [[Stülke]] lab
** pGP961 (HPr, expression in ''B. subtilis'' with N-terminal Strep-tag, for [[SPINE]], available in [[Stülke]] lab
** pGP1416 (HPr-H15A, expression in ''B. subtilis'', from [[pBQ200]]), available in [[Stülke]] lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Boris Görke| Görke]] lab

* '''Antibody:''' available in [[Stülke]] lab

=Labs working on this gene/protein=

[[Josef Deutscher]], Paris-Grignon, France

[[Stülke|Jörg Stülke]], University of Göttingen, Germany [http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

[[Wolfgang Hillen]], Erlangen University, Germany [http://www.biologie.uni-erlangen.de/mibi/index2.html Homepage]

[[Richard Brennan]], Houston, Texas, USA [http://www.mdanderson.org/departments/biochem/display.cfm?id=556ef368-6c81-4043-b74f350d41dd06cb&method=displayfull&pn=a8427ebd-d0ff-11d4-80fd00508b603a14 Homepage]

[[Boris Görke]], University of Göttingen, Germany [http://wwwuser.gwdg.de/~genmibio/goerke.html Homepage]

[[Anne Galinier]], University of Marseille, France

=Your additional remarks=

=References=

<pubmed>16519689,,12850135 17218307 16519689 17142398 12359875 1577686 9162046 11929549 9336834 7803390, 7623661, 2846556, 8169206, 9973552, 15126459, 10048041, 12169607, 9622354, 10217795, 17693724, 18757537 , 9202047 , 7592487, 15369672 , 14527945, 2507315 8580838 19651770 8418852 1303754 1549615 20081037 20389117 20444094 </pubmed>

[[Category:Protein-coding genes]]

PtsG

2010-09-13T12:35:20Z

Czschiedrich: /* Biological materials */

* '''Description:''' [[trigger enzymes|trigger enzyme]]: major glucose permease of the [[PTS]], EIICBA(Glc) and control of [[GlcT]] activity 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''ptsG''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ptsX, crr''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || [[trigger enzymes|trigger enzyme]]: glucose-specific enzyme IICBA component of the [[PTS]]
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || glucose transport and phosphorylation, control of [[GlcT]] activity
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism], [http://subtiwiki.uni-goettingen.de/pathways/carbohydrate_metabolic_pathways.html Sugar catabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 75,3 kDa, 5.40
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 2097 bp, 699 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[glcT]]'', ''[[ptsH]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13262]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:ptsG_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU13890

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ptsGHI.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10198]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' transport and phosphorylation of glucose, receives a phosphate from [[PtsH |HPr]] at the IIA domain (His-620), the phosphate group is then transferred to the IIB domain (Cys-461) an finally to the incoming glucose. In the absence of glucose, PtsG phosphorylates and thereby inactivates the transcriptional antiterminator [[GlcT]].

* '''Protein family:''' [[PTS]] permease, glucose permease (Glc) family [http://www.ncbi.nlm.nih.gov/pubmed/10627040 PubMed], [[PTS]] enzyme II

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''
** 11x transmembrane domain (16–36, 89–109, 139–159, 180–200, 233–253, 283–303, 313–333, 338–358, 365–385, 388–408)
** PTS EIIC domain ( 1-424)
** PTS EIIB domain (439–520)
** PTS EIIA domain (568–672)

* '''Modification:''' transient phosphorylation ([[PtsH|HPr]]-dependent) on His-620, then internal phosphotransfer from His-620 to Cys-461

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''Interactions:''' [[PtsH|HPr]]-[[PtsG]] {{PubMed|8418852}}, PtsG-[[GlcT]] (for phosphorylation of [[GlcT]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/14527945 PubMed]

* '''Localization:''' membrane protein [http://www.ncbi.nlm.nih.gov/sites/entrez/18763711 PubMed]

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1AX3 1AX3] (IIA domain), [http://www.rcsb.org/pdb/explore.do?structureId=1GPR 1GPR] (IIA domain), IIA domain [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=56258 NCBI], NMR IIA domain [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=55395 NCBI]

* '''UniProt:''' [http://www.uniprot.org/uniprot/P20166 P20166]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13890]

* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.1.69 2.7.1.69]

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[ptsG]]-[[ptsH]]-[[ptsI]]'' {{PubMed|11902727}}

* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|11902727}}

* '''Regulation:'''
** expression activated by glucose (32 fold) ([[GlcT]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]
** subject to negative stringent control upon lysine starvation {{PubMed|20081037}}

* '''Regulatory mechanism:'''
** transcriptional antitermination via the [[GlcT]]-dependent [[RNA switch]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+9765562 PubMed]
** stringent response: due to presence of guanine at +1 position of the transcript {{PubMed|20081037}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' GP474 (cat), QB5436 (spc), QB5445 (erm), GP778 (replacement of the ptsGHI operon by a spc cassette) available in [[Stülke]] lab

* '''Expression vector:'''
** pGP123 (domains BA, in [[pWH844]]), available in [[Stülke]] lab
** pGP141 (domains BA, mut: H620D, in [[pWH844]]), available in [[Stülke]] lab
** pGP428 (EIIB, in [[pWH844]]), available in [[Stülke]] lab
** pGP437(EIIA in [[pGP570]], with thrombin cleavage site), available in [[Stülke]] lab

* '''lacZ fusion:'''
** pGP34 ([[pAC5]]), available in [[Stülke]] lab
** pGP66 ([[pAC7]]), available in [[Stülke]] lab
** pGP606 (mutant terminator, [[pAC6]]), available in [[Stülke]] lab
** pGP532 ([[pAC7]]), available in [[Stülke]] lab
** series of promoter deletions are available in [[pAC5]] and [[pAC6]], available in [[Stülke]] lab
** series of RAT mutants are available in [[pAC6]], available in [[Stülke]] lab

* '''GFP fusion:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Stülke|Jörg Stülke]], University of Göttingen, Germany
[http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 18086213 </pubmed>
==Original publications==
<pubmed>10627040 ,12850135 ,18763711 ,11902727 ,9765562 ,9513271 ,1956301 ,10543968 ,17074746 ,15155854 ,14527945 ,1508157 ,2120236 9593197 8418852 1581296 1316146 1733770 1942043 1911744 1906345 20081037 </pubmed>

[[Category:Protein-coding genes]]