SubtiWiki - User contributions [en]

ScoC

2011-09-06T20:32:06Z

Nobse: /* Biological materials */

* '''Description:''' transcriptional repressor of genes expressed in the transition phase 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''scoC''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''hpr, catA''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || transcriptional repressor (MarR family)
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || transition state regulator
|-
|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/ScoC ScoC]
|-
|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/pathways/other_nitrogen_sources/index.html Alternative nitrogen sources]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 23 kDa, 5.188
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 609 bp, 203 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yhaI]]'', ''[[yhaH]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB12839]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:hpr_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|[[transition state regulators]]}}

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

=The [[ScoC regulon]]=

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU09990

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10659]

=== 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]]:'''
** [[SinR]]-[[ScoC]]

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

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=2FXA 2FXA]

* '''UniProt:''' [http://www.uniprot.org/uniprot/P11065 P11065]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU09990]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''scoC'' {{PubMed|3131303}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''
** expressed upon transition into the stationary phase ([[AbrB]]) {{PubMed|2504584}}

* '''Regulatory mechanism:'''
** [[AbrB]]: transcription activation {{PubMed|2504584}}
** [[SenS]]: positive regulation {{PubMed|16321961}}
** [[SalA]]: negative regulation {{PubMed|15126467}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:''' for expression, purification in E. coli with N-terminal His-tag, pRSETA available in Gerth lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>3131303,16923912,1906467,10383984,16321961,14629015,1907636,15126467,2504584, 15104138, 19118355 19801406 19898538 20382764 </pubmed>

[[Category:Protein-coding genes]]

ComFC

2011-09-06T20:31:13Z

Nobse: /* Biological materials */

* '''Description:''' late competence gene 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''comFC''
|-
|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''' || compentence
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 26 kDa, 8.851
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 687 bp, 229 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yvyF]]'', ''[[comFB]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB15562]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:comFC_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|[[genetic competence]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU35450

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/comFABC-yvyF-flgM-yvyG-flgKL.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10397]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

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

* '''Protein family:''' comF/gntX 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]]:'''

* '''[[Localization]]:'''
** localizes to one or both cell poles {{PubMed|21278288}}

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P39147 P39147]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU35450]

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

=== Additional information===

=Expression and regulation=
* '''Operon:''' ''[[comFA]]-[[comFB]]-[[comFC]]-[[yvyF]]-[[flgM]]-[[yvyG]]-[[flgK]]-[[flgL]]'' {{PubMed|8412657}}

* '''[[Sigma factor]]:''' ''[[comFA]]'': [[SigA]] {{PubMed|8412657}}

* '''Regulation:'''

* '''Regulatory mechanism:'''
** [[ComK]]: transcription activation {{PubMed|8412657}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:''' for expression, purification in E. coli with N-terminal His-tag, pRSETA available in Gerth lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>11814663,8412657,21278288, </pubmed>

[[Category:Protein-coding genes]]

ComK

2011-09-06T20:27:44Z

Nobse: /* Biological materials */

* '''Description:''' competence transcription factor (CTF) 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''comK''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || competence transcription factor (CTF)
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of competence and DNA uptake
|-
|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/ComK ComK]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/gene_regulation_nucleotides.html Nucleotides (regulation)], [http://subtiwiki.uni-goettingen.de/wiki/index.php/Protein_secretion Protein secretion]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 22 kDa, 7.669
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 576 bp, 192 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yhzC]]'', ''[[yhxD]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB12882]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:comK_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|[[genetic competence]]}},
{{SubtiWiki category|[[transcription factors and their control]]}}

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

=== Basic information ===

* '''Locus tag:''' BSU10420

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11059]

=== 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]]:'''
** [[MecA]]-[[ComK]] [http://www.ncbi.nlm.nih.gov/sites/entrez/10447896 PubMed]

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

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P40396 P40396]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU10420]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''comK'' {{PubMed|8196543}}

* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|8196543}}

* '''Regulation:'''
** repressed by casamino acids [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed]
** repressed by [[Rok]] [http://www.ncbi.nlm.nih.gov/sites/entrez/11849533 PubMed]
** repressed during growth in the presence of branched chain amino acids ([[CodY]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/8830686 PubMed]
** repressed during logrithmic growth ([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/12586407 PubMed]

* '''Regulatory mechanism:'''
** [[Rok]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/11849533 PubMed]
** [[CodY]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/8830686 PubMed]
** [[AbrB]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/12586407 PubMed]
** [[ComK]]: transcription activation (autoregulation) {{PubMed|8083168}}
** [[DegU]] (non-phosphorylated form): transcription activation {{PubMed|8083168}}

* '''Additional information:'''
** degraded by [[ClpC]]-[[ClpP]] (with [[MecA]] as adaptor protein) {{PubMed|9890793}}

=Biological materials =

* '''Mutant:'''

* '''Expression vector:''' for expression, purification in E. coli with N-terminal His-tag, pRSETA available in Gerth lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

[[Oscar Kuipers]], University of Groningen, The Netherlands
[http://molgen.biol.rug.nl/molgen/index.php Homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed>19995980 12576575 </pubmed>
==The [[ComK regulon]]==
<pubmed>11948146,11918817,</pubmed>
==Original Publications==
<pubmed>8878039,11849533,17569828,9335269,8016067,17493123,17560370,12586407,11814663,9108277,9890793,9585513,15819619,10908654,9000055,7783616,7746142,8830686,12586407, 10447896, 12028382, 8016067, 10361283, 11703662, 12107147, 17581123, 8016066 17493123,16391071,16436435 12270822 15598897 20300532 12761164 12036071 21085679 </pubmed>

[[Category:Protein-coding genes]]

RecA

2011-09-06T20:25:04Z

Nobse: /* Biological materials */

* '''Description:''' multifunctional protein involved in homologous recombination and DNA repair ([[LexA]]-autocleavage) 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''recA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''recE ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || multifunctional protein involved in homologous recombination and DNA repair ([[LexA]]-autocleavage)
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || [[DNA repair/ recombination]]
|-
|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/RecA RecA]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 37 kDa, 4.883
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1041 bp, 347 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[cinA]]'', ''[[pbpX]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13567]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:recA_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|[[DNA repair/ recombination]]}},
{{SubtiWiki category|[[genetic competence]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU16940

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10721]

=== Additional information===
RecA filaments are dismantled from DNA by [[PcrA]] {{PubMed|20723756}}

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''
** RecA stimulates ssDNA phosphorylase activity of [[PnpA]] {{PubMed|21859751}}

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

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

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:''' phosphorylated on Ser-2 {{PubMed|20509597}}

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

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

* '''[[SubtInteract|Interactions]]:'''
** [[RecA]]-[[DprA]] {{PubMed|17803906,17630974}}
** [[RecA]]-[[RecU]] {{PubMed|16024744}}
** [[RecA]]-[[ComFA]] {{PubMed|17630974}}
** [[SsbB]]-[[RecA]] {{PubMed|17630974}}

* '''[[Localization]]:'''
** cytoplasm (according to Swiss-Prot)
** Nucleoid (Mid-cell) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]
** localizes to one cell pole {{PubMed|21278288}}

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P16971 P16971]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU16940]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''recA'' {{PubMed|7690748}}

* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|7690748}}

* '''Regulation:'''
** induced by DNA damage ([[LexA]]) {{PubMed|8226626,11555642,16267290}}
** induced by conditions that trigger development of genetic competence ([[ComK]]) {{PubMed|7690748}}

* '''Regulatory mechanism:'''
** [[LexA]]: transcription repression {{PubMed|8226626,11555642,16267290}}
** [[ComK]]: transcription activation {{PubMed|7690748}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' IRN444 (cat), available in the [[Stülke]] lab

* '''Expression vector:''' for expression, purification in E. coli with N-terminal His-tag, pRSETA available in Gerth lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

[[Peter Graumann]], Freiburg University, Germany [http://www.biologie.uni-freiburg.de/data/bio2/graumann/index.htm homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 14527291 12045091 10506835 14616075 21517913</pubmed>

==Original publications==
'''Additional publications:''' {{PubMed|21859751}}
<pubmed>11814663,16061691,19060143,17803906,16024744,17630974,8226626,11555642, 16479537 19730681 7690748 17229847,16267290 20509597 20723756 17449621 21278288</pubmed>

[[Category:Protein-coding genes]]

SsbB

2011-09-06T20:23:59Z

Nobse: /* Biological materials */

* '''Description:''' single-strand DNA-binding protein 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''ssbB''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ywpH ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || single-strand DNA-binding protein
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || required for efficient genetic transformation
|-
|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/SsbB SsbB]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 12 kDa, 6.876
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 339 bp, 113 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[glcR]]'', ''[[ywpG]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB15648]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:ywpH_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|[[DNA replication]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU36310

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12502]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

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

* '''Protein family:'''

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

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:''' phosphorylated on Tyr by [[PtkA]], dephosphorylated by [[PtpZ]] {{PubMed|16549871}}

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

* '''Effectors of protein activity:''' phosphorylation strongly increases DNA-binding activity {{PubMed|16549871}}

* '''[[SubtInteract|Interactions]]:'''
** [[SsbB]]-[[ComFA]] {{PubMed|17630974}}
** [[SsbB]]-[[CoiA]] {{PubMed|17630974}}
** [[SsbB]]-[[DprA]] {{PubMed|17630974}}
** [[SsbB]]-[[RecA]] {{PubMed|17630974}}

* '''[[Localization]]:''' localizes to cell poles in competent cells [http://www.ncbi.nlm.nih.gov/pubmed/16009133 PubMed]

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/C0SPB6 C0SPB6]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU36310]

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

=== Additional information===

=Expression and regulation=
* '''Operon:''' ''[[ssbB]]-[[glcR]]'' {{PubMed|14762004}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''
** expressed at the onset of stationary phase {{PubMed|14762004}}

* '''Regulatory mechanism:'''
** [[ComK]]: transcription activation {{PubMed|11948146}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:''' for expression, purification in E. coli with N-terminal His-tag, pRSETA available in Gerth lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>16009133,17630974,,16549871,14762004 11948146</pubmed>

[[Category:Protein-coding genes]]

YwlE

2011-09-06T20:22:12Z

Nobse: /* Biological materials */

* '''Description:''' [[protein kinases and phosphatases|protein tyrosine phosphatase]], [[protein kinases and phosphatases|protein arginine phosphatase]] 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''ywlE''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ipc-31d ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || [[protein kinases and phosphatases|protein tyrosine phosphatase]], [[protein kinases and phosphatases|protein arginine phosphatase]]
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || dephosphorylation of [[McsB]]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 16 kDa, 6.681
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 450 bp, 150 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ywlF]]'', ''[[ywlD]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB15710]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:ywlE_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|[[protein modification]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU36930

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10941]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' Protein tyrosine phosphate + H2O = protein tyrosine + phosphate (according to Swiss-Prot)

* '''Protein family:''' low molecular weight phosphotyrosine [[protein kinases and phosphatases|protein phosphatase]] family (according to Swiss-Prot)

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

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

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

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

* '''[[SubtInteract|Interactions]]:'''
** [[McsB]]-[[YwlE]] (dephosphorylation of [[McsB]]) {{PubMed|20852588,21622759}}

* '''[[Localization]]:''' weak oligomerization, results in inactivation of YwlE {{PubMed|19678837}}

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1ZGG 1ZGG]

* '''UniProt:''' [http://www.uniprot.org/uniprot/P39155 P39155]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU36930]

* '''E.C. number:''' [http://www.expasy.org/enzyme/3.1.3.48 3.1.3.48]

=== Additional information===

=Expression and regulation=

* '''Operon:'''

* '''[[Sigma factor]]:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' ''ywlE::aphA3'' availbale from the Gerth lab
''ywlE::tet'' availbale from the Gerth lab
''ywlE::spec'' availbale from the Gerth lab

* '''Expression vector:''' for expression, purification in E. coli with N-terminal His-tag, pRSETA available in Gerth lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:''' available in Gerth lab

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>16452434,15866923,15995210,19678837 21622759, 20852588 </pubmed>

[[Category:Protein-coding genes]]

CtsR

2011-09-06T19:55:24Z

Nobse: /* Biological materials */

* '''Description:''' transcription repressor of class III heat shock genes (''[[clpC]]'' operon, ''[[clpE]]'', ''[[clpP]]'') 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''ctsR''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yacG ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || transcription repressor
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of protein degradation
|-
|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/CtsR CtsR]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Regulatory function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/stress_response.html Stress], [http://subtiwiki.uni-goettingen.de/pathways/phosphorelay.html Phosphorelay]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 17 kDa, 9.261
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 462 bp, 154 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rrnW-5S]]'', ''[[mcsA]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB11859]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:ctsR_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|[[proteolysis]]}},
{{SubtiWiki category|[[transcription factors and their control]]}},
{{SubtiWiki category|[[general stress proteins (controlled by SigB)]]}},
{{SubtiWiki category|[[heat shock proteins]]}},
{{SubtiWiki category|[[phosphoproteins]]}}

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

=== Basic information ===

* '''Locus tag:''' BSU00830

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ctsR-mcsAB-clpC-radA-yacK.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10145]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

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

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

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

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''
** phosphorylation of a tyrosine residue by [[McsB]] [http://www.ncbi.nlm.nih.gov/sites/entrez/14984053 PubMed]
** recently, it was reported that CtsR is phosphorylated by [[McsB]] on Arg-62 rather than on a tyrosine residue [http://www.ncbi.nlm.nih.gov/sites/entrez/19498169 PubMed]

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

* '''Effectors of protein activity:'''
** CtsR is inactivated by heat, heat sensing requires Gly-64 {{PubMed|20852588}}
** non-phosphorylated [[McsB]] targets CtsR for degradation {{PubMed|20852588}}
** regulated proteolysis by [[ClpP]]/[[ClpC]] {{PubMed|11179229,16163393,17380125}}

* '''[[SubtInteract|Interactions]]:'''
** [[McsA]]-[[McsB]]-[[CtsR]]
** [[CtsR]]-[[ClpP]]/[[ClpC]] (degradation of [[CtsR]]) {{PubMed|11179229,16163393,17380125}}

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

=== Database entries ===

* '''Structure:''' [http://www.pdb.org/pdb/explore/explore.do?structureId=3H0D 3H0D] (complex with a 26bp DNA duplex, from ''Geobacillus stearothermophilus'') {{PubMed|19498169}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/P37568 P37568]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU00830]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[ctsR]]-[[mcsA]]-[[mcsB]]-[[clpC]]-[[radA]]-[[disA]]'' [http://www.ncbi.nlm.nih.gov/pubmed/8793870 PubMed]

* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/pubmed/8793870 PubMed], [[SigB]] [http://www.ncbi.nlm.nih.gov/pubmed/8793870 PubMed1] [http://www.ncbi.nlm.nih.gov/pubmed/11544224 PubMed2]

* '''Regulation:'''
** induced by stress ([[SigB]]) [http://www.ncbi.nlm.nih.gov/pubmed/11544224 PubMed]
** repressed at low temperatures ([[CtsR]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/9987115 PubMed]

* '''Regulatory mechanism:'''
** [[CtsR]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/9987115 PubMed]

* '''Additional information:''' the mRNA is very stable (half-life > 15 min) [http://www.ncbi.nlm.nih.gov/sites/entrez/12884008 PubMed]

=Biological materials =

* '''Mutant:''' ''ctsR::aphA3'' availbale from the Gerth lab
ctsRG65P::spec available from the Gerth lab

* '''Expression vector:''' for expression, purification in E. coli with N-terminal His-tag, pRSETA available in Gerth lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:''' available in Gerth lab

=Labs working on this gene/protein=

=Your additional remarks=

=References=
==Reviews==
<pubmed>14984053 21078442 </pubmed>

==Original publications==
'''Additional publications:''' {{PubMed|17380125,16163393,19498169}}
<pubmed>8793870, 9987115,12923084,11717291,16788169,11069659, 9852015,12884008,8195092,9987115,11544224 9852015, 11179229, 8793870 , 12884008 21208299 20852588 </pubmed>
[[Category:Protein-coding genes]]

McsA

2011-09-06T19:52:09Z

Nobse: /* Biological materials */

* '''Description:''' modulator of [[CtsR]]-dependent repression, McsA activates kinase activity of [[McsB]] 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''mcsA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yacH ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || activator of [[McsB]] kinase activity
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of [[CtsR]] activity
|-
|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/McsA McsA]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/stress_response.html Stress]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 20 kDa, 6.624
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 555 bp, 185 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ctsR]]'', ''[[mcsB]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB11860]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:mcsA_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|[[sporulation proteins]]}},
{{SubtiWiki category|[[general stress proteins (controlled by SigB)]]}},
{{SubtiWiki category|[[heat shock proteins]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU00840

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ctsR-mcsAB-clpC-radA-yacK.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10146]

=== 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]]:'''
** [[McsA]]-[[McsB]]-[[CtsR]], [[McsA]]-[[McsB]]

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

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P37569 P37569]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU00840]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[ctsR]]-[[mcsA]]-[[mcsB]]-[[clpC]]-[[radA]]-[[disA]]'' [http://www.ncbi.nlm.nih.gov/pubmed/8793870 PubMed]

* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/pubmed/8793870 PubMed], [[SigB]] [http://www.ncbi.nlm.nih.gov/pubmed/8793870 PubMed1] [http://www.ncbi.nlm.nih.gov/pubmed/11544224 PubMed2], [[SigF]] {{PubMed|16497325}}

* '''Regulation:'''
** expressed early during sporulation in the forespore ([[SigF]]) {{PubMed|16497325}}
** induced by stress ([[SigB]]) [http://www.ncbi.nlm.nih.gov/pubmed/11544224 PubMed]
** induced by heat ([[CtsR]]) [http://www.ncbi.nlm.nih.gov/pubmed/9987115 PubMed]

* '''Regulatory mechanism:'''
** [[CtsR]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/9987115 PubMed]

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' ''mcsA::aphA3'' available from the Gerth lab

* '''Expression vector:''' for expression, purification in E. coli with N-terminal His-tag, pRSETA available in Gerth lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:''' available in Gerth lab

=Labs working on this gene/protein=

=Your additional remarks=

=References=
'''Additional publications:''' {{PubMed|16163393}}
<pubmed>12923084,8793870,11179229,9987115, 16497325,19226326,9987115,11544224, </pubmed>

[[Category:Protein-coding genes]]

McsB

2011-09-06T19:48:47Z

Nobse: /* Biological materials */

* '''Description:''' adaptor protein, protein arginine kinase, modulator of [[CtsR]]-dependent repression 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''mcsB''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yacI ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || protein arginine kinase
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of [[CtsR]] activity
|-
|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/McsB McsB]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/stress_response.html Stress]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 40 kDa, 5.068
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1089 bp, 363 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[mcsA]]'', ''[[clpC]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB11861]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:mcsB_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|[[protein modification]]}},
{{SubtiWiki category|[[transcription factors and their control]]}},
{{SubtiWiki category|[[sporulation proteins]]}},
{{SubtiWiki category|[[general stress proteins (controlled by SigB)]]}},
{{SubtiWiki category|[[heat shock proteins]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU00850

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ctsR-mcsAB-clpC-radA-yacK.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10147]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' targets non-functional CtsR for degradation by [[ClpP]]/[[ClpC]] {{PubMed|20852588}}

* '''Protein family:''' ATP:guanido phosphotransferase family (according to Swiss-Prot)

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

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''
** autophosphorylation on specific arginine residues {{PubMed|20852588,21622759}}, dephosphorylation by [[YwlE]] {{PubMed|20852588,21622759}}
** autophosphorylation stimulates McsB activity as adaptor protein for [[ClpC]] {{PubMed|21622759}}

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

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

* '''[[SubtInteract|Interactions]]:'''
** [[McsA]]-[[McsB]]-[[CtsR]], [[McsB]]-[[CtsR]] {{PubMed|20852588}}, [[McsA]]-[[McsB]]
** [[McsB]]-[[YwlE]] {{PubMed|20852588}}
** [[McsB]]-[[ClpP]]/[[ClpC]] (rapid degradation of phosphorylated McsB) {{PubMed|20852588}}

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

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P37570 P37570]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU00850]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[ctsR]]-[[mcsA]]-[[mcsB]]-[[clpC]]-[[radA]]-[[disA]]'' [http://www.ncbi.nlm.nih.gov/pubmed/8793870 PubMed]

* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/pubmed/8793870 PubMed], [[SigB]] [http://www.ncbi.nlm.nih.gov/pubmed/8793870 PubMed1] [http://www.ncbi.nlm.nih.gov/pubmed/11544224 PubMed2], [[SigF]] {{PubMed|16497325}}

* '''Regulation:'''
** expressed early during sporulation in the forespore ([[SigF]]) {{PubMed|16497325}}
** induced by stress ([[SigB]]) [http://www.ncbi.nlm.nih.gov/pubmed/11544224 PubMed]
** induced by heat ([[CtsR]]) [http://www.ncbi.nlm.nih.gov/pubmed/9987115 PubMed]

* '''Regulatory mechanism:'''
** [[CtsR]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/9987115 PubMed]

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' ''mcsB::aphA3'' availbale from the Gerth lab
mcsBC167S::spec available from the Gerth lab

* '''Expression vector:''' for expression, purification in E. coli with N-terminal His-tag, pRSETA available in Gerth lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:''' available in Gerth lab

=Labs working on this gene/protein=

=Your additional remarks=

=References=

==Reviews==
{{PubMed|19609260}}
==Original Publications==
<pubmed> 11179229,9987115, 8793870, 16497325,19226326, 9987115, 11544224, 20852588 21622759</pubmed>
'''Additional publications:''' {{PubMed|17380125,16163393,19498169}}
[[Category:Protein-coding genes]]

McsB

2011-09-06T19:46:25Z

Nobse: /* Biological materials */

* '''Description:''' adaptor protein, protein arginine kinase, modulator of [[CtsR]]-dependent repression 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''mcsB''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yacI ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || protein arginine kinase
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of [[CtsR]] activity
|-
|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/McsB McsB]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/stress_response.html Stress]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 40 kDa, 5.068
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1089 bp, 363 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[mcsA]]'', ''[[clpC]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB11861]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:mcsB_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|[[protein modification]]}},
{{SubtiWiki category|[[transcription factors and their control]]}},
{{SubtiWiki category|[[sporulation proteins]]}},
{{SubtiWiki category|[[general stress proteins (controlled by SigB)]]}},
{{SubtiWiki category|[[heat shock proteins]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU00850

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ctsR-mcsAB-clpC-radA-yacK.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10147]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' targets non-functional CtsR for degradation by [[ClpP]]/[[ClpC]] {{PubMed|20852588}}

* '''Protein family:''' ATP:guanido phosphotransferase family (according to Swiss-Prot)

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

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''
** autophosphorylation on specific arginine residues {{PubMed|20852588,21622759}}, dephosphorylation by [[YwlE]] {{PubMed|20852588,21622759}}
** autophosphorylation stimulates McsB activity as adaptor protein for [[ClpC]] {{PubMed|21622759}}

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

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

* '''[[SubtInteract|Interactions]]:'''
** [[McsA]]-[[McsB]]-[[CtsR]], [[McsB]]-[[CtsR]] {{PubMed|20852588}}, [[McsA]]-[[McsB]]
** [[McsB]]-[[YwlE]] {{PubMed|20852588}}
** [[McsB]]-[[ClpP]]/[[ClpC]] (rapid degradation of phosphorylated McsB) {{PubMed|20852588}}

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

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P37570 P37570]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU00850]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[ctsR]]-[[mcsA]]-[[mcsB]]-[[clpC]]-[[radA]]-[[disA]]'' [http://www.ncbi.nlm.nih.gov/pubmed/8793870 PubMed]

* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/pubmed/8793870 PubMed], [[SigB]] [http://www.ncbi.nlm.nih.gov/pubmed/8793870 PubMed1] [http://www.ncbi.nlm.nih.gov/pubmed/11544224 PubMed2], [[SigF]] {{PubMed|16497325}}

* '''Regulation:'''
** expressed early during sporulation in the forespore ([[SigF]]) {{PubMed|16497325}}
** induced by stress ([[SigB]]) [http://www.ncbi.nlm.nih.gov/pubmed/11544224 PubMed]
** induced by heat ([[CtsR]]) [http://www.ncbi.nlm.nih.gov/pubmed/9987115 PubMed]

* '''Regulatory mechanism:'''
** [[CtsR]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/9987115 PubMed]

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' ''mcsB::aphA3'' availbale from the Gerth lab

* '''Expression vector:''' for expression, purification in E. coli with N-terminal His-tag, pRSETA available in Gerth lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:''' available in Gerth lab

=Labs working on this gene/protein=

=Your additional remarks=

=References=

==Reviews==
{{PubMed|19609260}}
==Original Publications==
<pubmed> 11179229,9987115, 8793870, 16497325,19226326, 9987115, 11544224, 20852588 21622759</pubmed>
'''Additional publications:''' {{PubMed|17380125,16163393,19498169}}
[[Category:Protein-coding genes]]

McsB

2011-09-06T19:31:52Z

Nobse: /* Extended information on the protein */

* '''Description:''' adaptor protein, protein arginine kinase, modulator of [[CtsR]]-dependent repression 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''mcsB''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yacI ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || protein arginine kinase
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of [[CtsR]] activity
|-
|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/McsB McsB]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/stress_response.html Stress]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 40 kDa, 5.068
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1089 bp, 363 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[mcsA]]'', ''[[clpC]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB11861]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:mcsB_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|[[protein modification]]}},
{{SubtiWiki category|[[transcription factors and their control]]}},
{{SubtiWiki category|[[sporulation proteins]]}},
{{SubtiWiki category|[[general stress proteins (controlled by SigB)]]}},
{{SubtiWiki category|[[heat shock proteins]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU00850

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ctsR-mcsAB-clpC-radA-yacK.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10147]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' targets non-functional CtsR for degradation by [[ClpP]]/[[ClpC]] {{PubMed|20852588}}

* '''Protein family:''' ATP:guanido phosphotransferase family (according to Swiss-Prot)

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

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''
** autophosphorylation on specific arginine residues {{PubMed|20852588,21622759}}, dephosphorylation by [[YwlE]] {{PubMed|20852588,21622759}}
** autophosphorylation stimulates McsB activity as adaptor protein for [[ClpC]] {{PubMed|21622759}}

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

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

* '''[[SubtInteract|Interactions]]:'''
** [[McsA]]-[[McsB]]-[[CtsR]], [[McsB]]-[[CtsR]] {{PubMed|20852588}}, [[McsA]]-[[McsB]]
** [[McsB]]-[[YwlE]] {{PubMed|20852588}}
** [[McsB]]-[[ClpP]]/[[ClpC]] (rapid degradation of phosphorylated McsB) {{PubMed|20852588}}

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

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P37570 P37570]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU00850]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[ctsR]]-[[mcsA]]-[[mcsB]]-[[clpC]]-[[radA]]-[[disA]]'' [http://www.ncbi.nlm.nih.gov/pubmed/8793870 PubMed]

* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/pubmed/8793870 PubMed], [[SigB]] [http://www.ncbi.nlm.nih.gov/pubmed/8793870 PubMed1] [http://www.ncbi.nlm.nih.gov/pubmed/11544224 PubMed2], [[SigF]] {{PubMed|16497325}}

* '''Regulation:'''
** expressed early during sporulation in the forespore ([[SigF]]) {{PubMed|16497325}}
** induced by stress ([[SigB]]) [http://www.ncbi.nlm.nih.gov/pubmed/11544224 PubMed]
** induced by heat ([[CtsR]]) [http://www.ncbi.nlm.nih.gov/pubmed/9987115 PubMed]

* '''Regulatory mechanism:'''
** [[CtsR]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/9987115 PubMed]

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

==Reviews==
{{PubMed|19609260}}
==Original Publications==
<pubmed> 11179229,9987115, 8793870, 16497325,19226326, 9987115, 11544224, 20852588 21622759</pubmed>
'''Additional publications:''' {{PubMed|17380125,16163393,19498169}}
[[Category:Protein-coding genes]]