Difference between revisions of "Sandbox"

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−
* '''Description:''' regulator of [[SigI]] activity <br/><br/>
+
* '''Description:''' RNA polymerase sigma factor SigI <br/><br/>
  
 
{| align="right" border="1" cellpadding="2"  
 
{| align="right" border="1" cellpadding="2"  
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
−
|''rsgI ''
+
|''sigI''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ykrI''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ykoZ ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || anti-sigma factor
+
|style="background:#ABCDEF;" align="center"| '''Product''' || RNA polymerase sigma factor SigI
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || control of [[SigI]] activity
+
|style="background:#ABCDEF;" align="center"|'''Function''' || control of a class of heat shock genes
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 43 kDa, 4.517  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 29 kDa, 8.306  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1143 bp, 381 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 753 bp, 251 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[sigI]]'', ''[[sspD]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykoY]]'', ''[[rsgI]]''
 
|-
 
|-
 
|colspan="2" style="background:#FAF8CC;" align="center"|'''Hier soll was neues rein'''
 
|colspan="2" style="background:#FAF8CC;" align="center"|'''Hier soll was neues rein'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:ykrI_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:sigI_context.gif]]
 
  <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 
  <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 
|-
 
|-
Line 39: Line 39:
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
  
−
suppresses the growth defect of a ''[[mbl]]'' mutation [http://www.ncbi.nlm.nih.gov/sites/entrez/19114499 PubMed]
+
temperature-sensitive growth on agar plates [http://www.ncbi.nlm.nih.gov/sites/entrez/11157964 PubMed]
  
 
=== Database entries ===
 
=== Database entries ===
Line 45: Line 45:
 
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sigI-rsgI.html]
 
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sigI-rsgI.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13272]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13269]
  
 
=== Additional information===
 
=== Additional information===
Line 54: Line 54:
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:''' anti-sigma factor for [[SigI]] [http://www.ncbi.nlm.nih.gov/sites/entrez/17185538 PubMed]
+
* '''Catalyzed reaction/ biological activity:'''  
  
 
* '''Protein family:'''
 
* '''Protein family:'''
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
 +
 +
=== Members of the SigI regulon ===
 +
 +
''[[gsiB]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/11157964 PubMed], ''[[mreBH]], [[bcrC]]''  [http://www.ncbi.nlm.nih.gov/sites/entrez/18156261 PubMed]
  
 
=== Extended information on the protein ===
 
=== Extended information on the protein ===
Line 72: Line 76:
 
* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
−
* '''Interactions:''' [[RsgI]]-[[SigI]] [http://www.ncbi.nlm.nih.gov/sites/entrez/17185538 PubMed]
+
* '''Interactions:''' [[RsgI]]-[[SigI]], the interaction inhibits SigI activity [http://www.ncbi.nlm.nih.gov/sites/entrez/17185538 PubMed]
  
−
* '''Localization:''' membrane [http://www.ncbi.nlm.nih.gov/sites/entrez/17185538 PubMed]
+
* '''Localization:'''
  
 
=== Database entries ===
 
=== Database entries ===
Line 82: Line 86:
 
* '''Swiss prot entry:'''
 
* '''Swiss prot entry:'''
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU13460]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU13450]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
Line 90: Line 94:
 
=Expression and regulation=
 
=Expression and regulation=
  
 +
* '''Operon:'''
 
* '''Operon:''' ''[[sigI]]-[[rsgI]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/17185538 PubMed]
 
* '''Operon:''' ''[[sigI]]-[[rsgI]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/17185538 PubMed]
  
Line 121: Line 126:
  
 
# Asai K, Ootsuji T, Obata K, Matsumoto T, Fujita Y, Sadaie Y. (2007) Regulatory role of RsgI in ''sigI'' expression in ''Bacillus subtilis''. ''Microbiology'' '''153:''' 92-101. [http://www.ncbi.nlm.nih.gov/sites/entrez/17185538 PubMed]
 
# Asai K, Ootsuji T, Obata K, Matsumoto T, Fujita Y, Sadaie Y. (2007) Regulatory role of RsgI in ''sigI'' expression in ''Bacillus subtilis''. ''Microbiology'' '''153:''' 92-101. [http://www.ncbi.nlm.nih.gov/sites/entrez/17185538 PubMed]
−
# Schirner K, Errington J. (2009) Cell wall regulator {sigma}I specifically suppresses the lethal phenotype of mbl mutants in ''Bacillus subtilis''. ''J. Bacteriol.'' '''191:''' 1404-1413. [http://www.ncbi.nlm.nih.gov/sites/entrez/19114499 PubMed]
+
# Zuber, U., K. Drzewiecki, and M. Hecker (2001) Putative sigma factor SigI (YkoZ) of ''Bacillus subtilis'' is induced by heat shock ''J. Bacteriol.'' '''183:''' 1472-1475. [http://www.ncbi.nlm.nih.gov/sites/entrez/11157964 PubMed]
 +
# Tseng, C. L., and Shaw, G. C. (2008) Genetic evidence for the actin homolog gene ''mreBH'' and the bacitracin resistance gene ''bcrC'' as targets of the alternative sigma factor SigI of ''Bacillus subtilis''. ''J. Bacteriol.'' '''190:''' 1561-1567. [http://www.ncbi.nlm.nih.gov/sites/entrez/18156261 PubMed]
 
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
 
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]

Revision as of 20:10, 15 April 2009

  • Description: RNA polymerase sigma factor SigI

Gene name sigI
Synonyms ykoZ
Essential no
Product RNA polymerase sigma factor SigI
Function control of a class of heat shock genes
MW, pI 29 kDa, 8.306
Gene length, protein length 753 bp, 251 aa
Immediate neighbours ykoY, rsgI
Hier soll was neues rein
Genetic context
SigI context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Coordinates:

Phenotypes of a mutant

temperature-sensitive growth on agar plates PubMed

Database entries

  • DBTBS entry: [1]
  • SubtiList entry: [2]

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity:
  • Protein family:
  • Paralogous protein(s):

Members of the SigI regulon

gsiB PubMed, mreBH, bcrC PubMed

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
  • Interactions: RsgI-SigI, the interaction inhibits SigI activity PubMed
  • Localization:

Database entries

  • Structure:
  • Swiss prot entry:
  • KEGG entry: [3]
  • E.C. number:

Additional information

Expression and regulation

  • Regulation: induced by heat PubMed
  • Regulatory mechanism:
  • 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

  1. Asai K, Ootsuji T, Obata K, Matsumoto T, Fujita Y, Sadaie Y. (2007) Regulatory role of RsgI in sigI expression in Bacillus subtilis. Microbiology 153: 92-101. PubMed
  2. Zuber, U., K. Drzewiecki, and M. Hecker (2001) Putative sigma factor SigI (YkoZ) of Bacillus subtilis is induced by heat shock J. Bacteriol. 183: 1472-1475. PubMed
  3. Tseng, C. L., and Shaw, G. C. (2008) Genetic evidence for the actin homolog gene mreBH and the bacitracin resistance gene bcrC as targets of the alternative sigma factor SigI of Bacillus subtilis. J. Bacteriol. 190: 1561-1567. PubMed
  4. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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