Difference between revisions of "Sandbox"

From SubtiWiki
Jump to: navigation, search
Line 1: Line 1:
−
* '''Description:''' thiol-disulfide oxidoreductase <br/><br/>
+
* '''Description:''' RNA polymerase sporulation mother cell-specific (early) [[sigma factor]] SigE <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'''
−
|''bdbA''
+
|''sigE''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yolI ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''spoIIGB ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || thiol-disulfide oxidoreductase
+
|style="background:#ABCDEF;" align="center"| '''Product''' || RNA polymerase sporulation mother cell-specific <br/>(early) [[sigma factor]] SigE
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || trans-acting protein folding catalyst, protein secretion
+
|style="background:#ABCDEF;" align="center"|'''Function''' || transcription of sporulation genes (early mother cell)
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 16 kDa, 8.337  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 27 kDa, 9.212  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 411 bp, 137 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 717 bp, 239 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yolJ]]'', ''[[sunT]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[spoIIGA]]'', ''[[sigG]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14064&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB13406&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:bdbA_context.gif]]
+
|-
 +
|-
 +
|colspan="2" | '''Genetic context''' <br/> [[Image:sigE_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 29: Line 31:
 
__TOC__
 
__TOC__
  
−
<br/><br/>
+
<br/><br/><br/>
  
 
=The gene=
 
=The gene=
Line 35: Line 37:
 
=== Basic information ===
 
=== Basic information ===
  
−
* '''Locus tag:''' BSU21460
+
* '''Locus tag:''' BSU15320
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
Line 41: Line 43:
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sunT-bdbA-yolJ-bdbB.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/spoIIGA-sigE-sigG.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13585]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10235]
  
 
=== Additional information===
 
=== Additional information===
Line 52: Line 54:
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:'''  
+
* '''Catalyzed reaction/ biological activity:''' RNA polymerase [[sigma factor]], active in the mother cell
  
−
* '''Protein family:''' thioredoxin family (according to Swiss-Prot)
+
* '''Protein family:''' sigma-70 factor family (according to Swiss-Prot)
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
 +
 +
=== Genes controlled by SigE ===
 +
 +
''[[dacB]], [[pbpI]], [[spoVD]]'', ''[[phoB]]-[[ydhF]]'', ''[[asnO]]'', ''[[bdbD]]-[[bdbC]]'', ''[[bofA]]'', ''[[cotE]]'', ''[[ctaE]]'', ''[[yaaH]]'', ''[[ybaK]]-[[cwlD]], [[sqhC]]-[[sodF]]''
  
 
=== Extended information on the protein ===
 
=== Extended information on the protein ===
Line 70: Line 76:
 
* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
−
* '''Interactions:'''
+
* '''Interactions:''' [[SpoIIGA]]-[[SigE]] (Processing)
  
 
* '''Localization:'''
 
* '''Localization:'''
Line 78: Line 84:
 
* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P68569 P68569]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P06222 P06222]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU21460]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU15320]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
Line 88: Line 94:
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[sunT]]-[[bdbA]]-[[yolJ]]-[[bdbB]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/16306698 PubMed]
+
* '''Operon:''' ''[[spoIIGA]]-[[sigE]]-[[sigG]]''
  
−
* '''[[Sigma factor]]:'''  
+
* '''[[Sigma factor]]:''' [[SigA]]
  
−
* '''Regulation:'''  
+
* '''Regulation:''' expressed early during sporulation ([[Spo0A]])
  
−
* '''Regulatory mechanism:''' activated by [[YvrHb]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16306698 PubMed]
+
* '''Regulatory mechanism:''' activated by [[Spo0A]], repression by [[SinR]]
  
 
* '''Additional information:'''
 
* '''Additional information:'''
Line 113: Line 119:
  
 
=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
 +
 +
* [[Bill Haldenwang]], San Antonio, USA
 +
* [[Charles Moran]], Emory University, NC, USA [http://www.microbiology.emory.edu/moran_c.html homepage]
  
 
=Your additional remarks=
 
=Your additional remarks=

Revision as of 13:13, 11 June 2009

  • Description: RNA polymerase sporulation mother cell-specific (early) sigma factor SigE

Gene name sigE
Synonyms spoIIGB
Essential no
Product RNA polymerase sporulation mother cell-specific
(early) sigma factor SigE
Function transcription of sporulation genes (early mother cell)
MW, pI 27 kDa, 9.212
Gene length, protein length 717 bp, 239 aa
Immediate neighbours spoIIGA, sigG
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
SigE context.gif
This image was kindly provided by SubtiList




The gene

Basic information

  • Locus tag: BSU15320

Phenotypes of a mutant

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: RNA polymerase sigma factor, active in the mother cell
  • Protein family: sigma-70 factor family (according to Swiss-Prot)
  • Paralogous protein(s):

Genes controlled by SigE

dacB, pbpI, spoVD, phoB-ydhF, asnO, bdbD-bdbC, bofA, cotE, ctaE, yaaH, ybaK-cwlD, sqhC-sodF

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
  • Localization:

Database entries

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

Additional information

Expression and regulation

  • Regulation: expressed early during sporulation (Spo0A)
  • Regulatory mechanism: activated by Spo0A, repression by SinR
  • 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. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
Retrieved from "http://134.76.20.203/wiki//index.php?title=Sandbox&oldid=90937"