Difference between revisions of "Sandbox"

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−
* '''Description:''' RNA polymerase sporulation mother cell-specific (early) [[sigma factor]] SigE <br/><br/>
+
* '''Description:''' D-alanine transfer from undecaprenol-phosphate to the poly(glycerophosphate) chain <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'''
−
|''sigE''
+
|''dltE''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''spoIIGB ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ipa-1r ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || RNA polymerase sporulation mother cell-specific <br/>(early) [[sigma factor]] SigE
+
|style="background:#ABCDEF;" align="center"| '''Product''' || D-alanine transfer from undecaprenol-phosphate <br/>to the poly(glycerophosphate) chain
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || transcription of sporulation genes (early mother cell)
+
|style="background:#ABCDEF;" align="center"|'''Function''' || biosynthesis of teichoic acid
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 27 kDa, 9.212  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 28 kDa, 5.095  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 717 bp, 239 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 756 bp, 252 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[spoIIGA]]'', ''[[sigG]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[dltD]]'', ''[[ywaA]]''
 
|-
 
|-
−
|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" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15880&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
 
|-
 
|-
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:sigE_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:dltE_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>
 
|-
 
|-
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__TOC__
 
__TOC__
  
−
<br/><br/><br/>
+
<br/><br/><br/><br/><br/>
  
 
=The gene=
 
=The gene=
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=== Basic information ===
 
=== Basic information ===
  
−
* '''Locus tag:''' BSU15320
+
* '''Locus tag:''' BSU38540
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
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=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/spoIIGA-sigE-sigG.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/dltABCDE.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10235]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10547]
  
 
=== Additional information===
 
=== Additional information===
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=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:''' RNA polymerase [[sigma factor]], active in the mother cell
+
* '''Catalyzed reaction/ biological activity:'''  
  
−
* '''Protein family:''' sigma-70 factor family (according to Swiss-Prot)
+
* '''Protein family:''' short-chain dehydrogenases/reductases (SDR) 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 ===
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* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
−
* '''Interactions:''' [[SpoIIGA]]-[[SigE]] (Processing)
+
* '''Interactions:'''
  
−
* '''Localization:'''
+
* '''Localization:''' cytoplasm (according to Swiss-Prot)
  
 
=== Database entries ===
 
=== Database entries ===
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* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P06222 P06222]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P39577 P39577]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU15320]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU38540]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
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=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[spoIIGA]]-[[sigE]]-[[sigG]]''
+
* '''Operon:''' ''[[dltA]]-[[dltB]]-[[dltC]]-[[dltD]]-[[dltE]]''
  
−
* '''[[Sigma factor]]:''' [[SigA]]
+
* '''[[Sigma factor]]:''' [[SigD]], [[SigX]]
  
−
* '''Regulation:''' expressed early during sporulation ([[Spo0A]])
+
* '''Regulation:'''  
  
−
* '''Regulatory mechanism:''' activated by [[Spo0A]], repression by [[SinR]]
+
* '''Regulatory mechanism:''' activated by [[YvrHb]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16306698 PubMed]
  
 
* '''Additional information:'''
 
* '''Additional information:'''
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=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 13:14, 11 June 2009

  • Description: D-alanine transfer from undecaprenol-phosphate to the poly(glycerophosphate) chain

Gene name dltE
Synonyms ipa-1r
Essential no
Product D-alanine transfer from undecaprenol-phosphate
to the poly(glycerophosphate) chain
Function biosynthesis of teichoic acid
MW, pI 28 kDa, 5.095
Gene length, protein length 756 bp, 252 aa
Immediate neighbours dltD, ywaA
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
DltE context.gif
This image was kindly provided by SubtiList






The gene

Basic information

  • Locus tag: BSU38540

Phenotypes of a mutant

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity:
  • Protein family: short-chain dehydrogenases/reductases (SDR) family (according to Swiss-Prot)
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
  • Interactions:
  • Localization: cytoplasm (according to Swiss-Prot)

Database entries

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

Additional information

Expression and regulation

  • Regulation:
  • 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
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