Difference between revisions of "Sandbox"

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* '''Description:''' DNA transport machinery <br/><br/>
+
* '''Description:''' mediates post-transcriptional control of comE operon expression <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'''
−
|''comGG''
+
|''comN ''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yrzD''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Product''' || DNA transport machinery
+
|style="background:#ABCDEF;" align="center"| '''Product''' || post-transcriptional regulator of comE expression
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || competence, DNA uptake
+
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of competence and DNA uptake
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 14 kDa, 9.195  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 11 kDa, 4.622  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 372 bp, 124 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 294 bp, 98 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqzE]]'', ''[[comGF]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[secDF]]'', ''[[spoVB]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14398&#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:CAB14726&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:comGG_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:yrzD_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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=== Basic information ===
 
=== Basic information ===
  
−
* '''Locus tag:''' BSU24670
+
* '''Locus tag:''' BSU27660
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
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=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/comGABCDEFG-yqzE.html]
+
* '''DBTBS entry:''' no entry
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10489]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13814]
  
 
=== Additional information===
 
=== Additional information===
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=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:'''  
+
* '''Catalyzed reaction/ biological activity:''' post-transcriptional control of ''[[comEA]]'' expression  [http://www.ncbi.nlm.nih.gov/sites/entrez/19028902 PubMed]
  
 
* '''Protein family:'''
 
* '''Protein family:'''
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* '''Interactions:'''
 
* '''Interactions:'''
  
−
* '''Localization:''' cell surface [http://www.ncbi.nlm.nih.gov/pubmed/9723928 PubMed]
+
* '''Localization:''' cell membrane (according to Swiss-Prot)
  
 
=== Database entries ===
 
=== Database entries ===
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* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P25959 P25959]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/O32049 O32049]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU24670]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU27660]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
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=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[comGA]]-[[comGB]]-[[comGC]]-[[comGD]]-[[comGE]]-[[comGF]]-[[comGG]]'' [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed] 
+
* '''Operon:'''  
  
−
* '''[[Sigma factor]]:''' [[SigA]]
+
* '''[[Sigma factor]]:'''  
  
−
* '''Regulation:''' repressed by casamino acids [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed] 
+
* '''Regulation:'''  
  
 
* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
  
−
* '''Additional information:'''
+
* '''Additional information:'''  
  
 
=Biological materials =
 
=Biological materials =
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=References=
 
=References=
  
−
<pubmed>12107147, </pubmed>
+
<pubmed>19028902, </pubmed>
−
# M&#228;der et al. (2002) Transcriptome and Proteome Analysis of ''Bacillus subtilis'' Gene Expression Modulated by Amino Acid Availability. ''J. Bacteriol'' '''184:''' 1844288-4295 [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed]
+
# Ogura, M. and T. Tanaka (2009) The ''Bacillus subtilis'' Late Competence Operon ''comE'' Is Transcriptionally Regulated by ''yutB'' and under Post-Transcription Initiation Control by ''comN'' (''yrzD'') ''J. Bacteriol.'' '''191:''' 949-958. [http://www.ncbi.nlm.nih.gov/sites/entrez/19028902 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 13:12, 8 June 2009

  • Description: mediates post-transcriptional control of comE operon expression

Gene name comN
Synonyms yrzD
Essential no
Product post-transcriptional regulator of comE expression
Function regulation of competence and DNA uptake
MW, pI 11 kDa, 4.622
Gene length, protein length 294 bp, 98 aa
Immediate neighbours secDF, spoVB
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
YrzD context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Locus tag: BSU27660

Phenotypes of a mutant

Database entries

  • DBTBS entry: no entry
  • SubtiList entry: [1]

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: post-transcriptional control of comEA expression PubMed
  • Protein family:
  • Paralogous protein(s):

Extended information on the protein

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

Database entries

  • Structure:
  • KEGG entry: [2]
  • E.C. number:

Additional information

Expression and regulation

  • Operon:
  • Regulation:
  • 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

Mitsuo Ogura, Teruo Tanaka
The Bacillus subtilis late competence operon comE is transcriptionally regulated by yutB and under post-transcription initiation control by comN (yrzD).
J Bacteriol: 2009, 191(3);949-58
[PubMed:19028902] [WorldCat.org] [DOI] (I p)

  1. Ogura, M. and T. Tanaka (2009) The Bacillus subtilis Late Competence Operon comE Is Transcriptionally Regulated by yutB and under Post-Transcription Initiation Control by comN (yrzD) J. Bacteriol. 191: 949-958. PubMed
  2. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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