Difference between revisions of "Sandbox"

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−
* '''Description:''' hypothetical protein  <br/><br/>
+
* '''Description:''' late competence operon required for DNA binding and uptake <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'''
−
|''coaX''
+
|''comEC''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yacB ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''comD ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || pantothenate kinase (EC 2.7.1.33)
+
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || coenyzmeA synthesis
+
|style="background:#ABCDEF;" align="center"|'''Function''' || compentence
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 26 kDa, 8.37  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 86 kDa, 6.964  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 699 bp, 233 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 2328 bp, 776 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ftsH]]'', ''[[yacC]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[holA]]'', ''[[comEB]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB11846&#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:CAB14499&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:yacB_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:comEC_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:''' BSU00700
+
* '''Locus tag:''' BSU25570
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
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=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' no entry
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/comEABC.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10133]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10482]
  
 
=== Additional information===
 
=== Additional information===
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=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:''' ATP + (R)-pantothenate = ADP + (R)-4'-phosphopantothenate (according to Swiss-Prot)
+
* '''Catalyzed reaction/ biological activity:'''  
  
−
* '''Protein family:''' type III pantothenate kinase family (according to Swiss-Prot)
+
* '''Protein family:'''
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
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* '''Interactions:'''
 
* '''Interactions:'''
  
−
* '''Localization:''' cytoplasm (according to Swiss-Prot)
+
* '''Localization:'''
  
 
=== Database entries ===
 
=== Database entries ===
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* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P37564 P37564]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P39695 P39695]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU00700]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU25570]
  
−
* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.1.33 2.7.1.33]
+
* '''E.C. number:'''
  
 
=== Additional information===
 
=== Additional information===
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=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:'''  
+
* '''Operon:''' ''[[comEA]]-[[comEB]]-[[comEC]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/7968523 PubMed1] [http://www.ncbi.nlm.nih.gov/sites/entrez/19028902 PubMed2]
  
−
* '''Sigma factor:'''  
+
* '''[[Sigma factor]]:'''  
  
 
* '''Regulation:'''  
 
* '''Regulation:'''  
  
−
* '''Regulatory mechanism:'''  
+
* '''Regulatory mechanism:''' post-translational control by [[ComN]], ''[[yutB]]'' is required for transcription [http://www.ncbi.nlm.nih.gov/sites/entrez/19028902 PubMed]
  
−
* '''Additional information:'''  
+
* '''Additional information:'''
  
 
=Biological materials =
 
=Biological materials =
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=References=
 
=References=
  
−
<pubmed>15795230, </pubmed>
+
<pubmed>19028902, </pubmed>
−
# Leisl A. Brand and Erick Strauss (2005) Characterization of a New Pantothenate Kinase Isoform from Helicobacter pylori ''J Biol Chem.'' '''May 27;280(21):''' 20185-8. [http://www.ncbi.nlm.nih.gov/sites/entrez/15795230 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 13:59, 8 June 2009

  • Description: late competence operon required for DNA binding and uptake

Gene name comEC
Synonyms comD
Essential no
Product unknown
Function compentence
MW, pI 86 kDa, 6.964
Gene length, protein length 2328 bp, 776 aa
Immediate neighbours holA, comEB
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
ComEC context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Locus tag: BSU25570

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:
  • Paralogous protein(s):

Extended information on the protein

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

Database entries

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

Additional information

Expression and regulation

  • Regulation:
  • Regulatory mechanism: post-translational control by ComN, yutB is required for transcription 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

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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