Difference between revisions of "Sandbox"

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* '''Description:''' valyl-tRNA synthetase <br/><br/>
+
* '''Description:''' probable pantothenate kinase <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'''
−
|''valS''
+
|''coaA''
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yqjS ''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
+
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || valyl-tRNA synthetase
+
|style="background:#ABCDEF;" align="center"| '''Product''' || probable pantothenate kinase
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || translation
+
|style="background:#ABCDEF;" align="center"|'''Function''' || biosynthesis of coenzyme A
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 101 kDa, 4.868  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 36 kDa, 5.894  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 2640 bp, 880 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 957 bp, 319 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[folC]]'', ''[[ysxE]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqjT]]'', ''[[dsdA]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14769&#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:CAB14308&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|-
+
|colspan="2" | '''Genetic context''' <br/> [[Image:coaA_context.gif]]
−
|-
 
−
|colspan="2" | '''Genetic context''' <br/> [[Image:valS_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:''' BSU28090
+
* '''Locus tag:''' BSU23760
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
−
 
−
essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
 
  
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/valS-folC.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yqjPQ-dsdA-coaA-yqjT.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10321]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11748]
  
 
=== Additional information===
 
=== Additional information===
Line 56: Line 52:
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:''' ATP + L-valine + tRNA(Val) = AMP + diphosphate + L-valyl-tRNA(Val) (according to Swiss-Prot)  
+
* '''Catalyzed reaction/ biological activity:''' ATP + (R)-pantothenate = ADP + (R)-4'-phosphopantothenate (according to Swiss-Prot)  
  
−
* '''Protein family:''' ValS type 1 subfamily (according to Swiss-Prot)
+
* '''Protein family:''' prokaryotic pantothenate kinase family (according to Swiss-Prot)
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
Line 82: Line 78:
 
* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/Q05873 Q05873]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P54556 P54556]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU28090]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU23760]
  
−
* '''E.C. number:''' [http://www.expasy.org/enzyme/6.1.1.9 6.1.1.9]
+
* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.1.33 2.7.1.33]
  
 
=== Additional information===
 
=== Additional information===
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=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:'''  
+
* '''Operon:''' ''[[yqjP]]-[[yqjQ]]-[[dsdA]]-[[coaA]]-[[yqjT]]''
  
 
* '''[[Sigma factor]]:'''  
 
* '''[[Sigma factor]]:'''  
Line 100: Line 96:
 
* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
  
−
* '''Additional information:'''  
+
* '''Additional information:'''
  
 
=Biological materials =
 
=Biological materials =
Line 122: Line 118:
 
=References=
 
=References=
  
 +
<pubmed>1328157,, </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 08:55, 13 June 2009

  • Description: probable pantothenate kinase

Gene name coaA
Synonyms yqjS
Essential no
Product probable pantothenate kinase
Function biosynthesis of coenzyme A
MW, pI 36 kDa, 5.894
Gene length, protein length 957 bp, 319 aa
Immediate neighbours yqjT, dsdA
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
CoaA context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Locus tag: BSU23760

Phenotypes of a mutant

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: ATP + (R)-pantothenate = ADP + (R)-4'-phosphopantothenate (according to Swiss-Prot)
  • Protein family: prokaryotic pantothenate kinase 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:

Database entries

  • Structure:
  • KEGG entry: [3]

Additional information

Expression and regulation

  • 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

W J Song, S Jackowski
Cloning, sequencing, and expression of the pantothenate kinase (coaA) gene of Escherichia coli.
J Bacteriol: 1992, 174(20);6411-7
[PubMed:1328157] [WorldCat.org] [DOI] (P p)

  1. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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