Difference between revisions of "Sandbox"

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−
* '''Description:''' phosphotransacetylase <br/><br/>
+
* '''Description:''' phosphotyrosin protein phosphatase, antagonist to PtkA <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'''
−
|''pta''
+
|''ptpZ''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ipa-88d, ywfJ ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ywqE ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || phosphotransacetylase
+
|style="background:#ABCDEF;" align="center"| '''Product''' || phosphotyrosin protein phosphatase, <br/>antagonist to PtkA
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || overflow metabolism
+
|style="background:#ABCDEF;" align="center"|'''Function''' || protein tyrosine dephosphorylation
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 34 kDa, 4.649  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 28 kDa, 6.66  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 969 bp, 323 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 762 bp, 254 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[cysL]]'', ''[[ywfI]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ywqF]]'', ''[[ptkA]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15793&#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:CAB15641&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:pta_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:ywqE_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/>
  
 
=The gene=
 
=The gene=
Line 35: Line 35:
 
=== Basic information ===
 
=== Basic information ===
  
−
* '''Locus tag:''' BSU37660
+
* '''Locus tag:''' BSU36240
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
Line 41: Line 41:
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/pta.html]
+
* '''DBTBS entry:''' no entry
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10634]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12509]
  
 
=== Additional information===
 
=== Additional information===
Line 52: Line 52:
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:''' Acetyl-CoA + phosphate = CoA + acetyl phosphate (according to Swiss-Prot)  
+
* '''Catalyzed reaction/ biological activity:''' Protein tyrosine phosphate + H<sub>2</sub>O = protein tyrosine + phosphate (according to Swiss-Prot)  
  
−
* '''Protein family:''' phosphate acetyltransferase and butyryltransferase family (according to Swiss-Prot)
+
* '''Protein family:''' cpsB/capC family (according to Swiss-Prot)
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
Line 64: Line 64:
 
* '''Domains:'''  
 
* '''Domains:'''  
  
−
* '''Modification:''' phosphorylation on (Ser-123 OR Thr-128 OR Ser-129) [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed]
+
* '''Modification:'''
  
 
* '''Cofactor(s):'''
 
* '''Cofactor(s):'''
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* '''Interactions:'''
 
* '''Interactions:'''
  
−
* '''Localization:''' cytoplasm (according to Swiss-Prot)
+
* '''Localization:'''
  
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1XCO 1XCO] (complex with acetylphosphate),  [http://www.rcsb.org/pdb/explore.do?structureId=1TD9 1TD9]
+
* '''Structure:'''
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P39646 P39646]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P96717 P96717]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU37660]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU36240]
  
−
* '''E.C. number:''' [http://www.expasy.org/enzyme/2.3.1.8 2.3.1.8]
+
* '''E.C. number:''' [http://www.expasy.org/enzyme/3.1.3.48 3.1.3.48]
  
 
=== Additional information===
 
=== Additional information===
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=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:'''  
+
* '''Operon:''' ''[[tkmA]]-[[ptkA]]-[[ptpZ]]-[[ywqF]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/12970183 PubMed]
  
 
* '''[[Sigma factor]]:'''  
 
* '''[[Sigma factor]]:'''  
  
−
* '''Regulation:''' expression activated by glucose (2.6 fold) (CcpA) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed] 
+
* '''Regulation:'''  
  
 
* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
Line 118: Line 118:
 
=References=
 
=References=
  
−
<pubmed>12850135 17218307 10559153 10423526, </pubmed>
+
<pubmed>12970183, </pubmed>
−
# Blencke et al. (2003) Transcriptional profiling of gene expression in response to glucose in ''Bacillus subtilis'': regulation of the central metabolic pathways. ''Metab Eng.'' '''5:''' 133-149 [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]
+
# Mijakovic I, Poncet S, Boël G, Mazé A, Gillet S, Decottignies P, Grangeasse C, Jamet E, Doublet P, Le Maréchal P, Deutscher J (2003) Transmembrane modulator-dependent bacterial tyrosine kinase activates UDP-glucose dehydrogenases. EMBO J 22:4709-4718. [http://www.ncbi.nlm.nih.gov/sites/entrez/12970183 PubMed]
−
# Macek et al. (2007) The serine/ threonine/ tyrosine phosphoproteome of the model  bacterium ''Bacillus subtilis''. Mol. Cell. Proteomics 6: 697-707  [http://www.ncbi.nlm.nih.gov/pubmed/17218307 PubMed]
 
−
# Presecan-Siedel E, Galinier A, Longin R, Deutscher J, Danchin A, Glaser P, Martin-Verstraete I (1999) The catabolite regulation of the pta gene as part of carbon flow pathways in ''Bacillus subtilis''. J Bacteriol 181:6889-6897. [http://www.ncbi.nlm.nih.gov/sites/entrez/10559153 PubMed]
 
−
# Shin BS, Choi SK, Park SH. 1999. Regulation of the ''Bacillus subtilis'' phosphotransacetylase gene. J. Biochem. 126:333-339. [http://www.ncbi.nlm.nih.gov/sites/entrez/10423526 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 13:30, 8 June 2009

  • Description: phosphotyrosin protein phosphatase, antagonist to PtkA

Gene name ptpZ
Synonyms ywqE
Essential no
Product phosphotyrosin protein phosphatase,
antagonist to PtkA
Function protein tyrosine dephosphorylation
MW, pI 28 kDa, 6.66
Gene length, protein length 762 bp, 254 aa
Immediate neighbours ywqF, ptkA
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
YwqE context.gif
This image was kindly provided by SubtiList




The gene

Basic information

  • Locus tag: BSU36240

Phenotypes of a mutant

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: Protein tyrosine phosphate + H2O = protein tyrosine + phosphate (according to Swiss-Prot)
  • Protein family: cpsB/capC 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: [2]

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

Ivan Mijakovic, Sandrine Poncet, Grégory Boël, Alain Mazé, Sylvie Gillet, Emmanuel Jamet, Paulette Decottignies, Christophe Grangeasse, Patricia Doublet, Pierre Le Maréchal, Josef Deutscher
Transmembrane modulator-dependent bacterial tyrosine kinase activates UDP-glucose dehydrogenases.
EMBO J: 2003, 22(18);4709-18
[PubMed:12970183] [WorldCat.org] [DOI] (P p)

  1. Mijakovic I, Poncet S, Boël G, Mazé A, Gillet S, Decottignies P, Grangeasse C, Jamet E, Doublet P, Le Maréchal P, Deutscher J (2003) Transmembrane modulator-dependent bacterial tyrosine kinase activates UDP-glucose dehydrogenases. EMBO J 22:4709-4718. PubMed
  2. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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