Difference between revisions of "Sandbox"

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* '''Description:''' protein tyrosine kinase <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'''
−
|''ptkA''
+
|''ptpZ''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ywqD ''
+
|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''' || protein tyrosine kinase
+
|style="background:#ABCDEF;" align="center"| '''Product''' || phosphotyrosin protein phosphatase, <br/>antagonist to PtkA
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || protein phosphorylation
+
|style="background:#ABCDEF;" align="center"|'''Function''' || protein tyrosine dephosphorylation
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 25 kDa, 9.628  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 28 kDa, 6.66  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 711 bp, 237 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 762 bp, 254 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ptpZ]]'', ''[[tkmA]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ywqF]]'', ''[[ptkA]]''
 
|-
 
|-
 
|colspan="2" style="background:#FAF8CC;" align="center"|'''Hier soll was neues rein'''
 
|colspan="2" style="background:#FAF8CC;" align="center"|'''Hier soll was neues rein'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:ywqD_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 38: Line 38:
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
−
 
−
Accumulation of extra chromosome equivalents [http://www.ncbi.nlm.nih.gov/sites/entrez/17367396 PubMed]
 
  
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ywqCD.html]
+
* '''DBTBS entry:''' no entry
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12508]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12509]
  
 
=== Additional information===
 
=== Additional information===
Line 54: Line 52:
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:''' autophosphorylation, phosphorylation of [[YwqF]], [[TuaD]], [[Ssb]], [[YwpH]]
+
* '''Catalyzed reaction/ biological activity:'''  
  
−
* '''Protein family:''' BY-kinase
+
* '''Protein family:'''
  
−
* '''Paralogous protein(s):''' [[EpsB]]
+
* '''Paralogous protein(s):'''
  
 
=== Extended information on the protein ===
 
=== Extended information on the protein ===
Line 64: Line 62:
 
* '''Kinetic information:'''
 
* '''Kinetic information:'''
  
−
* '''Domains:''' single BY-kinase domain
+
* '''Domains:'''  
  
−
* '''Modification:''' autophosphorylation at residues Y225, Y227 and Y228 (primary site)
+
* '''Modification:'''
  
−
* '''Cofactor(s):''' ATP
+
* '''Cofactor(s):'''
  
−
* '''Effectors of protein activity:''' [[TkmA]] - transmembrane modulator, activates PtkA autophosphorylation and substrate phosphorylation [http://www.ncbi.nlm.nih.gov/sites/entrez/12970183 PubMed]
+
* '''Effectors of protein activity:'''
  
−
* '''Interactions:''' [[PtkA]]-[[TkmA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12970183 PubMed]
+
* '''Interactions:'''
  
 
* '''Localization:'''
 
* '''Localization:'''
Line 78: Line 76:
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''Structure:''' [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=2VED 2VED] (CapB, the homolog in ''Staphylococcus aureus'')
+
* '''Structure:'''
  
 
* '''Swiss prot entry:'''
 
* '''Swiss prot entry:'''
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU36250]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU36240]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
Line 102: Line 100:
 
=Biological materials =
 
=Biological materials =
  
−
* '''Mutant:''' KO strain created with pMUTIN-2, available from [[Ivan Mijakovic]]
+
* '''Mutant:'''
  
−
* '''Expression vector:''' pQE-30, N-terminally 6xHis-tagged, available from [[Ivan Mijakovic]]
+
* '''Expression vector:'''
 
          
 
          
−
* '''lacZ fusion:''' in a KO strain created with pMUTIN-2, available from [[Ivan Mijakovic]]
+
* '''lacZ fusion:'''
  
−
* '''GFP fusion:''' CFP-fusion, available from [[Ivan Mijakovic]]
+
* '''GFP fusion:'''
  
 
* '''two-hybrid system:'''  
 
* '''two-hybrid system:'''  
Line 115: Line 113:
  
 
=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
−
[[Ivan Mijakovic]], Thiverval-Grignon, France
 
  
 
=Your additional remarks=
 
=Your additional remarks=
Line 122: Line 119:
  
 
# 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]
 
# 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]
−
# Mijakovic I, Petranovic D, Deutscher J (2004) How tyrosine phosphorylation affects the UDP-glucose dehydrogenase activity of Bacillus subtilis YwqF. J Mol Microbiol Biotechnol 8:19-25.  [http://www.ncbi.nlm.nih.gov/sites/entrez/15741737 PubMed]
+
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
−
# Mijakovic I, Musumeci L, Tautz L, Petranovic D, Edwards RA, Jensen PR, Mustelin T, Deutscher J, Bottini N (2005) In vitro characterization of the Bacillus subtilis protein tyrosine phosphatase YwqE. J Bacteriol 187(10):3384-3390 [http://www.ncbi.nlm.nih.gov/sites/entrez/15866923 PubMed]
 
−
# Mijakovic I, Petranovic D, Macek B, Cepo T, Mann M, Davies J, Jensen PR, Vujaklija D (2006) Bacterial single-stranded DNA-binding proteins are phosphorylated on tyrosine. Nucl Acids Res 34:1588-1596.  [http://www.ncbi.nlm.nih.gov/sites/entrez/16549871 PubMed]
 
−
# Petranovic D, Michelsen O, Zahradka K, Silva C, Petranovic M, Jensen PR, Mijakovic I (2007) Bacillus subtilis strain deficient for the protein-tyrosine kinase PtkA exhibits impaired DNA replication. Mol Microbiol 63:1797-1805. [http://www.ncbi.nlm.nih.gov/sites/entrez/17367396 PubMed]
 

Revision as of 17:25, 15 April 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
Hier soll was neues rein
Genetic context
YwqE context.gif
This image was kindly provided by SubtiList




The gene

Basic information

  • Coordinates:

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 family:
  • Paralogous protein(s):

Extended information on the protein

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

Database entries

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

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

  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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