Difference between revisions of "Sandbox"

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* '''Description:''' Sda is a checkpoint protein that is upregulated in response to replication stress [http://www.ncbi.nlm.nih.gov/sites/entrez?db=pubmed&cmd=DetailsSearch&term=11207367%5Buid%5D&log$=activity (Burkholder et al 2001, Cell)]. Sda inhibits the autokinase activity of [http://subtiwiki.uni-goettingen.de/wiki/index.php/KinA KinA] (and likely [http://subtiwiki.uni-goettingen.de/wiki/index.php/KinB KinB] as well). This in its turn results in reduced levels of [http://subtiwiki.uni-goettingen.de/wiki/index.php/Spo0A Spo0A~P]. Thus, replication stressed cells will not iniate sporulation<br/><br/> Sda is rapidly turned over by the [http://subtiwiki.uni-goettingen.de/wiki/index.php/ClpP ClpP/X] system because of some uncharged residues at its C-terminus [http://www.ncbi.nlm.nih.gov/sites/entrez?db=pubmed&cmd=DetailsSearch&term=16796683%5Buid%5D&log$=activity Ruvolo et al 2006, MolMic].
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* '''Description:''' two-component sensor kinase, initiation of sporulation <br/><br/>
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{| 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'''
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|''sda''
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|''kinB''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
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|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Product''' || developmental checkpoint protein
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|style="background:#ABCDEF;" align="center"| '''Product''' || two-component sensor kinase
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|-
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|style="background:#ABCDEF;" align="center"|'''Function''' || initiation of sporulation
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|-
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|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 47 kDa, 6.682 
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"|'''Function''' || mediates a developmental checkpoint coupling initiation of
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|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1287 bp, 429 aa
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sporulation (phosphorylation of Spo0A) to the function
 
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of replication initiation proteins
 
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 6 kDa, 5.605 
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[patB]]'', ''[[kapB]]''
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 156 bp, 52 aa
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|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15134&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yloV]]'', ''[[sdaAA]]''
 
 
|-
 
|-
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|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAE01463&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
 
|-
 
|-
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|colspan="2" | '''Genetic context''' <br/> [[Image:sda_context.gif]]
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|colspan="2" | '''Genetic context''' <br/> [[Image:kinB_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__
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<br/><br/>
 
<br/><br/>
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=The gene=
 
=The gene=
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===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
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*sporulates at a higher frequency
 
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*will sporulate in the presence of replication stress
 
  
 
=== Database entries ===
 
=== Database entries ===
  
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* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sda.html]
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* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/kinB-kapB.html]
  
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* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG14183]
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* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10745]
  
 
=== Additional information===
 
=== Additional information===
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* '''Swiss prot entry:'''
 
* '''Swiss prot entry:'''
  
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* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU25690]
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* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU31450]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
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=Expression and regulation=
 
=Expression and regulation=
  
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* '''Operon:'''  ''sda''
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* '''Operon:'''  
  
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* '''Sigma factor:''' [[SigA]]
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* '''[[Sigma factor]]:'''  
  
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* '''Regulation:''' [[DnaA]]
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* '''Regulation:'''  
  
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* '''Regulatory mechanism:''' Probably activated by [[DnaA]] under replication stress
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* '''Regulatory mechanism:'''  
  
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* '''Additional information:'''
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* '''Additional information:'''  
  
 
=Biological materials =
 
=Biological materials =

Revision as of 00:13, 28 April 2009

  • Description: two-component sensor kinase, initiation of sporulation

Gene name kinB
Synonyms
Essential no
Product two-component sensor kinase
Function initiation of sporulation
MW, pI 47 kDa, 6.682
Gene length, protein length 1287 bp, 429 aa
Immediate neighbours patB, kapB
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
KinB context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Coordinates:

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:
  • Localization:

Database entries

  • Structure:
  • Swiss prot entry:
  • KEGG entry: [3]
  • 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

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