Difference between revisions of "Sandbox"

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−
* '''Description:''' penicillin-binding protein 4A, D-alanyl-D-alanine carboxypeptidase <br/><br/>
+
* '''Description:''' two-component response regulator, initiation of sporulation <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'''
−
|''dacC''
+
|''spo0A''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''pbp ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''spo0C, spo0G, spoIIL, sof-1 ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || penicillin-binding protein 4A, <br/>D-alanyl-D-alanine carboxypeptidase
+
|style="background:#ABCDEF;" align="center"| '''Product''' || two-component response regulator
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || carboxypeptidase
+
|style="background:#ABCDEF;" align="center"|'''Function''' || initiation of sporulation
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 52 kDa, 5.413  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 29 kDa, 5.989  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1473 bp, 491 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 801 bp, 267 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ppsA]]'', ''[[yoxA]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqiG]]'', ''[[spoIVB]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB13718&#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:CAB14353&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:dacC_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:spo0A_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 41: Line 41:
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yoxA-dacC.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/spo0A.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10969]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10765]
  
 
=== Additional information===
 
=== Additional information===
Line 57: Line 57:
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
 +
 +
=== Genes controlled by Spo0A ===
 +
 +
* '''Activation by Spo0A:''' ''[[spoIIAA]]-[[spoIIAB]]-[[sigF]]'', ''[[spoIIE]]'',  ''[[spoIIGA]]-[[sigE]]-[[sigG]]''
 +
 +
* '''Repression by Spo0A:''' ''[[abrB]], [[kinA]], [[kinC]], [[spo0A]]'', ''[[metS]]''
  
 
=== Extended information on the protein ===
 
=== Extended information on the protein ===
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* '''Domains:'''  
 
* '''Domains:'''  
  
−
* '''Modification:'''
+
* '''Modification:''' receives phosphorylation from [[Spo0B]], dephosphorylation by [[Spo0E]]
  
 
* '''Cofactor(s):'''
 
* '''Cofactor(s):'''
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* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
−
* '''Interactions:'''
+
* '''Interactions:''' [[Spo0A]]-[[Spo0E]],  [[Spo0A]]-[[SigA]]
  
 
* '''Localization:'''
 
* '''Localization:'''
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=== Database entries ===
 
=== Database entries ===
  
−
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=2J9P 2J9P] (complex with a peptidoglycan mimetic peptide)
+
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1LQ1 1LQ1]
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P39844 P39844]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P06534 P06534]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU18350]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU24220]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
Line 113: Line 119:
  
 
=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
 +
 +
[[Tony Wilkinson]], York University, U.K. [http://www.york.ac.uk/depts/chem/staff/ajw.html homepage]
 +
 +
[[Imrich Barak]], Slovak Academy of Science, Bratislava, Slovakia [http://imb.savba.sk/~barak/ homepage]
  
 
=Your additional remarks=
 
=Your additional remarks=

Revision as of 16:30, 5 May 2009

  • Description: two-component response regulator, initiation of sporulation

Gene name spo0A
Synonyms spo0C, spo0G, spoIIL, sof-1
Essential no
Product two-component response regulator
Function initiation of sporulation
MW, pI 29 kDa, 5.989
Gene length, protein length 801 bp, 267 aa
Immediate neighbours yqiG, spoIVB
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
Spo0A 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):

Genes controlled by Spo0A

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification: receives phosphorylation from Spo0B, dephosphorylation by Spo0E
  • Cofactor(s):
  • Effectors of protein activity:
  • Localization:

Database entries

  • 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

Tony Wilkinson, York University, U.K. homepage

Imrich Barak, Slovak Academy of Science, Bratislava, Slovakia homepage

Your additional remarks

References

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