Difference between revisions of "Sandbox"

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−
* '''Description:''' transcription repressor of the pur operon <br/><br/>
+
* '''Description:''' cell-division initiation protein (septum formation) <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'''
−
|''purR''
+
|''ftsZ''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yabI ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ts-1 ''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
+
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || transcription repressor of the pur operon
+
|style="background:#ABCDEF;" align="center"| '''Product''' || cell-division initiation protein (septum formation)
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of purine biosynthesis
+
|style="background:#ABCDEF;" align="center"|'''Function''' || formation of Z-ring
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 31 kDa, 5.771  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 40 kDa, 4.814  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 855 bp, 285 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1146 bp, 382 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ispE]]'', ''[[yabJ]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ftsA]]'', ''[[bpr]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB11823&#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:CAB13402&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:purR_context.gif]]
+
|-
 +
|-
 +
|colspan="2" | '''Genetic context''' <br/> [[Image:ftsZ_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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===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/purR-yabJ.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ftsAZ.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10110]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10232]
  
 
=== Additional information===
 
=== Additional information===
Line 52: Line 56:
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Biological activity:''' transcriptional repressor of purine biosynthetic operons
+
* '''Catalyzed reaction/ biological activity:'''  
  
 
* '''Protein family:'''
 
* '''Protein family:'''
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* '''Cofactor(s):'''
 
* '''Cofactor(s):'''
  
−
* '''Effectors of protein activity:''' PRPP acts as inducer, binding results in release of PurR from the operator [http://www.ncbi.nlm.nih.gov/sites/entrez/10919400 PubMed]
+
* '''Effectors of protein activity:'''
  
−
* '''Interactions:'''  
+
* '''Interactions:'''
  
 
* '''Localization:'''
 
* '''Localization:'''
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=== Database entries ===
 
=== Database entries ===
  
−
* '''Structure:''' 1P4A (complex with PRPP) [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?uid=25670 NCBI] [http://www.ncbi.nlm.nih.gov/sites/entrez/12837783 PubMed]
+
* '''Structure:'''
  
 
* '''Swiss prot entry:'''
 
* '''Swiss prot entry:'''
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU00470]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU15290]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
  
 
=== Additional information===
 
=== Additional information===
−
 
−
requires [[YabJ]] for ''in vivo'' activity
 
  
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[purR]]-[[yabJ]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/7638212 PubMed]
+
* '''Operon:'''  
  
 
* '''[[Sigma factor]]:'''  
 
* '''[[Sigma factor]]:'''  
  
−
* '''Regulation:''' negative autoregulation [http://www.ncbi.nlm.nih.gov/sites/entrez/7638212 PubMed]
+
* '''Regulation:'''  
  
−
* '''Regulatory mechanism:''' repression by [[PurR]] [http://www.ncbi.nlm.nih.gov/sites/entrez/7638212 PubMed]
+
* '''Regulatory mechanism:'''  
  
 
* '''Additional information:'''  
 
* '''Additional information:'''  
Line 110: Line 112:
 
* '''GFP fusion:'''
 
* '''GFP fusion:'''
  
−
* '''two-hybrid system:'''  
+
* '''two-hybrid system:'''
  
−
* '''Antibody:'''
+
* '''Antibody:''' available in the [[Jeff Errington]] lab
  
 
=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
 +
 +
[[Imrich Barak]], Slovak Academy of Science, Bratislava, Slovakia [http://imb.savba.sk/~barak/ homepage]
  
 
=Your additional remarks=
 
=Your additional remarks=
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=References=
 
=References=
  
−
# Weng et al. (1995) Identification of the ''Bacillus subtilis pur'' operon repressor. ''Proc. Natl. Acad. Sci. USA'' '''92:''' 7455-7459. [http://www.ncbi.nlm.nih.gov/sites/entrez/7638212 PubMed]
 
−
# Weng & Zalkin (2000) Mutations in the ''Bacillus subtilis'' purine repressor that perturb PRPP effector function ''in vitro'' and ''in vivo''.''Currr. Microbiol.'' '''41:''' 56-59. [http://www.ncbi.nlm.nih.gov/sites/entrez/10919400 PubMed]
 
−
# Sinha et al. (2003) The purine repressor of ''Bacillus subtilis'': a novel combination of domains adapted for transcription regulation.''J. Bacteriol.'' '''185:''' 4087-4098. [http://www.ncbi.nlm.nih.gov/sites/entrez/12837783 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 09:20, 27 April 2009

  • Description: cell-division initiation protein (septum formation)

Gene name ftsZ
Synonyms ts-1
Essential yes PubMed
Product cell-division initiation protein (septum formation)
Function formation of Z-ring
MW, pI 40 kDa, 4.814
Gene length, protein length 1146 bp, 382 aa
Immediate neighbours ftsA, bpr
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
FtsZ context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Coordinates:

Phenotypes of a mutant

essential PubMed

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:
  • Interactions:
  • 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:

Labs working on this gene/protein

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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