Difference between revisions of "Sandbox"

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|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
−
|''comP''
+
|''liaS''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yvqE''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || two-component sensor histidine kinase (EC 2.7.1.-)
+
|style="background:#ABCDEF;" align="center"| '''Product''' ||  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || involved in early competence
+
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 89 kDa, 7.997  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 40 kDa, 7.333  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 2307 bp, 769 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1080 bp, 360 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[comA]]'', ''[[comX]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[liaR]]'', ''[[liaF]]''
 
|-
 
|-
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/comP_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/yvqE_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/comP_protein.txt Protein sequence]'''
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/yvqE_protein.txt Protein sequence]'''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;color:#FF0000" align="center" | '''Caution: The sequence for this gene in SubtiList contains errors
+
|colspan="2" | '''Genetic context''' <br/> [[Image:yvqE_context.gif]]
−
|-
 
−
|colspan="2" | '''Genetic context''' <br/> [[Image:comP_context.gif]]
 
 
|-
 
|-
 
|}
 
|}
Line 43: Line 41:
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/comP.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yvqIHGFEC.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10380]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG14134]
  
 
=== Additional information===
 
=== Additional information===
Line 64: Line 62:
 
* '''Kinetic information:'''
 
* '''Kinetic information:'''
  
−
* '''Domains:'''  
+
* '''Domains:''' two transmembrane segments, C-terminal histidine phosphotransferase domain
  
 
* '''Modification:'''
 
* '''Modification:'''
Line 90: Line 88:
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:'''  
+
* '''Operon:''' ''[[liaI]]-[[liaH]]-[[liaG]]-[[liaF]]-[[liaS]]-[[liaR]]''
 +
''[[liaS]]-[[liaR]]''
  
−
* '''Sigma factor:'''  
+
* '''Sigma factor:''' [[SigA]]
  
−
* '''Regulation:'''  
+
* '''Regulation:''' ''[[liaI]]'': induced by bacitracin ([[LiaR]])
 +
''[[liaS]]'': constitutive
  
−
* '''Regulatory mechanism:'''  
+
* '''Regulatory mechanism:''' [[LiaR]]: transcription activation
  
−
* '''Additional information:'''  
+
* '''Additional information:'''
  
 
=Biological materials =
 
=Biological materials =
Line 115: Line 115:
  
 
=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
 +
 +
[[John Helmann]], Cornell University, USA [http://www.micro.cornell.edu/research/labs/helmann-lab/index.cfm Homepage]
 +
 +
[[Thorsten Mascher]], Karlsruhe Institute of Technology, Germany [http://microbial-stress.iab.kit.edu/ link]
  
 
=Your additional remarks=
 
=Your additional remarks=
Line 120: Line 124:
 
=References=
 
=References=
  
 +
# Jordan, S., A. Junker, J. D. Helmann, and T. Mascher. 2006. Regulation of LiaRS-dependent gene expression in Bacillus subtilis: identification of inhibitor proteins, regulator binding sites, and target genes of a conserved cell envelope stress-sensing two-component system. J. Bacteriol. 188: 5153-5166. [http://www.ncbi.nlm.nih.gov/sites/entrez/16816187 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 16:55, 9 March 2009

  • Description: write here

Gene name liaS
Synonyms yvqE
Essential no
Product
Function unknown
MW, pI 40 kDa, 7.333
Gene length, protein length 1080 bp, 360 aa
Immediate neighbours liaR, liaF
Gene sequence (+200bp) Protein sequence
Genetic context
YvqE context.gif



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: two transmembrane segments, C-terminal histidine phosphotransferase domain
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
  • Interactions:
  • Localization:

Database entries

  • Structure:
  • Swiss prot entry:
  • KEGG entry:
  • E.C. number:

Additional information

Expression and regulation

liaS-liaR

  • Regulation: liaI: induced by bacitracin (LiaR)

liaS: constitutive

  • Regulatory mechanism: LiaR: transcription activation
  • Additional information:

Biological materials

  • Mutant:
  • Expression vector:
  • lacZ fusion:
  • GFP fusion:
  • two-hybrid system:
  • Antibody:

Labs working on this gene/protein

John Helmann, Cornell University, USA Homepage

Thorsten Mascher, Karlsruhe Institute of Technology, Germany link

Your additional remarks

References

  1. Jordan, S., A. Junker, J. D. Helmann, and T. Mascher. 2006. Regulation of LiaRS-dependent gene expression in Bacillus subtilis: identification of inhibitor proteins, regulator binding sites, and target genes of a conserved cell envelope stress-sensing two-component system. J. Bacteriol. 188: 5153-5166. PubMed
  2. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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