Difference between revisions of "Sandbox"

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Line 4: Line 4:
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
−
|''liaS''
+
|''ytsB''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yvqE''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''bceS ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
Line 14: Line 14:
 
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
 
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 40 kDa, 7.333  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 38 kDa, 5.939  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1080 bp, 360 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1002 bp, 334 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[liaR]]'', ''[[liaF]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[bceA]]'', ''[[bceR]]''
 
|-
 
|-
−
|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/ytsB_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/yvqE_protein.txt Protein sequence]'''
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/ytsB_protein.txt Protein sequence]'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:yvqE_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:ytsB_context.gif]]
 
|-
 
|-
 
|}
 
|}
Line 41: Line 41:
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yvqIHGFEC.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/bceRS.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG14134]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13919]
  
 
=== Additional information===
 
=== Additional information===
Line 62: Line 62:
 
* '''Kinetic information:'''
 
* '''Kinetic information:'''
  
−
* '''Domains:''' two transmembrane segments, C-terminal histidine phosphotransferase domain
+
* '''Domains:'''  
  
−
* '''Modification:'''
+
* '''Modification:''' two transmembrane segments, C-terminal histidine phosphotransferase domain
  
 
* '''Cofactor(s):'''
 
* '''Cofactor(s):'''
Line 88: Line 88:
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[liaI]]-[[liaH]]-[[liaG]]-[[liaF]]-[[liaS]]-[[liaR]]''
+
* '''Operon:'''  
−
''[[liaS]]-[[liaR]]''
 
  
−
* '''Sigma factor:''' [[SigA]]
+
* '''Sigma factor:'''  
  
−
* '''Regulation:''' ''[[liaI]]'': induced by bacitracin ([[LiaR]])
+
* '''Regulation:'''  
−
''[[liaS]]'': constitutive
 
  
−
* '''Regulatory mechanism:''' [[LiaR]]: transcription activation
+
* '''Regulatory mechanism:'''  
  
−
* '''Additional information:'''
+
* '''Additional information:'''  
  
 
=Biological materials =
 
=Biological materials =
Line 115: Line 113:
  
 
=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]
 
[[Thorsten Mascher]], Karlsruhe Institute of Technology, Germany [http://microbial-stress.iab.kit.edu/ link]
  
Line 124: Line 119:
 
=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 ytsB
Synonyms bceS
Essential no
Product
Function unknown
MW, pI 38 kDa, 5.939
Gene length, protein length 1002 bp, 334 aa
Immediate neighbours bceA, bceR
Gene sequence (+200bp) Protein sequence
Genetic context
YtsB 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:
  • Modification: two transmembrane segments, C-terminal histidine phosphotransferase domain
  • Cofactor(s):
  • Effectors of protein activity:
  • Interactions:
  • Localization:

Database entries

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

Additional information

Expression and regulation

  • Operon:
  • Sigma factor:
  • Regulation:
  • Regulatory mechanism:
  • Additional information:

Biological materials

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

Labs working on this gene/protein

Thorsten Mascher, Karlsruhe Institute of Technology, Germany link

Your additional remarks

References

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