Difference between revisions of "Sandbox"

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−
* '''Description:''' may be involved in response to acid stress <br/><br/>
+
* '''Description:''' sensor kinase of the YvrG-YvrHb two-component system <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'''
−
|''yvrJ''
+
|''yvrG''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Essential''' || write here
+
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
+
|style="background:#ABCDEF;" align="center"| '''Product''' || two-component sensor histidine kinase
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
+
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation cell surface maintenance
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || xx,x kDa, y.yy
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 66 kDa, 9.518 
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || aaa bp, bbb amino acids
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1719 bp, 573 aa
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yvrI]]'', ''[[oxdC]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yvrE]]'', ''[[yvrHb]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAX52694&#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:CAB15311&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:yvrI_context.gif]]
+
|-
 +
|-
 +
|colspan="2" | '''Genetic context''' <br/> [[Image:yvrG_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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=== Basic information ===
 
=== Basic information ===
  
−
* '''Coordinates (CDS):'''
+
* '''Coordinates:'''
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
 +
 +
unusual autolysis and higher susceptibility to cell envelope antibiotics (bacitracin, aztreonam, cefepime, fosfomycin)  [http://www.ncbi.nlm.nih.gov/sites/entrez/16306698 PubMed]
  
 
=== Database entries ===
 
=== Database entries ===
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* '''DBTBS entry:''' no entry
 
* '''DBTBS entry:''' no entry
  
−
* '''SubtiList entry:''' no entry
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG14146]
  
 
=== Additional information===
 
=== Additional information===
  
−
This gene was only recently identified. [http://www.ncbi.nlm.nih.gov/sites/entrez/18573182 PubMed]
 
  
 
=The protein=
 
=The protein=
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=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:'''  
+
* '''Catalyzed reaction/ biological activity:''' phosphorylation of the [[YvrHb]] response regulator  [http://www.ncbi.nlm.nih.gov/sites/entrez/16306698 PubMed]
  
−
* '''Protein family:'''
+
* '''Protein family:'''  
  
−
* '''Paralogous protein(s):'''
+
* '''Paralogous protein(s):''' [[CssS]], [[YkoH]], [[KinE]], [[YclK]]
  
 
=== Extended information on the protein ===
 
=== Extended information on the protein ===
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* '''Kinetic information:'''
 
* '''Kinetic information:'''
  
−
* '''Domains:'''  
+
* '''Domains:''' two transmembrane segments, C-terminal histidine phosphotransferase domain
  
 
* '''Modification:'''
 
* '''Modification:'''
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* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
−
* '''Interactions:'''
+
* '''Interactions:''' YvrG-[[YvrHb]]  [http://www.ncbi.nlm.nih.gov/sites/entrez/16306698 PubMed]
  
 
* '''Localization:'''
 
* '''Localization:'''
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* '''Swiss prot entry:'''
 
* '''Swiss prot entry:'''
  
−
* '''KEGG entry:''' no entry
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU33210]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
Line 89: Line 92:
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[yvrJ]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/19047353 PubMed]
+
* '''Operon:'''  
  
−
* '''[[Sigma factor]]:''' [[YvrI]]-[[YvrHa]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19047353 PubMed]
+
* '''Sigma factor:'''  
  
−
* '''Regulation:''' induced by acidic growth conditions [http://www.ncbi.nlm.nih.gov/sites/entrez/19047353 PubMed]
+
* '''Regulation:'''  
  
 
* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
  
−
* '''Additional information:'''
+
* '''Additional information:'''  
  
 
=Biological materials =
 
=Biological materials =
Line 114: Line 117:
  
 
=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]
 
  
 
=Your additional remarks=
 
=Your additional remarks=
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=References=
 
=References=
  
−
# MacLellan et al. (2009) The YvrI alternative [[sigma factor]] is essential for acid stress induction of oxalate decarboxylase in ''Bacillus subtilis''. ''J. Bacteriol.'' '''191:''' 931-939. [http://www.ncbi.nlm.nih.gov/sites/entrez/19047353 PubMed]
+
# Serizawa M, Kodama K, Yamamoto H, Kobayashi K, Ogasawara N, Sekiguchi J. (2005) Functional analysis of the YvrGHb two-component system of ''Bacillus subtilis'': identification of the regulated genes by DNA microarray and northern blot analyses. ''Biosci. Biotechnol. Biochem.'' '''69:''' 2155-2169. [http://www.ncbi.nlm.nih.gov/sites/entrez/16306698 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 23:57, 16 April 2009

  • Description: sensor kinase of the YvrG-YvrHb two-component system

Gene name yvrG
Synonyms
Essential no
Product two-component sensor histidine kinase
Function regulation cell surface maintenance
MW, pI 66 kDa, 9.518
Gene length, protein length 1719 bp, 573 aa
Immediate neighbours yvrE, yvrHb
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
YvrG context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Coordinates:

Phenotypes of a mutant

unusual autolysis and higher susceptibility to cell envelope antibiotics (bacitracin, aztreonam, cefepime, fosfomycin) PubMed

Database entries

  • DBTBS entry: no entry
  • SubtiList entry: [1]

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: phosphorylation of the YvrHb response regulator PubMed
  • Protein family:

Extended information on the protein

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

Database entries

  • Structure:
  • Swiss prot entry:
  • KEGG entry: [2]
  • 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

Your additional remarks

References

  1. Serizawa M, Kodama K, Yamamoto H, Kobayashi K, Ogasawara N, Sekiguchi J. (2005) Functional analysis of the YvrGHb two-component system of Bacillus subtilis: identification of the regulated genes by DNA microarray and northern blot analyses. Biosci. Biotechnol. Biochem. 69: 2155-2169. PubMed
  2. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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