Difference between revisions of "Sandbox"

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−
* '''Description:''' endo-beta-1,3-1,4 glucanase <br/><br/>
+
* '''Description:''' unknown <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'''
−
|''bglS''
+
|''yxjB''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''bgl, licS ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || endo-beta-1,3-1,4 glucanase
+
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || lichenan degradation
+
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 27 kDa, 6.482  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 31 kDa, 8.134  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 726 bp, 242 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 846 bp, 282 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[citH]]'', ''[[licT]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yxjC]]'', ''[[nupG]]''
 
|-
 
|-
 
|colspan="2" style="background:#FAF8CC;" align="center"|'''Hier soll was neues rein'''
 
|colspan="2" style="background:#FAF8CC;" align="center"|'''Hier soll was neues rein'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:bglS_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:yxjB_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>
 
|-
 
|-
Line 41: Line 41:
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/licT-bglS.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yxjB.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10476]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11151]
  
 
=== Additional information===
 
=== Additional information===
Line 72: Line 72:
 
* '''Interactions:'''
 
* '''Interactions:'''
  
−
* '''Localization:''' extracellular (signal peptide) [http://www.ncbi.nlm.nih.gov/pubmed/18957862 PubMed],  extracellular
+
* '''Localization:'''
  
 
=== Database entries ===
 
=== Database entries ===
Line 80: Line 80:
 
* '''Swiss prot entry:'''
 
* '''Swiss prot entry:'''
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU39070]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU39010]
  
−
* '''E.C. number:''' 3.2.1.73
+
* '''E.C. number:'''
  
 
=== Additional information===
 
=== Additional information===
Line 88: Line 88:
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[licT]]-[[bglS]]'', ''[[bglS]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/8606172 PubMed]
+
* '''Operon:'''  
  
−
* '''[[Sigma factor]]:''' [[SigA]]
+
* '''[[Sigma factor]]:'''  
  
−
* '''Regulation:''' repressed by glucose (3.1-fold) ([[CcpA]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed],  expressed in the stationary phase (temporal activation), carbon catabolite repression ([[CcpA]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/8245831 PubMed], weak induction by ß-glucosides ([[LicT]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/8606172 PubMed]
+
* '''Regulation:'''  
−
* '''Regulatory mechanism:''' [[CcpA]]: transcription repression,  [[CcpA]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/8245831 PubMed], [[LicT]]: binding to an RNA switch results in transcriptional antitermination [http://www.ncbi.nlm.nih.gov/sites/entrez/8606172 PubMed]
 
  
−
* '''Additional information:'''
+
* '''Regulatory mechanism:'''
 +
 
 +
* '''Additional information:'''  
  
 
=Biological materials =
 
=Biological materials =
Line 117: Line 118:
 
=References=
 
=References=
  
−
# Voigt et al. (2009) Cell physiology and protein secretion of ''Bacillus licheniformis'' compared to ''Bacillus subtilis''. ''J Mol Microbiol Biotechnol.'' '''16:''' 53-68 [http://www.ncbi.nlm.nih.gov/pubmed/18957862 PubMed]
 
−
# Blencke et al. (2003) Transcriptional profiling of gene expression in response to glucose in ''Bacillus subtilis'': regulation of the central metabolic pathways. ''Metab Eng.'' '''5:''' 133-149 [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]
 
−
 
−
# Murphy ND, McConnell DJ, Cantwell BA. 1984. The DNA sequence of the gene and genetic control sites for the excreted ''Bacillus subtilis'' enzyme β-glucanase. Nucl. Acids Res. 12:5355-5367. [http://www.ncbi.nlm.nih.gov/sites/entrez/6087283 PubMed]
 
−
# Stülke, J., Hanschke, R. & Hecker, M. (1993) Temporal activation of ß-glucanase synthesis in Bacillus subtilis is mediated by the GTP pool. J. Gen. Microbiol. 139: 2041-2045. [http://www.ncbi.nlm.nih.gov/sites/entrez/8245830 PubMed]
 
−
# Krüger, S., Stülke, J. & Hecker, M. (1993) Carbon catabolite repression of ß-glucanase synthesis in Bacillus subtilis. J. Gen. Microbiol. 139: 2047-2054. [http://www.ncbi.nlm.nih.gov/sites/entrez/8245831 PubMed]
 
−
# Schnetz, K., Stülke, J., Gertz, S., Krüger, S., Krieg, M., Hecker, M. & Rak, B. (1996) LicT, a Bacillus subtilis transcriptional antiterminator protein of the BglG family. J. Bacteriol. 178: 1971-1979. [http://www.ncbi.nlm.nih.gov/sites/entrez/8606172 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 17:00, 15 April 2009

  • Description: unknown

Gene name yxjB
Synonyms
Essential no
Product unknown
Function unknown
MW, pI 31 kDa, 8.134
Gene length, protein length 846 bp, 282 aa
Immediate neighbours yxjC, nupG
Hier soll was neues rein
Genetic context
YxjB 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):

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:
  • Antibody:

Labs working on this gene/protein

Your additional remarks

References

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