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''
+
|''yttP''
 
|-
 
|-
−
|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''' || 24 kDa, 6.706  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 726 bp, 242 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 621 bp, 207 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[citH]]'', ''[[licT]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[hisJ]]'', ''[[ytsP]]''
 
|-
 
|-
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/bglS_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/yttP_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/bglS_protein.txt Protein sequence]'''
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/yttP_protein.txt Protein sequence]'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:bglS_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:yttP_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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=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/licT-bglS.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yttP.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10476]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13927]
  
 
=== Additional information===
 
=== Additional information===
Line 73: Line 73:
 
* '''Interactions:'''
 
* '''Interactions:'''
  
−
* '''Localization:''' extracellular
+
* '''Localization:'''
  
 
=== Database entries ===
 
=== Database entries ===
Line 81: Line 81:
 
* '''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+BSU29630]
  
−
* '''E.C. number:''' 3.2.1.73
+
* '''E.C. number:'''
  
 
=== Additional information===
 
=== Additional information===
Line 89: Line 89:
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[licT]]-[[bglS]]'', ''[[bglS]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/8606172 PubMed]
+
* '''Operon:''' ''yttP''
  
−
* '''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:''' repressed by glucose (3.1-fold) ([[CcpA]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed],  induced by glucose(3-fold: [[CcpA]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/12850135 PubMed]
−
* '''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]
+
 
 +
* '''Regulatory mechanism:''' [[CcpA]]: transcription repression,  [[CcpA]]: mechanism unknown [http://www.ncbi.nlm.nih.gov/sites/entrez/12850135 PubMed]  
  
 
* '''Additional information:'''
 
* '''Additional information:'''
Line 100: Line 101:
 
=Biological materials =
 
=Biological materials =
  
−
* '''Mutant:'''
+
* '''Mutant:'''  
  
 
* '''Expression vector:'''
 
* '''Expression vector:'''
Line 119: Line 120:
  
 
# 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]
 
# 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]
−
 
+
# Blencke, H.-M., Homuth, G., Ludwig, H., Mäder, U., Hecker, M. & Stülke, J. (2003) Transcriptional profiling of gene expression in response to glucose in Bacillus subtilis: regulation of the central metabolic pathways. Metab. Engn. 5: 133-149. [http://www.ncbi.nlm.nih.gov/sites/entrez/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 10:01, 6 April 2009

  • Description: unknown

Gene name yttP
Synonyms
Essential no
Product unknown
Function unknown
MW, pI 24 kDa, 6.706
Gene length, protein length 621 bp, 207 aa
Immediate neighbours hisJ, ytsP
Gene sequence (+200bp) Protein sequence
Genetic context
YttP 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: yttP
  • Sigma factor:
  • Regulatory mechanism: CcpA: transcription repression, CcpA: mechanism unknown PubMed
  • 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. 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 PubMed
  2. Blencke, H.-M., Homuth, G., Ludwig, H., Mäder, U., Hecker, M. & Stülke, J. (2003) Transcriptional profiling of gene expression in response to glucose in Bacillus subtilis: regulation of the central metabolic pathways. Metab. Engn. 5: 133-149. PubMed
  3. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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