Difference between revisions of "Sandbox"

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−
* '''Description:''' endo-beta-1,3-1,4 glucanase <br/><br/>
+
* '''Description:''' trigger enzyme: sucrose-specific phosphotransferase system, EIIBC component (low affinity) <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''
+
|''sacX''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''bgl, licS ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ipa-14r, sacS ''
 
|-
 
|-
 
|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''' || trigger enzyme: sucrose-specific phosphotransferase system,
 +
EIIBC component (low affinity)
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || lichenan degradation
+
|style="background:#ABCDEF;" align="center"|'''Function''' || sucrose uptake and phosphorylation, control of [[SacY]] activity
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 27 kDa, 6.482  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 48 kDa, 9.346  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 726 bp, 242 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1377 bp, 459 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[citH]]'', ''[[licT]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[epr]]'', ''[[sacY]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15943&#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:CAB15867&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:bglS_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:sacX_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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__TOC__
 
__TOC__
  
−
<br/><br/>
+
<br/><br/><br/><br/>
  
 
=The gene=
 
=The gene=
Line 41: Line 42:
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/licT-bglS.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sacXY.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10476]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10560]
  
 
=== Additional information===
 
=== Additional information===
Line 54: Line 55:
 
* '''Catalyzed reaction/ biological activity:'''  
 
* '''Catalyzed reaction/ biological activity:'''  
  
−
* '''Protein family:'''
+
* '''Protein family:''' PTS permease, sucrose permease (Scr) family [http://www.ncbi.nlm.nih.gov/pubmed/10627040 PubMed]
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
Line 72: Line 73:
 
* '''Interactions:'''
 
* '''Interactions:'''
  
−
* '''Localization:''' secreted <small>(according to Swiss-Prot) <\small> extracellular (signal peptide) [http://www.ncbi.nlm.nih.gov/pubmed/18957862 PubMed],  extracellular
+
* '''Localization:''' cell membrane <small>(according to Swiss-Prot) <\small>
  
 
=== Database entries ===
 
=== Database entries ===
Line 80: 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+BSU38410]
  
−
* '''E.C. number:''' 3.2.1.73
+
* '''E.C. number:'''
  
 
=== Additional information===
 
=== Additional information===
Line 88: Line 89:
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[licT]]-[[bglS]]'', ''[[bglS]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/8606172 PubMed]
+
* '''[[Sigma factor]]:''' [[SigA]]
  
−
* '''[[Sigma factor]]:''' [[SigA]]
+
* '''Regulation:''' induction by sucrose (at high concentration)
  
−
* '''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]
+
* '''Regulatory mechanism:''' induction by [[SacY]]-dependent RNA switch (transcriptional antitermination)
−
* '''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:'''
 
* '''Additional information:'''
Line 117: Line 117:
 
=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]
+
# Reizer et al. (1999) Novel phosphotransferase system genes revealed by genome analysis - the complete complement of PTS proteins encoded within the genome of ''Bacillus subtilis''. ''Microbiology'' '''145:''' 3419-3429 [http://www.ncbi.nlm.nih.gov/pubmed/10627040 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]
+
# Crutz AM, Steinmetz M, Aymerich S, Richter R, Le Coq D (1990) Induction of levansucrase in Bacillus subtilis: an antitermination mechanism negatively controlled by the phosphotransferase system. J Bacteriol 172:1043-1050. [http://www.ncbi.nlm.nih.gov/sites/entrez/2105292 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 12:19, 30 April 2009

  • Description: trigger enzyme: sucrose-specific phosphotransferase system, EIIBC component (low affinity)

Gene name sacX
Synonyms ipa-14r, sacS
Essential no
Product trigger enzyme: sucrose-specific phosphotransferase system,

EIIBC component (low affinity)

Function sucrose uptake and phosphorylation, control of SacY activity
MW, pI 48 kDa, 9.346
Gene length, protein length 1377 bp, 459 aa
Immediate neighbours epr, sacY
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
SacX 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: PTS permease, sucrose permease (Scr) family PubMed
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
  • Interactions:
  • Localization: cell membrane (according to Swiss-Prot) <\small>

Database entries

  • Structure:
  • Swiss prot entry:
  • KEGG entry: [3]
  • E.C. number:

Additional information

Expression and regulation

  • Regulation: induction by sucrose (at high concentration)
  • Regulatory mechanism: induction by SacY-dependent RNA switch (transcriptional antitermination)
  • 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. Reizer et al. (1999) Novel phosphotransferase system genes revealed by genome analysis - the complete complement of PTS proteins encoded within the genome of Bacillus subtilis. Microbiology 145: 3419-3429 PubMed
  2. Crutz AM, Steinmetz M, Aymerich S, Richter R, Le Coq D (1990) Induction of levansucrase in Bacillus subtilis: an antitermination mechanism negatively controlled by the phosphotransferase system. J Bacteriol 172:1043-1050. PubMed
  3. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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