Difference between revisions of "Sandbox"

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−
* '''Description:''' levansucrase <br/><br/>
+
* '''Description:''' transcriptional antiterminator for the sacP-sacA operon <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'''
−
|''sacB''
+
|''sacT''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ipa-47d ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || levansucrase
+
|style="background:#ABCDEF;" align="center"| '''Product''' || transcriptional antiterminator
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || utilization of sucrose, production of levan
+
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of sucrose utilization
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 52 kDa, 6.175  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 31 kDa, 5.587  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1419 bp, 473 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 828 bp, 276 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[pbpE]]'', ''[[levB]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ywcJ]]'', ''[[ywcI]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15450&#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:CAB15833&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:sacB_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:sacT_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 35: Line 35:
 
=== Basic information ===
 
=== Basic information ===
  
−
* '''Locus tag:''' BSU34450
+
* '''Locus tag:''' BSU38070
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
Line 41: Line 41:
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sacB-yveBA.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sacT.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10388]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10593]
  
 
=== Additional information===
 
=== Additional information===
Line 52: Line 52:
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:''' Sucrose + (6)-beta-D-fructofuranosyl-(2->)(n) alpha-D-glucopyranoside = glucose + (6)-beta-D-fructofuranosyl-(2->)(n+1) alpha-D-glucopyranoside (according to Swiss-Prot)  
+
* '''Catalyzed reaction/ biological activity:''' binding to the mRNA of the ''[[sacP]]-[[sacA]]'' operon, causes transcription antitermination (in presence of sucrose and absence of glucose)
  
−
* '''Protein family:''' glycosyl hydrolase 68 family (according to Swiss-Prot)
+
* '''Protein family:''' transcriptional antiterminator bglG family (according to Swiss-Prot) BglG family of antiterminators
  
−
* '''Paralogous protein(s):'''
+
* '''Paralogous protein(s):''' [[LicT]], [[SacY]], [[GlcT]]
  
 
=== Extended information on the protein ===
 
=== Extended information on the protein ===
Line 70: Line 70:
 
* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
−
* '''Interactions:'''
+
* '''Interactions:''' [[PtsH]]-[[SacT]]
  
−
* '''Localization:''' secreted (according to Swiss-Prot),  extracellular (signal peptide) [http://www.ncbi.nlm.nih.gov/pubmed/18957862 PubMed]
+
* '''Localization:'''
  
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1PT2 1PT2] (complex with sucrose),  [http://www.rcsb.org/pdb/explore.do?structureId=1OYG 1OYG]
+
* '''Structure:'''
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P05655 P05655]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P26212 P26212]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU34450]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU38070]
  
−
* '''E.C. number:''' [http://www.expasy.org/enzyme/2.4.1.10 2.4.1.10]
+
* '''E.C. number:'''
  
 
=== Additional information===
 
=== Additional information===
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* '''Operon:'''  
 
* '''Operon:'''  
  
−
* '''[[Sigma factor]]:''' [[SigA]]
+
* '''[[Sigma factor]]:'''  
  
−
* '''Regulation:''' induction by sucrose (at high concentration)
+
* '''Regulation:''' repressed by casamino acids [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed] 
  
−
* '''Regulatory mechanism:''' induction by [[SacY]]-dependent RNA switch (transcriptional antitermination), in addition activated by [[DegU]]-P
+
* '''Regulatory mechanism:'''  
  
−
* '''Additional information:'''
+
* '''Additional information:'''  
  
 
=Biological materials =
 
=Biological materials =
Line 118: Line 118:
 
=References=
 
=References=
  
−
<pubmed>18957862 2105292, </pubmed>
+
<pubmed>12107147 2163394 1577686 8702561 1279678, </pubmed>
−
# 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]
+
# M&#228;der et al. (2002) Transcriptome and Proteome Analysis of ''Bacillus subtilis'' Gene Expression Modulated by Amino Acid Availability. ''J. Bacteriol'' '''184:''' 1844288-4295 [http://www.ncbi.nlm.nih.gov/pubmed/12107147 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]
+
# Débarbouillé, M., Arnaud, M., Fouet, A., Klier, A., and  Rapoport, G. (1990) The sacT gene regulating the ''sacPA'' operon in ''Bacillus subtilis'' shares strong homology with transcriptional antiterminators. J Bacteriol 172: 3966-3973. [http://www.ncbi.nlm.nih.gov/sites/entrez/2163394 PubMed]
 +
# Arnaud, M., Vary, P., Zagorec, M., Klier, A., Débarbouillé, M., Postma, P., and Rapoport, G. (1992) Regulation of the ''sacPA'' operon of ''Bacillus subtilis'': identification of phosphotransferase system components involved in SacT activity. J Bacteriol 174: 3161-3170. [http://www.ncbi.nlm.nih.gov/sites/entrez/1577686 PubMed]
 +
# Arnaud, M., Débarbouillé, M., Rapoport, G., Saier, M. H., and Reizer, J. (1996) In vitro reconstitution of transcriptional antitermination by the SacT and SacY proteins of ''Bacillus subtilis''. J Biol Chem 271: 18966-18972. [http://www.ncbi.nlm.nih.gov/sites/entrez/8702561 PubMed]
 +
# Aymerich, S. and Steinmetz, M. (1992) Specificity determinants and structural features in the RNA target of the bacterial antiterminator proteins of the BglG/SacY family. Proc. Natl. Acad. Sci. USA 89, 10410-10414. [http://www.ncbi.nlm.nih.gov/sites/entrez/1279678 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 14:35, 8 June 2009

  • Description: transcriptional antiterminator for the sacP-sacA operon

Gene name sacT
Synonyms ipa-47d
Essential no
Product transcriptional antiterminator
Function regulation of sucrose utilization
MW, pI 31 kDa, 5.587
Gene length, protein length 828 bp, 276 aa
Immediate neighbours ywcJ, ywcI
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
SacT context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Locus tag: BSU38070

Phenotypes of a mutant

Database entries

  • DBTBS entry: [1]
  • SubtiList entry: [2]

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: binding to the mRNA of the sacP-sacA operon, causes transcription antitermination (in presence of sucrose and absence of glucose)
  • Protein family: transcriptional antiterminator bglG family (according to Swiss-Prot) BglG family of antiterminators

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
  • Localization:

Database entries

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

Additional information

Expression and regulation

  • Operon:
  • Regulation: repressed by casamino acids PubMed
  • 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. Mäder et al. (2002) Transcriptome and Proteome Analysis of Bacillus subtilis Gene Expression Modulated by Amino Acid Availability. J. Bacteriol 184: 1844288-4295 PubMed
  2. Débarbouillé, M., Arnaud, M., Fouet, A., Klier, A., and Rapoport, G. (1990) The sacT gene regulating the sacPA operon in Bacillus subtilis shares strong homology with transcriptional antiterminators. J Bacteriol 172: 3966-3973. PubMed
  3. Arnaud, M., Vary, P., Zagorec, M., Klier, A., Débarbouillé, M., Postma, P., and Rapoport, G. (1992) Regulation of the sacPA operon of Bacillus subtilis: identification of phosphotransferase system components involved in SacT activity. J Bacteriol 174: 3161-3170. PubMed
  4. Arnaud, M., Débarbouillé, M., Rapoport, G., Saier, M. H., and Reizer, J. (1996) In vitro reconstitution of transcriptional antitermination by the SacT and SacY proteins of Bacillus subtilis. J Biol Chem 271: 18966-18972. PubMed
  5. Aymerich, S. and Steinmetz, M. (1992) Specificity determinants and structural features in the RNA target of the bacterial antiterminator proteins of the BglG/SacY family. Proc. Natl. Acad. Sci. USA 89, 10410-10414. PubMed
  6. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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