Difference between revisions of "Sandbox"

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* '''Description:''' trigger enzyme: fructose-specific phosphotransferase system, EIIB component <br/><br/>
+
* '''Description:''' transcriptional activator of the levD-levE-levF-levG-sacC 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'''
−
|''levE''
+
|''levR''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''sacL ''
+
|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''' || trigger enzyme: fructose-specific phosphotransferase system, EIIB component
+
|style="background:#ABCDEF;" align="center"| '''Product''' || transcriptional activator, PRD-type (for SigL-dependent promoter)
−
 
+
|-
−
fructose-specific enzyme IIB (EC 2.7.1.69)
+
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of levan and fructose utilization
 +
|-
 +
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 105 kDa, 5.943 
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || fructose uptake and phosphorylation, control of LevR activity
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 2814 bp, 938 aa
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 17 kDa, 9.444 
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[levD]]'', ''[[aapA]]''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 486 bp, 162 aa
+
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14650&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[levF]]'', ''[[levD]]''
 
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14648&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:levE_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:levR_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 45: Line 45:
 
* '''DBTBS entry:''' no entry
 
* '''DBTBS entry:''' no entry
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10317]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10677]
  
 
=== Additional information===
 
=== Additional information===
Line 54: Line 54:
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:'''  
+
* '''Catalyzed reaction/ biological activity:''' binding to the upstream activating sequence in front of the [[levD]] gene results in activation of transcription of the ''[[levD]]-[[levE]]-[[levF]]-[[levG]]-[[sacC]]'' operon, bining occurs in the presence of fructose
  
−
* '''Protein family:''' PTS permease, mannose permease (Man) family [http://www.ncbi.nlm.nih.gov/pubmed/10627040 PubMed]
+
* '''Protein family:'''
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
Line 72: Line 72:
 
* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
−
* '''Interactions:''' [[LevE]]-[[LevR]],  
+
* '''Interactions:''' [[LevR]]-[[SigL]],  
  
 
* '''Localization:'''
 
* '''Localization:'''
Line 82: Line 82:
 
* '''Swiss prot entry:'''
 
* '''Swiss prot entry:'''
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU27060]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU27080]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
Line 90: Line 90:
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[levD]]-[[levE]]-[[levF]]-[[levG]]-[[sacC]]''
+
* '''Operon:'''  
  
−
* '''[[Sigma factor]]:''' [[SigL]]
+
* '''[[Sigma factor]]:'''  
  
−
* '''Regulation:''' repressed by glucose ([[CcpA]]) ,  carbon catabolite repression, induction by fructose
+
* '''Regulation:'''  
  
−
* '''Regulatory mechanism:''' [[CcpA]]: transcription repression,  catabolite repression: transcription repression by [[CcpA]], transcription activator [[LevR]] is less active in the presence of glucose; induction: transcription activation by [[LevR]]
+
* '''Regulatory mechanism:'''  
  
−
* '''Additional information:'''
+
* '''Additional information:'''  
  
 
=Biological materials =
 
=Biological materials =
Line 120: Line 120:
 
=References=
 
=References=
  
−
# 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]
+
# Débarbouillé M, Martin-Verstraete I, Klier A, Rapoport G (1991) The transcriptional regulator LevR of ''Bacillus subtilis'' has domains homologous to both (Sigma)54 - and phosphotransferase system-dependent regulators. Proc Natl Acad Sci USA 88:2212-2216. [http://www.ncbi.nlm.nih.gov/sites/entrez/1900939 PubMed]
−
 
+
# Stülke, J., Martin-Verstraete, I., Charrier, V., Klier, A., Deutscher, J. & Rapoport, G. (1995) The HPr protein of the phosphotransferase system links induction and catabolite repression of the ''Bacillus subtilis'' levanase operon. J. Bacteriol. 177: 6928-6936. [http://www.ncbi.nlm.nih.gov/sites/entrez/7592487 PubMed]
−
# Martin-Verstraete, I., Débarbouillé, M., Klier, A., and Rapoport, G. (1990) Levanase operon of ''Bacillus subtilis '' includes a fructose-specific phosphotransferase system regulating the expression of the operon. J Mol Biol 214: 657-671. [http://www.ncbi.nlm.nih.gov/sites/entrez/2117666 PubMed]
+
# Martin-Verstraete, I., Stülke, J., Klier, A. & Rapoport, G. (1995) Two different mechanisms mediate catabolite repression of the ''Bacillus subtilis'' levanase operon. J. Bacteriol. 177: 6919-6927. [http://www.ncbi.nlm.nih.gov/sites/entrez/7592486 PubMed]
 
# Martin-Verstraete, I., Charrier, V., Stülke, J., Galinier, A., Erni, B., Rapoport, G., & Deutscher, J. (1998) Antagonistic effects of dual PTS catalyzed phosphorylation on the ''Bacillus subtilis'' transcriptional activator LevR. Mol. Microbiol. 28: 293-303. [http://www.ncbi.nlm.nih.gov/sites/entrez/9622354  PubMed]
 
# Martin-Verstraete, I., Charrier, V., Stülke, J., Galinier, A., Erni, B., Rapoport, G., & Deutscher, J. (1998) Antagonistic effects of dual PTS catalyzed phosphorylation on the ''Bacillus subtilis'' transcriptional activator LevR. Mol. Microbiol. 28: 293-303. [http://www.ncbi.nlm.nih.gov/sites/entrez/9622354  PubMed]
−
# Schauder S, Nunn RS, Lanz R, Erni B, Schirmer T. 1998. Crystal structure of the IIB subunit of a fructose permease (IIBLev) from ''Bacillus subtilis''. J. Mol. Biol. 276:591-602. [http://www.ncbi.nlm.nih.gov/sites/entrez/9551099 PubMed]
+
# Martin-Verstraete I, Débarbouillé M, Klier A, Rapoport G (1994) Interactions of wild type and truncated LevR of Bacillus subtilis with the upstream activating sequence of the levanase operon. J Mol Biol 241:178-192. [http://www.ncbi.nlm.nih.gov/sites/entrez/8057358 PubMed]
−
# Seip, S., R. Lanz, R. Gutknecht, K. Flükiger, and B. Erni. 1997. The fructose transporter of Bacillus subtilis encoded by the lev operon. Backbone assignment and secondary structure of the IIBLev subunit. Eur. J. Biochem. 243: 306-314. [http://www.ncbi.nlm.nih.gov/sites/entrez/9030753 PubMed]
 
 
# Charrier V, Deutscher J, Martin-Verstraete I (1997b) Protein phosphorylation chain of a Bacillus subtilis fructose-specific phosphotransferase system and its participation in regulation of the expression of the lev operon. Biochemistry 36:1163-1172. [http://www.ncbi.nlm.nih.gov/sites/entrez/9033408 PubMed]
 
# Charrier V, Deutscher J, Martin-Verstraete I (1997b) Protein phosphorylation chain of a Bacillus subtilis fructose-specific phosphotransferase system and its participation in regulation of the expression of the lev operon. Biochemistry 36:1163-1172. [http://www.ncbi.nlm.nih.gov/sites/entrez/9033408 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 00:14, 28 April 2009

  • Description: transcriptional activator of the levD-levE-levF-levG-sacC operon

Gene name levR
Synonyms
Essential no
Product transcriptional activator, PRD-type (for SigL-dependent promoter)
Function regulation of levan and fructose utilization
MW, pI 105 kDa, 5.943
Gene length, protein length 2814 bp, 938 aa
Immediate neighbours levD, aapA
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
LevR context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Coordinates:

Phenotypes of a mutant

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: binding to the upstream activating sequence in front of the levD gene results in activation of transcription of the levD-levE-levF-levG-sacC operon, bining occurs in the presence of fructose
  • Protein family:
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains:
  • 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:
  • 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. Débarbouillé M, Martin-Verstraete I, Klier A, Rapoport G (1991) The transcriptional regulator LevR of Bacillus subtilis has domains homologous to both (Sigma)54 - and phosphotransferase system-dependent regulators. Proc Natl Acad Sci USA 88:2212-2216. PubMed
  2. Stülke, J., Martin-Verstraete, I., Charrier, V., Klier, A., Deutscher, J. & Rapoport, G. (1995) The HPr protein of the phosphotransferase system links induction and catabolite repression of the Bacillus subtilis levanase operon. J. Bacteriol. 177: 6928-6936. PubMed
  3. Martin-Verstraete, I., Stülke, J., Klier, A. & Rapoport, G. (1995) Two different mechanisms mediate catabolite repression of the Bacillus subtilis levanase operon. J. Bacteriol. 177: 6919-6927. PubMed
  4. Martin-Verstraete, I., Charrier, V., Stülke, J., Galinier, A., Erni, B., Rapoport, G., & Deutscher, J. (1998) Antagonistic effects of dual PTS catalyzed phosphorylation on the Bacillus subtilis transcriptional activator LevR. Mol. Microbiol. 28: 293-303. PubMed
  5. Martin-Verstraete I, Débarbouillé M, Klier A, Rapoport G (1994) Interactions of wild type and truncated LevR of Bacillus subtilis with the upstream activating sequence of the levanase operon. J Mol Biol 241:178-192. PubMed
  6. Charrier V, Deutscher J, Martin-Verstraete I (1997b) Protein phosphorylation chain of a Bacillus subtilis fructose-specific phosphotransferase system and its participation in regulation of the expression of the lev operon. Biochemistry 36:1163-1172. PubMed
  7. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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