Difference between revisions of "Sandbox"

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−
* '''Description:''' glycerol facilitator <br/><br/>
+
* '''Description:''' transcriptional antiterminator of the ''[[glpT]]-[[glpQ]]'' and ''[[glpF]]-[[glpK]]-[[glpD]]'' operons <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'''
−
|''glpF''
+
|''glpP''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
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|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || glycerol facilitator
+
|style="background:#ABCDEF;" align="center"| '''Product''' || transcriptional antiterminator
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || glycerol uptake
+
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of glycerol and glycerol-3-phosphate utilization
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 28 kDa, 9.506  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 21 kDa, 8.104  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 822 bp, 274 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 576 bp, 192 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[glpP]]'', ''[[glpK]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yhxA]]'', ''[[glpF]]''
 
|-
 
|-
 
|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:glpF_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:glpP_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/glpFK.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yhxA-glpP.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10186]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10185]
  
 
=== Additional information===
 
=== Additional information===
Line 80: Line 80:
 
* '''Swiss prot entry:'''
 
* '''Swiss prot entry:'''
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU09280]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU09270]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
  
 
=== Additional information===
 
=== Additional information===
−
 
  
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[glpF]]-[[glpK]]''
+
* '''Operon:'''  
  
−
* '''[[Sigma factor]]:''' [[SigA]]
+
* '''[[Sigma factor]]:'''  
  
−
* '''Regulation:''' repressed by glucose (8-fold) ([[CcpA]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed],  carbon catabolite repression, induction by glycerol
+
* '''Regulation:'''  
  
−
* '''Regulatory mechanism:''' [[CcpA]]: transcription repression,  catabolite repression: repression by [[CcpA]], induction: [[GlpP]]-dependent RNA switch (transcriptional antitermination)
+
* '''Regulatory mechanism:'''  
  
−
* '''Additional information:'''
+
* '''Additional information:'''  
  
 
=Biological materials =
 
=Biological materials =
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=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
  
 +
[[Josef Deutscher]], Paris-Grignon, France
  
 
=Your additional remarks=
 
=Your additional remarks=
Line 120: Line 120:
 
=References=
 
=References=
  
−
# 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]
+
# Glatz E, Nilsson RP, Rutberg L, Rutberg B (1996) A dual role of the ''Bacillus subtilis glpD'' leader and the GlpP protein in the regulated expression of glpD: antitermination and control of mRNA stability. Mol Microbiol 19:319-328. [http://www.ncbi.nlm.nih.gov/sites/entrez/8825777 PubMed]
 +
# Darbon E, Servant P, Poncet S, Deutscher J (2002) Antitermination by GlpP, catabolite repression via CcpA and inducer exclusion triggered by P~GlpK dephosphorylation control ''Bacillus subtilis glpFK'' expression. Mol Microbiol 43:1039-1052. [http://www.ncbi.nlm.nih.gov/sites/entrez/11929549 PubMed]
 
# Beijer L, Nilsson RP, Holmberg C, Rutberg L: The ''glpP'' and ''glpF'' genes of the glycerol regulon in ''Bacillus subtilis''. J Gen Microbiol 1993;139:349-359. [http://www.ncbi.nlm.nih.gov/sites/entrez/8436953 PubMed]
 
# Beijer L, Nilsson RP, Holmberg C, Rutberg L: The ''glpP'' and ''glpF'' genes of the glycerol regulon in ''Bacillus subtilis''. J Gen Microbiol 1993;139:349-359. [http://www.ncbi.nlm.nih.gov/sites/entrez/8436953 PubMed]
−
# Darbon E, Servant P, Poncet S, Deutscher J (2002) Antitermination by GlpP, catabolite repression via CcpA and inducer exclusion triggered by P~GlpK dephosphorylation control ''Bacillus subtilis glpFK'' expression. Mol Microbiol 43:1039-1052. [http://www.ncbi.nlm.nih.gov/sites/entrez/11929549 PubMed]
+
# Glatz E, Farewell A, Rutberg B: The ''Bacillus subtilis glpD'' leader and antiterminator protein GlpP provide a target for glucose repression in ''Escherichia coli''. FEMS Microbiol Lett 1998;162:93-96. [http://www.ncbi.nlm.nih.gov/sites/entrez/9595668 PubMed]
 +
# Glatz E, Persson M, Rutberg B: Antiterminator protein GlpP of ''Bacillus subtilis'' binds to ''glpD'' leader mRNA. Microbiology 1998;144:449-456. [http://www.ncbi.nlm.nih.gov/sites/entrez/9493382 PubMed]
 +
# Holmberg C, Rutberg L.(1992) An inverted repeat preceding the Bacillus subtilis glpD gene is a conditional terminator of transcription. ''Mol Microbiol.'' '''Oct;6(20):''' 2931-8. [http://www.ncbi.nlm.nih.gov/sites/entrez/1479885 PubMed]
 +
# Holmberg C, Rutberg B. (1991) Expression of the gene encoding glycerol-3-phosphate dehydrogenase (glpD) in Bacillus subtilis is controlled by antitermination. ''Mol Microbiol.'' '''Dec;5(12):''' 2891-900. [http://www.ncbi.nlm.nih.gov/sites/entrez/1809833 PubMed]
 +
# Lindgren V, Rutberg L. (1976) Genetic control of the glp system in Bacillus subtilis. '' J Bacteriol.'' '''Sep;127(3):''' 1047-57. [http://www.ncbi.nlm.nih.gov/sites/entrez/182672 PubMed]
 +
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]

Revision as of 20:40, 15 April 2009

Gene name glpP
Synonyms
Essential no
Product transcriptional antiterminator
Function regulation of glycerol and glycerol-3-phosphate utilization
MW, pI 21 kDa, 8.104
Gene length, protein length 576 bp, 192 aa
Immediate neighbours yhxA, glpF
Hier soll was neues rein
Genetic context
GlpP 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

Josef Deutscher, Paris-Grignon, France

Your additional remarks

References

  1. Glatz E, Nilsson RP, Rutberg L, Rutberg B (1996) A dual role of the Bacillus subtilis glpD leader and the GlpP protein in the regulated expression of glpD: antitermination and control of mRNA stability. Mol Microbiol 19:319-328. PubMed
  2. Darbon E, Servant P, Poncet S, Deutscher J (2002) Antitermination by GlpP, catabolite repression via CcpA and inducer exclusion triggered by P~GlpK dephosphorylation control Bacillus subtilis glpFK expression. Mol Microbiol 43:1039-1052. PubMed
  3. Beijer L, Nilsson RP, Holmberg C, Rutberg L: The glpP and glpF genes of the glycerol regulon in Bacillus subtilis. J Gen Microbiol 1993;139:349-359. PubMed
  4. Glatz E, Farewell A, Rutberg B: The Bacillus subtilis glpD leader and antiterminator protein GlpP provide a target for glucose repression in Escherichia coli. FEMS Microbiol Lett 1998;162:93-96. PubMed
  5. Glatz E, Persson M, Rutberg B: Antiterminator protein GlpP of Bacillus subtilis binds to glpD leader mRNA. Microbiology 1998;144:449-456. PubMed
  6. Holmberg C, Rutberg L.(1992) An inverted repeat preceding the Bacillus subtilis glpD gene is a conditional terminator of transcription. Mol Microbiol. Oct;6(20): 2931-8. PubMed
  7. Holmberg C, Rutberg B. (1991) Expression of the gene encoding glycerol-3-phosphate dehydrogenase (glpD) in Bacillus subtilis is controlled by antitermination. Mol Microbiol. Dec;5(12): 2891-900. PubMed
  8. Lindgren V, Rutberg L. (1976) Genetic control of the glp system in Bacillus subtilis. J Bacteriol. Sep;127(3): 1047-57. PubMed
  9. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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