Difference between revisions of "Sandbox"

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−
* '''Description:''' glycerol-3-phosphate dehydrogenase (menaquinone 7) <br/><br/>
+
* '''Description:''' glycerol kinase <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'''
−
|''glpD''
+
|''glpK''
 
|-
 
|-
 
|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-3-phosphate dehydrogenase (menaquinone 7)
+
|style="background:#ABCDEF;" align="center"| '''Product''' || glycerol kinase
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' ||  
+
|style="background:#ABCDEF;" align="center"|'''Function''' || glycerol utilization
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 62 kDa, 8.002  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 54 kDa, 4.985  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1665 bp, 555 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1488 bp, 496 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[glpK]]'', ''[[pgcA]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[glpF]]'', ''[[glpD]]''
 
|-
 
|-
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/glpD_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/glpK_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/glpD_protein.txt Protein sequence]'''
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/glpK_protein.txt Protein sequence]'''
 
|-
 
|-
 
|colspan="2" style="background:#FAF8CC;color:#FF0000" align="center" | '''Caution: The sequence for this gene in SubtiList contains errors
 
|colspan="2" style="background:#FAF8CC;color:#FF0000" align="center" | '''Caution: The sequence for this gene in SubtiList contains errors
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:glpD_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:glpK_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 44: Line 44:
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/glpD.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/glpFK.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10188]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10187]
  
 
=== Additional information===
 
=== Additional information===
Line 69: Line 69:
 
* '''Modification:'''
 
* '''Modification:'''
  
−
* '''Cofactor(s):''' FAD
+
* '''Cofactor(s):'''
  
 
* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
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* '''Swiss prot entry:'''
 
* '''Swiss prot entry:'''
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU09300]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU09290]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
Line 91: Line 91:
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[glpD]]''
+
* '''Operon:''' ''[[glpF]]-[[glpK]]''
  
 
* '''Sigma factor:''' [[SigA]]
 
* '''Sigma factor:''' [[SigA]]
  
−
* '''Regulation:''' repressed by glucose ([[CcpA]])   
+
* '''Regulation:''' repressed by glucose ([[CcpA]]) , carbon catabolite repression, induction by glycerol
  
−
* '''Regulatory mechanism:''' [[CcpA]]: transcription repression  
+
* '''Regulatory mechanism:''' [[CcpA]]: transcription repression,  catabolite repression: repression by [[CcpA]], induction: [[GlpP]]-dependent RNA switch (transcriptional antitermination)
  
 
* '''Additional information:'''
 
* '''Additional information:'''
Line 116: Line 116:
  
 
=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
 +
 +
[[Josef Deutscher]], Paris-Grignon, France
  
 
=Your additional remarks=
 
=Your additional remarks=
Line 122: Line 124:
  
 
# 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  
 
# 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  
−
# 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]
+
# Beijer L, Rutberg L (1992) Utilisation of glycerol and glycerol-3-phosphate is differently affected by the phosphotransferase system in ''Bacillus subtilis''. FEMS Microbiol Lett 100:217-220. [http://www.ncbi.nlm.nih.gov/sites/entrez/1335945 PubMed]
−
# Holmberg C, Rutberg L (1992) An inverted repeat preceding the ''Bacillus subtilis glpD'' gene is a conditional terminator of transcription. Mol Microbiol 6:2931-2938. [http://www.ncbi.nlm.nih.gov/sites/entrez/1479885 PubMed]
+
# Charrier V, Buckley E, Parsonage D, Galinier A, Darbon E, Jaquinod M, Forest E, Deutscher J, Claiborne A (1997) Cloning and sequencing of two enterococcal ''glpK'' genes and regulation of the encoded glycerol kinases by phosphoenolpyruvate-dependent, phosphotransferase system-catalyzed phosphorylation of a single histidyl residue. J Biol Chem 272:14166-14174. [http://www.ncbi.nlm.nih.gov/sites/entrez/9162046 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]
+
# 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, 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]
+
# Wehtje C, Beijer L, Nilsson RP, Rutberg B (1995) Mutations in the glycerol kinase gene restore the ability of a ''ptsGHI'' mutant of ''Bacillus subtilis'' to grow on glycerol. Microbiology 141:1193-1198. [http://www.ncbi.nlm.nih.gov/sites/entrez/7773413 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 23:43, 2 April 2009

  • Description: glycerol kinase

Gene name glpK
Synonyms
Essential no
Product glycerol kinase
Function glycerol utilization
MW, pI 54 kDa, 4.985
Gene length, protein length 1488 bp, 496 aa
Immediate neighbours glpF, glpD
Gene sequence (+200bp) Protein sequence
Caution: The sequence for this gene in SubtiList contains errors
Genetic context
GlpK 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

  • Regulation: repressed by glucose (CcpA) , carbon catabolite repression, induction by glycerol
  • Regulatory mechanism: CcpA: transcription repression, catabolite repression: repression by CcpA, induction: GlpP-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

Josef Deutscher, Paris-Grignon, France

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
  2. Beijer L, Rutberg L (1992) Utilisation of glycerol and glycerol-3-phosphate is differently affected by the phosphotransferase system in Bacillus subtilis. FEMS Microbiol Lett 100:217-220. PubMed
  3. Charrier V, Buckley E, Parsonage D, Galinier A, Darbon E, Jaquinod M, Forest E, Deutscher J, Claiborne A (1997) Cloning and sequencing of two enterococcal glpK genes and regulation of the encoded glycerol kinases by phosphoenolpyruvate-dependent, phosphotransferase system-catalyzed phosphorylation of a single histidyl residue. J Biol Chem 272:14166-14174. PubMed
  4. 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
  5. Wehtje C, Beijer L, Nilsson RP, Rutberg B (1995) Mutations in the glycerol kinase gene restore the ability of a ptsGHI mutant of Bacillus subtilis to grow on glycerol. Microbiology 141:1193-1198. PubMed
  6. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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