Difference between revisions of "Sandbox"

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−
* '''Description:''' glycerol-3-phosphate dehydrogenase (menaquinone 7) <br/><br/>
+
* '''Description:''' minor citrate synthase <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''
+
|''citA''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''citA1 ''
 
|-
 
|-
 
|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''' || minor citrate synthase
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' ||  
+
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 62 kDa, 8.002  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 40 kDa, 5.778  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1665 bp, 555 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1098 bp, 366 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[glpK]]'', ''[[pgcA]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[citR]], [[yhdF]]''
 
|-
 
|-
−
|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/citA_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/citA_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:citA_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/citA.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10188]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10854]
  
 
=== Additional information===
 
=== Additional information===
Line 57: Line 57:
 
* '''Catalyzed reaction/ biological activity:'''  
 
* '''Catalyzed reaction/ biological activity:'''  
  
−
* '''Protein family:''' FAD-dependent glycerol-3-phosphate dehydrogenase family
+
* '''Protein family:''' citrate synthase family
  
−
* '''Paralogous protein(s):'''
+
* '''Paralogous protein(s):''' [[MmgD]], [[CitZ]]
  
 
=== Extended information on the protein ===
 
=== Extended information on the protein ===
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+BSU09440]
  
−
* '''E.C. number:'''
+
* '''E.C. number:''' 4.1.3.7
  
 
=== Additional information===
 
=== Additional information===
Line 91: Line 91:
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' ''[[glpD]]''
+
* '''Operon:'''  
  
−
* '''[[Sigma factor]]:''' [[SigA]]
+
* '''[[Sigma factor]]:'''  
  
−
* '''Regulation:''' repressed by glucose ([[CcpA]]) 
+
* '''Regulation:'''  
  
−
* '''Regulatory mechanism:''' [[CcpA]]: transcription repression
+
* '''Regulatory mechanism:'''  
  
−
* '''Additional information:'''
+
* '''Additional information:'''  
  
 
=Biological materials =
 
=Biological materials =
Line 121: Line 121:
 
=References=
 
=References=
  
−
 
−
# 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]
 
−
# 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]
 
−
# 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]
 
 
# 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 03:56, 12 April 2009

  • Description: minor citrate synthase

Gene name citA
Synonyms citA1
Essential no
Product minor citrate synthase
Function unknown
MW, pI 40 kDa, 5.778
Gene length, protein length 1098 bp, 366 aa
Immediate neighbours citR, yhdF
Gene sequence (+200bp) Protein sequence
Caution: The sequence for this gene in SubtiList contains errors
Genetic context
CitA 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: citrate synthase family

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: 4.1.3.7

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. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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