Difference between revisions of "Sandbox"

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* '''Description:''' beta-ketoacyl-acyl carrier protein synthase III <br/><br/>
+
* '''Description:''' acetyl-CoA C-acyltransferase <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'''
−
|''fabHB''
+
|''fadA''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yhfB ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yusK''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || beta-ketoacyl-acyl carrier protein synthase III
+
|style="background:#ABCDEF;" align="center"| '''Product''' || acetyl-CoA C-acyltransferase
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || fatty acid biosynthesis
+
|style="background:#ABCDEF;" align="center"|'''Function''' || fatty acid degradation
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 35 kDa, 5.684  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 40 kDa, 5.184  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 975 bp, 325 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1173 bp, 391 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yhgE]]'', ''[[yhfC]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[fadE]]'', ''[[fadN]]''
 
|-
 
|-
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|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB12857&#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:CAB15272&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:fabHB_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:yusK_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>
 
|-
 
|-
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=== Basic information ===
 
=== Basic information ===
  
−
* '''Locus tag:''' BSU10170
+
* '''Locus tag:''' BSU32830
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
Line 41: Line 41:
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/fabHB.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yusMLKJ.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13048]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG14023]
  
 
=== Additional information===
 
=== Additional information===
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=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:''' Acetyl-CoA + malonyl-[acyl-carrier-protein] = acetoacyl-[acyl-carrier-protein] + CoA + CO<sub>2</sub> (according to Swiss-Prot)  
+
* '''Catalyzed reaction/ biological activity:''' Acyl-CoA + acetyl-CoA = CoA + 3-oxoacyl-CoA (according to Swiss-Prot)  
  
−
* '''Protein family:''' fabH family (according to Swiss-Prot)
+
* '''Protein family:''' thiolase family (according to Swiss-Prot)
  
−
* '''Paralogous protein(s):''' [[FabHA]], one of the two proteins has to be present for viability [http://www.ncbi.nlm.nih.gov/sites/entrez/17114254 PubMed]
+
* '''Paralogous protein(s):'''
  
 
=== Extended information on the protein ===
 
=== Extended information on the protein ===
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* '''Interactions:'''
 
* '''Interactions:'''
  
−
* '''Localization:''' cytoplasm (according to Swiss-Prot)
+
* '''Localization:'''
  
 
=== Database entries ===
 
=== Database entries ===
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* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/O07600 O07600]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/O32177 O32177]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU10170]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU32830]
  
−
* '''E.C. number:''' [http://www.expasy.org/enzyme/2.3.1.180 2.3.1.180]
+
* '''E.C. number:''' [http://www.expasy.org/enzyme/2.3.1.16 2.3.1.16]
  
 
=== Additional information===
 
=== Additional information===
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=References=
 
=References=
  
−
<pubmed>17114254, </pubmed>
+
<pubmed>17189250, </pubmed>
−
# Thomaides, H. B., Davison, E. J., Burston, L., Johnson, H., Brown, D. R., Hunt, A. C., Errington, J., and Czaplewski, L. (2007) Essential bacterial functions encoded by gene pairs. J Bacteriol 189, 591-602. [http://www.ncbi.nlm.nih.gov/sites/entrez/17114254 PubMed]
+
# Matsuoka H, Hirooka K, Fujita Y. (2007) Organization and function of the YsiA regulon of Bacillus subtilis involved in fatty acid degradation. ''J Biol Chem. '' '''Feb 23;282(8):''' 5180-94. [http://www.ncbi.nlm.nih.gov/sites/entrez/17189250 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 14:02, 8 June 2009

  • Description: acetyl-CoA C-acyltransferase

Gene name fadA
Synonyms yusK
Essential no
Product acetyl-CoA C-acyltransferase
Function fatty acid degradation
MW, pI 40 kDa, 5.184
Gene length, protein length 1173 bp, 391 aa
Immediate neighbours fadE, fadN
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
YusK context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Locus tag: BSU32830

Phenotypes of a mutant

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: Acyl-CoA + acetyl-CoA = CoA + 3-oxoacyl-CoA (according to Swiss-Prot)
  • Protein family: thiolase family (according to Swiss-Prot)
  • Paralogous protein(s):

Extended information on the protein

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

Database entries

  • Structure:
  • KEGG entry: [3]

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. Matsuoka H, Hirooka K, Fujita Y. (2007) Organization and function of the YsiA regulon of Bacillus subtilis involved in fatty acid degradation. J Biol Chem. Feb 23;282(8): 5180-94. PubMed
  2. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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