RocD

• Description: ornithine transaminase
  
  

Gene name	rocD
Synonyms
Essential	no
Product	ornithine transaminase
Function	arginine, ornithine and citrulline utilization
Gene expression levels in SubtiExpress: rocD
Metabolic function and regulation of this protein in SubtiPathways: Ammonium/ glutamate
MW, pI	43 kDa, 4.894
Gene length, protein length	1203 bp, 401 aa
Immediate neighbours	rocE, rocR
Get the DNA and protein sequences (Barbe et al., 2009)
Genetic context This image was kindly provided by SubtiList
Expression at a glance   PubMed

Categories containing this gene/protein

utilization of amino acids

This gene is a member of the following regulons

AhrC regulon, CodY regulon, RocR regulon, SigL regulon, Spo0A regulon

The gene

Basic information

• Locus tag: BSU40340

Database entries

• DBTBS entry: [1]

• SubtiList entry: [2]

The protein

Basic information/ Evolution

• Catalyzed reaction/ biological activity: L-ornithine + a 2-oxo acid = L-glutamate 5-semialdehyde + an L-amino acid (according to Swiss-Prot)

• Protein family: OAT subfamily (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: 3RUY (from B. anthracis)

• UniProt: P38021

• KEGG entry: [3]

• E.C. number: 2.6.1.13

Expression and regulation

• Operon: rocD-rocE-rocF PubMed

• Expression browser: rocD PubMed

• Sigma factor: SigL PubMed

• Regulation:
  • induced by arginine (RocR, AhrC) PubMed
  • repressed under conditions that trigger sporulation (Spo0A) PubMed
  • repressed during growth in the presence of branched chain amino acids (CodY) PubMed

• Regulatory mechanism:
  • RocR, AhrC: transcription activation PubMed
  • Spo0A: transcription repression PubMed
  • CodY: transcription repression PubMed
• Additional information:

Biological materials

• Mutant: GP656, aphA3, available in the Stülke lab

• Expression vector:

• lacZ fusion:

• GFP fusion:

• two-hybrid system:

• Antibody:

References

Virginie Molle, Masaya Fujita, Shane T Jensen, Patrick Eichenberger, José E González-Pastor, Jun S Liu, Richard Losick
The Spo0A regulon of Bacillus subtilis.
Mol Microbiol: 2003, 50(5);1683-701
[PubMed:14651647] [WorldCat.org] [DOI] (P p)

Virginie Molle, Yoshiko Nakaura, Robert P Shivers, Hirotake Yamaguchi, Richard Losick, Yasutaro Fujita, Abraham L Sonenshein
Additional targets of the Bacillus subtilis global regulator CodY identified by chromatin immunoprecipitation and genome-wide transcript analysis.
J Bacteriol: 2003, 185(6);1911-22
[PubMed:12618455] [WorldCat.org] [DOI] (P p)

R Gardan, G Rapoport, M Débarbouillé
Expression of the rocDEF operon involved in arginine catabolism in Bacillus subtilis.
J Mol Biol: 1995, 249(5);843-56
[PubMed:7540694] [WorldCat.org] [DOI] (P p)