› 2abr

X-ray diffraction
2.9Å resolution

Structure of D280A arginine deiminase with L-arginine forming a S-alkylthiouronium reaction intermediate

Released:
DOI: 10.2210/pdb2abr/pdb
PDB entry 2abr coloured by chain, front view.
PDB entry 2abr coloured by chain, side view.
PDB entry 2abr coloured by chain, top view.
Source organism: Pseudomonas aeruginosa
Primary publication:
Crystal structures representing the Michaelis complex and the thiouronium reaction intermediate of Pseudomonas aeruginosa arginine deiminase.
Galkin A, Lu X, Dunaway-Mariano D, Herzberg O
J Biol Chem 280 34080-7 (2005)
PMID: 16091358

Function and Biology Details

Reaction catalysed: 
L-arginine + H(2)O = L-citrulline + NH(3)
Biochemical function:
Biological process:
Cellular component:
Sequence domain:
Structure domain:

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-146826 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Arginine deiminase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 418 amino acids
Theoretical weight: 46.61 KDa
Source organism: Pseudomonas aeruginosa
Expression system: Escherichia coli
UniProt:
  • Canonical: P13981 (Residues: 1-418; Coverage: 100%)
Gene names: PA5171, arcA
Sequence domains: Arginine deiminase
Structure domains:

Ligands and Environments

No bound ligands
1 modified residue:
Ligand CYR 4 x CYR

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU
Spacegroup: P212121
Unit cell:
a: 90.6Å b: 120.6Å c: 147.2Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.214 0.214 0.274
Expression system: Escherichia coli

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Citations

6 review citations

Chemical mechanisms of histone lysine and arginine modifications.
Smith et al. (2009)
5 more

1 mention without citation

Crystal structures of TM0549 and NE1324--two orthologs of E. coli AHAS isozyme III small regulatory subunit.
Petkowski et al. (2007)