› 3dj8

X-ray diffraction
1.51Å resolution

Synthesis of (2S)-2-amino-7,8-epoxyoctanoic acid and structure of its metal-bridging complex with human arginase I

Released:
DOI: 10.2210/pdb3dj8/pdb
PDB entry 3dj8 coloured by chain, front view.
PDB entry 3dj8 coloured by chain, side view.
PDB entry 3dj8 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Synthesis of (2S)-2-amino-7,8-epoxyoctanoic acid and structure of its metal-bridging complex with human arginase I.
Zakharian TY, Di Costanzo L, Christianson DW
Org Biomol Chem 6 3240-3 (2008)
PMID: 18802628

Function and Biology Details

Reaction catalysed: 
L-arginine + H(2)O = L-ornithine + urea
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-138411 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Arginase-1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 322 amino acids
Theoretical weight: 34.78 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P05089 (Residues: 1-322; Coverage: 100%)
Gene name: ARG1
Sequence domains: Arginase family
Structure domains: Ureohydrolase domain

Ligands and Environments

2 bound ligands:
Ligand MN 4 x MN
Ligand EXY 2 x EXY
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: P3
Unit cell:
a: 90.623Å b: 90.623Å c: 69.56Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.152 0.152 0.193
Expression system: Escherichia coli

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Citations

2 review citations

Targeting Metalloenzymes for Therapeutic Intervention.
Chen et al. (2019)
1 more

2 mentions without citation

Synthesis of (2S)-2-amino-7,8-epoxyoctanoic acid and structure of its metal-bridging complex with human arginase I.
Zakharian et al. (2008)
1 more