› 2vzk

X-ray diffraction
2.33Å resolution

Structure of the acyl-enzyme complex of an N-terminal nucleophile (Ntn) hydrolase, OAT2

Released:
DOI: 10.2210/pdb2vzk/pdb
PDB entry 2vzk coloured by chain, front view.
PDB entry 2vzk coloured by chain, side view.
PDB entry 2vzk coloured by chain, top view.
Source organism: Streptomyces clavuligerus
Primary publication:
Anatomy of a simple acyl intermediate in enzyme catalysis: combined biophysical and modeling studies on ornithine acetyl transferase.
Iqbal A, Clifton IJ, Bagonis M, Kershaw NJ, Domene C, Claridge TD, Wharton CW, Schofield CJ
J Am Chem Soc 131 749-57 (2009)
PMID: 19105697

Function and Biology Details

Reaction catalysed: 
N(2)-acetyl-L-ornithine + L-glutamate = L-ornithine + N-acetyl-L-glutamate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-143599 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Glutamate N-acetyltransferase 2 alpha chain Chains: A, C, E, G
Molecule details ›
Chains: A, C, E, G
Length: 173 amino acids
Theoretical weight: 18.09 KDa
Source organism: Streptomyces clavuligerus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P0DJQ5 (Residues: 8-180; Coverage: 44%)
Gene names: dclD, oat2
Sequence domains: ArgJ family
Structure domains: L-amino peptidase D-ALA esterase/amidase
Glutamate N-acetyltransferase 2 beta chain Chain: B
Molecule details ›
Chain: B
Length: 213 amino acids
Theoretical weight: 22.83 KDa
Source organism: Streptomyces clavuligerus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P0DJQ5 (Residues: 181-393; Coverage: 54%)
Gene names: dclD, oat2
Sequence domains: ArgJ family
Structure domains:
Glutamate N-acetyltransferase 2 beta chain Chains: D, F, H
Molecule details ›
Chains: D, F, H
Length: 213 amino acids
Theoretical weight: 22.88 KDa
Source organism: Streptomyces clavuligerus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P0DJQ5 (Residues: 181-393; Coverage: 54%)
Gene names: dclD, oat2
Sequence domains: ArgJ family
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand TRS 2 x TRS
Ligand ACT 2 x ACT
1 modified residue:
Ligand TH5 3 x TH5

Experiments and Validation Details

Entry percentile scores
X-ray source: BRUKER AXS MICROSTAR
Spacegroup: P21
Unit cell:
a: 61.273Å b: 73.878Å c: 172.166Å
α: 90° β: 92.71° γ: 90°
R-values:
R R work R free
0.255 0.254 0.284
Expression system: Escherichia coli BL21(DE3)

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Citations

1 review citation

The enzymes of β-lactam biosynthesis.
Hamed et al. (2013)
3 other articles