› 4ijz

X-ray diffraction
2Å resolution

Crystal structure of diaminopimelate epimerase from Escherichia coli

Released:
DOI: 10.2210/pdb4ijz/pdb
PDB entry 4ijz coloured by chain, front view.
PDB entry 4ijz coloured by chain, side view.
PDB entry 4ijz coloured by chain, top view.
Source organism: Escherichia coli K-12
Primary publication:
Dimerization of bacterial diaminopimelate epimerase is essential for catalysis.
Hor L, Dobson RC, Downton MT, Wagner J, Hutton CA, Perugini MA
J Biol Chem 288 9238-48 (2013)
PMID: 23426375

Function and Biology Details

Reaction catalysed: 
LL-2,6-diaminoheptanedioate = meso-diaminoheptanedioate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-141366 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Diaminopimelate epimerase Chains: A, B
Molecule details ›
Chains: A, B
Length: 280 amino acids
Theoretical weight: 31.07 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A6K1 (Residues: 1-274; Coverage: 100%)
Gene names: JW5592, b3809, dapF
Sequence domains: Diaminopimelate epimerase
Structure domains: Diaminopimelate Epimerase; Chain A, domain 1

Ligands and Environments

1 bound ligand:
Ligand NO3 3 x NO3
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: AUSTRALIAN SYNCHROTRON BEAMLINE MX2
Spacegroup: P41212
Unit cell:
a: 89.38Å b: 89.38Å c: 179.618Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.165 0.163 0.203
Expression system: Escherichia coli

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Citations

17 citation in other articles

ISSLS PRIZE IN CLINICAL SCIENCE 2017: Is infection the possible initiator of disc disease? An insight from proteomic analysis.
Rajasekaran et al. (2017)
16 more

5 mentions without citation

Dimerization of bacterial diaminopimelate epimerase is essential for catalysis.
Hor et al. (2013)
4 more