› 1dap

X-ray diffraction
2.2Å resolution

C. GLUTAMICUM DAP DEHYDROGENASE IN COMPLEX WITH NADP+

Released:
DOI: 10.2210/pdb1dap/pdb
PDB entry 1dap coloured by chain, front view.
PDB entry 1dap coloured by chain, side view.
PDB entry 1dap coloured by chain, top view.
Source organism: Corynebacterium glutamicum
Primary publication:
Three-dimensional structure of meso-diaminopimelic acid dehydrogenase from Corynebacterium glutamicum.
Scapin G, Reddy SG, Blanchard JS
Biochemistry 35 13540-51 (1996)
PMID: 8885833

Function and Biology Details

Reaction catalysed: 
Meso-2,6-diaminoheptanedioate + H(2)O + NADP(+) = L-2-amino-6-oxoheptanedioate + NH(3) + NADPH
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-138298 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Meso-diaminopimelate D-dehydrogenase Chains: A, B
Molecule details ›
Chains: A, B
Length: 320 amino acids
Theoretical weight: 35.24 KDa
Source organism: Corynebacterium glutamicum
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P04964 (Residues: 1-320; Coverage: 100%)
Gene names: Cgl2617, cg2900, ddh
Sequence domains: Diaminopimelic acid dehydrogenase C-terminal domain
Structure domains:

Ligands and Environments


Cofactor: Ligand NDP 2 x NDP
1 bound ligand:
Ligand ACT 2 x ACT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RUH2R
Spacegroup: P21
Unit cell:
a: 75.9Å b: 65.8Å c: 84.5Å
α: 90° β: 106.6° γ: 90°
R-values:
R R work R free
0.17 0.17 not available
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

4 review citations

Enzymatic asymmetric synthesis of chiral amino acids.
Xue et al. (2018)
3 more

4 mentions without citation

Modeling protein conformational transitions by a combination of coarse-grained normal mode analysis and robotics-inspired methods.
Al-Bluwi et al. (2013)
3 more