› 1jmz

X-ray diffraction
2Å resolution

crystal structure of a quinohemoprotein amine dehydrogenase from pseudomonas putida with inhibitor

Released:
DOI: 10.2210/pdb1jmz/pdb
PDB entry 1jmz coloured by chain, front view.
PDB entry 1jmz coloured by chain, side view.
PDB entry 1jmz coloured by chain, top view.
Source organism: Pseudomonas putida
Primary publication:
Crystal structure of quinohemoprotein amine dehydrogenase from Pseudomonas putida. Identification of a novel quinone cofactor encaged by multiple thioether cross-bridges.
Satoh A, Kim JK, Miyahara I, Devreese B, Vandenberghe I, Hacisalihoglu A, Okajima T, Kuroda S, Adachi O, Duine JA, Van Beeumen J, Tanizawa K, Hirotsu K
J Biol Chem 277 2830-4 (2002)
PMID: 11704672

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assemblies composition:
hetero trimer (preferred)
hetero hexamer
Assembly name:
PDBe Complex ID:
PDB-CPX-140974 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Quinohemoprotein amine dehydrogenase 60 kDa subunit Chain: A
Molecule details ›
Chain: A
Length: 494 amino acids
Theoretical weight: 53.99 KDa
Source organism: Pseudomonas putida
UniProt:
  • Canonical: Q8VW85 (Residues: 49-542; Coverage: 100%)
Sequence domains:
Structure domains:
Quinohemoprotein amine dehydrogenase 40 kDa subunit Chain: B
Molecule details ›
Chain: B
Length: 349 amino acids
Theoretical weight: 39.28 KDa
Source organism: Pseudomonas putida
UniProt:
  • Canonical: Q8VW82 (Residues: 31-379; Coverage: 100%)
Structure domains: YVTN repeat-like/Quinoprotein amine dehydrogenase
Quinohemoprotein amine dehydrogenase subunit gamma Chain: G
Molecule details ›
Chain: G
Length: 79 amino acids
Theoretical weight: 8.63 KDa
Source organism: Pseudomonas putida
UniProt:
  • Canonical: P0A182 (Residues: 1-79; Coverage: 100%)
Gene name: qhnDH
Sequence domains: Quinohemoprotein amine dehydrogenase, gamma subunit
Structure domains: Quinohemoprotein amine dehydrogenase, gamma subunit structural domain

Ligands and Environments

3 bound ligands:
Ligand NI 1 x NI
Ligand HEC 2 x HEC
Ligand PND 1 x PND
1 modified residue:
Ligand TRQ 1 x TRQ

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-18B
Spacegroup: C2
Unit cell:
a: 167.21Å b: 92.37Å c: 79.3Å
α: 90° β: 112° γ: 90°
R-values:
R R work R free
0.215 0.215 0.251

Quick links

Citations

12 review citations

Novel sequences propel familiar folds.
Jawad et al. (2002)
11 more

1 mention without citation

Structural similarity enhances interaction propensity of proteins.
Lukatsky et al. (2007)