› 3k5t

X-ray diffraction
2.11Å resolution

Crystal structure of human diamine oxidase in space group C2221

Released:
DOI: 10.2210/pdb3k5t/pdb
PDB entry 3k5t coloured by chain, front view.
PDB entry 3k5t coloured by chain, side view.
PDB entry 3k5t coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
A new crystal form of human diamine oxidase.
McGrath AP, Hilmer KM, Collyer CA, Dooley DM, Guss JM
Acta Crystallogr Sect F Struct Biol Cryst Commun 66 137-42 (2010)
PMID: 20124708

Function and Biology Details

Reaction catalysed: 
Histamine + H(2)O + O(2) = (imidazol-4-yl)acetaldehyde + NH(3) + H(2)O(2)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-148733 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Diamine oxidase [copper-containing] Chain: A
Molecule details ›
Chain: A
Length: 731 amino acids
Theoretical weight: 83.46 KDa
Source organism: Homo sapiens
Expression system: Drosophila melanogaster
UniProt:
  • Canonical: P19801 (Residues: 21-751; Coverage: 100%)
Gene names: ABP, ABP1, AOC1, DAO
Sequence domains:
Structure domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
4 bound ligands:
Ligand CU 1 x CU
Ligand CA 2 x CA
Ligand GOL 1 x GOL
Ligand NAG 1 x NAG
1 modified residue:
Ligand TPQ 1 x TPQ

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RU200, AUSTRALIAN SYNCHROTRON BEAMLINE MX1
Spacegroup: C2221
Unit cell:
a: 94.771Å b: 96.954Å c: 178.06Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.239 0.236 0.29
Expression system: Drosophila melanogaster

Quick links

Citations

1 review citation

Human copper-dependent amine oxidases.
Finney et al. (2014)
3 other articles

3 mentions without citation

Copper active sites in biology.
Solomon et al. (2014)
2 more