› 3abg

X-ray diffraction
2.3Å resolution

X-ray Crystal Analysis of Bilirubin Oxidase from Myrothecium verrucaria at 2.3 angstrom Resolution using a Twin Crystal

Released:
DOI: 10.2210/pdb3abg/pdb
PDB entry 3abg coloured by chain, front view.
PDB entry 3abg coloured by chain, side view.
PDB entry 3abg coloured by chain, top view.
Source organism: Albifimbria verrucaria
Primary publication:
X-ray analysis of bilirubin oxidase from Myrothecium verrucaria at 2.3 A resolution using a twinned crystal.
Mizutani K, Toyoda M, Sagara K, Takahashi N, Sato A, Kamitaka Y, Tsujimura S, Nakanishi Y, Sugiura T, Yamaguchi S, Kano K, Mikami B
Acta Crystallogr Sect F Struct Biol Cryst Commun 66 765-70 (2010)
PMID: 20606269

Function and Biology Details

Reaction catalysed: 
2 bilirubin + O(2) = 2 biliverdin + 2 H(2)O
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-171387 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (4 distinct):
Bilirubin oxidase Chains: A, B
Molecule details ›
Chains: A, B
Length: 534 amino acids
Theoretical weight: 60.01 KDa
Source organism: Albifimbria verrucaria
UniProt:
  • Canonical: Q12737 (Residues: 39-572; Coverage: 97%)
Sequence domains:
Structure domains: Cupredoxins - blue copper proteins

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
3 bound ligands:
Ligand CU 8 x CU
Ligand OXY 2 x OXY
Ligand GOL 8 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL38B1
Spacegroup: P63
Unit cell:
a: 139.742Å b: 139.742Å c: 135.561Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.173 0.158 0.186

Quick links

Citations

4 review citations

Three-dimensional structures of laccases.
Hakulinen et al. (2015)
3 more

1 mention without citation

X-ray analysis of bilirubin oxidase from Myrothecium verrucaria at 2.3 A resolution using a twinned crystal.
Mizutani et al. (2010)