› 4ha6

X-ray diffraction
2.1Å resolution

Crystal structure of pyridoxine 4-oxidase - pyridoxamine complex

Released:
DOI: 10.2210/pdb4ha6/pdb
PDB entry 4ha6 coloured by chain, front view.
PDB entry 4ha6 coloured by chain, side view.
PDB entry 4ha6 coloured by chain, top view.
Source organism: Mesorhizobium loti
Primary publication:
Crystal structure of pyridoxine 4-oxidase from Mesorhizobium loti.
Mugo AN, Kobayashi J, Yamasaki T, Mikami B, Ohnishi K, Yoshikane Y, Yagi T
Biochim Biophys Acta 1834 953-63 (2013)
PMID: 23501672

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-177730 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Glucose-methanol-choline oxidoreductase N-terminal domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 508 amino acids
Theoretical weight: 54.73 KDa
Source organism: Mesorhizobium loti
Expression system: Escherichia coli
UniProt:
  • Canonical: Q5NT46 (Residues: 17-520; Coverage: 97%)
Gene name: pno
Sequence domains:
Structure domains:

Ligands and Environments


Cofactor: Ligand FAD 1 x FAD
2 bound ligands:
Ligand GOL 7 x GOL
Ligand PXM 1 x PXM
1 modified residue:
Ligand CME 2 x CME

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL38B1
Spacegroup: P212121
Unit cell:
a: 62.489Å b: 79.169Å c: 135.219Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.188 0.186 0.233
Expression system: Escherichia coli

Quick links

Citations

2 review citations

The substrate oxidation mechanism of pyranose 2-oxidase and other related enzymes in the glucose-methanol-choline superfamily.
Wongnate et al. (2013)
1 more

5 mentions without citation

Glucose Oxidase, an Enzyme "Ferrari": Its Structure, Function, Production and Properties in the Light of Various Industrial and Biotechnological Applications.
Bauer et al. (2022)
4 more