› 1kw3

X-ray diffraction
1.45Å resolution

Crystal structure of 2,3-dihydroxybiphenyal dioxygenase (BphC) at 1.45 A resolution

Released:
DOI: 10.2210/pdb1kw3/pdb
PDB entry 1kw3 coloured by chain, front view.
PDB entry 1kw3 coloured by chain, side view.
PDB entry 1kw3 coloured by chain, top view.
Source organism: Pseudomonas sp. KKS102
Primary publication:
Crystal structures of the reaction intermediate and its homologue of an extradiol-cleaving catecholic dioxygenase.
Sato N, Uragami Y, Nishizaki T, Takahashi Y, Sazaki G, Sugimoto K, Nonaka T, Masai E, Fukuda M, Senda T
J Mol Biol 321 621-36 (2002)
PMID: 12206778

Function and Biology Details

Reaction catalysed: 
Biphenyl-2,3-diol + O(2) = 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo octamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-148024 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Biphenyl-2,3-diol 1,2-dioxygenase Chain: B
Molecule details ›
Chain: B
Length: 292 amino acids
Theoretical weight: 32.15 KDa
Source organism: Pseudomonas sp. KKS102
Expression system: Escherichia coli
UniProt:
  • Canonical: P17297 (Residues: 2-293; Coverage: 100%)
Gene name: bphC
Sequence domains:
Structure domains: 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1

Ligands and Environments

2 bound ligands:
Ligand FE2 1 x FE2
Ligand MPD 2 x MPD
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-6A
Spacegroup: I422
Unit cell:
a: 121.76Å b: 121.76Å c: 108.91Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.162 0.161 0.177
Expression system: Escherichia coli

Quick links

Citations

8 review citations

Versatility of biological non-heme Fe(II) centers in oxygen activation reactions.
Kovaleva et al. (2008)
7 more

2 mentions without citation

Spectroscopic studies of the mononuclear non-heme Fe(II) enzyme FIH: second-sphere contributions to reactivity.
Light et al. (2013)
1 more