› 2y99

X-ray diffraction
2.5Å resolution

Crystal Structure of cis-Biphenyl-2,3-dihydrodiol-2,3-dehydrogenase (BphB)from Pandoraea pnomenusa strain B-356 complex with co-enzyme NAD

Released:
DOI: 10.2210/pdb2y99/pdb
PDB entry 2y99 coloured by chain, front view.
PDB entry 2y99 coloured by chain, side view.
PDB entry 2y99 coloured by chain, top view.
Source organism: Comamonas testosteroni
Primary publication:
Biochemical studies and ligand-bound structures of biphenyl dehydrogenase from Pandoraea pnomenusa strain B-356 reveal a basis for broad specificity of the enzyme.
Dhindwal S, Patil DN, Mohammadi M, Sylvestre M, Tomar S, Kumar P
J Biol Chem 286 37011-22 (2011)
PMID: 21880718

Function and Biology Details

Reaction catalysed: 
Cis-3-phenylcyclohexa-3,5-diene-1,2-diol + NAD(+) = biphenyl-2,3-diol + NADH
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-175113 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase Chains: A, B
Molecule details ›
Chains: A, B
Length: 281 amino acids
Theoretical weight: 29.38 KDa
Source organism: Comamonas testosteroni
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q46381 (Residues: 1-281; Coverage: 100%)
Gene name: bphB
Sequence domains: short chain dehydrogenase
Structure domains: NAD(P)-binding Rossmann-like Domain

Ligands and Environments


Cofactor: Ligand NAD 2 x NAD
No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: BRUKER AXS MICROSTAR-H
Spacegroup: P43212
Unit cell:
a: 76.14Å b: 76.14Å c: 179.99Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.22 0.217 0.286
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

2 review citations

Occurrence of lignin degradation genotypes and phenotypes among prokaryotes.
Tian et al. (2014)
1 more

2 mentions without citation

Biochemical studies and ligand-bound structures of biphenyl dehydrogenase from Pandoraea pnomenusa strain B-356 reveal a basis for broad specificity of the enzyme.
Dhindwal et al. (2011)
1 more