› 3lm4

X-ray diffraction
1.8Å resolution

Crystal Structure of 2,3-Dihydroxy Biphenyl dioxygenase from Rhodococcus sp. (strain RHA1)

Released:
DOI: 10.2210/pdb3lm4/pdb
PDB entry 3lm4 coloured by chain, front view.
PDB entry 3lm4 coloured by chain, side view.
PDB entry 3lm4 coloured by chain, top view.
Source organism: Rhodococcus jostii RHA1
Entry authors: Syed Ibrahim B, Kumaran D, Burley SK, Swaminathan S, New York SGX Research Center for Structural Genomics (NYSGXRC)

Function and Biology Details

Reaction catalysed: 
Catechol + O(2) = 2-hydroxymuconate-6-semialdehyde
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-171133 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
VOC domain-containing protein Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 339 amino acids
Theoretical weight: 38.83 KDa
Source organism: Rhodococcus jostii RHA1
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q0S9X1 (Residues: 3-330; Coverage: 91%)
Gene name: RHA1_ro03865
Sequence domains: Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily
Structure domains: 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1

Ligands and Environments

3 bound ligands:
Ligand FE 4 x FE
Ligand PEO 4 x PEO
Ligand HPX 4 x HPX
1 modified residue:
Ligand MSE 40 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: P212121
Unit cell:
a: 74.923Å b: 76.189Å c: 251.373Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.184 0.184 0.21
Expression system: Escherichia coli BL21(DE3)

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