SMTL ID : 5aeu.2 (1 other biounit)

Crystal structure of II9 variant of Biphenyl dioxygenase from Burkholderia xenovorans LB400

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.49 Å

Oligo State

hetero-3-3-mer

Ligands

3 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)

FES.1: 10 residues within 4Å: Chain A: C.100, H.102, R.103, G.104, M.105, C.120, Y.122, H.123, G.124, W.125 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.100, A:H.102, A:C.120, A:H.123 FES.3: 10 residues within 4Å: Chain C: C.100, H.102, R.103, G.104, M.105, C.120, Y.122, H.123, G.124, W.125 4 PLIP interactions: 4 interactions with chain C, Metal complexes: C:C.100, C:H.102, C:C.120, C:H.123 FES.5: 10 residues within 4Å: Chain E: C.100, H.102, R.103, G.104, M.105, C.120, Y.122, H.123, G.124, W.125 4 PLIP interactions: 4 interactions with chain E, Metal complexes: E:C.100, E:H.102, E:C.120, E:H.123

3 x FE2: FE (II) ION(Non-covalent)

FE2.2: 4 residues within 4Å: Chain A: Q.226, H.233, H.239, D.388 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.233, A:H.239, A:D.388, H2O.3, H2O.3 FE2.4: 4 residues within 4Å: Chain C: Q.226, H.233, H.239, D.388 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:H.233, C:H.239, C:D.388, H2O.9, H2O.9 FE2.6: 4 residues within 4Å: Chain E: Q.226, H.233, H.239, D.388 5 PLIP interactions: 3 interactions with chain E, 2 Ligand-Water interactions Metal complexes: E:H.233, E:H.239, E:D.388, H2O.15, H2O.15

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumar, P. et al., Structural Basis of the Enhanced Pollutant-Degrading Capabilities of an Engineered Biphenyl Dioxygenase. J.Bacteriol. (2016)

Release Date

2016-04-06

Peptides

BIPHENYL DIOXYGENASE SUBUNIT ALPHA: ACE
BIPHENYL DIOXYGENASE SUBUNIT BETA: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

B
B

D
B

F
B

BIPHENYL DIOXYGENASE SUBUNIT ALPHA

BIPHENYL DIOXYGENASE SUBUNIT BETA

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