SMTL ID : 1ulj.1

Biphenyl dioxygenase (BphA1A2) in complex with the substrate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-oligomer

Ligands

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

FE2.1: 4 residues within 4Å: Chain A: Q.217, H.224, H.230, D.378 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.224, A:H.230, A:D.378, A:D.378, H2O.5712 FE2.2: 5 residues within 4Å: Chain C: Q.217, H.224, H.230, D.378 Ligands: BNL.8 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:H.224, C:H.230, C:D.378, C:D.378 FE2.3: 4 residues within 4Å: Chain E: Q.217, H.224, H.230, D.378 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:H.224, E:H.230, E:D.378, E:D.378

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

FES.4: 10 residues within 4Å: Chain A: C.98, H.100, R.101, G.102, M.103, C.118, Y.120, H.121, G.122, W.123 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.98, A:H.100, A:C.118, A:H.121 FES.5: 10 residues within 4Å: Chain C: C.98, H.100, R.101, G.102, M.103, C.118, Y.120, H.121, G.122, W.123 4 PLIP interactions: 4 interactions with chain C, Metal complexes: C:C.98, C:H.100, C:C.118, C:H.121 FES.6: 10 residues within 4Å: Chain E: C.98, H.100, R.101, G.102, M.103, C.118, Y.120, H.121, G.122, W.123 4 PLIP interactions: 4 interactions with chain E, Metal complexes: E:C.98, E:H.100, E:C.118, E:H.121

3 x BNL: BIPHENYL(Non-covalent)

BNL.7: 14 residues within 4Å: Chain A: Q.217, F.218, D.221, M.222, H.224, A.225, H.230, L.274, I.278, A.311, H.313, L.323, F.368, F.374 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:A.225, A:L.274, A:I.278, A:A.311, A:H.313, A:L.323, A:F.368, A:F.368, A:F.374 pi-Stacking: A:F.218, A:H.224 BNL.8: 12 residues within 4Å: Chain C: Q.217, F.218, D.221, M.222, H.224, A.225, H.230, I.278, H.313, F.368, F.374 Ligands: FE2.2 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:A.225, C:I.278, C:H.313, C:F.374 pi-Stacking: C:F.218, C:H.224, C:F.368 BNL.9: 13 residues within 4Å: Chain E: Q.217, F.218, D.221, M.222, H.224, A.225, H.230, I.278, A.311, H.313, L.323, F.368, F.374 9 PLIP interactions: 9 interactions with chain E Hydrophobic interactions: E:A.225, E:I.278, E:A.311, E:H.313, E:L.323, E:F.368, E:F.374 pi-Stacking: E:F.218, E:H.224

Links

RCSB   PDBe   PDBj   PDBsum   CATH   PLIP

Citation

Furusawa, Y. et al., Crystal Structure of the Terminal Oxygenase Component of Biphenyl Dioxygenase Derived from Rhodococcus sp. Strain RHA1. J.Mol.Biol. (2004)

Release Date

2004-09-28

Peptides

biphenyl dioxygenase large subunit: ACE
biphenyl dioxygenase small subunit: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

B
B

D
D

F
F

biphenyl dioxygenase large subunit

biphenyl dioxygenase small subunit

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