SMTL ID : 1ulj.1

Biphenyl dioxygenase (BphA1A2) in complex with the substrate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-3-3-mer

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.3 FE2.4: 5 residues within 4Å: Chain C: Q.217, H.224, H.230, D.378 Ligands: BNL.6 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:H.224, C:H.230, C:D.378, C:D.378 FE2.7: 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.2: 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.8: 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.3: 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.6: 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: FE2.4 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   PDBe-KB   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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