SMTL ID : 2yfl.2 (1 other biounit)

Crystal Structure of Biphenyl dioxygenase variant RR41 with 2-chloro dibenzofuran

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-3-3-mer

Ligands

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

FES.1: 8 residues within 4Å: Chain A: C.100, H.102, R.103, 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.4: 9 residues within 4Å: Chain C: C.100, H.102, R.103, G.104, M.105, C.120, Y.122, H.123, 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.7: 8 residues within 4Å: Chain E: C.100, H.102, R.103, M.105, C.120, Y.122, H.123, 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: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.233, A:H.239, A:D.388, A:D.388, H2O.2 FE2.5: 5 residues within 4Å: Chain C: Q.226, H.233, H.239, D.388 Ligands: DC4.6 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:H.233, C:H.239, C:D.388, C:D.388, H2O.4 FE2.8: 4 residues within 4Å: Chain E: Q.226, H.233, H.239, D.388 5 PLIP interactions: 4 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:H.233, E:H.239, E:D.388, E:D.388, H2O.7

2 x DC4: 2-CHLORODIBENZOFURAN(Non-covalent)

DC4.3: 12 residues within 4Å: Chain A: Q.226, F.227, D.230, M.231, H.233, S.283, V.287, H.323, L.333, M.336, F.378, F.384 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Q.226, A:F.227, A:V.287, A:H.323, A:F.378, A:F.384 pi-Stacking: A:H.233 Halogen bonds: A:S.283 DC4.6: 11 residues within 4Å: Chain C: Q.226, F.227, D.230, M.231, H.233, H.323, L.333, F.378, F.384, D.388 Ligands: FE2.5 9 PLIP interactions: 9 interactions with chain C Hydrophobic interactions: C:Q.226, C:F.227, C:H.323, C:L.333, C:L.333, C:F.378, C:F.384 pi-Stacking: C:H.233, C:H.239

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumar, P. et al., Structural Insights Into the Metabolism of 2-Chlorodibenzofuran by an Evolved Biphenyl Dioxygenase. Biochem.Biophys.Res.Commun. (2012)

Release Date

2012-05-16

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

B
B

D
D

F
F

BIPHENYL DIOXYGENASE SUBUNIT ALPHA

BIPHENYL DIOXYGENASE SUBUNIT BETA

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