SMTL ID : 3gzy.1

Crystal Structure of the Biphenyl Dioxygenase from Comamonas testosteroni Sp. Strain B-356

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.62 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.226, H.233, H.239, D.386 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.233, A:H.239, A:D.386, A:D.386, H2O.3 FE2.4: 4 residues within 4Å: Chain C: Q.226, H.233, H.239, D.386 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:H.233, C:H.239, C:D.386, C:D.386, H2O.25 FE2.7: 4 residues within 4Å: Chain E: Q.226, H.233, H.239, D.386 5 PLIP interactions: 4 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:H.233, E:H.239, E:D.386, E:D.386, H2O.47

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

FES.2: 9 residues within 4Å: Chain A: C.100, H.102, R.103, 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.5: 9 residues within 4Å: Chain C: C.100, H.102, R.103, 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.8: 9 residues within 4Å: Chain E: C.100, H.102, R.103, 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 MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.3: 3 residues within 4Å: Chain B: R.118, M.120, D.121 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:D.121, B:D.121 Water bridges: B:T.122 Salt bridges: B:R.118, B:D.121 MES.6: 3 residues within 4Å: Chain D: R.118, M.120, D.121 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:D.121, D:D.121 Water bridges: D:T.122 Salt bridges: D:R.118, D:D.121 MES.9: 3 residues within 4Å: Chain F: R.118, M.120, D.121 5 PLIP interactions: 5 interactions with chain F Hydrogen bonds: F:D.121, F:D.121 Water bridges: F:T.122 Salt bridges: F:R.118, F:D.121

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Colbert, C.L. et al., Structural Characterization of Pandoraea pnomenusa B-356 Biphenyl Dioxygenase Reveals Features of Potent Polychlorinated Biphenyl-Degrading Enzymes. Plos One (2013)

Release Date

2010-05-05

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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