SMTL ID : 3ood.1

Structure of OpdA Y257F mutant soaked with diethyl 4-methoxyphenyl phosphate for 20 hours.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.89 Å

Oligo State

homo-dimer

Ligands

4 x CO: COBALT (II) ION(Non-covalent)

CO.1: 5 residues within 4Å: Chain A: H.23, H.25, K.137, D.269 Ligands: CO.2 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.23, A:H.25, A:D.269, H2O.4, H2O.6 CO.2: 7 residues within 4Å: Chain A: W.99, K.137, H.169, H.198, R.222 Ligands: CO.1, EPL.3 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.169, A:H.198, H2O.6 CO.4: 5 residues within 4Å: Chain B: H.23, H.25, K.137, D.269 Ligands: CO.5 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.23, B:H.25, B:D.269, H2O.21, H2O.23 CO.5: 7 residues within 4Å: Chain B: W.99, K.137, H.169, H.198, R.222 Ligands: CO.4, EPL.6 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.169, B:H.198, H2O.23

2 x EPL: DIETHYL 4-METHOXYPHENYL PHOSPHATE(Non-covalent)

EPL.3: 17 residues within 4Å: Chain A: H.25, G.28, I.74, W.99, F.100, H.169, R.222, F.225, L.239, D.269, L.271, F.274, S.276, Y.277 Chain B: L.104, M.108 Ligands: CO.2 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:I.74, A:W.99, A:F.225, A:F.274, A:Y.277 Hydrogen bonds: A:S.276 Water bridges: A:R.222, A:R.222, A:R.222, A:R.222 Salt bridges: A:R.222 EPL.6: 17 residues within 4Å: Chain A: L.104, M.108 Chain B: H.25, G.28, I.74, W.99, F.100, H.169, R.222, F.225, L.239, D.269, L.271, F.274, S.276, Y.277 Ligands: CO.5 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:I.74, B:W.99, B:F.225, B:F.274, B:Y.277 Hydrogen bonds: B:S.276 Water bridges: B:R.222, B:R.222, B:R.222, B:R.222 Salt bridges: B:R.222

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ely, F. et al., The organophosphate-degrading enzyme from Agrobacterium radiobacter displays mechanistic flexibility for catalysis. Biochem.J. (2010)

Release Date

2011-11-02

Peptides

Phosphotriesterase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Phosphotriesterase

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