SMTL ID : 3oqe.1

Structure of OpdA mutant Y257F

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

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

CO.1: 6 residues within 4Å: Chain A: H.23, H.25, K.137, D.269 Ligands: CO.2, EDO.4 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.23, A:H.25, A:D.269, H2O.3 CO.2: 6 residues within 4Å: Chain A: W.99, K.137, H.169, H.198 Ligands: CO.1, EDO.4 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.169, A:H.198, H2O.3, H2O.3 CO.5: 6 residues within 4Å: Chain B: H.23, H.25, K.137, D.269 Ligands: CO.6, EDO.8 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.23, B:H.25, B:D.269, H2O.22 CO.6: 6 residues within 4Å: Chain B: W.99, K.137, H.169, H.198 Ligands: CO.5, EDO.8 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.169, B:H.198, H2O.22, H2O.22

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 5 residues within 4Å: Chain A: W.99, F.274, S.276, Y.277 Chain B: M.108 No protein-ligand interaction detected (PLIP) EDO.4: 7 residues within 4Å: Chain A: H.25, I.74, W.99, K.137, D.269 Ligands: CO.1, CO.2 2 PLIP interactions: 2 interactions with chain A Water bridges: A:S.276, A:S.276 EDO.7: 5 residues within 4Å: Chain A: M.108 Chain B: W.99, F.274, S.276, Y.277 No protein-ligand interaction detected (PLIP) EDO.8: 7 residues within 4Å: Chain B: H.25, I.74, W.99, K.137, D.269 Ligands: CO.5, CO.6 2 PLIP interactions: 2 interactions with chain B Water bridges: B:S.276, B:S.276

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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