- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.74 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 2 x FMT: FORMIC ACID(Non-functional Binders)
- 4 x ZN: ZINC ION(Non-covalent)
ZN.3: 7 residues within 4Å:- Chain A: H.22, H.24, V.68, D.268
- Ligands: FMT.2, ZN.4, GB.6
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:H.22, A:H.24, A:D.268
ZN.4: 6 residues within 4Å:- Chain A: W.98, H.168, H.197
- Ligands: FMT.2, ZN.3, GB.6
2 PLIP interactions:2 interactions with chain A- Metal complexes: A:H.168, A:H.197
ZN.13: 7 residues within 4Å:- Chain B: H.22, H.24, V.68, D.268
- Ligands: FMT.12, ZN.14, GB.16
3 PLIP interactions:3 interactions with chain B- Metal complexes: B:H.22, B:H.24, B:D.268
ZN.14: 6 residues within 4Å:- Chain B: W.98, H.168, H.197
- Ligands: FMT.12, ZN.13, GB.16
2 PLIP interactions:2 interactions with chain B- Metal complexes: B:H.168, B:H.197
- 2 x E8N: 1-ethyl-1-methyl-cyclohexane(Covalent)
E8N.5: 4 residues within 4Å:- Chain A: I.255, V.308, S.309, T.312
3 PLIP interactions:3 interactions with chain A- Hydrophobic interactions: A:I.255, A:V.308, A:T.312
E8N.15: 4 residues within 4Å:- Chain B: I.255, V.308, S.309, T.312
3 PLIP interactions:3 interactions with chain B- Hydrophobic interactions: B:I.255, B:V.308, B:T.312
- 2 x GB: METHYLPHOSPHONIC ACID ESTER GROUP(Non-covalent)
GB.6: 9 residues within 4Å:- Chain A: H.22, H.24, W.98, H.168, H.197, D.268
- Ligands: FMT.2, ZN.3, ZN.4
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:D.268
GB.16: 9 residues within 4Å:- Chain B: H.22, H.24, W.98, H.168, H.197, D.268
- Ligands: FMT.12, ZN.13, ZN.14
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:H.197, B:D.268
- 4 x GOL: GLYCEROL(Non-functional Binders)
GOL.7: 8 residues within 4Å:- Chain A: Y.123, G.124, I.125, E.126, D.127, T.128, G.129
- Ligands: EDO.1
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:G.124, A:G.129
GOL.8: 7 residues within 4Å:- Chain A: A.30, G.31, R.34, G.74, R.75, D.76, E.126
9 PLIP interactions:9 interactions with chain A- Hydrogen bonds: A:G.31, A:R.34, A:R.34, A:G.74, A:E.126
- Water bridges: A:F.32, A:L.33, A:V.77, A:E.126
GOL.17: 8 residues within 4Å:- Chain B: Y.123, G.124, I.125, E.126, D.127, T.128, G.129
- Ligands: EDO.11
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:G.124, B:G.129
- Water bridges: B:Y.123
GOL.18: 7 residues within 4Å:- Chain B: A.30, G.31, R.34, G.74, R.75, D.76, E.126
8 PLIP interactions:8 interactions with chain B- Hydrogen bonds: B:G.31, B:R.34, B:R.34, B:G.74, B:E.126
- Water bridges: B:F.32, B:L.33, B:V.77
- 4 x SO4: SULFATE ION(Non-functional Binders)
SO4.9: 3 residues within 4Å:- Chain A: W.244, Q.245, R.298
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:W.244, A:Q.245
- Salt bridges: A:R.298
SO4.10: 3 residues within 4Å:- Chain A: K.261, T.319, R.323
2 PLIP interactions:2 interactions with chain A- Salt bridges: A:K.261, A:R.323
SO4.19: 3 residues within 4Å:- Chain B: W.244, Q.245, R.298
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:W.244, B:Q.245
- Salt bridges: B:R.298
SO4.20: 3 residues within 4Å:- Chain B: K.261, T.319, R.323
2 PLIP interactions:2 interactions with chain B- Salt bridges: B:K.261, B:R.323
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Dym, O. et al., The impact of molecular variants, crystallization conditions and the space group on ligand-protein complexes: a case study on bacterial phosphotriesterase. Acta Crystallogr D Struct Biol (2023)
- Release Date
- 2023-10-25
- Peptides
- Parathion hydrolase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.74 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 2 x FMT: FORMIC ACID(Non-functional Binders)
- 4 x ZN: ZINC ION(Non-covalent)
- 2 x E8N: 1-ethyl-1-methyl-cyclohexane(Covalent)
- 2 x GB: METHYLPHOSPHONIC ACID ESTER GROUP(Non-covalent)
- 4 x GOL: GLYCEROL(Non-functional Binders)
- 4 x SO4: SULFATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Dym, O. et al., The impact of molecular variants, crystallization conditions and the space group on ligand-protein complexes: a case study on bacterial phosphotriesterase. Acta Crystallogr D Struct Biol (2023)
- Release Date
- 2023-10-25
- Peptides
- Parathion hydrolase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A