- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.77 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x FMT: FORMIC ACID(Non-functional Binders)
- 4 x ZN: ZINC ION(Non-covalent)
ZN.2: 6 residues within 4Å:- Chain A: H.22, H.24, D.268
- Ligands: FMT.1, ZN.3, UCJ.8
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:H.22, A:H.24, A:D.268
ZN.3: 6 residues within 4Å:- Chain A: W.98, H.168, H.197
- Ligands: FMT.1, ZN.2, UCJ.8
2 PLIP interactions:2 interactions with chain A- Metal complexes: A:H.168, A:H.197
ZN.13: 6 residues within 4Å:- Chain B: H.22, H.24, D.268
- Ligands: FMT.12, ZN.14, UCJ.19
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, UCJ.19
2 PLIP interactions:2 interactions with chain B- Metal complexes: B:H.168, B:H.197
- 6 x GOL: GLYCEROL(Non-functional Binders)
GOL.4: 7 residues within 4Å:- Chain B: A.30, G.31, R.34, G.74, R.75, D.76, E.126
9 PLIP interactions:9 interactions with chain B- Hydrogen bonds: B:G.31, B:R.34, B:G.74, B:E.126
- Water bridges: B:G.31, B:F.32, B:L.33, B:V.77, B:V.77
GOL.5: 6 residues within 4Å:- Chain A: D.200, A.237, L.238, L.239, G.240, R.247
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:D.200, A:R.247
GOL.6: 3 residues within 4Å:- Chain A: K.261, T.319, R.323
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:K.261, A:R.323
GOL.15: 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:G.74, A:E.126
- Water bridges: A:G.31, A:F.32, A:L.33, A:V.77, A:V.77
GOL.16: 6 residues within 4Å:- Chain B: D.200, A.237, L.238, L.239, G.240, R.247
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:D.200, B:R.247
GOL.17: 3 residues within 4Å:- Chain B: K.261, T.319, R.323
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:K.261, B:R.323
- 2 x E8N: 1-ethyl-1-methyl-cyclohexane(Covalent)
E8N.7: 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.18: 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 UCJ: propan-2-yl hydrogen (S)-methylphosphonate(Non-covalent)
UCJ.8: 13 residues within 4Å:- Chain A: H.22, H.24, I.73, W.98, H.168, H.197, D.268, L.270, F.273, S.275
- Ligands: FMT.1, ZN.2, ZN.3
4 PLIP interactions:4 interactions with chain A- Hydrophobic interactions: A:I.73, A:W.98, A:L.270, A:F.273
UCJ.19: 13 residues within 4Å:- Chain B: H.22, H.24, I.73, W.98, H.168, H.197, D.268, L.270, F.273, S.275
- Ligands: FMT.12, ZN.13, ZN.14
5 PLIP interactions:5 interactions with chain B- Hydrophobic interactions: B:I.73, B:W.98, B:L.270, B:F.273
- Hydrogen bonds: B:H.197
- 6 x SO4: SULFATE ION(Non-functional Binders)
SO4.9: 4 residues within 4Å:- Chain A: S.172, T.201, D.202, D.203
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:D.202, A:D.203
- Water bridges: A:S.172, A:D.203, A:R.242
SO4.10: 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
SO4.11: 3 residues within 4Å:- Chain A: K.49, R.52, R.56
5 PLIP interactions:5 interactions with chain A- Water bridges: A:K.49, A:R.56
- Salt bridges: A:K.49, A:R.52, A:R.56
SO4.20: 4 residues within 4Å:- Chain B: S.172, T.201, D.202, D.203
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:T.201, B:D.202, B:D.203
- Water bridges: B:S.172, B:R.242
SO4.21: 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
SO4.22: 3 residues within 4Å:- Chain B: K.49, R.52, R.56
5 PLIP interactions:5 interactions with chain B- Water bridges: B:K.49, B:R.56
- Salt bridges: B:K.49, B:R.52, B:R.56
- 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 1.77 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x FMT: FORMIC ACID(Non-functional Binders)
- 4 x ZN: ZINC ION(Non-covalent)
- 6 x GOL: GLYCEROL(Non-functional Binders)
- 2 x E8N: 1-ethyl-1-methyl-cyclohexane(Covalent)
- 2 x UCJ: propan-2-yl hydrogen (S)-methylphosphonate(Non-covalent)
- 6 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