- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.85 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x HPA: HYPOXANTHINE(Non-covalent)
- 18 x CL: CHLORIDE ION(Non-functional Binders)
CL.2: 3 residues within 4Å:- Chain A: F.174, N.181, S.184
Ligand excluded by PLIPCL.3: 2 residues within 4Å:- Chain A: K.75, K.76
Ligand excluded by PLIPCL.4: 5 residues within 4Å:- Chain A: G.40, R.107, G.109, S.110
- Ligands: GOL.8
Ligand excluded by PLIPCL.10: 3 residues within 4Å:- Chain B: F.174, N.181, S.184
Ligand excluded by PLIPCL.11: 2 residues within 4Å:- Chain B: K.75, K.76
Ligand excluded by PLIPCL.12: 5 residues within 4Å:- Chain B: G.40, R.107, G.109, S.110
- Ligands: GOL.16
Ligand excluded by PLIPCL.18: 3 residues within 4Å:- Chain C: F.174, N.181, S.184
Ligand excluded by PLIPCL.19: 2 residues within 4Å:- Chain C: K.75, K.76
Ligand excluded by PLIPCL.20: 5 residues within 4Å:- Chain C: G.40, R.107, G.109, S.110
- Ligands: GOL.24
Ligand excluded by PLIPCL.26: 3 residues within 4Å:- Chain D: F.174, N.181, S.184
Ligand excluded by PLIPCL.27: 2 residues within 4Å:- Chain D: K.75, K.76
Ligand excluded by PLIPCL.28: 5 residues within 4Å:- Chain D: G.40, R.107, G.109, S.110
- Ligands: GOL.32
Ligand excluded by PLIPCL.34: 3 residues within 4Å:- Chain E: F.174, N.181, S.184
Ligand excluded by PLIPCL.35: 2 residues within 4Å:- Chain E: K.75, K.76
Ligand excluded by PLIPCL.36: 5 residues within 4Å:- Chain E: G.40, R.107, G.109, S.110
- Ligands: GOL.40
Ligand excluded by PLIPCL.42: 3 residues within 4Å:- Chain F: F.174, N.181, S.184
Ligand excluded by PLIPCL.43: 2 residues within 4Å:- Chain F: K.75, K.76
Ligand excluded by PLIPCL.44: 5 residues within 4Å:- Chain F: G.40, R.107, G.109, S.110
- Ligands: GOL.48
Ligand excluded by PLIP- 12 x ACT: ACETATE ION(Non-functional Binders)
ACT.5: 4 residues within 4Å:- Chain A: K.46, C.58, E.61, Y.66
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:E.61
- Salt bridges: A:K.46
ACT.6: 6 residues within 4Å:- Chain A: M.84, F.179, M.199
- Chain D: H.24, R.63
- Ligands: GOL.8
4 PLIP interactions:3 interactions with chain D, 1 interactions with chain A- Water bridges: D:R.63
- Salt bridges: D:H.24, D:R.63
- Hydrophobic interactions: A:F.179
ACT.13: 4 residues within 4Å:- Chain B: K.46, C.58, E.61, Y.66
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:E.61
- Salt bridges: B:K.46
ACT.14: 6 residues within 4Å:- Chain B: M.84, F.179, M.199
- Chain F: H.24, R.63
- Ligands: GOL.16
4 PLIP interactions:3 interactions with chain F, 1 interactions with chain B- Water bridges: F:R.63
- Salt bridges: F:H.24, F:R.63
- Hydrophobic interactions: B:F.179
ACT.21: 4 residues within 4Å:- Chain C: K.46, C.58, E.61, Y.66
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:E.61
- Salt bridges: C:K.46
ACT.22: 6 residues within 4Å:- Chain C: M.84, F.179, M.199
- Chain E: H.24, R.63
- Ligands: GOL.24
4 PLIP interactions:1 interactions with chain C, 3 interactions with chain E- Hydrophobic interactions: C:F.179
- Water bridges: E:R.63
- Salt bridges: E:H.24, E:R.63
ACT.29: 4 residues within 4Å:- Chain D: K.46, C.58, E.61, Y.66
1 PLIP interactions:1 interactions with chain D- Salt bridges: D:K.46
ACT.30: 6 residues within 4Å:- Chain A: H.24, R.63
- Chain D: M.84, F.179, M.199
- Ligands: GOL.32
4 PLIP interactions:3 interactions with chain A, 1 interactions with chain D- Water bridges: A:R.63
- Salt bridges: A:H.24, A:R.63
- Hydrophobic interactions: D:F.179
ACT.37: 4 residues within 4Å:- Chain E: K.46, C.58, E.61, Y.66
1 PLIP interactions:1 interactions with chain E- Salt bridges: E:K.46
ACT.38: 6 residues within 4Å:- Chain C: H.24, R.63
- Chain E: M.84, F.179, M.199
- Ligands: GOL.40
4 PLIP interactions:1 interactions with chain E, 3 interactions with chain C- Hydrophobic interactions: E:F.179
- Water bridges: C:R.63
- Salt bridges: C:H.24, C:R.63
ACT.45: 4 residues within 4Å:- Chain F: K.46, C.58, E.61, Y.66
1 PLIP interactions:1 interactions with chain F- Salt bridges: F:K.46
ACT.46: 6 residues within 4Å:- Chain B: H.24, R.63
- Chain F: M.84, F.179, M.199
- Ligands: GOL.48
4 PLIP interactions:3 interactions with chain B, 1 interactions with chain F- Water bridges: B:R.63
- Salt bridges: B:H.24, B:R.63
- Hydrophobic interactions: F:F.179
- 12 x GOL: GLYCEROL(Non-functional Binders)
GOL.7: 5 residues within 4Å:- Chain A: E.50, T.51, Y.52, L.53, E.54
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:L.53, A:E.54
GOL.8: 11 residues within 4Å:- Chain A: M.84, R.107, S.110, C.111, V.197, E.198, M.199, E.200
- Ligands: HPA.1, CL.4, ACT.6
7 PLIP interactions:5 interactions with chain A, 2 interactions with chain D- Hydrogen bonds: A:R.107, A:M.199, A:E.200
- Water bridges: A:S.110, A:C.111, D:R.63, D:R.63
GOL.15: 5 residues within 4Å:- Chain B: E.50, T.51, Y.52, L.53, E.54
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:L.53, B:E.54
GOL.16: 11 residues within 4Å:- Chain B: M.84, R.107, S.110, C.111, V.197, E.198, M.199, E.200
- Ligands: HPA.9, CL.12, ACT.14
7 PLIP interactions:5 interactions with chain B, 2 interactions with chain F- Hydrogen bonds: B:R.107, B:M.199, B:E.200
- Water bridges: B:S.110, B:C.111, F:R.63, F:R.63
GOL.23: 5 residues within 4Å:- Chain C: E.50, T.51, Y.52, L.53, E.54
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:L.53, C:E.54
GOL.24: 11 residues within 4Å:- Chain C: M.84, R.107, S.110, C.111, V.197, E.198, M.199, E.200
- Ligands: HPA.17, CL.20, ACT.22
7 PLIP interactions:5 interactions with chain C, 2 interactions with chain E- Hydrogen bonds: C:R.107, C:M.199, C:E.200
- Water bridges: C:S.110, C:C.111, E:R.63, E:R.63
GOL.31: 5 residues within 4Å:- Chain D: E.50, T.51, Y.52, L.53, E.54
1 PLIP interactions:1 interactions with chain D- Hydrogen bonds: D:L.53
GOL.32: 11 residues within 4Å:- Chain D: M.84, R.107, S.110, C.111, V.197, E.198, M.199, E.200
- Ligands: HPA.25, CL.28, ACT.30
7 PLIP interactions:2 interactions with chain A, 5 interactions with chain D- Water bridges: A:R.63, A:R.63, D:S.110, D:C.111
- Hydrogen bonds: D:R.107, D:M.199, D:E.200
GOL.39: 5 residues within 4Å:- Chain E: E.50, T.51, Y.52, L.53, E.54
1 PLIP interactions:1 interactions with chain E- Hydrogen bonds: E:L.53
GOL.40: 11 residues within 4Å:- Chain E: M.84, R.107, S.110, C.111, V.197, E.198, M.199, E.200
- Ligands: HPA.33, CL.36, ACT.38
7 PLIP interactions:5 interactions with chain E, 2 interactions with chain C- Hydrogen bonds: E:R.107, E:M.199, E:E.200
- Water bridges: E:S.110, E:C.111, C:R.63, C:R.63
GOL.47: 5 residues within 4Å:- Chain F: E.50, T.51, Y.52, L.53, E.54
1 PLIP interactions:1 interactions with chain F- Hydrogen bonds: F:L.53
GOL.48: 11 residues within 4Å:- Chain F: M.84, R.107, S.110, C.111, V.197, E.198, M.199, E.200
- Ligands: HPA.41, CL.44, ACT.46
7 PLIP interactions:2 interactions with chain B, 5 interactions with chain F- Water bridges: B:R.63, B:R.63, F:S.110, F:C.111
- Hydrogen bonds: F:R.107, F:M.199, F:E.200
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- de Giuseppe, P.O. et al., Insights into phosphate cooperativity and influence of substrate modifications on binding and catalysis of hexameric purine nucleoside phosphorylases. Plos One (2012)
- Release Date
- 2012-09-26
- Peptides
- Purine nucleoside phosphorylase deoD-type: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
AE
AF
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.85 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x HPA: HYPOXANTHINE(Non-covalent)
- 18 x CL: CHLORIDE ION(Non-functional Binders)
- 12 x ACT: ACETATE ION(Non-functional Binders)
- 12 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- de Giuseppe, P.O. et al., Insights into phosphate cooperativity and influence of substrate modifications on binding and catalysis of hexameric purine nucleoside phosphorylases. Plos One (2012)
- Release Date
- 2012-09-26
- Peptides
- Purine nucleoside phosphorylase deoD-type: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
AE
AF
A