- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.50 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x 06K: 2,6-bis(chloranyl)-7H-purine(Non-covalent)
- 7 x IMD: IMIDAZOLE(Non-covalent)
IMD.2: 7 residues within 4Å:- Chain A: H.4, R.43
- Chain D: M.64, F.159, M.180
- Ligands: 06K.10, MG.12
4 PLIP interactions:2 interactions with chain A, 2 interactions with chain D- Hydrogen bonds: A:R.43, D:T.90, D:T.90
- pi-Cation interactions: A:R.43
IMD.5: 7 residues within 4Å:- Chain B: H.4, R.43
- Chain E: M.64, F.159, M.180
- Ligands: 06K.13, MG.16
4 PLIP interactions:2 interactions with chain B, 2 interactions with chain E- Hydrogen bonds: B:R.43, E:T.90, E:T.90
- pi-Cation interactions: B:R.43
IMD.8: 7 residues within 4Å:- Chain C: H.4, R.43
- Chain F: M.64, F.159, M.180
- Ligands: 06K.17, MG.19
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:R.43
- Water bridges: C:R.43
- pi-Cation interactions: C:R.43
IMD.11: 8 residues within 4Å:- Chain A: M.64, T.90, F.159, M.180
- Chain D: H.4, R.43
- Ligands: 06K.1, MG.3
4 PLIP interactions:2 interactions with chain A, 2 interactions with chain D- Hydrogen bonds: A:T.90, D:R.43
- Water bridges: A:T.90
- pi-Cation interactions: D:R.43
IMD.14: 7 residues within 4Å:- Chain B: M.64, F.159, M.180
- Chain E: H.4, R.43
- Ligands: 06K.4, MG.6
4 PLIP interactions:2 interactions with chain E, 2 interactions with chain B- Hydrogen bonds: E:R.43, B:T.90
- pi-Cation interactions: E:R.43
- Water bridges: B:T.90
IMD.15: 4 residues within 4Å:- Chain E: L.100, A.211, L.212, E.216
No protein-ligand interaction detected (PLIP)IMD.18: 7 residues within 4Å:- Chain C: M.64, F.159, M.180
- Chain F: H.4, R.43
- Ligands: 06K.7, MG.9
4 PLIP interactions:2 interactions with chain C, 2 interactions with chain F- Hydrogen bonds: C:T.90, F:R.43
- Water bridges: C:T.90
- pi-Cation interactions: F:R.43
- 6 x MG: MAGNESIUM ION(Non-covalent)
MG.3: 5 residues within 4Å:- Chain A: R.24, G.89, T.90
- Chain D: R.43
- Ligands: IMD.11
No protein-ligand interaction detected (PLIP)MG.6: 5 residues within 4Å:- Chain B: R.24, G.89, T.90
- Chain E: R.43
- Ligands: IMD.14
No protein-ligand interaction detected (PLIP)MG.9: 5 residues within 4Å:- Chain C: R.24, G.89, T.90
- Chain F: R.43
- Ligands: IMD.18
No protein-ligand interaction detected (PLIP)MG.12: 5 residues within 4Å:- Chain A: R.43
- Chain D: R.24, G.89, T.90
- Ligands: IMD.2
No protein-ligand interaction detected (PLIP)MG.16: 5 residues within 4Å:- Chain B: R.43
- Chain E: R.24, G.89, T.90
- Ligands: IMD.5
No protein-ligand interaction detected (PLIP)MG.19: 5 residues within 4Å:- Chain C: R.43
- Chain F: R.24, G.89, T.90
- Ligands: IMD.8
No protein-ligand interaction detected (PLIP)- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Narczyk, M. et al., Interactions of 2,6-substituted purines with purine nucleoside phosphorylase from Helicobacter pylori in solution and in the crystal, and the effects of these compounds on cell cultures of this bacterium. J Enzyme Inhib Med Chem (2022)
- Release Date
- 2022-05-04
- Peptides
- Purine nucleoside phosphorylase DeoD-type: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
EF
F
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.50 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x 06K: 2,6-bis(chloranyl)-7H-purine(Non-covalent)
- 7 x IMD: IMIDAZOLE(Non-covalent)
- 6 x MG: MAGNESIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Narczyk, M. et al., Interactions of 2,6-substituted purines with purine nucleoside phosphorylase from Helicobacter pylori in solution and in the crystal, and the effects of these compounds on cell cultures of this bacterium. J Enzyme Inhib Med Chem (2022)
- Release Date
- 2022-05-04
- Peptides
- Purine nucleoside phosphorylase DeoD-type: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
EF
F