- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.80 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)
- 6 x PO4: PHOSPHATE ION(Non-functional Binders)
PO4.2: 7 residues within 4Å:- Chain A: G.95, N.96, I.97, R.104, D.110, I.111, N.114
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:G.95, A:I.97, A:N.114
- Water bridges: A:G.95, A:R.104
- Salt bridges: A:R.104
PO4.5: 7 residues within 4Å:- Chain B: G.95, N.96, I.97, R.104, D.110, N.114
- Ligands: GDP.4
6 PLIP interactions:6 interactions with chain B- Hydrogen bonds: B:I.97, B:D.110, B:N.114
- Water bridges: B:G.95, B:R.104
- Salt bridges: B:R.104
PO4.8: 6 residues within 4Å:- Chain C: N.96, I.97, R.104, D.110, N.114
- Ligands: GDP.7
4 PLIP interactions:4 interactions with chain C- Hydrogen bonds: C:I.97, C:I.111, C:N.114
- Salt bridges: C:R.104
PO4.11: 7 residues within 4Å:- Chain D: G.95, N.96, I.97, R.104, D.110, I.111, N.114
6 PLIP interactions:6 interactions with chain D- Hydrogen bonds: D:G.95, D:I.97, D:N.114
- Water bridges: D:G.95, D:R.104
- Salt bridges: D:R.104
PO4.14: 7 residues within 4Å:- Chain E: G.95, N.96, I.97, R.104, D.110, N.114
- Ligands: GDP.13
6 PLIP interactions:6 interactions with chain E- Hydrogen bonds: E:I.97, E:D.110, E:N.114
- Water bridges: E:G.95, E:R.104
- Salt bridges: E:R.104
PO4.17: 6 residues within 4Å:- Chain F: N.96, I.97, R.104, D.110, N.114
- Ligands: GDP.16
4 PLIP interactions:4 interactions with chain F- Hydrogen bonds: F:I.97, F:I.111, F:N.114
- Salt bridges: F:R.104
- 6 x MG: MAGNESIUM ION(Non-covalent)
MG.3: 5 residues within 4Å:- Chain A: Q.94, R.104, H.117, A.118
- Ligands: GDP.1
No protein-ligand interaction detected (PLIP)MG.6: 6 residues within 4Å:- Chain B: R.91, Q.94, R.104, H.117, A.118
- Ligands: GDP.4
No protein-ligand interaction detected (PLIP)MG.9: 6 residues within 4Å:- Chain C: R.91, Q.94, R.104, H.117, A.118
- Ligands: GDP.7
1 PLIP interactions:1 interactions with chain C- Metal complexes: C:H.117
MG.12: 5 residues within 4Å:- Chain D: Q.94, R.104, H.117, A.118
- Ligands: GDP.10
No protein-ligand interaction detected (PLIP)MG.15: 6 residues within 4Å:- Chain E: R.91, Q.94, R.104, H.117, A.118
- Ligands: GDP.13
No protein-ligand interaction detected (PLIP)MG.18: 6 residues within 4Å:- Chain F: R.91, Q.94, R.104, H.117, A.118
- Ligands: GDP.16
1 PLIP interactions:1 interactions with chain F- Metal complexes: F:H.117
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Jeudy, S. et al., Dissecting the unique nucleotide specificity of mimivirus nucleoside diphosphate kinase. J.Virol. (2009)
- Release Date
- 2009-08-11
- Peptides
- Nucleoside diphosphate kinase: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
CC
ED
AE
CF
E
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.80 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)
- 6 x PO4: PHOSPHATE ION(Non-functional Binders)
- 6 x MG: MAGNESIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Jeudy, S. et al., Dissecting the unique nucleotide specificity of mimivirus nucleoside diphosphate kinase. J.Virol. (2009)
- Release Date
- 2009-08-11
- Peptides
- Nucleoside diphosphate kinase: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
CC
ED
AE
CF
E