- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.50 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x MG: MAGNESIUM ION(Non-covalent)
- 6 x TYD: THYMIDINE-5'-DIPHOSPHATE(Non-covalent)
TYD.2: 12 residues within 4Å:- Chain A: K.14, Y.55, H.58, Y.63, N.67, R.91, Q.94, R.104, I.111, R.112, N.114
- Ligands: MG.1
10 PLIP interactions:10 interactions with chain A- Hydrophobic interactions: A:Y.63
- Hydrogen bonds: A:K.14, A:N.67, A:Q.94, A:R.104, A:N.114
- Salt bridges: A:H.58, A:R.91, A:R.104
- pi-Stacking: A:Y.63
TYD.5: 12 residues within 4Å:- Chain B: K.14, Y.55, H.58, Y.63, N.67, R.91, Q.94, R.104, I.111, R.112, N.114
- Ligands: MG.3
13 PLIP interactions:13 interactions with chain B- Hydrophobic interactions: B:Y.63
- Hydrogen bonds: B:K.14, B:N.67, B:Q.94, B:R.104, B:R.112, B:N.114
- Water bridges: B:K.14, B:Y.55
- Salt bridges: B:H.58, B:R.91, B:R.104
- pi-Stacking: B:Y.63
TYD.7: 11 residues within 4Å:- Chain C: K.14, Y.55, H.58, Y.63, N.67, R.91, R.104, I.111, R.112, N.114
- Ligands: MG.6
11 PLIP interactions:11 interactions with chain C- Hydrophobic interactions: C:Y.63, C:I.111, C:I.111
- Hydrogen bonds: C:R.104, C:N.114
- Water bridges: C:K.14, C:H.117
- Salt bridges: C:H.58, C:R.91, C:R.104
- pi-Stacking: C:Y.63
TYD.9: 12 residues within 4Å:- Chain D: K.14, Y.55, H.58, Y.63, N.67, R.91, Q.94, R.104, I.111, R.112, N.114
- Ligands: MG.8
10 PLIP interactions:10 interactions with chain D- Hydrophobic interactions: D:Y.63
- Hydrogen bonds: D:K.14, D:N.67, D:Q.94, D:R.104, D:N.114
- Salt bridges: D:H.58, D:R.91, D:R.104
- pi-Stacking: D:Y.63
TYD.12: 12 residues within 4Å:- Chain E: K.14, Y.55, H.58, Y.63, N.67, R.91, Q.94, R.104, I.111, R.112, N.114
- Ligands: MG.10
13 PLIP interactions:13 interactions with chain E- Hydrophobic interactions: E:Y.63
- Hydrogen bonds: E:K.14, E:N.67, E:Q.94, E:R.104, E:R.112, E:N.114
- Water bridges: E:K.14, E:Y.55
- Salt bridges: E:H.58, E:R.91, E:R.104
- pi-Stacking: E:Y.63
TYD.14: 11 residues within 4Å:- Chain F: K.14, Y.55, H.58, Y.63, N.67, R.91, R.104, I.111, R.112, N.114
- Ligands: MG.13
11 PLIP interactions:11 interactions with chain F- Hydrophobic interactions: F:Y.63, F:I.111, F:I.111
- Hydrogen bonds: F:R.104, F:N.114
- Water bridges: F:K.14, F:K.14
- Salt bridges: F:H.58, F:R.91, F:R.104
- pi-Stacking: F:Y.63
- 2 x PO4: PHOSPHATE ION(Non-functional Binders)
- 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
- 2005-11-15
- Peptides
- Probable 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 2.50 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x MG: MAGNESIUM ION(Non-covalent)
- 6 x TYD: THYMIDINE-5'-DIPHOSPHATE(Non-covalent)
- 2 x PO4: PHOSPHATE ION(Non-functional Binders)
- 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
- 2005-11-15
- Peptides
- Probable nucleoside diphosphate kinase: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
CC
ED
AE
CF
E