- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.85 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)
- 6 x D4T: 2',3'-DEHYDRO-2',3'-DEOXY-THYMIDINE 5'-TRIPHOSPHATE(Non-covalent)
D4T.2: 14 residues within 4Å:- Chain A: K.16, Y.56, H.59, F.64, L.68, R.92, T.98, R.109, V.116, G.117, N.119, G.122, G.123
- Ligands: MG.1
15 PLIP interactions:15 interactions with chain A- Hydrophobic interactions: A:F.64, A:V.116
- Hydrogen bonds: A:Y.56, A:Y.56, A:G.123
- Water bridges: A:R.92, A:R.92, A:T.98
- Salt bridges: A:K.16, A:H.59, A:R.92, A:R.92, A:R.109, A:R.109
- pi-Stacking: A:F.64
D4T.5: 16 residues within 4Å:- Chain B: K.16, Y.56, H.59, F.64, L.68, R.92, T.98, R.109, V.116, G.117, N.119, G.122, G.123
- Ligands: PO4.3, MG.4, D4D.6
13 PLIP interactions:13 interactions with chain B- Hydrophobic interactions: B:F.64, B:V.116
- Hydrogen bonds: B:Y.56, B:G.123
- Water bridges: B:Y.56, B:T.98
- Salt bridges: B:K.16, B:H.59, B:R.92, B:R.92, B:R.109, B:R.109
- pi-Stacking: B:F.64
D4T.8: 14 residues within 4Å:- Chain C: K.16, Y.56, H.59, F.64, L.68, R.92, T.98, R.109, V.116, G.117, N.119, G.122, G.123
- Ligands: MG.7
13 PLIP interactions:13 interactions with chain C- Hydrophobic interactions: C:F.64, C:T.98, C:V.116
- Hydrogen bonds: C:Y.56, C:Y.56, C:G.123
- Salt bridges: C:K.16, C:H.59, C:R.92, C:R.92, C:R.109, C:R.109
- pi-Stacking: C:F.64
D4T.10: 14 residues within 4Å:- Chain D: K.16, Y.56, H.59, F.64, L.68, R.92, T.98, R.109, V.116, G.117, N.119, G.122, G.123
- Ligands: MG.9
13 PLIP interactions:13 interactions with chain D- Hydrophobic interactions: D:F.64, D:V.116
- Hydrogen bonds: D:Y.56, D:G.123
- Water bridges: D:R.92, D:R.92
- Salt bridges: D:K.16, D:H.59, D:R.92, D:R.92, D:R.109, D:R.109
- pi-Stacking: D:F.64
D4T.13: 16 residues within 4Å:- Chain E: K.16, Y.56, H.59, F.64, L.68, R.92, T.98, R.109, V.116, G.117, N.119, G.122, G.123
- Ligands: PO4.11, MG.12, D4D.14
11 PLIP interactions:11 interactions with chain E- Hydrophobic interactions: E:F.64, E:V.116
- Hydrogen bonds: E:G.123
- Water bridges: E:Y.56
- Salt bridges: E:K.16, E:H.59, E:R.92, E:R.92, E:R.109, E:R.109
- pi-Stacking: E:F.64
D4T.16: 14 residues within 4Å:- Chain F: K.16, Y.56, H.59, F.64, L.68, R.92, T.98, R.109, V.116, G.117, N.119, G.122, G.123
- Ligands: MG.15
12 PLIP interactions:12 interactions with chain F- Hydrophobic interactions: F:F.64, F:T.98, F:V.116
- Hydrogen bonds: F:Y.56, F:G.123
- Salt bridges: F:K.16, F:H.59, F:R.92, F:R.92, F:R.109, F:R.109
- pi-Stacking: F:F.64
- 2 x PO4: PHOSPHATE ION(Non-functional Binders)
PO4.3: 9 residues within 4Å:- Chain B: K.16, H.55, Y.56, R.92, G.122, G.123
- Ligands: MG.4, D4T.5, D4D.6
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:Y.56, B:G.123
- Water bridges: B:E.58
- Salt bridges: B:K.16, B:R.92
PO4.11: 9 residues within 4Å:- Chain E: K.16, H.55, Y.56, R.92, G.122, G.123
- Ligands: MG.12, D4T.13, D4D.14
3 PLIP interactions:3 interactions with chain E- Hydrogen bonds: E:G.123
- Salt bridges: E:K.16, E:R.92
- 2 x D4D: 2',3'-DEHYDRO-2',3'-DEOXY-THYMIDINE 5'-DIPHOSPHATE(Non-covalent)
D4D.6: 15 residues within 4Å:- Chain B: K.16, Y.56, H.59, F.64, L.68, R.92, T.98, R.109, V.116, G.117, N.119
- Chain C: E.155
- Ligands: PO4.3, MG.4, D4T.5
8 PLIP interactions:8 interactions with chain B- Hydrophobic interactions: B:F.64, B:V.116
- Hydrogen bonds: B:T.98
- Water bridges: B:T.98
- Salt bridges: B:H.59, B:R.92, B:R.109
- pi-Stacking: B:F.64
D4D.14: 15 residues within 4Å:- Chain E: K.16, Y.56, H.59, F.64, L.68, R.92, T.98, R.109, V.116, G.117, N.119
- Chain F: E.155
- Ligands: PO4.11, MG.12, D4T.13
7 PLIP interactions:7 interactions with chain E- Hydrophobic interactions: E:F.64, E:V.116
- Water bridges: E:T.98
- Salt bridges: E:H.59, E:R.92, E:R.109
- pi-Stacking: E:F.64
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Meyer, P. et al., Structural basis for activation of alpha-boranophosphate nucleotide analogues targeting drug-resistant reverse transcriptase. EMBO J. (2000)
- Release Date
- 2000-09-13
- Peptides
- PROTEIN (NUCLEOSIDE DIPHOSPHATE KINASE): ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
AE
BF
C
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.85 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)
- 6 x D4T: 2',3'-DEHYDRO-2',3'-DEOXY-THYMIDINE 5'-TRIPHOSPHATE(Non-covalent)
- 2 x PO4: PHOSPHATE ION(Non-functional Binders)
- 2 x D4D: 2',3'-DEHYDRO-2',3'-DEOXY-THYMIDINE 5'-DIPHOSPHATE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Meyer, P. et al., Structural basis for activation of alpha-boranophosphate nucleotide analogues targeting drug-resistant reverse transcriptase. EMBO J. (2000)
- Release Date
- 2000-09-13
- Peptides
- PROTEIN (NUCLEOSIDE DIPHOSPHATE KINASE): ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
AE
BF
C