- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.55 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x NJP: 5-hydroxy-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)
- 20 x GOL: GLYCEROL(Non-functional Binders)
GOL.2: 3 residues within 4Å:- Chain A: P.170, D.171
- Chain B: V.229
Ligand excluded by PLIPGOL.4: 3 residues within 4Å:- Chain A: V.54, F.55, Y.56
Ligand excluded by PLIPGOL.7: 10 residues within 4Å:- Chain A: F.93, S.138, D.139, V.140, R.143, I.145, G.180, A.181, Q.231
- Ligands: NJP.1
Ligand excluded by PLIPGOL.8: 2 residues within 4Å:- Chain A: D.124, R.128
Ligand excluded by PLIPGOL.9: 9 residues within 4Å:- Chain A: K.3, Y.27, V.83, L.132, R.173, L.213, L.215, P.216, K.217
Ligand excluded by PLIPGOL.14: 3 residues within 4Å:- Chain A: V.229
- Chain B: P.170, D.171
Ligand excluded by PLIPGOL.16: 3 residues within 4Å:- Chain B: V.54, F.55, Y.56
Ligand excluded by PLIPGOL.19: 10 residues within 4Å:- Chain B: F.93, S.138, D.139, V.140, R.143, I.145, G.180, A.181, Q.231
- Ligands: NJP.13
Ligand excluded by PLIPGOL.20: 2 residues within 4Å:- Chain B: D.124, R.128
Ligand excluded by PLIPGOL.21: 9 residues within 4Å:- Chain B: K.3, Y.27, V.83, L.132, R.173, L.213, L.215, P.216, K.217
Ligand excluded by PLIPGOL.26: 3 residues within 4Å:- Chain C: P.170, D.171
- Chain D: V.229
Ligand excluded by PLIPGOL.28: 3 residues within 4Å:- Chain C: V.54, F.55, Y.56
Ligand excluded by PLIPGOL.31: 10 residues within 4Å:- Chain C: F.93, S.138, D.139, V.140, R.143, I.145, G.180, A.181, Q.231
- Ligands: NJP.25
Ligand excluded by PLIPGOL.32: 2 residues within 4Å:- Chain C: D.124, R.128
Ligand excluded by PLIPGOL.33: 9 residues within 4Å:- Chain C: K.3, Y.27, V.83, L.132, R.173, L.213, L.215, P.216, K.217
Ligand excluded by PLIPGOL.38: 3 residues within 4Å:- Chain C: V.229
- Chain D: P.170, D.171
Ligand excluded by PLIPGOL.40: 3 residues within 4Å:- Chain D: V.54, F.55, Y.56
Ligand excluded by PLIPGOL.43: 10 residues within 4Å:- Chain D: F.93, S.138, D.139, V.140, R.143, I.145, G.180, A.181, Q.231
- Ligands: NJP.37
Ligand excluded by PLIPGOL.44: 2 residues within 4Å:- Chain D: D.124, R.128
Ligand excluded by PLIPGOL.45: 9 residues within 4Å:- Chain D: K.3, Y.27, V.83, L.132, R.173, L.213, L.215, P.216, K.217
Ligand excluded by PLIP- 12 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
PG4.3: 5 residues within 4Å:- Chain A: F.93, Y.147, F.186, G.187, Y.199
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:Y.199
PG4.5: 5 residues within 4Å:- Chain A: H.105, E.106, E.109
- Chain C: H.105
- Ligands: PG4.29
4 PLIP interactions:3 interactions with chain A, 1 interactions with chain C- Hydrogen bonds: A:S.62, A:S.62, A:E.109, C:H.105
PG4.12: 13 residues within 4Å:- Chain A: A.142, R.159, R.163, R.178, E.223
- Chain B: A.142, R.159, R.163, R.178, E.223
- Ligands: EDO.10, EDO.22, PG4.24
12 PLIP interactions:6 interactions with chain A, 6 interactions with chain B- Hydrogen bonds: A:R.159, A:R.163, A:R.163, A:R.178, B:R.159, B:R.159, B:R.163
- Water bridges: A:A.142, A:R.178, B:A.142, B:R.163, B:R.178
PG4.15: 5 residues within 4Å:- Chain B: F.93, Y.147, F.186, G.187, Y.199
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:Y.199
PG4.17: 5 residues within 4Å:- Chain B: H.105, E.106, E.109
- Chain D: H.105
- Ligands: PG4.41
4 PLIP interactions:3 interactions with chain B, 1 interactions with chain D- Hydrogen bonds: B:S.62, B:S.62, B:E.109, D:H.105
PG4.24: 13 residues within 4Å:- Chain A: A.142, R.159, R.163, R.178, E.223
- Chain B: A.142, R.159, R.163, R.178, E.223
- Ligands: EDO.10, PG4.12, EDO.22
12 PLIP interactions:6 interactions with chain A, 6 interactions with chain B- Hydrogen bonds: A:R.159, A:R.159, A:R.163, B:R.159, B:R.163, B:R.163, B:R.178
- Water bridges: A:A.142, A:R.163, A:R.178, B:A.142, B:R.178
PG4.27: 5 residues within 4Å:- Chain C: F.93, Y.147, F.186, G.187, Y.199
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:Y.199, C:Y.199
PG4.29: 5 residues within 4Å:- Chain A: H.105
- Chain C: H.105, E.106, E.109
- Ligands: PG4.5
4 PLIP interactions:1 interactions with chain A, 3 interactions with chain C- Hydrogen bonds: A:H.105, C:S.62, C:S.62
- Water bridges: C:E.106
PG4.36: 13 residues within 4Å:- Chain C: A.142, R.159, R.163, R.178, E.223
- Chain D: A.142, R.159, R.163, R.178, E.223
- Ligands: EDO.34, EDO.46, PG4.48
12 PLIP interactions:6 interactions with chain D, 6 interactions with chain C- Hydrogen bonds: D:R.159, D:R.159, D:R.163, C:R.159, C:R.163, C:R.163, C:R.178
- Water bridges: D:A.142, D:R.163, D:R.178, C:A.142, C:R.178
PG4.39: 5 residues within 4Å:- Chain D: F.93, Y.147, F.186, G.187, Y.199
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:Y.199, D:Y.199
PG4.41: 5 residues within 4Å:- Chain B: H.105
- Chain D: H.105, E.106, E.109
- Ligands: PG4.17
4 PLIP interactions:3 interactions with chain D, 1 interactions with chain B- Hydrogen bonds: D:S.62, D:S.62, B:H.105
- Water bridges: D:E.106
PG4.48: 13 residues within 4Å:- Chain C: A.142, R.159, R.163, R.178, E.223
- Chain D: A.142, R.159, R.163, R.178, E.223
- Ligands: EDO.34, PG4.36, EDO.46
12 PLIP interactions:6 interactions with chain D, 6 interactions with chain C- Hydrogen bonds: D:R.159, D:R.163, D:R.163, D:R.178, C:R.159, C:R.159, C:R.163
- Water bridges: D:A.142, D:R.178, C:A.142, C:R.163, C:R.178
- 12 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.6: 6 residues within 4Å:- Chain A: E.1, K.3, D.25, G.26, Y.27, K.214
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:K.3, A:G.26, A:K.214, A:K.214
- Water bridges: A:K.3
EDO.10: 7 residues within 4Å:- Chain A: A.142, R.159, R.163
- Chain C: W.156
- Ligands: PG4.12, PG4.24, EDO.34
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:R.159
- Water bridges: A:R.159, A:R.163
EDO.11: 3 residues within 4Å:- Chain A: R.12, R.38, Y.185
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:R.12, A:R.12, A:Y.185
- Water bridges: A:R.38
EDO.18: 6 residues within 4Å:- Chain B: E.1, K.3, D.25, G.26, Y.27, K.214
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:K.3, B:G.26, B:K.214, B:K.214
- Water bridges: B:K.3
EDO.22: 7 residues within 4Å:- Chain B: A.142, R.159, R.163
- Chain D: W.156
- Ligands: PG4.12, PG4.24, EDO.46
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:R.159
- Water bridges: B:R.159, B:R.163
EDO.23: 3 residues within 4Å:- Chain B: R.12, R.38, Y.185
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:R.12, B:R.12, B:Y.185
- Water bridges: B:R.38
EDO.30: 6 residues within 4Å:- Chain C: E.1, K.3, D.25, G.26, Y.27, K.214
5 PLIP interactions:5 interactions with chain C- Hydrogen bonds: C:K.3, C:G.26, C:K.214, C:K.214
- Water bridges: C:K.3
EDO.34: 7 residues within 4Å:- Chain A: W.156
- Chain C: A.142, R.159, R.163
- Ligands: EDO.10, PG4.36, PG4.48
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:R.159
- Water bridges: C:R.159, C:R.163
EDO.35: 3 residues within 4Å:- Chain C: R.12, R.38, Y.185
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:R.12, C:R.12
- Water bridges: C:R.38
EDO.42: 6 residues within 4Å:- Chain D: E.1, K.3, D.25, G.26, Y.27, K.214
5 PLIP interactions:5 interactions with chain D- Hydrogen bonds: D:K.3, D:G.26, D:K.214, D:K.214
- Water bridges: D:K.3
EDO.46: 7 residues within 4Å:- Chain B: W.156
- Chain D: A.142, R.159, R.163
- Ligands: EDO.22, PG4.36, PG4.48
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:R.159
- Water bridges: D:R.159, D:R.163
EDO.47: 3 residues within 4Å:- Chain D: R.12, R.38, Y.185
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:R.12, D:R.12
- Water bridges: D:R.38
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Lyashenko, A.V. et al., X-ray structure alcohol dehydrogenase from archaeon Thermococcus sibiricus complexed with 5-hydroxy-NADP. To be Published
- Release Date
- 2011-01-19
- Peptides
- Short-chain alcohol dehydrogenase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.55 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x NJP: 5-hydroxy-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)
- 20 x GOL: GLYCEROL(Non-functional Binders)
- 12 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
- 12 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Lyashenko, A.V. et al., X-ray structure alcohol dehydrogenase from archaeon Thermococcus sibiricus complexed with 5-hydroxy-NADP. To be Published
- Release Date
- 2011-01-19
- Peptides
- Short-chain alcohol dehydrogenase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
A