- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 3.00 Å
- Oligo State
- homo-tetramer
- Ligands
- 2 x CA: CALCIUM ION(Non-covalent)
- 3 x CL: CHLORIDE ION(Non-functional Binders)
- 4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
- 4 x NAI: 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE(Non-covalent)
NAI.4: 29 residues within 4Å:- Chain A: G.11, S.12, T.13, S.14, G.15, I.16, F.36, D.63, L.64, N.90, A.91, G.92, L.113, I.140, A.141, S.142, Y.155, K.159, P.185, G.186, W.187, V.188, T.190, P.191, L.192, V.193
- Ligands: NAD.3, 3HR.5, AAE.6
19 PLIP interactions:19 interactions with chain A- Hydrophobic interactions: A:I.16, A:P.185
- Hydrogen bonds: A:G.11, A:T.13, A:S.14, A:S.14, A:S.14, A:I.16, A:F.36, A:D.63, A:L.64, A:S.65, A:N.90, A:K.159, A:K.159, A:V.188, A:V.188, A:T.190, A:T.190
NAI.10: 28 residues within 4Å:- Chain B: G.11, T.13, S.14, G.15, I.16, F.36, D.63, L.64, N.90, A.91, G.92, L.113, I.140, A.141, S.142, Y.155, K.159, P.185, G.186, W.187, V.188, T.190, P.191, L.192, V.193
- Ligands: NAD.9, 3HR.11, AAE.12
16 PLIP interactions:16 interactions with chain B- Hydrophobic interactions: B:P.185
- Hydrogen bonds: B:T.13, B:T.13, B:S.14, B:S.14, B:I.16, B:F.36, B:D.63, B:D.63, B:L.64, B:N.90, B:Y.155, B:K.159, B:V.188, B:V.188, B:T.190
NAI.14: 29 residues within 4Å:- Chain C: G.11, S.12, T.13, S.14, G.15, I.16, F.36, D.63, L.64, N.90, A.91, G.92, L.113, I.140, A.141, S.142, Y.155, K.159, P.185, G.186, W.187, V.188, T.190, P.191, L.192, V.193
- Ligands: NAD.13, 3HR.15, AAE.16
18 PLIP interactions:18 interactions with chain C- Hydrophobic interactions: C:I.16, C:P.185
- Hydrogen bonds: C:T.13, C:S.14, C:S.14, C:S.14, C:I.16, C:F.36, C:D.63, C:L.64, C:A.91, C:Y.155, C:K.159, C:V.188, C:V.188, C:T.190
- Water bridges: C:N.90
- pi-Stacking: C:F.36
NAI.19: 29 residues within 4Å:- Chain D: G.11, S.12, T.13, S.14, G.15, I.16, F.36, D.63, L.64, N.90, A.91, G.92, L.113, I.140, A.141, S.142, Y.155, K.159, P.185, G.186, W.187, V.188, T.190, P.191, L.192, V.193
- Ligands: NAD.18, 3HR.20, AAE.21
18 PLIP interactions:18 interactions with chain D- Hydrophobic interactions: D:I.16, D:P.185
- Hydrogen bonds: D:T.13, D:S.14, D:S.14, D:I.16, D:F.36, D:D.63, D:L.64, D:N.90, D:K.159, D:K.159, D:V.188, D:V.188, D:T.190, D:T.190
- pi-Stacking: D:F.36, D:F.36
- 4 x 3HR: (3R)-3-hydroxybutanoic acid(Non-functional Binders)
3HR.5: 12 residues within 4Å:- Chain A: Q.94, S.142, H.144, K.152, Y.155, W.187, L.192, Q.196, W.257
- Ligands: NAD.3, NAI.4, AAE.6
8 PLIP interactions:8 interactions with chain A- Hydrophobic interactions: A:W.257
- Hydrogen bonds: A:Q.94, A:S.142, A:Y.155, A:Y.155, A:Q.196
- Salt bridges: A:H.144, A:K.152
3HR.11: 12 residues within 4Å:- Chain B: Q.94, S.142, H.144, K.152, Y.155, W.187, L.192, Q.196, W.257
- Ligands: NAD.9, NAI.10, AAE.12
7 PLIP interactions:7 interactions with chain B- Hydrophobic interactions: B:W.257
- Hydrogen bonds: B:Q.94, B:S.142, B:Y.155, B:Q.196
- Salt bridges: B:H.144, B:K.152
3HR.15: 11 residues within 4Å:- Chain C: Q.94, S.142, H.144, K.152, Y.155, W.187, L.192, Q.196
- Ligands: NAD.13, NAI.14, AAE.16
8 PLIP interactions:8 interactions with chain C- Hydrophobic interactions: C:W.187, C:L.192
- Hydrogen bonds: C:Q.94, C:S.142, C:Y.155, C:Q.196
- Salt bridges: C:H.144, C:K.152
3HR.20: 12 residues within 4Å:- Chain D: Q.94, S.142, H.144, K.152, Y.155, W.187, L.192, Q.196, W.257
- Ligands: NAD.18, NAI.19, AAE.21
11 PLIP interactions:11 interactions with chain D- Hydrophobic interactions: D:W.187, D:L.192, D:W.257
- Hydrogen bonds: D:Q.94, D:S.142, D:H.144, D:Y.155, D:Y.155, D:Q.196
- Salt bridges: D:H.144, D:K.152
- 4 x AAE: ACETOACETIC ACID(Non-functional Binders)
AAE.6: 13 residues within 4Å:- Chain A: Q.94, S.142, H.144, K.152, Y.155, G.186, W.187, L.192, Q.196, W.257
- Ligands: NAD.3, NAI.4, 3HR.5
8 PLIP interactions:8 interactions with chain A- Hydrophobic interactions: A:W.257
- Hydrogen bonds: A:Q.94, A:S.142, A:H.144, A:Y.155, A:Q.196
- Salt bridges: A:H.144, A:K.152
AAE.12: 11 residues within 4Å:- Chain B: Q.94, S.142, H.144, K.152, Y.155, W.187, L.192, Q.196
- Ligands: NAD.9, NAI.10, 3HR.11
8 PLIP interactions:8 interactions with chain B- Hydrophobic interactions: B:W.187, B:W.187
- Hydrogen bonds: B:Q.94, B:S.142, B:Y.155, B:Q.196
- Salt bridges: B:H.144, B:K.152
AAE.16: 12 residues within 4Å:- Chain C: Q.94, S.142, H.144, K.152, Y.155, G.186, W.187, L.192, Q.196
- Ligands: NAD.13, NAI.14, 3HR.15
5 PLIP interactions:5 interactions with chain C- Hydrogen bonds: C:Q.94, C:S.142, C:Q.196
- Salt bridges: C:H.144, C:K.152
AAE.21: 13 residues within 4Å:- Chain D: Q.94, S.142, H.144, K.152, Y.155, G.186, W.187, L.192, Q.196, W.257
- Ligands: NAD.18, NAI.19, 3HR.20
10 PLIP interactions:10 interactions with chain D- Hydrophobic interactions: D:W.187, D:W.257
- Hydrogen bonds: D:Q.94, D:S.142, D:H.144, D:Y.155, D:Y.155, D:Q.196
- Salt bridges: D:H.144, D:K.152
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Hoque, M.M. et al., Structure of D-3-hydroxybutyrate dehydrogenase prepared in the presence of the substrate D-3-hydroxybutyrate and NAD+. Acta Crystallogr.,Sect.F (2009)
- Release Date
- 2012-02-08
- Peptides
- D-3-hydroxybutyrate dehydrogenase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 3.00 Å
- Oligo State
- homo-tetramer
- Ligands
- 2 x CA: CALCIUM ION(Non-covalent)
- 3 x CL: CHLORIDE ION(Non-functional Binders)
- 4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
- 4 x NAI: 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE(Non-covalent)
- 4 x 3HR: (3R)-3-hydroxybutanoic acid(Non-functional Binders)
- 4 x AAE: ACETOACETIC ACID(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Hoque, M.M. et al., Structure of D-3-hydroxybutyrate dehydrogenase prepared in the presence of the substrate D-3-hydroxybutyrate and NAD+. Acta Crystallogr.,Sect.F (2009)
- Release Date
- 2012-02-08
- Peptides
- D-3-hydroxybutyrate dehydrogenase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D