SMTL ID : 3qe3.1

Sheep liver sorbitol dehydrogenase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-tetramer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: C.43, H.68, E.69, E.154 Ligands: ACY.4 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.43, A:H.68, A:E.69, H2O.5 ZN.6: 5 residues within 4Å: Chain B: C.43, H.68, E.69, E.154 Ligands: ACY.9 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:C.43, B:H.68, B:E.69, H2O.13 ZN.11: 5 residues within 4Å: Chain C: C.43, H.68, E.69, E.154 Ligands: ACY.14 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:C.43, C:H.68, C:E.69, H2O.21 ZN.16: 5 residues within 4Å: Chain D: C.43, H.68, E.69, E.154 Ligands: ACY.19 4 PLIP interactions: 3 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:C.43, D:H.68, D:E.69, H2O.29

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: Y.49, F.58, T.120, R.297 Ligands: ACY.4 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Y.49, A:T.120, A:T.120, A:R.297 Water bridges: A:S.45, A:S.45, A:S.45 GOL.7: 5 residues within 4Å: Chain B: Y.49, F.58, T.120, R.297 Ligands: ACY.9 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:Y.49, B:T.120, B:T.120, B:R.297 Water bridges: B:S.45, B:S.45, B:S.45 GOL.12: 5 residues within 4Å: Chain C: Y.49, F.58, T.120, R.297 Ligands: ACY.14 7 PLIP interactions: 7 interactions with chain C Hydrogen bonds: C:Y.49, C:Y.49, C:T.120, C:R.297 Water bridges: C:S.45, C:T.120, C:T.120 GOL.17: 5 residues within 4Å: Chain D: Y.49, F.58, T.120, R.297 Ligands: ACY.19 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:Y.49, D:Y.49, D:T.120, D:R.297 Water bridges: D:S.45, D:T.120, D:T.120

12 x ACY: ACETIC ACID(Non-functional Binders)

ACY.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) ACY.4: 6 residues within 4Å: Chain A: H.68, F.117, E.154, V.158 Ligands: ZN.1, GOL.2 2 PLIP interactions: 2 interactions with chain A Water bridges: A:H.68 Salt bridges: A:H.68 ACY.5: 4 residues within 4Å: Chain A: E.32, F.116, H.133, N.134 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.116 Hydrogen bonds: A:E.32, A:N.134 Salt bridges: A:H.133 ACY.8: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) ACY.9: 6 residues within 4Å: Chain B: H.68, F.117, E.154, V.158 Ligands: ZN.6, GOL.7 2 PLIP interactions: 2 interactions with chain B Water bridges: B:H.68 Salt bridges: B:H.68 ACY.10: 4 residues within 4Å: Chain B: E.32, F.116, H.133, N.134 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:F.116 Hydrogen bonds: B:E.32, B:N.134 Salt bridges: B:H.133 ACY.13: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) ACY.14: 6 residues within 4Å: Chain C: H.68, F.117, E.154, V.158 Ligands: ZN.11, GOL.12 2 PLIP interactions: 2 interactions with chain C Water bridges: C:H.68 Salt bridges: C:H.68 ACY.15: 4 residues within 4Å: Chain C: E.32, F.116, H.133, N.134 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:F.116 Hydrogen bonds: C:E.32, C:E.32, C:N.134 Salt bridges: C:H.133 ACY.18: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) ACY.19: 6 residues within 4Å: Chain D: H.68, F.117, E.154, V.158 Ligands: ZN.16, GOL.17 2 PLIP interactions: 2 interactions with chain D Water bridges: D:H.68 Salt bridges: D:H.68 ACY.20: 4 residues within 4Å: Chain D: E.32, F.116, H.133, N.134 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:F.116 Hydrogen bonds: D:E.32, D:E.32, D:N.134 Salt bridges: D:H.133

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yennawar, H. et al., X-ray crystal structure and small-angle X-ray scattering of sheep liver sorbitol dehydrogenase. Acta Crystallogr.,Sect.D (2011)

Release Date

2011-04-27

Peptides

Sorbitol dehydrogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Sorbitol dehydrogenase