SMTL ID : 5jo9.1

Structural characterization of the thermostable Bradyrhizobium japonicum d-sorbitol dehydrogenase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.89 Å

Oligo State

homo-tetramer

Ligands

4 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 8 residues within 4Å: Chain A: G.14, S.17, G.18, I.19, G.20, N.88, S.188, L.190 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:S.17, A:I.19, A:G.20, A:N.88, A:N.88, A:S.188, A:S.188 PO4.3: 8 residues within 4Å: Chain B: G.14, S.17, G.18, I.19, G.20, N.88, S.188, L.190 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:S.17, B:I.19, B:G.20, B:N.88, B:N.88, B:S.188, B:S.188 PO4.5: 8 residues within 4Å: Chain C: G.14, S.17, G.18, I.19, G.20, N.88, S.188, L.190 7 PLIP interactions: 7 interactions with chain C Hydrogen bonds: C:S.17, C:I.19, C:G.20, C:N.88, C:N.88, C:S.188, C:S.188 PO4.7: 8 residues within 4Å: Chain D: G.14, S.17, G.18, I.19, G.20, N.88, S.188, L.190 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:S.17, D:I.19, D:G.20, D:N.88, D:N.88, D:S.188, D:S.188

4 x SOR: sorbitol(Non-covalent)

SOR.2: 16 residues within 4Å: Chain A: Y.92, S.140, L.141, A.142, T.147, W.149, E.150, Y.153, P.183, G.184, P.185, V.186, L.190, W.194, F.240, L.242 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.142, A:V.186 SOR.4: 16 residues within 4Å: Chain B: Y.92, S.140, L.141, A.142, T.147, W.149, E.150, Y.153, P.183, G.184, P.185, V.186, L.190, W.194, F.240, L.242 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:A.142, B:V.186 SOR.6: 16 residues within 4Å: Chain C: Y.92, S.140, L.141, A.142, T.147, W.149, E.150, Y.153, P.183, G.184, P.185, V.186, L.190, W.194, F.240, L.242 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:A.142, C:V.186 SOR.8: 16 residues within 4Å: Chain D: Y.92, S.140, L.141, A.142, T.147, W.149, E.150, Y.153, P.183, G.184, P.185, V.186, L.190, W.194, F.240, L.242 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:A.142, D:V.186

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fredslund, F. et al., Structural characterization of the thermostable Bradyrhizobium japonicumD-sorbitol dehydrogenase. Acta Crystallogr F Struct Biol Commun (2016)

Release Date

2016-11-09

Peptides

Ribitol 2-dehydrogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Ribitol 2-dehydrogenase