SMTL ID : 1jqa.1 (1 other biounit)

Bacillus stearothermophilus glycerol dehydrogenase complex with glycerol

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-octamer

Ligands

16 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: D.123, D.173, H.256, H.274 Ligands: GOL.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.173, A:D.173, A:H.256, A:H.274 ZN.2: 2 residues within 4Å: Chain A: E.268, H.271 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.268, A:E.268, A:H.271 ZN.4: 5 residues within 4Å: Chain B: D.123, D.173, H.256, H.274 Ligands: GOL.6 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.173, B:D.173, B:H.256, B:H.274 ZN.5: 2 residues within 4Å: Chain B: E.268, H.271 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:E.268, B:E.268, B:H.271 ZN.7: 5 residues within 4Å: Chain C: D.123, D.173, H.256, H.274 Ligands: GOL.9 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:D.173, C:D.173, C:H.256, C:H.274 ZN.8: 2 residues within 4Å: Chain C: E.268, H.271 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:E.268, C:E.268, C:H.271 ZN.10: 5 residues within 4Å: Chain D: D.123, D.173, H.256, H.274 Ligands: GOL.12 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:D.173, D:D.173, D:H.256, D:H.274 ZN.11: 2 residues within 4Å: Chain D: E.268, H.271 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:E.268, D:E.268, D:H.271 ZN.13: 5 residues within 4Å: Chain E: D.123, D.173, H.256, H.274 Ligands: GOL.15 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:D.173, E:D.173, E:H.256, E:H.274 ZN.14: 2 residues within 4Å: Chain E: E.268, H.271 3 PLIP interactions: 3 interactions with chain E Metal complexes: E:E.268, E:E.268, E:H.271 ZN.16: 5 residues within 4Å: Chain F: D.123, D.173, H.256, H.274 Ligands: GOL.18 4 PLIP interactions: 4 interactions with chain F Metal complexes: F:D.173, F:D.173, F:H.256, F:H.274 ZN.17: 2 residues within 4Å: Chain F: E.268, H.271 3 PLIP interactions: 3 interactions with chain F Metal complexes: F:E.268, F:E.268, F:H.271 ZN.19: 5 residues within 4Å: Chain G: D.123, D.173, H.256, H.274 Ligands: GOL.21 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:D.173, G:D.173, G:H.256, G:H.274 ZN.20: 2 residues within 4Å: Chain G: E.268, H.271 3 PLIP interactions: 3 interactions with chain G Metal complexes: G:E.268, G:E.268, G:H.271 ZN.22: 5 residues within 4Å: Chain H: D.123, D.173, H.256, H.274 Ligands: GOL.24 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:D.173, H:D.173, H:H.256, H:H.274 ZN.23: 2 residues within 4Å: Chain H: E.268, H.271 3 PLIP interactions: 3 interactions with chain H Metal complexes: H:E.268, H:E.268, H:H.271

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain A: D.123, L.129, D.173, F.247, H.256, H.274 Ligands: ZN.1 No protein-ligand interaction detected (PLIP) GOL.6: 7 residues within 4Å: Chain B: D.123, L.129, D.173, F.247, H.256, H.274 Ligands: ZN.4 No protein-ligand interaction detected (PLIP) GOL.9: 7 residues within 4Å: Chain C: D.123, L.129, D.173, F.247, H.256, H.274 Ligands: ZN.7 No protein-ligand interaction detected (PLIP) GOL.12: 7 residues within 4Å: Chain D: D.123, L.129, D.173, F.247, H.256, H.274 Ligands: ZN.10 No protein-ligand interaction detected (PLIP) GOL.15: 7 residues within 4Å: Chain E: D.123, L.129, D.173, F.247, H.256, H.274 Ligands: ZN.13 No protein-ligand interaction detected (PLIP) GOL.18: 7 residues within 4Å: Chain F: D.123, L.129, D.173, F.247, H.256, H.274 Ligands: ZN.16 No protein-ligand interaction detected (PLIP) GOL.21: 7 residues within 4Å: Chain G: D.123, L.129, D.173, F.247, H.256, H.274 Ligands: ZN.19 No protein-ligand interaction detected (PLIP) GOL.24: 7 residues within 4Å: Chain H: D.123, L.129, D.173, F.247, H.256, H.274 Ligands: ZN.22 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ruzheinikov, S.N. et al., Glycerol dehydrogenase. structure, specificity, and mechanism of a family III polyol dehydrogenase. Structure (2001)

Release Date

2001-10-03

Peptides

Glycerol Dehydrogenase: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

G
A

H
A

Glycerol Dehydrogenase

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