SMTL ID : 1kq3.2 (1 other biounit)

CRYSTAL STRUCTURE OF A GLYCEROL DEHYDROGENASE (TM0423) FROM THERMOTOGA MARITIMA AT 1.5 A RESOLUTION

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-octamer

Ligands

8 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: D.131, D.181, H.264, H.281 Ligands: TRS.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.181, A:H.264, A:H.281 ZN.4: 5 residues within 4Å: Chain B: D.131, D.181, H.264, H.281 Ligands: TRS.6 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.181, B:H.264, B:H.281 ZN.7: 5 residues within 4Å: Chain C: D.131, D.181, H.264, H.281 Ligands: TRS.9 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:D.181, C:H.264, C:H.281 ZN.10: 5 residues within 4Å: Chain D: D.131, D.181, H.264, H.281 Ligands: TRS.12 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:D.181, D:H.264, D:H.281 ZN.13: 5 residues within 4Å: Chain E: D.131, D.181, H.264, H.281 Ligands: TRS.15 3 PLIP interactions: 3 interactions with chain E Metal complexes: E:D.181, E:H.264, E:H.281 ZN.16: 5 residues within 4Å: Chain F: D.131, D.181, H.264, H.281 Ligands: TRS.18 3 PLIP interactions: 3 interactions with chain F Metal complexes: F:D.181, F:H.264, F:H.281 ZN.19: 5 residues within 4Å: Chain G: D.131, D.181, H.264, H.281 Ligands: TRS.21 3 PLIP interactions: 3 interactions with chain G Metal complexes: G:D.181, G:H.264, G:H.281 ZN.22: 5 residues within 4Å: Chain H: D.131, D.181, H.264, H.281 Ligands: TRS.24 3 PLIP interactions: 3 interactions with chain H Metal complexes: H:D.181, H:H.264, H:H.281

8 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 7 residues within 4Å: Chain A: D.131, D.181, T.185, S.251, F.255, H.264 Ligands: TRS.3 Ligand excluded by PLIP CL.5: 7 residues within 4Å: Chain B: D.131, D.181, T.185, S.251, F.255, H.264 Ligands: TRS.6 Ligand excluded by PLIP CL.8: 7 residues within 4Å: Chain C: D.131, D.181, T.185, S.251, F.255, H.264 Ligands: TRS.9 Ligand excluded by PLIP CL.11: 7 residues within 4Å: Chain D: D.131, D.181, T.185, S.251, F.255, H.264 Ligands: TRS.12 Ligand excluded by PLIP CL.14: 7 residues within 4Å: Chain E: D.131, D.181, T.185, S.251, F.255, H.264 Ligands: TRS.15 Ligand excluded by PLIP CL.17: 7 residues within 4Å: Chain F: D.131, D.181, T.185, S.251, F.255, H.264 Ligands: TRS.18 Ligand excluded by PLIP CL.20: 7 residues within 4Å: Chain G: D.131, D.181, T.185, S.251, F.255, H.264 Ligands: TRS.21 Ligand excluded by PLIP CL.23: 7 residues within 4Å: Chain H: D.131, D.181, T.185, S.251, F.255, H.264 Ligands: TRS.24 Ligand excluded by PLIP

8 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.3: 9 residues within 4Å: Chain A: T.130, D.131, L.137, D.181, F.255, H.264, H.281 Ligands: ZN.1, CL.2 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Y.150 TRS.6: 9 residues within 4Å: Chain B: T.130, D.131, L.137, D.181, F.255, H.264, H.281 Ligands: ZN.4, CL.5 1 PLIP interactions: 1 interactions with chain B Water bridges: B:Y.150 TRS.9: 9 residues within 4Å: Chain C: T.130, D.131, L.137, D.181, F.255, H.264, H.281 Ligands: ZN.7, CL.8 1 PLIP interactions: 1 interactions with chain C Water bridges: C:Y.150 TRS.12: 9 residues within 4Å: Chain D: T.130, D.131, L.137, D.181, F.255, H.264, H.281 Ligands: ZN.10, CL.11 1 PLIP interactions: 1 interactions with chain D Water bridges: D:Y.150 TRS.15: 9 residues within 4Å: Chain E: T.130, D.131, L.137, D.181, F.255, H.264, H.281 Ligands: ZN.13, CL.14 No protein-ligand interaction detected (PLIP) TRS.18: 9 residues within 4Å: Chain F: T.130, D.131, L.137, D.181, F.255, H.264, H.281 Ligands: ZN.16, CL.17 No protein-ligand interaction detected (PLIP) TRS.21: 9 residues within 4Å: Chain G: T.130, D.131, L.137, D.181, F.255, H.264, H.281 Ligands: ZN.19, CL.20 No protein-ligand interaction detected (PLIP) TRS.24: 9 residues within 4Å: Chain H: T.130, D.131, L.137, D.181, F.255, H.264, H.281 Ligands: ZN.22, CL.23 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lesley, S.A. et al., Structural genomics of the Thermotoga maritima proteome implemented in a high-throughput structure determination pipeline. Proc.Natl.Acad.Sci.USA (2002)

Release Date

2002-02-27

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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