SMTL ID : 5y4i.1

Crystal structure of glucose isomerase in complex with glycerol in one metal binding mode

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.91 Å

Oligo State

homo-tetramer

Ligands

4 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 2 residues within 4Å: Chain A: W.237 Chain D: K.159 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:K.159 ACT.4: 2 residues within 4Å: Chain B: W.237 Chain C: K.159 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:K.159 ACT.7: 2 residues within 4Å: Chain B: K.159 Chain C: W.237 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:K.159 ACT.10: 2 residues within 4Å: Chain A: K.159 Chain D: W.237 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:K.159

4 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: E.181, E.217, D.245, D.287 Ligands: GOL.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.181, A:E.217, A:D.245, A:D.287 MG.5: 5 residues within 4Å: Chain B: E.181, E.217, D.245, D.287 Ligands: GOL.6 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.181, B:E.217, B:D.245, B:D.287 MG.8: 5 residues within 4Å: Chain C: E.181, E.217, D.245, D.287 Ligands: GOL.9 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:E.181, C:E.217, C:D.245, C:D.287 MG.11: 5 residues within 4Å: Chain D: E.181, E.217, D.245, D.287 Ligands: GOL.12 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:E.181, D:E.217, D:D.245, D:D.287

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 9 residues within 4Å: Chain A: H.54, F.94, W.137, E.181, E.217, H.220, D.245, D.287 Ligands: MG.2 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:H.54, A:H.220, A:D.287 Water bridges: A:T.90, A:N.215, A:D.245 GOL.6: 9 residues within 4Å: Chain B: H.54, F.94, W.137, E.181, E.217, H.220, D.245, D.287 Ligands: MG.5 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:H.54, B:H.220, B:D.287 Water bridges: B:T.90, B:N.215, B:D.245 GOL.9: 9 residues within 4Å: Chain C: H.54, F.94, W.137, E.181, E.217, H.220, D.245, D.287 Ligands: MG.8 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:H.54, C:H.220 Water bridges: C:N.215, C:D.245 GOL.12: 9 residues within 4Å: Chain D: H.54, F.94, W.137, E.181, E.217, H.220, D.245, D.287 Ligands: MG.11 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:H.54, D:H.220 Water bridges: D:N.215, D:D.245

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bae, J.E. et al., Crystal structure of glucose isomerase in complex with xylitol inhibitor in one metal binding mode. Biochem. Biophys. Res. Commun. (2017)

Release Date

2017-09-20

Peptides

Xylose isomerase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Xylose isomerase

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