SMTL ID : 1xyl.1

THE ROLE OF THE DIVALENT METAL ION IN SUGAR BINDING, RING OPENING, AND ISOMERIZATION BY D-XYLOSE ISOMERASE: REPLACEMENT OF A CATALYTIC METAL BY AN AMINO-ACID

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-tetramer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 7 residues within 4Å: Chain A: K.182, E.216, H.219, N.246, D.254, D.256 Ligands: OH.2 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:E.216, A:H.219, A:D.254, A:D.256, OH.2 MG.3: 7 residues within 4Å: Chain B: K.182, E.216, H.219, N.246, D.254, D.256 Ligands: OH.4 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Ligand interactions Metal complexes: B:E.216, B:H.219, B:D.254, B:D.256, OH.4 MG.5: 7 residues within 4Å: Chain C: K.182, E.216, H.219, N.246, D.254, D.256 Ligands: OH.6 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Ligand interactions Metal complexes: C:E.216, C:H.219, C:D.254, C:D.256, OH.6 MG.7: 7 residues within 4Å: Chain D: K.182, E.216, H.219, N.246, D.254, D.256 Ligands: OH.8 5 PLIP interactions: 4 interactions with chain D, 1 Ligand-Ligand interactions Metal complexes: D:E.216, D:H.219, D:D.254, D:D.256, OH.8

4 x OH: HYDROXIDE ION(Non-covalent)

OH.2: 8 residues within 4Å: Chain A: K.180, K.182, E.216, H.219, D.254, D.256, D.286 Ligands: MG.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.180, A:E.216, A:H.219 Water bridges: A:K.182 OH.4: 9 residues within 4Å: Chain B: K.180, K.182, E.216, H.219, D.254, D.256, D.286, K.288 Ligands: MG.3 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:H.219 Water bridges: B:D.286, B:D.286 OH.6: 8 residues within 4Å: Chain C: K.180, K.182, E.216, H.219, D.254, D.256, D.286 Ligands: MG.5 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:K.180, C:E.216, C:H.219 Water bridges: C:K.182 OH.8: 9 residues within 4Å: Chain D: K.180, K.182, E.216, H.219, D.254, D.256, D.286, K.288 Ligands: MG.7 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:H.219 Water bridges: D:D.254, D:D.286, D:D.286

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Allen, K.N. et al., Role of the divalent metal ion in sugar binding, ring opening, and isomerization by D-xylose isomerase: replacement of a catalytic metal by an amino acid. Biochemistry (1994)

Release Date

1994-05-31

Peptides

XYLOSE ISOMERASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

XYLOSE ISOMERASE

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