SMTL ID : 8xia.1

X-RAY ANALYSIS OF D-XYLOSE ISOMERASE AT 1.9 ANGSTROMS: NATIVE ENZYME IN COMPLEX WITH SUBSTRATE AND WITH A MECHANISM-DESIGNED INACTIVATOR

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-tetramer

Ligands

4 x XLS: D-xylose(Non-covalent)

XLS.1: 13 residues within 4Å: Chain A: W.16, H.54, T.90, F.94, V.135, W.137, E.181, E.217, H.220, D.245, D.287 Ligands: MN.2, MN.3 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:W.16, A:T.90 Water bridges: A:W.137, A:N.215, A:N.215 XLS.4: 13 residues within 4Å: Chain B: W.16, H.54, T.90, F.94, V.135, W.137, E.181, E.217, H.220, D.245, D.287 Ligands: MN.5, MN.6 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:W.16, B:T.90 Water bridges: B:W.137, B:N.215, B:N.215 XLS.7: 13 residues within 4Å: Chain C: W.16, H.54, T.90, F.94, V.135, W.137, E.181, E.217, H.220, D.245, D.287 Ligands: MN.8, MN.9 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:W.16, C:T.90, C:T.90 Water bridges: C:W.137, C:N.215, C:N.215 XLS.10: 13 residues within 4Å: Chain D: W.16, H.54, T.90, F.94, V.135, W.137, E.181, E.217, H.220, D.245, D.287 Ligands: MN.11, MN.12 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:W.16, D:T.90, D:T.90 Water bridges: D:W.137, D:N.215, D:N.215

8 x MN: MANGANESE (II) ION(Non-covalent)

MN.2: 6 residues within 4Å: Chain A: E.217, H.220, N.247, D.255, D.257 Ligands: XLS.1 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.217, A:H.220, A:D.255, A:D.257, H2O.1 MN.3: 5 residues within 4Å: Chain A: E.181, E.217, D.245, D.287 Ligands: XLS.1 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.181, A:E.217, A:D.245, A:D.287 MN.5: 6 residues within 4Å: Chain B: E.217, H.220, N.247, D.255, D.257 Ligands: XLS.4 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.217, B:H.220, B:D.255, B:D.257, H2O.12 MN.6: 5 residues within 4Å: Chain B: E.181, E.217, D.245, D.287 Ligands: XLS.4 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.181, B:E.217, B:D.245, B:D.287 MN.8: 6 residues within 4Å: Chain C: E.217, H.220, N.247, D.255, D.257 Ligands: XLS.7 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:E.217, C:H.220, C:D.255, C:D.257, H2O.24 MN.9: 5 residues within 4Å: Chain C: E.181, E.217, D.245, D.287 Ligands: XLS.7 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:E.181, C:E.217, C:D.245, C:D.287 MN.11: 6 residues within 4Å: Chain D: E.217, H.220, N.247, D.255, D.257 Ligands: XLS.10 5 PLIP interactions: 4 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:E.217, D:H.220, D:D.255, D:D.257, H2O.35 MN.12: 5 residues within 4Å: Chain D: E.181, E.217, D.245, D.287 Ligands: XLS.10 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:E.181, D:E.217, D:D.245, D:D.287

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Carrell, H.L. et al., X-ray analysis of D-xylose isomerase at 1.9 A: native enzyme in complex with substrate and with a mechanism-designed inactivator. Proc.Natl.Acad.Sci.USA (1989)

Release Date

1991-10-15

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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