› 1s5m

X-ray diffraction
0.98Å resolution

Xylose Isomerase in Substrate and Inhibitor Michaelis States: Atomic Resolution Studies of a Metal-Mediated Hydride Shift

Released:
DOI: 10.2210/pdb1s5m/pdb
PDB entry 1s5m coloured by chain, front view.
PDB entry 1s5m coloured by chain, side view.
PDB entry 1s5m coloured by chain, top view.
Source organism: Streptomyces olivochromogenes
Primary publication:
Xylose isomerase in substrate and inhibitor michaelis states: atomic resolution studies of a metal-mediated hydride shift.
Fenn TD, Ringe D, Petsko GA
Biochemistry 43 6464-74 (2004)
PMID: 15157080

Function and Biology Details

Reaction catalysed: 
Alpha-D-xylopyranose = alpha-D-xylufuranose
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-147411 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Xylose isomerase Chain: A
Molecule details ›
Chain: A
Length: 386 amino acids
Theoretical weight: 42.86 KDa
Source organism: Streptomyces olivochromogenes
Expression system: Escherichia coli
UniProt:
  • Canonical: P15587 (Residues: 2-387; Coverage: 100%)
Gene name: xylA
Sequence domains: Xylose isomerase-like TIM barrel
Structure domains: Divalent-metal-dependent TIM barrel enzymes

Ligands and Environments

3 bound ligands:
Ligand GLC 1 x GLC
Ligand MN 2 x MN
Ligand NA 2 x NA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 14-BM-C
Spacegroup: I222
Unit cell:
a: 85.865Å b: 92.968Å c: 98.298Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.111 0.111 0.129
Expression system: Escherichia coli

Quick links

Citations

3 review citations

Triosephosphate isomerase: a highly evolved biocatalyst.
Wierenga et al. (2010)
2 more

4 mentions without citation

Hydration water and bulk water in proteins have distinct properties in radial distributions calculated from 105 atomic resolution crystal structures.
Chen et al. (2008)
3 more