› 3kmh

X-ray diffraction
1.58Å resolution

Crystal Structure of a Novel Sugar Isomerase from E. coli O157:H7

Released:
DOI: 10.2210/pdb3kmh/pdb
PDB entry 3kmh coloured by chain, front view.
PDB entry 3kmh coloured by chain, side view.
PDB entry 3kmh coloured by chain, top view.
Source organism: Escherichia coli O157:H7
Primary publication:
Structure-based annotation of a novel sugar isomerase from the pathogenic E. coli O157:H7.
van Staalduinen LM, Park CS, Yeom SJ, Adams-Cioaba MA, Oh DK, Jia Z
J Mol Biol 401 866-81 (2010)
PMID: 20615418

Function and Biology Details

Reaction catalysed: 
D-lyxose = D-xylulose
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-570795 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
D-lyxose ketol-isomerase Chains: A, B
Molecule details ›
Chains: A, B
Length: 246 amino acids
Theoretical weight: 28.1 KDa
Source organism: Escherichia coli O157:H7
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8X5Q7 (Residues: 1-227; Coverage: 100%)
Gene name: ECs_5070
Sequence domains: D-lyxose isomerase
Structure domains: Jelly Rolls

Ligands and Environments

4 bound ligands:
Ligand GOL 2 x GOL
Ligand ACT 1 x ACT
Ligand MN 2 x MN
Ligand IPH 1 x IPH
1 modified residue:
Ligand MSE 10 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X3A
Spacegroup: P21
Unit cell:
a: 53.35Å b: 75.315Å c: 61.778Å
α: 90° β: 106.29° γ: 90°
R-values:
R R work R free
0.192 0.191 0.213
Expression system: Escherichia coli

Quick links

Citations

5 review citations

D-lyxose isomerase and its application for functional sugar production.
Huang et al. (2018)
4 more

2 mentions without citation

Characterization of a D-lyxose isomerase from Bacillus velezensis and its application for the production of D-mannose and L-ribose.
Guo et al. (2019)
1 more