Crystal structure of the S. cerevisiae D-ribose-5-phosphate isomerase: comparison with the archaeal and bacterial enzymes

Biochimie. 2005 Aug;87(8):763-9. doi: 10.1016/j.biochi.2005.03.001. Epub 2005 Apr 5.

Abstract

Ribose-5-phosphate isomerase A has an important role in sugar metabolism by interconverting ribose-5-phosphate and ribulose-5-phosphate. This enzyme is ubiquitous and highly conserved among the three kingdoms of life. We have solved the 2.1 A resolution crystal structure of the Saccharomyces cerevisiae enzyme by molecular replacement. This protein adopts the same fold as its archaeal and bacterial orthologs with two alpha/beta domains tightly packed together. Mapping of conserved residues at the surface of the protein reveals strong invariability of the active site pocket, suggesting a common ligand binding mode and a similar catalytic mechanism. The yeast enzyme associates as a homotetramer similarly to the archaeal protein. The effect of an inactivating mutation (Arg189 to Lys) is discussed in view of the information brought by this structure.

Publication types

  • Comparative Study
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Aldose-Ketose Isomerases / chemistry*
  • Amino Acid Sequence
  • Archaea / chemistry
  • Bacteria / chemistry
  • Binding Sites
  • Catalysis
  • Cloning, Molecular
  • Crystallography, X-Ray
  • Models, Molecular
  • Molecular Sequence Data
  • Mutation
  • Protein Conformation
  • Protein Folding
  • Protein Structure, Secondary
  • Protein Structure, Tertiary
  • Ribulosephosphates / metabolism
  • Saccharomyces cerevisiae*
  • Sequence Alignment
  • Sequence Homology, Amino Acid

Substances

  • Ribulosephosphates
  • ribulose 5-phosphate
  • Aldose-Ketose Isomerases
  • ribosephosphate isomerase

Associated data

  • PDB/1XTZ