Product-assisted catalysis in base-excision DNA repair

Nat Struct Biol. 2003 Mar;10(3):204-11. doi: 10.1038/nsb902.

Abstract

Most spontaneous damage to bases in DNA is corrected through the action of the base-excision DNA repair pathway. Base excision repair is initiated by DNA glycosylases, lesion-specific enzymes that intercept aberrant bases in DNA and catalyze their excision. How such proteins accomplish the feat of catalyzing no fewer than five sequential reaction steps using a single active site has been unknown. To help answer this, we report the structure of a trapped catalytic intermediate in DNA repair by human 8-oxoguanine DNA glycosylase. This structure and supporting biochemical results reveal that the enzyme sequesters the excised lesion base and exploits it as a cofactor to participate in catalysis. To our knowledge, the present example represents the first documented case of product-assisted catalysis in an enzyme-catalyzed reaction.

Publication types

  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, Non-P.H.S.
  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • Amino Acid Substitution
  • Base Pairing
  • Borohydrides / chemistry
  • Catalysis
  • DNA Repair / physiology*
  • DNA-Formamidopyrimidine Glycosylase
  • Guanine / analogs & derivatives*
  • Guanine / chemistry
  • Guanine / metabolism
  • Imaging, Three-Dimensional
  • Lysine / chemistry
  • Lysine / metabolism
  • Models, Molecular
  • N-Glycosyl Hydrolases / chemistry*
  • N-Glycosyl Hydrolases / genetics
  • N-Glycosyl Hydrolases / metabolism*
  • Protein Conformation
  • Schiff Bases / chemistry
  • Schiff Bases / metabolism

Substances

  • Borohydrides
  • Schiff Bases
  • 8-hydroxyguanine
  • Guanine
  • N-Glycosyl Hydrolases
  • DNA-Formamidopyrimidine Glycosylase
  • Lysine

Associated data

  • PDB/1HU0
  • PDB/1LWV
  • PDB/1LWW
  • PDB/1LWY