Structural and dynamic effects of single 7-hydro-8-oxoguanine bases located in a frameshift target DNA sequence

Biophys Chem. 2005 Oct 22;118(1):31-41. doi: 10.1016/j.bpc.2005.06.003.

Abstract

DNA 7-hydro-8-oxoguanine (8-oxoG) is implicated in frameshift formation in an G(6) sequence of the HPRT gene in mismatch repair (MMR) defective cells. Using oligonucleotides based on this frameshift hotspot, we investigated how a single 8-oxoG modified the structural and dynamic properties of the G(6) tract. A 30 ns molecular dynamics (MD) simulation indicated compression of the minor groove in the immediate vicinity of the lesion. Fluorescence polarization anisotropy (FPA) and MD demonstrated that 8-oxoG increases DNA torsional rigidity and also constrains the movement of the single-stranded region at the single/double stranded DNA junction of model DNA replication template/primer. These constraints influenced the efficiency of primer extension by Klenow (exo(-)) DNA polymerase.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Base Pair Mismatch
  • Base Sequence
  • DNA / chemistry*
  • DNA Repair
  • DNA Replication / drug effects*
  • DNA-Directed DNA Polymerase / genetics
  • DNA-Directed DNA Polymerase / metabolism
  • Fluorescence Polarization
  • Guanine / analogs & derivatives*
  • Guanine / chemistry
  • Guanine / pharmacology
  • Hypoxanthine Phosphoribosyltransferase / genetics
  • Nucleic Acid Conformation / drug effects*
  • Templates, Genetic

Substances

  • 8-hydroxyguanine
  • Guanine
  • DNA
  • Hypoxanthine Phosphoribosyltransferase
  • DNA-Directed DNA Polymerase