Impact of 7,8-dihydro-8-oxoguanine on methylation of the CpG site by Dnmt3a

Biochemistry. 2009 Feb 17;48(6):1361-8. doi: 10.1021/bi801947f.

Abstract

7,8-Dihydro-8-oxoguanine (8-oxoG) is a ubiquitous oxidative DNA lesion resulting from injury to DNA via reactive oxygen species. 8-oxoG lesions may play a role in the formation of aberrant DNA methylation patterns during carcinogenesis. In this study, we assessed the effects of 8-oxoG on methylation and complex formation of nine 30-mer oligodeoxynucleotide duplexes by the catalytic domain of murine Dnmt3a DNA methyltransferase (Dnmt3a-CD). The effects of 8-oxoG on the methylation rate of hemimethylated duplexes varied from a 25-fold decrease to a 1.8-fold increase, depending on the position of the lesion relative to the Dnmt3a-CD recognition site (CpG) and target cytosine (C). The most significant effect was observed when 8-oxoG replaced guanine within the recognition site immediately downstream of the target cytosine. Fluorescence polarization experiments with fluorescein-labeled duplexes revealed that two molecules of Dnmt3a-CD bind per duplex, generating sigmoid binding curves. Duplexes exhibiting the highest apparent binding cooperativity formed the least stable 1:2 complexes with Dnmt3a-CD and were methylated at the lowest rate. Kinetic analyses disclosed the formation of very stable nonproductive enzyme-substrate complexes with hemimethylated duplexes that act as suicide substrates of Dnmt3a-CD. The presence of 8-oxoG within the CpG site downstream of the target cytosine markedly diminished productive versus nonproductive binding. We propose that 8-oxoG located adjacent to the target cytosine interferes with methylation by weakening the affinity of DNA for Dnmt3a-CD, thereby favoring a nonproductive binding mode.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • Biocatalysis / drug effects
  • Catalytic Domain
  • CpG Islands / genetics*
  • DNA (Cytosine-5-)-Methyltransferases / metabolism*
  • DNA Methylation / drug effects*
  • DNA Methyltransferase 3A
  • DNA-Cytosine Methylases / metabolism
  • Fluorescein / metabolism
  • Guanine / analogs & derivatives*
  • Guanine / pharmacology
  • Kinetics
  • Mice
  • Time Factors

Substances

  • 7,8-dihydro-8-oxoguanine
  • Dnmt3a protein, mouse
  • Guanine
  • DNA modification methylase SssI
  • DNA-Cytosine Methylases
  • DNA (Cytosine-5-)-Methyltransferases
  • DNA Methyltransferase 3A
  • Fluorescein