Drosophila topoisomerase II double-strand DNA cleavage: analysis of DNA sequence homology at the cleavage site

Nucleic Acids Res. 1985 Feb 25;13(4):1057-72. doi: 10.1093/nar/13.4.1057.


In order to study the sequence specificity of double-strand DNA cleavage by Drosophila topoisomerase II, we have mapped and sequenced 16 strong and 47 weak cleavage sites in the recombinant plasmid p pi 25.1. Analysis of the nucleotide and dinucleotide frequencies in the region near the site of phosphodiester bond breakage revealed a nonrandom distribution. The nucleotide frequencies observed would occur by chance with a probability less than 0.05. The consensus sequence we derived is 5'GT.A/TAY decrease ATT.AT..G 3', where a dot means no preferred nucleotide, Y is for pyrimidine, and the arrow shows the point of bond cleavage. On average, strong sites match the consensus better than weak sites.

Publication types

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

MeSH terms

  • Animals
  • Base Sequence
  • Chromosome Mapping
  • DNA / metabolism
  • DNA Topoisomerases, Type II / metabolism*
  • DNA, Recombinant
  • Drosophila melanogaster / enzymology
  • Drosophila melanogaster / genetics*
  • Plasmids
  • Substrate Specificity


  • DNA, Recombinant
  • DNA
  • DNA Topoisomerases, Type II