Drosophila topoisomerase II double-strand DNA cleavage: analysis of DNA sequence homology at the cleavage site.
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.
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D000818:Animals; D001483:Base Sequence; D002874:Chromosome Mapping; D004247:DNA / Q000378:metabolism; D004250:DNA Topoisomerases, Type II / Q000378:metabolism*; D004274:DNA, Recombinant; D004331:Drosophila melanogaster / Q000201:enzymology / Q000235:genetics*; D010957:Plasmids; D013379:Substrate Specificity
D004274:DNA, Recombinant; D004247:DNA; D004250:DNA Topoisomerases, Type II