Eukaryotic topoisomerase II preferentially cleaves alternating purine-pyrimidine repeats

J. R. Spitzner, In Kwon Chung, M. T. Muller

Research output: Contribution to journalArticle

124 Citations (Scopus)

Abstract

Alternating purine-pyrimidine sequences (RY repeats) demonstrate considerable homology to the consensus sequence for vertebrate topoisomerase II (Spitzner and Muller (1988) Nucleic Acids Res. 16: 1533-1556). This is shown below and positions that can match are underscored. (R is purine, Y is pyrimidine, K is G or T.) Topoisomerase II cleavage reactions were performed (in the absence of inhibitors) on a plasmid containing a 54 base RY repeat and the single strong cleavage site mapped to the RY repeat. Analysis of this DNA on sequencing gels showed that the enzyme cleaved a number of sites, all within the 54 base pair RY repeat. Topoisomerase II also made clustered cleavages within other RY repeats that were examined. Quantitative analysis of homology to the consensus sequence, as measured by the match of a site to a matrix of base proportions from the consensus data base (the matrix mean), showed that both the locations and the frequencies of cleavage sites within RY repeats were proportional to homology scores. However, topoisomerase II cleaved RY repeats preferentially in comparison to non-RY sites with similar homology scores. The activity of the enzyme at RY repeats appears to be proportional to the length of the repeat; additionally, GT, AC and AT repeats were better substrates for cleavage than GC repeats.

Original languageEnglish
Pages (from-to)1-11
Number of pages11
JournalNucleic acids research
Volume18
Issue number1
DOIs
Publication statusPublished - 1990 Jan 11

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Type II DNA Topoisomerase
Homology
Enzymes
Nucleic acids
Consensus Sequence
DNA
Gels
Directly proportional
Substrates
Quantitative Analysis
Chemical analysis
DNA Sequence Analysis
Base Pairing
Nucleic Acids
Sequencing
Inhibitor
Vertebrates
Proportion
Plasmids
Substrate

All Science Journal Classification (ASJC) codes

  • Genetics

Cite this

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abstract = "Alternating purine-pyrimidine sequences (RY repeats) demonstrate considerable homology to the consensus sequence for vertebrate topoisomerase II (Spitzner and Muller (1988) Nucleic Acids Res. 16: 1533-1556). This is shown below and positions that can match are underscored. (R is purine, Y is pyrimidine, K is G or T.) Topoisomerase II cleavage reactions were performed (in the absence of inhibitors) on a plasmid containing a 54 base RY repeat and the single strong cleavage site mapped to the RY repeat. Analysis of this DNA on sequencing gels showed that the enzyme cleaved a number of sites, all within the 54 base pair RY repeat. Topoisomerase II also made clustered cleavages within other RY repeats that were examined. Quantitative analysis of homology to the consensus sequence, as measured by the match of a site to a matrix of base proportions from the consensus data base (the matrix mean), showed that both the locations and the frequencies of cleavage sites within RY repeats were proportional to homology scores. However, topoisomerase II cleaved RY repeats preferentially in comparison to non-RY sites with similar homology scores. The activity of the enzyme at RY repeats appears to be proportional to the length of the repeat; additionally, GT, AC and AT repeats were better substrates for cleavage than GC repeats.",
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Eukaryotic topoisomerase II preferentially cleaves alternating purine-pyrimidine repeats. / Spitzner, J. R.; Chung, In Kwon; Muller, M. T.

In: Nucleic acids research, Vol. 18, No. 1, 11.01.1990, p. 1-11.

Research output: Contribution to journalArticle

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