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Nucleic Acids Research, 1992, Vol. 20, No. 6 1321-1324
© 1992

MOLECULAR BIOLOGY

Effects of DNA looping on pyrimidine dimer formation

John R. Pehrson* and Leonard H. Cohen

Institute for Cancer Research, Fox Chase Cancer Center 7701 Burholme Avenue, Philadelphia, PA 19111, USA

*To whom correspondence should be addressed at present address: Laboratories of Biochemistry, Department of Animal Biology, School of Veterinary Medicine, University of Pennsylvania, 3800 Spruce Street, Philadelphia, PA 19104-6048, USA

Received December 2, 1991. Revised February 12, 1992. Accepted February 12, 1992.

We have assessed the effects of DNA curvature on pyrimidine dimer (PD) formation by examining the pattern of PD formation In DNA held in a loop by lambda repressor. The loop region was composed of diverse DNA sequences such that potential PD sites occurred throughout the loop. PD formation in the loop occurred with peaks at approximately 10 base intervals, just 3' of where the bending of the DNA was inferred to be toward the major groove. This relationship between the peaks and the DNA curvature is essentially Identical to that observed in the nucleosome. This indicates that DNA curvature is the major source of the periodicity of PD formation in the nucleosome, and supports an earlier model of the conformation of nucleosomal DNA based on PD formation. DNA loops containing diverse sequences should be of general value for assessing the effects of DNA curvature on DNA modification by other agents used to probe DNA-protein interactions and DNA conformation.


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