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Nucleic Acids Research, 1983, Vol. 11, No. 10 3097-3112
© 1983

MOLECULAR BIOLOGY

Structural perturbation in supercoiled DNA: hypersensitivity to modification by a single-strand-selective chemical reagent conferred by inverted repeat sequences

David M. J. Lilley

Molecular Genetics Lasboratory, Department of Biochemistry, Medical Sciences Institute, University of Dundee Dundee DD 4HN, UK

Received February 25, 1983. Accepted April 25, 1983.

Bromoacetaldehyde, a reagent which modifies unpaired adenine residues, selectively modifies supercoiled DNA in the region of inverted repeats which are known targets for single-strand-specific nucleases. The reaction is dependent upon the topological state of the molecule, and the absolute importance of the inverted repeat has been demonstrated. Finer mapping of the distribution of the modification pattern reveals significant and interesting differences from the SI nuclease target positions. Bromoacetaldehyde modification is distributed over a wider region covering the whole inverted repeat, with greatest extent of reaction in the regions which flank the inverted repeat. It is suggested that an altered conformation may be propagated into these sequences. These results further support the contention that inverted repeats adopt an altered conformation when negatively supercoiled, for which the principal suggestion remains the cruciform structure


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