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J Biomol Struct Dyn. 1986 Feb;3(4):667-9.

Structures of homopurine-homopyrimidine tract in superhelical DNA.

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  • 1Institute of Molecular Genetics, USSR Academy of Sciences, Moscow.


For homopurine-homopyrimidine tracts in superhelical DNA, we propose a structure involving Watson-Crick and Hoogsteen paired triple helixes, hairpin loops and unstructured domains. Topologically, the whole structure is equivalent to an open region. The proposed structure is consistent with available S1 cleavage, pH and alkylation data and energetics under superhelical stress; this new structure is a much more probable candidate than the one proposed by us recently (V.I. Lyamichev, S.M. Mirkin & M.D. Frank-Kamenetskii, J. Biomole. Str. Dyns 3, 327-338, 1985).

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