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Nucleic Acids Research, 1992, Vol. 20, No. 19 5011-5016
© 1992

CHEMISTRY

A comprehensive classification of nucleic acid structural families based on strand direction and base pairing

Richard Lavery*, Krystyna Zakrzewska, Jian-Sheng Sun1 and Stephen C. Harvey2

Laboratoire de Bbchimie Théorique, Institut de Biologie Physico-Chimique 13 rue Pierre et Marie Curie, Paris 75005, France 1Laboratoire de Biophysique, Muséum National d'Histoire Naturelle 43 rue Cuvier, Paris 75005, France 2Department of Biochemistry, University of Alabama at Birmingham Birmingham AL 35294, USA

* To whom correspondence should be addressed

Received July 30, 1992. Revised September 3, 1992. Accepted September 3, 1992.

We propose a classification of DNA structures formed from 1 to 4 strands, based only on relative strand directions, base to strand orientation and base pairing geometries. This classification and its associated notation enable all nucleic acids to be grouped into structural families and bring to light possible structures which have not yet been observed experimentally. It also helps in understanding transitions between families and can assist in the design of multistrand structures.


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