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Nucleic Acids Research, 1988, Vol. 16, No. 11 5115-5122
© 1988

Articles

Thermodynamic studies of base pairing involving 2,6-diaminopurine

Chaejoon Cheong, Ignacio Tinoco, Jr. and André Chollet1

Department of Chemistry and Laboratory of Chemical Biodynamics, University of California Berkeley, CA 94720, USA 1Glaxo Institute for Molecular Biology S.A. Route des Acacias 46, 1211 Geneva 24, Switzerland

Received February 5, 1988. Revised May 8, 1988. Accepted May 8, 1988.

The thermal stabilities of oligodeoxyribonucleotide duplexes containing 2,6-diaminopurine (D) matched with each of the four normal DNA bases were determined by optical melting techniques. Comparison of optical melting curves yielded relative stabilities for the D-containing standard base pairs in an otherwise identical base-pair sequence. The D:T pair was found to be more stable than the A:T pair in dC3DG3dC3TG3, as stable as the A:T in dCT3DT3G:dCA3TA3G, and less stable than the A:T in dCA3DA3G:dCT7G. The order of stabilities for X:Y in the DNA duplex dCA3XA3G:dCT3YT3G is:

(A:T)>(T:D)~=(D:T)≥(T:A)>(C:D)~=(D:A)~=(D:G)≥(D:C)~=(G:D)~=(D:D)≥(A:D).

Implications of these results for design of DNA oligonucleotide probes are discussed.


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