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Abstract
Our previous study has demonstrated that “sheared” G:A base pairs are formed for two consecutive G:A mismatches of d (GGACGACATC): d(GATGGAGTCC) [Katahira et al. (1993) Nucleic Acids Res., 21, 5418–5424]. We report NMR studies of d(GGACGCATC):d(GATGAGTCC) where the central two consecutive G:A mismatches are replaced by a single G:A mismatch. A drastic change was found on the mode of the G:A base pairing. Another kind of G:A base pairing, presumably a “head to head” G:A base pair, is formed in the single G:A mismatch. Additionally, asymmetric thermal stabilities of the base pairs along the duplex were observed.