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Paper | Special issue | Vol 103, No. 1, 2021, pp.322-330
Published online, 2nd September, 2020
DOI: 10.3987/COM-20-S(K)16
■ The Effect of the Base Triplets Adjacent to a T•CG or 5-MethylC•CG Triplet in the Triplex DNA

Yuta Ito, Chisa Hama, Takashi Osawa, and Yoshiyuki Hari*

*Faculty of Pharmaceutical Sciences, Tokushima Bunri University, Yamashiro-cho, Tokushima 770-8514, Japan

Abstract

The effect of the base triplets adjacent to an X•CG triplet [X = T, 5-methylcytosine (C), or their LNA and ENA counterparts] in a triplex DNA was examined through the UV-melting experiments. Whereas the triplex containing a T•CG triplet, sandwiched by T•AT triplets, was stable, the replacement of T•AT with C•GC at the 5ʹ-adjacent site significantly destabilized the stability. When one or both of the adjacent T•AT triplets were replaced with C•GC, the triplexes containing a C•CG triplet were generally more stable than those containing a T•CG triplet. Further increases in the thermal stability of the triplexes were observed by LNA and ENA modifications. These results suggested that a C•CG triplet rather than a T•CG triplet would be suitable for triplex formation when C•GC triplets existed at its adjacent site.