Large stacking stability of a base pair-mimic nucleotide on the DNA duplex

Open Access

1 September 2003

journal article
research article
Published by Oxford University Press (OUP) in Nucleic Acids Symposium Series

Vol. 3 (1) , 79-80
https://doi.org/10.1093/nass/3.1.79

Abstract

We synthesized novel adenosine derivatives tethering an aromatic hydrocarbon group by an amido linker. The single adenosine derivatives at 5′ dangling end stabilized the DNA duplex of 5′-ATGCGCAT-3′ more or equally than Watson-Crick base pair. When the number of the dangling residues increased from one to three, the duplex stability became larger by 1.8∼3.6 kcal/mol. When the adenosine derivative was opposite to an abasic site in a DNA duplex, the destabilization by the abasic site was significantly reduced. These observations suggest that the adenosine derivatives developed in this study can stack with a DNA base pair by forming a base pair-mimic geometry.

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