Application of RNA-DNA Duplex Base Triplets to Antisense Drugs

Abstract

Sixty-four sets of three-dimensional models of RNA-DNA duplex base triplets were constructed
 based on codons by homology modeling method using software InsightII on Indigo workstation, which
 should be helpful for the study of RNA-DNA annealing, the basis of nucleic acids interactions and some
 peculiar motifs for design antisense oligonucleotides. Our research result reveal that the energies (such as
 E, Ec, Eb, Et and Enr) of DNA/asRNA hybrids are lower than those of RNA/asDNA hybrids while the
 energies (such as En and End) of DNA/asRNA hybrids are higher than those of RNA/asDNA hybrids for
 most binary complex and ternary complex, especially E, Ec, Eb and En in evidence. And the total energy of
 GGG/CCC hybrid is the lowest of all the hybrids, the more G/C base pairs, the lower of energy of the
 triplet hybrid and (G/C)