Gemdimethyl Peptide Nucleic Acids (α/β/γ<i>-gdm</i>-PNA): E/Z-Rotamers Influence the Selectivity in the Formation of Parallel/Antiparallel <i>gdm</i>-PNA:DNA/RNA Duplexes.

The mixed-base PNA sequence incorporating α- gdm -T substitutions stabilized the resulting α- gdm -PNA:DNA/RNA duplexes 36 compared to that with isosequential DNA/RNA, with the antiparallel duplexes exhibiting higher T m values than those of aeg-PNA duplexes. In comparison, the β/γ- gdm PNAs reported here exhibited an interesting trend of (i) parallel DNA and RNA duplexes being more stable than aeg -PNA:DNA/RNA duplexes, (ii) T m of the parallel DNA duplexes higher than T m of antiparallel DNA duplexes, (iii) T m of antiparallel RNA duplexes higher than that of parallel RNA duplexes, (iv) for antiparallel duplexes, RNA duplexes with higher melting than that of DNA duplexes, and (v) for parallel duplexes, DNA duplexes with higher melting than that of RNA duplexes.

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