Recognition of Noncanonical RNA Base Pairs Using Triplex-Forming Peptide Nucleic Acids.

ABSTRACT: Noncanonical base pairs play an important role in enabling the structural and functional complexity of RNA. Molecular recognition of such motifs is challenging because of their diversity, significant deviation from the Watson-Crick structures, and dynamic behavior, resulting in alternative conformations of similar stability. Triplex-forming peptide nucleic acids (PNAs) have emerged as excellent ligands for the recognition of Watson-Crick base-paired double helical RNA. The present study extends the recognition potential of PNA to RNA helices having noncanonical GoU, AoC, and tandem GoA/AoG base pairs. The purines of the noncanonical base pairs formed M⁺·GoU, T·AoC, M⁺·GoA, and T·AoG Hoogsteen triples of similar or slightly reduced stability compared to the canonical M

SUBMITTER: Farshineh Saei S 

PROVIDER: S-EPMC12532022 | biostudies-literature | 2025 Jan

REPOSITORIES: biostudies-literature