Sequence selective recognition of double-stranded RNA using triple helix-forming peptide nucleic acids
Thomas Zengeya1, Pankaj Gupta, Eriks Rozners
1Department of Chemistry, Binghamton University, State University of New York, Binghamton, NY, USA.
Abstract:
Noncoding RNAs are attractive targets for molecular recognition because of the central role they play in gene expression. Since most noncoding RNAs are in a double-helical conformation, recognition of such structures is a formidable problem. Herein, we describe a method for sequence-selective recognition of biologically relevant double-helical RNA (illustrated on ribosomal A-site RNA) using peptide nucleic acids (PNA) that form a triple helix in the major grove of RNA under physiologically relevant conditions. Protocols for PNA preparation and binding studies using isothermal titration calorimetry are described in detail.
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