title: PNA-DNA duplexes, triplexes, and quadruplexes are stabilized with trans-cyclopentane units.
abstract: Peptide nucleic acids (PNAs) are non-natural nucleic acid mimics that bind to complementary DNA and RNA with high affinity and selectivity. PNA can bind to nucleic acids in a number of different ways. Currently, the formation of PNA-oligonucleotide duplex, triplex, and quadruplex structures have been reported. PNAs have been used in numerous biomedicial applications, but there are few strategies to predictably improve the binding properties of PNAs by backbone modification. We have been studying the benefits of incorporating (S,S)-trans-cyclopentane diamine units (tcyp) into the PNA backbone. In this Communication, we report the improvement in stability associated with tcyp incorporation into PNA-DNA duplexes, triplexes, and quadruplexes. The broad utility of this modification across multiple types of PNA structures is unique and should prove useful in the development of applications that rely on PNA.
authors.affiliation: Laboratory of Bioorganic Chemistry, Department of Health and Human Services, National Institute of Diabetes, Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA.
authors.forename: Ethan A
authors.initials: EA
authors.lastname: Englund
authors.forename: Qun
authors.initials: Q
authors.lastname: Xu
authors.forename: Mark A
authors.initials: MA
authors.lastname: Witschi
authors.forename: Daniel H
authors.initials: DH
authors.lastname: Appella
mesh_terms: D003517:Cyclopentanes / Q000737:chemistry*; D004247:DNA / Q000737:chemistry*; D009690:Nucleic Acid Conformation; D020135:Peptide Nucleic Acids / Q000737:chemistry*; D013696:Temperature
chemical_list: D003517:Cyclopentanes; D020135:Peptide Nucleic Acids; D004247:DNA