title: C3'-endo-puckered pyrrolidine containing PNA has favorable geometry for RNA binding: novel ethano locked PNA (ethano-PNA).
abstract: A novel peptide nucleic acid (PNA) analogue is designed with a constraint in the aminoethyl segment of the aegPNA backbone so that the dihedral angle β is restricted within 60-80°, compatible to form PNA:RNA duplexes. The designed monomer is further functionalized with positively charged amino-/guanidino-groups. The appropriately protected monomers were synthesized and incorporated into aegPNA oligomers at predetermined positions and their binding abilities with cDNA and RNA were investigated. A single incorporation of the modified PNA monomer into a 12-mer PNA sequence resulted in stronger binding with complementary RNA over cDNA. No significant changes in the CD signatures of the derived duplexes of modified PNA with complementary RNA were observed.
authors.affiliation: Division of Organic Chemistry, National Chemical Laboratory, Pune 411008, India.
authors.forename: Anjan
authors.initials: A
authors.lastname: Banerjee
authors.forename: Vaijayanti A
authors.initials: VA
authors.lastname: Kumar
mesh_terms: D002851:Chromatography, High Pressure Liquid; D002942:Circular Dichroism; D000431:Ethanol / Q000737:chemistry*; D015394:Molecular Structure; D020135:Peptide Nucleic Acids / Q000737:chemistry*; D011759:Pyrrolidines / Q000737:chemistry*; D012313:RNA / Q000737:chemistry / Q000378:metabolism*; D019032:Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization
chemical_list: D020135:Peptide Nucleic Acids; D011759:Pyrrolidines; D000431:Ethanol; D012313:RNA; C032519:pyrrolidine