Supramolecular assemblies of ca bimodal pnas to tetraplexes and triple duplexes and biophysical study of c5 substituted uracil pna oligomers

Abstract

The thesis entitled 8220 Supramolecular assemblies of C 61537 bimodal PNAs to tetraplexes and triple duplexes and biophysical studies of C5 substituted Uracil PNA Oligomers 8221 comprises of a systematic study of formation of i Motif structures and silver mediated higher order assemblies from bimodal peptide nucleic acid bm PNA and the impact of C5 Uracil modification on PNA DNA RNA PNA hybrids The bimodal PNAs bm PNA are a new class of PNA molecules which can bind two different cDNAs to form double duplexes The bimodal PNA oligomers having all Cytosines C on C 61537 side chains are shown to have potential to form i Motif structure C H C at acidic pH Such i Motifs from triazole face of bm PNA possess nucleobases on amide face to which can bind to a complementary DNA strand with potential to form duplexes from outer side bm PNA having all C can also self pair through mediation of metal ions at neutral pH This leads to a bm PNA Ag bm PNA duplex which can in turn form outer duplexes with DNA leading to formation of triple duplexes Such metal mediated base pairing C M C of bm PNA presents a promising strategy to generate self assembling supramolecules with metal based functionality The work also describes effects of hydrophilic hydrophobic lipophilic C5 U modifications on PNA DNA RNA PNA hybrids newline newline