title: Daisy Chain Rotaxanes Made from Interlocked DNA Nanostructures.
abstract: We report the stepwise assembly of supramolecular daisy chain rotaxanes (DCR) made of double-stranded DNA: Small dsDNA macrocycles bearing an axle assemble into a pseudo-DCR precursor that was connected to rigid DNA stoppers to form DCR with the macrocycles hybridized to the axles. In presence of release oligodeoxynucleotides (rODNs), the macrocycles are released from their respective hybridization sites on the axles, leading to stable mechanically interlocked DCRs. Besides the expected threaded DCRs, certain amounts of externally hybridized structures were observed, which dissociate into dumbbell structures in presence of rODNs. We show that the genuine DCRs have significantly higher degrees of freedom in their movement along the thread axle than the hybridized DCR precursors. Interlocking of DNA in DCRs might serve as a versatile principle for constructing functional DNA nanostructures where the movement of the subunits is restricted within precisely confined tolerance ranges.
authors.affiliation: LIMES Chemical Biology Unit, Universität Bonn, Gerhard-Domagk-Strasse 1, 53121, Bonn, Germany.
authors.forename: Johannes
authors.initials: J
authors.lastname: Weigandt
authors.affiliation: LIMES Chemical Biology Unit, Universität Bonn, Gerhard-Domagk-Strasse 1, 53121, Bonn, Germany.
authors.forename: Chia-Ling
authors.initials: CL
authors.lastname: Chung
authors.affiliation: Kekulé-Institut für Organische Chemie und Biochemie, Universität Bonn, Gerhard-Domagk-Strasse 1, 53121, Bonn, Germany.
authors.forename: Stefan-S
authors.initials: SS
authors.lastname: Jester
authors.affiliation: LIMES Chemical Biology Unit, Universität Bonn, Gerhard-Domagk-Strasse 1, 53121, Bonn, Germany. m.famulok@uni-bonn.de.|Center of Advanced European Studies and Research, Ludwig-Erhard-Allee 2, 53175, Bonn, Germany. m.famulok@uni-bonn.de.
authors.forename: Michael
authors.identifier: 0000-0001-5878-6577
authors.initials: M
authors.lastname: Famulok
mesh_terms: D001483:Base Sequence; D004247:DNA / Q000737:chemistry*; D049329:Nanostructures / Q000737:chemistry* / Q000648:ultrastructure; D036103:Nanotechnology / Q000379:methods*; D009690:Nucleic Acid Conformation; D009693:Nucleic Acid Hybridization; D009838:Oligodeoxyribonucleotides / Q000737:chemistry; D043862:Rotaxanes / Q000737:chemistry*
chemical_list: D009838:Oligodeoxyribonucleotides; D043862:Rotaxanes; D004247:DNA
keywords: DNA nanotechnology; DNA structures; daisy chain rotaxanes; nanostructures; supramolecular chemistry