Engineering interlocking DNA rings with weak physical interactions

Nature Communications

Volumn 5, Issue , 2014, Pages

  Wu, Zai Sheng ^a,b,c   Shen, Zhifa ^a,b   Tram, Kha ^a,b   Li, Yingfu ^a,b  

^a MCMASTER UNIVERSITY   (Canada)

^b MCMASTER UNIVERSITY   (Canada)

^c FUZHOU UNIVERSITY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

CATENANE; DNA; CATENATED DNA; NANOMATERIAL; SINGLE STRANDED DNA;

BIOENGINEERING; CETACEAN; DNA; EXPERIMENTAL STUDY; MOLECULAR ANALYSIS;

ARTICLE; CONTROLLED STUDY; DNA HYBRIDIZATION; DNA SEQUENCE; GENE LIBRARY; GENETIC ENGINEERING; IN VITRO SELECTION; INTERACTIONS WITH DNA; NANOENGINEERING; RANDOMIZATION;

DNA, CATENATED; DNA, SINGLE-STRANDED; NANOSTRUCTURES;

EID: 84903649931     PISSN: None     EISSN: 20411723     Source Type: Journal    
DOI: 10.1038/ncomms5279     Document Type: Article

References (32)

1. Vale, R. D. & Milligan, R. A. The way things move: looking under the hood of molecular motor proteins. Science 288, 88-95 (2000
2. van den Heuvel, M. G. L. & Dekker, C. Motor proteins at work for nanotechnology. Science 317, 333-336 (2007 (Pubitemid 47106365)
3. Koumura, N., Zijlstra, R. W. J., van Delden, R. A., Harada, N. & Feringa, B. L. Light-driven monodirectional molecular rotor. Nature 401, 152-155 (1999 (Pubitemid 29436315)
4. Kelly, T. R., De Silva, H. & Silva, R. A. Unidirectional rotary motion in a molecular system. Nature 401, 150-152 (1999 (Pubitemid 29436314)
5. van Delden, R. A., Koumura, N., Harada, N. & Feringa, B. L. Unidirectional rotary motion in a liquid crystalline environment: color tuning by a molecular motor. Proc. Natl Acad. Sci. USA 99, 4945-4949 (2002 (Pubitemid 34411483)
6. Leigh, D. A., Wong, J. K. Y., Dehez, F. & Zerbetto, F. Unidirectional rotation in a mechanically interlocked molecular rotor. Nature 424, 174-179 (2003 (Pubitemid 36858682)
7. Hernandez, J. V., Kay, E. R. & Leigh, D. A. Reversible synthetic rotary molecular motor. Science 306, 1532-1537 (2004 (Pubitemid 39564944)
8. Kay, E. R., Leigh, D. A. & Zerbetto, F. Synthetic molecular motors and mechanical machines. Angew. Chem. Int. Ed. 46, 72-191 (2007 (Pubitemid 46074791)
9. Stoddart, J. F. The chemistry of the mechanical bond. Chem. Soc. Rev. 38, 1802-1820 (2009
10. Spruell, J. M. et al. Highly stable tetrathiafulvalene radical dimers in [3]catenanes. Nat. Chem. 2, 870-879 (2010
11. Wang, C. et al. Isolation by crystallization of translational isomers of a bistable donor-acceptor [2]catenane. Proc. Natl Acad. Sci. USA 107, 13991-13996 (2010
12. Coskun, A. et al. Mechanically stabilized tetrathiafulvalene radical dimers. J. Am. Chem. Soc. 133, 4538-4547 (2011
13. Fang, L. et al. Dual stimulus switching of a [2]catenane in water. Angew. Chem. Int. Ed. 50, 1805-1809 (2011
14. Seeman, N. C. DNA in a material world. Nature 421, 427-431 (2003 (Pubitemid 36157949)
15. Chen, J. H. & Seeman, N. C. Synthesis from DNA of a molecule with the connectivity of a cube. Nature 350, 631-633 (1991 (Pubitemid 21912289)
16. Zhang, Y. & Seeman, N. Construction of a DNA-truncated octahedron. J. Am. Chem. Soc. 116, 1661-1669 (1994
17. Mao, C., Sun, W. & Seeman, N. C. Assembly of Borromean rings from DNA. Nature 386, 137-138 (1997 (Pubitemid 27131434)
18. Escude, C., Garestier, T. & Helene, C. Padlock oligonucleotides for duplex DNA based on sequence-specific triple helix formation. Proc. Natl Acad. Sci. USA 96, 10603-10607 (1999 (Pubitemid 29442190)
19. Goodman, R. et al. Rapid chiral assembly of rigid DNA building blocks for molecular nanofabrication. Science 310, 1661-1665 (2005 (Pubitemid 41780784)
20. Weizmann, Y., Braunschweig, A. B.,Wilner, O. I., Cheglakov, Z. &Willner, I. A polycatenated DNA scaffold for the one-step assembly of hierarchical nanostructures. Proc. Natl Acad. Sci. USA 105, 5289-5294 (2008 (Pubitemid 351753856)
21. Elbaz, J., Wang, Z. G., Wang, F. & Willner, I. Programmed dynamic topologies in DNA catenanes. Angew. Chem. Int. Ed. 51, 2349-2353 (2012
22. Lu, C. H., Cecconello, A., Elbaz, J., Credi, A. & Willner, I. A three-station DNA catenane rotary motor with controlled directionality. Nano Lett. 13, 2303-2308 (2013
23. Lohmann, F., Ackermann, D. & Famulok, M. Reversible light switch for macrocycle mobility in a DNA rotaxane. J. Am. Chem. Soc. 134, 11884-11887 (2012
24. Schmidt, T. L. & Heckel, A. Construction of a structurally defined doublestranded DNA catenane. Nano Lett. 11, 1739-1742 (2011
25. Yang, Z., Li, D. & Li, T. Design and synthesis of catenated rings based on toroidal DNA structures. Chem. Commun. 47, 11930-11932 (2011
26. Ellington, A. D. & Szostak, J. W. In vitro selection of RNA molecules that bind specific ligands. Nature 346, 818-822 (1990
27. Tuerk, C. & Gold, L. Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase. Science 249, 505-510 (1990
28. Liang, X., Kuhn, H. & Frank-Kamenetskii, M. D. Monitoring single-stranded DNA secondary structure formation by determining the topological state of DNA catenanes. Biophys. J. 90, 2877-2889 (2006
29. Li, Z. et al. A replicable tetrahedral nanostructure self-assembled from a single DNA strand. J. Am. Chem. Soc. 131, 13093-13098 (2009
30. Bock, L. C., Griffin, L. C., Latham, J. A., Vermaas, E. H. & Toole, J. J. Selection of single-stranded DNA molecules that bind and inhibit human thrombin. Nature 355, 564-566 (1992
31. Kumar, R. et al. Template-directed oligonucleotide strand ligation, covalent intramolecular DNA circularization and catenation using click chemistry. J. Am. Chem. Soc. 129, 6859-6864 (2007 (Pubitemid 46847528)
32. Mei, S. H., Liu, Z., Brennan, J. D. & Li, Y. An efficient RNA-cleaving DNA enzyme that synchronizes catalysis with fluorescence signaling. J. Am. Chem. Soc. 125, 412-420 (2003). (Pubitemid 36077862)