Abstract
The construction of chemical species with topological properties is an area of increasing interest. Numerous such structures have been synthesized in recent years, particularly from DNA, which is a natural synthon for these molecules. Recently, higher-order topological structures have been introduced. These hyper-structures consist of combinations of simple structures, such as a Brunnian Link of Brunnian Links or a Hopf Ring of Hopf Rings, or combinations thereof. In this article, we discuss the possibilities of constructing these hyper-structures with real molecules, particularly emphasizing the tools that result from the double helical structure of DNA.
Article PDF
Similar content being viewed by others
Avoid common mistakes on your manuscript.
References
Baas N.A.: Hyperstructures as abstract matter. Adv. Complex Syst. 9(3), 157–182 (2006)
Baas N.A.: New structures in complex systems. Eur. Phys. J. Special Top. 178, 25–44 (2009)
N.A. Baas, New states of matter suggested by new topological structures. arXiv:1012.2698v2 [cond-mat. quant-gas] 16 Feb 2011, p. 41
Ciengshin T., Sha R., Seeman N.C.: Automatic molecular weaving prototyped using single-stranded DNA. Angew. Chem. Int. Ed. 50, 4419–4422 (2011)
Dietrich-Buchecker C., Colasson B.X., Sauvage J.-P.: Top. Curr. Chem. 249, 261 (2005)
Du S.M., Seeman N.C.: The synthesis of a DNA knot containing both positive and negative nodes. J. Am. Chem. Soc. 114, 9652–9655 (1992)
Du S.M., Seeman N.C.: The construction of a trefoil knot from a DNA branched junction motif. Biopolymers 34, 31–37 (1994)
Du S.M., Stollar B.D., Seeman N.C.: A synthetic DNA molecule in three knotted topologies. J. Am. Chem. Soc. 117, 1194–1200 (1995)
S. Dugowson, The connectivity order of links (2008) [arXiv:0804.4323v1] [math.GN]
Fu T.-J., Tse-Dinh Y.-C., Seeman N.C.: Holliday junction crossover topology. J. Mol. Biol. 236, 91–105 (1994)
Liang C., Mislow K.: On Borromean links. J. Math. Chem. 16, 27–35 (1994)
Mao C., Sun W., Seeman N.C.: Assembly of Borromean rings from DNA. Nature 386, 137–138 (1997)
Rich A., Nordheim A., Wang A.H.J.: The chemistry and biology of left-handed Z-DNA. Ann. Rev. Biochem. 53, 791–846 (1984)
Seeman N.C.: The design of single-stranded nucleic acid knots. Molec. Eng. 2, 297–307 (1992)
N. Seeman, Synthetic single-stranded DNA topology, in Proceedings of Symposia in Applied Math. vol 66 (American Mathematical Society, 2009)
Stoddart J.F.: Chem. Soc. Rev. 38, 1802 (2009)
Yurke B., Turberfield A.J., Mills A.P. Jr, Simmel F.C., Newmann J.L.: A DNA-fuelled molecular machine made of DNA. Nature 406, 605–608 (2000)
Author information
Authors and Affiliations
Corresponding author
Rights and permissions
About this article
Cite this article
Baas, N.A., Seeman, N.C. On the chemical synthesis of new topological structures. J Math Chem 50, 220–232 (2012). https://doi.org/10.1007/s10910-011-9907-3
Received:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s10910-011-9907-3