Some papers on knots and proteins:
William R. Taylor, A deeply knotted protein structure and how it might fold, Nature, Volume 406, pages 916–919, August 2000.
Michael A. Erdmann, Protein similarity from knot theory: geometric convolution and line weavings, Journal of Computational Biology, Volume 12, Issue 6, pages 609-637, July 2005.
Firas Khatib, Matthew T. Weirauch, Carol A. Rohl, Rapid knot detection and application to protein structure prediction, Bioinformatics, Volume 22, Issue 14, pages e252–e259, July 2006.
Peter Virnau, Leonid A. Mirny, Mehran Kardar, Intricate knots in proteins: function and evolution, PLoS Computational Biology, September 2006.
Rama Mishra, Shantha Bhushan, Knot theory in understanding proteins, Journal of Mathematical Biology, Volume 65, pages 1187–1213, December 2012.
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