Student Co-author

Pomona Undergraduate

Document Type

Article

Department

Mathematics (Pomona)

Publication Date

2015

Keywords

non-planarity; proteins; topology; knots; links; spatial graphs; Möbius ladders

Abstract

For DNA molecules, topological complexity occurs exclusively as the result of knotting or linking of the polynucleotide backbone. By contrast, while a few knots and links have been found within the polypeptide backbones of some protein structures, non-planarity can also result from the connectivity between a polypeptide chain and inter- and intra-chain linking via cofactors and disulfide bonds. In this article, we survey the known types of knots, links, and non-planar graphs in protein structures with and without including such bonds and cofactors. Then we present new examples of protein structures containing Möbius ladders and other non-planar graphs as a result of these cofactors. Finally, we propose hypothetical structures illustrating specific disulfide connectivities that would result in the key ring link, the Whitehead link and the 51 knot, the latter two of which have thus far not been identified within protein structures.

Comments

Originally published by Molecular Based Mathematical Biology under De Gruyter Open Access. For Molecular Based Mathematical Biology's homepage, see: https://www.degruyter.com/view/j/mlbmb.2016.4.issue-1/issue-files/mlbmb.2016.4.issue-1.xml?rskey=uLhzok&result=1.

This article is also available from Molecular Based Mathematical Biology at: https://www.degruyter.com/view/j/mlbmb.2015.3.issue-1/mlbmb-2015-0002/mlbmb-2015-0002.xml?format=INT.

Rights Information

© 2015 Erica Flapan and Gabriella Heller

Terms of Use & License Information

Creative Commons License
This work is licensed under a Creative Commons Attribution-Noncommercial-No Derivative Works 3.0 License.

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