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Topological Complexity in Protein Structures

Erica FlapanGabriella Heller — 2015

Molecular Based Mathematical Biology

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...

Intrinsic linking and knotting are arbitrarily complex

Erica FlapanBlake MellorRamin Naimi — 2008

Fundamenta Mathematicae

We show that, given any n and α, any embedding of any sufficiently large complete graph in ℝ³ contains an oriented link with components Q₁, ..., Qₙ such that for every i ≠ j, | l k ( Q i , Q j ) | α and | a ( Q i ) | α , where a ( Q i ) denotes the second coefficient of the Conway polynomial of Q i .

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