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Effect of topology on dynamics of knots in polymers under tension

R. Matthews, A. A. Louis and J. M. Yeomans

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We use computer simulations to compare the dynamical behaviour of torus and even-twist knots in polymers under tension. The knots diffuse through a mechanism similar to reptation. Their friction coefficients grow linearly with average knot length for both knot types. For similar complexity, however, the torus knots diffuse faster than the even-twist knots. The knot length autocorrelation function exhibits a relaxation time that can be linked to a breathing mode. Its timescale depends on knot type, being typically longer for torus than for even-twist knots. These differences in dynamical behaviour are interpreted in terms of topological features of the knots.


PACS

87.15.-v Biomolecules: structure and physical properties

02.10.Kn Knot theory

82.35.Lr Physical properties of polymers

Subjects

Soft matter, liquids and polymers

Mathematical physics

Biological physics

Chemical physics and physical chemistry

Dates

Issue 2 (January 2010)

Received 7 August 2009, accepted for publication 21 December 2009

Published 27 January 2010



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