PMID: 22587051May 17, 2012Paper

Fractional Brownian motion and the critical dynamics of zipping polymers

Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics
J-C WalterC Vanderzande

Abstract

We consider two complementary polymer strands of length L attached by a common-end monomer. The two strands bind through complementary monomers and at low temperatures form a double-stranded conformation (zipping), while at high temperature they dissociate (unzipping). This is a simple model of DNA (or RNA) hairpin formation. Here we investigate the dynamics of the strands at the equilibrium critical temperature T=T(c) using Monte Carlo Rouse dynamics. We find that the dynamics is anomalous, with a characteristic time scaling as τ∼L(2.26(2)), exceeding the Rouse time ∼L(2.18). We investigate the probability distribution function, velocity autocorrelation function, survival probability, and boundary behavior of the underlying stochastic process. These quantities scale as expected from a fractional Brownian motion with a Hurst exponent H=0.44(1). We discuss similarities to and differences from unbiased polymer translocation.

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Citations

Apr 12, 2017·Soft Matter·T SakaueC Vanderzande
Sep 14, 2018·Physical Chemistry Chemical Physics : PCCP·Michele CaraglioCarlo Vanderzande
Dec 10, 2013·Physical Review Letters·Shamik GuptaChristophe Texier
Dec 15, 2016·Physical Review. E·Mathieu Delorme, Kay Jörg Wiese
Aug 31, 2016·Physical Review. E·Mathieu Delorme, Kay Jörg Wiese
Dec 10, 2017·The Journal of Chemical Physics·M LalemanH Orland
Mar 26, 2013·Physical Review Letters·Gleb OshaninGrégory Schehr
Mar 4, 2014·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·Felix Thiel, Igor M Sokolov
Aug 15, 2015·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·Takuya Saito, Takahiro Sakaue
Sep 17, 2013·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·Alexander K HartmannAlberto Rosso
Aug 14, 2018·The Journal of Physical Chemistry. B·E CarlonC Vanderzande

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