Literature DB >> 12366143

Knots in charged polymers.

Paul G Dommersnes1, Yacov Kantor, Mehran Kardar.   

Abstract

The interplay of topological constraints and Coulomb interactions in static and dynamic properties of charged polymers is investigated by numerical simulations and scaling arguments. In the absence of screening, the long-range interaction localizes irreducible topological constraints into tight molecular knots, while composite constraints are factored and separated. Even when the forces are screened, tight knots may survive as local (or even global) equilibria, as long as the overall rigidity of the polymer is dominated by the Coulomb interactions. As entanglements involving tight knots are not easy to eliminate, their presence greatly influences the relaxation times of the system. In particular, we find that tight knots in open polymers are removed by diffusion along the chain, rather than by opening up. The knot diffusion coefficient actually decreases with its charge density, and for highly charged polymers the knot's position appears frozen.

Entities:  

Year:  2002        PMID: 12366143     DOI: 10.1103/PhysRevE.66.031802

Source DB:  PubMed          Journal:  Phys Rev E Stat Nonlin Soft Matter Phys        ISSN: 1539-3755


  8 in total

1.  Mechanical tweezer action by self-tightening knots in surfactant nanotubes.

Authors:  Tatsiana Lobovkina; Paul Dommersnes; Jean-Francois Joanny; Patricia Bassereau; Mattias Karlsson; Owe Orwar
Journal:  Proc Natl Acad Sci U S A       Date:  2004-05-12       Impact factor: 11.205

2.  Absence of knots in known RNA structures.

Authors:  Cristian Micheletti; Marco Di Stefano; Henri Orland
Journal:  Proc Natl Acad Sci U S A       Date:  2015-02-02       Impact factor: 11.205

3.  Pore translocation of knotted DNA rings.

Authors:  Antonio Suma; Cristian Micheletti
Journal:  Proc Natl Acad Sci U S A       Date:  2017-03-28       Impact factor: 11.205

4.  Effects of knot tightness at the molecular level.

Authors:  Liang Zhang; Jean-François Lemonnier; Angela Acocella; Matteo Calvaresi; Francesco Zerbetto; David A Leigh
Journal:  Proc Natl Acad Sci U S A       Date:  2019-01-25       Impact factor: 11.205

5.  The average shape of the closed trefoil knot fluctuating on a floppy rope.

Authors:  Marcin Modlinski; Sylwester Przybyl; Piotr Pieranski
Journal:  Eur Phys J E Soft Matter       Date:  2013-05-14       Impact factor: 1.890

6.  Tightness of knots in a polymer chain.

Authors:  Xiaozhong Zheng; Alexander Vologodskii
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2010-04-26

7.  Sequence-specific size, structure, and stability of tight protein knots.

Authors:  Joachim Dzubiella
Journal:  Biophys J       Date:  2009-02       Impact factor: 4.033

8.  A nanofluidic knot factory based on compression of single DNA in nanochannels.

Authors:  Susan Amin; Ahmed Khorshid; Lili Zeng; Philip Zimny; Walter Reisner
Journal:  Nat Commun       Date:  2018-04-17       Impact factor: 14.919

  8 in total

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