Literature DB >> 19571370

The size of knots in polymers.

Enzo Orlandini1, Attilio L Stella, Carlo Vanderzande.   

Abstract

Circular DNA in viruses and bacteria is often knotted. While mathematically problematic, the determination of the knot size is crucial for the study of the physical and biological behaviour of long macromolecules. Here, we review work on the size distribution of these knots under equilibrium conditions. We discuss knot localization in good and poor solvents, or in polymers that are adsorbed on a surface. We also discuss recent evidence that knot size is a crucial quantity in relaxation processes of knotted polymers.

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Year:  2009        PMID: 19571370     DOI: 10.1088/1478-3975/6/2/025012

Source DB:  PubMed          Journal:  Phys Biol        ISSN: 1478-3967            Impact factor:   2.583


  8 in total

1.  Conservation of complex knotting and slipknotting patterns in proteins.

Authors:  Joanna I Sułkowska; Eric J Rawdon; Kenneth C Millett; Jose N Onuchic; Andrzej Stasiak
Journal:  Proc Natl Acad Sci U S A       Date:  2012-06-08       Impact factor: 11.205

2.  How topoisomerase IV can efficiently unknot and decatenate negatively supercoiled DNA molecules without causing their torsional relaxation.

Authors:  Eric J Rawdon; Julien Dorier; Dusan Racko; Kenneth C Millett; Andrzej Stasiak
Journal:  Nucleic Acids Res       Date:  2016-04-22       Impact factor: 16.971

3.  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

4.  Direct observation of DNA knots using a solid-state nanopore.

Authors:  Calin Plesa; Daniel Verschueren; Sergii Pud; Jaco van der Torre; Justus W Ruitenberg; Menno J Witteveen; Magnus P Jonsson; Alexander Y Grosberg; Yitzhak Rabin; Cees Dekker
Journal:  Nat Nanotechnol       Date:  2016-08-15       Impact factor: 39.213

5.  Synergy of topoisomerase and structural-maintenance-of-chromosomes proteins creates a universal pathway to simplify genome topology.

Authors:  Enzo Orlandini; Davide Marenduzzo; Davide Michieletto
Journal:  Proc Natl Acad Sci U S A       Date:  2019-04-08       Impact factor: 11.205

6.  Entropic Competition between Supercoiled and Torsionally Relaxed Chromatin Fibers Drives Loop Extrusion through Pseudo-Topologically Bound Cohesin.

Authors:  Renáta Rusková; Dušan Račko
Journal:  Biology (Basel)       Date:  2021-02-07

Review 7.  Knotted proteins: A tangled tale of Structural Biology.

Authors:  Patrícia F N Faísca
Journal:  Comput Struct Biotechnol J       Date:  2015-08-19       Impact factor: 7.271

8.  Influence of Rigidity and Knot Complexity on the Knotting of Confined Polymers.

Authors:  Peter Poier; Christos N Likos; Richard Matthews
Journal:  Macromolecules       Date:  2014-05-13       Impact factor: 5.985

  8 in total

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