Literature DB >> 22107680

Multiscale entanglement in ring polymers under spherical confinement.

Luca Tubiana1, Enzo Orlandini, Cristian Micheletti.   

Abstract

The interplay of geometrical and topological entanglement in semiflexible knotted polymer rings confined inside a spherical cavity is investigated by using advanced numerical methods. By using stringent and robust algorithms for locating knots, we characterize how the knot length l(k) depends on the ring contour length L(c) and the radius of the confining sphere R(c). In the no- and strong-confinement cases, we observe weak knot localization and complete knot delocalization, respectively. We show that the complex interplay of l(k), L(c), and R(c) that seamlessly bridges these two limits can be encompassed by a simple scaling argument based on deflection theory. The same argument is used to rationalize the multiscale character of the entanglement that emerges with increasing confinement.

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Year:  2011        PMID: 22107680     DOI: 10.1103/PhysRevLett.107.188302

Source DB:  PubMed          Journal:  Phys Rev Lett        ISSN: 0031-9007            Impact factor:   9.161


  10 in total

1.  Knotting of linear DNA in nano-slits and nano-channels: a numerical study.

Authors:  Enzo Orlandini; Cristian Micheletti
Journal:  J Biol Phys       Date:  2013-03-05       Impact factor: 1.365

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.  KymoKnot: A web server and software package to identify and locate knots in trajectories of linear or circular polymers.

Authors:  Luca Tubiana; Guido Polles; Enzo Orlandini; Cristian Micheletti
Journal:  Eur Phys J E Soft Matter       Date:  2018-06-07       Impact factor: 1.890

4.  Dynamic and facilitated binding of topoisomerase accelerates topological relaxation.

Authors:  Davide Michieletto; Yair A G Fosado; Elias Melas; Marco Baiesi; Luca Tubiana; Enzo Orlandini
Journal:  Nucleic Acids Res       Date:  2022-04-26       Impact factor: 19.160

5.  The role of non-native interactions in the folding of knotted proteins.

Authors:  Tatjana Skrbić; Cristian Micheletti; Pietro Faccioli
Journal:  PLoS Comput Biol       Date:  2012-06-14       Impact factor: 4.475

6.  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

7.  Geometric Predictors of Knotted and Linked Arcs.

Authors:  Joseph L Sleiman; Robin H Burton; Michele Caraglio; Yair Augusto Gutierrez Fosado; Davide Michieletto
Journal:  ACS Polym Au       Date:  2022-07-08

8.  Folding pathways of a knotted protein with a realistic atomistic force field.

Authors:  Silvio a Beccara; Tatjana Škrbić; Roberto Covino; Cristian Micheletti; Pietro Faccioli
Journal:  PLoS Comput Biol       Date:  2013-03-21       Impact factor: 4.475

9.  Effect of Bending Rigidity on the Knotting of a Polymer under Tension.

Authors:  Richard Matthews; Ard A Louis; Christos N Likos
Journal:  ACS Macro Lett       Date:  2012-11-08       Impact factor: 6.903

10.  Current theoretical models fail to predict the topological complexity of the human genome.

Authors:  Javier Arsuaga; Reyka G Jayasinghe; Robert G Scharein; Mark R Segal; Robert H Stolz; Mariel Vazquez
Journal:  Front Mol Biosci       Date:  2015-08-21
  10 in total

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