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Literature DB >> 20192771

Biophysics of knotting.

Dario Meluzzi¹, Douglas E Smith, Gaurav Arya.

Abstract

Knots appear in a wide variety of biophysical systems, ranging from biopolymers, such as DNA and proteins, to macroscopic objects, such as umbilical cords and catheters. Although significant advancements have been made in the mathematical theory of knots and some progress has been made in the statistical mechanics of knots in idealized chains, the mechanisms and dynamics of knotting in biophysical systems remain far from fully understood. We report on recent progress in the biophysics of knotting-the formation, characterization, and dynamics of knots in various biophysical contexts.

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Year: 2010 PMID： 20192771 DOI： 10.1146/annurev.biophys.093008.131412

Source DB: PubMed Journal: Annu Rev Biophys ISSN： 1936-122X Impact factor: 12.981

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Cited

12 in total

1. Twist propagation in dinucleosome arrays.

Authors: Irina V Dobrovolskaia; Martin Kenward; Gaurav Arya
Journal: Biophys J Date: 2010-11-17 Impact factor: 4.033

2. Topoisomer differentiation of molecular knots by FTICR MS: lessons from class II lasso peptides.

Authors: Séverine Zirah; Carlos Afonso; Uwe Linne; Thomas A Knappe; Mohamed A Marahiel; Sylvie Rebuffat; Jean-Claude Tabet
Journal: J Am Soc Mass Spectrom Date: 2011-02-10 Impact factor: 3.109

3. Compression and self-entanglement of single DNA molecules under uniform electric field.

Authors: Jing Tang; Ning Du; Patrick S Doyle
Journal: Proc Natl Acad Sci U S A Date: 2011-09-12 Impact factor: 11.205

4. Knot theory realizations in nematic colloids.

Authors: Simon Čopar; Uroš Tkalec; Igor Muševič; Slobodan Žumer
Journal: Proc Natl Acad Sci U S A Date: 2015-01-26 Impact factor: 11.205

5. 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

6. 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

Biophysics of knotting.

1. Twist propagation in dinucleosome arrays.

2. Topoisomer differentiation of molecular knots by FTICR MS: lessons from class II lasso peptides.

3. Compression and self-entanglement of single DNA molecules under uniform electric field.

4. Knot theory realizations in nematic colloids.

5. Absence of knots in known RNA structures.

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

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

8. Tightening slip knots in raw and degummed silk to increase toughness without losing strength.

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

10. The elusive quest for RNA knots.