Literature DB >> 26291690

Molecular knots in biology and chemistry.

Nicole C H Lim1, Sophie E Jackson.   

Abstract

Knots and entanglements are ubiquitous. Beyond their aesthetic appeal, these fascinating topological entities can be either useful or cumbersome. In recent decades, the importance and prevalence of molecular knots have been increasingly recognised by scientists from different disciplines. In this review, we provide an overview on the various molecular knots found in naturally occurring biological systems (DNA, RNA and proteins), and those created by synthetic chemists. We discuss the current knowledge in these fields, including recent developments in experimental and, in some cases, computational studies which are beginning to shed light into the complex interplay between the structure, formation and properties of these topologically intricate molecules.

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Year:  2015        PMID: 26291690     DOI: 10.1088/0953-8984/27/35/354101

Source DB:  PubMed          Journal:  J Phys Condens Matter        ISSN: 0953-8984            Impact factor:   2.333


  33 in total

1.  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

2.  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

3.  Thermal Unthreading of the Lasso Peptides Astexin-2 and Astexin-3.

Authors:  Caitlin D Allen; Maria Y Chen; Alexander Y Trick; Dan Thanh Le; Andrew L Ferguson; A James Link
Journal:  ACS Chem Biol       Date:  2016-09-15       Impact factor: 5.100

4.  A molecular endless (74) knot.

Authors:  David A Leigh; Jonathan J Danon; Stephen D P Fielden; Jean-François Lemonnier; George F S Whitehead; Steffen L Woltering
Journal:  Nat Chem       Date:  2020-12-14       Impact factor: 24.427

5.  Designing brighter near-infrared fluorescent proteins: insights from structural and biochemical studies.

Authors:  Mikhail Baloban; Daria M Shcherbakova; Sergei Pletnev; Vladimir Z Pletnev; J Clark Lagarias; Vladislav V Verkhusha
Journal:  Chem Sci       Date:  2017-05-04       Impact factor: 9.825

6.  Investigation of the structural dynamics of a knotted protein and its unknotted analog using molecular dynamics.

Authors:  José Cícero Alves Silva; Elton José Ferreira Chaves; Gabriel Aires Urquiza de Carvalho; Gerd Bruno Rocha
Journal:  J Mol Model       Date:  2022-03-31       Impact factor: 1.810

7.  Knotting a molecular strand can invert macroscopic effects of chirality.

Authors:  Nathalie Katsonis; Federico Lancia; David A Leigh; Lucian Pirvu; Alexander Ryabchun; Fredrik Schaufelberger
Journal:  Nat Chem       Date:  2020-08-03       Impact factor: 24.427

8.  Knotting and unknotting of a protein in single molecule experiments.

Authors:  Fabian Ziegler; Nicole C H Lim; Soumit Sankar Mandal; Benjamin Pelz; Wei-Ping Ng; Michael Schlierf; Sophie E Jackson; Matthias Rief
Journal:  Proc Natl Acad Sci U S A       Date:  2016-06-23       Impact factor: 11.205

9.  Tying up the Loose Ends: A Mathematically Knotted Protein.

Authors:  Shang-Te Danny Hsu; Yun-Tzai Cloud Lee; Kornelia M Mikula; Sofia M Backlund; Igor Tascón; Adrian Goldman; Hideo Iwaï
Journal:  Front Chem       Date:  2021-05-24       Impact factor: 5.221

10.  Effects of turn-structure on folding and entanglement in artificial molecular overhand knots.

Authors:  Yiwei Song; Fredrik Schaufelberger; Zoe Ashbridge; Lucian Pirvu; Iñigo J Vitorica-Yrezabal; David A Leigh
Journal:  Chem Sci       Date:  2020-12-08       Impact factor: 9.825

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