Grid diagrams as tools to investigate knot spaces and topoisomerase-mediated simplification of DNA topology.

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Ressource 1Download: Science Advances Grid Diagrams.pdf (1449.19 [Ko])
State: Public
Version: Final published version
License: CC BY 4.0
Serval ID
serval:BIB_AF311EE3A9EB
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
Grid diagrams as tools to investigate knot spaces and topoisomerase-mediated simplification of DNA topology.
Journal
Science advances
Author(s)
Barbensi A., Celoria D., Harrington H.A., Stasiak A., Buck D.
ISSN
2375-2548 (Electronic)
ISSN-L
2375-2548
Publication state
Published
Issued date
02/2020
Peer-reviewed
Oui
Volume
6
Number
9
Pages
eaay1458
Language
english
Notes
Publication types: Journal Article
Publication Status: epublish
Abstract
Grid diagrams with their relatively simple mathematical formalism provide a convenient way to generate and model projections of various knots. It has been an open question whether these 2D diagrams can be used to model a complex 3D process such as the topoisomerase-mediated preferential unknotting of DNA molecules. We model here topoisomerase-mediated passages of double-stranded DNA segments through each other using the formalism of grid diagrams. We show that this grid diagram-based modeling approach captures the essence of the preferential unknotting mechanism, based on topoisomerase selectivity of hooked DNA juxtapositions as the sites of intersegmental passages. We show that the grid diagram-based approach provides an important, new, and computationally convenient framework for investigating entanglement in biopolymers.
Pubmed
Open Access
Yes
Create date
10/03/2020 16:14
Last modification date
25/11/2020 6:25
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