Local selection rules that can determine specific pathways of DNA unknotting by type II DNA topoisomerases.

Détails

Ressource 1Télécharger: BIB_7C80278FB0D8.P001.pdf (4235.93 [Ko])
Etat: Public
Version: de l'auteur⸱e
ID Serval
serval:BIB_7C80278FB0D8
Type
Article: article d'un périodique ou d'un magazine.
Collection
Publications
Institution
Titre
Local selection rules that can determine specific pathways of DNA unknotting by type II DNA topoisomerases.
Périodique
Nucleic Acids Research
Auteur⸱e⸱s
Burnier Y., Weber C., Flammini A., Stasiak A.
ISSN
1362-4962[electronic], 0305-1048[linking]
Statut éditorial
Publié
Date de publication
2007
Peer-reviewed
Oui
Volume
35
Numéro
15
Pages
5223-5231
Langue
anglais
Notes
Publication types: Journal Article ; Research Support, Non-U.S. Gov't
Publication Status: ppublish
Résumé
We performed numerical simulations of DNA chains to understand how local geometry of juxtaposed segments in knotted DNA molecules can guide type II DNA topoisomerases to perform very efficient relaxation of DNA knots. We investigated how the various parameters defining the geometry of inter-segmental juxtapositions at sites of inter-segmental passage reactions mediated by type II DNA topoisomerases can affect the topological consequences of these reactions. We confirmed the hypothesis that by recognizing specific geometry of juxtaposed DNA segments in knotted DNA molecules, type II DNA topoisomerases can maintain the steady-state knotting level below the topological equilibrium. In addition, we revealed that a preference for a particular geometry of juxtaposed segments as sites of strand-passage reaction enables type II DNA topoisomerases to select the most efficient pathway of relaxation of complex DNA knots. The analysis of the best selection criteria for efficient relaxation of complex knots revealed that local structures in random configurations of a given knot type statistically behave as analogous local structures in ideal geometric configurations of the corresponding knot type.
Mots-clé
Computer Simulation, DNA/chemistry, DNA Topoisomerases, Type II/metabolism, Models, Molecular, Nucleic Acid Conformation
Pubmed
Web of science
Open Access
Oui
Création de la notice
24/01/2008 10:36
Dernière modification de la notice
20/08/2019 14:38
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