Topological Models for Open-Knotted Protein Chains Using the Concepts of Knotoids and Bonded Knotoids

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Version: Final published version
Serval ID
serval:BIB_72C4DA5C17D4
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
Topological Models for Open-Knotted Protein Chains Using the Concepts of Knotoids and Bonded Knotoids
Journal
Polymers
Author(s)
Goundaroulis D., Gügümcü N., Lambropoulou S., Dorier J., Stasiak A., Kauffman L.
ISSN
2073-4360
Publication state
Published
Issued date
2017
Peer-reviewed
Oui
Volume
9
Number
9
Pages
444
Language
english
Abstract
In this paper we introduce a method that offers a detailed overview of the entanglement of an open protein chain. Further, we present a purely topological model for classifying open protein chains by also taking into account any bridge involving the backbone. To this end, we implemented the concepts of planar knotoids and bonded knotoids. We show that the planar knotoids technique provides more refined information regarding the knottedness of a protein when compared to established methods in the literature. Moreover, we demonstrate that our topological model for bonded proteins is robust enough to distinguish all types of lassos in proteins.
Keywords
protein knots, knot theory, topology, knotoids
Web of science
Open Access
Yes
Create date
16/10/2017 10:24
Last modification date
20/08/2019 15:30
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