Random state transitions of knots: a first step towards modeling unknotting by type II topoisomerases

DOI10.1016/J.TOPOL.2006.05.010zbMATH Open1114.57005OpenAlexW2035767281WikidataQ37422803 ScholiaQ37422803MaRDI QIDQ876535FDOQ876535

Authors: Xia Hua, Barath Raghavan, J. Arsuaga, M. Vazquez, Diana M. H. Nguyen 

Publication date: 18 April 2007

Published in: Topology and its Applications (Search for Journal in Brave)

Full work available at URL: http://europepmc.org/articles/pmc2778028

Recommendations

• Modelling state transitions in knot space motivated by type II topoisomerase action
• The effect of juxtaposition angle on knot reduction in a lattice polygon model of strand passage
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• Mean unknotting times of random knots and embeddings

zbMATH Keywords

polymer modelscubic latticeBFACF-algorithmDNA knotslattice knotsrandom knottingtopoisomerase II

Mathematics Subject Classification ID

Computational methods in Markov chains (60J22) Biology and other natural sciences (92-XX)

Cites Work

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Cited In (8)

• The abundance of unknots in various models of polymer loops
• Minimum lattice length and ropelength of knots
• The effect of juxtaposition angle on knot reduction in a lattice polygon model of strand passage
• The local topological free energy of proteins
• Modelling state transitions in knot space motivated by type II topoisomerase action
• Models of random knots
• Minimum lattice length and ropelength of 2-bridge knots and links
• New evidence on the asymptotics of knotted lattice polygons via local strand-passage models

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