Dynamics and energetics for a molecular zipper model under external driving

DC FieldValueLanguage
dc.contributor.authorHolubec, Viktor
dc.contributor.authorChvosta, Petr
dc.contributor.authorMaass, Philipp
dc.date.accessioned2021-12-23T16:10:16Z-
dc.date.available2021-12-23T16:10:16Z-
dc.date.issued2012
dc.identifier.issn17425468
dc.identifier.urihttps://osnascholar.ub.uni-osnabrueck.de/handle/unios/9250-
dc.description.abstractWe investigate the dynamics of a single-ended N-state molecular zipper based on a model originally proposed by Kittel. The molecule is driven unidirectionally towards the completely unzipped state with increasing time t. The driving lowers the energies of states with k unzipped links by an amount proportional to kt. We solve the Pauli rate equation for the state probabilities and the partial differential equations, which yield the probability distributions for the work performed on the zipper and for the heat exchanged with the thermal reservoir. Similarly to the related equilibrium model, two different regimes can be identified at a given temperature with respect to the released molecular degrees of freedom per broken bond. In these two regimes the time evolution of the state probabilities as well as of the work and heat distributions shows a qualitatively different behavior.
dc.description.sponsorshipMinistry of Education of the Czech RepublicMinistry of Education, Youth & Sports - Czech Republic [MSM 0021620835]; Grant Agency of the Charles University [143610, 301311]; Charles University in Prague [SVV-2012-265 301]; Deutsche Akademische Austauschdienst (DAAD)Deutscher Akademischer Austausch Dienst (DAAD) [MEB101104]; Support of this work by the Ministry of Education of the Czech Republic (project No. MSM 0021620835), by the Grant Agency of the Charles University (grant Nos 143610, and 301311), by the Charles University in Prague (project No. SVV-2012-265 301) and by the Deutsche Akademische Austauschdienst (DAAD, project No. MEB101104) is gratefully acknowledged.
dc.language.isoen
dc.publisherIOP PUBLISHING LTD
dc.relation.ispartofJOURNAL OF STATISTICAL MECHANICS-THEORY AND EXPERIMENT
dc.subjectDNA
dc.subjectdriven diffusive systems (theory)
dc.subjectexact results
dc.subjectKINETIC BARRIERS
dc.subjectmechanical properties (DNA, RNA, membranes, biopolymers) (theory)
dc.subjectMechanics
dc.subjectPHASE-TRANSITION
dc.subjectPhysics
dc.subjectPhysics, Mathematical
dc.subjectRNA
dc.subjectstochastic particle dynamics (theory)
dc.titleDynamics and energetics for a molecular zipper model under external driving
dc.typejournal article
dc.identifier.doi10.1088/1742-5468/2012/11/P11009
dc.identifier.isiISI:000312102500017
dc.contributor.orcid0000-0003-3182-4283
dc.contributor.orcid0000-0002-6576-1316
dc.contributor.orcid0000-0002-6576-1316
dc.contributor.orcid0000-0002-1268-8688
dc.contributor.researcheridQ-4952-2017
dc.contributor.researcheridQ-5447-2016
dc.contributor.researcheridB-8415-2015
dc.contributor.researcheridH-1477-2011
dc.publisher.placeTEMPLE CIRCUS, TEMPLE WAY, BRISTOL BS1 6BE, ENGLAND
dcterms.isPartOf.abbreviationJ. Stat. Mech.-Theory Exp.
dcterms.oaStatusGreen Submitted
crisitem.author.deptFB 04 - Physik-
crisitem.author.deptidfb04-
crisitem.author.parentorgUniversität Osnabrück-
crisitem.author.netidMaPh688-
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