Dynamics of driven translocation of semiflexible polymers

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dc.contributor Aalto-yliopisto fi
dc.contributor Aalto University en
dc.contributor.author Suhonen, P. M.
dc.contributor.author Linna, R. P.
dc.date.accessioned 2018-08-01T13:32:00Z
dc.date.available 2018-08-01T13:32:00Z
dc.date.issued 2018-06-20
dc.identifier.citation Suhonen , P M & Linna , R P 2018 , ' Dynamics of driven translocation of semiflexible polymers ' Physical Review E , vol 97 , no. 6 , 062413 . DOI: 10.1103/PhysRevE.97.062413 en
dc.identifier.issn 2470-0045
dc.identifier.issn 1550-2376
dc.identifier.other PURE UUID: a365632f-467c-4f11-9b4b-9f8a5e1dc831
dc.identifier.other PURE ITEMURL: https://research.aalto.fi/en/publications/dynamics-of-driven-translocation-of-semiflexible-polymers(a365632f-467c-4f11-9b4b-9f8a5e1dc831).html
dc.identifier.other PURE LINK: http://www.scopus.com/inward/record.url?scp=85048998176&partnerID=8YFLogxK
dc.identifier.other PURE FILEURL: https://research.aalto.fi/files/26393316/PhysRevE.97.062413.pdf
dc.identifier.uri https://aaltodoc.aalto.fi/handle/123456789/32866
dc.description.abstract We study translocation of semiflexible polymers driven by force fd inside a nanometer-scale pore using our three-dimensional Langevin dynamics model. We show that the translocation time τ increases with increasing bending rigidity κ. Similarly, the exponent β for the scaling of τ with polymer length N,τ∼Nβ, increases with increasing κ as well as with increasing fd. By comparing waiting times between semiflexible and fully flexible polymers we show that for realistic fd translocation dynamics is to a large extent, but not completely, determined by the polymer's elastic length measured in number of Kuhn segments NKuhn. Unlike in driven translocation of flexible polymers, friction related to the polymer segment on the trans side has a considerable effect on the resulting dynamics. This friction is intermittently reduced by buckling of the polymer segment in the vicinity of the pore opening on the trans side. We show that in the experimentally relevant regime where viscosity is higher than in computer simulation models, the probability for this buckling increases with increasing fd, giving rise to a larger contribution to the trans side friction at small fd. Similarly to flexible polymers, we find significant center-of-mass diffusion of the cis side polymer segment which speeds up translocation. This effect is larger for smaller fd. However, this speedup is smaller than the slowing down due to the trans side friction. At large enough NKuhn, the roles can be seen to be reversed, and the dynamics of flexible polymers can be reached. However, for example, polymers used in translocation experiments of DNA are elastically so short that the finite-length dynamics outlined here applies. en
dc.format.mimetype application/pdf
dc.language.iso en en
dc.relation.ispartofseries Physical Review E en
dc.relation.ispartofseries Volume 97, issue 6 en
dc.rights openAccess en
dc.subject.other Statistical and Nonlinear Physics en
dc.subject.other Statistics and Probability en
dc.subject.other Condensed Matter Physics en
dc.subject.other 114 Physical sciences en
dc.title Dynamics of driven translocation of semiflexible polymers en
dc.type A1 Alkuperäisartikkeli tieteellisessä aikakauslehdessä fi
dc.description.version Peer reviewed en
dc.contributor.department Professorship Lampinen J.
dc.contributor.department Department of Computer Science
dc.subject.keyword Statistical and Nonlinear Physics
dc.subject.keyword Statistics and Probability
dc.subject.keyword Condensed Matter Physics
dc.subject.keyword 114 Physical sciences
dc.identifier.urn URN:NBN:fi:aalto-201808014267
dc.identifier.doi 10.1103/PhysRevE.97.062413
dc.type.version publishedVersion


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