Literature DB >> 14682976

Single stranded DNA translocation through a nanopore: a master equation approach.

O Flomenbom1, J Klafter.   

Abstract

We study voltage driven translocation of a single stranded DNA through a membrane channel. Our model, based on a master equation approach, investigates the probability density function of the translocation times, and shows that it can be either double peaked or mono peaked, depending on the system parameters. We show that the most probable translocation time is proportional to the polymer length, and inversely proportional to the first or second power of the voltage, depending on the initial conditions. The model recovers experimental observations on hetropolymers when using their properties inside the pore, such as stiffness and polymer-pore interaction.

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Year:  2003        PMID: 14682976     DOI: 10.1103/PhysRevE.68.041910

Source DB:  PubMed          Journal:  Phys Rev E Stat Nonlin Soft Matter Phys        ISSN: 1539-3755


  10 in total

1.  Dynamics of molecular motors and polymer translocation with sequence heterogeneity.

Authors:  Yariv Kafri; David K Lubensky; David R Nelson
Journal:  Biophys J       Date:  2004-06       Impact factor: 4.033

2.  Translocation of a single-stranded DNA through a conformationally changing nanopore.

Authors:  O Flomenbom; J Klafter
Journal:  Biophys J       Date:  2004-06       Impact factor: 4.033

3.  Extracting kinetics from single-molecule force spectroscopy: nanopore unzipping of DNA hairpins.

Authors:  Olga K Dudko; Jérôme Mathé; Attila Szabo; Amit Meller; Gerhard Hummer
Journal:  Biophys J       Date:  2007-03-23       Impact factor: 4.033

4.  Molecular Dynamics simulation of a polymer chain translocating through a nanoscopic pore: hydrodynamic interactions versus pore radius.

Authors:  M G Gauthier; G W Slater
Journal:  Eur Phys J E Soft Matter       Date:  2008-01-31       Impact factor: 1.890

5.  Mimicking DNA stretching with the Static Mode method: shear stress versus transverse pulling stress.

Authors:  M Brut; A Estève; G Landa; M Djafari Rouhani
Journal:  Eur Phys J E Soft Matter       Date:  2012-08-21       Impact factor: 1.890

6.  Enhancement of charged macromolecule capture by nanopores in a salt gradient.

Authors:  Tom Chou
Journal:  J Chem Phys       Date:  2009-07-21       Impact factor: 3.488

7.  Nonexponential kinetics of DNA escape from alpha-hemolysin nanopores.

Authors:  Matthew Wiggin; Carolina Tropini; Vincent Tabard-Cossa; Nahid N Jetha; Andre Marziali
Journal:  Biophys J       Date:  2008-09-05       Impact factor: 4.033

8.  Dynamics of a polyelectrolyte through aerolysin channel as a function of applied voltage and concentration.

Authors:  Manuela Pastoriza-Gallego; Bénédicte Thiébot; Laurent Bacri; Loïc Auvray; Juan Pelta
Journal:  Eur Phys J E Soft Matter       Date:  2018-05-11       Impact factor: 1.890

9.  A kinetic analysis of protein transport through the anthrax toxin channel.

Authors:  Daniel Basilio; Paul K Kienker; Stephen W Briggs; Alan Finkelstein
Journal:  J Gen Physiol       Date:  2011-06       Impact factor: 4.086

10.  Sequence-dependent gating of an ion channel by DNA hairpin molecules.

Authors:  Veronica S DeGuzman; Clarence C Lee; David W Deamer; Wenonah A Vercoutere
Journal:  Nucleic Acids Res       Date:  2006-11-27       Impact factor: 16.971

  10 in total

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