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Title: Anomalous zipping dynamics and forced polymer translocation
Authors: Ferrantini, Alessandro ×
Carlon, Enrico #
Issue Date: 10-Feb-2011
Publisher: Institute of Physics Publishing
Series Title: Journal of Statistical Mechanics issue:2 pages:1-14
Article number: P02020
Abstract: We investigate by means of Monte Carlo simulations the zipping and unzipping dynamics of two polymers connected at one end and subject to an attractive interaction between complementary monomers. In zipping, the polymers are quenched from a high temperature equilibrium configuration to a low temperature state, such that the two strands zip up by closing up a ‘Y’-fork. In unzipping, the polymers are brought from a low temperature double-stranded configuration to high temperatures, such that the two strands separate. Simulations show that the unzipping time, τu, scales as a function of the polymer length as τu ∼ L, while the zipping is characterized by the anomalous dynamics τz ∼ Lα with α = 1.37(2). This exponent is in good agreement with simulation results and theoretical predictions for the scaling of the translocation time of a forced polymer passing through a narrow pore. We find that the exponent α is robust against variations of parameters and temperature, whereas the scaling of τz as a function of the driving force shows the existence of two different regimes: the weak forcing (τz ∼ 1/F) and strong forcing (τz independent of F) regimes. The crossover region is possibly characterized by a non-trivial scaling in F, matching the prediction of recent theories of polymer translocation. Although the geometrical setups are different, zipping and translocation share thus the same type of anomalous dynamics. Systems where this dynamics could be experimentally investigated include DNA (or RNA) hairpins: our results imply an anomalous dynamics for the hairpins’ closing times, but not for the opening times.
ISSN: 1742-5468
Publication status: published
KU Leuven publication type: IT
Appears in Collections:Theoretical Physics Section
× corresponding author
# (joint) last author

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