Polymer translocation into a fluidic channel through a nanopore

Abstract

Using two dimensional Langevin dynamics simulations, we investigate the dynamics of polymer translocation into a fluidic channel with diameter $R$ through a nanopore under a driving force $F$. Due to the crowding effect induced by the partially translocated monomers, the translocation dynamics is significantly altered in comparison to an unconfined environment, namely, we observe a nonuniversal dependence of the translocation time $\tau$ on the chain length $N$. $\tau$ initially decreases rapidly and then saturates with increasing $R$, and a dependence of the scaling exponent $\alpha$ of $\tau$ with $N$ on the channel width $R$ is observed. The otherwise inverse linear scaling of $\tau$ with $F$ breaks down and we observe a minimum of $\alpha$ as a function of $F$. These behaviors are interpreted in terms of the waiting time of an individual segment passing through the pore during translocation.

8 pages, 12 figures. To appear in Phys. Rev. E

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• Polymer translocation into and out of an ellipsoidal cavity
• Driven polymer translocation through a cylindrical nanochannel: Interplay between the channel length and the chain length
• Polymer translocation into cavities: Effects of confinement geometry, crowding and bending rigidity on the free energy
• Dynamics of polymer translocation into a circular nanocontainer through a nanopore
• Evaluating the Applicability of the Fokker-Planck Equation in Polymer Translocation: A Brownian Dynamics Study
• Translocation time of a polymer chain through an energy gradient nanopore