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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