A Coupled-Dynamics Model for Polymer Translocation

We study a coarse-grained model of driven translocation of biopolymers, which comprises coupled equations of motion for the translocation coordinate $s$ and the spatial coordinates for the first and the last bead of the translocating chain. We use Langevin dynamics simulations to solve the equations of motion and to study the dynamics of translocation through a nanopore, including the residence time distribution of the individual monomers and the average translocation time. In addition, we consider the time evolution of the spatial coordinates of the first and last bead, which underline the asymmetry of the dynamical chain conformations on the $cis$ and $trans$ sides.