First passage time distribution of chaperone driven polymer translocation through a nanopore: homopolymer and heteropolymer cases.
Combining the advection-diffusion equation approach with Monte Carlo simulations we study chaperone driven polymer translocation of a stiff polymer through a nanopore. We demonstrate that the probability density function of first passage times across the pore depends solely on the Péclet number, a dimensionless parameter comparing drift strength and diffusivity. Moreover it is shown that the characteristic exponent in the power-law dependence of the translocation time on the chain length, a function of the chaperone-polymer binding energy, the chaperone concentration, and the chain length, is also effectively determined by the Péclet number. We investigate the effect of the chaperone size on the translocation process. In particular, for large chaperone size, the translocation progress and the mean waiting time as function of the reaction coordinate exhibit pronounced sawtooth-shapes. The effects of a heterogeneous polymer sequence on the translocation dynamics is studied in terms of the translocation velocity, the probability distribution for the translocation progress, and the monomer waiting times.
Physics Department, Sharif University of Technology, Tehran, Iran. abdolvahab@physics.sharif.edu
Rouhollah Haji
RH
Abdolvahab
Ralf
R
Metzler
Mohammad Reza
MR
Ejtehadi
D003198:Computer Simulation; D004058:Diffusion; D008956:Models, Chemical; D009010:Monte Carlo Method; D058608:Nanopores; D011108:Polymers / Q000737:chemistry*
D011108:Polymers