Polymer dynamics in time-dependent periodic potentials
Kauttonen, J., Merikoski, J., & Pulkkinen, O. (2008). Polymer dynamics in time-dependent periodic potentials. Physical Review E, 77 (6), 061131. doi:10.1103/PhysRevE.77.061131
Published inPhysical Review E
© 2008 The American Physical Society. Published in this repository with the kind permission of the publisher.
The dynamics of a discrete polymer in time-dependent external potentials is studied with the master equation approach. We consider both stochastic and deterministic switching mechanisms for the potential states and give the essential equations for computing the stationary-state properties of molecules with internal structure in time-dependent periodic potentials on a lattice. As an example, we consider standard and modified RubinsteinDuke polymers and calculate their mean drift and effective diffusion coefficient in the two-state nonsymmetric flashing potential and symmetric traveling potential. Rich nonlinear behavior of these observables is found. By varying the polymer length, we find current inversions caused by the rebound effect that is only present for molecules with internal structure. These results depend strongly on the polymer type. We also notice increased transport coherence for longer polymers.