Issue
EPL
Volume 77, Number 5, March 2007
Article Number 58001
Number of page(s) 6
Section Interdisciplinary Physics and Related Areas of Science and Technology
DOI http://dx.doi.org/10.1209/0295-5075/77/58001
Published online 15 February 2007
EPL, 77 (2007) 58001
DOI: 10.1209/0295-5075/77/58001

The Berry phase and the pump flux in stochastic chemical kinetics

N. A. Sinitsyn1, 2 and I. Nemenman2

1  Center for Nonlinear Studies, Los Alamos National Laboratory - Los Alamos, NM 87545, USA
2  Computer, Computational and Statistical Sciences Division, Los Alamos National Laboratory - Los Alamos, NM 87545, USA


received 26 October 2006; accepted in final form 4 January 2007; published March 2007
published online 15 February 2007

Abstract
We study a classical two-state stochastic system in a sea of substrates and products (absorbing states), which can be interpreted as a single Michaelis-Menten catalyzing enzyme or as a channel on a cell surface. We introduce a novel general method and use it to derive the expression for the full counting statistics of transitions among the absorbing states. For the evolution of the system under a periodic perturbation of the kinetic rates, the latter contains a term with a purely geometrical (the Berry phase) interpretation. This term gives rise to a pump current between the absorbing states, which is due entirely to the stochastic nature of the system. We calculate the first two cumulants of this current, and we argue that it is observable experimentally.

PACS
82.20.-w - Chemical kinetics and dynamics.
03.65.Vf - Phases: geometric; dynamic or topological.
05.10.Gg - Stochastic analysis methods (Fokker-Planck, Langevin, etc.).

© Europhysics Letters Association 2007