|Title||Extending the Fluctuation Theorem to Describe Reaction Coordinates|
|Publication Type||Journal Article|
|Year of Publication||2007|
|Authors||Paramore, S, Ayton, GS, Voth, GA|
|Journal||J Chem Phys|
|Keywords||*Algorithms *Computational Biology *Computer Simulation Diffusion *Energy Transfer Models, Molecular Statistical Distributions Thermodynamics|
The fluctuation theorem describes the distribution of work done on small systems which have been pushed out of equilibrium in response to an external field. The theorem has recently been a subject of much interest for describing single-molecule experiments and simulations. In this communication, it is shown how the fluctuation theorem can be extended to describe fluctuations not only in the work done on a system, but also in a reaction coordinate. The extension explored in this work allows for a generalized derivation of Hummer and Szabo's expression (G. Hummer and A. Szabo, Proc. Natl. Acad. Sci. 98, 3658 (2001)) for reconstructing the potential of mean force from nonequilibrium trajectories. The derivation demonstrates how implementation of this expression can be more easily facilitated. Atomistic simulations of a biomolecular system are presented which support these results.