Spatial averaging for small molecule diffusion in condensed phase environments

Plattner, N. and Doll, J. D. and Meuwly, M.. (2010) Spatial averaging for small molecule diffusion in condensed phase environments. Journal of Chemical Physics, 133 . 044506.

PDF - Published Version

Official URL: http://edoc.unibas.ch/dok/A5842401

Downloads: Statistics Overview


Spatial averaging is a new approach for sampling rare-event problems. The approach modifies the importance function which improves the sampling efficiency while keeping a defined relation to the original statistical distribution. In this work, spatial averaging is applied to multidimensional systems for typical problems arising in physical chemistry. They include (I) a CO molecule diffusing on an amorphous icesurface, (II) a hydrogen molecule probing favorable positions in amorphous ice, and (III) CO migration in myoglobin. The systems encompass a wide range of energy barriers and for all of them spatial averaging is found to outperform conventional Metropolis Monte Carlo. It is also found that optimal simulation parameters are surprisingly similar for the different systems studied, in particular, the radius of the point cloud over which the potential energy function is averaged. For H2 diffusing in amorphous ice it is found that facile migration is possible which is in agreement with previous suggestions from experiment. The free energy barriers involved are typically lower than 1 kcal/mol. Spatial averaging simulations for CO in myoglobin are able to locate all currently characterized metastable states. Overall, it is found that spatial averaging considerably improves the sampling of configurational space.
Faculties and Departments:05 Faculty of Science > Departement Chemie > Chemie > Physikalische Chemie (Meuwly)
UniBasel Contributors:Meuwly, Markus
Item Type:Article, refereed
Article Subtype:Research Article
Publisher:American Institute of Physics
Note:Publication type according to Uni Basel Research Database: Journal article -- The final publication is available at AIP, see DOI link.
Identification Number:
edoc DOI:
Last Modified:07 Dec 2016 15:06
Deposited On:14 Sep 2012 07:14

Repository Staff Only: item control page