Finite Volume Element Method for Predicting Electrostatics of a Biomolecule Immersed in an Ionic Solvent
Year: 2021
Author: Hao Wu, Jinyong Ying, Qingsong Zou
International Journal of Numerical Analysis and Modeling, Vol. 18 (2021), Iss. 2 : pp. 190–202
Abstract
Poisson-Boltzmann equation (PBE) is a classic implicit continuum model to predict
the electrostatic potentials of a solvated biomolecule. In this paper, we present a finite volume
element method specific to the elliptic interface problem with a non-homogeneous flux condition
for solving PBE and provide a follow-up analysis. The new PBE solver is fulfilled through both
Fortran and Python, afterwards the local Poisson test model coupled with an analytical solution
is adopted to well validate the program. Lastly, an application of the new solver to the prediction
of solvation free energies of the proteins is made.
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Journal Article Details
Publisher Name: Global Science Press
Language: English
DOI: https://doi.org/2021-IJNAM-18714
International Journal of Numerical Analysis and Modeling, Vol. 18 (2021), Iss. 2 : pp. 190–202
Published online: 2021-01
AMS Subject Headings: Global Science Press
Copyright: COPYRIGHT: © Global Science Press
Pages: 13
Keywords: Poisson-Boltzmann equation electrostatic free energy finite volume element method solvation free energy.