A Poisson-Boltzmann equation test model for protein in spherical solute region and its applications

DOI10.2478/mlbmb-2014-0006zbMath1412.92109OpenAlexW2093640145MaRDI QIDQ5920192

Jinyong Ying, Dexuan Xie, Yi Jiang

Publication date: 21 May 2019

Published in: Computational and Mathematical Biophysics (Search for Journal in Brave)

Full work available at URL: https://doi.org/10.2478/mlbmb-2014-0006

zbMATH Keywords

finite element methodfinite difference methodPoisson-Boltzmann equationelectrostatic potentialcontinuum electrostatics

Mathematics Subject Classification ID

Finite element, Rayleigh-Ritz and Galerkin methods for boundary value problems involving PDEs (65N30) Biochemistry, molecular biology (92C40) Finite difference methods for boundary value problems involving PDEs (65N06) Computational methods for problems pertaining to biology (92-08)

Uses Software

• DOLFIN
• APBS
• PBEQ-Solver

Cites Work

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• New solution decomposition and minimization schemes for Poisson-Boltzmann equation in calculation of biomolecular electrostatics
• Automated solution of differential equations by the finite element method. The FEniCS book
• Continuum solvation model: Computation of electrostatic forces from numerical solutions to the Poisson-Boltzmann equation
• A new minimization protocol for solving nonlinear Poisson-Boltzmann mortar finite element equation
• On the approximation of singular source terms in differential equations
• Adaptive Finite Element Modeling Techniques for the Poisson-Boltzmann Equation
• Theory of Solutions of Molecules Containing Widely Separated Charges with Special Application to Zwitterions
• The Mathematical Theory of Finite Element Methods

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