A robust and accurate formulation of molecular and colloidal electrostatics

被引:11
|
作者
Sun, Qiang [1 ]
Klaseboer, Evert [2 ]
Chan, Derek Y. C. [3 ,4 ]
机构
[1] Univ Melbourne, Dept Chem & Biomol Engn, Particulate Fluids Proc Ctr, Parkville, Vic 3010, Australia
[2] Inst High Performance Comp, 1 Fusionopolis Way, Singapore 138632, Singapore
[3] Univ Melbourne, Sch Math & Stat, Particulate Fluids Proc Ctr, Parkville, Vic 3010, Australia
[4] Swinburne Univ Technol, Dept Chem & Biochem, Hawthorn, Vic 3122, Australia
来源
JOURNAL OF CHEMICAL PHYSICS | 2016年 / 145卷 / 05期
基金
澳大利亚研究理事会;
关键词
POISSON-BOLTZMANN EQUATION; BOUNDARY-ELEMENT METHOD; FREE-ENERGY; SOLVENT; SPHERES;
D O I
10.1063/1.4960033
中图分类号
O64 [物理化学(理论化学)、化学物理学];
学科分类号
070304 ; 081704 ;
摘要
This paper presents a re-formulation of the boundary integral method for the Debye-Huckel model of molecular and colloidal electrostatics that removes the mathematical singularities that have to date been accepted as an intrinsic part of the conventional boundary integral equation method. The essence of the present boundary regularized integral equation formulation consists of subtracting a known solution from the conventional boundary integral method in such a way as to cancel out the singularities associated with the Green's function. This approach better reflects the non-singular physical behavior of the systems on boundaries with the benefits of the following: ( i) the surface integrals can be evaluated accurately using quadrature without any need to devise special numerical integration procedures, ( ii) being able to use quadratic or spline function surface elements to represent the surface more accurately and the variation of the functions within each element is represented to a consistent level of precision by appropriate interpolation functions, ( iii) being able to calculate electric fields, even at boundaries, accurately and directly from the potential without having to solve hypersingular integral equations and this imparts high precision in calculating the Maxwell stress tensor and consequently, intermolecular or colloidal forces, ( iv) a reliable way to handle geometric configurations in which different parts of the boundary can be very close together without being affected by numerical instabilities, therefore potentials, fields, and forces between surfaces can be found accurately at surface separations down to near contact, and ( v) having the simplicity of a formulation that does not require complex algorithms to handle singularities will result in significant savings in coding effort and in the reduction of opportunities for coding errors. These advantages are illustrated using examples drawn from molecular and colloidal electrostatics. Published by AIP Publishing.
引用
收藏
页数:12
相关论文
共 50 条
  • [21] Electrostatics in solvation and molecular recognition
    Jorgensen, WL
    ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 1997, 214 : 89 - COMP
  • [22] MOLECULAR ELECTROSTATICS - AROMATIC POLYCYCLES
    NEKRASOV, BV
    DOKLADY AKADEMII NAUK SSSR, 1973, 208 (03): : 614 - 616
  • [23] Implicit electrostatics in molecular docking
    Abagyan, R.
    Totrov, Maxim
    ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 2007, 233 : 55 - 55
  • [24] ELECTROSTATICS IN MOLECULAR PHENOMENA - PREFACE
    NARAYSZABO, G
    ORVILLETHOMAS, WJ
    JOURNAL OF MOLECULAR STRUCTURE-THEOCHEM, 1992, 88 : R9 - R10
  • [25] MOLECULAR ELECTROSTATICS - AROMATIC HYDROCARBONS
    NEKRASOV, BV
    DOKLADY AKADEMII NAUK SSSR, 1971, 196 (03): : 603 - &
  • [26] MOLECULAR ELECTROSTATICS - ETHYLENIC HYDROCARBONS
    NEKRASOV, BV
    DOKLADY AKADEMII NAUK SSSR, 1970, 194 (02): : 342 - &
  • [27] The Cosserat Point Element as an Accurate and Robust Finite Element Formulation for Implicit Dynamic Simulations
    Jabareen, Mahmood
    Pestes, Yehonatan
    INTERNATIONAL JOURNAL OF COMPUTATIONAL METHODS, 2020, 17 (01)
  • [28] A boundary element formulation of protein electrostatics with explicit ions
    Xin, Weidong
    Juffer, Andre H.
    JOURNAL OF COMPUTATIONAL PHYSICS, 2007, 223 (01) : 416 - 435
  • [29] Highly accurate biomolecular electrostatics in continuum dielectric environments
    Zhou, Y. C.
    Feig, Michael
    Wei, G. W.
    JOURNAL OF COMPUTATIONAL CHEMISTRY, 2008, 29 (01) : 87 - 97
  • [30] Accurate Treatment of Electrostatics during Molecular Adsorption in Nanoporous Crystals without Assigning Point Charges to Framework Atoms
    Watanabe, Taku
    Manz, Thomas A.
    Sholl, David S.
    JOURNAL OF PHYSICAL CHEMISTRY C, 2011, 115 (11): : 4824 - 4836