Computation of molecular electrostatics with boundary element methods

نویسندگان
چکیده

برای دانلود باید عضویت طلایی داشته باشید

برای دانلود متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید

اگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید

منابع مشابه

Computation of molecular electrostatics with boundary element methods.

In continuum approaches to molecular electrostatics, the boundary element method (BEM) can provide accurate solutions to the Poisson-Boltzmann equation. However, the numerical aspects of this method pose significant problems. We describe our approach, applying an alpha shape-based method to generate a high-quality mesh, which represents the shape and topology of the molecule precisely. We also ...

متن کامل

Parallel computation of inelastic problems with boundary element methods

The parallel performance and efficiency of boundary element methods in the solution of inelastic problems are investigated. A parallel algorithm based on the so-called initial stress scheme for inelastic analysis is developed and implemented in BEMGEO (Boundary Element Method program for GEOmechanics applications). Numerical examples solved on an SP2 of 34 thin nodes are presented which highlig...

متن کامل

Parallel Higher-order Boundary Integral Electrostatics Computation on Molecular Surfaces with Curved Triangulation

In this paper,wepresent a parallel higher-order boundary integralmethod to solve the linear Poisson–Boltzmann (PB) equation. In our method, a well-posed boundary integral formulation is used to ensure the fast convergence of Krylov subspace linear solver such as GMRES. The molecular surfaces are first discretized with flat triangles and then converted to curved triangleswith the assistance of n...

متن کامل

Meshfree computation of electrostatics and related boundary value problems

The Computational Physics Section publishes articles that help students and their instructors learn about the physics and the computational tools used in contemporary research. Most articles will be solicited, but interested authors should email a proposal to the editors of the Section, Jan Tobochnik ([email protected]) or Harvey Gould ([email protected]). Summarize the physics and the algorithm yo...

متن کامل

An Efficient Higher-Order Fast Multipole Boundary Element Solution for Poisson-Boltzmann-Based Molecular Electrostatics

In order to compute polarization energy of biomolecules, we describe a boundary element approach to solving the linearized Poisson-Boltzmann equation. Our approach combines several important features including the derivative boundary formulation of the problem and a smooth approximation of the molecular surface based on the algebraic spline molecular surface. State of the art software for numer...

متن کامل

ذخیره در منابع من


  با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید

ژورنال

عنوان ژورنال: Biophysical Journal

سال: 1997

ISSN: 0006-3495

DOI: 10.1016/s0006-3495(97)78213-4