
APBS
 Referenced in 87 articles
[sw05766]
 most popular continuum models for describing electrostatic interactions between molecular solutes in salty, aqueous media ... Continuum electrostatics plays an important role in several areas of biomolecular simulation, including simulation...

MIBPB
 Referenced in 49 articles
[sw08106]
 MIBPB: A software package for electrostatic analysis. The Poisson–Boltzmann equation (PBE) is an established ... model for the electrostatic analysis of biomolecules. The development of advanced computational techniques ... software package, the MIBPB solver, for electrostatic analysis. The MIBPB has a unique feature that...

PDB2PQR
 Referenced in 33 articles
[sw13087]
 pipeline for the setup of Poisson–Boltzmann electrostatics calculations. Continuum solvation models, such as Poisson ... popular tools for investigating the influence of electrostatics on biomolecular structure, energetics and dynamics. However ... radii. Unfortunately, the limiting step in continuum electrostatics calculations is often the addition of missing ... common tasks of preparing structures for continuum electrostatics calculations, including adding a limited number...

TABI
 Referenced in 21 articles
[sw18194]
 accelerated boundary integral PoissonBoltzmann solver for electrostatics of solvated biomolecules. We present a treecode ... accelerated boundary integral (TABI) solver for electrostatics of solvated biomolecules described by the linear Poisson ... wellconditioned boundary integral formulation for the electrostatic potential and its normal derivative ... TABI solver is applied to compute the electrostatic solvation energy in two cases, the Kirkwood...

PBEQSolver
 Referenced in 13 articles
[sw17203]
 PBEQSolver for online visualization of electrostatic potential of biomolecules. PBEQSolver provides ... Boltzmann (PB) equations and interactively visualize the electrostatic potential. PBEQSolver calculates (i) electrostatic potential ... energy, (ii) protein–protein (DNA or RNA) electrostatic interaction energy ... users. Users can interactively inspect the calculated electrostatic potential on the solventaccessible surface...

SPRINT2D
 Referenced in 25 articles
[sw00904]
 procedure for a Burgers’ equations problem, an electrostatics problem from elastohydrodynamic lubrication, and a challenging...

VORPAL
 Referenced in 19 articles
[sw02597]
 running computationally intensive plasma, electromagnetic and electrostatic problems. VSim enables you to switch easily between...

TMSmesh
 Referenced in 16 articles
[sw14719]
 gives rise to a route to simulate electrostatic solvation of largescale molecular systems...

TINKER
 Referenced in 10 articles
[sw04095]
 flexible implementation of atomic multipolebased electrostatics with explicit dipole polarizability, various continuum solvation treatments ... novel reaction field treatment of long range electrostatics, fast distance geometry metrization with better sampling...

SUGAR
 Referenced in 12 articles
[sw15321]
 world of integrated circuit simulation. Beams, electrostatic gaps, circuit elements, and other elements are modeled...

DelPhi Web Server
 Referenced in 7 articles
[sw17209]
 server: A comprehensive online suite for electrostatic calculations of biological macromolecules and their complexes. Here ... server, which utilizes DelPhi program to calculate electrostatic energies and the corresponding electrostatic potential...

neBEM
 Referenced in 7 articles
[sw06382]
 neBEM solver has been used to solve electrostatic problems having threedimensional edges and corners ... accuracy. We then consider several problems of electrostatics containing edges and singularities of various orders...

AFMPB
 Referenced in 7 articles
[sw08875]
 fast multipole PoissonBoltzmann solver for calculating electrostatics in biomolecular systems. It is described ... multipole PoissonBoltzmann solver for computing the electrostatics in biomolecules. This solver combines the fast...

FFTSVD
 Referenced in 10 articles
[sw08886]
 algorithm that is well suited for solving electrostatics problems that arise in traditional...

ORB5
 Referenced in 10 articles
[sw10369]
 ORB5, is presented. It solves the gyrokinetic electrostatic equations including zonal flows in axisymmetric magnetic...

MaxFEM
 Referenced in 10 articles
[sw12800]
 applications that can address problems in electrostatics, current, and eddycurrents, magnetostatics in two and/or...

POT4A
 Referenced in 9 articles
[sw01206]
 program was developed to solve problems in electrostatics but can also be applied in other...

BETL
 Referenced in 9 articles
[sw12389]
 engineering applications. Prominent examples are, e.g., electrostatic or thermal models as well as the scattering...

SDPBS
 Referenced in 6 articles
[sw17208]
 SDPBS web server for calculation of electrostatics of ionic solvated biomolecules. The PoissonBoltzmann equation ... important implicit solvent continuum model for calculating electrostatics of protein in ionic solvent. We recently...