Force fields for protein simulations
Publisher Summary The chapter focuses on a general description of the force fields that are
most commonly used at present, and it gives an indication of the directions of current …
most commonly used at present, and it gives an indication of the directions of current …
Fixed-charge atomistic force fields for molecular dynamics simulations in the condensed phase: An overview
S Riniker - Journal of chemical information and modeling, 2018 - ACS Publications
In molecular dynamics or Monte Carlo simulations, the interactions between the particles
(atoms) in the system are described by a so-called force field. The empirical functional form …
(atoms) in the system are described by a so-called force field. The empirical functional form …
The REd. Tools: Advances in RESP and ESP charge derivation and force field library building
FY Dupradeau, A Pigache, T Zaffran… - Physical Chemistry …, 2010 - pubs.rsc.org
Deriving atomic charges and building a force field library for a new molecule are key steps
when developing a force field required for conducting structural and energy-based analysis …
when developing a force field required for conducting structural and energy-based analysis …
[图书][B] The theory of intermolecular forces
A Stone - 2013 - books.google.com
The theory of intermolecular forces has advanced very greatly in recent years. It has become
possible to carry out accurate calculations of intermolecular forces for molecules of useful …
possible to carry out accurate calculations of intermolecular forces for molecules of useful …
Fast, efficient generation of high‐quality atomic charges. AM1‐BCC model: I. Method
A Jakalian, BL Bush, DB Jack… - Journal of computational …, 2000 - Wiley Online Library
The AM1‐BCC method quickly and efficiently generates high‐quality atomic charges for use
in condensed‐phase simulations. The underlying features of the electron distribution …
in condensed‐phase simulations. The underlying features of the electron distribution …
Derivation and systematic validation of a refined all-atom force field for phosphatidylcholine lipids
JPM Jämbeck, AP Lyubartsev - The journal of physical chemistry …, 2012 - ACS Publications
An all-atomistic force field (FF) has been developed for fully saturated phospholipids. The
parametrization has been largely based on high-level ab initio calculations in order to keep …
parametrization has been largely based on high-level ab initio calculations in order to keep …
Dynamical fluctuating charge force fields: Application to liquid water
A new molecular dynamics model in which the point charges on atomic sites are allowed to
fluctuate in response to the environment is developed and applied to water. The idea for …
fluctuate in response to the environment is developed and applied to water. The idea for …
Application of the multimolecule and multiconformational RESP methodology to biopolymers: Charge derivation for DNA, RNA, and proteins
P Cieplak, WD Cornell, C Bayly… - Journal of …, 1995 - Wiley Online Library
We present the derivation of charges of ribo-and deoxynucleosides, nucleotides, and
peptide fragments using electrostatic potentials obtained from ab initio calculations with the …
peptide fragments using electrostatic potentials obtained from ab initio calculations with the …
Local properties of quantum chemical systems: The LoProp approach
L Gagliardi, R Lindh, G Karlström - The Journal of chemical physics, 2004 - pubs.aip.org
A new method is presented, which makes it possible to partition molecular properties like
multipole moments and polarizabilities, into atomic and interatomic contributions. The …
multipole moments and polarizabilities, into atomic and interatomic contributions. The …
Molecular electrostatics
G Naray-Szabo, GG Ferenczy - Chemical reviews, 1995 - ACS Publications
In principle, quantum mechanicsdescribes molec-ular interactions with sufficient accuracy
but at the cost of extremely complicated and time-consuming numerical calculations …
but at the cost of extremely complicated and time-consuming numerical calculations …