|
Scalable molecular dynamics with NAMD
|
journal
|
January 2005 |
|
The implementation of a fast and accurate QM/MM potential method in Amber
|
journal
|
January 2008 |
|
CHARMM general force field: A force field for drug-like molecules compatible with the CHARMM all-atom additive biological force fields
|
journal
|
January 2009 |
|
Molcas 8: New capabilities for multiconfigurational quantum chemical calculations across the periodic table : Molcas 8
|
journal
|
November 2015 |
|
An approach to computing electrostatic charges for molecules
|
journal
|
April 1984 |
|
New spherical-cutoff methods for long-range forces in macromolecular simulation
|
journal
|
July 1994 |
|
QM/MM: what have we learned, where are we, and where do we go from here?
|
journal
|
July 2006 |
|
Long-range electrostatic corrections in multipolar/polarizable QM/MM simulations
|
journal
|
June 2016 |
|
The continuous fast multipole method
|
journal
|
November 1994 |
|
Approximate electrostatic interaction operator for QM/MM calculations
|
journal
|
April 2002 |
|
QM/MM studies of enzymes
|
journal
|
April 2007 |
|
Ambient-Potential Composite Ewald Method for ab Initio Quantum Mechanical/Molecular Mechanical Molecular Dynamics Simulation
|
journal
|
May 2016 |
|
Periodic Boundary Conditions in QM/MM Calculations: Implementation and Tests
|
journal
|
July 2016 |
|
Single-Reference ab Initio Methods for the Calculation of Excited States of Large Molecules
|
journal
|
November 2005 |
|
Classical Electrostatics for Biomolecular Simulations
|
journal
|
August 2013 |
|
An Efficient Linear-Scaling Ewald Method for Long-Range Electrostatic Interactions in Combined QM/MM Calculations
|
journal
|
October 2004 |
|
Including Charge Penetration Effects in Molecular Modeling
|
journal
|
October 2010 |
|
Long-Range Electrostatic Effects in QM/MM Studies of Enzymatic Reactions: Application of the Solvated Macromolecule Boundary Potential
|
journal
|
December 2010 |
|
Optimization of the Additive CHARMM All-Atom Protein Force Field Targeting Improved Sampling of the Backbone ϕ, ψ and Side-Chain χ 1 and χ 2 Dihedral Angles
|
journal
|
August 2012 |
|
Tuned and Balanced Redistributed Charge Scheme for Combined Quantum Mechanical and Molecular Mechanical (QM/MM) Methods and Fragment Methods: Tuning Based on the CM5 Charge Model
|
journal
|
December 2012 |
|
Isotropic Periodic Sum Treatment of Long-Range Electrostatic Interactions in Combined Quantum Mechanical and Molecular Mechanical Calculations
|
journal
|
November 2013 |
|
Fitting Molecular Electrostatic Potentials from Quantum Mechanical Calculations
|
journal
|
March 2007 |
|
A General Boundary Potential for Hybrid QM/MM Simulations of Solvated Biomolecular Systems
|
journal
|
October 2009 |
|
Toward the Accurate Modeling of DNA: The Importance of Long-Range Electrostatics
|
journal
|
May 1995 |
|
Continuum Solvent Studies of the Stability of DNA, RNA, and Phosphoramidate−DNA Helices
|
journal
|
August 1998 |
|
All-Atom Empirical Potential for Molecular Modeling and Dynamics Studies of Proteins †
|
journal
|
April 1998 |
|
Structural basis for the spectral difference in luciferase bioluminescence
|
journal
|
March 2006 |
|
NAMD goes quantum: an integrative suite for hybrid simulations
|
journal
|
March 2018 |
|
Generalized solvent boundary potential for computer simulations
|
journal
|
February 2001 |
|
A Hamiltonian electrostatic coupling scheme for hybrid Car–Parrinello molecular dynamics simulations
|
journal
|
April 2002 |
|
The Fourier transform Coulomb method: Efficient and accurate calculation of the Coulomb operator in a Gaussian basis
|
journal
|
November 2002 |
|
Reliable treatment of electrostatics in combined QM/MM simulation of macromolecules
|
journal
|
July 2005 |
|
Ewald mesh method for quantum mechanical calculations
|
journal
|
March 2012 |
|
Comparison of simple potential functions for simulating liquid water
|
journal
|
July 1983 |
|
Particle mesh Ewald: An N ⋅log( N ) method for Ewald sums in large systems
|
journal
|
June 1993 |
|
The effect of long‐range electrostatic interactions in simulations of macromolecular crystals: A comparison of the Ewald and truncated list methods
|
journal
|
November 1993 |
|
A smooth particle mesh Ewald method
|
journal
|
November 1995 |
|
Periodic boundary conditions for QM/MM calculations: Ewald summation for extended Gaussian basis sets
|
journal
|
December 2013 |
|
Erratum: “Periodic boundary conditions for QM/MM calculations: Ewald summation for extended Gaussian basis sets” [J. Chem. Phys. 139 , 244108 (2013)]
|
journal
|
February 2015 |
|
A new smoothing function to introduce long-range electrostatic effects in QM/MM calculations
|
journal
|
July 2015 |
|
Treating electrostatics with Wolf summation in combined quantum mechanical and molecular mechanical simulations
|
journal
|
November 2015 |
|
TINKTEP: A fully self-consistent, mutually polarizable QM/MM approach based on the AMOEBA force field
|
journal
|
September 2016 |
|
Atomic-level accuracy in simulations of large protein crystals.
|
journal
|
August 1994 |
|
Damping functions in the effective fragment potential method
|
journal
|
April 2009 |
|
Advances in molecular quantum chemistry contained in the Q-Chem 4 program package
|
journal
|
September 2014 |
|
A priori evaluation of aqueous polarization effects through Monte Carlo QM-MM simulations
|
journal
|
October 1992 |
|
Progress in Time-Dependent Density-Functional Theory
|
journal
|
May 2012 |