Related references
Note: Only part of the references are listed.Fine-Tuning of the AMBER RNA Force Field with a New Term Adjusting Interactions of Terminal Nucleotides
Vojtech Mlynsky et al.
JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2020)
How global DNA unwinding causes non-uniform stress distribution and melting of DNA
Korbinian Liebl et al.
PLOS ONE (2020)
Molecular dynamics simulations of DNA-DNA and DNA-protein interactions
Jejoong Yoo et al.
CURRENT OPINION IN STRUCTURAL BIOLOGY (2020)
Fitting Corrections to an RNA Force Field Using Experimental Data
Andrea Cesari et al.
JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2019)
Harmonic Force Constants for Molecular Mechanics Force Fields via Hessian Matrix Projection
Alice E. A. Allen et al.
JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2018)
Software update: the ORCA program system, version 4.0
Frank Neese
WILEY INTERDISCIPLINARY REVIEWS-COMPUTATIONAL MOLECULAR SCIENCE (2018)
AMOEBA Polarizable Atomic Multipole Force Field for Nucleic Acids
Changsheng Zhang et al.
JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2018)
RNA force field with accuracy comparable to state-of-the-art protein force fields
Dazhi Tan et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2018)
How accurate are accurate force-fields for B-DNA?
Pablo D. Dans et al.
NUCLEIC ACIDS RESEARCH (2017)
Parmbsc1: a refined force field for DNA simulations
Ivan Ivani et al.
NATURE METHODS (2016)
Assessing the Current State of Amber Force Field Modifications for DNA
Rodrigo Galindo-Murillo et al.
JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2016)
Refinement of the Sugar-Phosphate Backbone Torsion Beta for AMBER Force Fields Improves the Description of Z- and B-DNA
Marie Zgarbova et al.
JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2015)
ff14SB: Improving the Accuracy of Protein Side Chain and Backbone Parameters from ff99SB
James A. Maier et al.
JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2015)
Parameterization of Highly Charged Metal Ions Using the 12-6-4 LJ-Type Nonbonded Model in Explicit Water
Pengfei Li et al.
JOURNAL OF PHYSICAL CHEMISTRY B (2015)
Building Water Models: A Different Approach
Saeed Izadi et al.
JOURNAL OF PHYSICAL CHEMISTRY LETTERS (2014)
Double-stranded RNA under force and torque: Similarities to and striking differences from double-stranded DNA
Jan Lipfert et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2014)
Toward Improved Description of DNA Backbone: Revisiting Epsilon and Zeta Torsion Force Field Parameters
Marie Zgarbova et al.
JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2013)
Optimization of the CHARMM Additive Force Field for DNA: Improved Treatment of the BI/BII Conformational Equilibrium
Katarina Hart et al.
JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2012)
Multiwfn: A multifunctional wavefunction analyzer
Tian Lu et al.
JOURNAL OF COMPUTATIONAL CHEMISTRY (2012)
Length Scale Dependence of DNA Mechanical Properties
Agnes Noy et al.
PHYSICAL REVIEW LETTERS (2012)
Multiple Routes to Characterize the Folding of a Small DNA Hairpin
Guillem Portella et al.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION (2010)
A consistent and accurate ab initio parametrization of density functional dispersion correction (DFT-D) for the 94 elements H-Pu
Stefan Grimme et al.
JOURNAL OF CHEMICAL PHYSICS (2010)
Structural insights into the interaction of the crenarchaeal chromatin protein Cren7 with DNA
Zhenfeng Zhang et al.
MOLECULAR MICROBIOLOGY (2010)
Conformational analysis of nucleic acids revisited: Curves
R. Lavery et al.
NUCLEIC ACIDS RESEARCH (2009)
Determination of alkali and halide monovalent ion parameters for use in explicitly solvated biomolecular simulations
In Suk Joung et al.
JOURNAL OF PHYSICAL CHEMISTRY B (2008)
Hartree-Fock exchange fitting basis sets for H to Rn
Florian Weigend
JOURNAL OF COMPUTATIONAL CHEMISTRY (2008)
Folding of a DNA hairpin loop structure in explicit solvent using replica-exchange molecular dynamics Simulations
Srinivasaraghavan Kannan et al.
BIOPHYSICAL JOURNAL (2007)
Refinenement of the AMBER force field for nucleic acids:: Improving the description of α/γ conformers
Alberto Perez et al.
BIOPHYSICAL JOURNAL (2007)
Balanced basis sets of split valence, triple zeta valence and quadruple zeta valence quality for H to Rn: Design and assessment of accuracy
F Weigend et al.
PHYSICAL CHEMISTRY CHEMICAL PHYSICS (2005)
Probing single-stranded DNA conformational flexibility using fluorescence spectroscopy
MC Murphy et al.
BIOPHYSICAL JOURNAL (2004)
DNA A-tract bending in three dimensions:: Solving the dA4T4 vs. dT4A4 conundrum
R Stefl et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2004)