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Revisiting the Charged Shell Model: A Density Functional Theory for Electrolytes

期刊: JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2021; 17 (4)

Classical density functional theory (DFT) has proven to be a sophisticated and efficient approach for investigating charge systems. In DFT, the excess......

Uncertainty Quantification Guided Parameter Selection in a Fully Coupled Molecular Dynamics-Finite Element Model of the Mechanical Behavior of Polymers

期刊: JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2021; 17 (6)

The objective of investigating macroscopic polymer properties with a low computing cost and a high resolution has led to the development of efficient ......

Accuracy of Alternate Nonpolarizable Force Fields for the Determination of Protein-Ligand Binding Affinities Dominated by Cation-pi Interactions

期刊: JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2021; 17 (7)

Modifying pair-specific Lennard-Jones parameters through the nonbonded FIX (NBFIX) feature of the CHARMM36 force field has proven cost-effective for i......

Combined Surface-Hopping, Dyson Orbital, and B-Spline Approach for the Computation of Time-Resolved Photoelectron Spectroscopy Signals: The Internal Conversion in Pyrazine

期刊: JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2021; 17 (8)

A computational protocol for simulating time-resolved photoelectron signals of medium-sized molecules is presented. The procedure is based on a trajec......

Simulation of Time- and Frequency-Resolved Four-Wave-Mixing Signals at Finite Temperatures: A Thermo-Field Dynamics Approach

期刊: JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2021; 17 (7)

We propose a new approach to simulate four-wave-mixing signals of molecular systems at finite temperatures by combining the multiconfigurational Ehren......

Three S-0/S-1 Conical Intersections Control Electron-Transfer-Catalyzed Chemiluminescence of 1,2-Dioxetanedione

期刊: JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2021; 17 (6)

Chemiluminescence (CL) utilizing four-membered cyclic peroxides is one of the most useful analytical techniques. Up to now, the CL mechanisms for nonk......

Overcoming Free-Energy Barriers with a Seamless Combination of a Biasing Force and a Collective Variable-Independent Boost Potential

期刊: JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2021; 17 (7)

Amid collective-variable (CV)-based importance-sampling algorithms, a hybrid of the extended adaptive biasing force and the well-tempered metadynamics......

Multiscale Quantum Refinement Approaches for Metalloproteins

期刊: JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2021; 17 (6)

Biomolecules with metal ion(s) (e.g., metalloproteins) play many important biological roles. However, accurate structural determination of metalloprot......

Assessing the G(0)W(0)Gamma((1))(0) Approach: Beyond G(0)W(0) with Hedin's Full Second-Order Self-Energy Contribution

期刊: JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2021; 17 (8)

We present and benchmark a self-energy approach for quasiparticle energy calculations that goes beyond Hedin's GW approximation by adding the full sec......

Accelerating Metadynamics-Based Free-Energy Calculations with Adaptive Machine Learning Potentials

期刊: JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2021; 17 (7)

There is an increasing demand for free-energy calculations using ab initio molecular dynamics these days. Metadynamics (MetaD) is frequently utilized ......

Grand-Canonical Model of Electrochemical Double Layers from a Hybrid Density-Potential Functional

期刊: JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2021; 17 (4)

A hybrid density-potential functional of an electrochemical interface that encompasses major effects in the contacting metal and electrolyte phases is......

Investigation of Phosphorylation-Induced Folding of an Intrinsically Disordered Protein by Coarse-Grained Molecular Dynamics

期刊: JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2021; 17 (5)

Apart from being the most common mechanism of regulating protein function and transmitting signals throughout the cell, phosphorylation has an ability......

Scaffold Hopping Transformations Using Auxiliary Restraints for Calculating Accurate Relative Binding Free Energies

期刊: JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2021; 17 (6)

In silico screening of drug-target interactions is a key part of the drug discovery process. Changes in the drug scaffold via contraction or expansion......

Efficient Four-Component Dirac-Coulomb-Gaunt Hartree-Fock in the Pauli Spinor Representation

期刊: JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2021; 17 (6)

Four-component Dirac-Hartree-Fock is an accurate mean-field method for treating molecular systems where relativistic effects are important. However, t......

Determination of van der Waals Parameters Using a Double Exponential Potential for Nonbonded Divalent Metal Cations in TIP3P Solvent

期刊: JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2021; 17 (2)

A double exponential (DE) functional form for Lennard-Jones (LJ) interactions, proposed in our previous study, has many advantages over LJ potentials ......

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