Literature DB >> 33554604

Single-Point Hessian Calculations for Improved Vibrational Frequencies and Rigid-Rotor-Harmonic-Oscillator Thermodynamics.

Sebastian Spicher1, Stefan Grimme1.   

Abstract

The calculation of harmonic vibrational frequencies (HVF) to interpret infrared (IR) spectra and to convert molecular energies to free energies is one of the essential steps in computational chemistry. A prerequisite for accurate thermostatistics so far was to optimize the molecular input structures in order to avoid imaginary frequencies, which inevitably leads to changes in the geometry if different theoretical levels are applied for geometry optimization and frequency calculations. In this work, we propose a new method termed single-point Hessian (SPH) for the computation of HVF and thermodynamic contributions to the free energy within the modified rigid-rotor-harmonic-oscillator approximation for general nonequilibrium molecular geometries. The key ingredient is the application of a biasing potential given as Gaussian functions expressed with the root-mean-square-deviation (RMSD) in Cartesian space in order to retain the initial geometry. The theory derived herein is generally applicable to quantum mechanical (QM), semiempirical QM, and force-field (FF) methods. Besides a detailed description of the underlying theory including the important back-correction of the biased HVF, the SPH approach is tested for reaction paths, molecular dynamics snapshots of crambin, and supramolecular association free energies in comparison to high-level density functional theory (DFT) values. Furthermore, the effect on IR spectra is investigated for organic dimers and transition-metal complexes revealing improved spectra at low theoretical levels. On average, DFT reference free energies are better reproduced by the newly developed SPH scheme than by conventional calculations on freely optimized geometries or without any relaxation.

Entities:  

Year:  2021        PMID: 33554604     DOI: 10.1021/acs.jctc.0c01306

Source DB:  PubMed          Journal:  J Chem Theory Comput        ISSN: 1549-9618            Impact factor:   6.006


  6 in total

1.  Closer Look at Inverse Electron Demand Diels-Alder and Nucleophilic Addition Reactions on s-Tetrazines Using Enhanced Sampling Methods.

Authors:  Rangsiman Ketkaew; Fabrizio Creazzo; Sandra Luber
Journal:  Top Catal       Date:  2021-10-23       Impact factor: 2.910

2.  GEOM, energy-annotated molecular conformations for property prediction and molecular generation.

Authors:  Simon Axelrod; Rafael Gómez-Bombarelli
Journal:  Sci Data       Date:  2022-04-21       Impact factor: 8.501

3.  Hydrocarbon Macrocycle Conformer Ensembles and 13 C-NMR Spectra.

Authors:  Fabian Bohle; Stefan Grimme
Journal:  Angew Chem Int Ed Engl       Date:  2022-02-15       Impact factor: 16.823

4.  The Role of Packing, Dispersion, Electrostatics, and Solvation in High-Affinity Complexes of Cucurbit[n]urils with Uncharged Polar Guests.

Authors:  Laura M Grimm; Sebastian Spicher; Boryslav Tkachenko; Peter R Schreiner; Stefan Grimme; Frank Biedermann
Journal:  Chemistry       Date:  2022-05-25       Impact factor: 5.020

5.  Calculation of absolute molecular entropies and heat capacities made simple.

Authors:  Philipp Pracht; Stefan Grimme
Journal:  Chem Sci       Date:  2021-03-25       Impact factor: 9.825

6.  Cheminformatic quantum mechanical enzyme model design: A catechol-O-methyltransferase case study.

Authors:  Thomas J Summers; Qianyi Cheng; Manuel A Palma; Diem-Trang Pham; Dudley K Kelso; Charles Edwin Webster; Nathan J DeYonker
Journal:  Biophys J       Date:  2021-08-04       Impact factor: 3.699

  6 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.