Literature DB >> 33922192

A Review on Combination of Ab Initio Molecular Dynamics and NMR Parameters Calculations.

Anna Helena Mazurek1, Łukasz Szeleszczuk2, Dariusz Maciej Pisklak2.   

Abstract

This review focuses on a combination of ab initio molecular dynamics (aiMD) and NMR parameters calculations using quantum mechanical methods. The advantages of such an approach in comparison to the commonly applied computations for the structures optimized at 0 K are presented. This article was designed as a convenient overview of the applied parameters such as the aiMD type, DFT functional, time step, or total simulation time, as well as examples of previously studied systems. From the analysis of the published works describing the applications of such combinations, it was concluded that including fast, small-amplitude motions through aiMD has a noticeable effect on the accuracy of NMR parameters calculations.

Entities:  

Keywords:  GIAO; GIPAW; NMR; ab initio; aiMD; molecular dynamics

Mesh:

Year:  2021        PMID: 33922192     DOI: 10.3390/ijms22094378

Source DB:  PubMed          Journal:  Int J Mol Sci        ISSN: 1422-0067            Impact factor:   5.923


  35 in total

1.  NMR chemical shifts as a tool to analyze first principles molecular dynamics simulations in condensed phases: the case of liquid water.

Authors:  Douglas R Banyai; Tatiana Murakhtina; Daniel Sebastiani
Journal:  Magn Reson Chem       Date:  2010-12       Impact factor: 2.447

2.  Conformational Sampling by Ab Initio Molecular Dynamics Simulations Improves NMR Chemical Shift Predictions.

Authors:  Martin Dračínský; Heiko M Möller; Thomas E Exner
Journal:  J Chem Theory Comput       Date:  2013-07-02       Impact factor: 6.006

3.  Role of Molecular Dynamics and Related Methods in Drug Discovery.

Authors:  Marco De Vivo; Matteo Masetti; Giovanni Bottegoni; Andrea Cavalli
Journal:  J Med Chem       Date:  2016-02-08       Impact factor: 7.446

4.  Accurate and efficient integration for molecular dynamics simulations at constant temperature and pressure.

Authors:  Ross A Lippert; Cristian Predescu; Douglas J Ierardi; Kenneth M Mackenzie; Michael P Eastwood; Ron O Dror; David E Shaw
Journal:  J Chem Phys       Date:  2013-10-28       Impact factor: 3.488

5.  1H and 13C NMR scaling factors for the calculation of chemical shifts in commonly used solvents using density functional theory.

Authors:  Gregory K Pierens
Journal:  J Comput Chem       Date:  2014-05-23       Impact factor: 3.376

6.  NMR J-coupling constants in cisplatin derivatives studied by molecular dynamics and relativistic DFT.

Authors:  Kiplangat Sutter; Lionel A Truflandier; Jochen Autschbach
Journal:  Chemphyschem       Date:  2011-03-04       Impact factor: 3.102

7.  Ab initio molecular dynamics study of sodium NMR chemical shifts in the methylamine solution of [Na+ [2.2.2]cryptand Na-].

Authors:  Laura Abella; Adam Philips; Jochen Autschbach
Journal:  Phys Chem Chem Phys       Date:  2021-01-06       Impact factor: 3.676

8.  Ab Initio Molecular Dynamics Simulations and GIPAW NMR Calculations of a Lithium Borate Glass Melt.

Authors:  Takahiro Ohkubo; Eiji Tsuchida; Takafumi Takahashi; Yasuhiko Iwadate
Journal:  J Phys Chem B       Date:  2016-04-04       Impact factor: 2.991

9.  Quadrupolar 14N NMR Relaxation from Force-Field and Ab Initio Molecular Dynamics in Different Solvents.

Authors:  Adam Philips; Alex Marchenko; Lucas C Ducati; Jochen Autschbach
Journal:  J Chem Theory Comput       Date:  2018-12-06       Impact factor: 6.006

10.  Explicitly representing the solvation shell in continuum solvent calculations.

Authors:  Eirik F da Silva; Hallvard F Svendsen; Kenneth M Merz
Journal:  J Phys Chem A       Date:  2009-06-04       Impact factor: 2.781

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  1 in total

1.  The Physical Chemistry and Chemical Physics (PCCP) Section of the International Journal of Molecular Sciences in Its Publications: The First 300 Thematic Articles in the First 3 Years.

Authors:  Oleg V Mikhailov
Journal:  Int J Mol Sci       Date:  2021-12-27       Impact factor: 5.923

  1 in total

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