Literature DB >> 18161686

Assessment of performance of the general purpose polarizable force field QMPFF3 in condensed phase.

Alexander G Donchev1, Nikolay G Galkin, Alexey A Illarionov, Oleg V Khoruzhii, Michael A Olevanov, Vladimir D Ozrin, Leonid B Pereyaslavets, Vladimir I Tarasov.   

Abstract

The recently introduced force field (FF) QMPFF3 is thoroughly validated in gas, liquid, and solid phases. For the first time, it is demonstrated that a physically well-grounded general purpose FF fitted exclusively to a comprehensive set of high level vacuum quantum mechanical data applied as it is to simulation of condensed phase provides high transferability for a wide range of chemical compounds. QMPFF3 demonstrates accuracy comparable with that of the FFs explicitly fitted to condensed phase data, but due to high transferability it is expected to be successful in simulating large molecular complexes.

Year:  2008        PMID: 18161686     DOI: 10.1002/jcc.20884

Source DB:  PubMed          Journal:  J Comput Chem        ISSN: 0192-8651            Impact factor:   3.376


  10 in total

1.  Application of a polarizable force field to calculations of relative protein-ligand binding affinities.

Authors:  Oleg Khoruzhii; Alexander G Donchev; Nikolay Galkin; Alexei Illarionov; Mikhail Olevanov; Vladimir Ozrin; Cary Queen; Vladimir Tarasov
Journal:  Proc Natl Acad Sci U S A       Date:  2008-07-24       Impact factor: 11.205

Review 2.  Classical electrostatics for biomolecular simulations.

Authors:  G Andrés Cisneros; Mikko Karttunen; Pengyu Ren; Celeste Sagui
Journal:  Chem Rev       Date:  2013-08-27       Impact factor: 60.622

3.  Remarkable patterns of surface water ordering around polarized buckminsterfullerene.

Authors:  Gaurav Chopra; Michael Levitt
Journal:  Proc Natl Acad Sci U S A       Date:  2011-08-15       Impact factor: 11.205

Review 4.  Force field development phase II: Relaxation of physics-based criteria… or inclusion of more rigorous physics into the representation of molecular energetics.

Authors:  A T Hagler
Journal:  J Comput Aided Mol Des       Date:  2018-11-30       Impact factor: 3.686

5.  Polarizable molecular interactions in condensed phase and their equivalent nonpolarizable models.

Authors:  Igor V Leontyev; Alexei A Stuchebrukhov
Journal:  J Chem Phys       Date:  2014-07-07       Impact factor: 3.488

6.  Improved parameterization of interatomic potentials for rare gas dimers with density-based energy decomposition analysis.

Authors:  Nengjie Zhou; Zhenyu Lu; Qin Wu; Yingkai Zhang
Journal:  J Chem Phys       Date:  2014-06-07       Impact factor: 3.488

7.  Prediction of cyclohexane-water distribution coefficient for SAMPL5 drug-like compounds with the QMPFF3 and ARROW polarizable force fields.

Authors:  Ganesh Kamath; Igor Kurnikov; Boris Fain; Igor Leontyev; Alexey Illarionov; Oleg Butin; Michael Olevanov; Leonid Pereyaslavets
Journal:  J Comput Aided Mol Des       Date:  2016-09-01       Impact factor: 3.686

8.  On the importance of accounting for nuclear quantum effects in ab initio calibrated force fields in biological simulations.

Authors:  Leonid Pereyaslavets; Igor Kurnikov; Ganesh Kamath; Oleg Butin; Alexey Illarionov; Igor Leontyev; Michael Olevanov; Michael Levitt; Roger D Kornberg; Boris Fain
Journal:  Proc Natl Acad Sci U S A       Date:  2018-08-20       Impact factor: 11.205

9.  Steric "attraction": not by dispersion alone.

Authors:  Ganna Gryn'ova; Clémence Corminboeuf
Journal:  Beilstein J Org Chem       Date:  2018-06-19       Impact factor: 2.883

10.  Accurate determination of solvation free energies of neutral organic compounds from first principles.

Authors:  Leonid Pereyaslavets; Ganesh Kamath; Boris Fain; Oleg Butin; Alexey Illarionov; Michael Olevanov; Igor Kurnikov; Serzhan Sakipov; Igor Leontyev; Ekaterina Voronina; Tyler Gannon; Grzegorz Nawrocki; Mikhail Darkhovskiy; Ilya Ivahnenko; Alexander Kostikov; Jessica Scaranto; Maria G Kurnikova; Suvo Banik; Henry Chan; Michael G Sternberg; Subramanian K R S Sankaranarayanan; Brad Crawford; Jeffrey Potoff; Michael Levitt; Roger D Kornberg
Journal:  Nat Commun       Date:  2022-01-20       Impact factor: 14.919

  10 in total

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