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

被引:23
|
作者
Pereyaslavets, Leonid [1 ]
Kamath, Ganesh [1 ]
Butin, Oleg [1 ]
Illarionov, Alexey [1 ]
Olevanov, Michael [1 ,2 ]
Kurnikov, Igor [1 ]
Sakipov, Serzhan [1 ]
Leontyev, Igor [1 ]
Voronina, Ekaterina [1 ,2 ]
Gannon, Tyler [1 ]
Nawrocki, Grzegorz [1 ]
Darkhovskiy, Mikhail [1 ]
Ivahnenko, Ilya [1 ]
Kostikov, Alexander [1 ]
Scaranto, Jessica [3 ]
Kurnikova, Maria G. [3 ]
Banik, Suvo [4 ,5 ]
Chan, Henry [4 ,5 ]
Sternberg, Michael G. [4 ]
Sankaranarayanan, Subramanian K. R. S. [4 ,5 ]
Crawford, Brad [6 ]
Potoff, Jeffrey [6 ]
Levitt, Michael [7 ]
Kornberg, Roger D. [7 ]
Fain, Boris [1 ]
机构
[1] InterX Inc, 805 Allston Way, Berkeley, CA 94710 USA
[2] Lomonosov Moscow State Univ, Fac Phys, Moscow 119991, Russia
[3] Carnegie Mellon Univ, Dept Chem, Pittsburgh, PA 15213 USA
[4] Argonne Natl Lab, Ctr Nanoscale Mat, Argonne, IL 60439 USA
[5] Univ Illinois, Dept Mech & Ind Engn, Chicago, IL 60607 USA
[6] Wayne State Univ, Dept Chem Engn & Mat Sci, Detroit, MI 48202 USA
[7] Stanford Univ, Dept Struct Biol, Sch Med, Stanford, CA 94304 USA
关键词
FORCE-FIELD; MOLECULAR-DYNAMICS; PROTEIN CONFORMATIONS; CONDENSED-PHASE; WATER; PERFORMANCE; ALGORITHMS; MODEL;
D O I
10.1038/s41467-022-28041-0
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
The main goal of molecular simulation is to accurately predict experimental observables of molecular systems. Another long-standing goal is to devise models for arbitrary neutral organic molecules with little or no reliance on experimental data. While separately these goals have been met to various degrees, for an arbitrary system of molecules they have not been achieved simultaneously. For biophysical ensembles that exist at room temperature and pressure, and where the entropic contributions are on par with interaction strengths, it is the free energies that are both most important and most difficult to predict. We compute the free energies of solvation for a diverse set of neutral organic compounds using a polarizable force field fitted entirely to ab initio calculations. The mean absolute errors (MAE) of hydration, cyclohexane solvation, and corresponding partition coefficients are 0.2 kcal/mol, 0.3 kcal/mol and 0.22 log units, i.e. within chemical accuracy. The model (ARROW FF) is multipolar, polarizable, and its accompanying simulation stack includes nuclear quantum effects (NQE). The simulation tools' computational efficiency is on a par with current state-of-the-art packages. The construction of a wide-coverage molecular modelling toolset from first principles, together with its excellent predictive ability in the liquid phase is a major advance in biomolecular simulation. Theoretical estimations of solvation free energy by continuum solvation models are generally not accurate. Here the authors report a polarizable force field fitted entirely to first-principles calculations for the estimation of free energy of solvation of arbitrary molecules.
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页数:7
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