Literature DB >> 28880087

Predicting Accurate Solvation Free Energy in n-Octanol Using 3D-RISM-KH Molecular Theory of Solvation: Making Right Choices.

Dipankar Roy1,2, Nikolay Blinov1,2, Andriy Kovalenko1,2.   

Abstract

Molecular theory of solvation, a.k.a., three-dimensional reference interaction site model theory of solvation with Kovalenko-Hirata closure relation (3D-RISM-KH), is an accurate and fast theory predicting solvation free energy and structure. Here we report a benchmark study of n-octanol solvation free energy calculations using this theory. The choice of correct force field parameters is quintessential for the success of 3D-RISM theory, and we present a guideline to obtain them for n-octanol solvent. Our best prediction of the solvation free energy on a set of 205 small organic molecules supplemented with the so-called "universal correction" scheme yields relative mean unsigned error of 0.94 kcal/mol against the reported database. The best agreement is obtained with the united atom (UA) type force field parametrization of n-octanol with the van der Waals parameters of hydroxyl hydrogen reported by Kobryn et al. [ Kobryn , A. E. ; Kovalenko , A. J. Chem. Phys. 2008 , 129 , 134701 ].

Entities:  

Year:  2017        PMID: 28880087     DOI: 10.1021/acs.jpcb.7b06375

Source DB:  PubMed          Journal:  J Phys Chem B        ISSN: 1520-5207            Impact factor:   2.991


  4 in total

1.  Predicting skin permeability using the 3D-RISM-KH theory based solvation energy descriptors for a diverse class of compounds.

Authors:  Vijaya Kumar Hinge; Dipankar Roy; Andriy Kovalenko
Journal:  J Comput Aided Mol Des       Date:  2019-05-13       Impact factor: 3.686

2.  Application of the 3D-RISM-KH molecular solvation theory for DMSO as solvent.

Authors:  Dipankar Roy; Andriy Kovalenko
Journal:  J Comput Aided Mol Des       Date:  2019-10-21       Impact factor: 3.686

3.  Predicting PAMPA permeability using the 3D-RISM-KH theory: are we there yet?

Authors:  Dipankar Roy; Devjyoti Dutta; David S Wishart; Andriy Kovalenko
Journal:  J Comput Aided Mol Des       Date:  2021-01-04       Impact factor: 3.686

Review 4.  Biomolecular Simulations with the Three-Dimensional Reference Interaction Site Model with the Kovalenko-Hirata Closure Molecular Solvation Theory.

Authors:  Dipankar Roy; Andriy Kovalenko
Journal:  Int J Mol Sci       Date:  2021-05-11       Impact factor: 5.923

  4 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.