Literature DB >> 28561580

Free-Energy Calculations of Ionic Hydration Consistent with the Experimental Hydration Free Energy of the Proton.

Haiyang Zhang1, Yang Jiang2, Hai Yan1, Chunhua Yin1, Tianwei Tan2, David van der Spoel3.   

Abstract

Computational free-energy correction strategies and the choice of experimental proton hydration free energy, ΔGs*(H+), are analyzed to investigate the apparent controversy in experimental thermodynamics of ionic hydration. Without corrections, the hydration free-energy (ΔGhyd) calculations match experiments with ΔGs*(H+) = -1064 kJ/mol as reference. Using the Galvani surface potential the resulting (real) ΔGhyd are consistent with ΔGs*(H+) = -1098 kJ/mol. When applying, in an ad hoc manner, the discrete solvent correction, ΔGhyd matching the "consensus" ΔGs*(H+) of -1112 kJ/mol are obtained. This analysis rationalizes reports on ΔGhyd calculations for ions using different experimental references. For neutral amino acid side chains ΔGhyd are independent of the water model, whereas there are large differences in ΔGhyd due to the water model for charged species, suggesting that long-range ordering of water around ions yields an important contribution to the ΔGhyd. These differences are reduced significantly when applying consistent corrections, but to obtain the most accurate results it is recommended to use the water model belonging to the force field.

Entities:  

Year:  2017        PMID: 28561580     DOI: 10.1021/acs.jpclett.7b01125

Source DB:  PubMed          Journal:  J Phys Chem Lett        ISSN: 1948-7185            Impact factor:   6.475


  4 in total

1.  Study of interactions between metal ions and protein model compounds by energy decomposition analyses and the AMOEBA force field.

Authors:  Zhifeng Jing; Rui Qi; Chengwen Liu; Pengyu Ren
Journal:  J Chem Phys       Date:  2017-10-28       Impact factor: 3.488

2.  Molecular dynamics simulations of Y(iii) coordination and hydration properties.

Authors:  Xiaolin Zhang; Fei Niu; Donghui Liu; Shimin Yang; Youming Yang; Zhifang Tong
Journal:  RSC Adv       Date:  2019-10-09       Impact factor: 4.036

3.  SAMPL6: calculation of macroscopic pKa values from ab initio quantum mechanical free energies.

Authors:  Edithe Selwa; Ian M Kenney; Oliver Beckstein; Bogdan I Iorga
Journal:  J Comput Aided Mol Des       Date:  2018-08-06       Impact factor: 3.686

4.  Prediction of Partition Coefficients of Environmental Toxins Using Computational Chemistry Methods.

Authors:  David van der Spoel; Sergio Manzetti; Haiyang Zhang; Andreas Klamt
Journal:  ACS Omega       Date:  2019-08-12
  4 in total

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