Assessing the hydration free energy of a homologous series of polyols with classical and quantum mechanical solvation models

2014 ◽  
Vol 16 (33) ◽  
pp. 17863-17868 ◽  
Author(s):  
Thaciana Malaspina ◽  
Leonardo M. Abreu ◽  
Tertius L. Fonseca ◽  
Eudes Fileti
Keyword(s):  
Molecular Dynamics ◽  
Free Energy ◽  
Homologous Series ◽  
Continuum Model ◽  
Polarizable Continuum Model ◽  
Quantum Mechanical ◽  
Hydration Free Energy ◽  
Solvation Model ◽  
Solvation Models ◽  
Polarizable Continuum

Molecular dynamics (MD) and the polarizable continuum model (PCM) in combination with the SMD solvation model were used to study the hydration free energy of the homologous series of polyols, CnHn+2(OH)n (1 ≤ n ≤ 7).

THEORETICAL CALCULATION OF pKb VALUES FOR ANILINES AND SULFONAMIDE DRUGS IN AQUEOUS SOLUTION

2012 ◽  
Vol 11 (02) ◽  
pp. 283-295 ◽  
Author(s):  
BAHRAM GHALAMI-CHOOBAR ◽  
ALI GHIAMI-SHOMAMI ◽  
PARIA NIKPARSA
Keyword(s):  
Gas Phase ◽  
Continuum Model ◽  
Correlation Equation ◽  
Polarizable Continuum Model ◽  
Free Energies ◽  
Pcm Model ◽  
Solvation Models ◽  
Polarizable Continuum ◽  
Better Than ◽  
Good Agreement

In this work, calculations of p K b values have been performed for aniline and its substituted derivatives and sulfonamide drugs by using Gaussian 98 software package. Gas-phase energies were calculated with HF /6-31 G ** and B3LYP /6-31 G ** levels of theory. Free energies of solvation have been computed using the polarizable continuum model (PCM), conductor-like polarizable continuum model (CPCM) and the integral equation formalism-polarizable continuum model (IEFPCM) at the same levels which have been used for geometry determination in the gas-phase. The results show that the calculated p K b values using the B3LYP /6-31 G ** are better than those using the corresponding HF /6-31 G **. At first, the correlation equation was found to determine the p K b values of the investigated anilines. Then, this correlation equation was used to calculate the p K b values of the sulfonamide drugs. The results obtained indicate that the PCM model is a suitable solvation model for calculating p K b values in comparison to the other solvation models. For the investigated compounds a good agreement between the experimental and the calculated p K b values was also observed.

Photoactivated proton coupled electron transfer in DNA: insights from quantum mechanical calculations

2018 ◽  
Vol 207 ◽  
pp. 199-216 ◽  
Author(s):  
Lara Martinez-Fernandez ◽  
Roberto Improta
Keyword(s):  
Electron Transfer ◽  
Continuum Model ◽  
Polarizable Continuum Model ◽  
Time Dependent ◽  
Quantum Mechanical ◽  
Quantum Mechanical Calculations ◽  
Transfer Processes ◽  
Proton Coupled Electron Transfer ◽  
Electron Transfer Processes ◽  
Polarizable Continuum

The energetics of the two main proton coupled electron transfer processes that could occur in DNA are determined by means of time dependent-DFT calculations, using the M052X functional and the polarizable continuum model to include solvent effect.

scholarly journals Enhanced Biodegradation/Photodegradation of Organophosphorus Fire Retardant Using an Integrated Method of Modified Pharmacophore Model with Molecular Dynamics and Polarizable Continuum Model

Polymers ◽  
2020 ◽  
Vol 12 (8) ◽  
pp. 1672 ◽  
Author(s):  
Jiawen Yang ◽  
Qing Li ◽  
Yu Li
Keyword(s):  
Molecular Dynamics ◽  
Continuum Model ◽  
Flame Retardants ◽  
Transition Energy ◽  
Bond Cleavage ◽  
Pharmacophore Model ◽  
Fire Retardant ◽  
Quantitative Structure Activity Relationship ◽  
Polarizable Continuum Model ◽  
Polarizable Continuum

A comprehensive 3D-quantitative structure–activity relationship (QSAR) pharmacophore model was constructed using the values of comprehensive biodegradation/photodegradation effects of 17 organophosphorus flame retardants (OPFRs) evaluated by a normalization method to modify OPFRs with high biodegradation/photodegradation, taking tris(chloro-isopropyl) phosphate (TCPP), tris(2-chloroethyl) phosphate (TCEP) and tris(1-chloro-2-propyl) phosphate (TCIPP)—which occur frequently in the environment, and are the most difficult to degrade as target molecules. OPFR-derivative molecules TCPP–OH shows the highest improvement in biodegradation and photodegradation (55.48% and 46.37%, respectively). On simulating the biodegradation path and photodegradation path, it is found that the energy barrier of TCPP–OH for phosphate bond cleavage is reduced by 15.73% and 52.52% compared to TCPP after modification, respectively. Finally, in order to further significantly improve its biodegradability and photodegradation, the efficiency enhancement in the biodegradation and photodegradation of TCPP–OH are analyzed under the simulated environment by molecular dynamics and polarizable continuum model, respectively. The results of molecular dynamics show that the biodegradation efficiency of the TCPP–OH increased by 75.52% compared to TCPP. The UV spectral transition energy (4.07 eV) of TCPP–OH under the influence of hydrogen peroxide solvation effect is 44.23% lower than the actual transition energy (7.29 eV) of TCPP.

Quantum Mechanical Polarizable Continuum Model Approach to the Kerr Effect of Pure Liquids

2005 ◽  
Vol 109 (39) ◽  
pp. 18706-18714 ◽  
Author(s):  
Chiara Cappelli ◽  
Benedetta Mennucci ◽  
Roberto Cammi ◽  
Antonio Rizzo
Keyword(s):  
Kerr Effect ◽  
Continuum Model ◽  
Polarizable Continuum Model ◽  
Quantum Mechanical ◽  
Polarizable Continuum ◽  
Model Approach
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