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Prediction of methane diffusion coefficient in water using molecular dynamics simulation

Diffusion coefficient is one the most effective factors in mass transfer calculation, which plays an important role in study at the molecular scale. In this study, Material Studio software was used to simulate the diffusion coefficient of methane in water through molecular dynamics. COMPASS force fi...

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Autores principales: Moradi, Hojatollah, Azizpour, Hedayat, Bahmanyar, Hossein, Mohammadi, Mohammad, Akbari, Mahdi
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7609454/
https://www.ncbi.nlm.nih.gov/pubmed/33163679
http://dx.doi.org/10.1016/j.heliyon.2020.e05385
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author Moradi, Hojatollah
Azizpour, Hedayat
Bahmanyar, Hossein
Mohammadi, Mohammad
Akbari, Mahdi
author_facet Moradi, Hojatollah
Azizpour, Hedayat
Bahmanyar, Hossein
Mohammadi, Mohammad
Akbari, Mahdi
author_sort Moradi, Hojatollah
collection PubMed
description Diffusion coefficient is one the most effective factors in mass transfer calculation, which plays an important role in study at the molecular scale. In this study, Material Studio software was used to simulate the diffusion coefficient of methane in water through molecular dynamics. COMPASS force field was also used for optimization of atomic structures of methane and water, and Group-Based method was applied to model to calculate both van der Waals and electrostatic forces. In addition, Universal force field was used to optimize of amorphous cell, while Ewald and Atom-Based methods were applied for modeling and calculation of van der Waals and electrostatic potential energy at constant temperatures. The simulation duration for equilibrium of amorphous cell in both state of NVT and NVE was assumed 5ps. The impact of temperature as well as concentration on diffusion coefficient were investigated and results showed that the diffusion coefficient had linear relationship with temperature and third-degree polynomial relationship with concentration. As a result, of the simulation, the diffusion coefficient function versus temperature and concentration was developed.
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spelling pubmed-76094542020-11-06 Prediction of methane diffusion coefficient in water using molecular dynamics simulation Moradi, Hojatollah Azizpour, Hedayat Bahmanyar, Hossein Mohammadi, Mohammad Akbari, Mahdi Heliyon Research Article Diffusion coefficient is one the most effective factors in mass transfer calculation, which plays an important role in study at the molecular scale. In this study, Material Studio software was used to simulate the diffusion coefficient of methane in water through molecular dynamics. COMPASS force field was also used for optimization of atomic structures of methane and water, and Group-Based method was applied to model to calculate both van der Waals and electrostatic forces. In addition, Universal force field was used to optimize of amorphous cell, while Ewald and Atom-Based methods were applied for modeling and calculation of van der Waals and electrostatic potential energy at constant temperatures. The simulation duration for equilibrium of amorphous cell in both state of NVT and NVE was assumed 5ps. The impact of temperature as well as concentration on diffusion coefficient were investigated and results showed that the diffusion coefficient had linear relationship with temperature and third-degree polynomial relationship with concentration. As a result, of the simulation, the diffusion coefficient function versus temperature and concentration was developed. Elsevier 2020-11-02 /pmc/articles/PMC7609454/ /pubmed/33163679 http://dx.doi.org/10.1016/j.heliyon.2020.e05385 Text en © 2020 Published by Elsevier Ltd. http://creativecommons.org/licenses/by-nc-nd/4.0/ This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
spellingShingle Research Article
Moradi, Hojatollah
Azizpour, Hedayat
Bahmanyar, Hossein
Mohammadi, Mohammad
Akbari, Mahdi
Prediction of methane diffusion coefficient in water using molecular dynamics simulation
title Prediction of methane diffusion coefficient in water using molecular dynamics simulation
title_full Prediction of methane diffusion coefficient in water using molecular dynamics simulation
title_fullStr Prediction of methane diffusion coefficient in water using molecular dynamics simulation
title_full_unstemmed Prediction of methane diffusion coefficient in water using molecular dynamics simulation
title_short Prediction of methane diffusion coefficient in water using molecular dynamics simulation
title_sort prediction of methane diffusion coefficient in water using molecular dynamics simulation
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7609454/
https://www.ncbi.nlm.nih.gov/pubmed/33163679
http://dx.doi.org/10.1016/j.heliyon.2020.e05385
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