1
|
Mollahosseini A, Abdelrasoul A. Molecular dynamics simulation for membrane separation and porous materials: A current state of art review. J Mol Graph Model 2021; 107:107947. [PMID: 34126546 DOI: 10.1016/j.jmgm.2021.107947] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2021] [Revised: 05/13/2021] [Accepted: 05/17/2021] [Indexed: 01/29/2023]
Abstract
Computational frameworks have been under specific attention within the last two decades. Molecular Dynamics (MD) simulations, identical to the other computational approaches, try to address the unknown question, lighten the dark areas of unanswered questions, to achieve probable explanations and solutions. Owing to their complex microporous structure on one side and the intricate biochemical nature of various materials used in the structure, separative membrane materials possess peculiar degrees of complications. More notably, as nanocomposite materials are often integrated into separative membranes, thin-film nanocomposites and porous separative nanocomposite materials could possess an additional level of complexity with regard to the nanoscale interactions brought to the structure. This critical review intends to cover the recent methods used to assess membranes and membrane materials. Incorporation of MD in membrane technology-related fields such as desalination, fuel cell-based energy production, blood purification through hemodialysis, etc., were briefly covered. Accordingly, this review could be used to understand the current extent of MD applications for separative membranes. The review could also be used as a guideline to use the proper MD implementation within the related fields.
Collapse
Affiliation(s)
- Arash Mollahosseini
- Department of Chemical and Biological Engineering, University of Saskatchewan, 57 Campus Drive, Saskatoon, Saskatchewan, S7N 5A9, Canada
| | - Amira Abdelrasoul
- Department of Chemical and Biological Engineering, University of Saskatchewan, 57 Campus Drive, Saskatoon, Saskatchewan, S7N 5A9, Canada; Division of Biomedical Engineering, University of Saskatchewan, 57 Campus Drive, Saskatoon, Saskatchewan, S7N 5A9, Canada.
| |
Collapse
|
2
|
Akkermans RLC. Solvation Free Energy of Regular and Azeotropic Molecular Mixtures. J Phys Chem B 2017; 121:1675-1683. [DOI: 10.1021/acs.jpcb.7b00125] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Reinier L. C. Akkermans
- Dassault Systèmes, BIOVIA Ltd., 334 Cambridge Science Park, Cambridge, CB4 0WN, United Kingdom
| |
Collapse
|
3
|
|
4
|
Canales M, Aradilla D, Alemán C. Water absorption in polyaniline emeraldine base. ACTA ACUST UNITED AC 2011. [DOI: 10.1002/polb.22300] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
|
5
|
Chunsrivirot S, Trout BL. Free energy of binding of a small molecule to an amorphous polymer in a solvent. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2011; 27:6910-6919. [PMID: 21561080 DOI: 10.1021/la201011q] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/30/2023]
Abstract
Crystallization is a commonly used purification process in industrial practice. It usually begins with heterogeneous nucleation on a foreign surface. The complicated mechanism of heterogeneous nucleation is not well understood, but we hypothesize that a possible correlation between binding affinity to a surface and nucleation enhancement might exist. Amorphous polymers have been used in controlling crystallization. However, to our knowledge, no attempt has been made to calculate the free energy of binding of a small molecule to an amorphous polymer in a solvent, and to characterize the binding sites/conformations of this system at a molecular level. We developed a two-step approach, first using Adsorption Locator to identify probable binding sites and molecular dynamics to screen for the best binding sites and then using the Blue-Moon Ensemble method to compute the free energy of binding. A system of ethylene glycol, polyvinyl alcohol (PVA), and heavy water (D(2)O) was used for validation, since experimental data exists on a related system. Looking at four independently constructed surfaces, we found that ethylene glycol binds to an indentation on the surface or in a hole beneath the surface. We focused on the indentation binding sites because they are easily accessible and do not have large free energy barriers. The closest system for which experimental data on binding energetics exists is ethylene glycol on PVA in aqueous solutions/gels, and the magnitudes of the free energy of binding to the three best indentation binding sites are close to the experimental value, 0.4-3.7 kcal/mol higher. Our approach offers a way to compute the free energy of binding and characterize the binding sites/conformations, and is general enough to apply to other small molecule/amorphous polymer/solvent systems.
Collapse
Affiliation(s)
- Surasak Chunsrivirot
- Computational and Systems Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | | |
Collapse
|
6
|
|
7
|
Hörstermann H, Hentschke R, Amkreutz M, Hoffmann M, Wirts-Rütters M. Predicting water sorption and volume swelling in dense polymer systems via computer simulation. J Phys Chem B 2010; 114:17013-24. [PMID: 21141921 DOI: 10.1021/jp105210y] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
Atomistic model structures of amorphous polyamide 6 (PA-6) and of an adhesive system consisting of the diglycidyl ether of bisphenol A (DGEBA) as epoxy resin and isophorone diamine (IPD) as a curing agent are generated. For the adhesive, we use a new approach for the generation of the cross-linked polymer networks. It takes into account the chemical reaction kinetics of the curing reaction and, therefore, results in more realistic network structures. On the basis of the corresponding model structures, the equilibrium water content and the swelling ratio of amorphous PA-6 and of the DGEBA+IPD networks are calculated via computer simulation for different thermodynamic conditions. A hybrid method is used combining the molecular dynamics technique with an accelerated test particle insertion method. The results are in reasonable agreement with experiments and, in the case of the PA-6 system, with results obtained via other computer simulation methods.
Collapse
Affiliation(s)
- Henning Hörstermann
- Fachbereich Mathematik und Naturwissenschaften, Bergische Universität, D-42097 Wuppertal, Germany
| | | | | | | | | |
Collapse
|
8
|
Eslami H, Mehdipour N. Grand canonical ensemble molecular dynamics simulation of water solubility in polyamide-6,6. Phys Chem Chem Phys 2010; 13:669-73. [PMID: 21031194 DOI: 10.1039/c0cp00910e] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Grand canonical ensemble molecular dynamics simulation is employed to calculate the solubility of water in polyamide-6,6. It is shown that performing two separate simulations, one in the polymeric phase and one in the gaseous phase, is sufficient to find the phase coexistence point. In this method, the chemical potential of water in the polymer phase is expanded as a first-order Taylor series in terms of pressure. Knowing the chemical potential of water in the polymer phase in terms of pressure, another simulation for water in the gaseous phase, in the grand canonical ensemble, is done in which the target chemical potential is set in terms of pressure in the gas phase. The phase coexistence point can easily be calculated from the results of these two independent simulations. Our calculated sorption isotherms and solubility coefficients of water in polyamide-6,6, over a wide range of temperatures and pressures, agree with experimental data.
Collapse
Affiliation(s)
- Hossein Eslami
- Department of Chemistry, College of Sciences, Persian Gulf University, Boushehr 75168, Iran.
| | | |
Collapse
|
9
|
Marque G, Verdu J, Prunier V, Brown D. A molecular dynamics simulation study of three polysulfones in dry and hydrated states. ACTA ACUST UNITED AC 2010. [DOI: 10.1002/polb.22117] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
|
10
|
Eslami H, Müller-Plathe F. Water permeability of poly(ethylene terephthalate): A grand canonical ensemble molecular dynamics simulation study. J Chem Phys 2009; 131:234904. [DOI: 10.1063/1.3274805] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
|
11
|
Marque G, Neyertz S, Verdu J, Prunier V, Brown D. Molecular Dynamics Simulation Study of Water in Amorphous Kapton. Macromolecules 2008. [DOI: 10.1021/ma702173j] [Citation(s) in RCA: 43] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Grégory Marque
- LMOPS, UMR CNRS 5041, Université de Savoie, Bâtiment IUT, 73376 Le Bourget-du-Lac, France, LIM, UMR CNRS 8006, ENSAM, 151 Boulevard de l’Hôpital, 75013 Paris, France, and EDF R&D, Site des Renardières, 77818 Moret-sur-Loing, France
| | - Sylvie Neyertz
- LMOPS, UMR CNRS 5041, Université de Savoie, Bâtiment IUT, 73376 Le Bourget-du-Lac, France, LIM, UMR CNRS 8006, ENSAM, 151 Boulevard de l’Hôpital, 75013 Paris, France, and EDF R&D, Site des Renardières, 77818 Moret-sur-Loing, France
| | - Jacques Verdu
- LMOPS, UMR CNRS 5041, Université de Savoie, Bâtiment IUT, 73376 Le Bourget-du-Lac, France, LIM, UMR CNRS 8006, ENSAM, 151 Boulevard de l’Hôpital, 75013 Paris, France, and EDF R&D, Site des Renardières, 77818 Moret-sur-Loing, France
| | - Valéry Prunier
- LMOPS, UMR CNRS 5041, Université de Savoie, Bâtiment IUT, 73376 Le Bourget-du-Lac, France, LIM, UMR CNRS 8006, ENSAM, 151 Boulevard de l’Hôpital, 75013 Paris, France, and EDF R&D, Site des Renardières, 77818 Moret-sur-Loing, France
| | - David Brown
- LMOPS, UMR CNRS 5041, Université de Savoie, Bâtiment IUT, 73376 Le Bourget-du-Lac, France, LIM, UMR CNRS 8006, ENSAM, 151 Boulevard de l’Hôpital, 75013 Paris, France, and EDF R&D, Site des Renardières, 77818 Moret-sur-Loing, France
| |
Collapse
|
12
|
Hörstermann H, Hentschke R. Effects due to molecular shape and flexibility on the permeability ratio of binary fluid mixtures in a model polymer network via computer simulation. J Chem Phys 2008; 128:084902. [DOI: 10.1063/1.2839435] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
|
13
|
Johansson E, Bolton K, Theodorou DN, Ahlström P. Monte Carlo simulations of equilibrium solubilities and structure of water in n-alkanes and polyethylene. J Chem Phys 2007; 126:224902. [PMID: 17581078 DOI: 10.1063/1.2745296] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Gibbs ensemble Monte Carlo methods based on a force field that combines the simple point charge [Berendsen et al., in Intermolecular Forces, edited by Pullman (Reidel, Dordrecht, 1981), p. 331] and transferable potentials for phase equilibria [Martin and Siepmann, J. Phys. Chem. B 102, 2659 (1998)] models were used to study the equilibrium properties of binary systems consisting of water and n-alkanes with chain lengths from hexane to hexadecane. In addition, systems where extended linear alkane chains (up to 300 carbon units long) were used to represent amorphous polyethylene were simulated in the presence of water using a connectivity altering osmotic Gibbs ensemble. In these simulations the equilibrium between a liquid water phase and a polymer phase into which water was inserted was studied. The predicted solubilities, which were determined between 350 and 550 K, are in good agreement with experiment, where experimental results are available, and the density of water molecules in the hydrocarbons is approximately 63% as high as in saturated water vapor under the same conditions. At the lower temperatures most of the water exists as monomers; increasing the temperature leads to an increase in the density of water in the alkane phase and hence in the fraction of molecules that participate in clusters. Dimers are the most prevalent clusters in all hydrocarbons and at all temperatures studied, and the fraction of clusters of given size decrease with increasing cluster size. A large fraction of trimers, tetramers, and pentamers, which are the cluster sizes for which topologies have been studied, are cyclic at low temperatures, but at higher temperatures linear structures predominate. The same properties are observed for pure water vapor clusters in equilibrium with the liquid phase, showing that the cluster topologies are not significantly affected by the surrounding hydrocarbon.
Collapse
Affiliation(s)
- E Johansson
- School of Engineering, University College of Borås, SE-501 90 Borås, Sweden
| | | | | | | |
Collapse
|
14
|
Prathab B, Aminabhavi TM, Parthasarathi R, Manikandan P, Subramanian V. Molecular modeling and atomistic simulation strategies to determine surface properties of perfluorinated homopolymers and their random copolymers. POLYMER 2006. [DOI: 10.1016/j.polymer.2006.07.034] [Citation(s) in RCA: 45] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
|
15
|
Limbach HJ, Kremer K. Multi-scale modelling of polymers: Perspectives for food materials. Trends Food Sci Technol 2006. [DOI: 10.1016/j.tifs.2005.11.001] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
|
16
|
Neyertz S, Brown D. Influence of System Size in Molecular Dynamics Simulations of Gas Permeation in Glassy Polymers. Macromolecules 2004. [DOI: 10.1021/ma048500q] [Citation(s) in RCA: 54] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Sylvie Neyertz
- Laboratoire Matériaux Organiques à Propriétés Spécifiques (LMOPS), UMR CNRS 5041, Université de Savoie, Bât. IUT, 73376 Le Bourget-du-Lac Cedex, France
| | - David Brown
- Laboratoire Matériaux Organiques à Propriétés Spécifiques (LMOPS), UMR CNRS 5041, Université de Savoie, Bât. IUT, 73376 Le Bourget-du-Lac Cedex, France
| |
Collapse
|
17
|
Lay HC, Spencer MJS, Evans EJ, Yarovsky I. Molecular Simulation Study of Polymer Interactions with Silica Particles in Aqueous Solution. J Phys Chem B 2003. [DOI: 10.1021/jp034572s] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Han C. Lay
- Department of Applied Physics, RMIT University GPO Box 2476V, Melbourne VIC 3001, Australia, and BHP Steel Research Laboratories, Port Kembla, Australia
| | - Michelle J. S. Spencer
- Department of Applied Physics, RMIT University GPO Box 2476V, Melbourne VIC 3001, Australia, and BHP Steel Research Laboratories, Port Kembla, Australia
| | - Evan J. Evans
- Department of Applied Physics, RMIT University GPO Box 2476V, Melbourne VIC 3001, Australia, and BHP Steel Research Laboratories, Port Kembla, Australia
| | - Irene Yarovsky
- Department of Applied Physics, RMIT University GPO Box 2476V, Melbourne VIC 3001, Australia, and BHP Steel Research Laboratories, Port Kembla, Australia
| |
Collapse
|
18
|
Pinel E, Brown D, Bas C, Mercier R, Albérola ND, Neyertz S. Chemical Influence of the Dianhydride and the Diamine Structure on a Series of Copolyimides Studied by Molecular Dynamics Simulations. Macromolecules 2002. [DOI: 10.1021/ma020942j] [Citation(s) in RCA: 37] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- E. Pinel
- Laboratoire Matériaux Organiques à Propriétés Spécifiques (LMOPS), UMR CNRS 5041, Université de Savoie, Bât. IUT, 73376 Le Bourget du Lac Cedex, France, and BP 24, 69390 Vernaison, France
| | - D. Brown
- Laboratoire Matériaux Organiques à Propriétés Spécifiques (LMOPS), UMR CNRS 5041, Université de Savoie, Bât. IUT, 73376 Le Bourget du Lac Cedex, France, and BP 24, 69390 Vernaison, France
| | - C. Bas
- Laboratoire Matériaux Organiques à Propriétés Spécifiques (LMOPS), UMR CNRS 5041, Université de Savoie, Bât. IUT, 73376 Le Bourget du Lac Cedex, France, and BP 24, 69390 Vernaison, France
| | - R. Mercier
- Laboratoire Matériaux Organiques à Propriétés Spécifiques (LMOPS), UMR CNRS 5041, Université de Savoie, Bât. IUT, 73376 Le Bourget du Lac Cedex, France, and BP 24, 69390 Vernaison, France
| | - N. D. Albérola
- Laboratoire Matériaux Organiques à Propriétés Spécifiques (LMOPS), UMR CNRS 5041, Université de Savoie, Bât. IUT, 73376 Le Bourget du Lac Cedex, France, and BP 24, 69390 Vernaison, France
| | - S. Neyertz
- Laboratoire Matériaux Organiques à Propriétés Spécifiques (LMOPS), UMR CNRS 5041, Université de Savoie, Bât. IUT, 73376 Le Bourget du Lac Cedex, France, and BP 24, 69390 Vernaison, France
| |
Collapse
|
19
|
Neyertz S, Brown D, Douanne A, Bas C, Albérola ND. The Molecular Structure and Dynamics of Short Oligomers of PMDA-ODA and BCDA-ODA Polyimides in the Absence and Presence of Water. J Phys Chem B 2002. [DOI: 10.1021/jp0131525] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- S. Neyertz
- Laboratoire Matériaux Organiques à Propriétés Spécifiques (LMOPS), UMR CNRS 5041, Bâtiment IUT, Université de Savoie, Campus Scientifique, 73376 Le Bourget-du-Lac, France
| | - D. Brown
- Laboratoire Matériaux Organiques à Propriétés Spécifiques (LMOPS), UMR CNRS 5041, Bâtiment IUT, Université de Savoie, Campus Scientifique, 73376 Le Bourget-du-Lac, France
| | - A. Douanne
- Laboratoire Matériaux Organiques à Propriétés Spécifiques (LMOPS), UMR CNRS 5041, Bâtiment IUT, Université de Savoie, Campus Scientifique, 73376 Le Bourget-du-Lac, France
| | - C. Bas
- Laboratoire Matériaux Organiques à Propriétés Spécifiques (LMOPS), UMR CNRS 5041, Bâtiment IUT, Université de Savoie, Campus Scientifique, 73376 Le Bourget-du-Lac, France
| | - N. D. Albérola
- Laboratoire Matériaux Organiques à Propriétés Spécifiques (LMOPS), UMR CNRS 5041, Bâtiment IUT, Université de Savoie, Campus Scientifique, 73376 Le Bourget-du-Lac, France
| |
Collapse
|
20
|
Kikuchi H, Kuwajima S, Fukuda M. Novel method to estimate solubility of small molecules in cis-polyisoprene by molecular dynamics simulations. J Chem Phys 2001. [DOI: 10.1063/1.1398590] [Citation(s) in RCA: 16] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
|