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Swiatla-Wojcik D, Szala-Bilnik J. High temperature aqueous solvent effect on translational and hydrogen bond dynamics of the hydroxyl radical — MD simulation study. J Supercrit Fluids 2019. [DOI: 10.1016/j.supflu.2018.11.016] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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2
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High Temperature Aqueous Solvent Effect on Stretching Vibrations of the Hydroxyl Radical – MD Simulation Study of Spectral Shifts and Hydrogen Bond Statistics. J Supercrit Fluids 2019. [DOI: 10.1016/j.supflu.2018.07.017] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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Tsimpanogiannis IN, Moultos OA, Franco LFM, Spera MBDM, Erdős M, Economou IG. Self-diffusion coefficient of bulk and confined water: a critical review of classical molecular simulation studies. MOLECULAR SIMULATION 2018. [DOI: 10.1080/08927022.2018.1511903] [Citation(s) in RCA: 58] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Affiliation(s)
- Ioannis N. Tsimpanogiannis
- Environmental Research Laboratory, National Center for Scientific Research “Demokritos”, Aghia Paraskevi Attikis, Greece
- Institute of Nanoscience and Nanotechnology, National Center for Scientific Research “Demokritos”, Aghia Paraskevi Attikis, Greece
| | - Othonas A. Moultos
- Engineering Thermodynamics, Process & Energy Department, Faculty of Mechanical, Maritime and Materials Engineering, Delft University of Technology, Delft, The Netherlands
| | - Luís F. M. Franco
- School of Chemical Engineering, University of Campinas, Campinas, Brazil
| | | | - Máté Erdős
- Engineering Thermodynamics, Process & Energy Department, Faculty of Mechanical, Maritime and Materials Engineering, Delft University of Technology, Delft, The Netherlands
| | - Ioannis G. Economou
- Institute of Nanoscience and Nanotechnology, National Center for Scientific Research “Demokritos”, Aghia Paraskevi Attikis, Greece
- Chemical Engineering Program, Texas A&M University at Qatar, Doha, Qatar
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Laurs N, Bopp P. Modelling the H3O+-Ion: A Simulation Study of an Aqueous HCl Solution. ACTA ACUST UNITED AC 2010. [DOI: 10.1002/bbpc.19930970806] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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Abstract
AbstractMolecular dynamics NVE simulations have been performed for five thermodynamic states of water including ambient, sub-and supercritical conditions. Clustering of molecules via hydrogen bonding interaction has been studied with respect to the increasing temperature and decreasing density to examine the relationship between the extent of hydrogen bonding and macroscopic properties. Calculations confirmed decrease of the average number of H-bonds per molecule and of cluster-size with increasing temperature and decreasing density. In the sub-and supercritical region studied, linear correlations between several physical quantities (density, viscosity, static dielectric constant) and the total engagement of molecules in clusters of size k > 4, Pk>4, have been found. In that region there was a linear relationship between Pk>4 and the average number of H-bonds per water molecule. The structural heterogeneity resulting from hydrogen bonding interactions in low-density supercritical water has been also discussed.
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Amrani M, Bendeddouch D, Bormann D, Krallafa A. Isothermal isobaric molecular dynamics simulation of water. ACTA ACUST UNITED AC 2008. [DOI: 10.1016/j.theochem.2008.07.017] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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Tóth G, Vrabecz A. Parameterization of Coulomb interaction in three-dimensional periodic systems. MOLECULAR SIMULATION 2007. [DOI: 10.1080/08927020701579345] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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8
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Guillot B. A reappraisal of what we have learnt during three decades of computer simulations on water. J Mol Liq 2002. [DOI: 10.1016/s0167-7322(02)00094-6] [Citation(s) in RCA: 757] [Impact Index Per Article: 32.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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Bresme F. Equilibrium and nonequilibrium molecular-dynamics simulations of the central force model of water. J Chem Phys 2001. [DOI: 10.1063/1.1407288] [Citation(s) in RCA: 88] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
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Nymand TM, Linse P. Molecular dynamics simulations of polarizable water at different boundary conditions. J Chem Phys 2000. [DOI: 10.1063/1.481200] [Citation(s) in RCA: 39] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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11
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Gomez MA, Pratt LR. Construction of simulation wave functions for aqueous species: D3O+. J Chem Phys 1998. [DOI: 10.1063/1.477548] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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12
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Bopp PA, Kornyshev AA, Sutmann G. Frequency and wave-vector dependent dielectric function of water: Collective modes and relaxation spectra. J Chem Phys 1998. [DOI: 10.1063/1.476884] [Citation(s) in RCA: 86] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Sutmann G. Structure formation and dynamics of water in strong external electric fields. J Electroanal Chem (Lausanne) 1998. [DOI: 10.1016/s0022-0728(97)00649-9] [Citation(s) in RCA: 80] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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Kalinichev AG, Bass JD. Hydrogen Bonding in Supercritical Water. 2. Computer Simulations. J Phys Chem A 1997. [DOI: 10.1021/jp971218j] [Citation(s) in RCA: 171] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- A. G. Kalinichev
- Department of Geology, University of Illinois at UrbanaChampaign, 1301 W. Green Street, 245 NHB, Urbana, Illinois 61801
| | - J. D. Bass
- Department of Geology, University of Illinois at UrbanaChampaign, 1301 W. Green Street, 245 NHB, Urbana, Illinois 61801
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Levitt M, Hirshberg M, Sharon R, Laidig KE, Daggett V. Calibration and Testing of a Water Model for Simulation of the Molecular Dynamics of Proteins and Nucleic Acids in Solution. J Phys Chem B 1997. [DOI: 10.1021/jp964020s] [Citation(s) in RCA: 461] [Impact Index Per Article: 16.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Michael Levitt
- Beckman Laboratory for Structural Biology, Department of Structural Biology, Stanford School of Medicine, Stanford, California 94305
| | - Miriam Hirshberg
- Protein Structure Group, National Institute for Medical Research, The Ridgeway, Mill Hill, London NW7 1AA, U.K
| | - Ruth Sharon
- Department of Structural Biology, Weizmann Institute of Science, Rehovot, 7600, Israel
| | - Keith E. Laidig
- Department of Medicinal Chemistry, University of Washington, Seattle, Washington 98195-7610
| | - Valerie Daggett
- Department of Medicinal Chemistry, University of Washington, Seattle, Washington 98195-7610
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18
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Sigon F, Servida A, Galashev AE. Molecular dynamic study of hydrophilicity of the NaCl molecule. J STRUCT CHEM+ 1996. [DOI: 10.1007/bf02591056] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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Bopp PA, Kornyshev AA, Sutmann G. Static nonlocal dielectric function of liquid water. PHYSICAL REVIEW LETTERS 1996; 76:1280-1283. [PMID: 10061681 DOI: 10.1103/physrevlett.76.1280] [Citation(s) in RCA: 103] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/23/2023]
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Duh D, Perera DN, Haymet ADJ. Structure and properties of the CF1 central force model of water: Integral equation theory. J Chem Phys 1995. [DOI: 10.1063/1.468556] [Citation(s) in RCA: 60] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Martí J, Guàrdia E, Padró JA. Dielectric properties and infrared spectra of liquid water: Influence of the dynamic cross correlations. J Chem Phys 1994. [DOI: 10.1063/1.467838] [Citation(s) in RCA: 92] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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22
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Marti J, Padró J, Guàrdia E. Molecular dynamics calculation of the infrared spectra in liquid H2O-D2O mixtures. J Mol Liq 1994. [DOI: 10.1016/0167-7322(94)00769-1] [Citation(s) in RCA: 57] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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Martí J, Padró JA, Guardia E. Computer Simulation of Molecular Motions in Liquids: Infrared Spectra of Water and Heavy Water. MOLECULAR SIMULATION 1993. [DOI: 10.1080/08927029308022517] [Citation(s) in RCA: 27] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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Palmer BJ, Garrett BC. Constant pressure–constant temperature simulations of liquid water and carbon dioxide. J Chem Phys 1993. [DOI: 10.1063/1.465041] [Citation(s) in RCA: 21] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Dinur U, Hagler AT. The role of nonbond and charge flux in hydrogen bond interactions. The effect on structural changes and spectral shifts in water dimer. J Chem Phys 1992. [DOI: 10.1063/1.463342] [Citation(s) in RCA: 22] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
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Trokhymchuk A, Holovko M, Spohr E, Heinzinger K. Combination of computer simulation methods and optimized cluster theory in determining equilibrium properties of electrolyte solutions. Mol Phys 1992. [DOI: 10.1080/00268979200102861] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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Simulation of band widths in liquid water spectra. The breakdown of the frozen-field approximation. Chem Phys Lett 1992. [DOI: 10.1016/0009-2614(92)85916-x] [Citation(s) in RCA: 42] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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Ojamäe L, Hermansson K, Probst M. The OH stretching frequency in liquid water simulations: the classical error. Chem Phys Lett 1992. [DOI: 10.1016/0009-2614(92)85416-8] [Citation(s) in RCA: 35] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Computer Simulations of Aqueous Fluids at High Temperatures and Pressures. ACTA ACUST UNITED AC 1992. [DOI: 10.1007/978-1-4612-2842-4_1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register]
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31
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Hermansson K, Knuts S, Lindgren J. The OH vibrational spectrum of liquid water from combined ab initio and Monte Carlo calculations. J Chem Phys 1991. [DOI: 10.1063/1.461374] [Citation(s) in RCA: 83] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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32
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Molecular dynamics simulations of water with Ewald summation for the long range electrostatic interactions. Chem Phys Lett 1991. [DOI: 10.1016/0009-2614(91)90284-g] [Citation(s) in RCA: 80] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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