51
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Reddy SK, Straight SC, Bajaj P, Huy Pham C, Riera M, Moberg DR, Morales MA, Knight C, Götz AW, Paesani F. On the accuracy of the MB-pol many-body potential for water: Interaction energies, vibrational frequencies, and classical thermodynamic and dynamical properties from clusters to liquid water and ice. J Chem Phys 2016; 145:194504. [DOI: 10.1063/1.4967719] [Citation(s) in RCA: 161] [Impact Index Per Article: 20.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022] Open
Affiliation(s)
- Sandeep K. Reddy
- Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093, USA
| | - Shelby C. Straight
- Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093, USA
| | - Pushp Bajaj
- Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093, USA
| | - C. Huy Pham
- Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093, USA
| | - Marc Riera
- Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093, USA
| | - Daniel R. Moberg
- Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093, USA
| | - Miguel A. Morales
- Lawrence Livermore National Laboratory, 7000 East Avenue, Livermore, California 94550, USA
| | - Chris Knight
- Leadership Computing Facility, Argonne National Laboratory, 9700 South Cass Avenue, Argonne, Illinois 60439, USA
| | - Andreas W. Götz
- San Diego Supercomputer Center, University of California, San Diego, La Jolla, California 92093, USA
| | - Francesco Paesani
- Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093, USA
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52
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Zhang X, Chen S, Li J. Hydrogen-bond potential for ice VIII-X phase transition. Sci Rep 2016; 6:37161. [PMID: 27841335 PMCID: PMC5107924 DOI: 10.1038/srep37161] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2016] [Accepted: 10/25/2016] [Indexed: 12/02/2022] Open
Abstract
Repulsive force between the O-H bonding electrons and the O:H nonbonding pair within hydrogen bond (O-H:O) is an often overlooked interaction which dictates the extraordinary recoverability and sensitivity of water and ice. Here, we present a potential model for this hidden force opposing ice compression of ice VIII-X phase transition based on the density functional theory (DFT) and neutron scattering observations. We consider the H-O bond covalent force, the O:H nonbond dispersion force, and the hidden force to approach equilibrium under compression. Due to the charge polarization within the O:H-O bond, the curvatures of the H-O bond and the O:H nonbond potentials show opposite sign before transition, resulting in the asymmetric relaxation of H-O and O:H (O:H contraction and H-O elongation) and the H+ proton centralization towards phase X. When cross the VIII-X phase boundary, both H-O and O:H contract slightly. The potential model reproduces the VIII-X phase transition as observed in experiment. Development of the potential model may provide a choice for further calculations of water anomalies.
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Affiliation(s)
- Xi Zhang
- Institute of Nanosurface Science and Engineering & Guangdong Provincial Key Laboratory of Micro/Nano Optomechatronics Engineering, Shenzhen University, Guangdong, 518060, China
| | - Shun Chen
- School of Physics and Astronomy, the University of Manchester, Manchester, M13 9PL, UK
| | - Jichen Li
- School of Physics and Astronomy, the University of Manchester, Manchester, M13 9PL, UK
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53
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Liu Y, Ojamäe L. Raman and IR Spectra of Ice Ih and Ice XI with an Assessment of DFT Methods. J Phys Chem B 2016; 120:11043-11051. [PMID: 27690444 DOI: 10.1021/acs.jpcb.6b07001] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
IR and Raman spectroscopic technology can be directly used to identify the occurrence of ferroelectric ice XI in laboratory or extraterrestrial settings. The performance of 16 different DFT methods applied on the ice Ih, VIII, IX, and XI crystal phases is evaluated. Based on a selected DFT computational scheme, the IR and Raman spectra of ice Ih and XI are derived and compared. When the spectra, both IR and Raman, of ice Ih and ice XI are compared, the librational vibrations are found to be the most affected by the proton ordering. The spectroscopic fingerprint of ice XI can be used to distinguish ferroelectric ice XI from ice Ih in the universe. Furthermore, the existence of only one kind of H-bond in ice Ih is demonstrated from the overlapping subspectra for different types of H-bonded pair configurations in 16 isomers of ice Ih, which provides an illustration to the historic debate on whether one or two kinds of H-bonds existed in ice.
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Affiliation(s)
- Yuan Liu
- Department of Chemistry, IFM, Linköping University , SE-581 83 Linköping, Sweden
| | - Lars Ojamäe
- Department of Chemistry, IFM, Linköping University , SE-581 83 Linköping, Sweden
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54
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Pan D, Galli G. The fate of carbon dioxide in water-rich fluids under extreme conditions. SCIENCE ADVANCES 2016; 2:e1601278. [PMID: 27757424 PMCID: PMC5061492 DOI: 10.1126/sciadv.1601278] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/07/2016] [Accepted: 09/02/2016] [Indexed: 06/06/2023]
Abstract
Investigating the fate of dissolved carbon dioxide under extreme conditions is critical to understanding the deep carbon cycle in Earth, a process that ultimately influences global climate change. We used first-principles molecular dynamics simulations to study carbonates and carbon dioxide dissolved in water at pressures (P) and temperatures (T) approximating the conditions of Earth's upper mantle. Contrary to popular geochemical models assuming that molecular CO2(aq) is the major carbon species present in water under deep Earth conditions, we found that at 11 GPa and 1000 K, carbon exists almost entirely in the forms of solvated carbonate ([Formula: see text]) and bicarbonate ([Formula: see text]) ions and that even carbonic acid [H2CO3(aq)] is more abundant than CO2(aq). Furthermore, our simulations revealed that ion pairing between Na+ and [Formula: see text]/[Formula: see text] is greatly affected by P-T conditions, decreasing with increasing pressure at 800 to 1000 K. Our results suggest that in Earth's upper mantle, water-rich geofluids transport a majority of carbon in the form of rapidly interconverting [Formula: see text] and [Formula: see text] ions, not solvated CO2(aq) molecules.
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Affiliation(s)
- Ding Pan
- The Institute for Molecular Engineering, the University of Chicago, Chicago, IL 60637, USA
| | - Giulia Galli
- The Institute for Molecular Engineering, the University of Chicago, Chicago, IL 60637, USA
- Argonne National Laboratory, Argonne, IL 60439, USA
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55
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Paesani F. Getting the Right Answers for the Right Reasons: Toward Predictive Molecular Simulations of Water with Many-Body Potential Energy Functions. Acc Chem Res 2016; 49:1844-51. [PMID: 27548325 DOI: 10.1021/acs.accounts.6b00285] [Citation(s) in RCA: 100] [Impact Index Per Article: 12.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
The central role played by water in fundamental processes relevant to different disciplines, including chemistry, physics, biology, materials science, geology, and climate research, cannot be overemphasized. It is thus not surprising that, since the pioneering work by Stillinger and Rahman, many theoretical and computational studies have attempted to develop a microscopic description of the unique properties of water under different thermodynamic conditions. Consequently, numerous molecular models based on either molecular mechanics or ab initio approaches have been proposed over the years. However, despite continued progress, the correct prediction of the properties of water from small gas-phase clusters to the liquid phase and ice through a single molecular model remains challenging. To large extent, this is due to the difficulties encountered in the accurate modeling of the underlying hydrogen-bond network in which both number and strength of the hydrogen bonds vary continuously as a result of a subtle interplay between energetic, entropic, and nuclear quantum effects. In the past decade, the development of efficient algorithms for correlated electronic structure calculations of small molecular complexes, accompanied by tremendous progress in the analytical representation of multidimensional potential energy surfaces, opened the doors to the design of highly accurate potential energy functions built upon rigorous representations of the many-body expansion (MBE) of the interaction energies. This Account provides a critical overview of the performance of the MB-pol many-body potential energy function through a systematic analysis of energetic, structural, thermodynamic, and dynamical properties as well as of vibrational spectra of water from the gas to the condensed phase. It is shown that MB-pol achieves unprecedented accuracy across all phases of water through a quantitative description of each individual term of the MBE, with a physically correct representation of both short- and long-range many-body contributions. Comparisons with experimental data probing different regions of the water potential energy surface from clusters to bulk demonstrate that MB-pol represents a major step toward the long-sought-after "universal model" capable of accurately describing the molecular properties of water under different conditions and in different environments. Along this path, future challenges include the extension of the many-body scheme adopted by MB-pol to the description of generic solutes as well as the integration of MB-pol in an efficient theoretical and computational framework to model acid-base reactions in aqueous environments. In this context, given the nontraditional form of the MB-pol energy and force expressions, synergistic efforts by theoretical/computational chemists/physicists and computer scientists will be critical for the development of high-performance software for many-body molecular dynamics simulations.
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Affiliation(s)
- Francesco Paesani
- Department of Chemistry and
Biochemistry, University of California—San Diego, La Jolla, California 92093, United States
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56
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Klimeš J. Lattice energies of molecular solids from the random phase approximation with singles corrections. J Chem Phys 2016; 145:094506. [DOI: 10.1063/1.4962188] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Jiří Klimeš
- J. Heyrovský Institute of Physical Chemistry, Academy of Sciences of the Czech Republic, Dolejškova 3, CZ-18223 Prague 8, Czech Republic and Department of Chemical Physics and Optics, Faculty of Mathematics and Physics, Charles University, Ke Karlovu 3, CZ-12116 Prague 2, Czech Republic
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57
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Abstract
Whereas the interactions between water molecules are dominated by strongly directional hydrogen bonds (HBs), it was recently proposed that relatively weak, isotropic van der Waals (vdW) forces are essential for understanding the properties of liquid water and ice. This insight was derived from ab initio computer simulations, which provide an unbiased description of water at the atomic level and yield information on the underlying molecular forces. However, the high computational cost of such simulations prevents the systematic investigation of the influence of vdW forces on the thermodynamic anomalies of water. Here, we develop efficient ab initio-quality neural network potentials and use them to demonstrate that vdW interactions are crucial for the formation of water's density maximum and its negative volume of melting. Both phenomena can be explained by the flexibility of the HB network, which is the result of a delicate balance of weak vdW forces, causing, e.g., a pronounced expansion of the second solvation shell upon cooling that induces the density maximum.
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58
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Otero-de-la-Roza A, DiLabio GA, Johnson ER. Exchange–Correlation Effects for Noncovalent Interactions in Density Functional Theory. J Chem Theory Comput 2016; 12:3160-75. [DOI: 10.1021/acs.jctc.6b00298] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- A. Otero-de-la-Roza
- National Institute for Nanotechnology, National Research Council of Canada, 11421 Saskatchewan Drive, Edmonton, Alberta T6G 2M9, Canada
- Department
of Chemistry, University of British Columbia, Okanagan, 3247 University Way, Kelowna, British Columbia V1V 1V7, Canada
| | - Gino A. DiLabio
- National Institute for Nanotechnology, National Research Council of Canada, 11421 Saskatchewan Drive, Edmonton, Alberta T6G 2M9, Canada
- Department
of Chemistry, University of British Columbia, Okanagan, 3247 University Way, Kelowna, British Columbia V1V 1V7, Canada
| | - Erin R. Johnson
- Department
of Chemistry, Dalhousie University, 6274 Coburg Road, Halifax, Nova Scotia B3H 4R2, Canada
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59
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Sun J, Remsing RC, Zhang Y, Sun Z, Ruzsinszky A, Peng H, Yang Z, Paul A, Waghmare U, Wu X, Klein ML, Perdew JP. Accurate first-principles structures and energies of diversely bonded systems from an efficient density functional. Nat Chem 2016; 8:831-6. [DOI: 10.1038/nchem.2535] [Citation(s) in RCA: 538] [Impact Index Per Article: 67.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2015] [Accepted: 04/26/2016] [Indexed: 11/09/2022]
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60
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61
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DiLabio GA, Otero-de-la-Roza A. Noncovalent Interactions in Density Functional Theory. REVIEWS IN COMPUTATIONAL CHEMISTRY 2016. [DOI: 10.1002/9781119148739.ch1] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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62
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Affiliation(s)
- Matúš Dubecký
- Regional
Centre of Advanced Technologies and Materials, Department of Physical
Chemistry, Faculty of Science, Palacký University Olomouc, tř.
17 listopadu 12, 771 46 Olomouc, Czech Republic
| | - Lubos Mitas
- Department
of Physics and CHiPS, North Carolina State University, Raleigh, North Carolina 27695, United States
| | - Petr Jurečka
- Regional
Centre of Advanced Technologies and Materials, Department of Physical
Chemistry, Faculty of Science, Palacký University Olomouc, tř.
17 listopadu 12, 771 46 Olomouc, Czech Republic
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63
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Gillan MJ, Alfè D, Michaelides A. Perspective: How good is DFT for water? J Chem Phys 2016; 144:130901. [DOI: 10.1063/1.4944633] [Citation(s) in RCA: 478] [Impact Index Per Article: 59.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
Affiliation(s)
- Michael J. Gillan
- London Centre for Nanotechnology, Gordon St., London WC1H 0AH, United Kingdom
- Thomas Young Centre, University College London, London WC1H 0AH, United Kingdom
- Department of Physics and Astronomy, University College London, London WC1E 6BT, United Kingdom
| | - Dario Alfè
- London Centre for Nanotechnology, Gordon St., London WC1H 0AH, United Kingdom
- Thomas Young Centre, University College London, London WC1H 0AH, United Kingdom
- Department of Physics and Astronomy, University College London, London WC1E 6BT, United Kingdom
- Department of Earth Sciences, University College London, London WC1E 6BT, United Kingdom
| | - Angelos Michaelides
- London Centre for Nanotechnology, Gordon St., London WC1H 0AH, United Kingdom
- Thomas Young Centre, University College London, London WC1H 0AH, United Kingdom
- Department of Physics and Astronomy, University College London, London WC1E 6BT, United Kingdom
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64
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Abstract
Interest in molecular crystals has grown thanks to their relevance to pharmaceuticals, organic semiconductor materials, foods, and many other applications. Electronic structure methods have become an increasingly important tool for modeling molecular crystals and polymorphism. This article reviews electronic structure techniques used to model molecular crystals, including periodic density functional theory, periodic second-order Møller-Plesset perturbation theory, fragment-based electronic structure methods, and diffusion Monte Carlo. It also discusses the use of these models for predicting a variety of crystal properties that are relevant to the study of polymorphism, including lattice energies, structures, crystal structure prediction, polymorphism, phase diagrams, vibrational spectroscopies, and nuclear magnetic resonance spectroscopy. Finally, tools for analyzing crystal structures and intermolecular interactions are briefly discussed.
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Affiliation(s)
- Gregory J O Beran
- Department of Chemistry, University of California , Riverside, California 92521, United States
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65
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Liriano ML, Carrasco J, Lewis EA, Murphy CJ, Lawton TJ, Marcinkowski MD, Therrien AJ, Michaelides A, Sykes ECH. The interplay of covalency, hydrogen bonding, and dispersion leads to a long range chiral network: The example of 2-butanol. J Chem Phys 2016; 144:094703. [DOI: 10.1063/1.4941560] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Melissa L. Liriano
- Department of Chemistry, Tufts University, Medford, Massachusetts 02155, USA
| | - Javier Carrasco
- CIC Energigune, Albert Einstein 48, 01510 Miñano, Álava, Spain
| | - Emily A. Lewis
- Department of Chemistry, Tufts University, Medford, Massachusetts 02155, USA
| | - Colin J. Murphy
- Department of Chemistry, Tufts University, Medford, Massachusetts 02155, USA
| | - Timothy J. Lawton
- Department of Chemistry, Tufts University, Medford, Massachusetts 02155, USA
| | | | - Andrew J. Therrien
- Department of Chemistry, Tufts University, Medford, Massachusetts 02155, USA
| | - Angelos Michaelides
- Thomas Young Centre, London Centre for Nanotechnology and Department of Physics and Astronomy, University College London, London WC1E 6BT, United Kingdom
| | - E. Charles H. Sykes
- Department of Chemistry, Tufts University, Medford, Massachusetts 02155, USA
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66
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Brandenburg JG, Maas T, Grimme S. Benchmarking DFT and semiempirical methods on structures and lattice energies for ten ice polymorphs. J Chem Phys 2016; 142:124104. [PMID: 25833562 DOI: 10.1063/1.4916070] [Citation(s) in RCA: 71] [Impact Index Per Article: 8.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Water in different phases under various external conditions is very important in bio-chemical systems and for material science at surfaces. Density functional theory methods and approximations thereof have to be tested system specifically to benchmark their accuracy regarding computed structures and interaction energies. In this study, we present and test a set of ten ice polymorphs in comparison to experimental data with mass densities ranging from 0.9 to 1.5 g/cm(3) and including explicit corrections for zero-point vibrational and thermal effects. London dispersion inclusive density functionals at the generalized gradient approximation (GGA), meta-GGA, and hybrid level as well as alternative low-cost molecular orbital methods are considered. The widely used functional of Perdew, Burke and Ernzerhof (PBE) systematically overbinds and overall provides inconsistent results. All other tested methods yield reasonable to very good accuracy. BLYP-D3(atm) gives excellent results with mean absolute errors for the lattice energy below 1 kcal/mol (7% relative deviation). The corresponding optimized structures are very accurate with mean absolute relative deviations (MARDs) from the reference unit cell volume below 1%. The impact of Axilrod-Teller-Muto (atm) type three-body dispersion and of non-local Fock exchange is small but on average their inclusion improves the results. While the density functional tight-binding model DFTB3-D3 performs well for low density phases, it does not yield good high density structures. As low-cost alternative for structure related problems, we recommend the recently introduced minimal basis Hartree-Fock method HF-3c with a MARD of about 3%.
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Affiliation(s)
- Jan Gerit Brandenburg
- Mulliken Center for Theoretical Chemistry, Institut für Physikalische und Theoretische Chemie, Rheinische Friedrich-Wilhelms Universität Bonn, Beringstraße 4, 53115 Bonn, Germany
| | - Tilo Maas
- Mulliken Center for Theoretical Chemistry, Institut für Physikalische und Theoretische Chemie, Rheinische Friedrich-Wilhelms Universität Bonn, Beringstraße 4, 53115 Bonn, Germany
| | - Stefan Grimme
- Mulliken Center for Theoretical Chemistry, Institut für Physikalische und Theoretische Chemie, Rheinische Friedrich-Wilhelms Universität Bonn, Beringstraße 4, 53115 Bonn, Germany
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67
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Chen J, Schusteritsch G, Pickard CJ, Salzmann CG, Michaelides A. Two Dimensional Ice from First Principles: Structures and Phase Transitions. PHYSICAL REVIEW LETTERS 2016; 116:025501. [PMID: 26824547 DOI: 10.1103/physrevlett.116.025501] [Citation(s) in RCA: 92] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/18/2015] [Indexed: 06/05/2023]
Abstract
Despite relevance to disparate areas such as cloud microphysics and tribology, major gaps in the understanding of the structures and phase transitions of low-dimensional water ice remain. Here, we report a first principles study of confined 2D ice as a function of pressure. We find that at ambient pressure hexagonal and pentagonal monolayer structures are the two lowest enthalpy phases identified. Upon mild compression, the pentagonal structure becomes the most stable and persists up to ∼2 GPa, at which point the square and rhombic phases are stable. The square phase agrees with recent experimental observations of square ice confined within graphene sheets. This work provides a fresh perspective on 2D confined ice, highlighting the sensitivity of the structures observed to both the confining pressure and the width.
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Affiliation(s)
- Ji Chen
- London Centre for Nanotechnology, 17-19 Gordon Street, London WC1H 0AH, United Kingdom
- Thomas Young Centre, University College London, 20 Gordon Street, London WC1H 0AJ, United Kingdom
| | - Georg Schusteritsch
- Thomas Young Centre, University College London, 20 Gordon Street, London WC1H 0AJ, United Kingdom
- Department of Physics and Astronomy, University College London, Gower Street, London WC1E 6BT, United Kingdom
- Department of Materials Science and Metallurgy, University of Cambridge, 27 Charles Babbage Road, Cambridge CB3 0FS, United Kingdom
| | - Chris J Pickard
- Thomas Young Centre, University College London, 20 Gordon Street, London WC1H 0AJ, United Kingdom
- Department of Physics and Astronomy, University College London, Gower Street, London WC1E 6BT, United Kingdom
- Department of Materials Science and Metallurgy, University of Cambridge, 27 Charles Babbage Road, Cambridge CB3 0FS, United Kingdom
| | - Christoph G Salzmann
- Department of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, United Kingdom
| | - Angelos Michaelides
- London Centre for Nanotechnology, 17-19 Gordon Street, London WC1H 0AH, United Kingdom
- Thomas Young Centre, University College London, 20 Gordon Street, London WC1H 0AJ, United Kingdom
- Department of Physics and Astronomy, University College London, Gower Street, London WC1E 6BT, United Kingdom
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68
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Gillan MJ, Alfè D, Manby FR. Energy benchmarks for methane-water systems from quantum Monte Carlo and second-order Møller-Plesset calculations. J Chem Phys 2015; 143:102812. [PMID: 26374005 DOI: 10.1063/1.4926444] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The quantum Monte Carlo (QMC) technique is used to generate accurate energy benchmarks for methane-water clusters containing a single methane monomer and up to 20 water monomers. The benchmarks for each type of cluster are computed for a set of geometries drawn from molecular dynamics simulations. The accuracy of QMC is expected to be comparable with that of coupled-cluster calculations, and this is confirmed by comparisons for the CH4-H2O dimer. The benchmarks are used to assess the accuracy of the second-order Møller-Plesset (MP2) approximation close to the complete basis-set limit. A recently developed embedded many-body technique is shown to give an efficient procedure for computing basis-set converged MP2 energies for the large clusters. It is found that MP2 values for the methane binding energies and the cohesive energies of the water clusters without methane are in close agreement with the QMC benchmarks, but the agreement is aided by partial cancelation between 2-body and beyond-2-body errors of MP2. The embedding approach allows MP2 to be applied without loss of accuracy to the methane hydrate crystal, and it is shown that the resulting methane binding energy and the cohesive energy of the water lattice agree almost exactly with recently reported QMC values.
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Affiliation(s)
- M J Gillan
- London Centre for Nanotechnology, University College London, Gordon St., London WC1H 0AH, United Kingdom
| | - D Alfè
- London Centre for Nanotechnology, University College London, Gordon St., London WC1H 0AH, United Kingdom
| | - F R Manby
- Centre for Computational Chemistry, School of Chemistry, University of Bristol, Bristol BS8 1TS, United Kingdom
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69
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Klimeš J, Kaltak M, Maggio E, Kresse G. Singles correlation energy contributions in solids. J Chem Phys 2015; 143:102816. [PMID: 26374009 DOI: 10.1063/1.4929346] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The random phase approximation to the correlation energy often yields highly accurate results for condensed matter systems. However, ways how to improve its accuracy are being sought and here we explore the relevance of singles contributions for prototypical solid state systems. We set out with a derivation of the random phase approximation using the adiabatic connection and fluctuation dissipation theorem, but contrary to the most commonly used derivation, the density is allowed to vary along the coupling constant integral. This yields results closely paralleling standard perturbation theory. We re-derive the standard singles of Görling-Levy perturbation theory [A. Görling and M. Levy, Phys. Rev. A 50, 196 (1994)], highlight the analogy of our expression to the renormalized singles introduced by Ren and coworkers [Phys. Rev. Lett. 106, 153003 (2011)], and introduce a new approximation for the singles using the density matrix in the random phase approximation. We discuss the physical relevance and importance of singles alongside illustrative examples of simple weakly bonded systems, including rare gas solids (Ne, Ar, Xe), ice, adsorption of water on NaCl, and solid benzene. The effect of singles on covalently and metallically bonded systems is also discussed.
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Affiliation(s)
- Jiří Klimeš
- Department of Chemical Physics and Optics, Faculty of Mathematics and Physics, Charles University, Ke Karlovu 3, CZ-12116 Prague 2, Czech Republic
| | - Merzuk Kaltak
- Faculty of Physics and Center for Computational Materials Science, University of Vienna, Sensengasse 8/12, A-1090 Vienna, Austria
| | - Emanuele Maggio
- Faculty of Physics and Center for Computational Materials Science, University of Vienna, Sensengasse 8/12, A-1090 Vienna, Austria
| | - Georg Kresse
- Faculty of Physics and Center for Computational Materials Science, University of Vienna, Sensengasse 8/12, A-1090 Vienna, Austria
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70
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Reimers JR, Ford MJ, Goerigk L. Problems, successes and challenges for the application of dispersion-corrected density-functional theory combined with dispersion-based implicit solvent models to large-scale hydrophobic self-assembly and polymorphism. MOLECULAR SIMULATION 2015. [DOI: 10.1080/08927022.2015.1066504] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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71
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Al-Hamdani YS, Alfè D, von Lilienfeld OA, Michaelides A. Water on BN doped benzene: a hard test for exchange-correlation functionals and the impact of exact exchange on weak binding. J Chem Phys 2015; 141:18C530. [PMID: 25399195 DOI: 10.1063/1.4898356] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023] Open
Abstract
Density functional theory (DFT) studies of weakly interacting complexes have recently focused on the importance of van der Waals dispersion forces, whereas the role of exchange has received far less attention. Here, by exploiting the subtle binding between water and a boron and nitrogen doped benzene derivative (1,2-azaborine) we show how exact exchange can alter the binding conformation within a complex. Benchmark values have been calculated for three orientations of the water monomer on 1,2-azaborine from explicitly correlated quantum chemical methods, and we have also used diffusion quantum Monte Carlo. For a host of popular DFT exchange-correlation functionals we show that the lack of exact exchange leads to the wrong lowest energy orientation of water on 1,2-azaborine. As such, we suggest that a high proportion of exact exchange and the associated improvement in the electronic structure could be needed for the accurate prediction of physisorption sites on doped surfaces and in complex organic molecules. Meanwhile to predict correct absolute interaction energies an accurate description of exchange needs to be augmented by dispersion inclusive functionals, and certain non-local van der Waals functionals (optB88- and optB86b-vdW) perform very well for absolute interaction energies. Through a comparison with water on benzene and borazine (B3N3H6) we show that these results could have implications for the interaction of water with doped graphene surfaces, and suggest a possible way of tuning the interaction energy.
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Affiliation(s)
- Yasmine S Al-Hamdani
- Thomas Young Centre and London Centre for Nanotechnology, 17-19 Gordon Street, London WC1H 0AH, United Kingdom
| | - Dario Alfè
- Thomas Young Centre and London Centre for Nanotechnology, 17-19 Gordon Street, London WC1H 0AH, United Kingdom
| | - O Anatole von Lilienfeld
- Institute of Physical Chemistry, Department of Chemistry, University of Basel, Klingelbergstrasse 80, CH-4056 Basel, Switzerland
| | - Angelos Michaelides
- Thomas Young Centre and London Centre for Nanotechnology, 17-19 Gordon Street, London WC1H 0AH, United Kingdom
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72
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Teeratchanan P, Hermann A. Computational phase diagrams of noble gas hydrates under pressure. J Chem Phys 2015; 143:154507. [DOI: 10.1063/1.4933371] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Pattanasak Teeratchanan
- Centre for Science at Extreme Conditions and SUPA, School of Physics and Astronomy, The University of Edinburgh, Edinburgh EH9 3FD, United Kingdom
| | - Andreas Hermann
- Centre for Science at Extreme Conditions and SUPA, School of Physics and Astronomy, The University of Edinburgh, Edinburgh EH9 3FD, United Kingdom
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73
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Zhang X, Sun P, Yan T, Huang Y, Ma Z, Zou B, Zheng W, Zhou J, Gong Y, Sun CQ. Water's phase diagram: From the notion of thermodynamics to hydrogen-bond cooperativity. PROG SOLID STATE CH 2015. [DOI: 10.1016/j.progsolidstchem.2015.03.001] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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74
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Bankura A, Santra B, DiStasio RA, Swartz CW, Klein ML, Wu X. A systematic study of chloride ion solvation in water using van der Waals inclusive hybrid density functional theory. Mol Phys 2015. [DOI: 10.1080/00268976.2015.1059959] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Affiliation(s)
- Arindam Bankura
- Institute for Computational Molecular Science and Department of Chemistry, Temple University , Philadelphia, PA, USA
| | - Biswajit Santra
- Department of Chemistry, Princeton University , Princeton, NJ, USA
| | | | - Charles W. Swartz
- Institute for Computational Molecular Science and Department of Chemistry, Temple University , Philadelphia, PA, USA
| | - Michael L. Klein
- Institute for Computational Molecular Science and Department of Chemistry, Temple University , Philadelphia, PA, USA
| | - Xifan Wu
- Department of Physics, Temple University , Philadelphia, PA, USA
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75
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Affiliation(s)
- Biswajit Santra
- Department of Chemistry, Princeton University , Princeton, NJ, USA
| | | | - Fausto Martelli
- Department of Chemistry, Princeton University , Princeton, NJ, USA
| | - Roberto Car
- Department of Chemistry, Princeton University , Princeton, NJ, USA
- Department of Physics, Princeton University , Princeton, NJ, USA
- Princeton Institute for the Science and Technology of Materials, Princeton University , Princeton, NJ, USA
- Program in Applied and Computational Mathematics, Princeton University , Princeton, NJ, USA
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76
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Quigley D, Alfè D, Slater B. Communication: On the stability of ice 0, ice i, and I(h). J Chem Phys 2015; 141:161102. [PMID: 25362263 DOI: 10.1063/1.4900772] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022] Open
Abstract
Using ab initio methods, we examine the stability of ice 0, a recently proposed tetragonal form of ice implicated in the homogeneous freezing of water [J. Russo, F. Romano, and H. Tanaka, Nat. Mater. 13, 670 (2014)]. Vibrational frequencies are computed across the complete Brillouin Zone using Density Functional Theory (DFT), to confirm mechanical stability and quantify the free energy of ice 0 relative to ice I(h). The robustness of this result is tested via dispersion corrected semi-local and hybrid DFT, and Quantum Monte-Carlo calculation of lattice energies. Results indicate that popular molecular models only slightly overestimate the stability of ice zero. In addition, we study all possible realisations of proton disorder within the ice zero unit cell, and identify the ground state as ferroelectric. Comparisons are made to other low density metastable forms of ice, suggesting that the ice i structure [C. J. Fennel and J. D. Gezelter, J. Chem. Theory Comput. 1, 662 (2005)] may be equally relevant to ice formation.
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Affiliation(s)
- D Quigley
- Department of Physics and Centre for Scientific Computing, University of Warwick, Coventry CV4 7AL, United Kingdom
| | - D Alfè
- Department of Earth Sciences and Department of Physics and Astronomy, University College London, Gower Street, London WC1E 6BT, United Kingdom
| | - B Slater
- Department of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, United Kingdom
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77
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Sellberg JA, Kaya S, Segtnan VH, Chen C, Tyliszczak T, Ogasawara H, Nordlund D, Pettersson LGM, Nilsson A. Comparison of x-ray absorption spectra between water and ice: new ice data with low pre-edge absorption cross-section. J Chem Phys 2015; 141:034507. [PMID: 25053326 DOI: 10.1063/1.4890035] [Citation(s) in RCA: 56] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022] Open
Abstract
The effect of crystal growth conditions on the O K-edge x-ray absorption spectra of ice is investigated through detailed analysis of the spectral features. The amount of ice defects is found to be minimized on hydrophobic surfaces, such as BaF2(111), with low concentration of nucleation centers. This is manifested through a reduction of the absorption cross-section at 535 eV, which is associated with distorted hydrogen bonds. Furthermore, a connection is made between the observed increase in spectral intensity between 544 and 548 eV and high-symmetry points in the electronic band structure, suggesting a more extended hydrogen-bond network as compared to ices prepared differently. The spectral differences for various ice preparations are compared to the temperature dependence of spectra of liquid water upon supercooling. A double-peak feature in the absorption cross-section between 540 and 543 eV is identified as a characteristic of the crystalline phase. The connection to the interpretation of the liquid phase O K-edge x-ray absorption spectrum is extensively discussed.
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Affiliation(s)
- Jonas A Sellberg
- Department of Physics, AlbaNova University Center, Stockholm University, S-106 91 Stockholm, Sweden
| | - Sarp Kaya
- SUNCAT Center for Interface Science and Catalysis, SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, California 94025, USA
| | - Vegard H Segtnan
- SUNCAT Center for Interface Science and Catalysis, SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, California 94025, USA
| | - Chen Chen
- SUNCAT Center for Interface Science and Catalysis, SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, California 94025, USA
| | - Tolek Tyliszczak
- Advanced Light Source, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
| | - Hirohito Ogasawara
- Stanford Synchrotron Radiation Lightsource, SLAC National Accelerator Laboratory, P.O. Box 20450, Stanford, California 94309, USA
| | - Dennis Nordlund
- Stanford Synchrotron Radiation Lightsource, SLAC National Accelerator Laboratory, P.O. Box 20450, Stanford, California 94309, USA
| | - Lars G M Pettersson
- Department of Physics, AlbaNova University Center, Stockholm University, S-106 91 Stockholm, Sweden
| | - Anders Nilsson
- Department of Physics, AlbaNova University Center, Stockholm University, S-106 91 Stockholm, Sweden
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78
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Chen J, Ren X, Li XZ, Alfè D, Wang E. On the room-temperature phase diagram of high pressure hydrogen: an ab initio molecular dynamics perspective and a diffusion Monte Carlo study. J Chem Phys 2015; 141:024501. [PMID: 25028021 DOI: 10.1063/1.4886075] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The finite-temperature phase diagram of hydrogen in the region of phase IV and its neighborhood was studied using the ab initio molecular dynamics (MD) and the ab initio path-integral molecular dynamics (PIMD). The electronic structures were analyzed using the density-functional theory (DFT), the random-phase approximation, and the diffusion Monte Carlo (DMC) methods. Taking the state-of-the-art DMC results as benchmark, comparisons of the energy differences between structures generated from the MD and PIMD simulations, with molecular and dissociated hydrogens, respectively, in the weak molecular layers of phase IV, indicate that standard functionals in DFT tend to underestimate the dissociation barrier of the weak molecular layers in this mixed phase. Because of this underestimation, inclusion of the quantum nuclear effects (QNEs) in PIMD using electronic structures generated with these functionals leads to artificially dissociated hydrogen layers in phase IV and an error compensation between the neglect of QNEs and the deficiencies of these functionals in standard ab initio MD simulations exists. This analysis partly rationalizes why earlier ab initio MD simulations complement so well the experimental observations. The temperature and pressure dependencies for the stability of phase IV were also studied in the end and compared with earlier results.
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Affiliation(s)
- Ji Chen
- International Center for Quantum Materials, Peking University, Beijing 100871, People's Republic of China
| | - Xinguo Ren
- Key Laboratory of Quantum Information, University of Science and Technology of China, Hefei 230026, Anhui, People's Republic of China
| | - Xin-Zheng Li
- School of Physics, Peking University, Beijing 100871, People's Republic of China
| | - Dario Alfè
- London Centre for Nanotechnology, University College London, London WC1H 0AH, United Kingdom
| | - Enge Wang
- International Center for Quantum Materials, Peking University, Beijing 100871, People's Republic of China
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79
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DiStasio RA, Santra B, Li Z, Wu X, Car R. The individual and collective effects of exact exchange and dispersion interactions on the ab initio structure of liquid water. J Chem Phys 2015; 141:084502. [PMID: 25173016 DOI: 10.1063/1.4893377] [Citation(s) in RCA: 183] [Impact Index Per Article: 20.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
In this work, we report the results of a series of density functional theory (DFT) based ab initio molecular dynamics (AIMD) simulations of ambient liquid water using a hierarchy of exchange-correlation (XC) functionals to investigate the individual and collective effects of exact exchange (Exx), via the PBE0 hybrid functional, non-local van der Waals/dispersion (vdW) interactions, via a fully self-consistent density-dependent dispersion correction, and an approximate treatment of nuclear quantum effects, via a 30 K increase in the simulation temperature, on the microscopic structure of liquid water. Based on these AIMD simulations, we found that the collective inclusion of Exx and vdW as resulting from a large-scale AIMD simulation of (H2O)128 significantly softens the structure of ambient liquid water and yields an oxygen-oxygen structure factor, SOO(Q), and corresponding oxygen-oxygen radial distribution function, gOO(r), that are now in quantitative agreement with the best available experimental data. This level of agreement between simulation and experiment demonstrated herein originates from an increase in the relative population of water molecules in the interstitial region between the first and second coordination shells, a collective reorganization in the liquid phase which is facilitated by a weakening of the hydrogen bond strength by the use of a hybrid XC functional, coupled with a relative stabilization of the resultant disordered liquid water configurations by the inclusion of non-local vdW/dispersion interactions. This increasingly more accurate description of the underlying hydrogen bond network in liquid water also yields higher-order correlation functions, such as the oxygen-oxygen-oxygen triplet angular distribution, POOO(θ), and therefore the degree of local tetrahedrality, as well as electrostatic properties, such as the effective molecular dipole moment, that are in much better agreement with experiment.
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Affiliation(s)
- Robert A DiStasio
- Department of Chemistry, Princeton University, Princeton, New Jersey 08544, USA
| | - Biswajit Santra
- Department of Chemistry, Princeton University, Princeton, New Jersey 08544, USA
| | - Zhaofeng Li
- Department of Physics, Princeton University, Princeton, New Jersey 08544, USA
| | - Xifan Wu
- Department of Physics, Temple University, Philadelphia, Pennsylvania 19122, USA
| | - Roberto Car
- Department of Chemistry, Princeton University, Princeton, New Jersey 08544, USA
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80
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Tao J, Yang J, Rappe AM. Dynamical screening of van der Waals interactions in nanostructured solids: Sublimation of fullerenes. J Chem Phys 2015; 142:164302. [DOI: 10.1063/1.4918761] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022] Open
Affiliation(s)
- Jianmin Tao
- Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6323, USA
| | - Jing Yang
- Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6323, USA
| | - Andrew M. Rappe
- Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6323, USA
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81
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Cox SJ, Towler MD, Alfè D, Michaelides A. Benchmarking the performance of density functional theory and point charge force fields in their description of sI methane hydrate against diffusion Monte Carlo. J Chem Phys 2015; 140:174703. [PMID: 24811651 DOI: 10.1063/1.4871873] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open
Abstract
High quality reference data from diffusion Monte Carlo calculations are presented for bulk sI methane hydrate, a complex crystal exhibiting both hydrogen-bond and dispersion dominated interactions. The performance of some commonly used exchange-correlation functionals and all-atom point charge force fields is evaluated. Our results show that none of the exchange-correlation functionals tested are sufficient to describe both the energetics and the structure of methane hydrate accurately, while the point charge force fields perform badly in their description of the cohesive energy but fair well for the dissociation energetics. By comparing to ice Ih, we show that a good prediction of the volume and cohesive energies for the hydrate relies primarily on an accurate description of the hydrogen bonded water framework, but that to correctly predict stability of the hydrate with respect to dissociation to ice Ih and methane gas, accuracy in the water-methane interaction is also required. Our results highlight the difficulty that density functional theory faces in describing both the hydrogen bonded water framework and the dispersion bound methane.
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Affiliation(s)
- Stephen J Cox
- Thomas Young Centre and London Centre for Nanotechnology, 17-19 Gordon Street, London WC1H 0AH, United Kingdom
| | - Michael D Towler
- Department of Earth Sciences, University College London Gower Street, London WC1E 6BT, United Kingdom
| | - Dario Alfè
- Thomas Young Centre and London Centre for Nanotechnology, 17-19 Gordon Street, London WC1H 0AH, United Kingdom
| | - Angelos Michaelides
- Thomas Young Centre and London Centre for Nanotechnology, 17-19 Gordon Street, London WC1H 0AH, United Kingdom
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82
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McMinis J, Clay RC, Lee D, Morales MA. Molecular to atomic phase transition in hydrogen under high pressure. PHYSICAL REVIEW LETTERS 2015; 114:105305. [PMID: 25815944 DOI: 10.1103/physrevlett.114.105305] [Citation(s) in RCA: 54] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/05/2014] [Indexed: 06/04/2023]
Abstract
The metallization of high-pressure hydrogen, together with the associated molecular to atomic transition, is one of the most important problems in the field of high-pressure physics. It is also currently a matter of intense debate due to the existence of conflicting experimental reports on the observation of metallic hydrogen on a diamond-anvil cell. Theoretical calculations have typically relied on a mean-field description of electronic correlation through density functional theory, a theory with well-known limitations in the description of metal-insulator transitions. In fact, the predictions of the pressure-driven dissociation of molecules in high-pressure hydrogen by density functional theory is strongly affected by the chosen exchange-correlation functional. In this Letter, we use quantum Monte Carlo calculations to study the molecular to atomic transition in hydrogen. We obtain a transition pressure of 447(3) GPa, in excellent agreement with the best experimental estimate of the transition 450 GPa based on an extrapolation to zero band gap from experimental measurements. Additionally, we find that C2/c is stable almost up to the molecular to atomic transition, in contrast to previous density functional theory (DFT) and DFT+quantum Monte Carlo studies which predict large stability regimes for intermediary molecular phases.
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Affiliation(s)
- Jeremy McMinis
- Lawrence Livermore National Laboratory, Livermore, California 94550, USA
| | - Raymond C Clay
- Lawrence Livermore National Laboratory, Livermore, California 94550, USA
- University of Illinois, Urbana, Illinois 61821, USA
| | - Donghwa Lee
- Lawrence Livermore National Laboratory, Livermore, California 94550, USA
| | - Miguel A Morales
- Lawrence Livermore National Laboratory, Livermore, California 94550, USA
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83
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Hongo K, Watson MA, Iitaka T, Aspuru-Guzik A, Maezono R. Diffusion Monte Carlo Study of Para-Diiodobenzene Polymorphism Revisited. J Chem Theory Comput 2015; 11:907-17. [DOI: 10.1021/ct500401p] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Affiliation(s)
- Kenta Hongo
- School
of Information Science, JAIST, Asahidai 1-1, Nomi, Ishikawa 923-1292, Japan
| | - Mark A. Watson
- Department
of Chemistry, Princeton University, Princeton, New Jersey 08540, United States
| | - Toshiaki Iitaka
- Computational
Astrophysics Laboratory, RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
| | - Alán Aspuru-Guzik
- Department
of Chemistry and Chemical Biology, Harvard University, Cambridge, Massachusetts 02138, United States
| | - Ryo Maezono
- School
of Information Science, JAIST, Asahidai 1-1, Nomi, Ishikawa 923-1292, Japan
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84
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Cassone G, Giaquinta PV, Saija F, Saitta AM. Liquid methanol under a static electric field. J Chem Phys 2015; 142:054502. [DOI: 10.1063/1.4907010] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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85
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86
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White MA, Cerqueira AB, Whitman CA, Johnson MB, Ogitsu T. Determination of Phase Stability of Elemental Boron. Angew Chem Int Ed Engl 2015; 54:3626-9. [DOI: 10.1002/anie.201409169] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2014] [Revised: 10/29/2014] [Indexed: 11/08/2022]
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87
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White MA, Cerqueira AB, Whitman CA, Johnson MB, Ogitsu T. Determination of Phase Stability of Elemental Boron. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201409169] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Mary Anne White
- Department of Chemistry and Institute for Research in Materials, Dalhousie University, Halifax, Nova Scotia B3H 4R2 (Canada)
| | - Anthony B. Cerqueira
- Department of Chemistry and Institute for Research in Materials, Dalhousie University, Halifax, Nova Scotia B3H 4R2 (Canada)
| | - Catherine A. Whitman
- Department of Chemistry and Institute for Research in Materials, Dalhousie University, Halifax, Nova Scotia B3H 4R2 (Canada)
| | - Michel B. Johnson
- Department of Chemistry and Institute for Research in Materials, Dalhousie University, Halifax, Nova Scotia B3H 4R2 (Canada)
| | - Tadashi Ogitsu
- Condensed Matter and Materials Division, Lawrence Livermore National Laboratory, Livermore, CA 94550 (USA)
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88
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Tao J, Fang Y, Hao P, Scuseria GE, Ruzsinszky A, Perdew JP. Van der Waals coefficients beyond the classical shell model. J Chem Phys 2015; 142:024312. [DOI: 10.1063/1.4905259] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Affiliation(s)
- Jianmin Tao
- Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6323, USA
| | - Yuan Fang
- Department of Physics and Engineering Physics, Tulane University, New Orleans, Louisiana 70118, USA
| | - Pan Hao
- Department of Physics and Engineering Physics, Tulane University, New Orleans, Louisiana 70118, USA
| | - G. E. Scuseria
- Department of Chemistry and Department of Physics and Astronomy, Rice University, Houston, Texas 77251-1892, USA and Department of Chemistry, Faculty of Science, King Abdulaziz University, Jeddah 21589, Saudi Arabia
| | - Adrienn Ruzsinszky
- Department of Physics, Temple University, Philadelphia, Pennsylvania 19122, USA
| | - John P. Perdew
- Department of Physics, Temple University, Philadelphia, Pennsylvania 19122, USA
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89
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Sun YY, Liu FS, Xu LH, Liu QJ, Ma XJ, Cai LC. Vibrational spectrum of condensed H 2O in hydrogen-bonding environment: an ab initiosimulation study. Mol Phys 2015. [DOI: 10.1080/00268976.2014.944237] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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90
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Zurek E, Grochala W. Predicting crystal structures and properties of matter under extreme conditions via quantum mechanics: the pressure is on. Phys Chem Chem Phys 2015; 17:2917-34. [DOI: 10.1039/c4cp04445b] [Citation(s) in RCA: 86] [Impact Index Per Article: 9.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The role of quantum mechanical calculations in understanding and predicting the behavior of matter at extreme pressures is discussed in this feature contribution.
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Affiliation(s)
- Eva Zurek
- Department of Chemistry
- State University of New York at Buffalo
- Buffalo
- USA
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91
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Lee JH, Bristowe NC, Bristowe PD, Cheetham AK. Role of hydrogen-bonding and its interplay with octahedral tilting in CH3NH3PbI3. Chem Commun (Camb) 2015; 51:6434-7. [DOI: 10.1039/c5cc00979k] [Citation(s) in RCA: 151] [Impact Index Per Article: 16.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Computed Kohn–Sham energies as a function of torsion angle for three rotational modes of the methylammonium group in orthorhombic CH3NH3PbI3.
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Affiliation(s)
- Jung-Hoon Lee
- Department of Materials Science and Metallurgy
- University of Cambridge
- Cambridge
- UK
| | | | - Paul D. Bristowe
- Department of Materials Science and Metallurgy
- University of Cambridge
- Cambridge
- UK
| | - Anthony K. Cheetham
- Department of Materials Science and Metallurgy
- University of Cambridge
- Cambridge
- UK
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92
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Fang C, Li WF, Koster RS, Klimeš J, van Blaaderen A, van Huis MA. The accurate calculation of the band gap of liquid water by means of GW corrections applied to plane-wave density functional theory molecular dynamics simulations. Phys Chem Chem Phys 2015; 17:365-75. [DOI: 10.1039/c4cp04202f] [Citation(s) in RCA: 45] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Knowledge about the intrinsic electronic properties of water is imperative for understanding the behaviour of aqueous solutions that are used throughout biology, chemistry, physics, and industry.
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Affiliation(s)
- Changming Fang
- Debye Institute for Nanomaterials Science and Center for Extreme Matter and Emergent Phenomena
- Utrecht University
- 3584 CC Utrecht
- The Netherlands
| | - Wun-Fan Li
- Debye Institute for Nanomaterials Science and Center for Extreme Matter and Emergent Phenomena
- Utrecht University
- 3584 CC Utrecht
- The Netherlands
| | - Rik S. Koster
- Debye Institute for Nanomaterials Science and Center for Extreme Matter and Emergent Phenomena
- Utrecht University
- 3584 CC Utrecht
- The Netherlands
| | - Jiří Klimeš
- University of Vienna
- Faculty of Physics and Center for Computational Materials Science
- A-1090 Vienna
- Austria
| | - Alfons van Blaaderen
- Debye Institute for Nanomaterials Science and Center for Extreme Matter and Emergent Phenomena
- Utrecht University
- 3584 CC Utrecht
- The Netherlands
| | - Marijn A. van Huis
- Debye Institute for Nanomaterials Science and Center for Extreme Matter and Emergent Phenomena
- Utrecht University
- 3584 CC Utrecht
- The Netherlands
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93
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Schubert F, Rossi M, Baldauf C, Pagel K, Warnke S, von Helden G, Filsinger F, Kupser P, Meijer G, Salwiczek M, Koksch B, Scheffler M, Blum V. Exploring the conformational preferences of 20-residue peptides in isolation: Ac-Ala19-Lys + H+vs. Ac-Lys-Ala19 + H+ and the current reach of DFT. Phys Chem Chem Phys 2015; 17:7373-85. [DOI: 10.1039/c4cp05541a] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Using a high-level density functional and an exhaustive search of conformation space, the predicted conformation of a 20-amino acid peptide explains two seemingly contradictory experiments.
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Affiliation(s)
| | - Mariana Rossi
- Fritz-Haber-Institut der Max-Planck-Gesellschaft
- D-14195 Berlin
- Germany
- Physical and Theoretical Chemistry Laboratory
- University of Oxford
| | - Carsten Baldauf
- Fritz-Haber-Institut der Max-Planck-Gesellschaft
- D-14195 Berlin
- Germany
| | - Kevin Pagel
- Fritz-Haber-Institut der Max-Planck-Gesellschaft
- D-14195 Berlin
- Germany
- Institut für Chemie und Biochemie - Organische Chemie
- Freie Universität Berlin
| | - Stephan Warnke
- Fritz-Haber-Institut der Max-Planck-Gesellschaft
- D-14195 Berlin
- Germany
| | - Gert von Helden
- Fritz-Haber-Institut der Max-Planck-Gesellschaft
- D-14195 Berlin
- Germany
| | - Frank Filsinger
- Fritz-Haber-Institut der Max-Planck-Gesellschaft
- D-14195 Berlin
- Germany
| | - Peter Kupser
- Fritz-Haber-Institut der Max-Planck-Gesellschaft
- D-14195 Berlin
- Germany
| | - Gerard Meijer
- Fritz-Haber-Institut der Max-Planck-Gesellschaft
- D-14195 Berlin
- Germany
- Radboud University Nijmegen
- 65000 HC Nijmegen
| | - Mario Salwiczek
- Institut für Chemie und Biochemie - Organische Chemie
- Freie Universität Berlin
- D-14195 Berlin
- Germany
| | - Beate Koksch
- Institut für Chemie und Biochemie - Organische Chemie
- Freie Universität Berlin
- D-14195 Berlin
- Germany
| | | | - Volker Blum
- Fritz-Haber-Institut der Max-Planck-Gesellschaft
- D-14195 Berlin
- Germany
- Department Mechanical Engineering and Material Science and Center for Materials Genomics
- Duke University
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94
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Gillan MJ. Many-body exchange-overlap interactions in rare gases and water. J Chem Phys 2014; 141:224106. [DOI: 10.1063/1.4903240] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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95
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Del Ben M, VandeVondele J, Slater B. Periodic MP2, RPA, and Boundary Condition Assessment of Hydrogen Ordering in Ice XV. J Phys Chem Lett 2014; 5:4122-8. [PMID: 26278943 DOI: 10.1021/jz501985w] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
Ice XV is the hydrogen-ordered form of the ice VI phase whose structure was predicted to be Cc and ferroelectric using periodic DFT approaches. However, neutron diffraction and Raman spectroscopy data show the structure to have P1̅ symmetry and to be antiferroelectric. Recent work1 using fragment-based MP2 and CCSD(T) approaches predicts the experimental structure as the ground state. We have reconsidered this problem using fully periodic MP2 and RPA approaches and find that the ferroelectric Cc structure is the lowest energy configuration. However, ubiquitously employed tinfoil boundary conditions stabilize polar structures. We suggest that ferroelectric Cc crystals can grow within a paraelectric ice VI matrix but may become unstable once a fraction of the matrix has become hydrogen-ordered. The reduction in dielectric constant causes P1̅ and other structures with small polarization to become favored, providing a possible resolution between observation and theoretical predictions.
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Affiliation(s)
- Mauro Del Ben
- †Department of Chemistry, University of Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
| | - Joost VandeVondele
- ‡Department of Materials, ETH Zürich, Wolfgang-Pauli-Strasse 27, CH-8093 Zürich, Switzerland
| | - Ben Slater
- §Department of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, United Kingdom
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96
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Kronik L, Tkatchenko A. Understanding molecular crystals with dispersion-inclusive density functional theory: pairwise corrections and beyond. Acc Chem Res 2014; 47:3208-16. [PMID: 24901508 DOI: 10.1021/ar500144s] [Citation(s) in RCA: 99] [Impact Index Per Article: 9.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Abstract
CONSPECTUS: Molecular crystals are ubiquitous in many areas of science and engineering, including biology and medicine. Until recently, our ability to understand and predict their structure and properties using density functional theory was severely limited by the lack of approximate exchange-correlation functionals able to achieve sufficient accuracy. Here we show that there are many cases where the simple, minimally empirical pairwise correction scheme of Tkatchenko and Scheffler provides a useful prediction of the structure and properties of molecular crystals. After a brief introduction of the approach, we demonstrate its strength through some examples taken from our recent work. First, we show the accuracy of the approach using benchmark data sets of molecular complexes. Then we show its efficacy for structural determination using the hemozoin crystal, a challenging system possessing a wide range of strong and weak binding scenarios. Next, we show that it is equally useful for response properties by considering the elastic constants exhibited by the supramolecular diphenylalanine peptide solid and the infrared signature of water libration movements in brushite. Throughout, we emphasize lessons learned not only for the methodology but also for the chemistry and physics of the crystals in question. We further show that in many other scenarios where the simple pairwise correction scheme is not sufficiently accurate, one can go beyond it by employing a computationally inexpensive many-body dispersive approach that results in useful, quantitative accuracy, even in the presence of significant screening and/or multibody contributions to the dispersive energy. We explain the principles of the many-body approach and demonstrate its accuracy for benchmark data sets of small and large molecular complexes and molecular solids.
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Affiliation(s)
- Leeor Kronik
- Department
of Materials and Interfaces, Weizmann Institute of Science, Rehovoth 76100, Israel
| | - Alexandre Tkatchenko
- Fritz-Haber-Institut
der Max-Planck-Gesellschaft, Faradayweg 4-6, 14195 Berlin, Germany
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97
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Cassone G, Giaquinta PV, Saija F, Saitta AM. Effect of Electric Field Orientation on the Mechanical and Electrical Properties of Water Ices: An Ab-initio Study. J Phys Chem B 2014; 118:12717-24. [DOI: 10.1021/jp507376v] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
Affiliation(s)
- Giuseppe Cassone
- Dipartimento
di Fisica e di Scienze della Terra, Università degli Studi di Messina, Contrada Papardo, 98166 Messina, Italy
- CNR-IPCF, Viale Ferdinando Stagno d’Alcontres
37, 98158 Messina, Italy
- UMR 7590, IMPMC,
UPMC Univ Paris 06, Sorbonne Universités, F-75005 Paris, France
- UMR 7590, IMPMC, CNRS, F-75005 Paris, France
| | - Paolo V. Giaquinta
- Dipartimento
di Fisica e di Scienze della Terra, Università degli Studi di Messina, Contrada Papardo, 98166 Messina, Italy
| | - Franz Saija
- CNR-IPCF, Viale Ferdinando Stagno d’Alcontres
37, 98158 Messina, Italy
| | - A. Marco Saitta
- UMR 7590, IMPMC,
UPMC Univ Paris 06, Sorbonne Universités, F-75005 Paris, France
- UMR 7590, IMPMC, CNRS, F-75005 Paris, France
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98
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Huš M, Urbic T. Thermodynamics and the hydrophobic effect in a core-softened model and comparison with experiments. PHYSICAL REVIEW. E, STATISTICAL, NONLINEAR, AND SOFT MATTER PHYSICS 2014; 90:022115. [PMID: 25215697 DOI: 10.1103/physreve.90.022115] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/19/2014] [Indexed: 06/03/2023]
Abstract
A simple and computationally inexpensive core-softened model, originally proposed by Franzese [G. Franzese, J. Mol. Liq. 136, 267 (2007)], was adopted to show that it exhibits properties of waterlike fluid and hydrophobic effect. The potential used between particles is spherically symmetric with two characteristic lengths. Thermodynamics of nonpolar solvation were modeled as an insertion of a modified Lennard-Jones particle. It was investigated how the anomalous predictions of the model as well as the nonpolar solvation compare with the experimental data for water anomalies and the temperature dependence of noble gases hydration. It was shown that the model qualitatively follows the same trends as water. The model is able to reproduce waterlike anomalous properties (density maximum, heat capacity minimum, isothermal compressibility, etc.) and hydrophobic effect (minimum solubility for nonpolar solutes near ambient conditions, increased solubility of larger noble gases, etc.). It is argued that the model yields similar results as more complex and computationally expensive models.
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Affiliation(s)
- Matej Huš
- University of Ljubljana, Department of Chemistry and Chemical Technology, Chair of Physical Chemistry, Aškerčeva 5, SI-1000 Ljubljana, Slovenia
| | - Tomaz Urbic
- University of Ljubljana, Department of Chemistry and Chemical Technology, Chair of Physical Chemistry, Aškerčeva 5, SI-1000 Ljubljana, Slovenia
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99
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Abstract
Gas hydrates are systems of prime importance. In particular, hydrogen hydrates are potential materials of icy satellites and comets, and may be used for hydrogen storage. We explore the H2O–H2 system at pressures in the range 0–100 GPa with ab initio variable-composition evolutionary simulations. According to our calculation and previous experiments, the H2O–H2 system undergoes a series of transformations with pressure, and adopts the known open-network clathrate structures (sII, C0), dense “filled ice” structures (C1, C2) and two novel hydrate phases. One of these is based on the hexagonal ice framework and has the same H2O:H2 ratio (2:1) as the C0 phase at low pressures and similar enthalpy (we name this phase Ih-C0). The other newly predicted hydrate phase has a 1:2 H2O:H2 ratio and structure based on cubic ice. This phase (which we name C3) is predicted to be thermodynamically stable above 38 GPa when including van der Waals interactions and zero-point vibrational energy, and explains previously mysterious experimental X-ray diffraction and Raman measurements. This is the hydrogen-richest hydrate and this phase has a remarkable gravimetric density (18 wt.%) of easily extractable hydrogen.
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100
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Alfè D, Bartók AP, Csányi G, Gillan MJ. Analyzing the errors of DFT approximations for compressed water systems. J Chem Phys 2014; 141:014104. [DOI: 10.1063/1.4885440] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- D. Alfè
- Department of Earth Sciences, UCL, London WC1E 6BT, United Kingdom
- London Centre for Nanotechnology, UCL, London WC1H 0AH, United Kingdom
- Thomas Young Centre, UCL, London WC1H 0AH, United Kingdom
- Department of Physics and Astronomy, UCL, London WC1E 6BT, United Kingdom
| | - A. P. Bartók
- Department of Engineering, University of Cambridge, Cambridge CB2 1PZ, United Kingdom
| | - G. Csányi
- Department of Engineering, University of Cambridge, Cambridge CB2 1PZ, United Kingdom
| | - M. J. Gillan
- London Centre for Nanotechnology, UCL, London WC1H 0AH, United Kingdom
- Thomas Young Centre, UCL, London WC1H 0AH, United Kingdom
- Department of Physics and Astronomy, UCL, London WC1E 6BT, United Kingdom
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