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Jovanović D, Zagorac D, Schön JC, Milovanović B, Zagorac J. A new theoretical model for hexagonal ice, Ih(d), from first principles investigations. ZEITSCHRIFT FUR NATURFORSCHUNG SECTION B-A JOURNAL OF CHEMICAL SCIENCES 2019. [DOI: 10.1515/znb-2019-0164] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
Abstract
Due to their great importance in science, technology, and the life sciences, water and ice have been extensively investigated over many years. In particular, hexagonal ice Ih has been of great interest since it is the most common form of ice, and several modifications, Ih(a), Ih(b) and Ih(c) are known, whose structural details are still under discussion. In this study, we present an alternative theoretical model, called Ih(d), for the hexagonal ice modification in space group P63/mmc (no. 194), based on first-principles calculations that have been performed using DFT-LDA, GGA-PBE, and hybrid B3LYP and PBE0 functionals.
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Affiliation(s)
- Dušica Jovanović
- Institute of Nuclear Sciences Vinča, Materials Science Laboratory , University of Belgrade , Mike Petrovica Alasa 12–14 , 11351 Belgrade , Serbia
- Department of Chemistry, Faculty of Sciences and Mathematics , University of Niš , Visegradska 33 , 18106 Niš , Serbia
| | - Dejan Zagorac
- Institute of Nuclear Sciences Vinča, Materials Science Laboratory , University of Belgrade , Mike Petrovica Alasa 12–14 , 11351 Belgrade , Serbia
- Center for Synthesis, Processing and Characterization of Materials for Application in the Extreme Conditions-CextremeLab , Post Box 522 , 11000 Belgrade , Serbia
| | - J. Christian Schön
- Max Planck Institute for Solid State Research , Heisenbergstr. 1 , 70569 Stuttgart , Germany
| | - Branislav Milovanović
- Neurocardiological Laboratory, University Medical Center Bezanijska Kosa , Medical Faculty, University of Belgrade, Bezanijska Kosa bb , 11080 Belgrade , Serbia
| | - Jelena Zagorac
- Institute of Nuclear Sciences Vinča, Materials Science Laboratory , University of Belgrade , Mike Petrovica Alasa 12–14 , 11351 Belgrade , Serbia
- Center for Synthesis, Processing and Characterization of Materials for Application in the Extreme Conditions-CextremeLab , Post Box 522 , 11000 Belgrade , Serbia
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Proton disorder and elasticity of hexagonal ice and gas hydrates. J Mol Model 2019; 25:32. [DOI: 10.1007/s00894-018-3919-x] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2018] [Accepted: 12/26/2018] [Indexed: 10/27/2022]
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Garbuio V, Cascella M, Kupchak I, Pulci O, Seitsonen AP. Proton disorder in cubic ice: Effect on the electronic and optical properties. J Chem Phys 2015; 143:084507. [DOI: 10.1063/1.4929468] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
Affiliation(s)
- Viviana Garbuio
- MIFP, ETSF, Physics Department of Tor Vergata University, Via della Ricerca Scientifica 1, I-00133 Rome, Italy
| | - Michele Cascella
- Department of Chemistry and Centre for Theoretical and Computational Chemistry (CTCC), University of Oslo, Postboks 1033, Blindern, N-0315 Oslo, Norway
| | - Igor Kupchak
- MIFP, V. Lashkarev Institute of Semiconductor Physics of National Academy of Sciences of Ukraine, pr. Nauki 45, UA-03680 Kiev, Ukraine
| | - Olivia Pulci
- MIFP, ETSF, Physics Department of Tor Vergata University, Via della Ricerca Scientifica 1, I-00133 Rome, Italy
| | - Ari Paavo Seitsonen
- Institut für Chemie, Universität Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
- Département de Chimie, École Normale Supérieure, 24 rue Lhomond, F-75005 Paris, France
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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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Lorenz M, Civalleri B, Maschio L, Sgroi M, Pullini D. Benchmarking dispersion and geometrical counterpoise corrections for cost-effective large-scale DFT calculations of water adsorption on graphene. J Comput Chem 2014; 35:1789-800. [DOI: 10.1002/jcc.23686] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2014] [Revised: 06/20/2014] [Accepted: 06/27/2014] [Indexed: 01/22/2023]
Affiliation(s)
- Marco Lorenz
- Dipartimento di Chimica; Università di Torino; Via P. Giuria 5 I-10125 Torino Italy
| | - Bartolomeo Civalleri
- Dipartimento di Chimica; Università di Torino; Via P. Giuria 5 I-10125 Torino Italy
| | - Lorenzo Maschio
- Dipartimento di Chimica; Università di Torino; Via P. Giuria 5 I-10125 Torino Italy
| | - Mauro Sgroi
- Group Materials Lab, Centro Ricerche FIAT; Strada Torino 50, 10043 Orbassano Torino Italy
| | - Daniele Pullini
- Group Materials Lab, Centro Ricerche FIAT; Strada Torino 50, 10043 Orbassano Torino Italy
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Schönherr M, Slater B, Hutter J, VandeVondele J. Dielectric Properties of Water Ice, the Ice Ih/XI Phase Transition, and an Assessment of Density Functional Theory. J Phys Chem B 2014; 118:590-6. [DOI: 10.1021/jp4103355] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Mandes Schönherr
- Institute
of Physical Chemistry, University of Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
| | - Ben Slater
- Department
of Chemistry, University College London, London WC1H
0AJ, England
| | - Jürg Hutter
- Institute
of Physical 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
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Singer SJ, Knight C. Hydrogen‐Bond Topology and Proton Ordering in Ice and Water Clusters. ADVANCES IN CHEMICAL PHYSICS 2011. [DOI: 10.1002/9781118135242.ch1] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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Labat F, Pouchan C, Adamo C, Scuseria GE. Role of nonlocal exchange in molecular crystals: The case of two proton-ordered phases of ice. J Comput Chem 2011; 32:2177-85. [DOI: 10.1002/jcc.21801] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2011] [Revised: 03/02/2011] [Accepted: 03/03/2011] [Indexed: 01/16/2023]
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Raza Z, Alfè D, Salzmann CG, Klimeš J, Michaelides A, Slater B. Proton ordering in cubic ice and hexagonal ice; a potential new ice phase—XIc. Phys Chem Chem Phys 2011; 13:19788-95. [DOI: 10.1039/c1cp22506e] [Citation(s) in RCA: 56] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
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Hydrogen bonds and O⋯O interactions in proton-ordered ices. DFT computations with periodic boundary conditions. Chem Phys Lett 2010. [DOI: 10.1016/j.cplett.2010.10.024] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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Djebra-Belmessaoud N, Nait Achour M, Berthier G, Savinelli R. A comparative theoretical study of the hydrogen bonding between cyanide or isocyanide hydrides and water. ACTA ACUST UNITED AC 2010. [DOI: 10.1016/j.theochem.2009.11.007] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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Corno M, Rimola A, Bolis V, Ugliengo P. Hydroxyapatite as a key biomaterial: quantum-mechanical simulation of its surfaces in interaction with biomolecules. Phys Chem Chem Phys 2010; 12:6309-29. [DOI: 10.1039/c002146f] [Citation(s) in RCA: 117] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Kulkarni BS, Krishnamurty S, Pal S. Influence of plane wave cut-off on structural and electronic properties in Sn-BEA and Ti-BEA zeolite water molecule interaction. Chem Phys Lett 2010. [DOI: 10.1016/j.cplett.2009.11.041] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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Erba A, Casassa S, Dovesi R, Maschio L, Pisani C. Periodic density functional theory and local-MP2 study of the librational modes of Ice XI. J Chem Phys 2009; 130:074505. [DOI: 10.1063/1.3076921] [Citation(s) in RCA: 36] [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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A local-MP2 approach to the ab initio study of electron correlation in crystals and to the simulation of vibrational spectra: the case of Ice XI. Theor Chem Acc 2009. [DOI: 10.1007/s00214-009-0512-5] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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Erba A, Casassa S, Maschio L, Pisani C. DFT and Local-MP2 Periodic Study of the Structure and Stability of Two Proton-Ordered Polymorphs of Ice. J Phys Chem B 2009; 113:2347-54. [DOI: 10.1021/jp809885e] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Alessandro Erba
- Dipartimento di Chimica IFM and Centre of Excellence NIS (Nanostructured Interfaces and Surfaces), Università di Torino, via P. Giuria 5, I-10125 Torino, Italy
| | - Silvia Casassa
- Dipartimento di Chimica IFM and Centre of Excellence NIS (Nanostructured Interfaces and Surfaces), Università di Torino, via P. Giuria 5, I-10125 Torino, Italy
| | - Lorenzo Maschio
- Dipartimento di Chimica IFM and Centre of Excellence NIS (Nanostructured Interfaces and Surfaces), Università di Torino, via P. Giuria 5, I-10125 Torino, Italy
| | - Cesare Pisani
- Dipartimento di Chimica IFM and Centre of Excellence NIS (Nanostructured Interfaces and Surfaces), Università di Torino, via P. Giuria 5, I-10125 Torino, Italy
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Labat F, Pouchan C. Adsorption of cyanodiacetylene on ice: a periodic approach. Phys Chem Chem Phys 2009; 11:5833-42. [DOI: 10.1039/b817809g] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Pan D, Liu LM, Tribello GA, Slater B, Michaelides A, Wang E. Surface energy and surface proton order of ice Ih. PHYSICAL REVIEW LETTERS 2008; 101:155703. [PMID: 18999613 DOI: 10.1103/physrevlett.101.155703] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/28/2008] [Revised: 09/04/2008] [Indexed: 05/27/2023]
Abstract
Ice Ih is comprised of orientationally disordered water molecules giving rise to positional disorder of the hydrogen atoms in the hydrogen bonded network of the lattice. Here we arrive at a first principles determination of the surface energy of ice Ih and suggest that the surface of ice is significantly more proton ordered than the bulk. We predict that the proton order-disorder transition, which occurs in the bulk at approximately 72 K, will not occur at the surface at any temperature below surface melting. An order parameter which defines the surface energy of ice Ih surfaces is also identified.
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Affiliation(s)
- Ding Pan
- Institute of Physics, Chinese Academy of Sciences, P.O. Box 603, Beijing 100190, China
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Pisani C, Maschio L, Casassa S, Halo M, Schütz M, Usvyat D. Periodic local MP2 method for the study of electronic correlation in crystals: Theory and preliminary applications. J Comput Chem 2008; 29:2113-24. [DOI: 10.1002/jcc.20975] [Citation(s) in RCA: 205] [Impact Index Per Article: 12.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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Mehlhorn M, Morgenstern K. Faceting during the transformation of amorphous to crystalline ice. PHYSICAL REVIEW LETTERS 2007; 99:246101. [PMID: 18233460 DOI: 10.1103/physrevlett.99.246101] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/29/2007] [Indexed: 05/25/2023]
Abstract
We study the thermally activated transition from amorphous to crystalline ice (D2O) on Cu(111) with high-resolution scanning tunneling microscopy. Annealing of amorphous solid water up to the desorption temperature of 149 K results subsequently in monomer decorated double bilayers with different superstructure, a faceted surface, pyramidal islands, and nanocrystallites of distinct height at different coverages. Though all structures are truncations from crystalline water ice, for none of them is the ice bilayer found to be the terminating surface.
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Affiliation(s)
- Michael Mehlhorn
- Institut für Festkörperphysik, Leibniz Universität Hannover, Appelstrasse 2, D-30167 Hannover, Germany
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Tosoni S, Tuma C, Sauer J, Civalleri B, Ugliengo P. A comparison between plane wave and Gaussian-type orbital basis sets for hydrogen bonded systems: formic acid as a test case. J Chem Phys 2007; 127:154102. [PMID: 17949127 DOI: 10.1063/1.2790019] [Citation(s) in RCA: 57] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The formic acid molecule, its dimers, and its molecular crystal are adopted as test systems to compare results obtained with plane wave (PW) basis sets and norm-conserving pseudopotentials to all-electron Gaussian-type orbital (GTO) calculations. The CPMD and CRYSTAL06 codes, respectively, are applied with the PBE, PW91, and BLYP density functionals. Hydrogen bonding is the leading interaction in the dimers and the crystal. In the latter, dispersive and weak C-H...O interactions are also relevant. Irrespective of the adopted functional, for all considered structures PW and GTO results converge smoothly as a function of the quality of the adopted basis sets to the same values for structures, energies of interaction, and harmonic vibrational features. To achieve a high level of mutual agreement the use of GTO basis sets of at least of triple-zeta quality including one set of polarization functions and PW basis sets with a kinetic energy cutoff higher than 110 Ry is recommended. Pros and cons of both approaches for studying molecular crystals are also discussed.
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Affiliation(s)
- Sergio Tosoni
- Dipartimento di Chimica IFM, Università degli Studi di Torino, Via P. Giuria 7, 10125 Torino, Italy
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Corno M, Busco C, Civalleri B, Ugliengo P. Periodic ab initio study of structural and vibrational features of hexagonal hydroxyapatite Ca10(PO4)6(OH)2. Phys Chem Chem Phys 2006; 8:2464-72. [PMID: 16721430 DOI: 10.1039/b602419j] [Citation(s) in RCA: 67] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Structural and vibrational features of hexagonal hydroxyapatite HA [Ca(10)(PO(4))(6)(OH)(2), space group P6(3)] are computed ab initio within a periodic approach using the CRYSTAL03 program and the B3LYP hybrid functional with a Gaussian-type basis set of polarized double zeta quality. Experimental lattice parameters and internal coordinates have been fully optimized and the final structure characterized by means of its band structure, density of states and Mulliken analysis. The full B3LYP harmonic vibrational spectrum of HA at Gamma point has also been computed and compares well with the available experimental IR and Raman data. Nevertheless, the presence of one negative frequency in the computed spectrum shows that, within the hexagonal symmetry imposed by the P6(3) group, the structure is a saddle point. This is at variance with the monoclinic structure (under P2(1)/b space group), which has been computed, with the same approach, to be a minimum of 17 kJ mol(-1) (per unit cell) more stable than the corresponding hexagonal HA structure.
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Affiliation(s)
- Marta Corno
- Dipartimento di Chimica IFM, NIS Centre of Excellence and INSTM (Materials Science and Technology) National Consortium, UdR Torino, Italy
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