1
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Stepanov GO, Penkov NV, Rodionova NN, Petrova AO, Kozachenko AE, Kovalchuk AL, Tarasov SA, Tverdislov VA, Uvarov AV. The heterogeneity of aqueous solutions: the current situation in the context of experiment and theory. Front Chem 2024; 12:1456533. [PMID: 39391834 PMCID: PMC11464478 DOI: 10.3389/fchem.2024.1456533] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2024] [Accepted: 09/12/2024] [Indexed: 10/12/2024] Open
Abstract
The advancement of experimental methods has provided new information about the structure and structural fluctuations of water. Despite the appearance of numerous models, which aim to describe a wide range of thermodynamic and electrical characteristics of water, there is a deficit in systemic understanding of structuring in aqueous solutions. A particular challenge is the fact that even pure water is a heterogeneous, multicomponent system composed of molecular and supramolecular structures. The possibility of the existence of such structures and their nature are of fundamental importance for various fields of science. However, great difficulties arise in modeling relatively large supramolecular structures (e.g. extended hydration shells), where the bonds between molecules are characterized by low energy. Generally, such structures may be non-equilibrium but relatively long-lived. Evidently, the short times of water microstructure exchanges do not mean short lifetimes of macrostructures, just as the instability of individual parts does not mean the instability of the entire structure. To explain this paradox, we review the data from experimental and theoretical research. Today, only some of the experimental results on the lifetime of water structures have been confirmed by modeling, so there is not a complete theoretical picture of the structure of water yet. We propose a new hierarchical water macrostructure model to resolve the issue of the stability of water structures. In this model, the structure of water is presented as consisting of many hierarchically related levels (the stratification model). The stratification mechanism is associated with symmetry breaking at the formation of the next level, even with minimal changes in the properties of the previous level. Such a hierarchical relationship can determine the unique physico-chemical properties of water systems and, in the future, provide a complete description of them.
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Affiliation(s)
- German O. Stepanov
- Department of General and Medical biophysics, Medical Biological Faculty, N.I. Pirogov Russian National Research Medical University, Moscow, Russia
- Research and Development Department, OOO "NPF "Materia Medica Holding", Moscow, Russia
| | - Nikita V. Penkov
- Institute of Cell Biophysics RAS, Federal Research Center “Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences”, Pushchino, Russia
| | - Natalia N. Rodionova
- Research and Development Department, OOO "NPF "Materia Medica Holding", Moscow, Russia
| | - Anastasia O. Petrova
- Research and Development Department, OOO "NPF "Materia Medica Holding", Moscow, Russia
| | | | | | - Sergey A. Tarasov
- Research and Development Department, OOO "NPF "Materia Medica Holding", Moscow, Russia
| | - Vsevolod A. Tverdislov
- Department of Biophysics Faculty of Physics, Lomonosov Moscow State University, Moscow, Russia
| | - Alexander V. Uvarov
- Department of Molecular Processes and Extreme States of Matter, Faculty of Physics, Lomonosov Moscow State University, Moscow, Russia
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2
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Munaò G, Saija F, Cassone G. The structure of water-ammonia mixtures from classical and ab initio molecular dynamics. J Chem Phys 2024; 161:094503. [PMID: 39230374 DOI: 10.1063/5.0220328] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2024] [Accepted: 08/21/2024] [Indexed: 09/05/2024] Open
Abstract
The structure of aqueous ammonia solutions is investigated through classical molecular dynamics (MD) and ab initio molecular dynamics (AIMD) simulations. We have preliminarily compared three well-known classical force fields for liquid water (SPC, SPC/E, and TIP4P) in order to identify the most accurate one in reproducing AIMD results obtained at the Generalized Gradient Approximation (GGA) and meta-GGA levels of theory. Liquid ammonia has been simulated by implementing an optimized force field recently developed by Chettiyankandy et al. [Fluid Phase Equilib. 511, 112507 (2020)]. Analysis of the radial distribution functions for different ammonia concentrations reveals that the three water force fields provide comparable estimates of the mixture structure, with the SPC/E performing slightly better. Although a fairly good agreement between MD and AIMD is observed for conditions close to the equimolarity, at lower ammonia concentrations, important discrepancies arise, with classical force fields underestimating the number and strength of H-bonds between water molecules and between water and ammonia moieties. Here, we prove that these drawbacks are rooted in a poor sampling of the configurational space spanned by the hydrogen atoms lying in the H-bonds of H2O⋯H2O and, more critically, H2O⋯NH3 neighbors due to the lack of polarization and charge transfer terms. This way, non-polarizable classical force fields underestimate the proton affinity of the nitrogen atom of ammonia in aqueous solutions, which plays a key role under realistic dilute ammonia conditions. Our results witness the need for developing more suited polarizable models that are able to take into account these effects properly.
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Affiliation(s)
- Gianmarco Munaò
- Department of Mathematical and Computer Sciences, Physical Sciences and Earth Sciences, University of Messina, 98166 Messina, Italy
| | - Franz Saija
- Institute for Chemical-Physical Processes, National Research Council of Italy (IPCF-CNR), 98158 Messina, Italy
| | - Giuseppe Cassone
- Institute for Chemical-Physical Processes, National Research Council of Italy (IPCF-CNR), 98158 Messina, Italy
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3
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Fransson T, Pettersson LGM. TDDFT and the x-ray absorption spectrum of liquid water: Finding the "best" functional. J Chem Phys 2024; 160:234105. [PMID: 38884399 DOI: 10.1063/5.0209719] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2024] [Accepted: 06/03/2024] [Indexed: 06/18/2024] Open
Abstract
We investigate the performance of time-dependent density functional theory (TDDFT) for reproducing high-level reference x-ray absorption spectra of liquid water and water clusters. For this, we apply the integrated absolute difference (IAD) metric, previously used for x-ray emission spectra of liquid water [T. Fransson and L. G. M. Pettersson, J. Chem. Theory Comput. 19, 7333-7342 (2023)], in order to investigate which exchange-correlation (xc) functionals yield TDDFT spectra in best agreement to reference, as well as to investigate the suitability of IAD for x-ray absorption spectroscopy spectrum calculations. Considering highly asymmetric and symmetric six-molecule clusters, it is seen that long-range corrected xc-functionals are required to yield good agreement with the reference coupled cluster (CC) and algebraic-diagrammatic construction spectra, with 100% asymptotic Hartree-Fock exchange resulting in the lowest IADs. The xc-functionals with best agreement to reference have been adopted for larger water clusters, yielding results in line with recently published CC theory, but which still show some discrepancies in the relative intensity of the features compared to experiment.
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Affiliation(s)
- Thomas Fransson
- Department of Physics, AlbaNova University Center, Stockholm University, 10961 Stockholm, Sweden
| | - Lars G M Pettersson
- Department of Physics, AlbaNova University Center, Stockholm University, 10961 Stockholm, Sweden
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4
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Ojha D, Henao A, Zysk F, Kühne TD. Nuclear quantum effects on the vibrational dynamics of the water-air interface. J Chem Phys 2024; 160:204114. [PMID: 38804494 DOI: 10.1063/5.0204071] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2024] [Accepted: 04/11/2024] [Indexed: 05/29/2024] Open
Abstract
We have applied path-integral molecular dynamics simulations to investigate the impact of nuclear quantum effects on the vibrational dynamics of water molecules at the water-air interface. The instantaneous fluctuations in the frequencies of the O-H stretch modes are calculated using the wavelet method of time series analysis, while the time scales of vibrational spectral diffusion are determined from frequency-time correlation functions and joint probability distributions. We find that the inclusion of nuclear quantum effects leads not only to a redshift in the vibrational frequency distribution by about 120 cm-1 for both the bulk and interfacial water molecules but also to an acceleration of the vibrational dynamics at the water-air interface by as much as 35%. In addition, a blueshift of about 45 cm-1 is seen in the vibrational frequency distribution of interfacial water molecules compared to that of the bulk. Furthermore, the dynamics of water molecules beyond the topmost molecular layer was found to be rather similar to that of bulk water.
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Affiliation(s)
- Deepak Ojha
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Department of Chemistry, University of Paderborn, Warburger Str. 100, D-33098 Paderborn, Germany
| | - Andrés Henao
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Department of Chemistry, University of Paderborn, Warburger Str. 100, D-33098 Paderborn, Germany
| | - Frederik Zysk
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Department of Chemistry, University of Paderborn, Warburger Str. 100, D-33098 Paderborn, Germany
| | - Thomas D Kühne
- Center for Advanced Systems Understanding (CASUS), Untermarkt 20, D-02826 Görlitz, Germany, Helmholtz Zentrum Dresden-Rossendorf, Bautzner Landstraße 400, D-01328 Dresden, Germany, and TU Dresden, Institute of Artificial Intelligence, Chair of Computational System Sciences, Nöthnitzer Straße 46, D-01187 Dresden, Germany
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5
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Heske J, Kühne TD, Antonietti M. Water in PHI Nanopores: Modeling Adsorption, Solvent Structure, and Thermodynamics. ACS OMEGA 2023; 8:26526-26532. [PMID: 37521651 PMCID: PMC10373457 DOI: 10.1021/acsomega.3c03308] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/12/2023] [Accepted: 06/26/2023] [Indexed: 08/01/2023]
Abstract
We modeled the uptake of water molecules into the nanopores of potassium-polyheptazineimide (K-PHI), a 2D covalent material that is one of the best water-splitting photocatalysts to date possessing experimentally reported strong water binding. In the current models, we find that first water molecules are bound with -94.5 kJ/mol, i.e., twice the cohesion energy of water and one of the highest adsorption enthalpies reported so far. This strong binding proceeds unexpectedly on a similar enthalpy level until the pore is filled, while the binding strength is passed through a conjugated water network. The tight binding is also expressed in calculated, strongly shortened O-O distances, which are on average about 5% shorter than in bulk water, which corresponds to a much higher water density, for a 2D structure above 1.1 g/ cm3. The H-bridges are strongly aligned in the direction perpendicular to the covalent planes, which could give reasons for the experimentally observed ultrahigh ion fluxes and conductivity of K-PHI membranes. Decomposition of the adsorption energy into components reveals an unexpectedly high charge transfer contribution, where the partly naked K+ ions play a key role. The latter fact not only offers a new structural lead motif for the design of more strongly, but reversibly binding adsorption materials involving metal ions on their surface but also puts cations as known cofactors in enzymes into a new light.
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Affiliation(s)
- Julian Heske
- Department
of Colloid Chemistry, Max Planck Institute
of Colloids and Interfaces, MPI Research Campus Golm, D-14424 Potsdam-Golm, Germany
- Dynamics
of Condensed Matter and Center for Sustainable Systems Design, Chair
of Theoretical Chemistry, University of
Paderborn, Warburger Str. 100, D-33098 Paderborn, Germany
| | - Thomas D. Kühne
- Dynamics
of Condensed Matter and Center for Sustainable Systems Design, Chair
of Theoretical Chemistry, University of
Paderborn, Warburger Str. 100, D-33098 Paderborn, Germany
| | - Markus Antonietti
- Department
of Colloid Chemistry, Max Planck Institute
of Colloids and Interfaces, MPI Research Campus Golm, D-14424 Potsdam-Golm, Germany
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6
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de Oliveira PMC, de Souza JIR, da Silva JAB, Longo RL. Temperature Dependence of Hydrogen Bond Networks of Liquid Water: Thermodynamic Properties and Structural Heterogeneity from Topological Descriptors. J Phys Chem B 2023; 127:2250-2257. [PMID: 36877152 DOI: 10.1021/acs.jpcb.2c08873] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/07/2023]
Abstract
Topological analyses of hydrogen bond networks were performed based on the complex network and island statistics of liquid water at different temperatures. The influence of temperature on the liquid water structures and the topological properties of the hydrogen bond networks was investigated by Metropolis Monte Carlo simulations with the TIP4P/2005 potential model. The bilinear behavior of the second peak in the radial distribution function with the temperature was properly reproduced by these simulations. The average connectivity also displayed a bilinear behavior consistent with being a local descriptor. The semiglobal average path length (or geodesic distance) descriptor showed an unprecedented trimodal distribution, whose areas were dependent on the temperature. Considering equilibrium between these three sets of networks, standard enthalpy and entropy of equilibrium were determined for the first time, providing new insights into the structural heterogeneities of liquid water with interesting perspectives for modeling these quantitative properties of hydrogen bond networks.
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Affiliation(s)
- Paulo M C de Oliveira
- Núcleo Interdisciplinar de Ciências Exatas e da Natureza, Campus do Agreste. Universidade Federal de Pernambuco, 55.014-900 Caruaru, Pernambuco, Brazil
| | - Jéssica I R de Souza
- Programa de Pós-Graduação em Ciência de Materiais, Universidade Federal de Pernambuco, 50740-560 Recife, Pernambuco, Brazil
| | - Juliana A B da Silva
- Núcleo Interdisciplinar de Ciências Exatas e da Natureza, Campus do Agreste. Universidade Federal de Pernambuco, 55.014-900 Caruaru, Pernambuco, Brazil.,Programa de Pós-Graduação em Química, Universidade Federal Rural de Pernambuco, 52.171-900 Recife, Pernambuco, Brazil
| | - Ricardo L Longo
- Programa de Pós-Graduação em Ciência de Materiais, Universidade Federal de Pernambuco, 50740-560 Recife, Pernambuco, Brazil.,Departamento de Química Fundamental, Universidade Federal de Pernambuco, 50740-540 Recife, Pernambuco, Brazil
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7
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Solhi L, Guccini V, Heise K, Solala I, Niinivaara E, Xu W, Mihhels K, Kröger M, Meng Z, Wohlert J, Tao H, Cranston ED, Kontturi E. Understanding Nanocellulose-Water Interactions: Turning a Detriment into an Asset. Chem Rev 2023; 123:1925-2015. [PMID: 36724185 PMCID: PMC9999435 DOI: 10.1021/acs.chemrev.2c00611] [Citation(s) in RCA: 59] [Impact Index Per Article: 59.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
Modern technology has enabled the isolation of nanocellulose from plant-based fibers, and the current trend focuses on utilizing nanocellulose in a broad range of sustainable materials applications. Water is generally seen as a detrimental component when in contact with nanocellulose-based materials, just like it is harmful for traditional cellulosic materials such as paper or cardboard. However, water is an integral component in plants, and many applications of nanocellulose already accept the presence of water or make use of it. This review gives a comprehensive account of nanocellulose-water interactions and their repercussions in all key areas of contemporary research: fundamental physical chemistry, chemical modification of nanocellulose, materials applications, and analytical methods to map the water interactions and the effect of water on a nanocellulose matrix.
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Affiliation(s)
- Laleh Solhi
- Department of Bioproducts and Biosystems, Aalto University, EspooFI-00076, Finland
| | - Valentina Guccini
- Department of Bioproducts and Biosystems, Aalto University, EspooFI-00076, Finland
| | - Katja Heise
- Department of Bioproducts and Biosystems, Aalto University, EspooFI-00076, Finland
| | - Iina Solala
- Department of Bioproducts and Biosystems, Aalto University, EspooFI-00076, Finland
| | - Elina Niinivaara
- Department of Bioproducts and Biosystems, Aalto University, EspooFI-00076, Finland.,Department of Wood Science, University of British Columbia, Vancouver, British ColumbiaV6T 1Z4, Canada
| | - Wenyang Xu
- Department of Bioproducts and Biosystems, Aalto University, EspooFI-00076, Finland.,Laboratory of Natural Materials Technology, Åbo Akademi University, TurkuFI-20500, Finland
| | - Karl Mihhels
- Department of Bioproducts and Biosystems, Aalto University, EspooFI-00076, Finland
| | - Marcel Kröger
- Department of Bioproducts and Biosystems, Aalto University, EspooFI-00076, Finland
| | - Zhuojun Meng
- Department of Bioproducts and Biosystems, Aalto University, EspooFI-00076, Finland.,Wenzhou Institute, University of Chinese Academy of Sciences, Wenzhou325001, China
| | - Jakob Wohlert
- Wallenberg Wood Science Centre (WWSC), Department of Fibre and Polymer Technology, School of Engineering Sciences in Chemistry, Biotechnology and Health, KTH Royal Institute of Technology, 10044Stockholm, Sweden
| | - Han Tao
- Department of Bioproducts and Biosystems, Aalto University, EspooFI-00076, Finland
| | - Emily D Cranston
- Department of Wood Science, University of British Columbia, Vancouver, British ColumbiaV6T 1Z4, Canada.,Department of Chemical and Biological Engineering, University of British Columbia, Vancouver, British ColumbiaV6T 1Z3, Canada
| | - Eero Kontturi
- Department of Bioproducts and Biosystems, Aalto University, EspooFI-00076, Finland
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8
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Shibryaeva LS, Komova NN, Kulikova IY. Influence of Laser Irradiation on the Mechanism of Viscous Flow of Aqueous Sodium Chloride Solution. HIGH ENERGY CHEMISTRY 2023. [DOI: 10.1134/s0018143923010125] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/03/2023]
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9
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Yun Y, Khaliullin RZ, Jung Y. Correlated Local Fluctuations in the Hydrogen Bond Network of Liquid Water. J Am Chem Soc 2022; 144:13127-13136. [PMID: 35820142 DOI: 10.1021/jacs.2c02362] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The hypothesis that liquid water can separate into two phases in the supercooled state has been supported by recent experimental and theoretical studies. However, whether such structural inhomogeneity extends to ambient conditions is under intense debate. Due to the dynamic nature of the hydrogen bond network of liquid water, exploring its structure requires detailed insight into the collective motion of neighboring water molecules, a missing link that has not been examined so far. Here, highly sensitive quantum mechanical calculations detect that the time evolution of nearby hydrogen bonds is strongly correlated, revealing a direct mechanism for the appearance of short-range structural fluctuations in the hydrogen bond network of liquid water for the first time. This correlated dynamics is found to be closely connected to the static structural picture. The distortions from the tetrahedral structure do not occur independently but are correlated due to the preference of nearby donors and acceptors to be in similar environments. The existence of such cooperative fluctuations is further supported by the temperature dependence of the local structural evolution and explained by conventional analysis of localized orbitals. It was found that such correlated structural fluctuations are only observed on a short length scale in simulations at ambient conditions. The correlations of the nearby hydrogen bond pairs of liquid water unveiled here are expected to offer a new insight into connecting the dynamics of individual water molecules and the local structure of the hydrogen bond network.
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Affiliation(s)
- Yonghwan Yun
- Department of Chemical and Biomolecular Engineering (BK21 four), Korea Advanced Institute of Science and Technology (KAIST), 291 Daehak-ro, Daejeon 34141, South Korea
| | - Rustam Z Khaliullin
- Department of Chemistry, McGill University, 801 Sherbrooke Street West, Montreal, Quebec H3A 0B8, Canada
| | - Yousung Jung
- Department of Chemical and Biomolecular Engineering (BK21 four), Korea Advanced Institute of Science and Technology (KAIST), 291 Daehak-ro, Daejeon 34141, South Korea
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10
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Offei-Danso A, Hassanali A, Rodriguez A. High-Dimensional Fluctuations in Liquid Water: Combining Chemical Intuition with Unsupervised Learning. J Chem Theory Comput 2022; 18:3136-3150. [PMID: 35472272 DOI: 10.1021/acs.jctc.1c01292] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The microscopic description of the local structure of water remains an open challenge. Here, we adopt an agnostic approach to understanding water's hydrogen bond network using data harvested from molecular dynamics simulations of an empirical water model. A battery of state-of-the-art unsupervised data-science techniques are used to characterize the free-energy landscape of water starting from encoding the water environment using local atomic descriptors, through dimensionality reduction and finally the use of advanced clustering techniques. Analysis of the free energy under ambient conditions was found to be consistent with a rough single basin and independent of the choice of the water model. We find that the fluctuations of the water network occur in a high-dimensional space, which we characterize using a combination of both atomic descriptors and chemical-intuition-based coordinates. We demonstrate that a combination of both types of variables is needed in order to adequately capture the complexity of the fluctuations in the hydrogen bond network at different length scales both at room temperature and also close to the critical point of water. Our results provide a general framework for examining fluctuations in water under different conditions.
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Affiliation(s)
- Adu Offei-Danso
- The Abdus Salam International Center for Theoretical Physics, Strada Costiera 11, 34151 Trieste, Italy.,SISSA─International School for Advanced Studies, Via Bonomea 265, 34136 Trieste, Italy
| | - Ali Hassanali
- The Abdus Salam International Center for Theoretical Physics, Strada Costiera 11, 34151 Trieste, Italy
| | - Alex Rodriguez
- The Abdus Salam International Center for Theoretical Physics, Strada Costiera 11, 34151 Trieste, Italy
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11
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Feng Y, Fang H, Gao Y, Ni K. Hierarchical clustering analysis of hydrogen bond networks in aqueous solutions. Phys Chem Chem Phys 2022; 24:9707-9717. [PMID: 35412542 DOI: 10.1039/d2cp00099g] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Abstract
To understand the relation between the macroscopic properties and microscopic structure of hydrogen bond networks in solutions, we introduced a hierarchical clustering method to analyze the typical configurations of water clusters in this type of network. Regarding hydrogen bonds as frames, the rings, fragments and clusters are defined and analyzed to provide a comprehensive perspective for the distributional and dynamic characteristics of the hydrogen-bonding network in NaCl solution at different concentrations. The properties of the radial distribution function and hydrogen bonds are first analyzed. Destruction and shorter lifetimes of hydrogen bonds are observed in solutions. In further analysis of the two-dimensional configuration, i.e., ring, and three-dimensional configuration, i.e., fragment, the average number, size and lifetime of these structures consistently decrease as the concentration increases. Ionic effects on disrupting rings and fragments are significant in the first hydration shell, especially with sodium cations, and these effects weaken beyond the first hydration shell. Regarding the clusters obtained using the Louvain algorithm, our results indicate that clusters break and become smaller as the NaCl concentration increases. The presence of ions also leads to the isolation of clusters and therefore the inhibition of changes. The lifetime of clusters increases with NaCl concentration, indicating the slowed breakage and reformation of clusters in NaCl solutions. This method can be further applied to quantitatively characterize hydrogen bond networks to elucidate more properties of aqueous solutions.
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Affiliation(s)
- Yixuan Feng
- State Key Laboratory of Hydro-science and Engineering, Department of Hydraulic Engineering, Tsinghua University, Beijing 100084, China.
| | - Hongwei Fang
- State Key Laboratory of Hydro-science and Engineering, Department of Hydraulic Engineering, Tsinghua University, Beijing 100084, China.
| | - Yitian Gao
- State Key Laboratory of Hydro-science and Engineering, Department of Hydraulic Engineering, Tsinghua University, Beijing 100084, China.
| | - Ke Ni
- State Key Laboratory of Hydro-science and Engineering, Department of Hydraulic Engineering, Tsinghua University, Beijing 100084, China.
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12
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Malik S, Debnath A. Structural Changes of Interfacial Water upon Fluid-Ripple-Gel Phase Transitions of Bilayers. Chem Phys Lett 2022. [DOI: 10.1016/j.cplett.2022.139613] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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13
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Villa AM, Doglia SM, De Gioia L, Natalello A, Bertini L. Fluorescence of KCl Aqueous Solution: A Possible Spectroscopic Signature of Nucleation. J Phys Chem B 2022; 126:2564-2572. [PMID: 35344657 PMCID: PMC8996234 DOI: 10.1021/acs.jpcb.2c01496] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/03/2022]
Abstract
![]()
Ion pairing
in water solutions alters both the water hydrogen-bond network and
ion solvation, modifying the dynamics and properties of electrolyte
water solutions. Here, we report an anomalous intrinsic fluorescence
of KCl aqueous solution at room temperature and show that its intensity
increases with the salt concentration. From the ab initio density
functional theory (DFT) and time-dependent DFT modeling, we propose
that the fluorescence emission could originate from the stiffening
of the hydrogen bond network in the hydration shell of solvated ion-pairs
that suppresses the fast nonradiative decay and allows the slower
radiative channel to become a possible decay pathway. Because computations
suggest that the fluorophores are the local ion-water structures present
in the prenucleation phase, this band could be the signature of the
incoming salt precipitation.
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Affiliation(s)
- Anna Maria Villa
- Department of Biotechnology and Biosciences, University of Milano-Bicocca, Piazza della Scienza 2, 20126 Milan, Italy
| | - Silvia Maria Doglia
- Department of Biotechnology and Biosciences, University of Milano-Bicocca, Piazza della Scienza 2, 20126 Milan, Italy
| | - Luca De Gioia
- Department of Biotechnology and Biosciences, University of Milano-Bicocca, Piazza della Scienza 2, 20126 Milan, Italy
| | - Antonino Natalello
- Department of Biotechnology and Biosciences, University of Milano-Bicocca, Piazza della Scienza 2, 20126 Milan, Italy
| | - Luca Bertini
- Department of Biotechnology and Biosciences, University of Milano-Bicocca, Piazza della Scienza 2, 20126 Milan, Italy
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14
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Scollo F, Evci H, Amaro M, Jurkiewicz P, Sykora J, Hof M. What Does Time-Dependent Fluorescence Shift (TDFS) in Biomembranes (and Proteins) Report on? Front Chem 2021; 9:738350. [PMID: 34778202 PMCID: PMC8586494 DOI: 10.3389/fchem.2021.738350] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2021] [Accepted: 09/21/2021] [Indexed: 11/17/2022] Open
Abstract
The organization of biomolecules and bioassemblies is highly governed by the nature and extent of their interactions with water. These interactions are of high intricacy and a broad range of methods based on various principles have been introduced to characterize them. As these methods view the hydration phenomena differently (e.g., in terms of time and length scales), a detailed insight in each particular technique is to promote the overall understanding of the stunning “hydration world.” In this prospective mini-review we therefore critically examine time-dependent fluorescence shift (TDFS)—an experimental method with a high potential for studying the hydration in the biological systems. We demonstrate that TDFS is very useful especially for phospholipid bilayers for mapping the interfacial region formed by the hydrated lipid headgroups. TDFS, when properly applied, reports on the degree of hydration and mobility of the hydrated phospholipid segments in the close vicinity of the fluorophore embedded in the bilayer. Here, the interpretation of the recorded TDFS parameters are thoroughly discussed, also in the context of the findings obtained by other experimental techniques addressing the hydration phenomena (e.g., molecular dynamics simulations, NMR spectroscopy, scattering techniques, etc.). The differences in the interpretations of TDFS outputs between phospholipid biomembranes and proteins are also addressed. Additionally, prerequisites for the successful TDFS application are presented (i.e., the proper choice of fluorescence dye for TDFS studies, and TDFS instrumentation). Finally, the effects of ions and oxidized phospholipids on the bilayer organization and headgroup packing viewed from TDFS perspective are presented as application examples.
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Affiliation(s)
- Federica Scollo
- J. Heyrovský Institute of Physical Chemistry of the CAS, Prague, Czechia
| | - Hüseyin Evci
- J. Heyrovský Institute of Physical Chemistry of the CAS, Prague, Czechia
| | - Mariana Amaro
- J. Heyrovský Institute of Physical Chemistry of the CAS, Prague, Czechia
| | - Piotr Jurkiewicz
- J. Heyrovský Institute of Physical Chemistry of the CAS, Prague, Czechia
| | - Jan Sykora
- J. Heyrovský Institute of Physical Chemistry of the CAS, Prague, Czechia
| | - Martin Hof
- J. Heyrovský Institute of Physical Chemistry of the CAS, Prague, Czechia
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15
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Donor-acceptor structure and dynamics: Molecular dynamics simulation study of TIP4P/2005 water model. Chem Phys Lett 2021. [DOI: 10.1016/j.cplett.2021.138581] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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16
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Influence of external static and alternating electric fields on self-diffusion of water from molecular dynamics. J Mol Liq 2021. [DOI: 10.1016/j.molliq.2020.114788] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
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17
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18
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Shiraga K, Fujii Y, Koreeda A, Tanaka K, Arikawa T, Ogawa Y. Dynamical Collectivity and Nuclear Quantum Effects on the Intermolecular Stretching Mode of Liquid Water. J Phys Chem B 2021; 125:1632-1639. [PMID: 33393775 DOI: 10.1021/acs.jpcb.0c10154] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
This study investigated the broadband terahertz and low-frequency Raman spectroscopy of liquid water (H2O, D2O, and H218O) over 2 decades of frequency to address long-standing challenges regarding the interpretation of the intermolecular stretching mode at around 5 THz. We experimentally demonstrated that the intermolecular stretching mode of liquid water obtained via terahertz spectroscopy is significantly redshifted and broadened compared with that via Raman. This result was rationalized by the enhanced dynamical collectivity probed by terahertz spectroscopy, although both have a common origin in the kinetic motion. Their temperature and isotope dependences emphasize the significance of oscillation mass in determining the intermolecular stretching lineshape, while quantum effects cannot be overlooked in both terahertz and low-frequency Raman spectra.
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Affiliation(s)
- Keiichiro Shiraga
- Graduate School of Agriculture, Kyoto University, Kyoto 606-8502, Japan.,RIKEN Center for Integrative Medical Sciences, Yokohama 230-0045, Japan
| | - Yasuhiro Fujii
- Department of Physical Sciences, Ritsumeikan University, Kusatsu 525-8577, Japan
| | - Akitoshi Koreeda
- Department of Physical Sciences, Ritsumeikan University, Kusatsu 525-8577, Japan
| | - Koichiro Tanaka
- Department of Physics, Graduate School of Science, Kyoto University, Kyoto 606-8502, Japan.,Institute for Integrated Cell-Material Sciences (iCeMS), Kyoto University, Kyoto 606-8501, Japan
| | - Takashi Arikawa
- Department of Physics, Graduate School of Science, Kyoto University, Kyoto 606-8502, Japan
| | - Yuichi Ogawa
- Graduate School of Agriculture, Kyoto University, Kyoto 606-8502, Japan
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19
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Ojha D, Kühne TD. Hydrogen bond dynamics of interfacial water molecules revealed from two-dimensional vibrational sum-frequency generation spectroscopy. Sci Rep 2021; 11:2456. [PMID: 33510246 PMCID: PMC7844302 DOI: 10.1038/s41598-021-81635-4] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2020] [Accepted: 01/06/2021] [Indexed: 11/17/2022] Open
Abstract
Vibrational sum-frequency generation (vSFG) spectroscopy allows the study of the structure and dynamics of interfacial systems. In the present work, we provide a simple recipe, based on a narrowband IR pump and broadband vSFG probe technique, to computationally obtain the two-dimensional vSFG spectrum of water molecules at the air-water interface. Using this technique, to study the time-dependent spectral evolution of hydrogen-bonded and free water molecules, we demonstrate that at the interface, the vibrational spectral dynamics of the free OH bond is faster than that of the bonded OH mode.
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Affiliation(s)
- Deepak Ojha
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Chair of Theoretical Chemistry, Paderborn University, Warburger Str. 100, 33098, Paderborn, Germany
| | - Thomas D Kühne
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Chair of Theoretical Chemistry, Paderborn University, Warburger Str. 100, 33098, Paderborn, Germany.
- Paderborn Center for Parallel Computing and Institute for Lightweight Design, Paderborn University, Warburger Str. 100, 33098, Paderborn, Germany.
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20
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Vibrational couplings and energy transfer pathways of water's bending mode. Nat Commun 2020; 11:5977. [PMID: 33239630 PMCID: PMC7688972 DOI: 10.1038/s41467-020-19759-w] [Citation(s) in RCA: 31] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2020] [Accepted: 10/26/2020] [Indexed: 12/15/2022] Open
Abstract
Coupling between vibrational modes is essential for energy transfer and dissipation in condensed matter. For water, different O-H stretch modes are known to be very strongly coupled both within and between water molecules, leading to ultrafast dissipation and delocalization of vibrational energy. In contrast, the information on the vibrational coupling of the H-O-H bending mode of water is lacking, even though the bending mode is an essential intermediate for the energy relaxation pathway from the stretch mode to the heat bath. By combining static and femtosecond infrared, Raman, and hyper-Raman spectroscopies for isotopically diluted water with ab initio molecular dynamics simulations, we find the vibrational coupling of the bending mode differs significantly from the stretch mode: the intramode intermolecular coupling of the bending mode is very weak, in stark contrast to the stretch mode. Our results elucidate the vibrational energy transfer pathways of water. Specifically, the librational motion is essential for the vibrational energy relaxation and orientational dynamics of H-O-H bending mode. Vibrational energy transfer in water involves intermolecular coupling of O-H stretching modes, but much less is known about the role of the bending modes. Here the authors, combining static and femtosecond infrared, Raman, and hyper-Raman spectroscopy and ab initio molecular dynamics simulations, provide insight into the energy dynamics of the bend vibrations.
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21
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Cuny J, Cerda Calatayud J, Ansari N, Hassanali AA, Rapacioli M, Simon A. Simulation of Liquids with the Tight-Binding Density-Functional Approach and Improved Atomic Charges. J Phys Chem B 2020; 124:7421-7432. [PMID: 32696649 DOI: 10.1021/acs.jpcb.0c04167] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Theoretical description of liquids, especially liquid water, is an ongoing subject with important implications in various domains such as homogeneous catalysis; solvation of molecular, ionic, and biomolecular species; and reactivity. Various formalisms exist to describe liquids, each one displaying its own balance between accuracy and computational cost that defines its range of applications. The present article revisits the ability of the density-functional-based tight-binding (SCC-DFTB) approach to model liquids by focusing on liquid water and liquid benzene under ambient conditions. To do so, we benchmark a recent correction for the SCC-DFTB atomic charges that allows for a drastic improvement of the pair radial distribution functions of liquid water as compared to both experimental data and density-functional theory results performed in the generalized-gradient approximation. We also report the coupling of the deMonNano and i-PI codes to perform path-integral molecular dynamics. This allows us to rationalize the impact of nuclear quantum effects on the SCC-DFTB description of liquid water. This study evidences the rather good ability of SCC-DFTB to describe liquid water and liquid benzene. As the first example of application, we also present results for a benzene molecule solvated in water with the perspectives of further studies devoted to solvent/water interfaces.
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Affiliation(s)
- Jérôme Cuny
- Laboratoire de Chimie et Physique Quantiques (LCPQ), Université de Toulouse III [UPS] and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Jesus Cerda Calatayud
- Laboratoire de Chimie et Physique Quantiques (LCPQ), Université de Toulouse III [UPS] and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Narjes Ansari
- The Abdus Salam International Center for Theoretical Physics, Condensed Matter and Statistical Physics Section, Strada Costiera 11, 34151 Trieste, Italy.,Department of Chemistry and Applied Biosciences, ETH Zurich, 3 c/o USI Campus, Via Giuseppe Buffi13, 6900 Lugano, Switzerland.,Facoltà di informatica, Istituto di Scienze Computazionali, Università della Svizzera Italiana, CH-6900 Lugano, Switzerland
| | - Ali A Hassanali
- The Abdus Salam International Center for Theoretical Physics, Condensed Matter and Statistical Physics Section, Strada Costiera 11, 34151 Trieste, Italy
| | - Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques (LCPQ), Université de Toulouse III [UPS] and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Aude Simon
- Laboratoire de Chimie et Physique Quantiques (LCPQ), Université de Toulouse III [UPS] and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
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22
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Prasad M, English NJ, Nath Chakraborty S. Relaxation dynamics and power spectra of liquid water: a molecular dynamics simulation study. Mol Phys 2020. [DOI: 10.1080/00268976.2020.1733117] [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]
Affiliation(s)
- Mahabir Prasad
- Department of Chemistry, Sikkim University, Gangtok, India
| | - Niall J. English
- School of Chemical and Bioprocess Engineering, University College Dublin, Dublin, Ireland
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23
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Ivanov AA, Pozmogova TN, Solovieva AO, Frolova TS, Sinitsyna OI, Lundovskaya OV, Tsygankova AR, Haouas M, Landy D, Benassi E, Shestopalova LV, Falaise C, Cadot E, Shestopalov MA, Abramov PA, Sokolov MN. From Specific γ-CD/[Nb 6 Cl 12 (H 2 O) 6 ] 2+ Recognition to Biological Activity Tuning. Chemistry 2020; 26:7479-7485. [PMID: 32181923 DOI: 10.1002/chem.202000739] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2020] [Revised: 03/12/2020] [Indexed: 11/06/2022]
Abstract
Specific molecular recognition of γ-cyclodextrin (γ-CD) by the cationic hexanuclear niobium [Nb6 Cl12 (H2 O)6 ]2+ cluster complex in aqueous solutions results in a 1:1 supramolecular assembly {[Nb6 Cl12 (H2 O)6 ]@γ-CD}2+ . NMR spectroscopy, isothermal titration calorimetry (ITC), and ESI-MS were used to study the interaction between the inorganic cluster and the organic macrocycle. Such molecular association affects the biological activity of [Nb6 Cl12 (H2 O)6 ]2+ , decreasing its cytotoxicity despite enhanced cellular uptake. The 1:1 stoichiometry is maintained in solution over a large window of the reagents' ratio, but crystallization by slow evaporation produces a 1:2 host-guest complex [Nb6 Cl12 (H2 O)6 @(γ-CD)2 ]Cl2 ⋅20 H2 O featuring the cluster encapsulated between two molecules of γ-CD. The 1:2 complex was characterized by XRD, elemental analysis, IR spectroscopy, and thermogravimetric analysis (TGA). Quantum chemical calculations were performed to model host-guest interaction.
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Affiliation(s)
- Anton A Ivanov
- Nikolaev Institute of Inorganic Chemistry SB RAS, 3 acad. Lavrentiev ave., 630090, Novosibirsk, Russia
| | - Tatiana N Pozmogova
- Novosibirsk State University, 2 Pirogova st., 630090, Novosibirsk, Russia.,Research Institute of Clinical and Experimental Lymphology, Branch of the ICG SB RAS, 2 Timakova st., 630117, Novosibirsk, Russia
| | - Anastasiya O Solovieva
- Research Institute of Clinical and Experimental Lymphology, Branch of the ICG SB RAS, 2 Timakova st., 630117, Novosibirsk, Russia.,Federal Research Center of Fundamental and Translational Medicine, 2 Timakova st., 630117, Novosibirsk, Russia
| | - Tatiana S Frolova
- Novosibirsk State University, 2 Pirogova st., 630090, Novosibirsk, Russia.,Federal Research Center of Fundamental and Translational Medicine, 2 Timakova st., 630117, Novosibirsk, Russia.,Federal Research Center Institute of Cytology and Genetics SB RAS, 10 acad. Lavrentiev ave., 630090, Novosibirsk, Russia
| | - Olga I Sinitsyna
- Novosibirsk State University, 2 Pirogova st., 630090, Novosibirsk, Russia.,Federal Research Center Institute of Cytology and Genetics SB RAS, 10 acad. Lavrentiev ave., 630090, Novosibirsk, Russia
| | - Olga V Lundovskaya
- Nikolaev Institute of Inorganic Chemistry SB RAS, 3 acad. Lavrentiev ave., 630090, Novosibirsk, Russia
| | - Alphiya R Tsygankova
- Nikolaev Institute of Inorganic Chemistry SB RAS, 3 acad. Lavrentiev ave., 630090, Novosibirsk, Russia.,Novosibirsk State University, 2 Pirogova st., 630090, Novosibirsk, Russia
| | - Mohamed Haouas
- Institut Lavoisier de Versailles, CNRS, UVSQ, Université Paris-Saclay, 45 avenue des Etats-Unis, 78035, Versailles, France
| | - David Landy
- Unité de Chimie Environnementale et Interactions sur le Vivant, (UCEIV, EA 4492), ULCO, 145, Avenue Maurice Schumann, MREI 1, 59140, Dunkerque, France
| | - Enrico Benassi
- Novosibirsk State University, 2 Pirogova st., 630090, Novosibirsk, Russia.,Shihezi University, 280 N 4th Rd, Shihezi, 832000, Xinjiang, P. R. China
| | | | - Clément Falaise
- Institut Lavoisier de Versailles, CNRS, UVSQ, Université Paris-Saclay, 45 avenue des Etats-Unis, 78035, Versailles, France
| | - Emmanuel Cadot
- Institut Lavoisier de Versailles, CNRS, UVSQ, Université Paris-Saclay, 45 avenue des Etats-Unis, 78035, Versailles, France
| | - Michael A Shestopalov
- Nikolaev Institute of Inorganic Chemistry SB RAS, 3 acad. Lavrentiev ave., 630090, Novosibirsk, Russia
| | - Pavel A Abramov
- Nikolaev Institute of Inorganic Chemistry SB RAS, 3 acad. Lavrentiev ave., 630090, Novosibirsk, Russia.,South Ural State University, 76 Lenina st., 454080, Chelyabinsk, Russia
| | - Maxim N Sokolov
- Nikolaev Institute of Inorganic Chemistry SB RAS, 3 acad. Lavrentiev ave., 630090, Novosibirsk, Russia.,Novosibirsk State University, 2 Pirogova st., 630090, Novosibirsk, Russia
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24
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Kühne TD, Iannuzzi M, Del Ben M, Rybkin VV, Seewald P, Stein F, Laino T, Khaliullin RZ, Schütt O, Schiffmann F, Golze D, Wilhelm J, Chulkov S, Bani-Hashemian MH, Weber V, Borštnik U, Taillefumier M, Jakobovits AS, Lazzaro A, Pabst H, Müller T, Schade R, Guidon M, Andermatt S, Holmberg N, Schenter GK, Hehn A, Bussy A, Belleflamme F, Tabacchi G, Glöß A, Lass M, Bethune I, Mundy CJ, Plessl C, Watkins M, VandeVondele J, Krack M, Hutter J. CP2K: An electronic structure and molecular dynamics software package - Quickstep: Efficient and accurate electronic structure calculations. J Chem Phys 2020; 152:194103. [PMID: 33687235 DOI: 10.1063/5.0007045] [Citation(s) in RCA: 997] [Impact Index Per Article: 249.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023] Open
Abstract
CP2K is an open source electronic structure and molecular dynamics software package to perform atomistic simulations of solid-state, liquid, molecular, and biological systems. It is especially aimed at massively parallel and linear-scaling electronic structure methods and state-of-the-art ab initio molecular dynamics simulations. Excellent performance for electronic structure calculations is achieved using novel algorithms implemented for modern high-performance computing systems. This review revisits the main capabilities of CP2K to perform efficient and accurate electronic structure simulations. The emphasis is put on density functional theory and multiple post-Hartree-Fock methods using the Gaussian and plane wave approach and its augmented all-electron extension.
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Affiliation(s)
- Thomas D Kühne
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Chair of Theoretical Chemistry, Paderborn University, Warburger Str. 100, D-33098 Paderborn, Germany
| | - Marcella Iannuzzi
- Department of Chemistry, University of Zurich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
| | - Mauro Del Ben
- Computational Research Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
| | - Vladimir V Rybkin
- Department of Chemistry, University of Zurich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
| | - Patrick Seewald
- Department of Chemistry, University of Zurich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
| | - Frederick Stein
- Department of Chemistry, University of Zurich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
| | - Teodoro Laino
- IBM Research Europe, CH-8803 Rüschlikon, Switzerland
| | - Rustam Z Khaliullin
- Department of Chemistry, McGill University, CH-801 Sherbrooke St. West, Montreal, Quebec H3A 0B8, Canada
| | - Ole Schütt
- Department of Materials, ETH Zürich, CH-8092 Zürich, Switzerland
| | | | - Dorothea Golze
- Department of Applied Physics, Aalto University, Otakaari 1, FI-02150 Espoo, Finland
| | - Jan Wilhelm
- Institute of Theoretical Physics, University of Regensburg, Universitätsstraße 31, D-93053 Regensburg, Germany
| | - Sergey Chulkov
- School of Mathematics and Physics, University of Lincoln, Brayford Pool, Lincoln, United Kingdom
| | | | - Valéry Weber
- IBM Research Europe, CH-8803 Rüschlikon, Switzerland
| | | | | | | | | | - Hans Pabst
- Intel Extreme Computing, Software and Systems, Zürich, Switzerland
| | - Tiziano Müller
- Department of Chemistry, University of Zurich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
| | - Robert Schade
- Department of Computer Science and Paderborn Center for Parallel Computing, Paderborn University, Warburger Str. 100, D-33098 Paderborn, Germany
| | - Manuel Guidon
- Department of Chemistry, University of Zurich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
| | - Samuel Andermatt
- Integrated Systems Laboratory, ETH Zürich, CH-8092 Zürich, Switzerland
| | - Nico Holmberg
- Department of Chemistry and Materials Science, Aalto University, P.O. Box 16100, 00076 Aalto, Finland
| | - Gregory K Schenter
- Physical Science Division, Pacific Northwest National Laboratory, P.O. Box 999, Richland, Washington 99352, USA
| | - Anna Hehn
- Department of Chemistry, University of Zurich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
| | - Augustin Bussy
- Department of Chemistry, University of Zurich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
| | - Fabian Belleflamme
- Department of Chemistry, University of Zurich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
| | - Gloria Tabacchi
- Department of Science and High Technology, University of Insubria and INSTM, via Valleggio 9, I-22100 Como, Italy
| | - Andreas Glöß
- BASF SE, Carl-Bosch-Straße 38, D-67056 Ludwigshafen am Rhein, Germany
| | - Michael Lass
- Department of Computer Science and Paderborn Center for Parallel Computing, Paderborn University, Warburger Str. 100, D-33098 Paderborn, Germany
| | - Iain Bethune
- Hartree Centre, Science and Technology Facilities Council, Sci-Tech Daresbury, Warrington WA4 4AD, United Kingdom
| | - Christopher J Mundy
- Physical Science Division, Pacific Northwest National Laboratory, P.O. Box 999, Richland, Washington 99352, USA
| | - Christian Plessl
- Department of Computer Science and Paderborn Center for Parallel Computing, Paderborn University, Warburger Str. 100, D-33098 Paderborn, Germany
| | - Matt Watkins
- School of Mathematics and Physics, University of Lincoln, Brayford Pool, Lincoln, United Kingdom
| | - Joost VandeVondele
- Swiss National Supercomputing Centre (CSCS), ETH Zürich, Zürich, Switzerland
| | - Matthias Krack
- Laboratory for Scientific Computing and Modelling, Paul Scherrer Institute, CH-5232 Villigen PSI, Switzerland
| | - Jürg Hutter
- Department of Chemistry, University of Zurich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
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25
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Gujt J, Zimmer P, Zysk F, Süß V, Felser C, Bauer M, Kühne TD. Water structure near the surface of Weyl semimetals as catalysts in photocatalytic proton reduction. STRUCTURAL DYNAMICS (MELVILLE, N.Y.) 2020; 7:034101. [PMID: 32478126 PMCID: PMC7228780 DOI: 10.1063/4.0000008] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/02/2020] [Accepted: 04/22/2020] [Indexed: 06/11/2023]
Abstract
In this work, second-generation Car-Parrinello-based mixed quantum-classical mechanics molecular dynamics simulations of small nanoparticles of NbP, NbAs, TaAs, and 1T-TaS2 in water are presented. The first three materials are topological Weyl semimetals, which were recently discovered to be active catalysts in photocatalytic water splitting. The aim of this research was to correlate potential differences in the water structure in the vicinity of the nanoparticle surface with the photocatalytic activity of these materials in light induced proton reduction. The results presented herein allow explaining the catalytic activity of these Weyl semimetals: the most active material, NbP, exhibits a particularly low water coordination near the surface of the nanoparticle, whereas for 1T-TaS2, with the lowest catalytic activity, the water structure at the surface is most ordered. In addition, the photocatalytic activity of several organic and metalorganic photosensitizers in the hydrogen evolution reaction was experimentally investigated with NbP as the proton reduction catalyst. Unexpectedly, the charge of the photosensitizer plays a decisive role for the photocatalytic performance.
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Affiliation(s)
- Jure Gujt
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Paderborn University, Warburger Str. 100, D-33098 Paderborn, Germany
| | - Peter Zimmer
- Department of Chemistry, Paderborn University, Warburger Str. 100, D-33098 Paderborn, Germany
| | - Frederik Zysk
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Paderborn University, Warburger Str. 100, D-33098 Paderborn, Germany
| | - Vicky Süß
- Max Planck Institute for Chemical Physics of Solids, Nöthnitzer Str. 40, D-01187 Dresden, Germany
| | - Claudia Felser
- Max Planck Institute for Chemical Physics of Solids, Nöthnitzer Str. 40, D-01187 Dresden, Germany
| | - Matthias Bauer
- Department of Chemistry, Paderborn University, Warburger Str. 100, D-33098 Paderborn, Germany
| | - Thomas D. Kühne
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Paderborn University, Warburger Str. 100, D-33098 Paderborn, Germany
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26
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Belosludov V, Gets K, Zhdanov R, Malinovsky V, Bozhko Y, Belosludov R, Surovtsev N, Subbotin O, Kawazoe Y. The nano-structural inhomogeneity of dynamic hydrogen bond network of TIP4P/2005 water. Sci Rep 2020; 10:7323. [PMID: 32355196 PMCID: PMC7192952 DOI: 10.1038/s41598-020-64210-1] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2018] [Accepted: 04/03/2020] [Indexed: 11/09/2022] Open
Abstract
A method for studying the time dependence of the short-range molecular order of water has been proposed. In the present study, water is considered as a dynamic network between molecules at distances not exceeding 3.2 Å. The instantaneous configurations obtained with the molecular dynamics method have been sequentially analyzed. The mutual orientation of each molecule with its neighboring molecules has been studied and the interaction energy of each pair of neighbor molecules has been calculated. The majority of mutual orientation angles between molecules lie in the interval [0°; 20°]. More than 85% of the molecular pairs in each instantaneous configuration form H-bonds and the H-bond network includes all water molecules in the temperature range 233-293 K. The number of H-bonds fluctuates near the mean value and increases with decreasing temperature, and the energy of the vast majority of such bonds is much higher than the thermal energy. The interaction energy of 80% of the H-bonding molecular pairs lies in the interval [-7; -4] kcal/mol. The interaction energy of pairs that do not satisfy the H-bond angle criterion lies in the interval [-5; 4] kcal/mol; the number of such bonds does not exceed 15% and decreases with decreasing temperature. For the first time it has been found that in each instantaneous configuration the H-bond network contains built-in nanometric structural heterogeneities formed by shorter H-bonds. The fraction of molecules involved in the structural heterogeneities increases from 40% to 60% with a temperature decrease from 293 K to 233 K. Each heterogeneity has a finite lifetime and changeable structure, but they are constantly present during the entire simulation time.
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Affiliation(s)
- Vladimir Belosludov
- Department of Physics, Novosibirsk State University, 630090, Novosibirsk, Russia.
- Nikolaev Institute of Inorganic Chemistry SB RAS, 630090, Novosibirsk, Russia.
| | - Kirill Gets
- Department of Physics, Novosibirsk State University, 630090, Novosibirsk, Russia.
- Nikolaev Institute of Inorganic Chemistry SB RAS, 630090, Novosibirsk, Russia.
| | - Ravil Zhdanov
- Department of Physics, Novosibirsk State University, 630090, Novosibirsk, Russia
- Nikolaev Institute of Inorganic Chemistry SB RAS, 630090, Novosibirsk, Russia
| | - Valery Malinovsky
- Institute of Automation and Electrometry SB RAS, 630090, Novosibirsk, Russia
| | - Yulia Bozhko
- Department of Physics, Novosibirsk State University, 630090, Novosibirsk, Russia
- Nikolaev Institute of Inorganic Chemistry SB RAS, 630090, Novosibirsk, Russia
| | - Rodion Belosludov
- Institute for Materials Research, Tohoku University, 980-8577, Sendai, Japan
| | - Nikolay Surovtsev
- Institute of Automation and Electrometry SB RAS, 630090, Novosibirsk, Russia
| | - Oleg Subbotin
- Department of Physics, Novosibirsk State University, 630090, Novosibirsk, Russia
- Nikolaev Institute of Inorganic Chemistry SB RAS, 630090, Novosibirsk, Russia
| | - Yoshiyuki Kawazoe
- New Industry Creation Hatchery Center, Tohoku University, 980-8579, Sendai, Japan
- Department of Physics and Nanotechnology, SRM Institute of Science and Technology, 603203, Chennai, Tamil Nadu, India
- Suranaree University of Technology, 30000, Nakhon Ratchasima, Thailand
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27
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Sahoo SK, Heske J, Azadi S, Zhang Z, Tarakina NV, Oschatz M, Khaliullin RZ, Antonietti M, Kühne TD. On the Possibility of Helium Adsorption in Nitrogen Doped Graphitic Materials. Sci Rep 2020; 10:5832. [PMID: 32242048 PMCID: PMC7118168 DOI: 10.1038/s41598-020-62638-z] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2020] [Accepted: 03/17/2020] [Indexed: 11/29/2022] Open
Abstract
The potassium salt of polyheptazine imide (K-PHI) is a promising photocatalyst for various chemical reactions. From powder X-ray diffraction data an idealized structural model of K-PHI has been derived. Using atomic coordinates of this model we defined an energetically optimized K-PHI structure, in which the K ions are present in the pore and between the PHI-planes. The distance between the anion framework and K+ resembles a frustrated Lewis pair-like structure, which we denote as frustrated Coulomb pair that results in an interesting adsorption environment for otherwise non-adsorbing, non-polar gas molecules. We demonstrate that even helium (He) gas molecules, which are known to have the lowest boiling point and the lowest intermolecular interactions, can be adsorbed in this polarized environment with an adsorption energy of - 4.6 kJ mol-1 per He atom. The interaction between He atoms and K-PHI is partially originating from charge transfer, as disclosed by our energy decomposition analysis based on absolutely localized molecular orbitals. Due to very small charge transfer interactions, He gas adsorption saturates at 8 at%, which however can be subject to further improvement by cation variation.
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Affiliation(s)
- Sudhir K Sahoo
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Chair of Theoretical Chemistry, University of Paderborn, Warburger Str. 100, D-33098, Paderborn, Germany
| | - Julian Heske
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Chair of Theoretical Chemistry, University of Paderborn, Warburger Str. 100, D-33098, Paderborn, Germany
- Department of Colloid Chemistry, Max Planck Institute of Colloids and Interfaces, Am Mühlenberg 1, D-14476, Potsdam, Germany
| | - Sam Azadi
- Department of Physics, King's College London, Strand, London, WC2R 2L, United Kingdom
- Department of Physics, Imperial College London, Exhibition Road, London, SW7 2AZ, United Kingdom
| | - Zhenzhe Zhang
- Department of Chemistry, McGill University, 801 Sherbrooke Str. West, Montreal, Quebec, H3A 0B8, Canada
| | - Nadezda V Tarakina
- Department of Colloid Chemistry, Max Planck Institute of Colloids and Interfaces, Am Mühlenberg 1, D-14476, Potsdam, Germany
| | - Martin Oschatz
- Department of Colloid Chemistry, Max Planck Institute of Colloids and Interfaces, Am Mühlenberg 1, D-14476, Potsdam, Germany
- University of Potsdam, Institute of Chemistry, Karl-Liebknecht-Str. 24-25, D-14476, Potsdam, Germany
| | - Rustam Z Khaliullin
- Department of Chemistry, McGill University, 801 Sherbrooke Str. West, Montreal, Quebec, H3A 0B8, Canada
| | - Markus Antonietti
- Department of Colloid Chemistry, Max Planck Institute of Colloids and Interfaces, Am Mühlenberg 1, D-14476, Potsdam, Germany
| | - Thomas D Kühne
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Chair of Theoretical Chemistry, University of Paderborn, Warburger Str. 100, D-33098, Paderborn, Germany.
- Paderborn Center for Parallel Computing and Institute for Lightweight Design, University of Paderborn, Warburger Str. 100, D-33098, Paderborn, Germany.
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Charge transfer as a ubiquitous mechanism in determining the negative charge at hydrophobic interfaces. Nat Commun 2020; 11:901. [PMID: 32060273 PMCID: PMC7021814 DOI: 10.1038/s41467-020-14659-5] [Citation(s) in RCA: 57] [Impact Index Per Article: 14.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2019] [Accepted: 01/22/2020] [Indexed: 01/17/2023] Open
Abstract
The origin of the apparent negative charge at hydrophobic–water interfaces has fueled debates in the physical chemistry community for decades. The most common interpretation given to explain this observation is that negatively charged hydroxide ions (OH–) bind strongly to the interfaces. Using first principles calculations of extended air–water and oil–water interfaces, we unravel a mechanism that does not require the presence of OH–. Small amounts of charge transfer along hydrogen bonds and asymmetries in the hydrogen bond network due to topological defects can lead to the accumulation of negative surface charge at both interfaces. For water near oil, some spillage of electron density into the oil phase is also observed. The computed surface charge densities at both interfaces is approximately \documentclass[12pt]{minimal}
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\begin{document}$$-0.015\ {\rm{e}}/{{\rm{nm}}}^{2}$$\end{document}−0.015e∕nm2 in agreement with electrophoretic experiments. We also show, using an energy decomposition analysis, that the electronic origin of this phenomena is rooted in a collective polarization/charge transfer effect. The accumulation of negative charge at hydrophobic–water interfaces has been a source of debate for a long time. Here the authors use ab initio calculations to show that the charge accumulation at air–water and oil–water interfaces is caused by subtle charge transfer processes.
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29
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Elgabarty H, Kühne TD. Tumbling with a limp: local asymmetry in water's hydrogen bond network and its consequences. Phys Chem Chem Phys 2020; 22:10397-10411. [DOI: 10.1039/c9cp06960g] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Ab initio molecular dynamics simulations of ambient liquid water and energy decomposition analysis have recently shown that water molecules exhibit significant asymmetry between the strengths of the two donor and/or the two acceptor interactions.
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Affiliation(s)
- Hossam Elgabarty
- Dynamics of Condensed Matter and Center for Sustainable Systems Design
- Chair of Theoretical Chemistry
- University of Paderborn
- Paderborn
- Germany
| | - Thomas D. Kühne
- Dynamics of Condensed Matter and Center for Sustainable Systems Design
- Chair of Theoretical Chemistry
- University of Paderborn
- Paderborn
- Germany
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30
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Ojha D, Kaliannan NK, Kühne TD. Time-dependent vibrational sum-frequency generation spectroscopy of the air-water interface. Commun Chem 2019. [DOI: 10.1038/s42004-019-0220-6] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023] Open
Abstract
Abstract
Vibrational sum-frequency generation spectroscopy is a powerful method to study the microscopic structure and dynamics of interfacial systems. Here we demonstrate a simple computational approach to calculate the time-dependent, frequency-resolved vibrational sum-frequency generation spectrum (TD-vSFG) of the air-water interface. Using this approach, we show that at the air-water interface, the transition of water molecules with bonded OH modes to free OH modes occurs at a time scale of $$\sim$$
~
3 ps, whereas water molecules with free OH modes rapidly make a transition to a hydrogen-bonded state within $$\sim$$
~
2 ps. Furthermore, we also elucidate the origin of the observed differential dynamics based on the time-dependent evolution of water molecules in the different local solvent environments.
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31
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Yang X, Cheng K, Jia GZ. Microwave heating and non-thermal effects of sodium chloride aqueous solution. Mol Phys 2019. [DOI: 10.1080/00268976.2019.1662505] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Xin Yang
- College of Physical and Electronics Engineering, Sichuan Normal University, Chengdu, People’s Republic of China
| | - Ke Cheng
- College of Optoelectronic Technology, Chengdu University of Information technology, Chengdu, People’s Republic of China
| | - Guo-zhu Jia
- College of Physical and Electronics Engineering, Sichuan Normal University, Chengdu, People’s Republic of China
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32
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Elgabarty H, Kaliannan NK, Kühne TD. Enhancement of the local asymmetry in the hydrogen bond network of liquid water by an ultrafast electric field pulse. Sci Rep 2019; 9:10002. [PMID: 31292493 PMCID: PMC6620291 DOI: 10.1038/s41598-019-46449-5] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2019] [Accepted: 06/27/2019] [Indexed: 11/18/2022] Open
Abstract
Condensed phase electron decomposition analysis based on density functional theory has recently revealed an asymmetry in the hydrogen-bond network in liquid water, in the sense that a significant population of water molecules are simultaneously donating and accepting one strong hydrogen-bond and another substantially weaker one. Here we investigate this asymmetry, as well as broader structural and energetic features of water's hydrogen-bond network, following the application of an intense electric field square pulse that invokes the ultrafast reorientation of water molecules. We find that the necessary field-strength required to invoke an ultrafast alignment in a picosecond time window is on the order of 108 Vm-1. The resulting orientational anisotropy imposes an experimentally measurable signature on the structure and dynamics of the hydrogen-bond network, including its asymmetry, which is strongly enhanced. The dependence of the molecular reorientation dynamics on the field-strength can be understood by relating the magnitude of the water dipole-field interaction to the rotational kinetic energy, as well as the hydrogen-bond energy.
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Affiliation(s)
- Hossam Elgabarty
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Chair of Theoretical Chemistry, University of Paderborn, Warburger Str. 100, D-33098, Paderborn, Germany
| | - Naveen Kumar Kaliannan
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Chair of Theoretical Chemistry, University of Paderborn, Warburger Str. 100, D-33098, Paderborn, Germany
| | - Thomas D Kühne
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Chair of Theoretical Chemistry, University of Paderborn, Warburger Str. 100, D-33098, Paderborn, Germany.
- Paderborn Center for Parallel Computing and Institute for Lightweight Design, University of Paderborn, Warburger Str. 100, D-33098, Paderborn, Germany.
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33
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Progress in molecular-simulation-based research on the effects of interface-induced fluid microstructures on flow resistance. Chin J Chem Eng 2019. [DOI: 10.1016/j.cjche.2019.02.002] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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34
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Yamazoe K, Miyawaki J, Niwa H, Nilsson A, Harada Y. Measurements of ultrafast dissociation in resonant inelastic x-ray scattering of water. J Chem Phys 2019; 150:204201. [PMID: 31153206 DOI: 10.1063/1.5081886] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023] Open
Abstract
There has been a discussion on the interpretation of the resonant inelastic x-ray scattering (RIXS) spectra of liquid water in terms of either different structural environments or that core hole dynamics can generate well-resolved dissociative spectral components. We have used RIXS with high resolution in the OH stretch vibration energy part, at extremely high overtones going toward the continuum of full OH bond breakage, to identify the amount of dissociative contributions in the valence band RIXS spectra at different excitation energies. We observe that at low excitation energies, corresponding to population of states with strongly antibonding character, the valence band RIXS spectra have a large contribution from a well-resolved dissociative feature. Instead, at higher excitations, this spectral component diminishes and becomes a weak structure on the high-energy side of one of the spectral peaks related to the 1b1 state from tetrahedral configurations. This result brings both interpretations to be essential for the understanding of RIXS spectra of liquid water.
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Affiliation(s)
- Kosuke Yamazoe
- Institute for Solid State Physics (ISSP), The University of Tokyo, 5-1-5, Kashiwanoha, Kashiwa, Chiba 277-8581, Japan
| | - Jun Miyawaki
- Institute for Solid State Physics (ISSP), The University of Tokyo, 5-1-5, Kashiwanoha, Kashiwa, Chiba 277-8581, Japan
| | - Hideharu Niwa
- Institute for Solid State Physics (ISSP), The University of Tokyo, 5-1-5, Kashiwanoha, Kashiwa, Chiba 277-8581, Japan
| | - Anders Nilsson
- Department of Physics, AlbaNova University Center, Stockholm University, SE-106 91 Stockholm, Sweden
| | - Yoshihisa Harada
- Institute for Solid State Physics (ISSP), The University of Tokyo, 5-1-5, Kashiwanoha, Kashiwa, Chiba 277-8581, Japan
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35
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Kaliannan NK, Henao Aristizabal A, Wiebeler H, Zysk F, Ohto T, Nagata Y, Kühne TD. Impact of intermolecular vibrational coupling effects on the sum-frequency generation spectra of the water/air interface. Mol Phys 2019. [DOI: 10.1080/00268976.2019.1620358] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Affiliation(s)
- Naveen Kumar Kaliannan
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Chair of Theoretical Chemistry, University of Paderborn, Paderborn, Germany
| | - Andres Henao Aristizabal
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Chair of Theoretical Chemistry, University of Paderborn, Paderborn, Germany
| | - Hendrik Wiebeler
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Chair of Theoretical Chemistry, University of Paderborn, Paderborn, Germany
| | - Frederik Zysk
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Chair of Theoretical Chemistry, University of Paderborn, Paderborn, Germany
| | - Tatsuhiko Ohto
- Graduate School of Engineering Science, Osaka University, Toyonaka, Osaka, Japan
| | - Yuki Nagata
- Max-Planck Institute for Polymer Research, Mainz, Germany
| | - Thomas D. Kühne
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Chair of Theoretical Chemistry, University of Paderborn, Paderborn, Germany
- Paderborn Center for Parallel Computing and Institute for Lightweight Design, University of Paderborn, Paderborn, Germany
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36
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Baer A, Miličević Z, Smith DM, Smith AS. Water in an electric field does not dance alone: The relation between equilibrium structure, time dependent viscosity and molecular motions. J Mol Liq 2019. [DOI: 10.1016/j.molliq.2019.02.055] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
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37
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Yun Y, Khaliullin RZ, Jung Y. Low-Dimensional Confined Ice Has the Electronic Signature of Liquid Water. J Phys Chem Lett 2019; 10:2008-2016. [PMID: 30946585 DOI: 10.1021/acs.jpclett.9b00921] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Water confined in nanomaterials demonstrates anomalous behavior. Recent experiments and simulations have established that room-temperature water inside carbon nanotubes and between graphene layers behaves as solid ice: its molecules form four hydrogen bonds in a highly organized network with long-range order and exhibit low mobility. Here, we applied a first-principle energy decomposition analysis to reveal that the strength and patterns of donor-acceptor interactions between molecules in these low-dimensional ice structures resemble those in bulk liquid water rather than those in hexagonal ice. A correlation analysis shows that this phenomenon originates from a variety of hydrogen-bond distortions, different in 1D and 2D ice, from the tetrahedral configuration due to constraints imposed by nanomaterials. We discuss the implications of the reported interplay between the electronic and geometric structure of hydrogen bonds in "room-temperature ice" for computer modeling of confined water using traditional force fields.
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Affiliation(s)
| | - Rustam Z Khaliullin
- Department of Chemistry , McGill University , 801 Sherbrooke Street West , Montreal , QC H3A 0B8 , Canada
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38
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Probing hydrogen bond strength in liquid water by resonant inelastic X-ray scattering. Nat Commun 2019; 10:1013. [PMID: 30833573 PMCID: PMC6399250 DOI: 10.1038/s41467-019-08979-4] [Citation(s) in RCA: 44] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2018] [Accepted: 02/13/2019] [Indexed: 11/09/2022] Open
Abstract
Local probes of the electronic ground state are essential for understanding hydrogen bonding in aqueous environments. When tuned to the dissociative core-excited state at the O1s pre-edge of water, resonant inelastic X-ray scattering back to the electronic ground state exhibits a long vibrational progression due to ultrafast nuclear dynamics. We show how the coherent evolution of the OH bonds around the core-excited oxygen provides access to high vibrational levels in liquid water. The OH bonds stretch into the long-range part of the potential energy curve, which makes the X-ray probe more sensitive than infra-red spectroscopy to the local environment. We exploit this property to effectively probe hydrogen bond strength via the distribution of intramolecular OH potentials derived from measurements. In contrast, the dynamical splitting in the spectral feature of the lowest valence-excited state arises from the short-range part of the OH potential curve and is rather insensitive to hydrogen bonding.
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39
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Pohl MN, Muchová E, Seidel R, Ali H, Sršeň Š, Wilkinson I, Winter B, Slavíček P. Do water's electrons care about electrolytes? Chem Sci 2019; 10:848-865. [PMID: 30774880 PMCID: PMC6346409 DOI: 10.1039/c8sc03381a] [Citation(s) in RCA: 28] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2018] [Accepted: 11/01/2018] [Indexed: 01/01/2023] Open
Abstract
Ions have a profound effect on the geometrical structure of liquid water and an aqueous environment is known to change the electronic structure of ions. Here we combine photoelectron spectroscopy measurements from liquid microjets with molecular dynamical and quantum chemical calculations to address the reverse question, to what extent do ions affect the electronic structure of liquid water? We study aqueous solutions of sodium iodide (NaI) over a wide concentration range, from nearly pure water to 8 M solutions, recording spectra in the 5 to 60 eV binding energy range to include all water valence and the solute Na+ 2p, I- 4d, and I- 5p orbital ionization peaks. We observe that the electron binding energies of the solute ions change only slightly as a function of electrolyte concentration, less than 150 ± 60 meV over an ∼8 M range. Furthermore, the photoelectron spectrum of liquid water is surprisingly mildly affected as we transform the sample from a dilute aqueous salt solution to a viscous, crystalline-like phase. The most noticeable spectral changes are a negative binding energy shift of the water 1b2 ionizing transition (up to -370 ± 60 meV) and a narrowing of the flat-top shape water 3a1 ionization feature (up to 450 ± 90 meV). A novel computationally efficient technique is introduced to calculate liquid-state photoemission spectra using small clusters from molecular dynamics (MD) simulations embedded in dielectric continuum. This theoretical treatment captured the characteristic positions and structures of the aqueous photoemission peaks, reproducing the experimentally observed narrowing of the water 3a1 feature and weak sensitivity of the water binding energies to electrolyte concentration. The calculations allowed us to attribute the small binding energy shifts to ion-induced disruptions of intermolecular electronic interactions. Furthermore, they demonstrate the importance of considering concentration-dependent screening lengths for a correct description of the electronic structure of solvated systems. Accounting for electronic screening, the calculations highlight the minimal effect of electrolyte concentration on the 1b1 binding energy reference, in accord with the experiments. This leads us to a key finding that the isolated, lowest-binding-energy, 1b1, photoemission feature of liquid water is a robust energetic reference for aqueous liquid microjet photoemission studies.
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Affiliation(s)
- Marvin N Pohl
- Fritz-Haber-Institut der Max-Planck-Gesellschaft , Faradayweg 4-6 , D-14195 Berlin , Germany .
- Fachbereich Physik , Freie Universität Berlin , Arnimallee 14 , D-14195 Berlin , Germany
| | - Eva Muchová
- Department of Physical Chemistry , University of Chemistry and Technology , Technická 5 , 16628 Prague , Czech Republic .
| | - Robert Seidel
- Helmholtz-Zentrum Berlin für Materialien und Energie , Hahn-Meitner-Platz 1 , D-14109 Berlin , Germany .
- Humboldt-Universität zu Berlin , Department of Chemistry , Brook-Taylor-Str. 2 , D-12489 Berlin , Germany
| | - Hebatallah Ali
- Fritz-Haber-Institut der Max-Planck-Gesellschaft , Faradayweg 4-6 , D-14195 Berlin , Germany .
- Fachbereich Physik , Freie Universität Berlin , Arnimallee 14 , D-14195 Berlin , Germany
| | - Štěpán Sršeň
- Department of Physical Chemistry , University of Chemistry and Technology , Technická 5 , 16628 Prague , Czech Republic .
| | - Iain Wilkinson
- Helmholtz-Zentrum Berlin für Materialien und Energie , Hahn-Meitner-Platz 1 , D-14109 Berlin , Germany .
| | - Bernd Winter
- Fritz-Haber-Institut der Max-Planck-Gesellschaft , Faradayweg 4-6 , D-14195 Berlin , Germany .
| | - Petr Slavíček
- Department of Physical Chemistry , University of Chemistry and Technology , Technická 5 , 16628 Prague , Czech Republic .
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40
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Zhovtobriukh I, Norman P, Pettersson LGM. X-ray absorption spectrum simulations of hexagonal ice. J Chem Phys 2019; 150:034501. [DOI: 10.1063/1.5078385] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022] Open
Affiliation(s)
- Iurii Zhovtobriukh
- FYSIKUM, Stockholm University, AlbaNova University Center, SE-106 91 Stockholm, Sweden
| | - Patrick Norman
- Department of Theoretical Chemistry and Biology, School of Engineering Sciences in Chemistry, Biotechnology and Health, KTH Royal Institute of Technology, SE-106 91 Stockholm, Sweden
| | - Lars G. M. Pettersson
- FYSIKUM, Stockholm University, AlbaNova University Center, SE-106 91 Stockholm, Sweden
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41
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Oh MI, Gupta M, Oh CI, Weaver DF. Understanding the effect of nanoconfinement on the structure of water hydrogen bond networks. Phys Chem Chem Phys 2019; 21:26237-26250. [DOI: 10.1039/c9cp05014k] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Dynamic hydrogen bond trails in water confined between two phospholipid membranes traced by the information flow model.
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Affiliation(s)
- Myong In Oh
- Krembil Research Institute
- University Health Network
- Toronto
- Canada
| | - Mayuri Gupta
- Krembil Research Institute
- University Health Network
- Toronto
- Canada
| | - Chang In Oh
- Department of Mathematics
- University of Western Ontario
- London
- Canada
| | - Donald F. Weaver
- Departments of Medicine, Chemistry, and Pharmaceutical Sciences
- University of Toronto
- Toronto
- Canada
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42
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Simon A, Rapacioli M, Michoulier E, Zheng L, Korchagina K, Cuny J. Contribution of the density-functional-based tight-binding scheme to the description of water clusters: methods, applications and extension to bulk systems. MOLECULAR SIMULATION 2018. [DOI: 10.1080/08927022.2018.1554903] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- A. Simon
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse and CNRS, Toulouse, France
| | - M. Rapacioli
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse and CNRS, Toulouse, France
| | - E. Michoulier
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse and CNRS, Toulouse, France
- Laboratoire Collisions Agrégats et Réactivité LCAR/IRSAMC, Université de Toulouse and CNRS, Toulouse, France
| | - L. Zheng
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse and CNRS, Toulouse, France
| | - K. Korchagina
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse and CNRS, Toulouse, France
| | - J. Cuny
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse and CNRS, Toulouse, France
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43
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Pecher L, Tonner R. Deriving bonding concepts for molecules, surfaces, and solids with energy decomposition analysis for extended systems. WILEY INTERDISCIPLINARY REVIEWS-COMPUTATIONAL MOLECULAR SCIENCE 2018. [DOI: 10.1002/wcms.1401] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Lisa Pecher
- Fachbereich Chemie Philipps‐Universität Marburg Marburg Germany
| | - Ralf Tonner
- Fachbereich Chemie and Material Sciences Center Philipps‐Universität Marburg Marburg Germany
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44
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Ojha D, Karhan K, Kühne TD. On the Hydrogen Bond Strength and Vibrational Spectroscopy of Liquid Water. Sci Rep 2018; 8:16888. [PMID: 30443040 PMCID: PMC6237855 DOI: 10.1038/s41598-018-35357-9] [Citation(s) in RCA: 33] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2018] [Accepted: 11/02/2018] [Indexed: 11/08/2022] Open
Abstract
In the present work, we introduce two new metrics i.e. hydrogen-bond strength and charge-transfer between the donor/acceptor water molecules as a measure of hydrogen-bond rearrangement dynamics. Further, we also employ a simple model based on energy flux through the donor-acceptor water pairs to quantify the extent of the local hydrogen-bond network reorganization. Most importantly, we report a linear relationship between the OH stretch frequency and the charge and energy transfer through donor-acceptor water pairs. We demonstrate that the vibrational frequency fluctuations, which are used to determine third-order non-linear spectroscopic observables like the short-time slope of three pulse photon echo, can be used as an analog of the fluctuations in the hydrogen-bond strength and charge-transfer. The timescales obtained from our hydrogen-bond strength correlation and charge-transfer correlation decay are in excellent agreement with the computed frequency-time correlation function, as well as with recent vibrational echo experiments.
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Affiliation(s)
- Deepak Ojha
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Chair of Theoretical Chemistry, Paderborn University, Warburger Str. 100, D-33098, Paderborn, Germany
| | - Kristof Karhan
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Chair of Theoretical Chemistry, Paderborn University, Warburger Str. 100, D-33098, Paderborn, Germany
| | - Thomas D Kühne
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Chair of Theoretical Chemistry, Paderborn University, Warburger Str. 100, D-33098, Paderborn, Germany.
- Paderborn Center for Parallel Computing and Institute for Lightweight Design, Paderborn University, Warburger Str. 100, D-33098, Paderborn, Germany.
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45
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Vibrational, energetic-dynamical and dissociation properties of water clusters in static electric fields: Non-equilibrium molecular-dynamics insights. Chem Phys Lett 2018. [DOI: 10.1016/j.cplett.2018.08.061] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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46
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Sun Z, Zheng L, Chen M, Klein ML, Paesani F, Wu X. Electron-Hole Theory of the Effect of Quantum Nuclei on the X-Ray Absorption Spectra of Liquid Water. PHYSICAL REVIEW LETTERS 2018; 121:137401. [PMID: 30312094 DOI: 10.1103/physrevlett.121.137401] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/08/2018] [Indexed: 06/08/2023]
Abstract
Electron-hole excitation theory is used to unveil the role of nuclear quantum effects on the x-ray absorption spectral signatures of water, whose structure is computed via path-integral molecular dynamics with the MB-pol intermolecular potential model. Compared to spectra generated from the classically modeled water, quantum nuclei introduce important effects on the spectra in terms of both the energies and line shapes. Fluctuations due to delocalized protons influence the short-range ordering of the hydrogen bond network via changes in the intramolecular covalence, which broaden the preedge spectra. For intermediate-range and long-range ordering, quantum nuclei approach the neighboring oxygen atoms more closely than classical protons, promoting an "icelike" spectral feature with the intensities shifted from the main edge to the postedge. Computed spectra are in nearly quantitative agreement with the available experimental data.
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Affiliation(s)
- Zhaoru Sun
- Department of Physics, Temple University, Philadelphia, Pennsylvania 19122, USA
| | - Lixin Zheng
- Department of Physics, Temple University, Philadelphia, Pennsylvania 19122, USA
| | - Mohan Chen
- Department of Physics, Temple University, Philadelphia, Pennsylvania 19122, USA
| | - Michael L Klein
- Department of Physics, Temple University, Philadelphia, Pennsylvania 19122, USA
- Department of Chemistry, Temple University, Philadelphia, Pennsylvania 19122, USA
- Institute for Computational Molecular Science, Temple University, Philadelphia, Pennsylvania 19122, USA
| | - Francesco Paesani
- Department of Chemistry and Biochemistry, Materials Science and Engineering, San Diego Supercomputer Center, University of California, San Diego, La Jolla, California 92093, USA
| | - Xifan Wu
- Department of Physics, Temple University, Philadelphia, Pennsylvania 19122, USA
- Institute for Computational Molecular Science, Temple University, Philadelphia, Pennsylvania 19122, USA
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Steen GW, Wexler AD, Fuchs EC, Bakker HA, Nguyen PD, Offerhaus HL. Role of temperature in de-mixing absorbance spectra composed of compound electrolyte solutions. APPLIED OPTICS 2018; 57:7871-7877. [PMID: 30462053 DOI: 10.1364/ao.57.007871] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/05/2018] [Accepted: 08/15/2018] [Indexed: 06/09/2023]
Abstract
This work is focused on the role of temperature in the de-mixing of absorbance spectra measured in mixed aqueous Na2SO4 and NaNO3 solutions. First, the influence of temperature on the absorbance spectrum of demineralized water was determined. Second, the absorbance spectra of five separate electrolytes (NaNO2, NaNO3, CaCl2, K2CO3, and NaOH) at three temperatures (4°C, 25°C, and 50°C) for concentrations ranging from 0.0625 M to 0.5 M were examined. These five electrolytes show similar temperature dependencies. Finally, absorbance spectra of mixed solutions were investigated at temperatures of 5°C, 15°C, 25°C, 35°C, and 45°C for concentrations ranging from 0.0625 M to 0.5 M per electrolyte in the mixture. The spectral window from 650 to 1100 nm was utilized to observe the ionic and temperature influences on the vibrational modes of the OH bond in the solvent molecules. The effects of dissolving Na2SO4 and NaNO3 are nonlinearly cumulative at lower temperatures indicating extended alteration of the water structure beyond the first hydration shell. A similar trend was observed for a mixture of Na2CO3 and NaCl. Furthermore, it was found that higher temperatures are better for recovering the separate component absorption signatures of an electrolyte mixture. The near-infrared spectral regime is well suited for integrated sensing, and therefore these results can help in designing an integrated sensor to identify inorganic species in water.
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Richters D, Kühne TD. Linear-scaling self-consistent field theory based molecular dynamics: application to C60buckyballs colliding with graphite. MOLECULAR SIMULATION 2018. [DOI: 10.1080/08927022.2018.1511899] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
Affiliation(s)
- Dorothee Richters
- Institute of Physical Chemistry and Center of Computational Sciences, Johannes Gutenberg University Mainz, Mainz, Germany
| | - Thomas D. Kühne
- Dynamics of Condensed Matter and Center for Sustainable Systems Design, Chair of Theoretical Chemistry, University of Paderborn, Paderborn, Germany
- Paderborn Center for Parallel Computing and Institute for Lightweight Design with Hybrid Systems, Paderborn, Germany
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Shi Y, Scheiber H, Khaliullin RZ. Contribution of the Covalent Component of the Hydrogen-Bond Network to the Properties of Liquid Water. J Phys Chem A 2018; 122:7482-7490. [PMID: 30157633 DOI: 10.1021/acs.jpca.8b06857] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Yifei Shi
- Department of Chemistry, McGill University, 801 Sherbrooke St. West, Montreal, QC H3A0B8, Canada
| | - Hayden Scheiber
- Department of Chemistry, McGill University, 801 Sherbrooke St. West, Montreal, QC H3A0B8, Canada
| | - Rustam Z. Khaliullin
- Department of Chemistry, McGill University, 801 Sherbrooke St. West, Montreal, QC H3A0B8, Canada
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Cuny J, Jolibois F, Gerber IC. Evaluation of Gas-to-Liquid 17O Chemical Shift of Water: A Test Case for Molecular and Periodic Approaches. J Chem Theory Comput 2018; 14:4041-4051. [DOI: 10.1021/acs.jctc.8b00243] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Jérôme Cuny
- Laboratoire de Chimie et Physique Quantiques (LCPQ/IRSAMC), Université de Toulouse and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Franck Jolibois
- LPCNO, Université Fédérale de Toulouse Midi-Pyrénées, INSA-CNRS-UPS, 135 avenue de Rangueil, 31077 Cedex 4 Toulouse, France
| | - Iann C. Gerber
- LPCNO, Université Fédérale de Toulouse Midi-Pyrénées, INSA-CNRS-UPS, 135 avenue de Rangueil, 31077 Cedex 4 Toulouse, France
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