1
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Zunzunegui-Bru E, Alfarano SR, Zueblin P, Vondracek H, Piccirilli F, Vaccari L, Assenza S, Mezzenga R. Universality in the Structure and Dynamics of Water under Lipidic Mesophase Soft Nanoconfinement. ACS NANO 2024. [PMID: 39088237 DOI: 10.1021/acsnano.4c05857] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 08/02/2024]
Abstract
Water under soft nanoconfinement features physical and chemical properties fundamentally different from bulk water; yet, the multitude and specificity of confining systems and geometries mask any of its potentially universal traits. Here, we advance in this quest by resorting to lipidic mesophases as an ideal nanoconfinement system, allowing inspecting the behavior of water under systematic changes in the topological and geometrical properties of the confining medium, without altering the chemical nature of the interfaces. By combining Terahertz absorption spectroscopy experiments and molecular dynamics simulations, we unveil the presence of universal laws governing the physics of nanoconfined water, recapitulating the data collected at varying levels of hydration and nanoconfinement topologies. This geometry-independent universality is evidenced by the existence of master curves characterizing both the structure and dynamics of simulated water as a function of the distance from the lipid-water interface. Based on our theoretical findings, we predict a parameter-free law describing the amount of interfacial water against the structural dimension of the system (i.e., the lattice parameter), which captures both the experimental and numerical results within the same curve, without any fitting. Our results offer insight into the fundamental physics of water under soft nanoconfinement and provide a practical tool for accurately estimating the amount of nonbulk water based on structural experimental data.
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Affiliation(s)
- Eva Zunzunegui-Bru
- Department of Health Sciences and Technology, ETH Zurich, Zurich 8092, Switzerland
| | - Serena Rosa Alfarano
- Department of Health Sciences and Technology, ETH Zurich, Zurich 8092, Switzerland
| | - Patrick Zueblin
- Department of Health Sciences and Technology, ETH Zurich, Zurich 8092, Switzerland
| | - Hendrik Vondracek
- Elettra Sincrotrone Trieste, Strada Statale 14 km 163.5 in Area Science Park Basovizza, Trieste 34149, Italy
| | - Federica Piccirilli
- Elettra Sincrotrone Trieste, Strada Statale 14 km 163.5 in Area Science Park Basovizza, Trieste 34149, Italy
- Istituto Innovazione e Ricerca Tecnologica (RIT), Strada Statale 14 km 163.5 in Area Science Park Basovizza, Trieste 34149, Italy
| | - Lisa Vaccari
- Elettra Sincrotrone Trieste, Strada Statale 14 km 163.5 in Area Science Park Basovizza, Trieste 34149, Italy
| | - Salvatore Assenza
- Condensed Matter Physics Center (IFIMAC), Universidad Autónoma de Madrid, 28049 Madrid, Spain
- Departamento de Física Teórica de la Materia Condensada, Universidad Autónoma de Madrid, 28049 Madrid, Spain
- Instituto Nicolás Cabrera, Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - Raffaele Mezzenga
- Department of Health Sciences and Technology, ETH Zurich, Zurich 8092, Switzerland
- Department of Materials, ETH Zurich, Zurich 8092, Switzerland
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2
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Hung ST, Roget SA, Fayer MD. Effects of Nanoconfinement on Dynamics in Concentrated Aqueous Magnesium Chloride Solutions. J Phys Chem B 2024; 128:5513-5527. [PMID: 38787935 DOI: 10.1021/acs.jpcb.4c01639] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/26/2024]
Abstract
Water behavior in various natural and manufactured settings is influenced by confinement in organic or inorganic frameworks and the presence of solutes. Here, the effects on dynamics from both confinement and the addition of solutes are examined. Specifically, water and ion dynamics in concentrated (2.5-4.2 m) aqueous magnesium chloride solutions confined in mesoporous silica (2.8 nm pore diameter) were investigated using polarization selective pump-probe and 2D infrared spectroscopies. Fitting the rotational and spectral diffusion dynamics measured by the vibrational probe, selenocyanate, with a previously developed two-state model revealed distinct behaviors at the interior of the silica pores (core state) and near the wall of the confining framework (shell state). The shell dynamics are noticeably slower than the bulk, or core, dynamics. The concentration-dependent slowing of the dynamics aligns with behavior in the bulk solutions, but the spectrally separated water-associated and Mg2+-associated forms of the selenocyanate probe exhibit different responses to confinement. The disparity in the complete reorientation times is larger upon confinement, but the spectral diffusion dynamics become more similar near the silica surface. The length scales that characterize the transition from surface-influenced to bulk-like behavior for the salt solutions in the pores are discussed and compared to those of pure water and an organic solvent confined in the same pores. These comparisons offer insights into how confinement modulates the properties of different liquids.
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Affiliation(s)
- Samantha T Hung
- Department of Chemistry, Stanford University, Stanford, California 94305, United States
| | - Sean A Roget
- Department of Chemistry, Stanford University, Stanford, California 94305, United States
| | - Michael D Fayer
- Department of Chemistry, Stanford University, Stanford, California 94305, United States
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3
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De Thomasis G, Galante A, Fioravanti G, Ottaviano L, Alecci M, Profeta G. Spin-lattice relaxation time in water/graphene-oxide dispersion. J Chem Phys 2023; 158:124709. [PMID: 37003763 DOI: 10.1063/5.0134708] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/03/2023] Open
Abstract
We present the results of the calculations of the spin-lattice relaxation time of water in contact with graphene oxide by means of all-atom molecular dynamics simulations. We fully characterized the water-graphene oxide interaction through the calculation of the relaxation properties of bulk water and of the contact angle as a function of graphene oxide oxidation state and comparing them with the available experimental data. We then extended the calculation to investigate how graphene oxide alters the dynamical and relaxation properties of water in different conditions and concentrations. We show that, despite the diamagnetic nature of the graphene oxide, the confining effects of the bilayers strongly affect the longitudinal relaxation properties of interfacial water, which presents a reduced dynamics due to hydrogen bonds with oxygen groups on graphene oxide. This property makes graphene oxide an interesting platform to investigate water dynamics in confined geometries and an alternative contrast-agent for magnetic resonance imaging applications, especially in view of the possibility to functionalize graphene oxide from theranostic perspectives.
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Affiliation(s)
- G De Thomasis
- MESVA, Department of Life, Health and Environmental Sciences, L'Aquila University, Via Vetoio 10, Coppito I-67100, L'Aquila, Italy
| | - A Galante
- MESVA, Department of Life, Health and Environmental Sciences, L'Aquila University, Via Vetoio 10, Coppito I-67100, L'Aquila, Italy
| | - G Fioravanti
- Department of Physical and Chemical Sciences, University of L'Aquila, Via Vetoio 10, I-67100 L'Aquila, Italy
| | - L Ottaviano
- Department of Physical and Chemical Sciences, University of L'Aquila, Via Vetoio 10, I-67100 L'Aquila, Italy
| | - M Alecci
- MESVA, Department of Life, Health and Environmental Sciences, L'Aquila University, Via Vetoio 10, Coppito I-67100, L'Aquila, Italy
| | - G Profeta
- Department of Physical and Chemical Sciences, University of L'Aquila, Via Vetoio 10, I-67100 L'Aquila, Italy
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4
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Aluru NR, Aydin F, Bazant MZ, Blankschtein D, Brozena AH, de Souza JP, Elimelech M, Faucher S, Fourkas JT, Koman VB, Kuehne M, Kulik HJ, Li HK, Li Y, Li Z, Majumdar A, Martis J, Misra RP, Noy A, Pham TA, Qu H, Rayabharam A, Reed MA, Ritt CL, Schwegler E, Siwy Z, Strano MS, Wang Y, Yao YC, Zhan C, Zhang Z. Fluids and Electrolytes under Confinement in Single-Digit Nanopores. Chem Rev 2023; 123:2737-2831. [PMID: 36898130 PMCID: PMC10037271 DOI: 10.1021/acs.chemrev.2c00155] [Citation(s) in RCA: 18] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/12/2023]
Abstract
Confined fluids and electrolyte solutions in nanopores exhibit rich and surprising physics and chemistry that impact the mass transport and energy efficiency in many important natural systems and industrial applications. Existing theories often fail to predict the exotic effects observed in the narrowest of such pores, called single-digit nanopores (SDNs), which have diameters or conduit widths of less than 10 nm, and have only recently become accessible for experimental measurements. What SDNs reveal has been surprising, including a rapidly increasing number of examples such as extraordinarily fast water transport, distorted fluid-phase boundaries, strong ion-correlation and quantum effects, and dielectric anomalies that are not observed in larger pores. Exploiting these effects presents myriad opportunities in both basic and applied research that stand to impact a host of new technologies at the water-energy nexus, from new membranes for precise separations and water purification to new gas permeable materials for water electrolyzers and energy-storage devices. SDNs also present unique opportunities to achieve ultrasensitive and selective chemical sensing at the single-ion and single-molecule limit. In this review article, we summarize the progress on nanofluidics of SDNs, with a focus on the confinement effects that arise in these extremely narrow nanopores. The recent development of precision model systems, transformative experimental tools, and multiscale theories that have played enabling roles in advancing this frontier are reviewed. We also identify new knowledge gaps in our understanding of nanofluidic transport and provide an outlook for the future challenges and opportunities at this rapidly advancing frontier.
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Affiliation(s)
- Narayana R Aluru
- Oden Institute for Computational Engineering and Sciences, Walker Department of Mechanical Engineering, The University of Texas at Austin, Austin, 78712TexasUnited States
| | - Fikret Aydin
- Materials Science Division, Physical and Life Science Directorate, Lawrence Livermore National Laboratory, Livermore, California94550, United States
| | - Martin Z Bazant
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts02139, United States
- Department of Mathematics, Massachusetts Institute of Technology, Cambridge, Massachusetts02139, United States
| | - Daniel Blankschtein
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts02139, United States
| | - Alexandra H Brozena
- Department of Chemistry and Biochemistry, University of Maryland, College Park, Maryland20742, United States
| | - J Pedro de Souza
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts02139, United States
| | - Menachem Elimelech
- Department of Chemical and Environmental Engineering, Yale University, New Haven, Connecticut06520-8286, United States
| | - Samuel Faucher
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts02139, United States
| | - John T Fourkas
- Department of Chemistry and Biochemistry, University of Maryland, College Park, Maryland20742, United States
- Institute for Physical Science and Technology, University of Maryland, College Park, Maryland20742, United States
- Maryland NanoCenter, University of Maryland, College Park, Maryland20742, United States
| | - Volodymyr B Koman
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts02139, United States
| | - Matthias Kuehne
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts02139, United States
| | - Heather J Kulik
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts02139, United States
| | - Hao-Kun Li
- Department of Mechanical Engineering, Stanford University, Stanford, California94305, United States
| | - Yuhao Li
- Materials Science Division, Physical and Life Science Directorate, Lawrence Livermore National Laboratory, Livermore, California94550, United States
| | - Zhongwu Li
- Materials Science Division, Physical and Life Science Directorate, Lawrence Livermore National Laboratory, Livermore, California94550, United States
| | - Arun Majumdar
- Department of Mechanical Engineering, Stanford University, Stanford, California94305, United States
| | - Joel Martis
- Department of Mechanical Engineering, Stanford University, Stanford, California94305, United States
| | - Rahul Prasanna Misra
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts02139, United States
| | - Aleksandr Noy
- Materials Science Division, Physical and Life Science Directorate, Lawrence Livermore National Laboratory, Livermore, California94550, United States
- School of Natural Sciences, University of California Merced, Merced, California95344, United States
| | - Tuan Anh Pham
- Materials Science Division, Physical and Life Science Directorate, Lawrence Livermore National Laboratory, Livermore, California94550, United States
| | - Haoran Qu
- Department of Chemistry and Biochemistry, University of Maryland, College Park, Maryland20742, United States
| | - Archith Rayabharam
- Oden Institute for Computational Engineering and Sciences, Walker Department of Mechanical Engineering, The University of Texas at Austin, Austin, 78712TexasUnited States
| | - Mark A Reed
- Department of Electrical Engineering, Yale University, 15 Prospect Street, New Haven, Connecticut06520, United States
| | - Cody L Ritt
- Department of Chemical and Environmental Engineering, Yale University, New Haven, Connecticut06520-8286, United States
| | - Eric Schwegler
- Materials Science Division, Physical and Life Science Directorate, Lawrence Livermore National Laboratory, Livermore, California94550, United States
| | - Zuzanna Siwy
- Department of Physics and Astronomy, Department of Chemistry, Department of Biomedical Engineering, University of California, Irvine, Irvine92697, United States
| | - Michael S Strano
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts02139, United States
| | - YuHuang Wang
- Department of Chemistry and Biochemistry, University of Maryland, College Park, Maryland20742, United States
- Maryland NanoCenter, University of Maryland, College Park, Maryland20742, United States
| | - Yun-Chiao Yao
- Materials Science Division, Physical and Life Science Directorate, Lawrence Livermore National Laboratory, Livermore, California94550, United States
- School of Natural Sciences, University of California Merced, Merced, California95344, United States
| | - Cheng Zhan
- Materials Science Division, Physical and Life Science Directorate, Lawrence Livermore National Laboratory, Livermore, California94550, United States
| | - Ze Zhang
- Department of Mechanical Engineering, Stanford University, Stanford, California94305, United States
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5
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Kurapothula PJ, Shepherd S, Wilkins DM. Competing Nuclear Quantum Effects and Hydrogen-Bond Jumps in Hydrated Kaolinite. J Phys Chem Lett 2023; 14:1542-1547. [PMID: 36745462 PMCID: PMC9940297 DOI: 10.1021/acs.jpclett.2c03896] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2022] [Accepted: 02/01/2023] [Indexed: 06/18/2023]
Abstract
Recent work has shown that the dynamics of hydrogen bonds in pure clays are affected by nuclear quantum fluctuations, with different effects for the hydrogen bonds holding different layers of the clay together and for those within the same layer. At the clay-water interface there is an even wider range of types of hydrogen bond, suggesting that the quantum effects may be yet more varied. We apply classical and thermostated ring polymer molecular dynamics simulations to show that nuclear quantum effects accelerate hydrogen-bond dynamics to varying degrees. By interpreting the results in terms of the extended jump model of hydrogen-bond switching, we can understand the origins of these effects in terms of changes in the quantum kinetic energy of hydrogen atoms during an exchange. We also show that the extended jump mechanism is applicable not only to the hydrogen bonds involving water, but also those internal to the clay.
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6
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Zamir A, Rossich Molina E, Ahmed M, Stein T. Water confinement in small polycyclic aromatic hydrocarbons. Phys Chem Chem Phys 2022; 24:28788-28793. [PMID: 36382773 DOI: 10.1039/d2cp04773j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
The confinement of water molecules is vital in fields from biology to nanotechnology. The conditions allowing confinement in small finite polycyclic aromatic hydrocarbons (PAHs) are unclear, yet are crucial for understanding confinement in larger systems. Here, we report a computational study of water cluster confinement within PAHs dimers. Our results serve as a model for larger carbon allotropes and for understanding molecular interactions in confined systems. We identified size and structural motifs allowing confinement and demonstrated the motifs in various PAHs systems. We show that optimal OH⋯π interactions between water clusters and the PAH dimer permit optimal confinement to occur. However, the lack of such interactions leads to the formation of CH⋯O interactions, resulting in less ideal confinement. Confinement of layered clusters is also possible, provided that the optimal OH⋯π interactions are conserved.
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Affiliation(s)
- Alon Zamir
- Fritz Haber Research Center for Molecular Dynamics, Hebrew University of Jerusalem, Jerusalem 9190401, Israel.
| | - Estefania Rossich Molina
- Fritz Haber Research Center for Molecular Dynamics, Hebrew University of Jerusalem, Jerusalem 9190401, Israel.
| | - Musahid Ahmed
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
| | - Tamar Stein
- Fritz Haber Research Center for Molecular Dynamics, Hebrew University of Jerusalem, Jerusalem 9190401, Israel.
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7
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Senanayake HS, Greathouse JA, Thompson WH. Probing electrolyte–silica interactions through simulations of the infrared spectroscopy of nanoscale pores. J Chem Phys 2022; 157:034702. [DOI: 10.1063/5.0100583] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The structural and dynamical properties of nanoconfined solutions can differ dramatically from those of the corresponding bulk systems. Understanding the changes induced by confinement is central to controlling the behavior of synthetic nanostructured materials and predicting the characteristics of biological and geochemical systems. A key outstanding issue is how the molecular-level behavior of nanoconfined electrolyte solutions is reflected in different experimental, particularly spectroscopic, measurements. This is addressed here through molecular dynamics simulations of the OH stretching infrared (IR) spectroscopy of NaCl, NaBr, and NaI solutions in isotopically dilute HOD/D2O confined in hydroxylated amorphous silica slit pores of width 1–6 nm and pH [Formula: see text]. In addition, the water reorientation dynamics and spectral diffusion, accessible by pump–probe anisotropy and two-dimensional IR measurements, are investigated. The aim is to elucidate the effect of salt identity, confinement, and salt concentration on the vibrational spectra. It is found that the IR spectra of the electrolyte solutions are only modestly blue-shifted upon confinement in amorphous silica slit pores, with both the size of the shift and linewidth increasing with the halide size, but these effects are suppressed as the salt concentration is increased. This indicates the limitations of linear IR spectroscopy as a probe of confined water. However, the OH reorientational and spectral diffusion dynamics are significantly slowed by confinement even at the lowest concentrations. The retardation of the dynamics eases with increasing salt concentration and pore width, but it exhibits a more complex behavior as a function of halide.
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Affiliation(s)
| | - Jeffery A. Greathouse
- Geochemistry Department, Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - Ward H. Thompson
- Department of Chemistry, University of Kansas, Lawrence, Kansas 66045, USA
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8
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Hung ST, Yamada SA, Zheng W, Fayer MD. Ultrafast Dynamics and Liquid Structure in Mesoporous Silica: Propagation of Surface Effects in a Polar Aprotic Solvent. J Phys Chem B 2021; 125:10018-10034. [PMID: 34450013 DOI: 10.1021/acs.jpcb.1c04798] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Enhancement of processes ranging from gas sorption to ion conduction in a liquid can be substantial upon nanoconfinement. Here, the dynamics of a polar aprotic solvent, 1-methylimidazole (MeIm), in mesoporous silica (2.8, 5.4, and 8.3 nm pore diameters) were examined using femtosecond infrared vibrational spectroscopy and molecular dynamics simulations of a dilute probe, the selenocyanate (SeCN-) anion. The long vibrational lifetime and sensitivity of the CN stretch enabled a comprehensive investigation of the relatively slow time scales and subnanometer distance dependences of the confined dynamics. Because MeIm does not readily donate hydrogen bonds, its interactions in the hydrophilic silanol pores differ more from the bulk than those of water confined in the same mesopores, resulting in greater structural order and more dramatic slowing of dynamics. The extent of surface effects was quantified by modified two-state models used to fit three spatially averaged experimental observables: vibrational lifetime, orientational relaxation, and spectral diffusion. The length scales and the models (smoothed step, exponential decay, and simple step) describing the transitions between the distinctive shell behavior at the surface and the bulk-like behavior at the pore interior were compared to those of water. The highly nonuniform distributions of the SeCN- probe and antiparallel layering of MeIm revealed by the simulations guided the interpretation of the results and development of the analytical models. The results illustrate the importance of electrostatic effects and H-bonding interactions in the behavior of confined liquids.
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Affiliation(s)
- Samantha T Hung
- Department of Chemistry, Stanford University, Stanford, California 94305, United States
| | - Steven A Yamada
- Department of Chemistry, Stanford University, Stanford, California 94305, United States
| | - Weizhong Zheng
- State Key Laboratory of Chemical Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Michael D Fayer
- Department of Chemistry, Stanford University, Stanford, California 94305, United States
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9
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Barry E, Burns R, Chen W, De Hoe GX, De Oca JMM, de Pablo JJ, Dombrowski J, Elam JW, Felts AM, Galli G, Hack J, He Q, He X, Hoenig E, Iscen A, Kash B, Kung HH, Lewis NHC, Liu C, Ma X, Mane A, Martinson ABF, Mulfort KL, Murphy J, Mølhave K, Nealey P, Qiao Y, Rozyyev V, Schatz GC, Sibener SJ, Talapin D, Tiede DM, Tirrell MV, Tokmakoff A, Voth GA, Wang Z, Ye Z, Yesibolati M, Zaluzec NJ, Darling SB. Advanced Materials for Energy-Water Systems: The Central Role of Water/Solid Interfaces in Adsorption, Reactivity, and Transport. Chem Rev 2021; 121:9450-9501. [PMID: 34213328 DOI: 10.1021/acs.chemrev.1c00069] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The structure, chemistry, and charge of interfaces between materials and aqueous fluids play a central role in determining properties and performance of numerous water systems. Sensors, membranes, sorbents, and heterogeneous catalysts almost uniformly rely on specific interactions between their surfaces and components dissolved or suspended in the water-and often the water molecules themselves-to detect and mitigate contaminants. Deleterious processes in these systems such as fouling, scaling (inorganic deposits), and corrosion are also governed by interfacial phenomena. Despite the importance of these interfaces, much remains to be learned about their multiscale interactions. Developing a deeper understanding of the molecular- and mesoscale phenomena at water/solid interfaces will be essential to driving innovation to address grand challenges in supplying sufficient fit-for-purpose water in the future. In this Review, we examine the current state of knowledge surrounding adsorption, reactivity, and transport in several key classes of water/solid interfaces, drawing on a synergistic combination of theory, simulation, and experiments, and provide an outlook for prioritizing strategic research directions.
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Affiliation(s)
- Edward Barry
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Applied Materials Division, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Center for Molecular Engineering, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States
| | - Raelyn Burns
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Applied Materials Division, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States
| | - Wei Chen
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Materials Science Division, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Center for Molecular Engineering, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Pritzker School of Molecular Engineering, University of Chicago, 5640 South Ellis Avenue, Chicago, Illinois 60637 United States
| | - Guilhem X De Hoe
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Materials Science Division, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Center for Molecular Engineering, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Pritzker School of Molecular Engineering, University of Chicago, 5640 South Ellis Avenue, Chicago, Illinois 60637 United States
| | - Joan Manuel Montes De Oca
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Pritzker School of Molecular Engineering, University of Chicago, 5640 South Ellis Avenue, Chicago, Illinois 60637 United States
| | - Juan J de Pablo
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Materials Science Division, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Pritzker School of Molecular Engineering, University of Chicago, 5640 South Ellis Avenue, Chicago, Illinois 60637 United States
| | - James Dombrowski
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Department of Chemical and Biological Engineering, Northwestern University, 2145 Sheridan Road, Evanston, Illinois 60208 United States
| | - Jeffrey W Elam
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Applied Materials Division, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Center for Molecular Engineering, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States
| | - Alanna M Felts
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston, Illinois 60208 United States
| | - Giulia Galli
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Materials Science Division, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Pritzker School of Molecular Engineering, University of Chicago, 5640 South Ellis Avenue, Chicago, Illinois 60637 United States
| | - John Hack
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Department of Chemistry, University of Chicago, 5735 South Ellis Avenue, Chicago, Illinois 60637 United States
| | - Qiming He
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Materials Science Division, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Center for Molecular Engineering, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Pritzker School of Molecular Engineering, University of Chicago, 5640 South Ellis Avenue, Chicago, Illinois 60637 United States
| | - Xiang He
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Chemical Sciences and Engineering Division, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States
| | - Eli Hoenig
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Pritzker School of Molecular Engineering, University of Chicago, 5640 South Ellis Avenue, Chicago, Illinois 60637 United States
| | - Aysenur Iscen
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Department of Chemical and Biological Engineering, Northwestern University, 2145 Sheridan Road, Evanston, Illinois 60208 United States
| | - Benjamin Kash
- Pritzker School of Molecular Engineering, University of Chicago, 5640 South Ellis Avenue, Chicago, Illinois 60637 United States
| | - Harold H Kung
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Department of Chemical and Biological Engineering, Northwestern University, 2145 Sheridan Road, Evanston, Illinois 60208 United States
| | - Nicholas H C Lewis
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Department of Chemistry, University of Chicago, 5735 South Ellis Avenue, Chicago, Illinois 60637 United States
| | - Chong Liu
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Pritzker School of Molecular Engineering, University of Chicago, 5640 South Ellis Avenue, Chicago, Illinois 60637 United States
| | - Xinyou Ma
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Department of Chemistry, University of Chicago, 5735 South Ellis Avenue, Chicago, Illinois 60637 United States
| | - Anil Mane
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Applied Materials Division, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States
| | - Alex B F Martinson
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Materials Science Division, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Center for Molecular Engineering, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States
| | - Karen L Mulfort
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Chemical Sciences and Engineering Division, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States
| | - Julia Murphy
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Department of Chemistry, University of Chicago, 5735 South Ellis Avenue, Chicago, Illinois 60637 United States
| | - Kristian Mølhave
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Technical University of Denmark, Anker Engelunds Vej 1 Bygning 101A, Kgs. Lyngby, Lyngby, Hovedstaden 2800, DK Denmark
| | - Paul Nealey
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Materials Science Division, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Pritzker School of Molecular Engineering, University of Chicago, 5640 South Ellis Avenue, Chicago, Illinois 60637 United States
| | - Yijun Qiao
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Materials Science Division, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Center for Molecular Engineering, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States
| | - Vepa Rozyyev
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Applied Materials Division, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States
| | - George C Schatz
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston, Illinois 60208 United States
| | - Steven J Sibener
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Department of Chemistry, University of Chicago, 5735 South Ellis Avenue, Chicago, Illinois 60637 United States
| | - Dmitri Talapin
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Department of Chemistry, University of Chicago, 5735 South Ellis Avenue, Chicago, Illinois 60637 United States
| | - David M Tiede
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Chemical Sciences and Engineering Division, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States
| | - Matthew V Tirrell
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Materials Science Division, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Center for Molecular Engineering, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Pritzker School of Molecular Engineering, University of Chicago, 5640 South Ellis Avenue, Chicago, Illinois 60637 United States
| | - Andrei Tokmakoff
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Department of Chemistry, University of Chicago, 5735 South Ellis Avenue, Chicago, Illinois 60637 United States
| | - Gregory A Voth
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Department of Chemistry, University of Chicago, 5735 South Ellis Avenue, Chicago, Illinois 60637 United States
| | - Zhongyang Wang
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Pritzker School of Molecular Engineering, University of Chicago, 5640 South Ellis Avenue, Chicago, Illinois 60637 United States
| | - Zifan Ye
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Pritzker School of Molecular Engineering, University of Chicago, 5640 South Ellis Avenue, Chicago, Illinois 60637 United States
| | - Murat Yesibolati
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Technical University of Denmark, Anker Engelunds Vej 1 Bygning 101A, Kgs. Lyngby, Lyngby, Hovedstaden 2800, DK Denmark
| | - Nestor J Zaluzec
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Photon Sciences Directorate, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States
| | - Seth B Darling
- Advanced Materials for Energy-Water Systems (AMEWS) Energy Frontier Research Center (EFRC), Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Center for Molecular Engineering, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Chemical Sciences and Engineering Division, Argonne National Laboratory, 9700 South Cass Avenue, Lemont, Illinois 60439 United States.,Pritzker School of Molecular Engineering, University of Chicago, 5640 South Ellis Avenue, Chicago, Illinois 60637 United States
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10
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Senanayake HS, Greathouse JA, Ilgen AG, Thompson WH. Simulations of the IR and Raman spectra of water confined in amorphous silica slit pores. J Chem Phys 2021; 154:104503. [PMID: 33722003 DOI: 10.1063/5.0040739] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Water in nano-scale confining environments is a key element in many biological, material, and geological systems. The structure and dynamics of the liquid can be dramatically modified under these conditions. Probing these changes can be challenging, but vibrational spectroscopy has emerged as a powerful tool for investigating their behavior. A critical, evolving component of this approach is a detailed understanding of the connection between spectroscopic features and molecular-level details. In this paper, this issue is addressed by using molecular dynamics simulations to simulate the linear infrared (IR) and Raman spectra for isotopically dilute HOD in D2O confined in hydroxylated amorphous silica slit pores. The effect of slit-pore width and hydroxyl density on the silica surface on the vibrational spectra is also investigated. The primary effect of confinement is a blueshift in the frequency of OH groups donating a hydrogen bond to the silica surface. This appears as a slight shift in the total (measurable) spectra but is clearly seen in the distance-based IR and Raman spectra. Analysis indicates that these changes upon confinement are associated with the weaker hydrogen-bond accepting properties of silica oxygens compared to water molecules.
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Affiliation(s)
| | - Jeffery A Greathouse
- Geochemistry Department, Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - Anastasia G Ilgen
- Geochemistry Department, Sandia National Laboratories, Albuquerque, New Mexico 87185, USA
| | - Ward H Thompson
- Department of Chemistry, University of Kansas, Lawrence, Kansas 66045, USA
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11
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Zheng W, Sun W, Zhao L, Qian F. Modeling the solid/liquid interfacial properties of methylimidazole confined in hydrophobic silica nanopores. Chem Eng Sci 2021. [DOI: 10.1016/j.ces.2020.116333] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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12
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Piskulich ZA, Laage D, Thompson WH. Activation energies and the extended jump model: How temperature affects reorientation and hydrogen-bond exchange dynamics in water. J Chem Phys 2020; 153:074110. [DOI: 10.1063/5.0020015] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Zeke A. Piskulich
- Department of Chemistry, University of Kansas, Lawrence, Kansas 66045, USA
| | - Damien Laage
- PASTEUR, Départment de Chimie, École Normale Supérieure, PSL University, Sorbonne Université, CNRS, Paris 75005, France
| | - Ward H. Thompson
- Department of Chemistry, University of Kansas, Lawrence, Kansas 66045, USA
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13
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M R, Ayappa KG. Dynamical Transitions of Supercooled Water in Graphene Oxide Nanopores: Influence of Surface Hydrophilicity. J Phys Chem B 2020; 124:4805-4820. [DOI: 10.1021/acs.jpcb.0c02052] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
Affiliation(s)
- Rajasekaran M
- Department of Chemical Engineering, Indian Institute of Science, Bangalore, India 560012
| | - K. Ganapathy Ayappa
- Department of Chemical Engineering, Indian Institute of Science, Bangalore, India 560012
- Centre for BioSystems Science and Engineering, Indian Institute of Science, Bangalore, India 560012
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14
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Tendong E, Dasgupta TS, Chakrabarti J. Dynamics of water trapped in transition metal oxide-graphene nano-confinement. JOURNAL OF PHYSICS. CONDENSED MATTER : AN INSTITUTE OF PHYSICS JOURNAL 2020; 32:325101. [PMID: 32191936 DOI: 10.1088/1361-648x/ab814f] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/24/2020] [Accepted: 03/19/2020] [Indexed: 06/10/2023]
Abstract
Motivated by practical implementation of transition-metal oxide-graphene heterostructures, we use all atom molecular dynamics simulations to study dynamics of water in a nano slit bounded by a transition metal oxide surface, namely, TiO2termination of SrTiO3, and graphene. The resultant asymmetric, strong confinement produces square ice-like crystallites of water pinned at TiO2surface and drives enhanced hydrophobicity of graphene via the proximity effect to the hydrophilic TiO2surface. This importantly brings in dynamic heterogeneity, both in translational and rotational degrees of freedom, due to coupling between the slow relaxing, strongly adsorbed water layer at the hydrophilic oxide surface, and faster relaxation of subsequent water layers. The heterogeneity is signalled in the ruggedness of the effective free energy landscapes. We discuss possible implications of our findings in drug delivery.
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Affiliation(s)
- E Tendong
- Department of Condensed Matter Physics and Material Sciences & Department of Chemical Biological and Macromoleculer Sciences, S N Bose National Centre for Basic Sciences, Block JD, Sector III, Salt Lake, Kolkata - 700106, India
| | - T Saha Dasgupta
- Department of Condensed Matter Physics and Material Sciences & Department of Chemical Biological and Macromoleculer Sciences, S N Bose National Centre for Basic Sciences, Block JD, Sector III, Salt Lake, Kolkata - 700106, India
| | - J Chakrabarti
- Department of Condensed Matter Physics and Material Sciences,Thematic Unit of Excellence for Material Science & Technology Research Centre, S N Bose National Centre for Basic Sciences, Block JD, Sector III, Salt Lake, Kolkata - 700106, India
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15
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Yamada SA, Hung ST, Thompson WH, Fayer MD. Effects of pore size on water dynamics in mesoporous silica. J Chem Phys 2020; 152:154704. [DOI: 10.1063/1.5145326] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022] Open
Affiliation(s)
- Steven A. Yamada
- Department of Chemistry, Stanford University, Stanford, California 94305, USA
| | - Samantha T. Hung
- Department of Chemistry, Stanford University, Stanford, California 94305, USA
| | - Ward H. Thompson
- Department of Chemistry, University of Kansas, Lawrence, Kansas 66045, USA
| | - Michael D. Fayer
- Department of Chemistry, Stanford University, Stanford, California 94305, USA
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16
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Trofimov YA, Krylov NA, Efremov RG. Confined Dynamics of Water in Transmembrane Pore of TRPV1 Ion Channel. Int J Mol Sci 2019; 20:ijms20174285. [PMID: 31480555 PMCID: PMC6747475 DOI: 10.3390/ijms20174285] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2019] [Revised: 08/28/2019] [Accepted: 08/29/2019] [Indexed: 11/23/2022] Open
Abstract
Solvation effects play a key role in chemical and biological processes. The microscopic properties of water near molecular surfaces are radically different from those in the bulk. Furthermore, the behavior of water in confined volumes of a nanometer scale, including transmembrane pores of ion channels, is especially nontrivial. Knowledge at the molecular level of structural and dynamic parameters of water in such systems is necessary to understand the mechanisms of ion channels functioning. In this work, the results of molecular dynamics (MD) simulations of water in the pore and selectivity filter domains of TRPV1 (Transient Receptor Potential Vanilloid type 1) membrane channel are considered. These domains represent nanoscale volumes with strongly amphiphilic walls, where physical behavior of water radically differs from that of free hydration (e.g., at protein interfaces) or in the bulk. Inside the pore and filter domains, water reveals a very heterogeneous spatial distribution and unusual dynamics: It forms compact areas localized near polar groups of particular residues. Residence time of water molecules in such areas is at least 1.5 to 3 times larger than that observed for similar groups at the protein surface. Presumably, these water “blobs” play an important role in the functional activity of TRPV1. In particular, they take part in hydration of the hydrophobic TRPV1 pore by localizing up to six waters near the so-called “lower gate” of the channel and reducing by this way the free energy barrier for ion and water transport. Although the channel is formed by four identical protein subunits, which are symmetrically packed in the initial experimental 3D structure, in the course of MD simulations, hydration of the same amino acid residues of individual subunits may differ significantly. This greatly affects the microscopic picture of the distribution of water in the channel and, potentially, the mechanism of its functioning. Therefore, reconstruction of the full picture of TRPV1 channel solvation requires thorough atomistic simulations and analysis. It is important that the naturally occurring porous volumes, like ion-conducting protein domains, reveal much more sophisticated and fine-tuned regulation of solvation than, e.g., artificially designed carbon nanotubes.
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Affiliation(s)
- Yury A Trofimov
- M.M. Shemyakin & Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Miklukho-Maklaya Street, 16/10, 117997 Moscow, Russia
- National Research University Higher School of Economics, Myasnitskaya ul. 20, 101000 Moscow, Russia
- National Research Nuclear University Moscow Engineering Physics Institute, Kashirskoe Shosse, 31, 115409 Moscow, Russia
| | - Nikolay A Krylov
- M.M. Shemyakin & Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Miklukho-Maklaya Street, 16/10, 117997 Moscow, Russia
- National Research University Higher School of Economics, Myasnitskaya ul. 20, 101000 Moscow, Russia
| | - Roman G Efremov
- M.M. Shemyakin & Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Miklukho-Maklaya Street, 16/10, 117997 Moscow, Russia.
- National Research University Higher School of Economics, Myasnitskaya ul. 20, 101000 Moscow, Russia.
- Moscow Institute of Physics and Technology (State University), Dolgoprudny, 141701 Moscow, Russia.
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17
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Ma J, Xiong Y, Yu F. Comment on "Hierarchically porous, ultra-strong reduced graphene oxide-cellulose nanocrystal sponges for exceptional adsorption of water contaminants" by N. Yousefi, K. K. W. Wong, Z. Hosseinidoust, H. O. Sørensen, S. Bruns, Y. Zheng and N. Tufenkji, Nanoscale, 2018, 10, 7171. NANOSCALE 2019; 11:12720-12722. [PMID: 31237260 DOI: 10.1039/c8nr08780f] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
The MB-spot test is extensively applied to specific surface area measurement due to its simplicity compared to the classical BET test. However, the MB-spot test is vulnerable to multiple factors, preventing this newly-prevalent technique from accurately characterising the specific surface area. The inaccuracy of the MB-spot test is discussed here at length, which is urgently needed to avoid mistakes and inconsistencies regarding specific surface area characterization for carbon-based materials.
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Affiliation(s)
- Jie Ma
- State Key Laboratory of Pollution Control and Resource Reuse, College of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai 200092, P. R. China. and Shanghai Institute of Pollution Control and Ecological Security, Shanghai, 200092, P.R. China
| | - Yuecheng Xiong
- State Key Laboratory of Pollution Control and Resource Reuse, College of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai 200092, P. R. China.
| | - Fei Yu
- College of Marine Ecology and Environment, Shanghai Ocean University, Shanghai 201306, P.R. China.
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18
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M R, Ayappa KG. Enhancing the Dynamics of Water Confined between Graphene Oxide Surfaces with Janus Interfaces: A Molecular Dynamics Study. J Phys Chem B 2019; 123:2978-2993. [DOI: 10.1021/acs.jpcb.8b12341] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
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19
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Shafiei M, von Domaros M, Bratko D, Luzar A. Anisotropic structure and dynamics of water under static electric fields. J Chem Phys 2019; 150:074505. [DOI: 10.1063/1.5079393] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022] Open
Affiliation(s)
- Mahdi Shafiei
- Department of Chemistry, Virginia Commonwealth University, Richmond, Virginia 23284-2006, USA
| | - Michael von Domaros
- Department of Chemistry, University of California, Irvine, Irvine, California 92697, USA
| | - Dusan Bratko
- Department of Chemistry, Virginia Commonwealth University, Richmond, Virginia 23284-2006, USA
| | - Alenka Luzar
- Department of Chemistry, Virginia Commonwealth University, Richmond, Virginia 23284-2006, USA
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20
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Affiliation(s)
- Ward H. Thompson
- Department of Chemistry, University of Kansas, Lawrence, Kansas 66045, USA
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21
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22
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Louden PB, Gezelter JD. Why is Ice Slippery? Simulations of Shear Viscosity of the Quasi-Liquid Layer on Ice. J Phys Chem Lett 2018; 9:3686-3691. [PMID: 29916247 DOI: 10.1021/acs.jpclett.8b01339] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/05/2023]
Abstract
The temperature and depth dependence of the shear viscosity (η) of the quasi-liquid layer (QLL) of water on ice-Ih crystals was determined using simulations of the TIP4P/Ice model. The crystals display either the basal {0001} or prismatic {101̅0} facets, and we find that the QLL viscosity depends on the presented facet, the distance from the solid/liquid interface, and the undercooling temperature. Structural order parameters provide two distinct estimates of the QLL widths, which are found to range from 6.0 to 7.8 Å, and depend on the facet and undercooling temperature. Above 260 K, the viscosity of the vapor-adjacent water layer is significantly less viscous than the solid-adjacent layer and is also lower than the viscosity of liquid water.
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Affiliation(s)
- Patrick B Louden
- Department of Chemistry & Biochemistry , University of Notre Dame , 251 Nieuwland Science Hall , Notre Dame , Indiana 46556 , United States
| | - J Daniel Gezelter
- Department of Chemistry & Biochemistry , University of Notre Dame , 251 Nieuwland Science Hall , Notre Dame , Indiana 46556 , United States
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23
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Liu C, Zhang Y, Zhang J, Wang J, Li W, Wang W. Interplay between translational diffusion and large-amplitude angular jumps of water molecules. J Chem Phys 2018; 148:184502. [DOI: 10.1063/1.5017935] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Chao Liu
- National Laboratory of Solid State Microstructure, Department of Physics, and Collaborative Innovation Center of Advanced Microstructures, Nanjing University, Nanjing 210093, China
| | - Yangyang Zhang
- National Laboratory of Solid State Microstructure, Department of Physics, and Collaborative Innovation Center of Advanced Microstructures, Nanjing University, Nanjing 210093, China
| | - Jian Zhang
- National Laboratory of Solid State Microstructure, Department of Physics, and Collaborative Innovation Center of Advanced Microstructures, Nanjing University, Nanjing 210093, China
| | - Jun Wang
- National Laboratory of Solid State Microstructure, Department of Physics, and Collaborative Innovation Center of Advanced Microstructures, Nanjing University, Nanjing 210093, China
| | - Wenfei Li
- National Laboratory of Solid State Microstructure, Department of Physics, and Collaborative Innovation Center of Advanced Microstructures, Nanjing University, Nanjing 210093, China
| | - Wei Wang
- National Laboratory of Solid State Microstructure, Department of Physics, and Collaborative Innovation Center of Advanced Microstructures, Nanjing University, Nanjing 210093, China
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24
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Kyakuno H, Matsuda K, Nakai Y, Ichimura R, Saito T, Miyata Y, Hata K, Maniwa Y. Rotational dynamics and dynamical transition of water inside hydrophobic pores of carbon nanotubes. Sci Rep 2017; 7:14834. [PMID: 29093483 PMCID: PMC5666012 DOI: 10.1038/s41598-017-13704-6] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2017] [Accepted: 09/29/2017] [Indexed: 11/10/2022] Open
Abstract
Water in a nanoconfined geometry has attracted great interest from the viewpoint of not only basic science but also nanofluidic applications. Here, the rotational dynamics of water inside single-walled carbon nanotubes (SWCNTs) with mean diameters larger than ca. 1.4 nm were investigated systematically using 2H nuclear magnetic resonance spectroscopy with high-purity SWCNTs and molecular dynamics calculations. The results were compared with those for hydrophilic pores. It was found that faster water dynamics could be achieved by increasing the hydrophobicity of the pore walls and decreasing the pore diameters. These results suggest a strategy that paves the way for emerging high-performance filtration/separation devices. Upon cooling below 220 K, it was found that water undergoes a transition from fast to slow dynamics states. These results strongly suggest that the observed transition is linked to a liquid-liquid crossover or transition proposed in a two-liquid states scenario for bulk water.
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Affiliation(s)
- Haruka Kyakuno
- Department of Physics, Graduate School of Science and Engineering, Tokyo Metropolitan University, Hachioji, 192-0397, Japan. .,Institute of Physics, Faculty of Engineering, Kanagawa University, Yokohama, 221-8686, Japan.
| | - Kazuyuki Matsuda
- Institute of Physics, Faculty of Engineering, Kanagawa University, Yokohama, 221-8686, Japan
| | - Yusuke Nakai
- Department of Physics, Graduate School of Science and Engineering, Tokyo Metropolitan University, Hachioji, 192-0397, Japan
| | - Ryota Ichimura
- Department of Physics, Graduate School of Science and Engineering, Tokyo Metropolitan University, Hachioji, 192-0397, Japan
| | - Takeshi Saito
- Nanomaterials Research Institute, National Institute of Advanced Industrial Science and Technology, Tsukuba, 305-8565, Japan
| | - Yasumitsu Miyata
- Department of Physics, Graduate School of Science and Engineering, Tokyo Metropolitan University, Hachioji, 192-0397, Japan.,JST, CREST, Kawaguchi, 332-0012, Japan
| | - Kenji Hata
- CNT-application Research Center, National Institute of Advanced Industrial Science and Technology, Tsukuba, 305-8565, Japan
| | - Yutaka Maniwa
- Department of Physics, Graduate School of Science and Engineering, Tokyo Metropolitan University, Hachioji, 192-0397, Japan.
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25
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Alarcos N, Cohen B, Ziółek M, Douhal A. Photochemistry and Photophysics in Silica-Based Materials: Ultrafast and Single Molecule Spectroscopy Observation. Chem Rev 2017; 117:13639-13720. [PMID: 29068670 DOI: 10.1021/acs.chemrev.7b00422] [Citation(s) in RCA: 84] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Silica-based materials (SBMs) are widely used in catalysis, photonics, and drug delivery. Their pores and cavities act as hosts of diverse guests ranging from classical dyes to drugs and quantum dots, allowing changes in the photochemical behavior of the confined guests. The heterogeneity of the guest populations as well as the confinement provided by these hosts affect the behavior of the formed hybrid materials. As a consequence, the observed reaction dynamics becomes significantly different and complex. Studying their photobehavior requires advanced laser-based spectroscopy and microscopy techniques as well as computational methods. Thanks to the development of ultrafast (spectroscopy and imaging) tools, we are witnessing an increasing interest of the scientific community to explore the intimate photobehavior of these composites. Here, we review the recent theoretical and ultrafast experimental studies of their photodynamics and discuss the results in comparison to those in homogeneous media. The discussion of the confined dynamics includes solvation and intra- and intermolecular proton-, electron-, and energy transfer events of the guest within the SBMs. Several examples of applications in photocatalysis, (photo)sensors, photonics, photovoltaics, and drug delivery demonstrate the vast potential of the SBMs in modern science and technology.
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Affiliation(s)
- Noemí Alarcos
- Departamento de Química Física, Facultad de Ciencias Ambientales y Bioquímica, and INAMOL, Universidad de Castilla-La Mancha , Avenida Carlos III, S.N., 45071 Toledo, Spain
| | - Boiko Cohen
- Departamento de Química Física, Facultad de Ciencias Ambientales y Bioquímica, and INAMOL, Universidad de Castilla-La Mancha , Avenida Carlos III, S.N., 45071 Toledo, Spain
| | - Marcin Ziółek
- Quantum Electronics Laboratory, Faculty of Physics, Adam Mickiewicz University , Umultowska 85, 61-614 Poznań, Poland
| | - Abderrazzak Douhal
- Departamento de Química Física, Facultad de Ciencias Ambientales y Bioquímica, and INAMOL, Universidad de Castilla-La Mancha , Avenida Carlos III, S.N., 45071 Toledo, Spain
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26
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Abstract
The structure and function of biomolecules are strongly influenced by their hydration shells. Structural fluctuations and molecular excitations of hydrating water molecules cover a broad range in space and time, from individual water molecules to larger pools and from femtosecond to microsecond time scales. Recent progress in theory and molecular dynamics simulations as well as in ultrafast vibrational spectroscopy has led to new and detailed insight into fluctuations of water structure, elementary water motions, electric fields at hydrated biointerfaces, and processes of vibrational relaxation and energy dissipation. Here, we review recent advances in both theory and experiment, focusing on hydrated DNA, proteins, and phospholipids, and compare dynamics in the hydration shells to bulk water.
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Affiliation(s)
- Damien Laage
- École
Normale Supérieure, PSL Research University, UPMC Univ Paris
06, CNRS, Département de Chimie,
PASTEUR, 24 rue Lhomond, 75005 Paris, France
- Sorbonne
Universités, UPMC Univ Paris 06, ENS, CNRS, PASTEUR, 75005 Paris, France
| | - Thomas Elsaesser
- Max-Born-Institut
für Nichtlineare Optik und Kurzzeitspektroskopie, D-12489 Berlin, Germany
| | - James T. Hynes
- École
Normale Supérieure, PSL Research University, UPMC Univ Paris
06, CNRS, Département de Chimie,
PASTEUR, 24 rue Lhomond, 75005 Paris, France
- Sorbonne
Universités, UPMC Univ Paris 06, ENS, CNRS, PASTEUR, 75005 Paris, France
- Department
of Chemistry and Biochemistry, University
of Colorado, Boulder, Colorado 80309, United
States
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27
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Kimmich R, Fatkullin N. Self-diffusion studies by intra- and inter-molecular spin-lattice relaxometry using field-cycling: Liquids, plastic crystals, porous media, and polymer segments. PROGRESS IN NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY 2017; 101:18-50. [PMID: 28844220 DOI: 10.1016/j.pnmrs.2017.04.001] [Citation(s) in RCA: 39] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/10/2017] [Revised: 04/02/2017] [Accepted: 04/02/2017] [Indexed: 06/07/2023]
Abstract
Field-cycling NMR relaxometry is a well-established technique for probing molecular dynamics in a frequency range from typically a few kHz up to several tens of MHz. For the interpretation of relaxometry data, it is quite often assumed that the spin-lattice relaxation process is of an intra-molecular nature so that rotational fluctuations dominate. However, dipolar interactions as the main type of couplings between protons and other dipolar species without quadrupole moments can imply appreciable inter-molecular contributions. These fluctuate due to translational displacements and to a lesser degree also by rotational reorientations in the short-range limit. The analysis of the inter-molecular proton spin-lattice relaxation rate thus permits one to evaluate self-diffusion variables such as the diffusion coefficient or the mean square displacement on a time scale from nanoseconds to several hundreds of microseconds. Numerous applications to solvents, plastic crystals and polymers will be reviewed. The technique is of particular interest for polymer dynamics since inter-molecular spin-lattice relaxation diffusometry bridges the time scales of quasi-elastic neutron scattering and field-gradient NMR diffusometry. This is just the range where model-specific intra-coil mechanisms are assumed to occur. They are expected to reveal themselves by characteristic power laws for the time-dependence of the mean-square segment displacement. These can be favorably tested on this basis. Results reported in the literature will be compared with theoretical predictions. On the other hand, there is a second way for translational diffusion phenomena to affect the spin-lattice relaxation dispersion. If rotational diffusion of molecules is restricted, translational diffusion properties can be deduced even from molecular reorientation dynamics detected by intra-molecular spin-lattice relaxation. This sort of scenario will be relevant for adsorbates on surfaces or polymer segments under entanglement and chain connectivity constraints. Under such conditions, reorientations will be correlated with translational displacements leading to the so-called RMTD relaxation process (reorientation mediated by translational displacements). Applications to porous glasses, protein solutions, lipid bilayers, and clays will be discussed. Finally, we will address the intriguing fact that the various time limits of the segment mean-square displacement of polymers in some cases perfectly reproduce predictions of the tube/reptation model whereas the reorientation dynamics suggests strongly deviating power laws.
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Affiliation(s)
| | - Nail Fatkullin
- Institute of Physics, Kazan Federal University, Kazan 420008 Tatarstan, Russia
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28
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Yamada SA, Thompson WH, Fayer MD. Water-anion hydrogen bonding dynamics: Ultrafast IR experiments and simulations. J Chem Phys 2017. [DOI: 10.1063/1.4984766] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Steven A. Yamada
- Department of Chemistry, Stanford University, Stanford, California 94305, USA
| | - Ward H. Thompson
- Department of Chemistry, University of Kansas, Lawrence, Kansas 66045, USA
| | - Michael D. Fayer
- Department of Chemistry, Stanford University, Stanford, California 94305, USA
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29
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Das S, Biswas R, Mukherjee B. Collective dynamic dipole moment and orientation fluctuations, cooperative hydrogen bond relaxations, and their connections to dielectric relaxation in ionic acetamide deep eutectics: Microscopic insight from simulations. J Chem Phys 2017; 145:084504. [PMID: 27586932 DOI: 10.1063/1.4961586] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The paper reports a detailed simulation study on collective reorientational relaxation, cooperative hydrogen bond (H-bond) fluctuations, and their connections to dielectric relaxation (DR) in deep eutectic solvents made of acetamide and three uni-univalent electrolytes, lithium nitrate (LiNO3), lithium bromide (LiBr), and lithium perchlorate (LiClO4). Because cooperative H-bond fluctuations and ion migration complicate the straightforward interpretation of measured DR timescales in terms of molecular dipolar rotations for these conducting media which support extensive intra- and inter-species H-bonding, one needs to separate out the individual components from the overall relaxation for examining the microscopic origin of various timescales. The present study does so and finds that reorientation of ion-complexed acetamide molecules generates relaxation timescales that are in sub-nanosecond to nanosecond range. This explains in molecular terms the nanosecond timescales reported by recent giga-Hertz DR measurements. Interestingly, the simulated survival timescale for the acetamide-Li(+) complex has been found to be a few tens of nanosecond, suggesting such a cation-complexed species may be responsible for a similar timescale reported by mega-Hertz DR measurements of acetamide/potassium thiocyanate deep eutectics near room temperature. The issue of collective versus single particle relaxation is discussed, and jump waiting time distributions are determined. Dependence on anion-identity in each of the cases has been examined. In short, the present study demonstrates that assumption of nano-sized domain formation is not required for explaining the DR detected nanosecond and longer timescales in these media.
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Affiliation(s)
- Suman Das
- Chemical, Biological and Macromolecular Sciences, S. N. Bose National Centre for Basic Sciences, Block-JD, Sector-III, Salt Lake, Kolkata 700098, India
| | - Ranjit Biswas
- Chemical, Biological and Macromolecular Sciences, S. N. Bose National Centre for Basic Sciences, Block-JD, Sector-III, Salt Lake, Kolkata 700098, India
| | - Biswaroop Mukherjee
- Thematic Unit for Excellence - Computational Materials Science, S. N. Bose National Centre for Basic Sciences, Block-JD, Sector-III, Salt Lake, Kolkata 700098, India
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30
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Gonzalez-Salgado D, Vega C. A new intermolecular potential for simulations of methanol: The OPLS/2016 model. J Chem Phys 2017; 145:034508. [PMID: 27448897 DOI: 10.1063/1.4958320] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
In this work, a new rigid-nonpolarizable model of methanol is proposed. The model has three sites, located at the same positions as those used in the OPLS model previously proposed by Jorgensen [J. Phys. Chem. 90, 1276 (1986)]. However, partial charges and the values of the Lennard-Jones parameters were modified by fitting to an adequately selected set of target properties including solid-fluid experimental data. The new model was denoted as OPLS/2016. The overall performance of this model was evaluated and compared to that obtained with other popular models of methanol using a similar test to that recently proposed for water models. In the test, a certain numerical score is given to each model. It was found that the OPLS/2016 obtained the highest score (7.4 of a maximum of 10) followed by L1 (6.6), L2 (6.4), OPLS (5.8), and H1 (3.5) models. The improvement of OPLS/2016 with respect to L1 and L2 is mainly due to an improvement in the description of fluid-solid equilibria (the melting point is only 14 K higher than the experimental value). In addition, it was found that no methanol model was able to reproduce the static dielectric constant and the isobaric heat capacity, whereas the better global performance was found for models that reproduce the vaporization enthalpy once the so-called polarization term is included. Similar conclusions were suggested previously in the analysis of water models and are confirmed here for methanol.
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Affiliation(s)
- D Gonzalez-Salgado
- Departamento de Física Aplicada, Universidad de Vigo, 32004 Ourense, Spain
| | - C Vega
- Departamento de Química Física, Facultad de Ciencias Químicas, Universidad Complutense, 28040 Madrid, Spain
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31
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FUKATSU Y, MORIKAWA K, IKEDA Y, TSUKAHARA T. Temperature and Size Effects on Structural and Dynamical Properties of Water Confined in 1 – 10 nm-scale Pores Using Proton NMR Spectroscopy. ANAL SCI 2017; 33:903-909. [DOI: 10.2116/analsci.33.903] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Affiliation(s)
- Yuta FUKATSU
- Laboratory for Advanced Nuclear Energy, Tokyo Institute of Technology
| | - Kyojiro MORIKAWA
- Laboratory for Advanced Nuclear Energy, Tokyo Institute of Technology
| | - Yasuhisa IKEDA
- Laboratory for Advanced Nuclear Energy, Tokyo Institute of Technology
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32
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Nishida J, Yan C, Fayer MD. Orientational Dynamics of a Functionalized Alkyl Planar Monolayer Probed by Polarization-Selective Angle-Resolved Infrared Pump–Probe Spectroscopy. J Am Chem Soc 2016; 138:14057-14065. [DOI: 10.1021/jacs.6b08672] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Jun Nishida
- Department of Chemistry, Stanford University, Stanford, California 94305, United States
| | - Chang Yan
- Department of Chemistry, Stanford University, Stanford, California 94305, United States
| | - Michael D. Fayer
- Department of Chemistry, Stanford University, Stanford, California 94305, United States
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33
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Gupta PK, Meuwly M. Structure and Dynamics of Water/Methanol Mixtures at Hydroxylated Silica Interfaces Relevant to Chromatography. Chemphyschem 2016; 17:2938-44. [DOI: 10.1002/cphc.201600180] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2016] [Revised: 04/29/2016] [Indexed: 11/11/2022]
Affiliation(s)
- Prashant Kumar Gupta
- Department of Chemistry; University of Basel; Klingelbergstrasse 80 CH-4056 Basel Switzerland
- Lehrstuhl für Theoretische Chemie; Ruhr-Universität Bochum; Universitätsstraße 150 D-44801 Bochum Germany
| | - Markus Meuwly
- Department of Chemistry; University of Basel; Klingelbergstrasse 80 CH-4056 Basel Switzerland
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34
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Burris PC, Laage D, Thompson WH. Simulations of the infrared, Raman, and 2D-IR photon echo spectra of water in nanoscale silica pores. J Chem Phys 2016; 144:194709. [DOI: 10.1063/1.4949766] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Paul C. Burris
- Department of Chemistry, University of Kansas, Lawrence, Kansas 66045, USA
| | - Damien Laage
- Département de Chimie, Ecole Normale Supérieure-PSL Research University, Sorbonne Universités-UPMC Univ Paris 06, CNRS UMR 8640 PASTEUR, 24 rue Lhomond, 75005 Paris, France
| | - Ward H. Thompson
- Department of Chemistry, University of Kansas, Lawrence, Kansas 66045, USA
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35
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Gierada M, Petit I, Handzlik J, Tielens F. Hydration in silica based mesoporous materials: a DFT model. Phys Chem Chem Phys 2016; 18:32962-32972. [DOI: 10.1039/c6cp05460a] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In this work, calculable and realistic DFT models of MCM-41 material that follow temperature dependence of silanol density were developed. They can be easily applied in further studies of adsorption or as a support for catalysts.
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Affiliation(s)
- Maciej Gierada
- Faculty of Chemical Engineering and Technology
- Cracow University of Technology
- 31-155 Kraków
- Poland
| | - Ivan Petit
- Sorbonne Universités
- UPMC Univ Paris 06
- UMR 7574
- Laboratoire Chimie de la Matière Condensée
- Collège de France
| | - Jarosław Handzlik
- Faculty of Chemical Engineering and Technology
- Cracow University of Technology
- 31-155 Kraków
- Poland
| | - Frederik Tielens
- Sorbonne Universités
- UPMC Univ Paris 06
- UMR 7574
- Laboratoire Chimie de la Matière Condensée
- Collège de France
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36
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Hande VR, Chakrabarty S. Exploration of the presence of bulk-like water in AOT reverse micelles and water-in-oil nanodroplets: the role of charged interfaces, confinement size and properties of water. Phys Chem Chem Phys 2016; 18:21767-79. [DOI: 10.1039/c6cp04378j] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Abstract
We show that the distance from the interface at which bulk-like properties are recovered strongly depends on the choice of order parameter being probed: translational < tetrahedral ≪ dipolar orientation.
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Affiliation(s)
- Vrushali R. Hande
- Physical and Materials Chemistry Division
- CSIR-National Chemical Laboratory
- Pune-411008
- India
| | - Suman Chakrabarty
- Physical and Materials Chemistry Division
- CSIR-National Chemical Laboratory
- Pune-411008
- India
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37
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Morón MC, Prada-Gracia D, Falo F. Macro and nano scale modelling of water–water interactions at ambient and low temperature: relaxation and residence times. Phys Chem Chem Phys 2016; 18:9377-87. [DOI: 10.1039/c5cp06791j] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A method to predict magnitudes in quantitative agreement with experimental data has been devised and applied to model water–water interactions at low temperature.
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Affiliation(s)
- María Carmen Morón
- Instituto de Ciencia de Materiales de Aragón (ICMA)
- Consejo Superior de Investigaciones Científicas-Universidad de Zaragoza
- E-50009 Zaragoza
- Spain
- Departamento de Física de la Materia Condensada
| | - Diego Prada-Gracia
- Freiburg Institute for Advanced Studies
- School of Soft Matter Research
- 79104 Freiburg im Breisgau
- Germany
| | - Fernando Falo
- Departamento de Física de la Materia Condensada
- Facultad de Ciencias
- Universidad de Zaragoza
- Zaragoza
- Spain
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38
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Yang M. Validity of Förster Theory for Vibrational Energy Transfer in Low-Dimensional Water. J Phys Chem B 2015; 119:15516-21. [DOI: 10.1021/acs.jpcb.5b10371] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Mino Yang
- Department of Chemistry, Chungbuk National University, Cheongju, Chungbuk 28644, Korea
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39
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Mesele OO, Vartia AA, Laage D, Thompson WH. Reorientation of Isomeric Butanols: The Multiple Effects of Steric Bulk Arrangement on Hydrogen-Bond Dynamics. J Phys Chem B 2015; 120:1546-59. [DOI: 10.1021/acs.jpcb.5b07692] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Oluwaseun O. Mesele
- Department
of Chemistry, University of Kansas, Lawrence, Kansas 66045, United States
| | - Anthony A. Vartia
- Department
of Chemistry, University of Kansas, Lawrence, Kansas 66045, United States
| | - Damien Laage
- Department
of Chemistry, Ecole Normale Supérieure, UMR ENS-CNRS-UPMC 8640, 24 rue Lhmond, 75005 Paris, France
| | - Ward H. Thompson
- Department
of Chemistry, University of Kansas, Lawrence, Kansas 66045, United States
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40
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Martinez AV, Małolepsza E, Rivera E, Lu Q, Straub JE. Exploring the role of hydration and confinement in the aggregation of amyloidogenic peptides Aβ(16-22) and Sup35(7-13) in AOT reverse micelles. J Chem Phys 2015; 141:22D530. [PMID: 25494801 DOI: 10.1063/1.4902550] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Knowledge of how intermolecular interactions of amyloid-forming proteins cause protein aggregation and how those interactions are affected by sequence and solution conditions is essential to our understanding of the onset of many degenerative diseases. Of particular interest is the aggregation of the amyloid-β (Aβ) peptide, linked to Alzheimer's disease, and the aggregation of the Sup35 yeast prion peptide, which resembles the mammalian prion protein linked to spongiform encephalopathies. To facilitate the study of these important peptides, experimentalists have identified small peptide congeners of the full-length proteins that exhibit amyloidogenic behavior, including the KLVFFAE sub-sequence, Aβ16-22, and the GNNQQNY subsequence, Sup357-13. In this study, molecular dynamics simulations were used to examine these peptide fragments encapsulated in reverse micelles (RMs) in order to identify the fundamental principles that govern how sequence and solution environment influence peptide aggregation. Aβ16-22 and Sup357-13 are observed to organize into anti-parallel and parallel β-sheet arrangements. Confinement in the sodium bis(2-ethylhexyl) sulfosuccinate (AOT) reverse micelles is shown to stabilize extended peptide conformations and enhance peptide aggregation. Substantial fluctuations in the reverse micelle shape are observed, in agreement with earlier studies. Shape fluctuations are found to facilitate peptide solvation through interactions between the peptide and AOT surfactant, including direct interaction between non-polar peptide residues and the aliphatic surfactant tails. Computed amide I IR spectra are compared with experimental spectra and found to reflect changes in the peptide structures induced by confinement in the RM environment. Furthermore, examination of the rotational anisotropy decay of water in the RM demonstrates that the water dynamics are sensitive to the presence of peptide as well as the peptide sequence. Overall, our results demonstrate that the RM is a complex confining environment where substantial direct interaction between the surfactant and peptides plays an important role in determining the resulting ensemble of peptide conformations. By extension the results suggest that similarly complex sequence-dependent interactions may determine conformational ensembles of amyloid-forming peptides in a cellular environment.
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Affiliation(s)
| | - Edyta Małolepsza
- Department of Chemistry, Boston University, Boston, Massachusetts 02215, USA
| | - Eva Rivera
- Department of Chemistry and Biochemistry, Queens College, City University of New York (CUNY), Flushing, New York 11791, USA
| | - Qing Lu
- Division of Materials Science and Engineering, Boston University, Brookline, Massachusetts 02446, USA
| | - John E Straub
- Department of Chemistry, Boston University, Boston, Massachusetts 02215, USA
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41
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Martinez AV, Małolepsza E, Domínguez L, Lu Q, Straub JE. Role of Charge and Solvation in the Structure and Dynamics of Alanine-Rich Peptide AKA2 in AOT Reverse Micelles. J Phys Chem B 2015; 119:9084-90. [PMID: 25337983 PMCID: PMC4516319 DOI: 10.1021/jp508813n] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2014] [Revised: 10/20/2014] [Indexed: 11/28/2022]
Abstract
The propensity of peptides to form α-helices has been intensely studied using theory, computation, and experiment. Important model peptides for the study of the coil-to-helix transition have been alanine-lysine (AKA) peptides in which the lysine residues are placed on opposite sides of the helix avoiding charge repulsion while enhancing solubility. In this study, the effects of capped versus zwitterionic peptide termini on the secondary structure of alanine-rich peptides in reverse micelles are explored. The reverse micelles are found to undergo substantial shape fluctuations, a property observed in previous studies of AOT reverse micelles in the absence of solvated peptide. The peptides are observed to interact with water, as well as the AOT surfactant, including interactions between the nonpolar residues and the aliphatic surfactant tails. Computation of IR spectra for the amide I band of the peptide allows for direct comparison with experimental spectra. The results demonstrate that capped AKA2 peptides form more stable α helices than zwitterionic AKA2 peptides in reverse micelles. The rotational anisotropy decay of water is found to be distinctly different in the presence or absence of peptide within the reverse micelle, suggesting that the introduction of peptide significantly alters the number of free waters within the reverse micelle nanopool. However, neither the nature of the peptide termini (capped or charged) nor the degree of peptide helicity is found to significantly alter the balance of interactions between the peptides and the environment. Observed changes in the degree of helicity in AKA2 peptides in bulk solution and in reverse micelle environments result from changes in peptide confinement and hydration as well as direct nonpolar and polar interactions with the water-surfactant interface.
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Affiliation(s)
- Anna Victoria Martinez
- Department
of Chemistry, Boston University, 590 Commonwealth Avenue, Boston, Massachusetts 02215, United States
| | - Edyta Małolepsza
- Department
of Chemistry, Boston University, 590 Commonwealth Avenue, Boston, Massachusetts 02215, United States
| | - Laura Domínguez
- Department
of Chemistry, Boston University, 590 Commonwealth Avenue, Boston, Massachusetts 02215, United States
| | - Qing Lu
- Division
of Materials Science and Engineering, Boston
University, 15 Saint
Mary’s Street, Brookline, Massachusetts 02446, United States
| | - John E. Straub
- Department
of Chemistry, Boston University, 590 Commonwealth Avenue, Boston, Massachusetts 02215, United States
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42
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Harvey JA, Thompson WH. Solute location in a nanoconfined liquid depends on charge distribution. J Chem Phys 2015; 143:044701. [DOI: 10.1063/1.4926936] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Jacob A. Harvey
- Department of Chemistry, University of Kansas, Lawrence, Kansas 66045, USA
| | - Ward H. Thompson
- Department of Chemistry, University of Kansas, Lawrence, Kansas 66045, USA
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43
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Chen M, Lu X, Liu X, Hou Q, Zhu Y, Zhou H. Slow dynamics of water confined in Newton black films. Phys Chem Chem Phys 2015; 17:19183-93. [PMID: 26135223 DOI: 10.1039/c5cp02908b] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Slowdown of translational and reorientational dynamics of water confined in Newton black films (NBFs) is revealed by molecular dynamics simulations. As a film becomes thinner, both translational and reorientational dynamics become slower. The polarization of water molecules in the macroscopic electrostatic field across the NBF and the coordination of Na(+) ions and surfactant anionic groups around water molecules concertedly lead to slowdown of water dynamics. The polarization effect is obvious for water not coordinated by Na(+) ions, which exhibits reorientational dynamics depending on initial dipole orientations. Na(+) ions and surfactant anionic groups retard dynamics of surrounding water by decreasing the hydrogen bond exchange probability and increasing the viscosity of water. The dependences of translational and reorientational dynamics on coordination environments of water are similar. Dynamics of water in positions close to the interfaces of NBFs are mainly retarded by Na(+) ions and surfactant anionic groups, while the macroscopic polarization effect plays the main role in influencing water dynamics in positions far from the interfaces. This study sheds light on the improvement of knowledge about the water dynamics slowdown mechanism in similar environments like reverse micelles and lamellar structures.
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Affiliation(s)
- Meng Chen
- State Key Laboratory for Mineral Deposits Research, School of Earth Sciences and Engineering, Nanjing University, Nanjing, Jiangsu 210093, China.
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44
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Coussan S, Roubin P, Noble JA. Inhomogeneity of the amorphous solid water dangling bonds. Phys Chem Chem Phys 2015; 17:9429-35. [PMID: 25766969 DOI: 10.1039/c5cp00662g] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
Amorphous solid water (ASW) is one of the most widely studied molecular systems because of its importance in the physics and chemistry of the interstellar medium and the upper layers of the Earth's atmosphere. Although the global structure of this material, i.e. the bulk and the surface, is well characterised, we are far from having an overall understanding of the changes induced upon chemical or physical perturbation. More specifically, the behaviour of the surface and the immediate sublayers upon mid-infrared irradiation must be understood due to its direct effect on the adsorption capacities of the ASW surface. Small molecules can accrete or form at the surface, adsorbed on the dangling OH groups of surface water molecules. This behaviour allows further reactivity which, in turn, could lead to more complex molecular systems. We have already demonstrated that selective IR irradiations of surface water molecules induce a modification of the surface and the production of a new monomer species which bonds to the surface via its two electronic doublets. However, we did not probe the structure of the dangling bands, namely their homogeneity or inhomogeneity. The structure and orientation of these surface molecules are closely linked to the way the surface can relax its vibrational energy. In this work, we have focussed our attention on the two dH dangling bonds, carrying out a series of selective irradiations which reveal the inhomogeneity of these surface modes. We have also studied the effects of irradiation duration on the surface reorientation, determining that the maximum photoinduced isomerisation yield is ∼15%.
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Affiliation(s)
- Stéphane Coussan
- Laboratoire Physique des Interactions Ioniques et Moléculaires, UMR 7345-CNRS, Aix-Marseille Université, Centre St-Jérôme, 13397 Marseille Cedex 20, France.
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45
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Milischuk AA, Ladanyi BM. Polarizability anisotropy relaxation in nanoconfinement: Molecular simulation study of water in cylindrical silica pores. J Chem Phys 2014; 141:18C513. [DOI: 10.1063/1.4896218] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Anatoli A. Milischuk
- Department of Chemistry, Colorado State University, Fort Collins, Colorado 80523-1872, USA
| | - Branka M. Ladanyi
- Department of Chemistry, Colorado State University, Fort Collins, Colorado 80523-1872, USA
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46
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Fogarty AC, Duboué-Dijon E, Laage D, Thompson WH. Origins of the non-exponential reorientation dynamics of nanoconfined water. J Chem Phys 2014; 141:18C523. [DOI: 10.1063/1.4896983] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Aoife C. Fogarty
- Ecole Normale Supérieure - PSL Research University, Département de Chimie, Sorbonne Universités - UPMC Univ Paris 06, CNRS UMR 8640 PASTEUR, 24 rue Lhomond, 75005 Paris, France
| | - Elise Duboué-Dijon
- Ecole Normale Supérieure - PSL Research University, Département de Chimie, Sorbonne Universités - UPMC Univ Paris 06, CNRS UMR 8640 PASTEUR, 24 rue Lhomond, 75005 Paris, France
| | - Damien Laage
- Ecole Normale Supérieure - PSL Research University, Département de Chimie, Sorbonne Universités - UPMC Univ Paris 06, CNRS UMR 8640 PASTEUR, 24 rue Lhomond, 75005 Paris, France
| | - Ward H. Thompson
- Department of Chemistry, University of Kansas, Lawrence, Kansas 66045, USA
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47
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Harvey JA, Thompson WH. Thermodynamic Driving Forces for Dye Molecule Position and Orientation in Nanoconfined Solvents. J Phys Chem B 2014; 119:9150-9. [DOI: 10.1021/jp509051n] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Jacob A. Harvey
- Department
of Chemistry, University of Kansas, Lawrence, Kansas 66045, United States
| | - Ward H. Thompson
- Department
of Chemistry, University of Kansas, Lawrence, Kansas 66045, United States
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48
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Thompson WH. Structure, dynamics and hydrogen bonding of acetonitrile in nanoscale silica pores. MOLECULAR SIMULATION 2014. [DOI: 10.1080/08927022.2014.926550] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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49
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Gruenbaum SM, Skinner JL. Vibrational spectroscopy of water in hydrated lipid multi-bilayers. III. Water clustering and vibrational energy transfer. J Chem Phys 2014; 139:175103. [PMID: 24206336 DOI: 10.1063/1.4827018] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022] Open
Abstract
Water clustering and connectivity around lipid bilayers strongly influences the properties of membranes and is important for functions such as proton and ion transport. Vibrational anisotropic pump-probe spectroscopy is a powerful tool for understanding such clustering, as the measured anisotropy depends upon the time-scale and degree of intra- and intermolecular vibrational energy transfer. In this article, we use molecular dynamics simulations and theoretical vibrational spectroscopy to help interpret recent experimental measurements of the anisotropy of water in lipid multi-bilayers as a function of both lipid hydration level and isotopic substitution. Our calculations are in satisfactory agreement with the experiments of Piatkowski, Heij, and Bakker, and from our simulations we can directly probe water clustering and connectivity. We find that at low hydration levels, many water molecules are in fact isolated, although up to 70% of hydration water forms small water clusters or chains. At intermediate hydration levels, water forms a wide range of cluster sizes, while at higher hydration levels, the majority of water molecules are part of a large, percolating water cluster. Therefore, the size, number, and nature of water clusters are strongly dependent on lipid hydration level, and the measured anisotropy reflects this through its dependence on intermolecular energy transfer.
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Affiliation(s)
- S M Gruenbaum
- Theoretical Chemistry Institute and Department of Chemistry, 1101 University Ave., University of Wisconsin-Madison, Madison, Wisconsin 53706, USA
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50
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Suffritti GB, Demontis P, Gulín-González J, Masia M. Distributions of single-molecule properties as tools for the study of dynamical heterogeneities in nanoconfined water. JOURNAL OF PHYSICS. CONDENSED MATTER : AN INSTITUTE OF PHYSICS JOURNAL 2014; 26:155103. [PMID: 24675399 DOI: 10.1088/0953-8984/26/15/155103] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
The explicit trend of the distribution functions of single-molecule rotational relaxation constants and atomic mean-square displacement are used to study the dynamical heterogeneities in nanoconfined water. The trend of the single-molecule properties distributions is related to the dynamic heterogeneities, and to the dynamic crossovers found in water clusters of different shapes and sizes and confined in a variety of zeolites. This was true in all the cases that were considered, in spite of the various shapes and sizes of the clusters. It is confirmed that the high temperature dynamical crossover occurring in the temperature range 200-230 K can be interpreted at a molecular level as the formation of almost translationally rigid clusters, characterized by some rotational freedom, hydrogen bond exchange and translational jumps as cage-to-cage processes. We also suggest a mechanism for the low temperature dynamical crossover (LTDC), falling in the temperature range 150-185 K, through which the adsorbed water clusters are made of nearly rigid sub-clusters, slightly mismatched, and thus permitting a relatively free librational motion at their borders. It appears that the condition required for LTDC to occur is the presence of highly heterogeneous environments for the adsorbed molecules, with some dangling hydrogen bonds or weaker than water-water hydrogen bonds. Under these conditions some dynamics are permitted at very low temperature, although most rotational motion is frozen. Therefore, it is unlikely, though not entirely excluded, that LTDC will be found in supercooled bulk water where no heterogeneous interface is present.
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Affiliation(s)
- G B Suffritti
- Dipartimento di Chimica e Farmacia, Università di Sassari and INSTM, Unità di ricerca di Sassari, Via Vienna 2, I-07100 Sassari, Italy
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