1
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Mukherjee K, Palchowdhury S, Maroncelli M. Do Electrostatics Control the Diffusive Dynamics of Solitary Water? NMR and MD Studies of Water Translation and Rotation in Dipolar and Ionic Solvents. J Phys Chem B 2024; 128:3689-3706. [PMID: 38588535 DOI: 10.1021/acs.jpcb.3c08300] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/10/2024]
Abstract
NMR-based measurements of the diffusion coefficients and rotation times of solitary water and benzene at 300 K are reported in a diverse collection of 13 conventional organic solvents and 10 imidazolium ionic liquids. Proton chemical shifts of water are found to be correlated to water OH-stretching frequencies, confirming the importance of electrostatic interactions in these shifts. However, the influence of magnetic interactions in aromatic solvents renders chemical shifts a less reliable indicator of electrostatics. Diffusion coefficients (DB) and rotational correlation times (τB) of benzene in the solvents examined are accurately described as functions of viscosity (η) by DB ∝ η-0.81 and τB ∝ η0.64. Literature values of DB and τB in alkane and normal alcohols, which were not included among the solvents studied here, are systematically faster than predicted by these correlations, indicating that factors beyond solvent viscosity play a role in determining the friction on benzene. In contrast to benzene, water diffusion and rotation are poorly described in terms of viscosity alone, even in the dipolar and ionic solvents measured here. The present data and the substantial literature data already available on dilute water diffusion show a systematic dependence of DW on solvent polarity among isoviscous solvents. The aspect of solvent polarity most relevant to water dynamics is the ability of a solvent to accept hydrogen bonds from water, as conveniently quantified by the frequency of water's OH stretching band, ΔνOH. The friction on translation, ζtr = kBT/DW, and rotation, ζrot = kBTτW, are both well correlated by functions of the form ζ(η, ΔνOH) = a1ηa2 exp (a3ΔνOH), where the ai are adjustable parameters. Molecular dynamics simulations reveal a strong coupling between electrostatic and nonelectrostatic water-solvent interactions, which makes it impossible to dissect the friction on water into additive dielectric and hydrodynamic components. Simulations also provide a tentative explanation for the unusual form of the correlating function ζ(η, ΔνOH), at least in the case of ζrot.
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Affiliation(s)
- Kallol Mukherjee
- Department of Chemistry, The Pennsylvania State University, University Park, Pennsylvania 16802, United States
| | - Sourav Palchowdhury
- Department of Chemistry, The Pennsylvania State University, University Park, Pennsylvania 16802, United States
| | - Mark Maroncelli
- Department of Chemistry, The Pennsylvania State University, University Park, Pennsylvania 16802, United States
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2
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Malik R, Chandra A, Das B, Chandra A. Theoretical Study of the Two-Dimensional Vibrational Sum Frequency Generation Spectroscopy of the Air-Water Interface at Varying Temperature and Its Connections to the Interfacial Structure and Dynamics. J Phys Chem B 2023; 127:10880-10895. [PMID: 38055625 DOI: 10.1021/acs.jpcb.3c03205] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/08/2023]
Abstract
We performed a theoretical study of the temperature variation of two-dimensional vibrational sum frequency generation (2D-VSFG) spectra of the OH stretch modes at air-water interfaces in the mid-IR region. The calculations are performed at four different temperatures from 250 to 325 K by using a combination of techniques involving response function formalism of nonlinear spectroscopy, electronic structure calculations, and molecular dynamics simulations. Also, the calculations are performed for isotopically dilute solutions so that the intra- and intermolecular coupling between the vibrational modes of interest can be ignored. We have established the connections of temperature variation of various frequency- and time-dependent features of the calculated spectra to the changes in the underlying structure and dynamics of the interfaces. The results reveal that interfacial water is dynamically more heterogeneous than bulk water, with three dominant dynamical processes exhibiting their corresponding time-dependent features in the 2D-VSFG spectrum. These are the spectral diffusion of hydrogen-bonded OH groups at the interface, conversion of an initially hydrogen-bonded OH group to a dangling OH which is a stable state for surface water, unlike the bulk water, and the third one, which involves the conversion of an initially free or dangling OH group to its hydrogen-bonded state at the interface. The temporal appearance of the cross peaks corresponding to interconversion of the hydrogen-bonded state to the dangling state or vice versa of an interfacial OH group is found to take place at a slower rate than the dynamics of spectral diffusion of hydrogen-bonded molecules at the interface, which, in turn, is slower than the corresponding spectral diffusion of bulk water molecules. The temperature variation of these dynamic processes can be linked to the decay of appropriate hydrogen-bond and non-hydrogen-bond time correlation functions of interfacial water molecules for the different air-water systems studied in this work.
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Affiliation(s)
- Ravi Malik
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur, Uttar Pradesh 208016, India
| | - Abhilash Chandra
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur, Uttar Pradesh 208016, India
| | - Banshi Das
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur, Uttar Pradesh 208016, India
| | - Amalendu Chandra
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur, Uttar Pradesh 208016, India
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3
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Malik R, Chandra A. Counteracting Effects of Trimethylamine N-Oxide against Urea in Aqueous Solutions: Insights from Theoretical Two-Dimensional Infrared Spectroscopy. J Phys Chem B 2023; 127:7372-7383. [PMID: 37566900 DOI: 10.1021/acs.jpcb.3c03864] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/13/2023]
Abstract
The study of small osmolytes in their aqueous solutions has gained significant attention because of their relevance to structure and thermodynamics of proteins in aqueous media. Special attention has been given to the binary and ternary aqueous solutions of urea and trimethylamine N-oxide (TMAO). Urea is a well-known protein denaturant, while TMAO protects proteins in their native states. Interestingly, TMAO counteracts urea's ability to denature proteins when present in solutions with approximately half of the concentration of urea. Vibrational spectroscopy can improve our understanding of the molecular origin of this counteracting effect because of its sensitivity to local structure and dynamics. We present results of theoretical linear vibrational and two-dimensional infrared (2DIR) spectroscopy of water in the binary and ternary aqueous solutions of TMAO and urea. The 2DIR spectra are calculated using the electronic structure/molecular dynamics approach. The non-Condon effects in spectral transitions are incorporated in the theoretical calculations of 2DIR spectra. It is found that TMAO disrupts the local structure of water, while urea leaves it essentially unaffected. The 2DIR results show that both TMAO and urea slow down the dynamics of spectral diffusion of water. The extent of slowing down is found to be particularly significant for both hydration and bulk water in the presence of TMAO which can be attributed to strong hydrogen bonds between the water and TMAO molecules. The water molecules present in the hydration layer of the solutes in the ternary solutions are found to relax at even slower rates compared to that in their binary solutions in water. The hydrogen bonds between TMAO and urea are found to be not stable. Thus, the counteracting effect of TMAO against urea is seen to take place mainly through water-mediated interactions. Such TMAO-induced effects giving rise to more structured and slower hydrogen-bonded network are successfully captured through 2DIR spectroscopic calculations.
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Affiliation(s)
- Ravi Malik
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur, Uttar Pradesh 208016, India
| | - Amalendu Chandra
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur, Uttar Pradesh 208016, India
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4
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Huchmala RM, McCoy AB. Exploring the Origins of the Intensity of the OH Stretch-HOH Bend Combination Band in Water. J Phys Chem A 2023; 127:6711-6721. [PMID: 37552561 DOI: 10.1021/acs.jpca.3c02980] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/10/2023]
Abstract
While the intensity of the OH stretching fundamental transition is strongly correlated to hydrogen-bond strength, the intensity of the corresponding transition to the state with one quantum of excitation in both the OH stretching and HOH bending vibrations in the same water molecule shows a much weaker sensitivity to the hydrogen-bonding environment. The origins of this difference are explored through analyses of the contributions of terms in the expansion of the dipole moment to the calculated intensity. It is found that the leading contribution to the stretch-bend intensity involves the second derivative of the dipole moment with respect to the OH bond length and HOH angle. While this is not surprising, the insensitivity of this derivative to the hydrogen-bonding environment is unexpected. Possible contributions of mode mixing are also explored. While mode mixing leads to splittings of the energies of nearly degenerate excited states, it does not result in significant changes in the sum of the intensities of these transitions. Analysis of changes in the partial charges on the hydrogen atoms upon displacement of the HOH angles shows that these charges generally increase with increasing HOH angle. This effect is partially canceled by a decrease in the charge of the hydrogen atom when a hydrogen bond is broken. The extent of this cancellation increases with the hydrogen bond strength, which is reflected in the observed insensitivity of the intensity of the stretch-bend transition to hydrogen-bond strength.
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Affiliation(s)
- Rachel M Huchmala
- Department of Chemistry, University of Washington, Seattle, Washington 98195, United States
| | - Anne B McCoy
- Department of Chemistry, University of Washington, Seattle, Washington 98195, United States
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5
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Malik R, Das B, Chandra A. Theoretical Two Dimensional Infrared Spectroscopy of Aqueous Solutions of tert-Butyl Alcohol: Variation of the Dynamics of Spectral Diffusion along the Percolation Transition. J Phys Chem B 2023; 127:4099-4111. [PMID: 37126459 DOI: 10.1021/acs.jpcb.2c08916] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/02/2023]
Abstract
Binary mixtures of water and tert-butyl alcohol (TBA) are known to exhibit the so-called percolation transition where small clusters of TBA molecules span into large aggregates beyond a threshold concentration of the alcohol. In the present study, we have investigated the linear and two-dimensional infrared spectral features of aqueous solutions of TBA for varying concentration of the alcohol along the percolation transition. The percolation transition is characterized through calculations of intermolecular radial distribution functions and average size of the largest cluster of TBA molecules. It is found that, with variation of alcohol concentration, the radial distribution functions of the central carbon atoms of TBA molecules show a nonmonotonic change in the height of the first peak and also the size of the largest cluster of TBA molecules show a jump in the increase of its size for TBA mole fraction between 0.04 and 0.06 corresponding to a transition from smaller clusters to larger spanning aggregates. However, it is found that the linear infrared spectrum of water does not exhibit any noticeable changes on variation of TBA concentration along the percolation transition. Subsequently, two-dimensional infrared (2DIR) spectra and vibrational frequency time correlation function of water are calculated for all the TBA-water solutions considered in this study. The spectral diffusion of water calculated from 2DIR is found to slow down with increase of the TBA concentration. The time scales of spectral diffusion of water, as characterized by the relaxation of frequency time correlation function, 2DIR metric of central line slope, and also the hydrogen bond time correlation functions, are found to exhibit a noticeable jump along the percolation transition. The hydrophilic group of TBA is found to retard the water dynamics more effectively than the hydrophobic groups. Also, the jump in the dynamical slowdown along the percolation transition is found to be more significant for water molecules at the hydrophilic sites.
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Affiliation(s)
- Ravi Malik
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur 208016, India
| | - Banshi Das
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur 208016, India
| | - Amalendu Chandra
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur 208016, India
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6
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Das B, Ruiz-Barragan S, Marx D. Deciphering the Properties of Nanoconfined Aqueous Solutions by Vibrational Sum Frequency Generation Spectroscopy. J Phys Chem Lett 2023; 14:1208-1213. [PMID: 36716226 PMCID: PMC9923734 DOI: 10.1021/acs.jpclett.2c03409] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2022] [Accepted: 12/21/2022] [Indexed: 06/18/2023]
Abstract
When confined between walls at nanometer distances, water exhibits surprisingly different properties with reference to bare interfacial water. Based on computer simulations, we demonstrate how vibrational sum frequency generation (VSFG) spectroscopy can be used-even with very mild symmetry breaking-to discriminate multilayer water in wide slit pores from both bilayer and monolayer water confined within molecularly narrow pores. Applying the technique, the VSFG lineshapes of monolayer, bilayer, and multilayer water are found to differ in characteristic ways, which is explained by their distinct density stratifications giving rise to different H-bonding patterns in the respective solvation layers.
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Affiliation(s)
- Banshi Das
- Lehrstuhl
für Theoretische Chemie, Ruhr-Universität
Bochum, 44780Bochum, Germany
| | - Sergi Ruiz-Barragan
- Lehrstuhl
für Theoretische Chemie, Ruhr-Universität
Bochum, 44780Bochum, Germany
- Departament
de Fisica, Universitat Politecnica de Catalunya, Rambla Sant Nebridi 22, 08222 Terrassa, Barcelona, Spain
| | - Dominik Marx
- Lehrstuhl
für Theoretische Chemie, Ruhr-Universität
Bochum, 44780Bochum, Germany
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7
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Hirano T, Yazawa N, Wang L, Morita A. Development of Efficient Computational Analysis of Difference Infrared and Raman Spectroscopies. J Chem Phys 2022; 157:124105. [DOI: 10.1063/5.0108934] [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
Computational analysis of difference spectra between two analogous systems is a challenging issue, as reliable estimation of a tiny difference spectrum requires an extraordinary precision of the two original spectra. We have developed an alternative new method to calculate the difference spectra in background-free conditions, which greatly improved the efficiency of computation. In this paper we report further improvement by using efficient parallel implementation and the time correlation formula based on time derivative quantities. As a consequence, the present work achieved further remarkable acceleration in the calculations of difference infrared and Raman spectra in the order of magnitude, and thereby allowed us with analyzing these difference spectra at a practical cost of computation.
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Affiliation(s)
| | | | - Lin Wang
- Tohoku University Graduate School of Science Faculty of Science, Japan
| | - Akihiro Morita
- Department of Chemistry, Tohoku University - Aobayama Campus, Japan
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8
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Palchowdhury S, Mukherjee K, Maroncelli M. Rapid Water Dynamics Structures the OH-Stretching Spectra of Solitary Water in Ionic Liquids and Dipolar Solvents. J Chem Phys 2022; 157:084502. [DOI: 10.1063/5.0107348] [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
In a recent study [ J. Phys. Chem. B 126, 4584 (2022)] we used infrared spectroscopy to investigate the solvation and dynamics of solitary water in ionic liquids and dipolar solvents. Complex shapes observed for water OH-stretching bands common to all high-polarity solvents were assigned to water in several solvation states. In the present study, classical molecular dynamics simulations of a single water molecule in four ionic liquids and three dipolar solvents were used to test and refine this interpretation. Consistent with past assignments, simulations show solitary water usually donates two hydrogen bonds to distinct solvent molecules. Such symmetrically solvated water produces the primary pair of peaks identified in the OH spectra of water in nearly all solvents. We had further proposed that additional features flanking this main peak are due to asymmetric solvation states, states in which only one OH group makes a hydrogen bond to solvent. Such states were found in significant concentrations in all of the systems simulated. Simulations of the OH stretching spectra using a semiclassical description and the vibrational map developed by Auer and Skinner [ J. Chem. Phys. 128, 224511 (2008)] provided semi-quantitative agreement with experiment. Analysis of species-specific spectra also confirmed assignment of the additional features in the experimental spectra to asymmetrically solvated water. The simulations also showed that rapid water motions cause a marked motional narrowing compared to the inhomogeneous limit, and that this narrowing is largely responsible for making the additional features due to minority solvation states manifest in the spectra.
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Affiliation(s)
- Souarv Palchowdhury
- The Pennsylvania State University - University Park Campus, United States of America
| | - Kallol Mukherjee
- The Pennsylvania State University - University Park Campus, United States of America
| | - Mark Maroncelli
- Department of Chemsitry, The Pennsylvania State University - University Park Campus, United States of America
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9
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Vondrasek B, Wen C, Cheng S, Riffle JS, Lesko JJ. On the Nature of Freezing/Melting Water in Ionic Polysulfones. Macromolecules 2021. [DOI: 10.1021/acs.macromol.1c00591] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Britannia Vondrasek
- Macromolecules Innovation Institute, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, United States
| | - Chengyuan Wen
- Macromolecules Innovation Institute, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, United States
- Center for Soft Matter and Biological Physics, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, United States
- Department of Physics, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, United States
| | - Shengfeng Cheng
- Macromolecules Innovation Institute, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, United States
- Center for Soft Matter and Biological Physics, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, United States
- Department of Physics, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, United States
- Department of Mechanical Engineering, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, United States
| | - Judy S. Riffle
- Macromolecules Innovation Institute, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, United States
- Department of Chemistry, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, United States
| | - John J. Lesko
- Macromolecules Innovation Institute, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, United States
- Department of Mechanical Engineering, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061, United States
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10
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Meng W, Jiang Y, Rothschild D, Lipke M, Hall G, Wang L. Modeling the structure and infrared spectra of omega-3 fatty acid esters. J Chem Phys 2021; 153:035101. [PMID: 32716186 DOI: 10.1063/5.0015402] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023] Open
Abstract
Omega-3 dietary supplements provide a rich source of the active moieties eicosapentaenoic acid (EPA) and docosahexaenoic acid (DHA), which exist in the form of triacylglycerols or ethyl esters. Infrared (IR) spectroscopy provides a rapid and quantitative tool to assess the quality of these products as specific normal modes, in particular the ester carbonyl stretch modes, exhibit characteristic spectral features for the two ester forms of omega-3 fatty acids. To uncover the origin of the observed spectra, in this work, we perform molecular dynamics simulations of EPA and DHA ethyl esters and triacylglycerols to characterize their conformation, packing, and dynamics in the liquid phase and use a mixed quantum/classical approach to calculate their IR absorption spectra in the ester carbonyl stretch region. We show that the ester liquids exhibit slow dynamics in spectral diffusion and translational and rotational motion, consistent with the diffusion ordered NMR spectroscopy measurements. We further demonstrate that the predicted IR spectra are in good agreement with experiments and reveal how a competition between intermolecular and intramolecular interactions gives rise to distinct absorption peaks for the fatty acid esters.
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Affiliation(s)
- Wenting Meng
- Department of Chemistry and Chemical Biology, Rutgers University, Piscataway, New Jersey 08854, USA
| | - Yaoyukun Jiang
- Department of Chemistry and Chemical Biology, Rutgers University, Piscataway, New Jersey 08854, USA
| | - Daniel Rothschild
- Department of Chemistry and Chemical Biology, Rutgers University, Piscataway, New Jersey 08854, USA
| | - Mark Lipke
- Department of Chemistry and Chemical Biology, Rutgers University, Piscataway, New Jersey 08854, USA
| | - Gene Hall
- Department of Chemistry and Chemical Biology, Rutgers University, Piscataway, New Jersey 08854, USA
| | - Lu Wang
- Department of Chemistry and Chemical Biology, Rutgers University, Piscataway, New Jersey 08854, USA
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11
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Strong SE, Hestand NJ. Modeling nonlocal electron-phonon coupling in organic crystals using interpolative maps: The spectroscopy of crystalline pentacene and 7,8,15,16-tetraazaterrylene. J Chem Phys 2020; 153:124113. [PMID: 33003728 DOI: 10.1063/5.0021731] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Abstract
Electron-phonon coupling plays a central role in the transport properties and photophysics of organic crystals. Successful models describing charge- and energy-transport in these systems routinely include these effects. Most models for describing photophysics, on the other hand, only incorporate local electron-phonon coupling to intramolecular vibrational modes, while nonlocal electron-phonon coupling is neglected. One might expect nonlocal coupling to have an important effect on the photophysics of organic crystals because it gives rise to large fluctuation in the charge-transfer couplings, and charge-transfer couplings play an important role in the spectroscopy of many organic crystals. Here, we study the effects of nonlocal coupling on the absorption spectrum of crystalline pentacene and 7,8,15,16-tetraazaterrylene. To this end, we develop a new mixed quantum-classical approach for including nonlocal coupling into spectroscopic and transport models for organic crystals. Importantly, our approach does not assume that the nonlocal coupling is linear, in contrast to most modern charge-transport models. We find that the nonlocal coupling broadens the absorption spectrum non-uniformly across the absorption line shape. In pentacene, for example, our model predicts that the lower Davydov component broadens considerably more than the upper Davydov component, explaining the origin of this experimental observation for the first time. By studying a simple dimer model, we are able to attribute this selective broadening to correlations between the fluctuations of the charge-transfer couplings. Overall, our method incorporates nonlocal electron-phonon coupling into spectroscopic and transport models with computational efficiency, generalizability to a wide range of organic crystals, and without any assumption of linearity.
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Affiliation(s)
- Steven E Strong
- Pritzker School of Molecular Engineering, The University of Chicago, Chicago, Illinois 60637, USA
| | - Nicholas J Hestand
- Pritzker School of Molecular Engineering, The University of Chicago, Chicago, Illinois 60637, USA
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12
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Guo J, Cao D, Chen J, Bian K, Xu LM, Wang EG, Jiang Y. Probing the intermolecular coupled vibrations in a water cluster with inelastic electron tunneling spectroscopy. J Chem Phys 2020; 152:234301. [PMID: 32571057 DOI: 10.1063/5.0009385] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022] Open
Abstract
The hydrogen-bonding networks of water have strong intra- and intermolecular vibrational coupling which influences the energy dissipation and proton transfer in water. Disentangling and quantitative characterization of different coupling effects in water at a single-molecular level still remains a great challenge. Using tip-enhanced inelastic electron tunneling spectroscopy (IETS) based on low-temperature scanning tunneling microscopy, we report the direct quantitative assessment of the intermolecular coupling constants of the OH-stretch vibrational bands of an isolated water tetramer adsorbed on a Au(111)-supported NaCl(001) bilayer film. This is achieved by distinguishing various coupled modes of the H-bonded O-H stretching vibrations through tip-height dependent IET spectra. In contrast, such vibrational coupling is negligible in the half-deuterated water tetramer owing to the large energy mismatch between the OH and OD stretching modes. Not only do these findings advance our understanding on the effects of local environment on the intermolecular vibrational coupling in water, but also open up a new route for vibrational spectroscopic studies of extended H-bonded network at the single-molecular level.
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Affiliation(s)
- Jing Guo
- College of Chemistry, Beijing Normal University, Beijing 100875, People's Republic of China
| | - Duanyun Cao
- International Center for Quantum Materials, School of Physics, Peking University, Beijing 100871, People's Republic of China
| | - Ji Chen
- School of Physics, Peking University, Beijing 100871, People's Republic of China
| | - Ke Bian
- International Center for Quantum Materials, School of Physics, Peking University, Beijing 100871, People's Republic of China
| | - Li-Mei Xu
- International Center for Quantum Materials, School of Physics, Peking University, Beijing 100871, People's Republic of China
| | - En-Ge Wang
- International Center for Quantum Materials, School of Physics, Peking University, Beijing 100871, People's Republic of China
| | - Ying Jiang
- International Center for Quantum Materials, School of Physics, Peking University, Beijing 100871, People's Republic of China
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13
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Kananenka AA, Yao K, Corcelli SA, Skinner JL. Machine Learning for Vibrational Spectroscopic Maps. J Chem Theory Comput 2019; 15:6850-6858. [DOI: 10.1021/acs.jctc.9b00698] [Citation(s) in RCA: 43] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Alexei A. Kananenka
- Pritzker School of Molecular Engineering, The University of Chicago, Chicago, Illinois 60637, United States
- Department of Physics and Astronomy, University of Delaware, Newark, Delaware 19716, United States
| | - Kun Yao
- Department of Chemistry and Biochemistry, University of Notre Dame, Notre Dame, Indiana 46556, United States
| | - Steven A. Corcelli
- Department of Chemistry and Biochemistry, University of Notre Dame, Notre Dame, Indiana 46556, United States
| | - J. L. Skinner
- Pritzker School of Molecular Engineering, The University of Chicago, Chicago, Illinois 60637, United States
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14
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Zuehlsdorff TJ, Montoya-Castillo A, Napoli JA, Markland TE, Isborn CM. Optical spectra in the condensed phase: Capturing anharmonic and vibronic features using dynamic and static approaches. J Chem Phys 2019; 151:074111. [PMID: 31438704 DOI: 10.1063/1.5114818] [Citation(s) in RCA: 54] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023] Open
Abstract
Simulating optical spectra in the condensed phase remains a challenge for theory due to the need to capture spectral signatures arising from anharmonicity and dynamical effects, such as vibronic progressions and asymmetry. As such, numerous simulation methods have been developed that invoke different approximations and vary in their ability to capture different physical regimes. Here, we use several models of chromophores in the condensed phase and ab initio molecular dynamics simulations to rigorously assess the applicability of methods to simulate optical absorption spectra. Specifically, we focus on the ensemble scheme, which can address anharmonic potential energy surfaces but relies on the applicability of extreme nuclear-electronic time scale separation; the Franck-Condon method, which includes dynamical effects but generally only at the harmonic level; and the recently introduced ensemble zero-temperature Franck-Condon approach, which straddles these limits. We also devote particular attention to the performance of methods derived from a cumulant expansion of the energy gap fluctuations and test the ability to approximate the requisite time correlation functions using classical dynamics with quantum correction factors. These results provide insights as to when these methods are applicable and able to capture the features of condensed phase spectra qualitatively and, in some cases, quantitatively across a range of regimes.
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Affiliation(s)
- Tim J Zuehlsdorff
- Chemistry and Chemical Biology, University of California Merced, Merced, California 95343, USA
| | | | - Joseph A Napoli
- Department of Chemistry, Stanford University, Stanford, California 94305, USA
| | - Thomas E Markland
- Department of Chemistry, Stanford University, Stanford, California 94305, USA
| | - Christine M Isborn
- Chemistry and Chemical Biology, University of California Merced, Merced, California 95343, USA
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15
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Yu Y, Shi L. Vibrational solvatochromism of the ester carbonyl vibration of PCBM in organic solutions. J Chem Phys 2019. [DOI: 10.1063/1.5111046] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023] Open
Affiliation(s)
- Yue Yu
- School of Natural Sciences, University of California, Merced, California 95343, USA
| | - Liang Shi
- School of Natural Sciences, University of California, Merced, California 95343, USA
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16
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Trenins G, Willatt MJ, Althorpe SC. Path-integral dynamics of water using curvilinear centroids. J Chem Phys 2019. [DOI: 10.1063/1.5100587] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- George Trenins
- Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, United Kingdom
| | - Michael J. Willatt
- Laboratory of Computational Science and Modeling, IMX, École Polytechnique Fédérale de Lausanne, 1015 Lausanne, Switzerland
| | - Stuart C. Althorpe
- Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, United Kingdom
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17
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Kananenka AA, Hestand NJ, Skinner JL. OH-Stretch Raman Multivariate Curve Resolution Spectroscopy of HOD/H2O Mixtures. J Phys Chem B 2019; 123:5139-5146. [DOI: 10.1021/acs.jpcb.9b02686] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Alexei A. Kananenka
- Pritzker School of Molecular Engineering, The University of Chicago, Chicago, Illinois 60637, United States
| | - Nicholas J. Hestand
- Pritzker School of Molecular Engineering, The University of Chicago, Chicago, Illinois 60637, United States
| | - J. L. Skinner
- Pritzker School of Molecular Engineering, The University of Chicago, Chicago, Illinois 60637, United States
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18
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Hestand NJ, Strong SE, Shi L, Skinner JL. Mid-IR spectroscopy of supercritical water: From dilute gas to dense fluid. J Chem Phys 2019; 150:054505. [DOI: 10.1063/1.5079232] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Nicholas J. Hestand
- Institute for Molecular Engineering, University of Chicago, Chicago, Illinois 60637, USA
| | - Steven E. Strong
- Institute for Molecular Engineering, University of Chicago, Chicago, Illinois 60637, USA
| | - Liang Shi
- School of Natural Sciences, University of California, Merced, California 95344, USA
| | - J. L. Skinner
- Institute for Molecular Engineering, University of Chicago, Chicago, Illinois 60637, USA
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19
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Benbow NL, Webber JL, Pawliszak P, Sebben DA, Ho TTM, Vongsvivut J, Tobin MJ, Krasowska M, Beattie DA. A Novel Soft Contact Piezo-Controlled Liquid Cell for Probing Polymer Films under Confinement using Synchrotron FTIR Microspectroscopy. Sci Rep 2018; 8:17804. [PMID: 30546121 PMCID: PMC6292912 DOI: 10.1038/s41598-018-34673-4] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2018] [Accepted: 10/11/2018] [Indexed: 12/21/2022] Open
Abstract
Soft polymer films, such as polyelectrolyte multilayers (PEMs), are useful coatings in materials science. The properties of PEMs often rely on the degree of hydration, and therefore the study of these films in a hydrated state is critical to allow links to be drawn between their characteristics and performance in a particular application. In this work, we detail the development of a novel soft contact cell for studying hydrated PEMs (poly(sodium 4-styrenesulfonate)/poly(allylamine hydrochloride)) using FTIR microspectroscopy. FTIR spectroscopy can interrogate the nature of the polymer film and the hydration water contained therein. In addition to reporting spectra obtained for hydrated films confined at the solid-solid interface, we also report traditional ATR FTIR spectra of the multilayer. The spectra (microspectroscopy and ATR FTIR) reveal that the PEM film build-up proceeds as expected based on the layer-by-layer assembly methodology, with increasing signals from the polymer FTIR peaks with increasing bilayer number. In addition, the spectra obtained using the soft contact cell indicate that the PEM film hydration water has an environment/degree of hydrogen bonding that is affected by the chemistry of the multilayer polymers, based on differences in the spectra obtained for the hydration water within the film compared to that of bulk electrolyte.
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Affiliation(s)
- Natalie L Benbow
- Future Industries Institute, University of South Australia, Mawson Lakes, South Australia, 5095, Australia.,School of Information Technology and Mathematical Sciences, University of South Australia, Mawson Lakes, South Australia, 5095, Australia
| | - Jessie L Webber
- Future Industries Institute, University of South Australia, Mawson Lakes, South Australia, 5095, Australia.,School of Information Technology and Mathematical Sciences, University of South Australia, Mawson Lakes, South Australia, 5095, Australia
| | - Piotr Pawliszak
- Future Industries Institute, University of South Australia, Mawson Lakes, South Australia, 5095, Australia.,School of Information Technology and Mathematical Sciences, University of South Australia, Mawson Lakes, South Australia, 5095, Australia
| | - Damien A Sebben
- Future Industries Institute, University of South Australia, Mawson Lakes, South Australia, 5095, Australia
| | - Tracey T M Ho
- Future Industries Institute, University of South Australia, Mawson Lakes, South Australia, 5095, Australia
| | - Jitraporn Vongsvivut
- Infrared Microspectroscopy (IRM) Beamline, Australian Synchrotron, Clayton, Victoria, 3168, Australia
| | - Mark J Tobin
- Infrared Microspectroscopy (IRM) Beamline, Australian Synchrotron, Clayton, Victoria, 3168, Australia
| | - Marta Krasowska
- Future Industries Institute, University of South Australia, Mawson Lakes, South Australia, 5095, Australia.,School of Information Technology and Mathematical Sciences, University of South Australia, Mawson Lakes, South Australia, 5095, Australia
| | - David A Beattie
- Future Industries Institute, University of South Australia, Mawson Lakes, South Australia, 5095, Australia. .,School of Information Technology and Mathematical Sciences, University of South Australia, Mawson Lakes, South Australia, 5095, Australia.
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20
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Yadav VK, Chandra A. Dynamics of vibrational frequency fluctuations in deuterated liquid ammonia: roles of fluctuating hydrogen bonds and free ND modes. MOLECULAR SIMULATION 2018. [DOI: 10.1080/08927022.2018.1475739] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/16/2022]
Affiliation(s)
- Vivek Kumar Yadav
- Department of Chemistry, Indian Institute of Technology Kanpur , Kanpur, India
| | - Amalendu Chandra
- Department of Chemistry, Indian Institute of Technology Kanpur , Kanpur, India
- Department of Theoretical and Computational Molecular Science, Institute of Molecular Science , Okazaki, Japan
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21
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Brinzer T, Daly CA, Allison C, Garrett-Roe S, Corcelli SA. Modeling Carbon Dioxide Vibrational Frequencies in Ionic Liquids: III. Dynamics and Spectroscopy. J Phys Chem B 2018; 122:8931-8942. [PMID: 30160958 DOI: 10.1021/acs.jpcb.8b05659] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
In recent years, interest in carbon capture and sequestration has led to numerous investigations of the ability of ionic liquids to act as recyclable CO2-sorbent materials. Herein, we investigate the structure and dynamics of a model physisorbing ionic liquid, 1-butyl-3-methylimidazolium hexafluorophosphate ([C4C1Im][PF6]), from the perspective of CO2 using two-dimensional (2D) IR spectroscopy and molecular dynamics simulations. A direct comparison of experimentally measured and calculated 2D IR line shapes confirms the validity of the simulations and spectroscopic calculations. Taken together, the simulations and experiments reveal new insights into the interactions of a CO2 solute with the surrounding ionic liquid and how these interactions manifest in the 2D IR spectra. In particular, higher CO2 asymmetric stretch vibrational frequencies are associated with softer, less populated solvent cages and lower frequencies are associated with tighter, more highly populated solvent cages. The CO2 interacts most strongly with the anions, and these interactions persist for more than 1 ns. The second strongest interactions are with the imidazolium cation ring that last 100 ps, and the weakest interactions are with the cation butyl tail that persist for 10 ps. The principal contributors to spectral diffusion of the CO2 asymmetric stretch vibrational frequency due to the dynamical evolution of the solvent are through Lennard-Jones interactions at short times and electrostatics at long times.
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Affiliation(s)
- Thomas Brinzer
- Department of Chemistry , University of Pittsburgh , 219 Parkman Avenue , Pittsburgh , Pennsylvania 15260 , United States.,Pittsburgh Quantum Institute , University of Pittsburgh , 3943 O'Hara Street , Pittsburgh , Pennsylvania 15260 , United States
| | - Clyde A Daly
- Department of Chemistry and Biochemistry , University of Notre Dame , 251 Nieuwland Science Hall , Notre Dame , Indiana 46656 , United States
| | - Cecelia Allison
- Department of Chemistry and Biochemistry , University of Notre Dame , 251 Nieuwland Science Hall , Notre Dame , Indiana 46656 , United States
| | - Sean Garrett-Roe
- Department of Chemistry , University of Pittsburgh , 219 Parkman Avenue , Pittsburgh , Pennsylvania 15260 , United States.,Pittsburgh Quantum Institute , University of Pittsburgh , 3943 O'Hara Street , Pittsburgh , Pennsylvania 15260 , United States
| | - Steven A Corcelli
- Department of Chemistry and Biochemistry , University of Notre Dame , 251 Nieuwland Science Hall , Notre Dame , Indiana 46656 , United States
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22
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Kananenka AA, Skinner JL. Fermi resonance in OH-stretch vibrational spectroscopy of liquid water and the water hexamer. J Chem Phys 2018; 148:244107. [DOI: 10.1063/1.5037113] [Citation(s) in RCA: 40] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Affiliation(s)
- Alexei A. Kananenka
- Institute for Molecular Engineering, The University of Chicago, Chicago, Illinois 60637, USA
| | - J. L. Skinner
- Institute for Molecular Engineering, The University of Chicago, Chicago, Illinois 60637, USA
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23
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Samanta T, Dutta R, Biswas R, Bagchi B. Infrared spectroscopic study of super-critical water across the Widom line. Chem Phys Lett 2018. [DOI: 10.1016/j.cplett.2018.05.005] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
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24
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Roy Choudhuri J, Chandra A. Effects of dispersion interactions on the structure, polarity, and dynamics of liquid-vapor interface of an aqueous NaCl solution: Results of first principles simulations at room temperature. J Chem Phys 2018; 148:024702. [DOI: 10.1063/1.5005951] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Jyoti Roy Choudhuri
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur 208016, India
| | - Amalendu Chandra
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur 208016, India
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25
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Ekimova M, Quevedo W, Szyc Ł, Iannuzzi M, Wernet P, Odelius M, Nibbering ETJ. Aqueous Solvation of Ammonia and Ammonium: Probing Hydrogen Bond Motifs with FT-IR and Soft X-ray Spectroscopy. J Am Chem Soc 2017; 139:12773-12783. [PMID: 28810120 DOI: 10.1021/jacs.7b07207] [Citation(s) in RCA: 53] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
In a multifaceted investigation combining local soft X-ray and vibrational spectroscopic probes with ab initio molecular dynamics simulations, hydrogen-bonding interactions of two key principal amine compounds in aqueous solution, ammonia (NH3) and ammonium ion (NH4+), are quantitatively assessed in terms of electronic structure, solvation structure, and dynamics. From the X-ray measurements and complementary determination of the IR-active hydrogen stretching and bending modes of NH3 and NH4+ in aqueous solution, the picture emerges of a comparatively strongly hydrogen-bonded NH4+ ion via N-H donating interactions, whereas NH3 has a strongly accepting hydrogen bond with one water molecule at the nitrogen lone pair but only weakly N-H donating hydrogen bonds. In contrast to the case of hydrogen bonding among solvent water molecules, we find that energy mismatch between occupied orbitals of both the solutes NH3 and NH4+ and the surrounding water prevents strong mixing between orbitals upon hydrogen bonding and, thus, inhibits substantial charge transfer between solute and solvent. A close inspection of the calculated unoccupied molecular orbitals, in conjunction with experimentally measured N K-edge absorption spectra, reveals the different nature of the electronic structural effects of these two key principal amine compounds imposed by hydrogen bonding to water, where a pH-dependent excitation energy appears to be an intrinsic property. These results provide a benchmark for hydrogen bonding of other nitrogen-containing acids and bases.
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Affiliation(s)
- Maria Ekimova
- Max Born Institute for Nonlinear Optics and Short Pulse Spectroscopy , Max Born Strasse 2A, 12489 Berlin, Germany
| | - Wilson Quevedo
- Institute for Methods and Instrumentation for Synchrotron Radiation Research, Helmholtz-Zentrum Berlin für Materialien und Energie GmbH , Albert-Einstein-Strasse 15, 12489 Berlin, Germany
| | - Łukasz Szyc
- Magnosco c/o LTB Lasertechnik Berlin GmbH , Am Studio 2c, 12489 Berlin, Germany
| | - Marcella Iannuzzi
- Institute of Physical Chemistry, University of Zurich , Winterthurerstrasse 190, CH-8057 Zurich, Switzerland
| | - Philippe Wernet
- Institute for Methods and Instrumentation for Synchrotron Radiation Research, Helmholtz-Zentrum Berlin für Materialien und Energie GmbH , Albert-Einstein-Strasse 15, 12489 Berlin, Germany
| | - Michael Odelius
- Department of Physics, Stockholm University , AlbaNova University Center, 106 91 Stockholm, Sweden
| | - Erik T J Nibbering
- Max Born Institute for Nonlinear Optics and Short Pulse Spectroscopy , Max Born Strasse 2A, 12489 Berlin, Germany
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26
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Biswas R, Carpenter W, Voth GA, Tokmakoff A. Molecular modeling and assignment of IR spectra of the hydrated excess proton in isotopically dilute water. J Chem Phys 2017; 145:154504. [PMID: 27782492 DOI: 10.1063/1.4964723] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Infrared (IR) spectroscopy of the water O-H stretch has been widely used to probe both the local hydrogen-bonding structure and dynamics of aqueous systems. Although of significant interest, the IR spectroscopy of excess protons in water remains difficult to assign as a result of extensive and strong intermolecular interactions in hydrated proton complexes. As an alternate approach, we develop a mixed quantum-classical model for the vibrational spectroscopy of the excess proton in isotopically dilute water that draws on frozen proton-water clusters taken from reactive molecular dynamics trajectories of the latest generation multi-state empirical valence bond proton model (MS-EVB 3.2). A semi-empirical single oscillator spectroscopic map for the instantaneous transition frequency and transition dipole moment is constructed using potential energy surfaces for the O-H stretch coordinate of the excess proton using electronic structure calculations. Calculated spectra are compared with experimental spectra of dilute H+ in D2O obtained from double-difference FTIR to demonstrate the validity of the map. The model is also used to decompose IR spectra into contributions from different aqueous proton configurations. We find that the O-H transition frequency continuously decreases as the oxygen-oxygen length for a special pair proton decreases, shifting from Eigen- to Zundel-like configurations. The same shift is accompanied by a shift of the flanking water stretches of the Zundel complex to higher frequency than the hydronium O-H vibrations.
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Affiliation(s)
- Rajib Biswas
- Department of Chemistry, James Franck Institute, and Institute for Biophysical Dynamics, The University of Chicago, Chicago, Illinois 60637, USA
| | - William Carpenter
- Department of Chemistry, James Franck Institute, and Institute for Biophysical Dynamics, The University of Chicago, Chicago, Illinois 60637, USA
| | - Gregory A Voth
- Department of Chemistry, James Franck Institute, and Institute for Biophysical Dynamics, The University of Chicago, Chicago, Illinois 60637, USA
| | - Andrei Tokmakoff
- Department of Chemistry, James Franck Institute, and Institute for Biophysical Dynamics, The University of Chicago, Chicago, Illinois 60637, USA
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27
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Biswas S, Mallik BS. Ultrafast Vibrational Spectroscopy of Aqueous Solution of Methylamine from First Principles MD Simulations. ChemistrySelect 2017. [DOI: 10.1002/slct.201601391] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Sohag Biswas
- Department of Chemistry; Indian Institute of Technology Hyderabad, Kandi, Sangareddy -; 502285 Telangana India
| | - Bhabani S. Mallik
- Department of Chemistry; Indian Institute of Technology Hyderabad, Kandi, Sangareddy -; 502285 Telangana India
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28
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Welsch R, Song K, Shi Q, Althorpe SC, Miller TF. Non-equilibrium dynamics from RPMD and CMD. J Chem Phys 2016; 145:204118. [DOI: 10.1063/1.4967958] [Citation(s) in RCA: 42] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023] Open
Affiliation(s)
- Ralph Welsch
- Division of Chemistry and Chemical Engineering, California Institute of Technology,1200 E. California Blvd., Pasadena, California 91125, USA
| | - Kai Song
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Structural Chemistry of Unstable and Stable Species, Institute of Chemistry, Chinese Academy of Sciences, Zhongguancun, Beijing 100190, China
| | - Qiang Shi
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Structural Chemistry of Unstable and Stable Species, Institute of Chemistry, Chinese Academy of Sciences, Zhongguancun, Beijing 100190, China
| | - Stuart C. Althorpe
- Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, United Kingdom
| | - Thomas F. Miller
- Division of Chemistry and Chemical Engineering, California Institute of Technology,1200 E. California Blvd., Pasadena, California 91125, USA
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29
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Joutsuka T, Morita A. Efficient Computation of Difference Vibrational Spectra in Isothermal–Isobaric Ensemble. J Phys Chem B 2016; 120:11229-11238. [DOI: 10.1021/acs.jpcb.6b07121] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Tatsuya Joutsuka
- Department
of Chemistry, Graduate School of Science, Tohoku University, Sendai 980-8578, Japan
| | - Akihiro Morita
- Department
of Chemistry, Graduate School of Science, Tohoku University, Sendai 980-8578, Japan
- Elements
Strategy Initiative for Catalysts and Batteries (ESICB), Kyoto University, Kyoto 615-8520, Japan
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30
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Abel S, Galamba N, Karakas E, Marchi M, Thompson WH, Laage D. On the Structural and Dynamical Properties of DOPC Reverse Micelles. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2016; 32:10610-10620. [PMID: 27649391 DOI: 10.1021/acs.langmuir.6b02566] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
The structure and dynamics of phospholipid reverse micelles are studied by molecular dynamics. We report all-atom unconstrained simulations of 1,2-dioleoyl-sn-phosphatidylcholine (DOPC) reverse micelles in benzene of increasing sizes, with water-to-surfactant number ratios ranging from W0 = 1 to 16. The aggregation number, i.e., the number of DOPC molecules per reverse micelle, is determined to fit experimental light-scattering measurements of the reverse micelle diameter. The simulated reverse micelles are found to be approximately spherical. Larger reverse micelles (W0 > 4) exhibit a layered structure with a water core and the hydration structure of DOPC phosphate head groups is similar to that found in phospholipid membranes. In contrast, the structure of smaller reverse micelles (W0 ≤ 4) cannot be described as a series of concentric layers successively containing water, surfactant head groups, and surfactant tails, and the head groups are only partly hydrated and frequently present in the core. The dynamics of water molecules within the phospholipid reverse micelles slow down as the reverse micelle size decreases, in agreement with prior studies on AOT and Igepal reverse micelles. However, the average water reorientation dynamics in DOPC reverse micelles is found to be much slower than in AOT and Igepal reverse micelles with the same W0 ratio. This is explained by the smaller water pool and by the stronger interactions between water and the charged head groups, as confirmed by the red-shift of the computed infrared line shape with decreasing W0.
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Affiliation(s)
- Stéphane Abel
- Commissariat à l'Energie Atomique et aux Energies Alternatives, DRF/iBiTEC-S/SB2SM & CNRS UMR 9198, 91191 Saclay, France
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ Paris-Sud, Université Paris-Saclay, F-91198 Cedex Gif-sur-Yvette, France
| | - Nuno Galamba
- Ecole 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
| | - Esra Karakas
- Commissariat à l'Energie Atomique et aux Energies Alternatives, DRF/iBiTEC-S/SB2SM & CNRS UMR 9198, 91191 Saclay, France
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ Paris-Sud, Université Paris-Saclay, F-91198 Cedex Gif-sur-Yvette, France
- Maison de la Simulation, USR 3441, CEA-CNRS-INRIA-Univ Paris Sud - Univ Versailles, 91191 Cedex Gif-sur-Yvette, France
| | - Massimo Marchi
- Commissariat à l'Energie Atomique et aux Energies Alternatives, DRF/iBiTEC-S/SB2SM & CNRS UMR 9198, 91191 Saclay, France
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ Paris-Sud, Université Paris-Saclay, F-91198 Cedex Gif-sur-Yvette, France
| | - Ward H Thompson
- Department of Chemistry, University of Kansas , Lawrence, Kansas 66045, United States
| | - Damien Laage
- Ecole 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
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31
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Joutsuka T, Morita A. Improved Theory of Difference Vibrational Spectroscopy and Application to Water. J Chem Theory Comput 2016; 12:5026-5036. [DOI: 10.1021/acs.jctc.6b00697] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Tatsuya Joutsuka
- Department
of Chemistry, Graduate School of Science, Tohoku University, Sendai 980-8578, Japan
| | - Akihiro Morita
- Department
of Chemistry, Graduate School of Science, Tohoku University, Sendai 980-8578, Japan
- Elements
Strategy Initiative for Catalysts and Batteries (ESICB), Kyoto University, Kyoto 615-8520, Japan
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32
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De Marco L, Fournier JA, Thämer M, Carpenter W, Tokmakoff A. Anharmonic exciton dynamics and energy dissipation in liquid water from two-dimensional infrared spectroscopy. J Chem Phys 2016; 145:094501. [DOI: 10.1063/1.4961752] [Citation(s) in RCA: 44] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023] Open
Affiliation(s)
- Luigi De Marco
- Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Ave., Cambridge, Massachusetts 02139, USA
- Department of Chemistry, James Frank Institute, and The Institute for Biophysical Dynamics, The University of Chicago, 929 E 57th Street, Chicago, Illinois 60637, USA
| | - Joseph A. Fournier
- Department of Chemistry, James Frank Institute, and The Institute for Biophysical Dynamics, The University of Chicago, 929 E 57th Street, Chicago, Illinois 60637, USA
| | - Martin Thämer
- Department of Chemistry, James Frank Institute, and The Institute for Biophysical Dynamics, The University of Chicago, 929 E 57th Street, Chicago, Illinois 60637, USA
| | - William Carpenter
- Department of Chemistry, James Frank Institute, and The Institute for Biophysical Dynamics, The University of Chicago, 929 E 57th Street, Chicago, Illinois 60637, USA
| | - Andrei Tokmakoff
- Department of Chemistry, James Frank Institute, and The Institute for Biophysical Dynamics, The University of Chicago, 929 E 57th Street, Chicago, Illinois 60637, USA
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33
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Araque JC, Daly RP, Margulis CJ. A link between structure, diffusion and rotations of hydrogen bonding tracers in ionic liquids. J Chem Phys 2016; 144:204504. [DOI: 10.1063/1.4951012] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Juan C. Araque
- Department of Chemistry, University of Iowa, Iowa City, Iowa 52242, USA
| | - Ryan P. Daly
- Department of Chemistry, University of Iowa, Iowa City, Iowa 52242, USA
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34
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Zheng R, Wei W, Sun Y, Song K, Shi Q. Theoretical study of vibrational energy transfer of free OH groups at the water-air interface. J Chem Phys 2016; 144:144701. [PMID: 27083739 DOI: 10.1063/1.4945424] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Recent experimental studies have shown that the vibrational dynamics of free OH groups at the water-air interface is significantly different from that in bulk water. In this work, by performing molecular dynamics simulations and mixed quantum/classical calculations, we investigate different vibrational energy transfer pathways of free OH groups at the water-air interface. The calculated intramolecular vibrational energy transfer rate constant and the free OH bond reorientation time scale agree well with the experiment. It is also found that, due to the small intermolecular vibrational couplings, the intermolecular vibrational energy transfer pathway that is very important in bulk water plays a much less significant role in the vibrational energy relaxation of the free OH groups at the water-air interface.
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Affiliation(s)
- Renhui Zheng
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Structural Chemistry of Unstable and Stable Species, Institute of Chemistry, Chinese Academy of Sciences, Zhongguancun, Beijing 100190, China
| | - Wenmei Wei
- Department of Chemistry, College of Basic Medicine, Anhui Medical University, Hefei, Anhui 230032, China
| | - Yuanyuan Sun
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Structural Chemistry of Unstable and Stable Species, Institute of Chemistry, Chinese Academy of Sciences, Zhongguancun, Beijing 100190, China
| | - Kai Song
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Structural Chemistry of Unstable and Stable Species, Institute of Chemistry, Chinese Academy of Sciences, Zhongguancun, Beijing 100190, China
| | - Qiang Shi
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Structural Chemistry of Unstable and Stable Species, Institute of Chemistry, Chinese Academy of Sciences, Zhongguancun, Beijing 100190, China
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35
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Medders GR, Paesani F. On the interplay of the potential energy and dipole moment surfaces in controlling the infrared activity of liquid water. J Chem Phys 2016; 142:212411. [PMID: 26049431 DOI: 10.1063/1.4916629] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Infrared vibrational spectroscopy is a valuable tool for probing molecular structure and dynamics. However, obtaining an unambiguous molecular-level interpretation of the spectral features is made difficult, in part, due to the complex interplay of the dipole moment with the underlying vibrational structure. Here, we disentangle the contributions of the potential energy surface (PES) and dipole moment surface (DMS) to the infrared spectrum of liquid water by examining three classes of models, ranging in complexity from simple point charge models to accurate representations of the many-body interactions. By decoupling the PES from the DMS in the calculation of the infrared spectra, we demonstrate that the PES, by directly modulating the vibrational structure, primarily controls the width and position of the spectroscopic features. Due to the dependence of the molecular dipole moment on the hydration environment, many-body electrostatic effects result in a ∼100 cm(-1) redshift in the peak of the OH stretch band. Interestingly, while an accurate description of many-body collective motion is required to generate the correct (vibrational) structure of the liquid, the infrared intensity in the OH stretching region appears to be a measure of the local structure due to the dominance of the one-body and short-ranged two-body contributions to the total dipole moment.
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Affiliation(s)
- Gregory R Medders
- Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093, USA
| | - Francesco Paesani
- Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093, USA
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36
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Roy S, Skoff D, Perroni DV, Mondal J, Yethiraj A, Mahanthappa MK, Zanni MT, Skinner JL. Water Dynamics in Gyroid Phases of Self-Assembled Gemini Surfactants. J Am Chem Soc 2016; 138:2472-5. [DOI: 10.1021/jacs.5b12370] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Santanu Roy
- Department of Chemistry, University of Wisconsin, 1101 University
Avenue, Madison, Wisconsin 53706, United States
| | - David Skoff
- Department of Chemistry, University of Wisconsin, 1101 University
Avenue, Madison, Wisconsin 53706, United States
| | - Dominic V. Perroni
- Department of Chemistry, University of Wisconsin, 1101 University
Avenue, Madison, Wisconsin 53706, United States
| | - Jagannath Mondal
- Department of Chemistry, University of Wisconsin, 1101 University
Avenue, Madison, Wisconsin 53706, United States
| | - Arun Yethiraj
- Department of Chemistry, University of Wisconsin, 1101 University
Avenue, Madison, Wisconsin 53706, United States
| | - Mahesh K. Mahanthappa
- Department of Chemistry, University of Wisconsin, 1101 University
Avenue, Madison, Wisconsin 53706, United States
| | - Martin T. Zanni
- Department of Chemistry, University of Wisconsin, 1101 University
Avenue, Madison, Wisconsin 53706, United States
| | - James L. Skinner
- Department of Chemistry, University of Wisconsin, 1101 University
Avenue, Madison, Wisconsin 53706, United States
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37
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Abstract
Traditional descriptions of vibrational energy transfer consider a quantum oscillator interacting with a classical environment. However, a major limitation of this simplified description is the neglect of quantum decoherence induced by the different interactions between two distinct quantum states and their environment, which can strongly affect the predicted energy-transfer rate and vibrational spectra. Here, we use quantum-classical molecular dynamics simulations to determine the vibrational quantum decoherence time for an OH stretch vibration in liquid heavy water. We show that coherence is lost on a sub-100 fs time scale due to the different responses of the first shell neighbors to the ground and excited OH vibrational states. This ultrafast decoherence induces a strong homogeneous contribution to the linear infrared spectrum and suggests that resonant vibrational energy transfer in H2O may be more incoherent than previously thought.
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Affiliation(s)
- Tatsuya Joutsuka
- École 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, United States
| | - Damien Laage
- École Normale Supérieure-PSL Research University, Département de Chimie, Sorbonne Universités - UPMC, Univ Paris 06, CNRS UMR 8640 PASTEUR , 24 rue Lhomond, 75005 Paris, France
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38
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Ahmed M, Singh AK, Mondal JA. Hydrogen-bonding and vibrational coupling of water in a hydrophobic hydration shell as observed by Raman-MCR and isotopic dilution spectroscopy. Phys Chem Chem Phys 2016; 18:2767-75. [DOI: 10.1039/c5cp07014g] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Raman multivariate curve resolution (Raman-MCR) spectroscopy reveals the perturbation of vibrational coupling of water in a hydrophobic hydration shell.
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Affiliation(s)
- Mohammed Ahmed
- Radiation & Photochemistry Division
- Bhabha Atomic Research Centre
- Mumbai-400085
- India
| | - Ajay K. Singh
- Radiation & Photochemistry Division
- Bhabha Atomic Research Centre
- Mumbai-400085
- India
| | - Jahur A. Mondal
- Radiation & Photochemistry Division
- Bhabha Atomic Research Centre
- Mumbai-400085
- India
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39
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Ho TTM, Bremmell KE, Krasowska M, MacWilliams SV, Richard CJE, Stringer DN, Beattie DA. In Situ ATR FTIR Spectroscopic Study of the Formation and Hydration of a Fucoidan/Chitosan Polyelectrolyte Multilayer. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2015; 31:11249-11259. [PMID: 26421938 DOI: 10.1021/acs.langmuir.5b01812] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
The formation of fucoidan/chitosan-based polyelectrolyte multilayers (PEMs) has been studied with in situ Fourier transform infrared (FTIR) spectroscopy. Attenuated total reflectance (ATR) FTIR spectroscopy has been used to follow the sequential build-up of the multilayer, with peaks characteristic of each polymer being seen to increase in intensity with each respective adsorption stage. In addition, spectral processing has allowed for the extraction of spectra from individual adsorbed layers, which have been used to provide unambiguous determination of the adsorbed mass of the PEM at each stage of formation. The PEM was seen to undergo a transition in growth regimes during build-up: from supra-linear to linear. In addition, the wettability of the PEM has been probed at each stage of the build-up, using the captive bubble contact angle technique. The contact angles were uniformly low, but showed variation in value depending on the nature of the outer polymer layer, and this variation correlated with the overall percentage hydration of the PEM (determined from FTIR and quartz crystal microbalance data). The nature of the hydration water within the polyelectrolyte multilayer has also been studied with FTIR spectroscopy, specifically in situ synchrotron ATR FTIR microscopy of the multilayer confined between two solid surfaces. The acquired spectra have enabled the hydrogen bonding environment of the PEM hydration water to be determined. The PEM hydration water is seen to have an environment in which it is subject to fewer hydrogen bonding interactions than in bulk electrolyte solution.
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Affiliation(s)
- Tracey T M Ho
- Ian Wark Research Institute, University of South Australia , Mawson Lakes Campus, Mawson Lakes, South Australia 5095, Australia
| | - Kristen E Bremmell
- School of Pharmacy and Medical Sciences, University of South Australia , City East Campus, North Terrace, Adelaide, South Australia 5000, Australia
| | - Marta Krasowska
- Ian Wark Research Institute, University of South Australia , Mawson Lakes Campus, Mawson Lakes, South Australia 5095, Australia
| | - Stephanie V MacWilliams
- Ian Wark Research Institute, University of South Australia , Mawson Lakes Campus, Mawson Lakes, South Australia 5095, Australia
| | - Céline J E Richard
- Ian Wark Research Institute, University of South Australia , Mawson Lakes Campus, Mawson Lakes, South Australia 5095, Australia
| | - Damien N Stringer
- Marinova Pty. Ltd , 249 Kennedy Drive, Cambridge, Tasmania 7170, Australia
| | - David A Beattie
- Ian Wark Research Institute, University of South Australia , Mawson Lakes Campus, Mawson Lakes, South Australia 5095, Australia
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40
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Tabor DP, Kusaka R, Walsh PS, Zwier TS, Sibert EL. Local Mode Approach to OH Stretch Spectra of Benzene–(H2O)n Clusters, n = 2–7. J Phys Chem A 2015; 119:9917-30. [PMID: 26340135 DOI: 10.1021/acs.jpca.5b06954] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Daniel P. Tabor
- Department
of Chemistry and Theoretical Chemistry Institute, University of Wisconsin—Madison, Madison, Wisconsin 53706, United States
| | - Ryoji Kusaka
- Department
of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
| | - Patrick S. Walsh
- Department
of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
| | - Timothy S. Zwier
- Department
of Chemistry, Purdue University, West Lafayette, Indiana 47907, United States
| | - Edwin L. Sibert
- Department
of Chemistry and Theoretical Chemistry Institute, University of Wisconsin—Madison, Madison, Wisconsin 53706, United States
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41
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Shi L, Skinner JL. Mixed quantum/classical approach to OH-stretch inelastic incoherent neutron scattering spectroscopy for ambient and supercooled liquid water and ice Ih. J Chem Phys 2015; 143:014503. [DOI: 10.1063/1.4923387] [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)
- L. Shi
- Theoretical Chemistry Institute and Department of Chemistry, University of Wisconsin, Madison, Wisconsin 53706, USA
| | - J. L. Skinner
- Theoretical Chemistry Institute and Department of Chemistry, University of Wisconsin, Madison, Wisconsin 53706, USA
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42
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Ni Y, Skinner JL. IR and SFG vibrational spectroscopy of the water bend in the bulk liquid and at the liquid-vapor interface, respectively. J Chem Phys 2015; 143:014502. [DOI: 10.1063/1.4923462] [Citation(s) in RCA: 69] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Yicun Ni
- Theoretical Chemistry Institute and Department of Chemistry, University of Wisconsin, Madison, Wisconsin 53706, USA
| | - J. L. Skinner
- Theoretical Chemistry Institute and Department of Chemistry, University of Wisconsin, Madison, Wisconsin 53706, USA
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43
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Abstract
Fascinating anisotropy decay experiments have recently been performed on H2O ice Ih by Timmer and Bakker [R. L. A. Timmer, and H. J. Bakker, J. Phys. Chem. A 114, 4148 (2010)]. The very fast decay (on the order of 100 fs) is indicative of resonant energy transfer between OH stretches on different molecules. Isotope dilution experiments with deuterium show a dramatic dependence on the hydrogen mole fraction, which confirms the energy transfer picture. Timmer and Bakker have interpreted the experiments with a Förster incoherent hopping model, finding that energy transfer within the first solvation shell dominates the relaxation process. We have developed a microscopic theory of vibrational spectroscopy of water and ice, and herein we use this theory to calculate the anisotropy decay in ice as a function of hydrogen mole fraction. We obtain very good agreement with experiment. Interpretation of our results shows that four nearest-neighbor acceptors dominate the energy transfer, and that while the incoherent hopping picture is qualitatively correct, vibrational energy transport is partially coherent on the relevant timescale.
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Affiliation(s)
- L Shi
- Theoretical Chemistry Institute and Department of Chemistry, University of Wisconsin, Madison, Wisconsin 53706, USA
| | - F Li
- Theoretical Chemistry Institute and Department of Chemistry, University of Wisconsin, Madison, Wisconsin 53706, USA
| | - J L Skinner
- Theoretical Chemistry Institute and Department of Chemistry, University of Wisconsin, Madison, Wisconsin 53706, USA
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44
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Choudhuri JR, Chandra A. An ab initio molecular dynamics study of the liquid-vapor interface of an aqueous NaCl solution: Inhomogeneous density, polarity, hydrogen bonds, and frequency fluctuations of interfacial molecules. J Chem Phys 2014; 141:194705. [DOI: 10.1063/1.4901118] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Jyoti Roy Choudhuri
- Department of Chemistry, Indian Institute of Technology, Kanpur 208016, India
| | - Amalendu Chandra
- Department of Chemistry, Indian Institute of Technology, Kanpur 208016, India
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45
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Rossi M, Liu H, Paesani F, Bowman J, Ceriotti M. Communication: On the consistency of approximate quantum dynamics simulation methods for vibrational spectra in the condensed phase. J Chem Phys 2014; 141:181101. [DOI: 10.1063/1.4901214] [Citation(s) in RCA: 63] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Mariana Rossi
- Physical and Theoretical Chemistry Laboratory, University of Oxford, South Parks Road, Oxford OX1 3QZ, United Kingdom
| | - Hanchao Liu
- Cherry L. Emerson Center for Scientific Computation and Department of Chemistry, Emory University, Atlanta, Georgia 30322, USA
| | - Francesco Paesani
- Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093-0314, USA
| | - Joel Bowman
- Cherry L. Emerson Center for Scientific Computation and Department of Chemistry, Emory University, Atlanta, Georgia 30322, USA
| | - Michele Ceriotti
- Laboratory of Computational Science and Modeling, IMX, École Polytechnique Fédérale de Lausanne, 1015 Lausanne, Switzerland
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46
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Roy S, Gruenbaum SM, Skinner JL. Theoretical vibrational sum-frequency generation spectroscopy of water near lipid and surfactant monolayer interfaces. J Chem Phys 2014; 141:18C502. [DOI: 10.1063/1.4895546] [Citation(s) in RCA: 49] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open
Affiliation(s)
- S. Roy
- Theoretical Chemistry Institute and Department of Chemistry, 1101 University Ave., University of Wisconsin-Madison, Madison, Wisconsin 53706, USA
| | - S. M. Gruenbaum
- Theoretical Chemistry Institute and Department of Chemistry, 1101 University Ave., University of Wisconsin-Madison, Madison, Wisconsin 53706, USA
| | - J. L. Skinner
- Theoretical Chemistry Institute and Department of Chemistry, 1101 University Ave., University of Wisconsin-Madison, Madison, Wisconsin 53706, USA
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47
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van der Loop TH, Ruesink F, Amirjalayer S, Sanders HJ, Buma WJ, Woutersen S. Unraveling the Mechanism of a Reversible Photoactivated Molecular Proton Crane. J Phys Chem B 2014; 118:12965-71. [DOI: 10.1021/jp508911v] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Tibert H. van der Loop
- Van
’t Hoff Institute for Molecular Sciences, University of Amsterdam, Science Park 904, 1098 XH Amsterdam, The Netherlands
| | - Freek Ruesink
- Van
’t Hoff Institute for Molecular Sciences, University of Amsterdam, Science Park 904, 1098 XH Amsterdam, The Netherlands
| | - Saeed Amirjalayer
- Van
’t Hoff Institute for Molecular Sciences, University of Amsterdam, Science Park 904, 1098 XH Amsterdam, The Netherlands
| | - Hans J. Sanders
- Van
’t Hoff Institute for Molecular Sciences, University of Amsterdam, Science Park 904, 1098 XH Amsterdam, The Netherlands
| | - Wybren J. Buma
- Van
’t Hoff Institute for Molecular Sciences, University of Amsterdam, Science Park 904, 1098 XH Amsterdam, The Netherlands
| | - S. Woutersen
- Van
’t Hoff Institute for Molecular Sciences, University of Amsterdam, Science Park 904, 1098 XH Amsterdam, The Netherlands
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48
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Choudhuri JR, Chandra A. Hydrogen bonded structure, polarity, molecular motion and frequency fluctuations at liquid-vapor interface of a water-methanol mixture: An ab initio molecular dynamics study. J Chem Phys 2014; 141:134703. [DOI: 10.1063/1.4896233] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Jyoti Roy Choudhuri
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur 208016, India
| | - Amalendu Chandra
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur 208016, India
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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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Sakaguchi S, Ishiyama T, Morita A. Theory and efficient computation of differential vibrational spectra. J Chem Phys 2014; 140:144109. [DOI: 10.1063/1.4870523] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022] Open
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