1
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Förster M, Ukoji N, Sahle CJ, Niskanen J, Sakrowski R, Surmeier G, Weis C, Irifune T, Imoto S, Yavas H, Huotari S, Marx D, Sternemann C, Tse JS. Generating interstitial water within the persisting tetrahedral H-bond network explains density increase upon compressing liquid water. Proc Natl Acad Sci U S A 2024; 121:e2403662121. [PMID: 39284048 PMCID: PMC11441526 DOI: 10.1073/pnas.2403662121] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2024] [Accepted: 07/16/2024] [Indexed: 10/02/2024] Open
Abstract
Despite its ubiquitous nature, the atomic structure of water in its liquid state is still controversially debated. We use a combination of X-ray Raman scattering spectroscopy in conjunction with ab initio and path integral molecular dynamics simulations to study the local atomic and electronic structure of water under high pressure conditions. Systematically increasing fingerprints of non-hydrogen-bonded H[Formula: see text]O molecules in the first hydration shell are identified in the experimental and computational oxygen K-edge excitation spectra. This provides evidence for a compaction mechanism in terms of a continuous collapse of the second hydration shell with increasing pressure via generation of interstitial water within locally tetrahedral hydrogen-bonding environments.
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Affiliation(s)
- Mirko Förster
- Fakultät Physik/DELTA, Technische Universität Dortmund, Dortmund44227, Germany
| | - Nnanna Ukoji
- Department of Physics and Engineering Physics, University of Saskatchewan, Saskatoon, SKS7N 5E2, Canada
| | | | - Johannes Niskanen
- Department of Physics and Astronomy, University of Turku, Turun yliopistoFI-20014, Finland
| | - Robin Sakrowski
- Fakultät Physik/DELTA, Technische Universität Dortmund, Dortmund44227, Germany
| | - Göran Surmeier
- Fakultät Physik/DELTA, Technische Universität Dortmund, Dortmund44227, Germany
| | - Christopher Weis
- Fakultät Physik/DELTA, Technische Universität Dortmund, Dortmund44227, Germany
| | - Tetsuo Irifune
- Geodynamics Research Center, Ehime University, Matsuyama790, Japan
| | - Sho Imoto
- Lehrstuhl für Theoretische Chemie, Ruhr-Universität Bochum, Bochum44780, Germany
| | - Hasan Yavas
- Deutsches Elektronen-Synchrotron, Hamburg22607, Germany
- Linac Coherent Light Source, SLAC National Accelerator Laboratory, Menlo Park, CA94025
| | - Simo Huotari
- Department of Physics, University of Helsinki, HelsinkiFI-00014, Finland
| | - Dominik Marx
- Lehrstuhl für Theoretische Chemie, Ruhr-Universität Bochum, Bochum44780, Germany
| | | | - John S. Tse
- Department of Physics and Engineering Physics, University of Saskatchewan, Saskatoon, SKS7N 5E2, Canada
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2
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Liu TH, Okuno M. TMAO perturbs intermolecular vibrational motions of water revealed by low-frequency modes. Phys Chem Chem Phys 2024; 26:12397-12405. [PMID: 38619910 DOI: 10.1039/d4cp01025f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/17/2024]
Abstract
Trimethylamine N-oxide (TMAO) as a representative natural osmolyte has received much attention because of its unique properties, including enhancement of hydrogen bonding networks in liquid water and stabilization of three-dimensional structures of proteins in living organisms. As a hydrogen bond maker and/or a protein stabilizer, its hydrated structures and orientation dynamics in aqueous solutions have been investigated by various spectroscopic methods. Particularly, distinct from other natural osmolytes, it has been found that TMAO molecules form complexes with water molecules even at low concentrations, showing extraordinarily long lifetimes and much larger effective dipole moments. In this study, we demonstrated that collective motions of water molecules are closely correlated to TMAO molecules, as revealed by the changes of the librational modes observed in hyper-Raman (HR) spectra in the low-frequency region (<1000 cm-1) for the first time. Based on HR spectra of the TMAO solutions at submolar concentrations, we observed that the librational bands originating from water apparently upshift (∼15 cm-1) upon the addition of TMAO molecules. Compared to the OH stretching band of water showing a negligible downshift (<5 cm-1), the librational bands of water are more sensitive to reflect changes in the hydrogen bonding networks in the TMAO solutions, suggesting formation of transient TMAO-water complexes plays an essential role toward surrounding water molecules in perturbing their librational motions. We expect to provide a supplementary approach to understand that water molecules in TMAO aqueous solutions are strongly affected by TMAO molecules, different from other osmolytes.
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Affiliation(s)
- Tsung-Han Liu
- Department of Basic Science, Graduate School of Arts and Sciences, The University of Tokyo, Meguro, Tokyo 153-8902, Japan.
| | - Masanari Okuno
- Department of Basic Science, Graduate School of Arts and Sciences, The University of Tokyo, Meguro, Tokyo 153-8902, Japan.
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3
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Trevitt CR, Yashwanth Kumar DR, Fowler NJ, Williamson MP. Interactions between the protein barnase and co-solutes studied by NMR. Commun Chem 2024; 7:44. [PMID: 38418894 PMCID: PMC10902301 DOI: 10.1038/s42004-024-01127-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2023] [Accepted: 02/09/2024] [Indexed: 03/02/2024] Open
Abstract
Protein solubility and stability depend on the co-solutes present. There is little theoretical basis for selection of suitable co-solutes. Some guidance is provided by the Hofmeister series, an empirical ordering of anions according to their effect on solubility and stability; and by osmolytes, which are small organic molecules produced by cells to allow them to function in stressful environments. Here, NMR titrations of the protein barnase with Hofmeister anions and osmolytes are used to measure and locate binding, and thus to separate binding and bulk solvent effects. We describe a rationalisation of Hofmeister (and inverse Hofmeister) effects, which is similar to the traditional chaotrope/kosmotrope idea but based on solvent fluctuation rather than water withdrawal, and characterise how co-solutes affect protein stability and solubility, based on solvent fluctuations. This provides a coherent explanation for solute effects, and points towards a more rational basis for choice of excipients.
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Affiliation(s)
- Clare R Trevitt
- School of Biosciences, University of Sheffield, Sheffield, S10 2TN, UK
- Certara UK Ltd, Level 2-Acero, 1 Concourse Way, Sheffield, S1 3BJ, UK
| | | | - Nicholas J Fowler
- School of Biosciences, University of Sheffield, Sheffield, S10 2TN, UK
| | - Mike P Williamson
- School of Biosciences, University of Sheffield, Sheffield, S10 2TN, UK.
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4
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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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5
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Reddy KD, Biswas R. Theoretical Spectroscopy Aided Validation of the Hydration Structure of Trimethylamine N-Oxide (TMAO). J Phys Chem B 2023; 127:2774-2783. [PMID: 36924339 DOI: 10.1021/acs.jpcb.2c09073] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/18/2023]
Abstract
The molecular-level understanding of the hydration structure of external solutes is extremely challenging. In the context of molecular simulation, particularly sampling proper solvation structure by classical force fields remains always a matter of concern. In the present work, we use theoretical vibrational spectroscopy to understand the microscopic solvation structure of TMAO in water in the cases of five different classical force fields of TMAO. We find that the Netz (J. Phys. Chem. B 2013, 117, 8310-8321) force field agrees better with the experimental results. We also observe that the O-H stretching frequency gets red-shifted compared to the bulk water response, suggesting that the TMAO-water forms stronger hydrogen bonds than water-water. We further investigate the O-H stretching frequency in different solvation shells and the hydrophobic and hydrophilic regions of TMAO. We find that, in the hydrophilic region, O-H stretching frequencies show a strong orientational correlation; however, that is absent in the hydrophobic region. These are further supplemented by hydrogen-bond analysis and local structure index data.
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Affiliation(s)
- Kambham Devendra Reddy
- Department of Chemistry and Center for Atomic, Molecular and Optical Sciences Technologies, Indian Institute of Technology Tirupati, Yerpedu, Tirupati, 517619, Andhra Pradesh, India
| | - Rajib Biswas
- Department of Chemistry and Center for Atomic, Molecular and Optical Sciences Technologies, Indian Institute of Technology Tirupati, Yerpedu, Tirupati, 517619, Andhra Pradesh, India
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6
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Crescenzi O, Graziano G. A quantum chemical study on the hydration energetics of trimethylamine N-oxide, its protonated form and tert-butanol. Chem Phys Lett 2022. [DOI: 10.1016/j.cplett.2022.139905] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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7
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Laurent H, Youngs TGA, Headen TF, Soper AK, Dougan L. The ability of trimethylamine N-oxide to resist pressure induced perturbations to water structure. Commun Chem 2022; 5:116. [PMID: 36697784 PMCID: PMC9814673 DOI: 10.1038/s42004-022-00726-z] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2022] [Accepted: 08/19/2022] [Indexed: 01/28/2023] Open
Abstract
Trimethylamine N-oxide (TMAO) protects organisms from the damaging effects of high pressure. At the molecular level both TMAO and pressure perturb water structure but it is not understood how they act in combination. Here, we use neutron scattering coupled with computational modelling to provide atomistic insight into the structure of water under pressure at 4 kbar in the presence and absence of TMAO. The data reveal that TMAO resists pressure-induced perturbation to water structure, particularly in retaining a clear second solvation shell, enhanced hydrogen bonding between water molecules and strong TMAO - water hydrogen bonds. We calculate an 'osmolyte protection' ratio at which pressure and TMAO-induced energy changes effectively cancel out. Remarkably this ratio translates across scales to the organism level, matching the observed concentration dependence of TMAO in the muscle tissue of organisms as a function of depth. Osmolyte protection may therefore offer a molecular mechanism for the macroscale survival of life in extreme environments.
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Affiliation(s)
- Harrison Laurent
- grid.9909.90000 0004 1936 8403School of Physics and Astronomy, University of Leeds, Leeds, UK
| | - Tristan G. A. Youngs
- grid.76978.370000 0001 2296 6998ISIS Facility, STFC Rutherford Appleton Laboratory, Didcot, UK
| | - Thomas F. Headen
- grid.76978.370000 0001 2296 6998ISIS Facility, STFC Rutherford Appleton Laboratory, Didcot, UK
| | - Alan K. Soper
- grid.76978.370000 0001 2296 6998ISIS Facility, STFC Rutherford Appleton Laboratory, Didcot, UK
| | - Lorna Dougan
- grid.9909.90000 0004 1936 8403School of Physics and Astronomy, University of Leeds, Leeds, UK ,grid.9909.90000 0004 1936 8403Astbury Centre for Structural and Molecular Biology, University of Leeds, Leeds, UK
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8
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Ganguly P, Bubák D, Polák J, Fagan P, Dračínský M, van der Vegt NFA, Heyda J, Shea JE. Cosolvent Exclusion Drives Protein Stability in Trimethylamine N-Oxide and Betaine Solutions. J Phys Chem Lett 2022; 13:7980-7986. [PMID: 35984361 DOI: 10.1021/acs.jpclett.2c01692] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Using a combination of molecular dynamics simulation, dialysis experiments, and electronic circular dichroism measurements, we studied the solvation thermodynamics of proteins in two osmolyte solutions, trimethylamine N-oxide (TMAO) and betaine. We showed that existing force fields are unable to capture the solvation properties of the proteins lysozyme and ribonuclease T1 and that the inaccurate parametrization of protein-osmolyte interactions in these force fields promoted an unphysical strong thermal denaturation of the trpcage protein. We developed a novel force field for betaine (the KBB force field) which reproduces the experimental solution Kirkwood-Buff integrals and density. We further introduced appropriate scaling to protein-osmolyte interactions in both the betaine and TMAO force fields which led to successful reproduction of experimental protein-osmolyte preferential binding coefficients for lysozyme and ribonuclease T1 and prevention of the unphysical denaturation of trpcage in osmolyte solutions. Correct parametrization of protein-TMAO interactions also led to the stabilization of the collapsed conformations of a disordered elastin-like peptide, while the uncorrected parameters destabilized the collapsed structures. Our results establish that the thermodynamic stability of proteins in both betaine and TMAO solutions is governed by osmolyte exclusion from proteins.
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Affiliation(s)
- Pritam Ganguly
- Department of Chemistry and Biochemistry, University of California at Santa Barbara, Santa Barbara, California93106, United States
| | - Dominik Bubák
- Department of Physical Chemistry, University of Chemistry and Technology, Prague, Technická 5, 166 28Prague 6, Czech Republic
| | - Jakub Polák
- Department of Physical Chemistry, University of Chemistry and Technology, Prague, Technická 5, 166 28Prague 6, Czech Republic
| | - Patrik Fagan
- Department of Analytical Chemistry, University of Chemistry and Technology, Prague, Technická 5, 166 28Prague 6, Czech Republic
| | - Martin Dračínský
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Flemingovo nám. 2, 160 00Prague, Czech Republic
| | - Nico F A van der Vegt
- Eduard-Zintl-Institut für Anorganische und Physikalische Chemie, Technische Universität Darmstadt, Alarich-Weiss-Straße 10, Darmstadt64287, Germany
| | - Jan Heyda
- Department of Physical Chemistry, University of Chemistry and Technology, Prague, Technická 5, 166 28Prague 6, Czech Republic
| | - Joan-Emma Shea
- Department of Chemistry and Biochemistry, University of California at Santa Barbara, Santa Barbara, California93106, United States
- Department of Physics, University of California at Santa Barbara, Santa Barbara, California93106, United States
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9
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Monhemi H, Hoang HN, Standley DM, Matsuda T, Housaindokht MR. The protein-stabilizing effects of TMAO in aqueous and non-aqueous conditions. Phys Chem Chem Phys 2022; 24:21178-21187. [PMID: 36039911 DOI: 10.1039/d2cp01279k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We present a new water-dependent molecular mechanism for the widely-used protein stabilizing osmolyte, trimethylamine N-oxide (TMAO), whose mode of action has remained controversial. Classical interpretations, such as osmolyte exclusion from the vicinity of protein, cannot adequately explain the behavior of this osmolyte and were challenged by recent data showing the direct interactions of TMAO with proteins, mainly via hydrophobic binding. Solvent effect theories also fail to propose a straightforward mechanism. To explore the role of water and the hydrophobic association, we disabled osmolyte-protein hydrophobic interactions by replacing water with hexane and using lipase enzyme as an anhydrous-stable protein. Biocatalysis experiments showed that under this non-aqueous condition, TMAO does not act as a stabilizer, but strongly deactivates the enzyme. Molecular dynamics (MD) simulations reveal that TMAO accumulates near the enzyme and makes many hydrogen bonds with it, like denaturing osmolytes. Some TMAO molecules even reach the active site and interact strongly with the catalystic traid. In aqueous solvent, the enzyme functions well: the extent of TMAO interactions is reduced and can be divided into both polar and non-polar terms. Structural analysis shows that in water, some TMAO molecules bind to the enzyme surface like a surfactant. We show that these interactions limit water-protein hydrogen bonds and unfavorable water-hydrophobic surface contacts. Moreover, a more hydrophobic environment is formed in the solvation layer, which reduces water dynamics and subsequently, rigidifies the backbone in aqueous solution. We show that osmolyte amphiphilicity and protein surface heterogeneity can address the weaknesses of exclusion and solvent effect theories about the TMAO mechanism.
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Affiliation(s)
- Hassan Monhemi
- Department of Chemistry, University of Neyshabur, Neyshabur, Iran. .,Research and Technology Center of Biomolecules, Faculty of Science, Ferdowsi University of Mashhad, Mashhad, Iran
| | - Hai Nam Hoang
- Department of Food Technology, Faculty of Chemical Engineering, Ho Chi Minh City University of Technology (HCMUT), 268 Ly Thuong Kiet Street, District 10, Ho Chi Minh City, Vietnam.,Vietnam National University Ho Chi Minh City, Linh Trung Ward, Thu Duc District, Ho Chi Minh City, Vietnam
| | - Daron M Standley
- Laboratory of Systems Immunology, WPI Immunology Frontier Research Center Osaka University, Osaka 565-0871, Japan
| | - Tomoko Matsuda
- School of Life Science and Technology, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama, Kanagawa 226-8501, Japan
| | - Mohammad Reza Housaindokht
- Research and Technology Center of Biomolecules, Faculty of Science, Ferdowsi University of Mashhad, Mashhad, Iran
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10
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Danov KD, Marinova KG, Radulova GM, Georgiev MT. Analytical modeling of micelle growth. 5. Molecular thermodynamics of micelles from zwitterionic surfactants. J Colloid Interface Sci 2022; 627:469-482. [PMID: 35870400 DOI: 10.1016/j.jcis.2022.07.087] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2022] [Revised: 07/12/2022] [Accepted: 07/13/2022] [Indexed: 11/19/2022]
Abstract
HYPOTHESIS The critical micelle concentration, aggregation number, shape and length of spherocylindrical micelles in solutions of zwitterionic surfactants can be predicted by knowing the molecular parameters and surfactant concentrations. This can be achieved by upgrading the quantitative molecular thermodynamic model with expressions for the electrostatic interaction energy between the zwitterionic dipoles and micellar hydrophobic cores of spherical and cylindrical shapes. THEORY The correct prediction of the mean micellar aggregation numbers requires precise calculations of the free energy per molecule in the micelles. New analytical expressions for the dipole electrostatic interaction energy are derived based on the exact solutions of the electrostatic problem for a single charge close to a boundary of spherical and cylindrical dielectric media. The obtained general theory is valid for arbitrary ratios between dielectric constants, radii of spheres and cylinders, positions, and orientations of dipoles. FINDINGS The detailed numerical results show quantitatively the effects of the micelle curvature and dielectric properties of the continuum media on the decrease of the dipole electrostatic interaction energy. Excellent agreement was achieved between the theoretical predictions and experimental data for the critical micelle concentration, size and aggregation number of zwitterionic surfactant micelles. This study can be extended to mixed micelles of zwitterionic and ionic surfactants in the presence of salt to interpret and predict the synergistic effect on the rheology of solutions.
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Affiliation(s)
- Krassimir D Danov
- Department of Chemical & Pharmaceutical Engineering, Faculty of Chemistry & Pharmacy, Sofia University, 1164 Sofia, Bulgaria.
| | - Krastanka G Marinova
- Department of Chemical & Pharmaceutical Engineering, Faculty of Chemistry & Pharmacy, Sofia University, 1164 Sofia, Bulgaria
| | - Gergana M Radulova
- Department of Chemical & Pharmaceutical Engineering, Faculty of Chemistry & Pharmacy, Sofia University, 1164 Sofia, Bulgaria
| | - Mihail T Georgiev
- Department of Chemical & Pharmaceutical Engineering, Faculty of Chemistry & Pharmacy, Sofia University, 1164 Sofia, Bulgaria
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11
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Kadtsyn ED, Nichiporenko VA, Medvedev NN. Volumetric properties of solutions on the perspective of Voronoi tessellation. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2021.118173] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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12
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Maiti A, Daschakraborty S. Can Urea and Trimethylamine- N-oxide Prevent the Pressure-Induced Phase Transition of Lipid Membrane? J Phys Chem B 2022; 126:1426-1440. [PMID: 35139638 DOI: 10.1021/acs.jpcb.1c08891] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Organisms dwelling in ocean trenches are exposed to the high hydrostatic pressure of ocean water. Increasing pressure can alter the membrane packing density and fluidity and trigger the fluid-to-gel phase transition. To combat environmental stress, the organisms synthesize small polar solutes, which are known as osmolytes. Urea and trimethylamine-N-oxide (TMAO) are two such solutes found in deep-sea creatures. While TMAO stabilizes protein, urea induces protein denaturation. These solutes strongly influence the packing density and membrane fluidity of the lipid bilayer at different conditions. But can these solutes affect the pressure-induced phase transition of the lipid membrane? In the present work, we have studied the effect of these two solutes on pressure-induced fluid-to-gel phase transition based on the all-atom molecular dynamics (MD) simulation approach. A high-pressure-stimulated fluid-to-gel phase transition of the membrane is seen at 800 bar, which is consistent with previous experiments. We have also observed that in the low-pressure region (1-400 bar), urea slightly increases the membrane fluidity where TMAO decreases the same. However, the phase transition pressure remains almost unchanged on the addition of urea while TMAO shifts the phase transition toward a lower pressure. We have found that the hydrogen (H)-bond interaction between lipid and urea plays an important role in preserving the fluidity of the membrane in the low-pressure zone. However, at a higher pressure, both water and urea are excluded from the membrane surface. TMAO is also excluded from the interfacial region of the membrane at all pressures. Exclusion from the membrane surface further triggers the phase transition of the lipid membrane from the fluid to gel phase at a high pressure.
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Affiliation(s)
- Archita Maiti
- Department of Chemistry, Indian Institute of Technology Patna, Bihar 801106, India
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13
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Yu X, Seki T, Yu CC, Zhong K, Sun S, Okuno M, Backus EHG, Hunger J, Bonn M, Nagata Y. Interfacial Water Structure of Binary Liquid Mixtures Reflects Nonideal Behavior. J Phys Chem B 2021; 125:10639-10646. [PMID: 34503330 PMCID: PMC8474108 DOI: 10.1021/acs.jpcb.1c06001] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2021] [Revised: 08/21/2021] [Indexed: 11/28/2022]
Abstract
The evaporation of molecules from water-organic solute binary mixtures is key for both atmospheric and industrial processes such as aerosol formation and distillation. Deviations from ideal evaporation energetics can be assigned to intermolecular interactions in solution, yet evaporation occurs from the interface, and the poorly understood interfacial, rather than the bulk, structure of binary mixtures affects evaporation kinetics. Here we determine the interfacial structure of nonideal binary mixtures of water with methanol, ethanol, and formic acid, by combining surface-specific vibrational spectroscopy with molecular dynamics simulations. We find that the free, dangling OH groups at the interfaces of these differently behaving nonideal mixtures are essentially indistinguishable. In contrast, the ordering of hydrogen-bonded interfacial water molecules differs substantially at these three interfaces. Specifically, the interfacial water molecules become more disordered (ordered) in mixtures with methanol and ethanol (formic acid), showing higher (lower) vapor pressure than that predicted by Raoult's law.
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Affiliation(s)
- Xiaoqing Yu
- Max
Planck Institute for Polymer Research, Ackermannweg 10, 55128 Mainz, Germany
| | - Takakazu Seki
- Max
Planck Institute for Polymer Research, Ackermannweg 10, 55128 Mainz, Germany
| | - Chun-Chieh Yu
- Max
Planck Institute for Polymer Research, Ackermannweg 10, 55128 Mainz, Germany
| | - Kai Zhong
- University
of Groningen, Zernike Institute
for Advanced Materials, Nijenborgh 4, 9747 AG Groningen, The Netherlands
| | - Shumei Sun
- Department
of Physics, Applied Optics Beijing Area Major Laboratory, Beijing Normal University, 100875 Beijing, China
| | - Masanari Okuno
- Department
of Basic Science, Graduate School of Arts and Sciences, The University of Tokyo, Komaba, Meguro, 153-8902 Tokyo, Japan
| | - Ellen H. G. Backus
- Max
Planck Institute for Polymer Research, Ackermannweg 10, 55128 Mainz, Germany
- Department
of Physical Chemistry, University of Vienna, Währinger Strasse 42, 1090 Vienna, Austria
| | - Johannes Hunger
- Max
Planck Institute for Polymer Research, Ackermannweg 10, 55128 Mainz, Germany
| | - Mischa Bonn
- Max
Planck Institute for Polymer Research, Ackermannweg 10, 55128 Mainz, Germany
| | - Yuki Nagata
- Max
Planck Institute for Polymer Research, Ackermannweg 10, 55128 Mainz, Germany
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14
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Zarechnaya OM, Anisimov AA, Belov EY, Burakov NI, Kanibolotsky AL, Mikhailov VA. Polycentric binding in complexes of trimethylamine- N-oxide with dihalogens. RSC Adv 2021; 11:6131-6145. [PMID: 35423161 PMCID: PMC8694807 DOI: 10.1039/d0ra08165e] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2020] [Accepted: 01/13/2021] [Indexed: 02/01/2023] Open
Abstract
Dihalogens readily interact with trimethylamine-N-oxide under ambient conditions. Accordingly, herein, stable 1 : 1 adducts were obtained in the case of iodine chloride and iodine bromide. The crystal and molecular structure of the trimethylamine-N-oxide-iodine chloride adduct was solved. Furthermore, the geometry and electronic structure of the trimethylamine-N-oxide-dihalogen complexes were studied computationally. Only molecular ensembles were found in the global minimum for the 1 : 1 stoichiometry. The O⋯X-Y halogen bond is the main factor for the thermodynamic stability of these complexes. Arguments for electrostatic interactions as the driving force for this noncovalent interaction were discussed. Also, the equilibrium structures are additionally stabilised by weak C-H⋯X hydrogen bonds. Consequently, formally monodentate ligands are bound in a polycentric manner.
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Affiliation(s)
- Olga M Zarechnaya
- L.M. Litvinenko Institute of Physical Organic and Coal Chemistry R. Luxemburg St., 70 Donetsk Ukraine
| | - Aleksei A Anisimov
- A.N. Nesmeyanov Institute of Organoelement Compounds, Russian Academy of Sciences 28 Vavilov St. 119991 Moscow Russia
- D.I. Mendeleev Russian Chemical Technological University 9 Miusskaya Sq. 125047 Moscow Russia
| | - Eugenii Yu Belov
- L.M. Litvinenko Institute of Physical Organic and Coal Chemistry R. Luxemburg St., 70 Donetsk Ukraine
| | - Nikolai I Burakov
- L.M. Litvinenko Institute of Physical Organic and Coal Chemistry R. Luxemburg St., 70 Donetsk Ukraine
| | | | - Vasilii A Mikhailov
- L.M. Litvinenko Institute of Physical Organic and Coal Chemistry R. Luxemburg St., 70 Donetsk Ukraine
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15
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Laurent H, Baker DL, Soper AK, Ries ME, Dougan L. Solute Specific Perturbations to Water Structure and Dynamics in Tertiary Aqueous Solution. J Phys Chem B 2020; 124:10983-10993. [DOI: 10.1021/acs.jpcb.0c07780] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
| | | | - Alan K. Soper
- ISIS Facility, STFC Rutherford Appleton Laboratory, Didcot OX11 0QX, United Kingdom
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16
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Ganguly P, Polák J, van der Vegt NFA, Heyda J, Shea JE. Protein Stability in TMAO and Mixed Urea–TMAO Solutions. J Phys Chem B 2020; 124:6181-6197. [DOI: 10.1021/acs.jpcb.0c04357] [Citation(s) in RCA: 36] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- Pritam Ganguly
- Department of Chemistry and Biochemistry, University of California at Santa Barbara, Santa Barbara, California 93106, United States
| | - Jakub Polák
- Department of Physical Chemistry, University of Chemistry and Technology, Prague, Technická 5, 166 28 Prague 6, Czech Republic
| | - Nico F. A. van der Vegt
- Eduard-Zintl-Institut für Anorganische und Physikalische Chemie, Technische Universität Darmstadt, Alarich-Weiss-Straße 10, Darmstadt 64287, Germany
| | - Jan Heyda
- Department of Physical Chemistry, University of Chemistry and Technology, Prague, Technická 5, 166 28 Prague 6, Czech Republic
| | - Joan-Emma Shea
- Department of Chemistry and Biochemistry, University of California at Santa Barbara, Santa Barbara, California 93106, United States
- Department of Physics, University of California at Santa Barbara, Santa Barbara, California 93106, United States
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17
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Tang F, Ohto T, Sun S, Rouxel JR, Imoto S, Backus EHG, Mukamel S, Bonn M, Nagata Y. Molecular Structure and Modeling of Water-Air and Ice-Air Interfaces Monitored by Sum-Frequency Generation. Chem Rev 2020; 120:3633-3667. [PMID: 32141737 PMCID: PMC7181271 DOI: 10.1021/acs.chemrev.9b00512] [Citation(s) in RCA: 83] [Impact Index Per Article: 16.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2019] [Indexed: 12/26/2022]
Abstract
From a glass of water to glaciers in Antarctica, water-air and ice-air interfaces are abundant on Earth. Molecular-level structure and dynamics at these interfaces are key for understanding many chemical/physical/atmospheric processes including the slipperiness of ice surfaces, the surface tension of water, and evaporation/sublimation of water. Sum-frequency generation (SFG) spectroscopy is a powerful tool to probe the molecular-level structure of these interfaces because SFG can specifically probe the topmost interfacial water molecules separately from the bulk and is sensitive to molecular conformation. Nevertheless, experimental SFG has several limitations. For example, SFG cannot provide information on the depth of the interface and how the orientation of the molecules varies with distance from the surface. By combining the SFG spectroscopy with simulation techniques, one can directly compare the experimental data with the simulated SFG spectra, allowing us to unveil the molecular-level structure of water-air and ice-air interfaces. Here, we present an overview of the different simulation protocols available for SFG spectra calculations. We systematically compare the SFG spectra computed with different approaches, revealing the advantages and disadvantages of the different methods. Furthermore, we account for the findings through combined SFG experiments and simulations and provide future challenges for SFG experiments and simulations at different aqueous interfaces.
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Affiliation(s)
- Fujie Tang
- Max
Planck Institute for Polymer Research, Ackermannweg 10, Mainz 55128, Germany
- Department
of Physics, Temple University, Philadelphia, Pennsylvania 19122, United States
| | - Tatsuhiko Ohto
- Graduate
School of Engineering Science, Osaka University, 1-3 Machikaneyama, Toyonaka, Osaka 560-8531, Japan
| | - Shumei Sun
- Max
Planck Institute for Polymer Research, Ackermannweg 10, Mainz 55128, Germany
- Department
of Physical Chemistry, University of Vienna, Währinger Strasse 42, 1090 Vienna, Austria
| | - Jérémy R. Rouxel
- Department
of Chemistry and Department of Physics and Astronomy, University of California, Irvine, Irvine, California 92697-2025, United States
| | - Sho Imoto
- Max
Planck Institute for Polymer Research, Ackermannweg 10, Mainz 55128, Germany
| | - Ellen H. G. Backus
- Max
Planck Institute for Polymer Research, Ackermannweg 10, Mainz 55128, Germany
- Department
of Physical Chemistry, University of Vienna, Währinger Strasse 42, 1090 Vienna, Austria
| | - Shaul Mukamel
- Department
of Chemistry and Department of Physics and Astronomy, University of California, Irvine, Irvine, California 92697-2025, United States
| | - Mischa Bonn
- Max
Planck Institute for Polymer Research, Ackermannweg 10, Mainz 55128, Germany
| | - Yuki Nagata
- Max
Planck Institute for Polymer Research, Ackermannweg 10, Mainz 55128, Germany
- Department
of Physics, State Key Laboratory of Surface Physics and Key Laboratory
of Micro- and Nano-Photonic Structures (MOE), Fudan University, Shanghai 200433, China
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18
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Okuno M, Yamada S, Ohto T, Tada H, Nakanishi W, Ariga K, Ishibashi TA. Hydrogen Bonds and Molecular Orientations of Supramolecular Structure between Barbituric Acid and Melamine Derivative at the Air/Water Interface Revealed by Heterodyne-Detected Vibrational Sum Frequency Generation Spectroscopy. J Phys Chem Lett 2020; 11:2422-2429. [PMID: 32163290 DOI: 10.1021/acs.jpclett.0c00329] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/19/2023]
Abstract
We studied the supramolecular structure between barbituric acid (pyrimidine-2,4,6(1H,3H,5H)-trione, BA) and an amphiphilic melamine derivative at the air/water interface by heterodyne-detected vibrational sum frequency generation (HD-VSFG) spectroscopy. HD-VSFG measurements in situ showed a positive broad band from 2300 to 2950 cm-1. By comparing the experimental results with ab initio molecular dynamics (AIMD) simulations, we assigned the broad band to the NH stretching modes of BA strongly hydrogen-bonded to the melamine derivative. In addition, we report in situ HD-VSFG spectra of the interfacial supramolecular structure in the CO stretching region. Two CO stretching bands were identified. On the basis of the signs of the C=O bands, we uniquely determined the orientation of BA. The strong hydrogen bonds and the molecular orientations are direct evidence for the supramolecular structure based on complementary hydrogen bonds at the air/water interface.
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Affiliation(s)
- Masanari Okuno
- Department of Chemistry, Graduate School of Pure and Applied Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8571 Japan
| | - Shuhei Yamada
- Department of Chemistry, Graduate School of Pure and Applied Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8571 Japan
| | - Tatsuhiko Ohto
- Graduate School of Engineering Science, Osaka University, 1-3 Machikaneyama, Toyonaka, Osaka 560-8531, Japan
| | - Hirokazu Tada
- Graduate School of Engineering Science, Osaka University, 1-3 Machikaneyama, Toyonaka, Osaka 560-8531, Japan
| | - Waka Nakanishi
- World Premier International (WPI) International Center for Materials Nanoarchitectonics (MANA), National Institute for Materials Science (NIMS), 1-1 Namiki, Tsukuba, Ibaraki 305-0044, Japan
| | - Katsuhiko Ariga
- World Premier International (WPI) International Center for Materials Nanoarchitectonics (MANA), National Institute for Materials Science (NIMS), 1-1 Namiki, Tsukuba, Ibaraki 305-0044, Japan
- Department of Advanced Materials Science, Graduate School of Frontier Sciences, The University of Tokyo, 5-1-5 Kashiwanoha, Kashiwa, Chiba 277-8561, Japan
| | - Taka-Aki Ishibashi
- Department of Chemistry, Graduate School of Pure and Applied Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8571 Japan
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19
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Sahle CJ, Schroer MA, Niskanen J, Elbers M, Jeffries CM, Sternemann C. Hydration in aqueous osmolyte solutions: the case of TMAO and urea. Phys Chem Chem Phys 2020; 22:11614-11624. [DOI: 10.1039/c9cp06785j] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
X-ray Raman scattering spectroscopy and first principles simulations reveal details of the hydration and hydrogen-bond topology of trimethylamine N-oxide (TMAO) and urea in aqueous solutions.
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Affiliation(s)
| | - Martin A. Schroer
- European Molecular Biology Laboratory (EMBL)
- Hamburg Outstation c/o DESY
- Hamburg 22607
- Germany
| | - Johannes Niskanen
- Department of Physics and Astronomy
- University of Turku
- FI-20014 Turun Yliopisto
- Finland
| | - Mirko Elbers
- Fakultät Physik/DELTA
- Technische Universität Dortmund
- 44221 Dortmund
- Germany
| | - Cy M. Jeffries
- European Molecular Biology Laboratory (EMBL)
- Hamburg Outstation c/o DESY
- Hamburg 22607
- Germany
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20
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Laurent H, Soper AK, Dougan L. Trimethylamine N-oxide (TMAO) resists the compression of water structure by magnesium perchlorate: terrestrial kosmotrope vs. Martian chaotrope. Phys Chem Chem Phys 2020; 22:4924-4937. [PMID: 32091074 DOI: 10.1039/c9cp06324b] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
Neutron diffraction and computational modelling provide insight into water structure.
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Affiliation(s)
| | - Alan K. Soper
- ISIS Facility
- STFC Rutherford Appleton Laboratory
- Didcot
- UK
| | - Lorna Dougan
- Department of Physics and Astronomy
- University of Leeds
- Leeds
- UK
- Astbury Centre for Structural and Molecular Biology
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21
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What is the hydrophobic interaction contribution to the stabilization of micro-hydrated complexes of trimethylamine oxide (TMAO)? A joint DFT-D, QTAIM, and MESP study. J Mol Model 2019; 25:363. [DOI: 10.1007/s00894-019-4217-y] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2019] [Accepted: 09/30/2019] [Indexed: 11/27/2022]
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22
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Sun S, Tang F, Imoto S, Moberg DR, Ohto T, Paesani F, Bonn M, Backus EHG, Nagata Y. Orientational Distribution of Free O-H Groups of Interfacial Water is Exponential. PHYSICAL REVIEW LETTERS 2018; 121:246101. [PMID: 30608741 DOI: 10.1103/physrevlett.121.246101] [Citation(s) in RCA: 43] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/30/2018] [Revised: 11/09/2018] [Indexed: 06/09/2023]
Abstract
The orientational distribution of free O-H (O-D) groups at the H_{2}O- (D_{2}O-)air interface is investigated using combined molecular dynamics (MD) simulations and sum-frequency generation (SFG) experiments. The average angle of the free O-H groups, relative to the surface normal, is found to be ∼63°, substantially larger than previous estimates of 30°-40°. This discrepancy can be traced to erroneously assumed Gaussian or stepwise orientational distributions of free O-H groups. Instead, the MD simulation and SFG measurement reveal a broad and exponentially decaying orientational distribution. The broad orientational distribution indicates the presence of the free O-H group pointing down to the bulk. We ascribe the origin of such free O-H groups to the presence of capillary waves on the water surface.
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Affiliation(s)
- Shumei Sun
- Max Planck Institute for Polymer Research, Ackermannweg 10, 55128 Mainz, Germany
| | - Fujie Tang
- Max Planck Institute for Polymer Research, Ackermannweg 10, 55128 Mainz, Germany
- International Center for Quantum Materials, School of Physics, Peking University, 5 Yiheyuan Road, Haidian, Beijing 100871, China
| | - Sho Imoto
- Max Planck Institute for Polymer Research, Ackermannweg 10, 55128 Mainz, Germany
| | - Daniel R Moberg
- Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093, USA
| | - Tatsuhiko Ohto
- Graduate School of Engineering Science, Osaka University, 1-3 Machikaneyama, Toyonaka, Osaka 560-8531, Japan
| | - Francesco Paesani
- Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093, USA
| | - Mischa Bonn
- Max Planck Institute for Polymer Research, Ackermannweg 10, 55128 Mainz, Germany
| | - Ellen H G Backus
- Max Planck Institute for Polymer Research, Ackermannweg 10, 55128 Mainz, Germany
| | - Yuki Nagata
- Max Planck Institute for Polymer Research, Ackermannweg 10, 55128 Mainz, Germany
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23
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Huc T, Drapala A, Gawrys M, Konop M, Bielinska K, Zaorska E, Samborowska E, Wyczalkowska-Tomasik A, Pączek L, Dadlez M, Ufnal M. Chronic, low-dose TMAO treatment reduces diastolic dysfunction and heart fibrosis in hypertensive rats. Am J Physiol Heart Circ Physiol 2018; 315:H1805-H1820. [DOI: 10.1152/ajpheart.00536.2018] [Citation(s) in RCA: 67] [Impact Index Per Article: 9.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
Several studies have suggested negative effects of trimethylamine oxide (TMAO) on the circulatory system. However, a number of studies have shown protective functions of TMAO, a piezolyte and osmolyte, in animals exposed to high hydrostatic and/or osmotic stress. We evaluated the effects of TMAO treatment on the development of hypertension and its complications in male spontaneously hypertensive rats (SHRs) maintained on water (SHR-Water) and SHRs drinking TMAO water solution from weaning (SHR-TMAO). Wistar-Kyoto (WKY) rats were used as normotensive controls to discriminate between age-dependent and hypertension-dependent changes. Telemetry measurements of blood pressure were performed in rats between the 7th and 16th weeks of life. Anesthetized rats underwent echocardiographic, electrocardiographic, and direct left ventricular end-diastolic pressure (LVEDP) measurements. Hematoxylin and eosin as well as van Gieson staining for histopathological evaluation were performed. Plasma TMAO measured by chromatography coupled with mass spectrometry was significantly higher in the SHR-Water group compared with the WKY group (~20%). TMAO treatment increased plasma TMAO by four- to fivefold and did not affect the development of hypertension in SHRs. Sixteen-week-old rats in the SHR-Water and SHR-TMAO groups (12-wk TMAO treatment) showed similar blood pressures, angiopathy, and cardiac hypertrophy. However, the SHR-TMAO group had lower plasma NH2-terminal pro-B-type natriuretic peptide, LVEDP, and cardiac fibrosis. In contrast to age-matched WKY rats, 60-wk-old SHRs showed hypertensive angiopathy and heart failure with preserved ejection fraction. Compared with the SHR-Water group, the SHR-TMAO group (56-wk TMAO treatment) showed significantly lower plasma NH2-terminal pro-B-type natriuretic peptide and vasopressin, significantly lower LVEDP, and cardiac fibrosis. In conclusion, a four- to fivefold increase in plasma TMAO does not exert negative effects on the circulatory system. In contrast, increased dietary TMAO seems to reduce diastolic dysfunction in pressure-overloaded hearts in rats. NEW & NOTEWORTHY Chronic, low-dose trimethylamine oxide (TMAO) treatment that increases plasma TMAO by four- to fivefold reduces plasma NH2-terminal pro-B-type natriuretic peptide and vasopressin, left ventricular end-diastolic pressure, and cardiac fibrosis in pressure-overloaded hearts in hypertensive rats. Our study provides evidence that a moderate increase in plasma TMAO does not have a negative effect on the circulatory system. In contrast, increased dietary TMAO seems to reduce diastolic dysfunction in the pressure-overloaded heart.
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Affiliation(s)
- Tomasz Huc
- Department of Experimental Physiology and Pathophysiology, Laboratory of the Centre for Preclinical Research, Medical University of Warsaw, Warsaw, Poland
| | - Adrian Drapala
- Department of Experimental Physiology and Pathophysiology, Laboratory of the Centre for Preclinical Research, Medical University of Warsaw, Warsaw, Poland
| | - Marta Gawrys
- Department of Experimental Physiology and Pathophysiology, Laboratory of the Centre for Preclinical Research, Medical University of Warsaw, Warsaw, Poland
| | - Marek Konop
- Department of Experimental Physiology and Pathophysiology, Laboratory of the Centre for Preclinical Research, Medical University of Warsaw, Warsaw, Poland
| | - Klaudia Bielinska
- Department of Experimental Physiology and Pathophysiology, Laboratory of the Centre for Preclinical Research, Medical University of Warsaw, Warsaw, Poland
| | - Ewelina Zaorska
- Department of Experimental Physiology and Pathophysiology, Laboratory of the Centre for Preclinical Research, Medical University of Warsaw, Warsaw, Poland
| | - Emilia Samborowska
- Mass Spectrometry Laboratory, Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland
| | | | - Leszek Pączek
- Department of Immunology, Transplantology and Internal Diseases, Medical University of Warsaw, Warsaw, Poland
| | - Michal Dadlez
- Mass Spectrometry Laboratory, Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland
| | - Marcin Ufnal
- Department of Experimental Physiology and Pathophysiology, Laboratory of the Centre for Preclinical Research, Medical University of Warsaw, Warsaw, Poland
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24
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Xie WJ, Cha S, Ohto T, Mizukami W, Mao Y, Wagner M, Bonn M, Hunger J, Nagata Y. Large Hydrogen-Bond Mismatch between TMAO and Urea Promotes Their Hydrophobic Association. Chem 2018. [DOI: 10.1016/j.chempr.2018.08.020] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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25
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Zetterholm SG, Verville GA, Boutwell L, Boland C, Prather JC, Bethea J, Cauley J, Warren KE, Smith SA, Magers DH, Hammer NI. Noncovalent Interactions between Trimethylamine N-Oxide (TMAO), Urea, and Water. J Phys Chem B 2018; 122:8805-8811. [PMID: 30165021 DOI: 10.1021/acs.jpcb.8b04388] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Trimethylamine N-oxide (TMAO) and urea are two important osmolytes with their main significance to the biophysical field being in how they uniquely interact with proteins. Urea is a strong protein destabilizing agent, whereas TMAO is known to counteract urea's deleterious effects. The exact mechanisms by which TMAO stabilizes and urea destabilizes folded proteins continue to be debated in the literature. Although recent evidence has suggested that urea binds directly to amino acid side chains to make protein folding less thermodynamically favored, it has also been suggested that urea acts indirectly to denature proteins by destabilizing the surrounding hydrogen bonding water networks. Here, we elucidate the molecular level mechanism of TMAO's unique ability to counteract urea's destabilizing nature by comparing Raman spectroscopic frequency shifts to the results of electronic structure calculations of microsolvated molecular clusters. Experimental and computational data suggest that the addition of TMAO into an aqueous solution of urea induces blue shifts in urea's H-N-H symmetric bending modes, which is evidence for direct interactions between the two cosolvents.
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Affiliation(s)
- Sarah G Zetterholm
- Department of Chemistry and Biochemistry , Mississippi College , P.O. Box 4036, Clinton , Mississippi 39058 , United States
| | - Genevieve A Verville
- Department of Chemistry and Biochemistry , University of Mississippi , P.O. Box 1848, University , Mississippi 38655 , United States
| | - Leeann Boutwell
- Department of Chemistry and Biochemistry , Mississippi College , P.O. Box 4036, Clinton , Mississippi 39058 , United States
| | - Christopher Boland
- Department of Chemistry and Biochemistry , University of Mississippi , P.O. Box 1848, University , Mississippi 38655 , United States
| | - John C Prather
- Department of Chemistry and Biochemistry , University of Mississippi , P.O. Box 1848, University , Mississippi 38655 , United States
| | - Jonathan Bethea
- Department of Chemistry and Biochemistry , Mississippi College , P.O. Box 4036, Clinton , Mississippi 39058 , United States
| | - Jordan Cauley
- Department of Chemistry and Biochemistry , University of Mississippi , P.O. Box 1848, University , Mississippi 38655 , United States.,Department of Chemistry and Biochemistry , Mississippi College , P.O. Box 4036, Clinton , Mississippi 39058 , United States
| | - Kayla E Warren
- Department of Chemistry and Biochemistry , University of Mississippi , P.O. Box 1848, University , Mississippi 38655 , United States
| | - Shelley A Smith
- Department of Chemistry and Biochemistry , Mississippi College , P.O. Box 4036, Clinton , Mississippi 39058 , United States
| | - David H Magers
- Department of Chemistry and Biochemistry , Mississippi College , P.O. Box 4036, Clinton , Mississippi 39058 , United States
| | - Nathan I Hammer
- Department of Chemistry and Biochemistry , University of Mississippi , P.O. Box 1848, University , Mississippi 38655 , United States
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26
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Sanders SE, Vanselous H, Petersen PB. Water at surfaces with tunable surface chemistries. JOURNAL OF PHYSICS. CONDENSED MATTER : AN INSTITUTE OF PHYSICS JOURNAL 2018; 30:113001. [PMID: 29393860 DOI: 10.1088/1361-648x/aaacb5] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Aqueous interfaces are ubiquitous in natural environments, spanning atmospheric, geological, oceanographic, and biological systems, as well as in technical applications, such as fuel cells and membrane filtration. Where liquid water terminates at a surface, an interfacial region is formed, which exhibits distinct properties from the bulk aqueous phase. The unique properties of water are governed by the hydrogen-bonded network. The chemical and physical properties of the surface dictate the boundary conditions of the bulk hydrogen-bonded network and thus the interfacial properties of the water and any molecules in that region. Understanding the properties of interfacial water requires systematically characterizing the structure and dynamics of interfacial water as a function of the surface chemistry. In this review, we focus on the use of experimental surface-specific spectroscopic methods to understand the properties of interfacial water as a function of surface chemistry. Investigations of the air-water interface, as well as efforts in tuning the properties of the air-water interface by adding solutes or surfactants, are briefly discussed. Buried aqueous interfaces can be accessed with careful selection of spectroscopic technique and sample configuration, further expanding the range of chemical environments that can be probed, including solid inorganic materials, polymers, and water immiscible liquids. Solid substrates can be finely tuned by functionalization with self-assembled monolayers, polymers, or biomolecules. These variables provide a platform for systematically tuning the chemical nature of the interface and examining the resulting water structure. Finally, time-resolved methods to probe the dynamics of interfacial water are briefly summarized before discussing the current status and future directions in studying the structure and dynamics of interfacial water.
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Affiliation(s)
- Stephanie E Sanders
- Department of Chemistry and Chemical Biology, Cornell University, Ithaca, NY 14853, United States of America
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27
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Vigorita M, Cozzolino S, Oliva R, Graziano G, Del Vecchio P. Counteraction ability of TMAO toward different denaturing agents. Biopolymers 2018; 109:e23104. [DOI: 10.1002/bip.23104] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2017] [Revised: 12/22/2017] [Accepted: 01/16/2018] [Indexed: 01/19/2023]
Affiliation(s)
- Marilisa Vigorita
- Dipartimento di Scienze e Tecnologie; Università degli Studi del Sannio, Via Port'Arsa 11; Benevento 82100 Italy
| | - Serena Cozzolino
- Dipartimento di Scienze Chimiche; Università degli Studi di Napoli Federico II, Complesso Universitario di Monte Sant'Angelo, Via Cintia; Napoli 80126 Italy
| | - Rosario Oliva
- Dipartimento di Scienze Chimiche; Università degli Studi di Napoli Federico II, Complesso Universitario di Monte Sant'Angelo, Via Cintia; Napoli 80126 Italy
| | - Giuseppe Graziano
- Dipartimento di Scienze e Tecnologie; Università degli Studi del Sannio, Via Port'Arsa 11; Benevento 82100 Italy
| | - Pompea Del Vecchio
- Dipartimento di Scienze Chimiche; Università degli Studi di Napoli Federico II, Complesso Universitario di Monte Sant'Angelo, Via Cintia; Napoli 80126 Italy
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28
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Banik D, Bhattacharya S, Datta PK, Sarkar N. Anomalous Dynamics in tert-Butyl Alcohol-Water and Trimethylamine N-Oxide-Water Binary Mixtures: A Femtosecond Transient Absorption Study. ACS OMEGA 2018; 3:383-392. [PMID: 31457899 PMCID: PMC6641418 DOI: 10.1021/acsomega.7b01595] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/18/2017] [Accepted: 12/27/2017] [Indexed: 05/17/2023]
Abstract
In this article, we have investigated the unusual dynamics of tert-butyl alcohol (TBA)-water and trimethylamine N-oxide (TMAO)-water binary mixtures using solvation dynamics as a tool. For this purpose, femtosecond transient absorption spectroscopy has been employed. Although these two molecules are isosteres to each other, a significant difference in water dynamics has been observed. The solvation times in TBA-water binary mixtures are found to be between 1.5 and 15.5 ps. On the contrary, we have observed very fast dynamics in TMAO-water binary mixtures (between 210 and 600 fs). Interestingly, unusual retardation in dynamics is observed at 0.10 mole fraction of TBA and TMAO in both the binary mixtures.
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Affiliation(s)
- Debasis Banik
- Department
of Chemistry and Department of Physics, Indian Institute
of Technology, Kharagpur 721302, West Bengal, India
| | - Sayantan Bhattacharya
- Department
of Chemistry and Department of Physics, Indian Institute
of Technology, Kharagpur 721302, West Bengal, India
| | - Prasanta Kumar Datta
- Department
of Chemistry and Department of Physics, Indian Institute
of Technology, Kharagpur 721302, West Bengal, India
- E-mail: (P.K.D.)
| | - Nilmoni Sarkar
- Department
of Chemistry and Department of Physics, Indian Institute
of Technology, Kharagpur 721302, West Bengal, India
- E-mail: . Phone: +91-3222-283332. Fax: 91-3222-255303 (N.S.)
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29
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Jelovica M, Grbčić P, Mušković M, Sedić M, Pavelić SK, Lončarić M, Malatesti N. In Vitro Photodynamic Activity of N-Methylated and N-Oxidised Tripyridyl Porphyrins with Long Alkyl Chains and Their Inhibitory Activity in Sphingolipid Metabolism. ChemMedChem 2018; 13:360-372. [PMID: 29381258 DOI: 10.1002/cmdc.201700748] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2017] [Revised: 12/31/2017] [Indexed: 02/04/2023]
Abstract
A series of N-methylated and N-oxidised tripyridyl porphyrins were synthesised, characterised, and their PDT activity was studied with six cell lines. All the tested porphyrins with a long alkyl chain, except one, were more efficient for PDT than an N-methylated hydrophilic porphyrin and N-oxidised porphyrin without the long alkyl chain. Generally, N-methylated tripyridyl porphyrins were more active than those N-oxidised, but IC50 values for phototoxicity of two N-oxides, named TOPyP3-C17 H33 O and TOPyP3-C17 H35 , were still in the nanomolar concentration range for most of the tested cell lines. However, TOPyP3-C17 H35 did not show phototoxicity on human foreskin fibroblast cells. Two methylated amphiphilic porphyrins, named TMPyP3-C17 H33 and TMPyP4-C17 H35, showed significant dark toxicity, whereas none of the oxidopyridyl porphyrins were toxic without light activation. The selected photosensitisers were shown to be apoptosis inducers, and had inhibitory effects on the clonogenic growth of HCT116 and HeLa cells. All three N-methylated amphiphilic porphyrins significantly reduced the migratory potential of HCT116 cells. Porphyrins TMPyP3-C17 H35 and TOPyP3-C17 H35 reduced the activity of acid ceramidase, whereas TOPyP3-C17 H33 O had a significant inhibitory effect on sphingosine kinase 1 activity in HeLa cells. Compounds with this dual activity were shown to be the most promising photosensitisers, with potential to treat invasive cancers.
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Affiliation(s)
- Mateo Jelovica
- Department of Biotechnology, University of Rijeka, Radmile Matejčić 2, 51000, Rijeka, Croatia
| | - Petra Grbčić
- Department of Biotechnology and Centre for High-Throughput Technologies, University of Rijeka, Radmile Matejčić 2, 51000, Rijeka, Croatia
| | - Martina Mušković
- Department of Biotechnology, University of Rijeka, Radmile Matejčić 2, 51000, Rijeka, Croatia
| | - Mirela Sedić
- Department of Biotechnology and Centre for High-Throughput Technologies, University of Rijeka, Radmile Matejčić 2, 51000, Rijeka, Croatia
| | - Sandra Kraljević Pavelić
- Department of Biotechnology and Centre for High-Throughput Technologies, University of Rijeka, Radmile Matejčić 2, 51000, Rijeka, Croatia
| | - Martin Lončarić
- Photonics and Quantum Optics Unit, Center of Excellence for Advanced Materials and Sensing Devices, Ruđer Bošković Institute, Bijenička cesta 54, 10002, Zagreb, Croatia
| | - Nela Malatesti
- Department of Biotechnology, University of Rijeka, Radmile Matejčić 2, 51000, Rijeka, Croatia
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30
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Imoto S, Forbert H, Marx D. Aqueous TMAO solutions as seen by theoretical THz spectroscopy: hydrophilic versus hydrophobic water. Phys Chem Chem Phys 2018; 20:6146-6158. [DOI: 10.1039/c7cp07003a] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
All THz resonances of aqueous TMAO solutions are computed and assigned based on ab initio molecular dynamics simulations.
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Affiliation(s)
- Sho Imoto
- Lehrstuhl für Theoretische Chemie
- Ruhr-Universität Bochum
- 44780 Bochum
- Germany
| | - Harald Forbert
- Center for Solvation Science ZEMOS
- Ruhr-Universität Bochum
- 44780 Bochum
- Germany
| | - Dominik Marx
- Lehrstuhl für Theoretische Chemie
- Ruhr-Universität Bochum
- 44780 Bochum
- Germany
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31
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Ganguly P, Boserman P, van der Vegt NFA, Shea JE. Trimethylamine N-oxide Counteracts Urea Denaturation by Inhibiting Protein–Urea Preferential Interaction. J Am Chem Soc 2017; 140:483-492. [DOI: 10.1021/jacs.7b11695] [Citation(s) in RCA: 77] [Impact Index Per Article: 9.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Pritam Ganguly
- Department
of Chemistry and Biochemistry, University of California at Santa Barbara, Santa Barbara, California 93106, United States
| | - Pablo Boserman
- Department
of Physics, University of California at Santa Barbara, Santa Barbara, California 93106, United States
| | - Nico F. A. van der Vegt
- Eduard-Zintl-Institut
für Anorganische und Physikalische Chemie, Center of Smart
Interfaces, Technische Universität Darmstadt, Alarich-Weiss-Straße
10, Darmstadt 64287, Germany
| | - Joan-Emma Shea
- Department
of Chemistry and Biochemistry, University of California at Santa Barbara, Santa Barbara, California 93106, United States
- Department
of Physics, University of California at Santa Barbara, Santa Barbara, California 93106, United States
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32
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Stirnemann G, Duboué-Dijon E, Laage D. Ab Initio Simulations of Water Dynamics in Aqueous TMAO Solutions: Temperature and Concentration Effects. J Phys Chem B 2017; 121:11189-11197. [PMID: 29200289 DOI: 10.1021/acs.jpcb.7b09989] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
We use ab initio molecular dynamics simulation to study the effect of hydrophobic groups on the dynamics of water molecules in aqueous solutions of trimethylamine N-oxide (TMAO). We show that hydrophobic groups induce a moderate (<2-fold) slowdown of water reorientation and hydrogen-bond dynamics in dilute solutions, but that this slowdown rapidly increases with solute concentration. In addition, the slowdown factor is found to vary very little with temperature, thus suggesting an entropic origin. All of these results are in quantitative agreement with prior classical molecular dynamics simulations and with the previously suggested excluded-volume model. The hydrophilic TMAO headgroup is found to affect water dynamics more strongly than the hydrophobic moiety, and the magnitude of this slowdown is very sensitive to the strength of the water-solute hydrogen-bond.
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Affiliation(s)
- Guillaume Stirnemann
- CNRS Laboratoire de Biochimie Théorique, Institut de Biologie Physico-Chimique, Univ. Paris Diderot, Sorbonne Paris Cité, PSL Research University , 13 rue Pierre et Marie Curie, 75005 Paris, France
| | - Elise Duboué-Dijon
- PASTEUR, Département de Chimie, École Normale Supérieure, PSL Research University, Sorbonne Universités, UPMC Univ. Paris 06, CNRS , 75005 Paris, France
| | - Damien Laage
- PASTEUR, Département de Chimie, École Normale Supérieure, PSL Research University, Sorbonne Universités, UPMC Univ. Paris 06, CNRS , 75005 Paris, France
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33
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Tang F, Ohto T, Hasegawa T, Xie WJ, Xu L, Bonn M, Nagata Y. Definition of Free O–H Groups of Water at the Air–Water Interface. J Chem Theory Comput 2017; 14:357-364. [DOI: 10.1021/acs.jctc.7b00566] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Fujie Tang
- International
Center for Quantum Materials, School of Physics, Peking University, 5
Yiheyuan Road, Haidian, Beijing 100871, China
- Max Planck Institute
for Polymer Research, Ackermannweg
10, D-55128 Mainz, Germany
| | - Tatsuhiko Ohto
- Graduate
School of Engineering Science, Osaka University, 1-3 Machikaneyama, Toyonaka, Osaka 560-8531, Japan
| | - Taisuke Hasegawa
- Max Planck Institute
for Polymer Research, Ackermannweg
10, D-55128 Mainz, Germany
- Department
of Chemistry, Graduate School of Science, Kyoto University, Sakyoku, Kyoto 606-8502, Japan
| | - Wen Jun Xie
- Max Planck Institute
for Polymer Research, Ackermannweg
10, D-55128 Mainz, Germany
- College
of Chemistry and Molecular Engineering, Peking University, 5
Yiheyuan Road, Haidian, Beijing 100871, China
| | - Limei Xu
- International
Center for Quantum Materials, School of Physics, Peking University, 5
Yiheyuan Road, Haidian, Beijing 100871, China
- Collaborative Innovation
Center of Quantum Matter, Beijing 100871, China
| | - Mischa Bonn
- Max Planck Institute
for Polymer Research, Ackermannweg
10, D-55128 Mainz, Germany
| | - Yuki Nagata
- Max Planck Institute
for Polymer Research, Ackermannweg
10, D-55128 Mainz, Germany
- Institute for
Molecular Science, Myodaiji, Okazaki, Aichi 444-8585, Japan
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34
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Alkorta I, Elguero J, Elguero E. Nitroxide stable radicals interacting as Lewis bases in hydrogen bonds: A search in the Cambridge structural data base for intermolecular contacts. J Mol Struct 2017. [DOI: 10.1016/j.molstruc.2017.06.101] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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35
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Ferreira LA, Uversky VN, Zaslavsky BY. Role of solvent properties of water in crowding effects induced by macromolecular agents and osmolytes. MOLECULAR BIOSYSTEMS 2017; 13:2551-2563. [DOI: 10.1039/c7mb00436b] [Citation(s) in RCA: 35] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
Abstract
Dipolarity/polarizability of water in polymer mixtures may be additive, reduced or enhanced depending on the composition of the mixture.
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Affiliation(s)
| | - V. N. Uversky
- Department of Molecular Medicine
- Morsant College of Medicine
- University of South Florida
- Tampa
- USA
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