1
|
Hishida M. Correlation between Hydration States and Self-assembly Structures of Phospholipid and Surfactant Studied by Terahertz Spectroscopy. J Oleo Sci 2024; 73:419-427. [PMID: 38556277 DOI: 10.5650/jos.ess23188] [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] [Indexed: 04/02/2024] Open
Abstract
Phospholipids and surfactants form membranes and other self-assembled structures in water. However, it is not fully understood how the surrounding water (hydration water) is involved in their structure formation. In this paper, I summarize the results of our investigation of the long-range hydration state of phospholipids and surfactants at their surfaces by means of terahertz spectroscopy. By observing the collective rotational dynamics of water in the picosecond time scale, this technique allows us to observe not only the water directly bound to the solute, but also the weakly affected water outside of it. For example, PC phospholipids inhibit water dynamics over long distances, whereas PE phospholipids make water more mobile than bulk water. The causes of this difference in hydration and how it is involved in the structural formation of the membrane are reviewed.
Collapse
Affiliation(s)
- Mafumi Hishida
- Department of Chemistry, Faculty of Science, Tokyo University of Science
| |
Collapse
|
2
|
Hishida M, Kaneko A, Yamamura Y, Saito K. Contrasting Changes in Strongly and Weakly Bound Hydration Water of a Protein upon Denaturation. J Phys Chem B 2023; 127:6296-6305. [PMID: 37417885 PMCID: PMC10364084 DOI: 10.1021/acs.jpcb.3c02970] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2023] [Revised: 06/21/2023] [Indexed: 07/08/2023]
Abstract
Water is considered integral for the stabilization and function of proteins, which has recently attracted significant attention. However, the microscopic aspects of water ranging up to the second hydration shell, including strongly and weakly bound water at the sub-nanometer scale, are not yet well understood. Here, we combined terahertz spectroscopy, thermal measurements, and infrared spectroscopy to clarify how the strongly and weakly bound hydration water changes upon protein denaturation. With denaturation, that is, the exposure of hydrophobic groups in water and entanglement of hydrophilic groups, the number of strongly bound hydration water decreased, while the number of weakly bound hydration water increased. Even though the constraint of water due to hydrophobic hydration is weak, it extends to the second hydration shell as it is caused by the strengthening of hydrogen bonds between water molecules, which is likely the key microscopic mechanism for the destabilization of the native state due to hydration.
Collapse
Affiliation(s)
- Mafumi Hishida
- Department
of Chemistry, Faculty of Science, Tokyo
University of Science, 1-3 Kagurazaka, Shinjuku, Tokyo 162-8601, Japan
| | - Ayumi Kaneko
- Department
of Chemistry, Faculty of Pure and Applied Sciences, University of Tsukuba, Tsukuba, Ibaraki 305-8571, Japan
| | - Yasuhisa Yamamura
- Department
of Chemistry, Faculty of Pure and Applied Sciences, University of Tsukuba, Tsukuba, Ibaraki 305-8571, Japan
| | - Kazuya Saito
- Department
of Chemistry, Faculty of Pure and Applied Sciences, University of Tsukuba, Tsukuba, Ibaraki 305-8571, Japan
| |
Collapse
|
3
|
Stasiulewicz M, Panuszko A, Bruździak P, Stangret J. Mechanism of Osmolyte Stabilization-Destabilization of Proteins: Experimental Evidence. J Phys Chem B 2022; 126:2990-2999. [PMID: 35441516 PMCID: PMC9059127 DOI: 10.1021/acs.jpcb.2c00281] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
![]()
In this work, we
investigated the influence of stabilizing (N,N,N-trimethylglycine)
and destabilizing (urea) osmolytes on the hydration spheres of biomacromolecules
in folded forms (trpzip-1 peptide and hen egg white
lysozyme—hewl) and unfolded protein models
(glycine—GLY and N-methylglycine—NMG)
by means of infrared spectroscopy. GLY and NMG were clearly limited
as minimal models for unfolded proteins and should be treated with
caution. We isolated the spectral share of water changed simultaneously
by the biomacromolecule/model molecule and the osmolyte, which allowed
us to provide unambiguous experimental arguments for the mechanism
of stabilization/destabilization of proteins by osmolytes. In the
case of both types of osmolytes, the decisive factor determining the
equilibrium folded/unfolded state of protein was the enthalpy effect
exerted on the hydration spheres of proteins in both forms. In the
case of stabilizing osmolytes, enthalpy was also favored by entropy,
as the unfolded state of a protein was more entropically destabilized
than the folded state.
Collapse
Affiliation(s)
- Marcin Stasiulewicz
- Department of Physical Chemistry, Gdańsk University of Technology, Narutowicza 11/12, Gdańsk 80-233, Poland
| | - Aneta Panuszko
- Department of Physical Chemistry, Gdańsk University of Technology, Narutowicza 11/12, Gdańsk 80-233, Poland
| | - Piotr Bruździak
- Department of Physical Chemistry, Gdańsk University of Technology, Narutowicza 11/12, Gdańsk 80-233, Poland
| | - Janusz Stangret
- Department of Physical Chemistry, Gdańsk University of Technology, Narutowicza 11/12, Gdańsk 80-233, Poland
| |
Collapse
|
4
|
Hishida M, Anjum R, Anada T, Murakami D, Tanaka M. Effect of Osmolytes on Water Mobility Correlates with Their Stabilizing Effect on Proteins. J Phys Chem B 2022; 126:2466-2475. [DOI: 10.1021/acs.jpcb.1c10634] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Mafumi Hishida
- Department of Chemistry, Faculty of Pure and Applied Sciences, University of Tsukuba, Tsukuba, Ibaraki 305-8571, Japan
| | - Rubaiya Anjum
- Department of Chemistry and Biochemistry, Graduate School of Engineering, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka 819-0395, Japan
| | - Takahisa Anada
- Department of Chemistry and Biochemistry, Graduate School of Engineering, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka 819-0395, Japan
- Institute for Materials Chemistry and Engineering, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka 819-0395, Japan
| | - Daiki Murakami
- Department of Chemistry and Biochemistry, Graduate School of Engineering, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka 819-0395, Japan
- Institute for Materials Chemistry and Engineering, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka 819-0395, Japan
| | - Masaru Tanaka
- Department of Chemistry and Biochemistry, Graduate School of Engineering, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka 819-0395, Japan
- Institute for Materials Chemistry and Engineering, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka 819-0395, Japan
| |
Collapse
|
5
|
Dinda S, Sil A, Das A, Tarif E, Biswas R. Does urea modify microheterogeneous nature of ionic amide deep eutectics? Clues from non-reactive and reactive solute-centered dynamics. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2021.118126] [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]
|
6
|
Sarango-Ramírez MK, Park J, Kim J, Yoshida Y, Lim DW, Kitagawa H. Void Space versus Surface Functionalization for Proton Conduction in Metal-Organic Frameworks. Angew Chem Int Ed Engl 2021; 60:20173-20177. [PMID: 34009706 DOI: 10.1002/anie.202106181] [Citation(s) in RCA: 22] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2021] [Indexed: 11/10/2022]
Abstract
Void space and functionality of the pore surface are important structural factors for proton-conductive metal-organic frameworks (MOFs) impregnated with conducting media. However, no clear study has compared their priority factors, which need to be considered when designing proton-conductive MOFs. Herein, we demonstrate the effects of void space and pore-surface modification on proton conduction in MOFs through the surface-modified isoreticular MOF-74(Ni) series [Ni2 (dobdc or dobpdc), dobdc=2,5-dihydroxy-1,4-benzenedicarboxylate and dobpdc=4,4'-dihydroxy-(1,1'-biphenyl)-3,3'-dicarboxylate]. The MOF with lower porosity with the same surface functionality showed higher proton conductivity than that with higher porosity despite including a smaller amount of conducting medium. Density functional theory calculations suggest that strong hydrogen bonding between molecules of the conducting medium at high porosity is inefficient in inducing high proton conductivity.
Collapse
Affiliation(s)
- Marvin K Sarango-Ramírez
- Division of Chemistry, Graduate School of Science, Kyoto University, Kitashirakawa-Oiwakecho, Sakyo-ku, Kyoto 606-8502, Japan
| | - Junkil Park
- Department of Chemical and Biomolecular Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, South Korea
| | - Jihan Kim
- Department of Chemical and Biomolecular Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, South Korea
| | - Yukihiro Yoshida
- Division of Chemistry, Graduate School of Science, Kyoto University, Kitashirakawa-Oiwakecho, Sakyo-ku, Kyoto 606-8502, Japan
| | - Dae-Woon Lim
- Department of Chemistry and Medical Chemistry, College of Science and Technology, Yonsei University, 1 Yonseidae-gil, Wonju, Gangwon-do, 26493, Republic of Korea
| | - Hiroshi Kitagawa
- Division of Chemistry, Graduate School of Science, Kyoto University, Kitashirakawa-Oiwakecho, Sakyo-ku, Kyoto 606-8502, Japan
| |
Collapse
|
7
|
Sarango‐Ramírez MK, Park J, Kim J, Yoshida Y, Lim D, Kitagawa H. Void Space versus Surface Functionalization for Proton Conduction in Metal–Organic Frameworks. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202106181] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Marvin K. Sarango‐Ramírez
- Division of Chemistry Graduate School of Science Kyoto University Kitashirakawa-Oiwakecho, Sakyo-ku Kyoto 606-8502 Japan
| | - Junkil Park
- Department of Chemical and Biomolecular Engineering Korea Advanced Institute of Science and Technology (KAIST) Daejeon 34141 South Korea
| | - Jihan Kim
- Department of Chemical and Biomolecular Engineering Korea Advanced Institute of Science and Technology (KAIST) Daejeon 34141 South Korea
| | - Yukihiro Yoshida
- Division of Chemistry Graduate School of Science Kyoto University Kitashirakawa-Oiwakecho, Sakyo-ku Kyoto 606-8502 Japan
| | - Dae‐Woon Lim
- Department of Chemistry and Medical Chemistry College of Science and Technology Yonsei University 1 Yonseidae-gil Wonju Gangwon-do 26493 Republic of Korea
| | - Hiroshi Kitagawa
- Division of Chemistry Graduate School of Science Kyoto University Kitashirakawa-Oiwakecho, Sakyo-ku Kyoto 606-8502 Japan
| |
Collapse
|
8
|
Stasiulewicz M, Panuszko A, Śmiechowski M, Bruździak P, Maszota P, Stangret J. Effect of urea and glycine betaine on the hydration sphere of model molecules for the surface features of proteins. J Mol Liq 2021. [DOI: 10.1016/j.molliq.2020.115090] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
|
9
|
Shiraga K, Urabe M, Matsui T, Kikuchi S, Ogawa Y. Highly precise characterization of the hydration state upon thermal denaturation of human serum albumin using a 65 GHz dielectric sensor. Phys Chem Chem Phys 2020; 22:19468-19479. [PMID: 32761010 DOI: 10.1039/d0cp02265a] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
The biological functions of proteins depend on harmonization with hydration water surrounding them. Indeed, the dynamical transition of proteins, such as thermal denaturation, is dependent on the changes in the mobility of hydration water. However, the role of hydration water during dynamical transition is yet to be fully understood due to technical limitations in precisely characterizing the amount of hydration water. A state-of-the-art CMOS dielectric sensor consisting of 65 GHz LC resonators addressed this issue by utilizing the feature that oscillation frequency sensitively shifts in response to the complex dielectric constant at 65 GHz with extremely high precision. This study aimed to establish an analytical algorithm to derive the hydration number from the measured frequency shift and to demonstrate the transition of hydration number upon the thermal denaturation of human serum albumin. The determined hydration number in the native state drew a "global" hydration picture beyond the first solvation shell, with substantially reduced uncertainty of the hydration number (about ±1%). This allowed the detection of a rapid increase in the hydration number at about 55 °C during the heating process, which was in excellent phase with the irreversible rupture of the α-helical structure into solvent-exposed extended chains, whereas the hydration number did not trace the forward path in the subsequent cooling process. Our result indicates that the weakening of water hydrogen bonds trigger the unfolding of the protein structure first, followed by the changes in the number of hydration water as a consequence of thermal denaturation.
Collapse
Affiliation(s)
- Keiichiro Shiraga
- RIKEN Center for Integrative Medical Sciences (IMS), Tsurumi, Yokohama, Kanagawa 230-0045, Japan.
| | | | | | | | | |
Collapse
|
10
|
Vondracek H, Alfarano S, Hoberg C, Kolling I, Novelli F, Sebastiani F, Brubach JB, Roy P, Schwaab G, Havenith M. Urea's match in the hydrogen-bond network? A high pressure THz study. Biophys Chem 2019; 254:106240. [PMID: 31442764 DOI: 10.1016/j.bpc.2019.106240] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/03/2019] [Revised: 07/14/2019] [Accepted: 07/27/2019] [Indexed: 11/28/2022]
Abstract
We present results of the measurement of the low frequency spectrum of solvated urea. The study revealed a blue shift of the intramolecular mode of urea centered at 150 cm-1 of Δν= 17 cm-1 upon increasing the pressure up to 10 kbar. The blue shift scaled linearly with the increase in density and was attributed to a stiffening of the water-urea intermolecular potential. We deduced an increase in the number of affected water molecules from 1 to 2 up to 5-7, which corresponds to the sterical coordination number of urea. The increase in hydration number can be explained by an suppression of the NH2 inversion and the hydrogen bond switching around the NH2 group. Pressure induced sterical constraints are proposed to hinder the rapid switching of hydrogen bond partners and make the water around urea less bulk-like than under ambient conditions.
Collapse
Affiliation(s)
- Hendrik Vondracek
- Ruhr-Universität Bochum, LS Physikalische Chemie II, Universitätsstraße 150, 44801 Bochum, Germany
| | - Serena Alfarano
- Ruhr-Universität Bochum, LS Physikalische Chemie II, Universitätsstraße 150, 44801 Bochum, Germany
| | - Claudius Hoberg
- Ruhr-Universität Bochum, LS Physikalische Chemie II, Universitätsstraße 150, 44801 Bochum, Germany
| | - Inga Kolling
- Ruhr-Universität Bochum, LS Physikalische Chemie II, Universitätsstraße 150, 44801 Bochum, Germany
| | - Fabio Novelli
- Ruhr-Universität Bochum, LS Physikalische Chemie II, Universitätsstraße 150, 44801 Bochum, Germany
| | - Federico Sebastiani
- Ruhr-Universität Bochum, LS Physikalische Chemie II, Universitätsstraße 150, 44801 Bochum, Germany
| | - Jean-Blaise Brubach
- Ligne AILES - Synchrotron SOLEIL, L'Orme des Merisiers, F-91192 Gif-sur-Yvette, France
| | - Pascale Roy
- Ligne AILES - Synchrotron SOLEIL, L'Orme des Merisiers, F-91192 Gif-sur-Yvette, France
| | - Gerhard Schwaab
- Ruhr-Universität Bochum, LS Physikalische Chemie II, Universitätsstraße 150, 44801 Bochum, Germany
| | - Martina Havenith
- Ruhr-Universität Bochum, LS Physikalische Chemie II, Universitätsstraße 150, 44801 Bochum, Germany.
| |
Collapse
|
11
|
Shiraga K, Tanaka K, Arikawa T, Saito S, Ogawa Y. Reconsideration of the relaxational and vibrational line shapes of liquid water based on ultrabroadband dielectric spectroscopy. Phys Chem Chem Phys 2018; 20:26200-26209. [PMID: 30318523 DOI: 10.1039/c8cp04778b] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
The Debye relaxation function is widely used to describe the large dielectric dispersion of ambient water around 20 GHz. However, from a theoretical point of view, this function is supposed to give incorrect predictions at high frequencies owing to the inappropriate assumption that inertial effects and intermolecular interactions do not affect the relaxation dynamics. Our ultrabroadband spectroscopy investigation of liquid water ranging from 500 MHz to 400 THz did demonstrate that the Debye function is inaccurate far above the microwave region. As an alternative, we tried a stochastic frequency modulation (SFM) model assuming instantaneous modification of the line shapes by the correlation with the surrounding system. The SFM relaxation model reproduced the experimental dielectric spectra up to 400 THz, showing that the hydrogen-bond dynamics are associated with the inertial effect that causes the non-exponential relaxation behaviour in a very short time (typically 25 fs). Within the framework of this relaxation model, the hindered translation modes are able to be approximated as fast modulation (homogeneous) line shapes because the interaction time with frequency modulation is too short. Compared with them, the libation mode is found to have a relatively slow modulation (inhomogeneous) origin, where disturbance of water hydrogen bonds induced by the hindered translations leads to fluctuations in the libration frequency.
Collapse
Affiliation(s)
- Keiichiro Shiraga
- RIKEN Center for Integrative Medical Sciences, Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa 230-0045, Japan.
| | - Koichiro Tanaka
- Department of Physics, Graduate School of Science, Kyoto University, Kitashirakawa-oiwakecho, Sakyo-ku, Kyoto 606-8502, Japan. and Institute for Integrated Cell-Material Sciences (iCeMS), Kyoto University, Sakyo-ku, Kyoto 606-8501, Japan
| | - Takashi Arikawa
- Department of Physics, Graduate School of Science, Kyoto University, Kitashirakawa-oiwakecho, Sakyo-ku, Kyoto 606-8502, Japan.
| | - Shinji Saito
- Department of Theoretical and Computational Molecular Science, Institute for Molecular Science, Myodaiji, Okazaki, Aichi 444-8585, Japan. and The Graduate University for Advanced Studies, Myodaiji, Okazaki, Aichi 444-8585, Japan
| | - Yuichi Ogawa
- Graduate School of Agriculture, Kyoto University, Kitashirakawa-oiwakecho, Sakyo-ku, Kyoto 606-8502, Japan.
| |
Collapse
|
12
|
Agieienko V, Hölzl C, Horinek D, Buchner R. The Interplay of Methyl-Group Distribution and Hydration Pattern of Isomeric Amphiphilic Osmolytes. J Phys Chem B 2018; 122:5972-5983. [DOI: 10.1021/acs.jpcb.8b01699] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Vira Agieienko
- A. M. Butlerov Institute of Chemistry, Kazan Federal University, 420008 Kazan, Russia
| | - Christoph Hölzl
- Institut für Physikalische und Theoretische Chemie, Universität Regensburg, D-93040 Regensburg, Germany
| | - Dominik Horinek
- Institut für Physikalische und Theoretische Chemie, Universität Regensburg, D-93040 Regensburg, Germany
| | - Richard Buchner
- Institut für Physikalische und Theoretische Chemie, Universität Regensburg, D-93040 Regensburg, Germany
| |
Collapse
|