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Mostafa HIA. Uniaxial Symmetry Breaking in Bacteriorhodopsin at the Thermal Phase Transition of Lipids of Purple Membranes. J Phys Chem B 2024; 128:5397-5406. [PMID: 38776161 DOI: 10.1021/acs.jpcb.4c01517] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/24/2024]
Abstract
The article correlates between symmetry breaking and phase transition. An analogy, extending from physics to biology, is known to exist between these two topics. Bacteriorhodopsin (bR) as a paradigm of membrane proteins has been used as a case study in the present work. The bR, as the sole protein embedded in what is called a purple membrane (PM), has attracted widespread interest in bionanotechnological applications. The lipids of PM have a crucial role in maintaining the crystal lattice of bR inside PM. For this reason, the present work has been concerned with elucidating the thermal phase transition properties of the PM lipids in orthogonal directions. The results indicated that the axial symmetry of bR exhibits considerable changes occurring at the thermal phase transition of lipids. These changes are brought by an anomaly observed in the time course of orthogonal electric responses during the application of thermal fields on PM. The observed anomaly may bear on symmetry breaking in bR occurring at the phase transition of lipids based on such analogy found between symmetry breaking and phase transition. Lipid-protein interactions may underlie the broken axial symmetry of bR at such lipid thermal transition of PM. Accordingly, thermally perturbed axial symmetry of bR may be of biological relevance relying on the essence of the crystal lattice of bR. Most importantly, a question has to be raised in the present study: Can bR, as a helical protein with broken axial symmetry, affect the symmetry breaking of helical light? This may be of potential technical applications based on a recent discovery that bR breaks the symmetry of helical light.
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Affiliation(s)
- Hamdy I A Mostafa
- Department of Biophysics, Faculty of Science, Cairo University, 12613 Giza, Egypt
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2
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Umegawa Y, Kato S, Seo S, Shinoda W, Kawatake S, Matsuoka S, Murata M. Protein-lipid acyl chain interactions: Depth-dependent changes of segmental mobility of phospholipid in contact with bacteriorhodopsin. Biophys Chem 2024; 308:107204. [PMID: 38412762 DOI: 10.1016/j.bpc.2024.107204] [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: 12/02/2023] [Revised: 01/31/2024] [Accepted: 02/20/2024] [Indexed: 02/29/2024]
Abstract
Boundary lipids surrounding membrane proteins play an essential role in protein function and structure. These protein-lipid interactions are mainly divided into electrostatic interactions between the polar amino acids of proteins and polar heads of phospholipids, and hydrophobic interactions between protein transmembrane sites and phospholipid acyl chains. Our previous report (Kawatake et al., Biochim. Biophys. Acta 1858 [2016] 2106-2115) covered a method for selectively analyzing boundary lipid interactions and showed differences in membrane protein-peripheral lipid interactions due to differences in their head group. Interactions in the hydrophobic acyl chains of phospholipids are relatively consistent among proteins, but the details of these interactions have not been elucidated. In this study, we reconstituted bacteriorhodopsin as a model protein into phospholipid membranes labeled with 2H and 13C for solid-state NMR measurement to investigate the depth-dependent effect of the head group structure on the lipid bilayer. The results showed that the position of the phospholipid near the carbonyl carbon was affected by the head group in terms of selectivity for protein surfaces, whereas in the deep interior of the bilayer near the leaflet interface, there was little difference between the head groups, indicating that the dependence of their interactions on the head group was much reduced.
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Affiliation(s)
- Yuichi Umegawa
- JST-ERATO, Lipid Active Structure Project, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan; Department of Chemistry, Graduate School of Science, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan; Forefront Research Center, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan.
| | - Sho Kato
- JST-ERATO, Lipid Active Structure Project, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan; Department of Chemistry, Graduate School of Science, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan
| | - Sangjae Seo
- Department of Materials Chemistry, Nagoya University, Furo-cho, Chikusa-ku, Nagoya 464-8603, Japan; Division of Supercomputing, Korea Institute of Science and Technology Information, 245 Daehak-ro, Yuseong-gu, Daejeon 34141, South Korea
| | - Wataru Shinoda
- Department of Materials Chemistry, Nagoya University, Furo-cho, Chikusa-ku, Nagoya 464-8603, Japan; Research Institute for Interdisciplinary Science, Okayama University, 3-1-1, Tsushima-naka, Okayama 700-8530, Japan
| | - Satoshi Kawatake
- JST-ERATO, Lipid Active Structure Project, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan; Department of Chemistry, Graduate School of Science, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan; Forefront Research Center, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan
| | - Shigeru Matsuoka
- JST-ERATO, Lipid Active Structure Project, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan; Department of Chemistry, Graduate School of Science, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan; Forefront Research Center, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan
| | - Michio Murata
- JST-ERATO, Lipid Active Structure Project, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan; Department of Chemistry, Graduate School of Science, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan
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Mostafa HIA. Detection of bacteriorhodopsin trimeric rotation at thermal phase transitions of purple membrane in suspension. Biophys Chem 2023; 300:107074. [PMID: 37421867 DOI: 10.1016/j.bpc.2023.107074] [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: 04/20/2023] [Revised: 06/24/2023] [Accepted: 07/02/2023] [Indexed: 07/10/2023]
Abstract
Bacteriorhodopsin (bR) of purple membrane (PM) is a retinal protein that forms aggregates in the form of trimers constituting, together with archaeal lipids, the crystalline structure of PM. The rotary motion of bR inside PM may be pertinent in understanding the essence of the crystalline lattice. An attempt has been made to determine the rotation of bR trimers which has been found to be detected solely at thermal phase transitions of PM, namely lipid, crystalline lattice and protein melting phase transitions. The temperature dependences of dielectric versus electronic absorption spectra of bR have been determined. The results suggest that the rotation of bR trimers, together with concomitant bending of PM, are most likely brought by structural changes in bR which might be driven by retinal isomerization and mediated by lipid. The rupturing of the lipid-protein contact might consequently lead to rotation of trimers associated with bending, curling or vesicle formation of PM. So the retinal reorientation may underlie the concomitant rotation of trimers. Most importantly, rotation of trimers might play a role, in terms of the essence of the crystalline lattice, in the functional activity of bR and may serve physiological relevance.
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Affiliation(s)
- Hamdy I A Mostafa
- Department of Biophysics, Faculty of Science, Cairo University, 11757 Giza, Egypt.
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Zhang S, Gong X, Wei Q, Lv J, Du E, Wang J, Ji W, Li JL. Rationally Designed Enzyme-Resistant Peptidic Assemblies for Plasma Membrane Targeting in Cancer Treatment. Adv Healthc Mater 2023; 12:e2301730. [PMID: 37400071 DOI: 10.1002/adhm.202301730] [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: 05/31/2023] [Accepted: 06/30/2023] [Indexed: 07/05/2023]
Abstract
Peptides are being increasingly important for subcellular targeted cancer treatment to improve specificity and reverse multidrug resistance. However, there has been yet any report on targeting plasma membrane (PM) through self-assembling peptides. A simple synthetic peptidic molecule (tF4) is developed. It is revealed that tF4 is carboxyl esterase-resistant and self-assembles into vesical nanostructures. Importantly, tF4 assemblies interact with PM through orthogonal hydrogen bonding and hydrophobic interaction to regulate cancer cellular functions. Mechanistically, tF4 assemblies induce stress fiber formation, cytoskeleton reconstruction, and death receptor 4/5 (DR4/5) expression in cancer cells. DR4/5 triggers extrinsic caspase-8 signaling cascade, resulting in cell death. The results provide a new strategy for developing enzyme-resistant and PM-targeting peptidic molecules against cancer.
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Affiliation(s)
- Shijin Zhang
- National Engineering Research Centre of Ophthalmology and Optometry, School of Biomedical Engineering, Eye Hospital, Wenzhou Medical University, Wenzhou, 325027, China
| | - Xuewen Gong
- National Engineering Research Centre of Ophthalmology and Optometry, School of Biomedical Engineering, Eye Hospital, Wenzhou Medical University, Wenzhou, 325027, China
| | - Qinchuan Wei
- National Engineering Research Centre of Ophthalmology and Optometry, School of Biomedical Engineering, Eye Hospital, Wenzhou Medical University, Wenzhou, 325027, China
| | - Jiarong Lv
- National Engineering Research Centre of Ophthalmology and Optometry, School of Biomedical Engineering, Eye Hospital, Wenzhou Medical University, Wenzhou, 325027, China
| | - Enming Du
- Henan Eye Institute, Henan Eye Hospital, People's Hospital of Zhengzhou University, Henan University School of Medicine, Henan Provincial People's Hospital, Zhengzhou, Henan, 450003, China
| | - Jiaqing Wang
- National Engineering Research Centre of Ophthalmology and Optometry, School of Biomedical Engineering, Eye Hospital, Wenzhou Medical University, Wenzhou, 325027, China
| | - Wei Ji
- Key Laboratory of Biorheological Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University, Chongqing, 400044, China
| | - Ji-Liang Li
- National Engineering Research Centre of Ophthalmology and Optometry, School of Biomedical Engineering, Eye Hospital, Wenzhou Medical University, Wenzhou, 325027, China
- Wenzhou Institute, University of Chinese Academy of Sciences, 1 Jinlian Road, Wenzhou, 325000, China
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Umegawa Y, Kawatake S, Murata M, Matsuoka S. Combined effect of the head groups and alkyl chains of archaea lipids when interacting with bacteriorhodopsin. Biophys Chem 2023; 294:106959. [PMID: 36709544 DOI: 10.1016/j.bpc.2023.106959] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2022] [Revised: 01/12/2023] [Accepted: 01/16/2023] [Indexed: 01/21/2023]
Abstract
Bacteriorhodopsin (bR), a transmembrane protein with seven α-helices, is highly expressed in the purple membrane (PM) of archaea such as Halobacterium salinarum. It is well known that bR forms two-dimensional crystals with acidic lipids such as phosphatidylglycerol phosphate methyl ester (PGP-Me)-a major component of PM lipids bearing unique chemical structures-methyl-branched alkyl chains, ether linkages, and divalent anionic head groups with two phosphodiester groups. Therefore, we aimed to determine which functional groups of PGP-Me are essential for the boundary lipids of bR and how these functionalities interact with bR. To this end, we compared various well-known phospholipids (PLs) that carry one of the structural features of PGP-Me, and evaluated the affinity of PLs to bR using the centerband-only analysis of rotor-unsynchronized spin echo (COARSE) method in solid-state NMR measurements and thermal shift assays. The results clearly showed that the branched methyl groups of alkyl chains and double negative charges in the head groups are important for PL interactions with bR. We then examined the effect of phospholipids on the monomer-trimer exchange of bR using circular dichroism (CD) spectra. The results indicated that the divalent negative charge in a head group stabilizes the trimer structure, while the branched methyl chains significantly enhance the PLs' affinity for bR, thus dispersing bR trimers in the PM even at high concentrations. Finally, we investigated the effects of PL on the proton-pumping activity of bR based on the decay rate constant of the M intermediate of a bR photocycle. The findings showed that bR activities decreased to 20% in 1,2-dimyristoyl-sn-glycero-3-phosphate (DMPA), and in 1,2-diphytanoyl-sn-glycero-3-phosphocholine (DPhPC) bilayers as compared to that in PM. Meanwhile, 1,2-Diphytanoyl-sn-glycero-3-phosphate (DPhPA) bilayers bearing both negative charges and branched methyl groups preserved over 80% of the activity. These results strongly suggest that the head groups and alkyl chains of phospholipids are essential for boundary lipids and greatly influence the biological function of bR.
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Affiliation(s)
- Yuichi Umegawa
- JST ERATO, Lipid Active Structure Project, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan; Department of Chemistry, Graduate School of Science, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan; Forefront Research Center, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan.
| | - Satoshi Kawatake
- JST ERATO, Lipid Active Structure Project, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan; Department of Chemistry, Graduate School of Science, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan; Forefront Research Center, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan
| | - Michio Murata
- JST ERATO, Lipid Active Structure Project, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan; Department of Chemistry, Graduate School of Science, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan
| | - Shigeru Matsuoka
- JST ERATO, Lipid Active Structure Project, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan; Department of Chemistry, Graduate School of Science, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan; Forefront Research Center, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan
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Hashimoto M, Murai Y, Morita K, Kikukawa T, Takagi T, Takahashi H, Yokoyama Y, Amii H, Sonoyama M. Comparison of functionality and structural stability of bacteriorhodopsin reconstituted in partially fluorinated dimyristoylphosphatidylcholine liposomes with different perfluoroalkyl chain lengths. BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES 2021; 1863:183686. [PMID: 34175295 DOI: 10.1016/j.bbamem.2021.183686] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Subscribe] [Scholar Register] [Received: 04/21/2021] [Revised: 06/15/2021] [Accepted: 06/17/2021] [Indexed: 11/19/2022]
Abstract
Amphiphilic molecules with one or more perfluoroalkyl groups (Rf, CnF2n+1), which show peculiar interfacial properties, are attracting much attention in membrane protein science. We recently have developed a partially fluorinated dimyristoylphosphatidylcholine (DMPC) with a perfluorobutyl group in the hydrophobic chain terminal (F4-DMPC) and demonstrated that F4-DMPC is a promising material for incorporating membrane proteins. Moreover, we have found out that membrane properties of a series of partially fluorinated DMPCs with different Rf chain lengths (Fn-DMPCs) vary in a significant Rf chain length-dependent manner. In the present study, structural and functional properties of a membrane protein bacteriorhodopsin (bR) in the Fn-DMPC (n = 4, 6, and 8) membranes (bR/Fn-DMPC) are investigated using several physicochemical techniques. Regardless of the Rf chain lengths, bR/Fn-DMPCs retain native-like structural and functional properties at 30 °C, unlike bR molecules in DMPC vesicles. In particular, bR/F6-DMPC, which is in the fluid phase at 30 °C, shows flash-induced transient absorption changes very similar to the native purple membrane (PM) and very high thermal stability of bR trimers comparable to the PM. Structural and functional properties of bR/Fn-DMPCs are discussed compared to the PM and bR/DMPC.
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Affiliation(s)
- Mami Hashimoto
- Division of Molecular Science, Faculty of Science and Technology, Gunma University, Kiryu, Gunma 376-8515, Japan
| | - Yuka Murai
- Division of Molecular Science, Faculty of Science and Technology, Gunma University, Kiryu, Gunma 376-8515, Japan
| | - Kohei Morita
- Division of Molecular Science, Faculty of Science and Technology, Gunma University, Kiryu, Gunma 376-8515, Japan
| | - Takashi Kikukawa
- Department of Functional Life Science, Faculty of Advanced Life Science, Hokkaido University, Sapporo 060-0810, Japan
| | - Toshiyuki Takagi
- Cellular and Molecular Biotechnology Research Institute, AIST, Tsukuba, Ibaraki 305-8565, Japan.
| | - Hiroshi Takahashi
- Division of Pure and Applied Science, Faculty of Science and Technology, Gunma University, Maebashi, Gunma 371-8510, Japan.
| | - Yasunori Yokoyama
- Department of Applied Physics, Graduate School of Engineering, Nagoya University, Nagoya 464-8603, Japan
| | - Hideki Amii
- Division of Molecular Science, Faculty of Science and Technology, Gunma University, Kiryu, Gunma 376-8515, Japan; Gunma University Initiative for Advanced Research (GIAR), Kiryu, Gunma 376-8515, Japan
| | - Masashi Sonoyama
- Division of Molecular Science, Faculty of Science and Technology, Gunma University, Kiryu, Gunma 376-8515, Japan; Gunma University Initiative for Advanced Research (GIAR), Kiryu, Gunma 376-8515, Japan; Gunma University Center for Food Science and Wellness (GUCFW), Gunma University, Kiryu, Gunma 376-8515, Japan.
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Suda K, Suematsu A, Akiyama R. Lateral depletion effect on two-dimensional ordering of bacteriorhodopsins in a lipid bilayer: A theoretical study based on a binary hard-disk model. J Chem Phys 2021; 154:204904. [PMID: 34241177 DOI: 10.1063/5.0044399] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The 2D ordering of bacteriorhodopsins in a lipid bilayer was studied using a binary hard-disk model. The phase diagrams were calculated taking into account the lateral depletion effects. The critical concentrations of the protein ordering for monomers and trimers were obtained from the phase diagrams. The critical concentration ratio agreed well with the experiment when the repulsive core interaction between the depletants, namely, lipids, was taken into account. The results suggest that the depletion effect plays an important role in the association behaviors of transmembrane proteins.
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Affiliation(s)
- Keiju Suda
- Department of Chemistry, Graduate School of Science, Kyushu University, Fukuoka 819-0395, Japan
| | - Ayumi Suematsu
- Faculty of Science and Engineering, Kyushu Sangyo University, Fukuoka 813-8503, Japan
| | - Ryo Akiyama
- Department of Chemistry, Graduate School of Science, Kyushu University, Fukuoka 819-0395, Japan
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Inada M, Kinoshita M, Matsumori N. Archaeal Glycolipid S-TGA-1 Is Crucial for Trimer Formation and Photocycle Activity of Bacteriorhodopsin. ACS Chem Biol 2020; 15:197-204. [PMID: 31647217 DOI: 10.1021/acschembio.9b00756] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Although it has been demonstrated that membrane proteins (MPs) require lipids to ensure their structural and functional integrity, details on how lipid-MP interactions regulate MPs are still unclear. Recently, we developed a concise method for quantitatively evaluating lipid-MP interactions and applied it to bacteriorhodopsin (bR), a halobacterial MP that forms trimers and acts as a light-driven proton pump. Consequently, we found that the halobacterial glycolipid, S-TGA-1, has the highest affinity for bR, among other lipids. In this study, we examined the effects of S-TGA-1 on bR via visible circular dichroism spectroscopy, flash photolysis, and proton influx measurement. The results showed that S-TGA-1 efficiently promotes trimer formation, photocycle, and proton pumping in bR. Our data also suggested that the bR photocycle is restored as a consequence of the trimerization induced by the lipid. This study demonstrates clearly that lipids specifically interacting with MPs can have significant impacts on MP structure and/or function. The methodology adopted in our studies can be applied to other MPs and will help elucidate the physiological functions of lipids in terms of lipid-MP interactions, thus accelerating "lipid chemical biology" studies.
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Affiliation(s)
- Masataka Inada
- Department of Chemistry, Graduate School of Science, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka, 819-0395, Japan
| | - Masanao Kinoshita
- Department of Chemistry, Graduate School of Science, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka, 819-0395, Japan
| | - Nobuaki Matsumori
- Department of Chemistry, Graduate School of Science, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka, 819-0395, Japan
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Yamagami M, Tsuchikawa H, Cui J, Umegawa Y, Miyazaki Y, Seo S, Shinoda W, Murata M. Average Conformation of Branched Chain Lipid PGP-Me That Accounts for the Thermal Stability and High-Salinity Resistance of Archaeal Membranes. Biochemistry 2019; 58:3869-3879. [DOI: 10.1021/acs.biochem.9b00469] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Masaki Yamagami
- Department of Chemistry, Graduate School of Science, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan
- JST ERATO, Lipid Active Structure Project, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan
| | - Hiroshi Tsuchikawa
- Department of Chemistry, Graduate School of Science, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan
| | - Jin Cui
- Department of Chemistry, Graduate School of Science, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan
- JST ERATO, Lipid Active Structure Project, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan
| | - Yuichi Umegawa
- Department of Chemistry, Graduate School of Science, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan
- JST ERATO, Lipid Active Structure Project, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan
| | - Yusuke Miyazaki
- Department of Materials Chemistry, Graduate School of Engineering, Nagoya University, Nagoya 464-8603, Japan
| | - Sangjae Seo
- Department of Materials Chemistry, Graduate School of Engineering, Nagoya University, Nagoya 464-8603, Japan
| | - Wataru Shinoda
- Department of Materials Chemistry, Graduate School of Engineering, Nagoya University, Nagoya 464-8603, Japan
| | - Michio Murata
- Department of Chemistry, Graduate School of Science, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan
- JST ERATO, Lipid Active Structure Project, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan
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10
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Comparison of two different partially fluorinated phosphatidylcholines with the perfluorobutyl group on thermotropic properties of the bilayer membrane and reconstituted bacteriorhodopsin. Biophys Rev 2019; 11:395-398. [PMID: 31119603 DOI: 10.1007/s12551-019-00540-3] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2019] [Accepted: 04/26/2019] [Indexed: 01/28/2023] Open
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11
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Stability of the two-dimensional lattice of bacteriorhodopsin reconstituted in partially fluorinated phosphatidylcholine bilayers. BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES 2019; 1861:631-642. [DOI: 10.1016/j.bbamem.2018.12.015] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/27/2018] [Revised: 11/27/2018] [Accepted: 12/20/2018] [Indexed: 11/21/2022]
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12
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13
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Evaluation of diacylphospholipids as boundary lipids for bacteriorhodopsin from structural and functional aspects. BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES 2016; 1858:2106-2115. [DOI: 10.1016/j.bbamem.2016.06.006] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/22/2015] [Revised: 06/08/2016] [Accepted: 06/10/2016] [Indexed: 11/18/2022]
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Tuning the Photocycle Kinetics of Bacteriorhodopsin in Lipid Nanodiscs. Biophys J 2016; 109:1899-906. [PMID: 26536266 DOI: 10.1016/j.bpj.2015.09.012] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2015] [Revised: 08/19/2015] [Accepted: 09/11/2015] [Indexed: 11/22/2022] Open
Abstract
Monodisperse lipid nanodiscs are particularly suitable for characterizing membrane protein in near-native environment. To study the lipid-composition dependence of photocycle kinetics of bacteriorhodopsin (bR), transient absorption spectroscopy was utilized to monitor the evolution of the photocycle intermediates of bR reconstituted in nanodiscs composed of different ratios of the zwitterionic lipid (DMPC, dimyristoyl phosphatidylcholine; DOPC, dioleoyl phosphatidylcholine) to the negatively charged lipid (DOPG, dioleoyl phosphatidylglycerol; DMPG, dimyristoyl phosphatidylglycerol). The characterization of ion-exchange chromatography showed that the negative surface charge of nanodiscs increased as the content of DOPG or DMPG was increased. The steady-state absorption contours of the light-adapted monomeric bR in nanodiscs composed of different lipid ratios exhibited highly similar absorption features of the retinal moiety at 560 nm, referring to the conservation of the tertiary structure of bR in nanodiscs of different lipid compositions. In addition, transient absorption contours showed that the photocycle kinetics of bR was significantly retarded and the transient populations of intermediates N and O were decreased as the content of DMPG or DOPG was reduced. This observation could be attributed to the negatively charged lipid heads of DMPG and DOPG, exhibiting similar proton relay capability as the native phosphatidylglycerol (PG) analog lipids in the purple membrane. In this work, we not only demonstrated the usefulness of nanodiscs as a membrane-mimicking system, but also showed that the surrounding lipids play a crucial role in altering the biological functions, e.g., the ion translocation kinetics of the transmembrane proteins.
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Murata M, Sugiyama S, Matsuoka S, Matsumori N. Bioactive Structure of Membrane Lipids and Natural Products Elucidated by a Chemistry-Based Approach. CHEM REC 2015; 15:675-90. [DOI: 10.1002/tcr.201402097] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2014] [Indexed: 12/13/2022]
Affiliation(s)
- Michio Murata
- JST ERATO; Lipid Active Structure Project; Machikaneyama, Toyonaka Osaka 560-0043 Japan
- Department of Chemistry, Graduate School of Science; Osaka University; Machikaneyama, Toyonaka Osaka 563-0043 Japan
| | - Shigeru Sugiyama
- JST ERATO; Lipid Active Structure Project; Machikaneyama, Toyonaka Osaka 560-0043 Japan
- Department of Chemistry, Graduate School of Science; Osaka University; Machikaneyama, Toyonaka Osaka 563-0043 Japan
| | - Shigeru Matsuoka
- JST ERATO; Lipid Active Structure Project; Machikaneyama, Toyonaka Osaka 560-0043 Japan
- Department of Chemistry, Graduate School of Science; Osaka University; Machikaneyama, Toyonaka Osaka 563-0043 Japan
| | - Nobuaki Matsumori
- Department of Chemistry, Graduate School of Science; Osaka University; Machikaneyama, Toyonaka Osaka 563-0043 Japan
- Department of Chemistry, Faculty and Graduate School of Sciences; Kyushu University; 744 Motooka, Nishi-ku Fukuoka 819-0395 Japan
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16
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Yoshimoto M, Kozono R, Tsubomura N. Liposomes as chaperone mimics with controllable affinity toward heat-denatured formate dehydrogenase from Candida boidinii. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2015; 31:762-770. [PMID: 25513889 DOI: 10.1021/la504126b] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Chaperone machinery in living systems can catch denatured enzymes and induce their reactivation. Chaperone mimics are beneficial for applying enzymatic reactions in vitro. In this work, the affinity between liposomes and thermally denatured enzymes was controlled to stabilize the enzyme activity. The model enzyme is formate dehydrogenase from Candida boidinii (CbFDH) which is a homodimer and negatively charged in the phosphate buffer solution (pH 7.2) used. The activity of free CbFDH readily decreased at 58 °C following the first-order kinetics with the half-life t1/2 of 27 min. The turbidity measurements showed that the denatured enzyme molecules formed aggregates. The liposomes composed of zwitterionic phosphatidylcholines (PCs) stabilized the CbFDH activity at 58 °C, as revealed with six different PCs. The PC liposomes were indicated to bind to the aggregate-prone enzyme molecules, allowing reactivation at 25 °C. The cofactor β-reduced nicotinamide adenine dinucleotide (NADH) also stabilized the enzyme activity. The affinity between liposomes and denatured CbFDH could be modulated by incorporating cationic 1,2-dioleoyloxy-3-trimethylammonium propane chloride (DOTAP) in PC membranes. The t1/2 values significantly increased in the presence of liposomes ([lipid] = 1.5 mM) composed of PC and DOTAP at the mole fraction f(D) of 0.1. On the other hand, the DOTAP-rich liposomes (f(D) ≥ 0.7) showed strong affinity toward denatured CbFDH, accelerating its deactivation. The liposomes with low charge density function as chaperone mimics that can efficiently catch the denatured enzymes without interfering with their intramolecular interaction for reactivation.
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Affiliation(s)
- Makoto Yoshimoto
- Department of Applied Molecular Bioscience, Yamaguchi University , 2-16-1 Tokiwadai, Ube 755-8611, Japan
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17
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Yokoyama Y, Yamada K, Higashi Y, Ozaki S, Wang H, Koito N, Watanabe N, Sonoyama M, Mitaku S. Dependence of Purple Membrane Bump Curvature on pH and Ionic Strength Analyzed Using Atomic Force Microscopy Combined with Solvent Exchange. J Phys Chem B 2014; 118:9322-8. [DOI: 10.1021/jp5036234] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Yasunori Yokoyama
- Department
of Applied Physics, Graduate School of Engineering, Nagoya University, Nagoya 464-8603, Japan
| | - Kosuke Yamada
- Department
of Applied Physics, Graduate School of Engineering, Nagoya University, Nagoya 464-8603, Japan
| | - Yosuke Higashi
- Department
of Applied Physics, Graduate School of Engineering, Nagoya University, Nagoya 464-8603, Japan
| | - Satoshi Ozaki
- Department
of Applied Physics, Graduate School of Engineering, Nagoya University, Nagoya 464-8603, Japan
| | - Haorang Wang
- Department
of Applied Physics, Graduate School of Engineering, Nagoya University, Nagoya 464-8603, Japan
| | - Naoki Koito
- Department
of Applied Physics, Graduate School of Engineering, Nagoya University, Nagoya 464-8603, Japan
| | | | - Masashi Sonoyama
- Department
of Applied Physics, Graduate School of Engineering, Nagoya University, Nagoya 464-8603, Japan
| | - Shigeki Mitaku
- Department
of Applied Physics, Graduate School of Engineering, Nagoya University, Nagoya 464-8603, Japan
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18
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Solubilization and Structural Stability of Bacteriorhodopsin with a Mild Nonionic Detergent,n-Octyl-β-thioglucoside. Biosci Biotechnol Biochem 2014; 75:376-8. [DOI: 10.1271/bbb.100726] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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19
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Yoshida K, Fujii Y, Nishio I. Deformation of Lipid Membranes Containing Photoresponsive Molecules in Response to Ultraviolet Light. J Phys Chem B 2014; 118:4115-21. [DOI: 10.1021/jp412710f] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Affiliation(s)
- Kazunari Yoshida
- Department of Physics and Mathematics, College of Science and Engineering, Aoyama Gakuin University, 5-10-1 Fuchinobe, Chuo-ku, Sagamihara, Kanagawa 252-5258, Japan
| | - Yasuhiro Fujii
- Department of Physics and Mathematics, College of Science and Engineering, Aoyama Gakuin University, 5-10-1 Fuchinobe, Chuo-ku, Sagamihara, Kanagawa 252-5258, Japan
| | - Izumi Nishio
- Department of Physics and Mathematics, College of Science and Engineering, Aoyama Gakuin University, 5-10-1 Fuchinobe, Chuo-ku, Sagamihara, Kanagawa 252-5258, Japan
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20
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Du H, Li D, Wang Y, Wang C, Zhang D, Yang YL, Wang C. Determination of the Surface Charge Density and Temperature Dependence of Purple Membrane by Electric Force Microscopy. J Phys Chem B 2013; 117:9895-9. [DOI: 10.1021/jp403075w] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Affiliation(s)
- Huiwen Du
- National Center for Nanoscience and Technology, Beijing 100190, People’s
Republic of China
- Department of Chemistry, Tsinghua University, Beijing 100084,
China
| | - Denghua Li
- National Center for Nanoscience and Technology, Beijing 100190, People’s
Republic of China
| | - Yibing Wang
- National Center for Nanoscience and Technology, Beijing 100190, People’s
Republic of China
| | - Chenxuan Wang
- National Center for Nanoscience and Technology, Beijing 100190, People’s
Republic of China
- Department of Chemistry, Tsinghua University, Beijing 100084,
China
| | - Dongdong Zhang
- National Center for Nanoscience and Technology, Beijing 100190, People’s
Republic of China
| | - Yan-lian Yang
- National Center for Nanoscience and Technology, Beijing 100190, People’s
Republic of China
| | - Chen Wang
- National Center for Nanoscience and Technology, Beijing 100190, People’s
Republic of China
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21
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Yoshino M, Kikukawa T, Takahashi H, Takagi T, Yokoyama Y, Amii H, Baba T, Kanamori T, Sonoyama M. Physicochemical Studies of Bacteriorhodopsin Reconstituted in Partially Fluorinated Phosphatidylcholine Bilayers. J Phys Chem B 2013; 117:5422-9. [DOI: 10.1021/jp311665z] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Masaru Yoshino
- Department of Chemistry and
Chemical Biology, Graduate School of Engineering, Gunma University, Kiryu 376-8515, Japan
| | - Takashi Kikukawa
- Faculty of Advanced Life Science, Hokkaido University, Sapporo 060-0810, Japan
| | - Hiroshi Takahashi
- Department of Chemistry and Chemical
Biology, Graduate School of Engineering, Gunma University, Maebashi 371-8510, Japan
| | - Toshiyuki Takagi
- Research Center for Stem Cell
Engineering, National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba 305-8565, Japan
| | - Yasunori Yokoyama
- Department of Applied Physics,
Graduate School of Engineering, Nagoya University, Nagoya 464-8603, Japan
| | - Hideki Amii
- Department of Chemistry and
Chemical Biology, Graduate School of Engineering, Gunma University, Kiryu 376-8515, Japan
| | - Teruhiko Baba
- Research Center for Stem Cell
Engineering, National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba 305-8565, Japan
| | - Toshiyuki Kanamori
- Research Center for Stem Cell
Engineering, National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba 305-8565, Japan
| | - Masashi Sonoyama
- Department of Chemistry and
Chemical Biology, Graduate School of Engineering, Gunma University, Kiryu 376-8515, Japan
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22
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Yoshino M, Takahashi H, Takagi T, Baba T, Morita K, Amii H, Kanamori T, Sonoyama M. Effect of Partial Fluorination in the Myristoyl Groups on Thermal and Interfacial Properties of Dimyristoylphosphatidylcholine. CHEM LETT 2012. [DOI: 10.1246/cl.2012.1495] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Affiliation(s)
- Masaru Yoshino
- Department of Chemistry and Chemical Biology, Gunma University
| | | | - Toshiyuki Takagi
- Research Center for Stem Cell Engineering (SCRC), National Institute of Advanced Industrial Science and Technology (AIST)
| | - Teruhiko Baba
- Research Center for Stem Cell Engineering (SCRC), National Institute of Advanced Industrial Science and Technology (AIST)
| | - Kohei Morita
- Department of Chemistry and Chemical Biology, Gunma University
| | - Hideki Amii
- Department of Chemistry and Chemical Biology, Gunma University
| | - Toshiyuki Kanamori
- Research Center for Stem Cell Engineering (SCRC), National Institute of Advanced Industrial Science and Technology (AIST)
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23
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Rhinow D, Imhof M, Chizhik I, Baumann RP, Hampp N. Structural Changes in Bacteriorhodopsin Caused by Two-Photon-Induced Photobleaching. J Phys Chem B 2012; 116:7455-62. [DOI: 10.1021/jp2112846] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Daniel Rhinow
- Department of Structural
Biology, Max-Planck-Institute of Biophysics, Max-von-Laue-Str. 3, D-60438 Frankfurt, Germany
| | - Martin Imhof
- Department of Chemistry, Philipps-University of Marburg, Hans-Meerwein-Str. Bldg. H, D-35032 Marburg,
Germany
| | - Ivan Chizhik
- Department of Chemistry, Philipps-University of Marburg, Hans-Meerwein-Str. Bldg. H, D-35032 Marburg,
Germany
| | - Roelf-Peter Baumann
- Department of Chemistry, Philipps-University of Marburg, Hans-Meerwein-Str. Bldg. H, D-35032 Marburg,
Germany
| | - Norbert Hampp
- Department of Chemistry, Philipps-University of Marburg, Hans-Meerwein-Str. Bldg. H, D-35032 Marburg,
Germany
- Material Sciences Center, D-35032 Marburg, Germany
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24
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Negishi L, Mitaku S. Electrostatic effects influence the formation of two-dimensional crystals of bacteriorhodopsin reconstituted into dimyristoylphosphatidylcholine membranes. J Biochem 2011; 150:113-9. [DOI: 10.1093/jb/mvr043] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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