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Sawato T, Yamaguchi M. Synthetic Chemical Systems Involving Self‐Catalytic Reactions of Helicene Oligomer Foldamers. Chempluschem 2020; 85:2017-2038. [DOI: 10.1002/cplu.202000489] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2020] [Revised: 08/18/2020] [Indexed: 12/15/2022]
Affiliation(s)
- Tsukasa Sawato
- Department of Organic Chemistry Graduate School of Pharmaceutical Sciences Tohoku University Aoba Sendai 980-8578 Japan
| | - Masahiko Yamaguchi
- State Key Laboratory of Fine Chemicals Dalian University of Technology Dalian 116024 China
- Department of Organic Chemistry Graduate School of Pharmaceutical Sciences Tohoku University Aoba Sendai 980-8578 Japan
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Sawato T, Yamaguchi M. Sequential self‐catalytic reactions in the formation of hetero‐double‐helix and their self‐assembled gels by pseudoenantiomer mixtures of ethynylhelicene oligomers. Chirality 2020; 32:824-832. [DOI: 10.1002/chir.23224] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2019] [Revised: 03/14/2020] [Accepted: 03/20/2020] [Indexed: 12/19/2022]
Affiliation(s)
- Tsukasa Sawato
- Department of Organic Chemistry, Graduate School of Pharmaceutical SciencesTohoku University Sendai Japan
| | - Masahiko Yamaguchi
- Department of Organic Chemistry, Graduate School of Pharmaceutical SciencesTohoku University Sendai Japan
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3
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Abstract
One of the grand challenges in contemporary systems chemistry research is to mimic life-like functions using simple synthetic molecular networks. This is particularly true for systems that are out of chemical equilibrium and show complex dynamic behaviour, such as multi-stability, oscillations and chaos. We report here on thiodepsipeptide-based non-enzymatic networks propelled by reversible replication processes out of equilibrium, displaying bistability. Accordingly, we present quantitative analyses of the bistable behaviour, featuring a phase transition from the simple equilibration processes taking place in reversible dynamic chemistry into the bistable region. This behaviour is observed only when the system is continuously fueled by a reducing agent that keeps it far from equilibrium, and only when operating within a specifically defined parameter space. We propose that the development of biomimetic bistable systems will pave the way towards the study of more elaborate functions, such as information transfer and signalling.
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Yin Q, Zhou G, Peng C, Zhang Y, Kües U, Liu J, Xiao Y, Fang Z. The first fungal laccase with an alkaline pH optimum obtained by directed evolution and its application in indigo dye decolorization. AMB Express 2019; 9:151. [PMID: 31535295 PMCID: PMC6751238 DOI: 10.1186/s13568-019-0878-2] [Citation(s) in RCA: 46] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2019] [Accepted: 09/09/2019] [Indexed: 11/10/2022] Open
Abstract
Engineering of fungal laccases with optimum catalytic activity at alkaline pH has been a long-lasting challenge. In this study, a mutant library containing 3000 clones was obtained by error-prone PCR to adapt the optimum pH of a fungal laccase Lcc9 from the basidiomycete Coprinopsis cinerea. After three rounds of functional screening, a mutant with three amino acid changes (E116K, N229D, I393T) named PIE5 was selected. PIE5 showed an optimum pH of 8.5 and 8.0 against guaiacol and 2,6-DMP when expressed in Pichia pastoris, representing the first fungal laccase that possesses an optimum pH at an alkaline condition. Site directed mutagenesis disclosed that N229D contributed the most to the optimum pH increment. A single N229D mutation caused an increase in optimum pH by 1.5 units. When used in indigo dye decolorization, PIE5 efficiently decolorized 87.1 ± 1.1% and 90.9 ± 0.3% indigo dye at the optimum conditions of pH 7.0-7.5 and 60 °C, and with either methyl 3,5-dimethoxy-4-hydroxybenzoate or 2,2'-azino-bis(3-ethylbenzothazoline-6-sulfonate) as the mediator. In comparison, the commercially available fungal laccase TvLac from Trametes villosa decolorized 84.3 ± 1.8% of indigo dye under its optimum conditions (opt. pH 5.0 and 60 °C). The properties of an alkaline-dependent activity and the high indigo dye decolorization ability (1.3-fold better than the parental Lcc9) make the new fungal laccase PIE5 an alternative for specific industrial applications.
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Affiliation(s)
- Qiang Yin
- School of Life Sciences, Anhui University, Hefei, 230601, China
- Anhui Key Laboratory of Modern Biomanufacturing, Hefei, 230601, China
| | - Gang Zhou
- School of Life Sciences, Anhui University, Hefei, 230601, China
- Anhui Key Laboratory of Modern Biomanufacturing, Hefei, 230601, China
| | - Can Peng
- School of Life Sciences, Anhui University, Hefei, 230601, China
- Anhui Key Laboratory of Modern Biomanufacturing, Hefei, 230601, China
| | - Yinliang Zhang
- School of Life Sciences, Anhui University, Hefei, 230601, China
- Anhui Key Laboratory of Modern Biomanufacturing, Hefei, 230601, China
| | - Ursula Kües
- Molecular Wood Biotechnology and Technical Mycology, Büsgen-Institute, University of Goettingen, Büsgenweg 2, 37077, Göttingen, Germany
- Goettingen Center for Molecular Biosciences (GZMB), University of Goettingen, 37077, Göttingen, Germany
| | - Juanjuan Liu
- School of Life Sciences, Anhui University, Hefei, 230601, China
- Anhui Key Laboratory of Modern Biomanufacturing, Hefei, 230601, China
| | - Yazhong Xiao
- School of Life Sciences, Anhui University, Hefei, 230601, China.
- Anhui Key Laboratory of Modern Biomanufacturing, Hefei, 230601, China.
| | - Zemin Fang
- School of Life Sciences, Anhui University, Hefei, 230601, China.
- Anhui Key Laboratory of Modern Biomanufacturing, Hefei, 230601, China.
- Institute of Physical Science and Information Technology, Anhui University, Hefei, 230601, China.
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Sawato T, Saito N, Yamaguchi M. Chemical Systems Involving Two Competitive Self-Catalytic Reactions. ACS OMEGA 2019; 4:5879-5899. [PMID: 31459737 PMCID: PMC6648109 DOI: 10.1021/acsomega.9b00133] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/15/2019] [Accepted: 03/13/2019] [Indexed: 06/10/2023]
Abstract
Self-catalytic reactions are chemical phenomena, in which a product catalyzes the reactions of substrates further to yield products. A significant amplification of product concentration occurs during the reactions in a dilute solution, which exhibit notable properties such as sigmoidal kinetics, seeding effects, and thermal hysteresis. Chemical systems involving two competitive self-catalytic reactions can be considered, in which the competitive formation of two products occurs, which is affected by environmental changes, subtle perturbations, and fluctuations, and notable chemical phenomena appear such as formation of different structures in response to slow/fast temperature changes, chiral symmetry breaking, shortcut in reaction time, homogeneous-heterogeneous transitions, and mechanical responses. Studies on such chemical systems provide understanding on biological systems and can also be extended to the development of novel functional materials.
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Sawato T, Yagi A, Arisawa M, Yamaguchi M. Chemical braking exhibited by ethynylhelicene ( M )-nonamer in solution: Competitive reaction system of self-catalysis to form double-helix and approach towards equilibrium to form random-coil. Tetrahedron 2017. [DOI: 10.1016/j.tet.2017.03.083] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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Kushida Y, Saito N, Shigeno M, Yamaguchi M. Multiple competing pathways for chemical reaction: drastic reaction shortcut for the self-catalytic double-helix formation of helicene oligomers. Chem Sci 2017; 8:1414-1421. [PMID: 28451281 PMCID: PMC5390785 DOI: 10.1039/c6sc01893a] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2016] [Accepted: 10/13/2016] [Indexed: 12/16/2022] Open
Abstract
Competition among multiple pathways in a chemical reaction exhibits notable kinetic phenomena, particularly when amplification by self-catalysis is involved. A pseudoenantiomeric 1 : 1 mixture of an aminomethylene helicene (P)-tetramer and an (M)-pentamer formed enantiomeric hetero-double helices B and C in solution when random coil A was cooled. When a solution of A at 70 °C was directly cooled to 25 °C, the A-to-B reaction was predominant, then B was slowly converted to C over 60 h. The slow conversion in the A-to-B-to-C reaction was due to the formation of the hetero-double helix B, which was an off-pathway intermediate, and the slow B-to-C conversion. In contrast, when a solution of A at 70 °C was snap-cooled to -25 °C before then maintaining the solution at 25 °C, the A-to-C reaction predominated, and the formation of C was complete within 4 h. The reactions involve competition between the self-catalytic A-to-B and A-to-C pathways, where B and C catalyze the A-to-B and A-to-C reactions, respectively. Subtle differences in the initial states generated by thermal pretreatment were amplified by the self-catalytic process, which resulted in a drastic reaction shortcut.
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Affiliation(s)
- Yo Kushida
- Department of Organic Chemistry , Graduate School of Pharmaceutical Sciences , Tohoku University , Aoba , Sendai , 980-8578 , Japan .
| | - Nozomi Saito
- Department of Organic Chemistry , Graduate School of Pharmaceutical Sciences , Tohoku University , Aoba , Sendai , 980-8578 , Japan .
| | - Masanori Shigeno
- Department of Organic Chemistry , Graduate School of Pharmaceutical Sciences , Tohoku University , Aoba , Sendai , 980-8578 , Japan .
| | - Masahiko Yamaguchi
- Department of Organic Chemistry , Graduate School of Pharmaceutical Sciences , Tohoku University , Aoba , Sendai , 980-8578 , Japan .
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Shigeno M, Kushida Y, Yamaguchi M. Reversible Nonequilibrium-to-Equilibrium Chemical Reaction and Molecular Switching Function of Sulfonamidohelicene Oligomer. J SYN ORG CHEM JPN 2017. [DOI: 10.5059/yukigoseikyokaishi.75.228] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Affiliation(s)
| | | | - Masahiko Yamaguchi
- Department of Organic Chemistry, Graduate School of Pharmaceutical Sciences, Tohoku University
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Shigeno M, Kushida Y, Yamaguchi M. Molecular switching involving metastable states: molecular thermal hysteresis and sensing of environmental changes by chiral helicene oligomeric foldamers. Chem Commun (Camb) 2016; 52:4955-70. [PMID: 26974494 DOI: 10.1039/c5cc10379g] [Citation(s) in RCA: 47] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Molecular switching is a phenomenon in which the molecular structure reversibly changes in response to external stimulation. It is crucial in biology and is used in various biological sensing applications and responses. In contrast to the well-studied molecular switching involving two or more thermodynamically stable states, switching involving metastable states exhibits notable non-equilibrium thermodynamic properties. Synthetic chiral helicene oligomeric foldamers that exhibit molecular thermal hysteresis in dilute solution are examples. Molecular switching can be used for sensing environmental changes, including temperature threshold, temperature decrease/increase, rate of temperature decrease, counting the numbers 1 and 2, and concentration increase.
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Affiliation(s)
- Masanori Shigeno
- Department of Organic Chemistry, Graduate School of Pharmaceutical Sciences, Tohoku University, Aoba, Sendai, 980-8578, Japan.
| | - Yo Kushida
- Department of Organic Chemistry, Graduate School of Pharmaceutical Sciences, Tohoku University, Aoba, Sendai, 980-8578, Japan.
| | - Masahiko Yamaguchi
- Department of Organic Chemistry, Graduate School of Pharmaceutical Sciences, Tohoku University, Aoba, Sendai, 980-8578, Japan.
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Shigeno M. Nonequilibrium Molecular Switching of Chiral Helicene Oligomers in Double-Helix Formation. YAKUGAKU ZASSHI 2016; 136:1591-1600. [PMID: 27904093 DOI: 10.1248/yakushi.16-00203] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Molecular switching is the phenomenon in which a molecular structural change occurs reversibly in response to an external stimulus or energy. It plays an important role in biology, in which it is used for sensing environmental changes. In contrast to well-studied equilibrium molecular switching involving thermodynamically stable states, nonequilibrium molecular switching involving a metastable state is a notable chemical phenomenon and is the theme of this study. Sulfonamido- and aminomethylenehelicene oligomers show a reversible structural change from a double helix to a random coil in dilute solution. A metastable state consisting of random coils can be generated by heating, which shows various nonequilibrium thermodynamic properties. Molecular phenomena including molecular thermal hysteresis, molecular memory effect, and one-directional three-state molecular structural change occur, none of which is observed in an equilibrium molecular switching system. They can be applied to sensing environmental changes such as temperature increases/decreases, temperature change rates, and concentration increases, and for counting the numbers 1 and 2.
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Affiliation(s)
- Masanori Shigeno
- Department of Organic Chemistry, Graduate School of Pharmaceutical Sciences, Tohoku University
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Yamaguchi M, Arisawa M, Shigeno M, Saito N. Equilibrum and Nonequilibrium Chemical Reactions of Helicene Oligomers in the Noncovalent Bond Formation. BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN 2016. [DOI: 10.1246/bcsj.20160133] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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Kushida Y, Sawato T, Saito N, Shigeno M, Satozono H, Yamaguchi M. Spatially Heterogeneous Nature of Self-Catalytic Reaction in Hetero-Double Helix Formation of Helicene Oligomers. Chemphyschem 2016; 17:3283-3288. [DOI: 10.1002/cphc.201600627] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2016] [Indexed: 01/16/2023]
Affiliation(s)
- Yo Kushida
- Department of Organic Chemistry; Graduate School of Pharmaceutical Sciences; Tohoku University, Aoba; Sendai 980-8578 Japan
| | - Tsukasa Sawato
- Department of Organic Chemistry; Graduate School of Pharmaceutical Sciences; Tohoku University, Aoba; Sendai 980-8578 Japan
| | - Nozomi Saito
- Department of Organic Chemistry; Graduate School of Pharmaceutical Sciences; Tohoku University, Aoba; Sendai 980-8578 Japan
| | - Masanori Shigeno
- Department of Organic Chemistry; Graduate School of Pharmaceutical Sciences; Tohoku University, Aoba; Sendai 980-8578 Japan
| | - Hiroshi Satozono
- Central Research Laboratory; Hamamatsu Photonics K. K. Hamakita, Hamamatsu; Shizuoka 434-8601 Japan
| | - Masahiko Yamaguchi
- Department of Organic Chemistry; Graduate School of Pharmaceutical Sciences; Tohoku University, Aoba; Sendai 980-8578 Japan
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Kushida Y, Sawato T, Shigeno M, Saito N, Yamaguchi M. Deterministic and Stochastic Chiral Symmetry Breaking Exhibited by Racemic Aminomethylenehelicene Oligomers. Chemistry 2016; 23:327-333. [PMID: 27440722 DOI: 10.1002/chem.201601792] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2016] [Indexed: 11/09/2022]
Abstract
Racemic mixtures of aminomethylenehelicene (P)- and (M)-pentamers exhibited deterministic and stochastic chiral symmetry breaking during hetero-double-helix formation and self-assembly in solution. Heating a 50:50 mixture of (P)- and (M)-pentamers at 90 °C, and then cooling the mixture to 70 °C resulted in hetero-double-helix formation; a Cotton effect with negative Δε at λ=315 nm appeared. Chiral self-assembly occurred when the mixture was cooled to 25 °C. A strong tendency of deterministic chiral symmetry breaking appeared at the molecular and self-assembled levels, which was indicated by the negative Δε at λ=315 nm that appeared in most cases in repeated experiments. Mixtures containing 60:40 and 40:60 (P)-/(M)-pentamers also self-assembled with the same chirality. When a homo-double-helix (P)-/(M)-pentamer and a random coil (M)-/(P)-pentamer were mixed, the chiral self-assembly formed stochastically, and heating and cooling resulted in deterministic chiral symmetry breaking.
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Affiliation(s)
- Yo Kushida
- Department of Organic Chemistry, Graduate School of Pharmaceutical Sciences, Tohoku University Aoba, Sendai, 980-8578, Japan
| | - Tsukasa Sawato
- Department of Organic Chemistry, Graduate School of Pharmaceutical Sciences, Tohoku University Aoba, Sendai, 980-8578, Japan
| | - Masanori Shigeno
- Department of Organic Chemistry, Graduate School of Pharmaceutical Sciences, Tohoku University Aoba, Sendai, 980-8578, Japan
| | - Nozomi Saito
- Department of Organic Chemistry, Graduate School of Pharmaceutical Sciences, Tohoku University Aoba, Sendai, 980-8578, Japan
| | - Masahiko Yamaguchi
- Department of Organic Chemistry, Graduate School of Pharmaceutical Sciences, Tohoku University Aoba, Sendai, 980-8578, Japan
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Shigeno M, Sawato T, Yamaguchi M. Fibril Film Formation of Pseudoenantiomeric Oxymethylenehelicene Oligomers at the Liquid-Solid Interface: Structural Changes, Aggregation, and Discontinuous Heterogeneous Nucleation. Chemistry 2015; 21:17676-82. [DOI: 10.1002/chem.201503224] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2015] [Indexed: 12/21/2022]
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Mukherjee R, Cohen-Luria R, Wagner N, Ashkenasy G. A Bistable Switch in Dynamic Thiodepsipeptide Folding and Template-Directed Ligation. Angew Chem Int Ed Engl 2015; 54:12452-6. [DOI: 10.1002/anie.201503898] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2015] [Revised: 07/21/2015] [Indexed: 11/08/2022]
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Mukherjee R, Cohen-Luria R, Wagner N, Ashkenasy G. A Bistable Switch in Dynamic Thiodepsipeptide Folding and Template-Directed Ligation. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201503898] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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Kushida Y, Shigeno M, Yamaguchi M. Concentration Threshold and Amplification Exhibited by a Helicene Oligomer during Helix-Dimer Formation: A Proposal on How a Cell Senses Concentration Changes of a Chemical. Chemistry 2015; 21:13788-92. [DOI: 10.1002/chem.201501474] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2015] [Indexed: 01/17/2023]
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Shigeno M, Kushida Y, Yamaguchi M. Energy Aspects of Thermal Molecular Switching: Molecular Thermal Hysteresis of Helicene Oligomers. Chemphyschem 2015; 16:2076-83. [PMID: 25990788 DOI: 10.1002/cphc.201500210] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2015] [Revised: 04/13/2015] [Indexed: 12/18/2022]
Abstract
Molecular switching is a phenomenon by which a molecule reversibly changes its structure and state in response to external stimuli or energy. Herein, molecular switching is discussed from thermodynamic and kinetic aspects in terms of energy supply with an emphasis on the thermal switching exhibited by helicene oligomers. It includes the inversion of relative thermodynamic stability induced by temperature changes and molecular thermal hysteresis in a closed system. The thermal phenomenon associated with the oligomers involves population/concentration changes between metastable states under nonequilibrium thermodynamic control.
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Affiliation(s)
- Masanori Shigeno
- Department of Organic Chemistry, Graduate School of Pharmaceutical Sciences, Tohoku University, 6-3 Aoba, Sendai 980-8578 (Japan), Fax: (+81) 22-795-6811
| | - Yo Kushida
- Department of Organic Chemistry, Graduate School of Pharmaceutical Sciences, Tohoku University, 6-3 Aoba, Sendai 980-8578 (Japan), Fax: (+81) 22-795-6811
| | - Masahiko Yamaguchi
- Department of Organic Chemistry, Graduate School of Pharmaceutical Sciences, Tohoku University, 6-3 Aoba, Sendai 980-8578 (Japan), Fax: (+81) 22-795-6811.
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