1
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Boeije Y, Olivucci M. From a one-mode to a multi-mode understanding of conical intersection mediated ultrafast organic photochemical reactions. Chem Soc Rev 2023; 52:2643-2687. [PMID: 36970950 DOI: 10.1039/d2cs00719c] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/29/2023]
Abstract
This review discusses how ultrafast organic photochemical reactions are controlled by conical intersections, highlighting that decay to the ground-state at multiple points of the intersection space results in their multi-mode character.
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Affiliation(s)
- Yorrick Boeije
- Van 't Hoff Institute for Molecular Sciences (HIMS), University of Amsterdam, Science Park 904, 1098 XH Amsterdam, The Netherlands
| | - Massimo Olivucci
- Chemistry Department, University of Siena, Via Aldo Moro n. 2, 53100 Siena, Italy
- Chemistry Department, Bowling Green State University, Overman Hall, Bowling Green, Ohio 43403, USA
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2
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Zhao YL, Lin W, Jitapunkul K, Zhao R, Zhang RQ, Van Hove MA. Surface-Mounted Dipolar Molecular Rotors Driven by External Electric Field, As Revealed by Torque Analyses. ACS OMEGA 2022; 7:35159-35169. [PMID: 36211039 PMCID: PMC9535713 DOI: 10.1021/acsomega.2c04128] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/01/2022] [Accepted: 07/18/2022] [Indexed: 06/16/2023]
Abstract
Driven by a high-speed rotating electric field (E-field), molecular motors with polar groups may perform a unidirectional, repetitive, and GHz frequency rotation and thus offer potential applications as nanostirrers. To drive the unidirectional rotation of molecular motors, it is crucial to consider factors of internal charge flow, thermal noise, molecular flexibility, and so forth before selecting an appropriate frequency of a rotating E-field. Herein, we studied two surface-mounted dipolar rotors of a "caltrop-like" molecule and a "sandwich" molecule by using quantum-mechanical computations in combination with torque analyses. We find that the rotational trend as indicated by the magnitude and the direction of torque vectors can sensitively change with the lag angle (α) between the dipolar arm and the E-field. The atomic charges timely flow within the molecule as the E-field rotates, so the lag angle α must be kept in particular intervals to maintain the rotor's unidirectional rotation. The thermal effect can substantially slow down the rotation of the dipolar rotor in the E-field. The flexible dipolar arm shows a more rigid geometry in the E-field with higher rotation speed. Our work would be useful for designing E-driven molecular rotors and for guiding their practical applications in future.
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Affiliation(s)
- Yan-Ling Zhao
- Department
of Physics, City University of Hong Kong, Hong Kong SAR 999077, China
- Shenzhen
Research Institute, City University of Hong
Kong, Shenzhen 518057, China
| | - Wanxing Lin
- Department
of Physics, City University of Hong Kong, Hong Kong SAR 999077, China
| | - Kulpavee Jitapunkul
- Department
of Physics, City University of Hong Kong, Hong Kong SAR 999077, China
| | - Rundong Zhao
- School
of Physics, Beihang University, Beijing 100191, China
- Shenzhen
JL Computational Science and Applied Research Institute, Shenzhen 518129, China
| | - Rui-Qin Zhang
- Department
of Physics, City University of Hong Kong, Hong Kong SAR 999077, China
- Shenzhen
JL Computational Science and Applied Research Institute, Shenzhen 518129, China
| | - Michel A. Van Hove
- Institute
of Computational and Theoretical Studies & Department of Physics, Hong Kong Baptist University, Hong Kong SAR 999077, China
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3
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Paolino M, Saletti M, Reale A, Licciardi M, Varvarà P, Marquette A, Léonard J, Bonechi C, Donati A, Giorgi G, Giuliani G, Carlotti B, Ortica F, Latterini L, Gentile M, Paccagnini E, Olivucci M, Cappelli A. Design, Synthesis and Characterization of a Visible-Light-Sensitive Molecular Switch and Its PEGylation Towards a Self-Assembling Molecule. Chemistry 2022; 28:e202201477. [PMID: 35695822 PMCID: PMC9541190 DOI: 10.1002/chem.202201477] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2022] [Indexed: 11/07/2022]
Abstract
HBDI-like chromophores represent a novel set of biomimetic switches mimicking the fluorophore of the green fluorescent protein that are currently studied with the hope to expand the molecular switch/motor toolbox. However, until now members capable of absorbing visible light in their neutral (i. e. non-anionic) form have not been reported. In this contribution we report the preparation of an HBDI-like chromophore based on a 3-phenylbenzofulvene scaffold capable of absorbing blue light and photoisomerizing on the picosecond timescale. More specifically, we show that double-bond photoisomerization occurs in both the E-to-Z and Z-to-E directions and that these can be controlled by irradiating with blue and UV light, respectively. Finally, as a preliminary applicative result, we report the incorporation of the chromophore in an amphiphilic molecule and demonstrate the formation of a visible-light-sensitive nanoaggregated state in water.
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Affiliation(s)
- Marco Paolino
- Dipartimento di Biotecnologie, Chimica e Farmacia (Dipartimento di Eccellenza 2018–2022)Università degli Studi di SienaVia A. Moro 253100SienaItaly
| | - Mario Saletti
- Dipartimento di Biotecnologie, Chimica e Farmacia (Dipartimento di Eccellenza 2018–2022)Università degli Studi di SienaVia A. Moro 253100SienaItaly
| | - Annalisa Reale
- Dipartimento di Biotecnologie, Chimica e Farmacia (Dipartimento di Eccellenza 2018–2022)Università degli Studi di SienaVia A. Moro 253100SienaItaly
| | - Mariano Licciardi
- Dipartimento di Scienze e Tecnologie Biologiche, Chimiche e Farmaceutiche (STEBICEF)Università degli Studi di PalermoVia Archirafi 3290123PalermoItaly
| | - Paola Varvarà
- Dipartimento di Scienze e Tecnologie Biologiche, Chimiche e Farmaceutiche (STEBICEF)Università degli Studi di PalermoVia Archirafi 3290123PalermoItaly
| | - Arnaud Marquette
- Institut de Physique et Chimie des Matériaux de StrasbourgUniversité de StrasbourgCNRS UMR7504StrasbourgFrance
| | - Jérémie Léonard
- Institut de Physique et Chimie des Matériaux de StrasbourgUniversité de StrasbourgCNRS UMR7504StrasbourgFrance
| | - Claudia Bonechi
- Dipartimento di Biotecnologie, Chimica e Farmacia (Dipartimento di Eccellenza 2018–2022)Università degli Studi di SienaVia A. Moro 253100SienaItaly
| | - Alessandro Donati
- Dipartimento di Biotecnologie, Chimica e Farmacia (Dipartimento di Eccellenza 2018–2022)Università degli Studi di SienaVia A. Moro 253100SienaItaly
| | - Gianluca Giorgi
- Dipartimento di Biotecnologie, Chimica e Farmacia (Dipartimento di Eccellenza 2018–2022)Università degli Studi di SienaVia A. Moro 253100SienaItaly
| | - Germano Giuliani
- Dipartimento di Biotecnologie, Chimica e Farmacia (Dipartimento di Eccellenza 2018–2022)Università degli Studi di SienaVia A. Moro 253100SienaItaly
| | - Benedetta Carlotti
- Dipartimento di Chimica, Biologia e BiotecnologieUniversità di PerugiaVia Elce di Sotto, 806123PerugiaItaly
| | - Fausto Ortica
- Dipartimento di Chimica, Biologia e BiotecnologieUniversità di PerugiaVia Elce di Sotto, 806123PerugiaItaly
| | - Loredana Latterini
- Dipartimento di Chimica, Biologia e BiotecnologieUniversità di PerugiaVia Elce di Sotto, 806123PerugiaItaly
| | - Mariangela Gentile
- Dipartimento di Scienze della VitaUniversità degli Studi di SienaVia A. Moro53100SienaItaly
| | - Eugenio Paccagnini
- Dipartimento di Scienze della VitaUniversità degli Studi di SienaVia A. Moro53100SienaItaly
| | - Massimo Olivucci
- Dipartimento di Biotecnologie, Chimica e Farmacia (Dipartimento di Eccellenza 2018–2022)Università degli Studi di SienaVia A. Moro 253100SienaItaly
- Chemistry DepartmentBowling Green State University43403Bowling GreenOHUSA) ok
| | - Andrea Cappelli
- Dipartimento di Biotecnologie, Chimica e Farmacia (Dipartimento di Eccellenza 2018–2022)Università degli Studi di SienaVia A. Moro 253100SienaItaly
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4
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Pooler DRS, Lubbe AS, Crespi S, Feringa BL. Designing light-driven rotary molecular motors. Chem Sci 2021; 12:14964-14986. [PMID: 34909140 PMCID: PMC8612399 DOI: 10.1039/d1sc04781g] [Citation(s) in RCA: 80] [Impact Index Per Article: 26.7] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2021] [Accepted: 10/14/2021] [Indexed: 01/04/2023] Open
Abstract
The ability to induce and amplify motion at the molecular scale has seen tremendous progress ranging from simple molecular rotors to responsive materials. In the two decades since the discovery of light-driven rotary molecular motors, the development of these molecules has been extensive; moving from the realm of molecular chemistry to integration into dynamic molecular systems. They have been identified as actuators holding great potential to precisely control the dynamics of nanoscale devices, but integrating molecular motors effectively into evermore complex artificial molecular machinery is not trivial. Maximising efficiency without compromising function requires conscious and judicious selection of the structures used. In this perspective, we focus on the key aspects of motor design and discuss how to manipulate these properties without impeding motor integrity. Herein, we describe these principles in the context of molecular rotary motors featuring a central double bond axle and emphasise the strengths and weaknesses of each design, providing a comprehensive evaluation of all artificial light-driven rotary motor scaffolds currently present in the literature. Based on this discussion, we will explore the trajectory of research into the field of molecular motors in the coming years, including challenges to be addressed, potential applications, and future prospects.
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Affiliation(s)
- Daisy R S Pooler
- Stratingh Institute for Chemistry, Zernike Institute for Advanced Materials, University of Groningen Nijenborgh 4 9747 AG Groningen The Netherlands
| | - Anouk S Lubbe
- Stratingh Institute for Chemistry, Zernike Institute for Advanced Materials, University of Groningen Nijenborgh 4 9747 AG Groningen The Netherlands
| | - Stefano Crespi
- Stratingh Institute for Chemistry, Zernike Institute for Advanced Materials, University of Groningen Nijenborgh 4 9747 AG Groningen The Netherlands
| | - Ben L Feringa
- Stratingh Institute for Chemistry, Zernike Institute for Advanced Materials, University of Groningen Nijenborgh 4 9747 AG Groningen The Netherlands
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5
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Pooler DRS, Pierron R, Crespi S, Costil R, Pfeifer L, Léonard J, Olivucci M, Feringa BL. Effect of charge-transfer enhancement on the efficiency and rotary mechanism of an oxindole-based molecular motor. Chem Sci 2021; 12:7486-7497. [PMID: 34163839 PMCID: PMC8171491 DOI: 10.1039/d1sc01105g] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2021] [Accepted: 04/25/2021] [Indexed: 01/04/2023] Open
Abstract
Harvesting energy and converting it into mechanical motion forms the basis for both natural and artificial molecular motors. Overcrowded alkene-based light-driven rotary motors are powered through sequential photochemical and thermal steps. The thermal helix inversion steps are well characterised and can be manipulated through adjustment of the chemical structure, however, the insights into the photochemical isomerisation steps still remain elusive. Here we report a novel oxindole-based molecular motor featuring pronounced electronic push-pull character and a four-fold increase of the photoisomerization quantum yield in comparison to previous motors of its class. A multidisciplinary approach including synthesis, steady-state and transient absorption spectroscopies, and electronic structure modelling was implemented to elucidate the excited state dynamics and rotary mechanism. We conclude that the charge-transfer character of the excited state diminishes the degree of pyramidalisation at the alkene bond during isomerisation, such that the rotational properties of this oxindole-based motor stand in between the precessional motion of fluorene-based molecular motors and the axial motion of biomimetic photoswitches.
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Affiliation(s)
- Daisy R S Pooler
- Stratingh Institute for Chemistry, Zernike Institute for Advanced Materials, University of Groningen Nijenborgh 4 9747 AG Groningen The Netherlands
| | - Robin Pierron
- Institut de Physique et Chimie des Matériaux de Strasbourg, Université de Strasbourg, CNRS, UMR 7504 F-67034 Strasbourg France
| | - Stefano Crespi
- Stratingh Institute for Chemistry, Zernike Institute for Advanced Materials, University of Groningen Nijenborgh 4 9747 AG Groningen The Netherlands
| | - Romain Costil
- Stratingh Institute for Chemistry, Zernike Institute for Advanced Materials, University of Groningen Nijenborgh 4 9747 AG Groningen The Netherlands
| | - Lukas Pfeifer
- Stratingh Institute for Chemistry, Zernike Institute for Advanced Materials, University of Groningen Nijenborgh 4 9747 AG Groningen The Netherlands
| | - Jérémie Léonard
- Institut de Physique et Chimie des Matériaux de Strasbourg, Université de Strasbourg, CNRS, UMR 7504 F-67034 Strasbourg France
| | - Massimo Olivucci
- Dipartimento di Biotecnologie, Chimica e Farmacia, Università di Siena 53100 Siena Italy
- Chemistry Department, Bowling Green State University Bowling Green Ohio 43403 USA
| | - Ben L Feringa
- Stratingh Institute for Chemistry, Zernike Institute for Advanced Materials, University of Groningen Nijenborgh 4 9747 AG Groningen The Netherlands
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6
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Paolino M, Giovannini T, Manathunga M, Latterini L, Zampini G, Pierron R, Léonard J, Fusi S, Giorgi G, Giuliani G, Cappelli A, Cappelli C, Olivucci M. On the Transition from a Biomimetic Molecular Switch to a Rotary Molecular Motor. J Phys Chem Lett 2021; 12:3875-3884. [PMID: 33856801 DOI: 10.1021/acs.jpclett.1c00526] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
The experimental investigation of the unidirectional motion characterizing the photoisomerization of single-molecule rotary motors requires accessible lab prototypes featuring an electronic circular dichroism (ECD) signal that is sensitive to the geometrical and electronic changes occurring during an ultrafast reactive process. Here we report a combined experimental/computational study of a candidate obtained via the asymmetrization of a light-driven biomimetic molecular switch. We show that the achieved motor has an ECD band that is remarkably sensitive to the isomerization motion, and it is therefore suitable for time-resolved ECD studies. However, we also find that, unexpectedly, the synthesized motor isomerizes on a time scale longer than the subpicosecond time measured for the achiral parent, a result that points to alternative candidates conserving a high reaction speed.
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Affiliation(s)
- Marco Paolino
- Dipartimento di Biotecnologie, Chimica e Farmacia, Università di Siena, Via A. Moro 2, 53100 Siena, Italy
| | | | - Madushanka Manathunga
- Chemistry Department, Bowling Green State University, Bowling Green, Ohio 43403-0001, United States
| | - Loredana Latterini
- Dipartimento di Chimica, Biologia e Biotecnologie, Università di Perugia, Via Elce di Sotto, 8, 06123 Perugia, Italy
| | - Giulia Zampini
- Dipartimento di Chimica, Biologia e Biotecnologie, Università di Perugia, Via Elce di Sotto, 8, 06123 Perugia, Italy
| | - Robin Pierron
- Université de Strasbourg, CNRS, Institut de Physique et Chimie des Matériaux de Strasbourg, UMR 7504, F-67000 Strasbourg, France
| | - Jérémie Léonard
- Université de Strasbourg, CNRS, Institut de Physique et Chimie des Matériaux de Strasbourg, UMR 7504, F-67000 Strasbourg, France
| | - Stefania Fusi
- Dipartimento di Biotecnologie, Chimica e Farmacia, Università di Siena, Via A. Moro 2, 53100 Siena, Italy
| | - Gianluca Giorgi
- Dipartimento di Biotecnologie, Chimica e Farmacia, Università di Siena, Via A. Moro 2, 53100 Siena, Italy
| | - Germano Giuliani
- Dipartimento di Biotecnologie, Chimica e Farmacia, Università di Siena, Via A. Moro 2, 53100 Siena, Italy
| | - Andrea Cappelli
- Dipartimento di Biotecnologie, Chimica e Farmacia, Università di Siena, Via A. Moro 2, 53100 Siena, Italy
| | - Chiara Cappelli
- Scuola Normale Superiore, Piazza dei Cavalieri 7, 56126 Pisa, Italy
| | - Massimo Olivucci
- Dipartimento di Biotecnologie, Chimica e Farmacia, Università di Siena, Via A. Moro 2, 53100 Siena, Italy
- Chemistry Department, Bowling Green State University, Bowling Green, Ohio 43403-0001, United States
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7
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Smolobochkin AV, Gazizov AS, Urgenishbay NM, Melyashova AS, Burilov AR, Pudovik MA. Synthesis of (E)-4-(4-chlorobenzylidene)-3,4-dihydro-2H-pyrrole-based pyrrolinium salts. Russ Chem Bull 2020. [DOI: 10.1007/s11172-020-2771-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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8
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Gueye M, Paolino M, Gindensperger E, Haacke S, Olivucci M, Léonard J. Vibrational coherence and quantum yield of retinal-chromophore-inspired molecular switches. Faraday Discuss 2020; 221:299-321. [DOI: 10.1039/c9fd00062c] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
UV-Vis transient absorption (TA) spectroscopy is used to carry out a systematic investigation of the ultrafast CC double photoisomerization dynamics and quantum yield of each isomer of a set of six chromophores based on the same retinal-inspired, indanylidene pyrrolinium (IP) molecular framework.
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Affiliation(s)
- Moussa Gueye
- Université de Strasbourg
- CNRS
- Institut de Physique et Chimie des Matériaux de Strasbourg
- UMR 7504
- F-67034 Strasbourg
| | - Marco Paolino
- Dipartimento di Biotechnologie
- Chimica e Farmacia
- Università di Siena
- I-53100 Siena
- Italy
| | - Etienne Gindensperger
- Université de Strasbourg
- CNRS
- Laboratoire de Chimie Quantique
- Institut de Chimie
- UMR 7177
| | - Stefan Haacke
- Université de Strasbourg
- CNRS
- Institut de Physique et Chimie des Matériaux de Strasbourg
- UMR 7504
- F-67034 Strasbourg
| | - Massimo Olivucci
- Dipartimento di Biotechnologie
- Chimica e Farmacia
- Università di Siena
- I-53100 Siena
- Italy
| | - Jérémie Léonard
- Université de Strasbourg
- CNRS
- Institut de Physique et Chimie des Matériaux de Strasbourg
- UMR 7504
- F-67034 Strasbourg
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9
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Schapiro I, Gueye M, Paolino M, Fusi S, Marchand G, Haacke S, Martin ME, Huntress M, Vysotskiy VP, Veryazov V, Léonard J, Olivucci M. Synthesis, spectroscopy and QM/MM simulations of a biomimetic ultrafast light-driven molecular motor. Photochem Photobiol Sci 2019; 18:2259-2269. [PMID: 31347633 DOI: 10.1039/c9pp00223e] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A molecular motor potentially performing a continuous unidirectional rotation is studied by a multidisciplinary approach including organic synthesis, transient spectroscopy and excited state trajectory calculations. A stereogenic center was introduced in the N-alkylated indanylidene-pyrroline Schiff base framework of a previously investigated light-driven molecular switch in order to achieve the unidirectional C[double bond, length as m-dash]C rotary motion typical of Feringa's motor. Here we report that the specific substitution pattern of the designed chiral molecule must critically determine the unidirectional efficiency of the light-induced rotary motion. More specifically, we find that a stereogenic center containing a methyl group and a hydrogen atom as substituents does not create a differential steric effect large enough to fully direct the motion in either the clockwise or counterclockwise direction especially along the E→Z coordinate. However, due to the documented ultrafast character and electronic circular dichroism activity of the investigated system, we find that it provides the basis for development of a novel generation of rotary motors with a biomimetic framework and operating on a picosecond time scale.
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Affiliation(s)
- Igor Schapiro
- Université de Strasbourg, CNRS, UMR 7504, Institut de Physique et Chimie des Matériaux de Strasbourg, 23 du Loess, 67034 Strasbourg, France
| | - Moussa Gueye
- Université de Strasbourg, CNRS, UMR 7504, Institut de Physique et Chimie des Matériaux de Strasbourg, 23 du Loess, 67034 Strasbourg, France
| | - Marco Paolino
- Dipartimento di Biotecnologia, Chimica e Farmacia (Dipartimento di Eccellenza 2018-2022), Università degli Studi di Siena, via Aldo Moro 2, I-53100 Siena, Italy.
| | - Stefania Fusi
- Dipartimento di Biotecnologia, Chimica e Farmacia (Dipartimento di Eccellenza 2018-2022), Università degli Studi di Siena, via Aldo Moro 2, I-53100 Siena, Italy.
| | - Gabriel Marchand
- Université de Strasbourg, CNRS, UMR 7504, Institut de Physique et Chimie des Matériaux de Strasbourg, 23 du Loess, 67034 Strasbourg, France
| | - Stefan Haacke
- Université de Strasbourg, CNRS, UMR 7504, Institut de Physique et Chimie des Matériaux de Strasbourg, 23 du Loess, 67034 Strasbourg, France
| | - M Elena Martin
- Area de Química Física, Universidad de Extremadura, Avenida de Elvas sn, E-06071, Badajoz, Spain
| | - Mark Huntress
- Chemistry Department, Bowling Green State University, Bowling Green Ohio 43403, USA
| | - Victor P Vysotskiy
- Division of Theoretical Chemistry, Kemicentrum, Lund University, P.O. Box 124, Lund, SE-221 00, Sweden
| | - Valera Veryazov
- Division of Theoretical Chemistry, Kemicentrum, Lund University, P.O. Box 124, Lund, SE-221 00, Sweden
| | - Jérémie Léonard
- Université de Strasbourg, CNRS, UMR 7504, Institut de Physique et Chimie des Matériaux de Strasbourg, 23 du Loess, 67034 Strasbourg, France
| | - Massimo Olivucci
- Dipartimento di Biotecnologia, Chimica e Farmacia (Dipartimento di Eccellenza 2018-2022), Università degli Studi di Siena, via Aldo Moro 2, I-53100 Siena, Italy. and Chemistry Department, Bowling Green State University, Bowling Green Ohio 43403, USA
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10
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Pagano K, Paolino M, Fusi S, Zanirato V, Trapella C, Giuliani G, Cappelli A, Zanzoni S, Molinari H, Ragona L, Olivucci M. Bile Acid Binding Protein Functionalization Leads to a Fully Synthetic Rhodopsin Mimic. J Phys Chem Lett 2019; 10:2235-2243. [PMID: 30995409 DOI: 10.1021/acs.jpclett.9b00210] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Rhodopsins are photoreceptive proteins using light to drive a plethora of biological functions such as vision, proton and ion pumping, cation and anion channeling, and gene and enzyme regulation. Here we combine organic synthesis, NMR structural studies, and photochemical characterization to show that it is possible to prepare a fully synthetic mimic of rhodopsin photoreceptors. More specifically, we conjugate a bile acid binding protein with a synthetic mimic of the rhodopsin protonated Schiff base chromophore to achieve a covalent complex featuring an unnatural protein host, photoswitch, and photoswitch-protein linkage with a reverse orientation. We show that, in spite of its molecular-level diversity, light irradiation of the prepared mimic fuels a photochromic cycle driven by sequential photochemical and thermal Z/E isomerizations reminiscent of the photocycles of microbial rhodopsins.
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Affiliation(s)
- Katiuscia Pagano
- Istituto per lo Studio delle Macromolecole, CNR , Via A. Corti 12 , 20133 Milano , Italy
| | - Marco Paolino
- Dipartimento di Biotecnologie, Chimica e Farmacia (Dipartimento di Eccellenza 2018-2022) , Università degli Studi di Siena , Via Aldo Moro 2 , 53100 Siena , Italy
| | - Stefania Fusi
- Dipartimento di Biotecnologie, Chimica e Farmacia (Dipartimento di Eccellenza 2018-2022) , Università degli Studi di Siena , Via Aldo Moro 2 , 53100 Siena , Italy
| | | | | | - Germano Giuliani
- Dipartimento di Biotecnologie, Chimica e Farmacia (Dipartimento di Eccellenza 2018-2022) , Università degli Studi di Siena , Via Aldo Moro 2 , 53100 Siena , Italy
| | - Andrea Cappelli
- Dipartimento di Biotecnologie, Chimica e Farmacia (Dipartimento di Eccellenza 2018-2022) , Università degli Studi di Siena , Via Aldo Moro 2 , 53100 Siena , Italy
| | - Serena Zanzoni
- Centro Piattaforme Tecnologiche , Università di Verona , Strada Le Grazie , 37134 Verona , Italy
| | - Henriette Molinari
- Istituto per lo Studio delle Macromolecole, CNR , Via A. Corti 12 , 20133 Milano , Italy
| | - Laura Ragona
- Istituto per lo Studio delle Macromolecole, CNR , Via A. Corti 12 , 20133 Milano , Italy
| | - Massimo Olivucci
- Dipartimento di Biotecnologie, Chimica e Farmacia (Dipartimento di Eccellenza 2018-2022) , Università degli Studi di Siena , Via Aldo Moro 2 , 53100 Siena , Italy
- Chemistry Department , Bowling Green State University , Bowling Green , Ohio 43403 , United States
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11
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Gueye M, Manathunga M, Agathangelou D, Orozco Y, Paolino M, Fusi S, Haacke S, Olivucci M, Léonard J. Engineering the vibrational coherence of vision into a synthetic molecular device. Nat Commun 2018; 9:313. [PMID: 29358689 PMCID: PMC5778125 DOI: 10.1038/s41467-017-02668-w] [Citation(s) in RCA: 31] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2017] [Accepted: 12/15/2017] [Indexed: 11/09/2022] Open
Abstract
The light-induced double-bond isomerization of the visual pigment rhodopsin operates a molecular-level optomechanical energy transduction, which triggers a crucial protein structure change. In fact, rhodopsin isomerization occurs according to a unique, ultrafast mechanism that preserves mode-specific vibrational coherence all the way from the reactant excited state to the primary photoproduct ground state. The engineering of such an energy-funnelling function in synthetic compounds would pave the way towards biomimetic molecular machines capable of achieving optimum light-to-mechanical energy conversion. Here we use resonance and off-resonance vibrational coherence spectroscopy to demonstrate that a rhodopsin-like isomerization operates in a biomimetic molecular switch in solution. Furthermore, by using quantum chemical simulations, we show why the observed coherent nuclear motion critically depends on minor chemical modifications capable to induce specific geometric and electronic effects. This finding provides a strategy for engineering vibrationally coherent motions in other synthetic systems. The ultrafast, vibrationally coherent photoisomerization of rhodopsin is a model of efficient photomechanical energy conversion at the molecular scale. Here, the authors demonstrate a similar photoreaction in synthetic compounds, unraveling the underlying mechanism and discussing its implications.
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Affiliation(s)
- Moussa Gueye
- Université de Strasbourg, CNRS, Institut de Physique et Chimie des Matériaux de Strasbourg, UMR 7504, F-67034, Strasbourg, France
| | - Madushanka Manathunga
- Department of Chemistry, Bowling Green State University, Bowling Green, OH, 43403, USA
| | - Damianos Agathangelou
- Université de Strasbourg, CNRS, Institut de Physique et Chimie des Matériaux de Strasbourg, UMR 7504, F-67034, Strasbourg, France
| | - Yoelvis Orozco
- Université de Strasbourg, CNRS, Institut de Physique et Chimie des Matériaux de Strasbourg, UMR 7504, F-67034, Strasbourg, France
| | - Marco Paolino
- Dipartimento di Biotechnologie, Chimica e Farmacia, Università di Siena, I-53100, Siena, Italy
| | - Stefania Fusi
- Dipartimento di Biotechnologie, Chimica e Farmacia, Università di Siena, I-53100, Siena, Italy
| | - Stefan Haacke
- Université de Strasbourg, CNRS, Institut de Physique et Chimie des Matériaux de Strasbourg, UMR 7504, F-67034, Strasbourg, France
| | - Massimo Olivucci
- Université de Strasbourg, CNRS, Institut de Physique et Chimie des Matériaux de Strasbourg, UMR 7504, F-67034, Strasbourg, France. .,Department of Chemistry, Bowling Green State University, Bowling Green, OH, 43403, USA. .,Dipartimento di Biotechnologie, Chimica e Farmacia, Università di Siena, I-53100, Siena, Italy.
| | - Jérémie Léonard
- Université de Strasbourg, CNRS, Institut de Physique et Chimie des Matériaux de Strasbourg, UMR 7504, F-67034, Strasbourg, France.
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12
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Farag MH, Jansen TLC, Knoester J. The origin of absorptive features in the two-dimensional electronic spectra of rhodopsin. Phys Chem Chem Phys 2018; 20:12746-12754. [DOI: 10.1039/c8cp00638e] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A three-state three-mode model Hamiltonian reveals the origin of the absorptive features in the two-dimensional electronic spectra of rhodopsin.
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Affiliation(s)
- Marwa H. Farag
- University of Groningen
- Zernike Institute for Advanced Materials
- 9747 AG Groningen
- The Netherlands
| | - Thomas L. C. Jansen
- University of Groningen
- Zernike Institute for Advanced Materials
- 9747 AG Groningen
- The Netherlands
| | - Jasper Knoester
- University of Groningen
- Zernike Institute for Advanced Materials
- 9747 AG Groningen
- The Netherlands
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13
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Celestino A, Eisfeld A. Tuning Nonradiative Lifetimes via Molecular Aggregation. J Phys Chem A 2017; 121:5948-5953. [DOI: 10.1021/acs.jpca.7b06259] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Alan Celestino
- Max Planck Institute for the Physics of Complex Systems, Nöthnitzer Strasse 38, D-01187 Dresden, Germany
| | - Alexander Eisfeld
- Max Planck Institute for the Physics of Complex Systems, Nöthnitzer Strasse 38, D-01187 Dresden, Germany
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14
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Lacombat F, Plaza P, Plamont MA, Espagne A. Photoinduced Chromophore Hydration in the Fluorescent Protein Dreiklang Is Triggered by Ultrafast Excited-State Proton Transfer Coupled to a Low-Frequency Vibration. J Phys Chem Lett 2017; 8:1489-1495. [PMID: 28300413 DOI: 10.1021/acs.jpclett.7b00348] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Because of growing applications in advanced fluorescence imaging, the mechanisms and dynamics of photoinduced reactions in reversibly photoswitchable fluorescent proteins are currently attracting much interest. We report the first time-resolved study of the photoswitching of Dreiklang, so far the only fluorescent protein to undergo reversible photoinduced chromophore hydration. Using broadband femtosecond transient absorption spectroscopy, we show that the reaction is triggered by an ultrafast deprotonation of the chromophore phenol group in the excited state in 100 fs. This primary step is accompanied by coherent oscillations that we assign to its coupling with a low-frequency mode, possibly a deformation of the chromophore hydrogen bond network. A ground-state intermediate is formed in the picosecond-nanosecond regime that we tentatively assign to the deprotonated water adduct. We suggest that proton ejection from the phenol group leads to a charge transfer from the phenol to the imidazolinone ring, which triggers imidazolinone protonation by nearby Glu222 and catalyzes the addition of the water molecule.
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Affiliation(s)
- Fabien Lacombat
- Ecole normale supérieure, PSL Research University , Département de Chimie, PASTEUR, 24 rue Lhomond, 75005 Paris, France
- Sorbonne Universités, UPMC Univ Paris 06, PASTEUR, 24 rue Lhomond, 75005 Paris, France
- CNRS , PASTEUR, 24 rue Lhomond, 75005 Paris, France
| | - Pascal Plaza
- Ecole normale supérieure, PSL Research University , Département de Chimie, PASTEUR, 24 rue Lhomond, 75005 Paris, France
- Sorbonne Universités, UPMC Univ Paris 06, PASTEUR, 24 rue Lhomond, 75005 Paris, France
- CNRS , PASTEUR, 24 rue Lhomond, 75005 Paris, France
| | - Marie-Aude Plamont
- Ecole normale supérieure, PSL Research University , Département de Chimie, PASTEUR, 24 rue Lhomond, 75005 Paris, France
- Sorbonne Universités, UPMC Univ Paris 06, PASTEUR, 24 rue Lhomond, 75005 Paris, France
- CNRS , PASTEUR, 24 rue Lhomond, 75005 Paris, France
| | - Agathe Espagne
- Ecole normale supérieure, PSL Research University , Département de Chimie, PASTEUR, 24 rue Lhomond, 75005 Paris, France
- Sorbonne Universités, UPMC Univ Paris 06, PASTEUR, 24 rue Lhomond, 75005 Paris, France
- CNRS , PASTEUR, 24 rue Lhomond, 75005 Paris, France
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15
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Su Q, Li Y, Wang B, Liu M, Wang H, Wang W, Liu F. Combining the Advantages of Alkene and Azo E-Z Photoisomerizations: Mechanistic Insights into Ketoimine Photoswitches. J Phys Chem A 2017; 121:2588-2596. [PMID: 28301930 DOI: 10.1021/acs.jpca.7b01674] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
We carried out CASPT2//(TD)DFT and CASPT2//CASSCF studies on the working mechanism of imine switches, including a camphorquinone-derived ketoimine (shortened as k-Imine) switch designed by Lehn as well as a model camphorquinone alkene-imine (a-Imine) proposed in this study. Under the experimental conditions (light irradiation with 455 and 365 nm for E and Z, respectively), k-Imine is excited to the S1:(nN,π*) state and then decays toward a perpendicular intermediate following the C═N bond rotation coordinate. During the bond rotation, a mild energy barrier caused by the strong interaction of S1:(nN,π*) and S2:(nO,π*) states will more or less slow down the rotation speed of k-Imine. The large difference in irradiation light wavelength supports k-Imine as a two-way photoswitch. The photoisomerization of a-Imine obeys a similar but fully barrierless pattern while requiring a higher excitation energy to reach the (nN,π*) state. The good directionality of thermal isomerization toward E(a-Imine), plus the barrierless photoisomerization, allows for the design of a thermal and photo-operated switch. For both imines, a minimal-energy crossing point (MECI) located at the perpendicular region, with low relative energy and close to the rotary path, ensures the directionality of C═N bond rotation and confirms imines as optimal candidates for photoswitches and motors.
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Affiliation(s)
- Qingqing Su
- Key Laboratory for Macromolecular Science of Shaanxi Province, School of Chemistry & Chemical Engineering, Shaanxi Normal University , Xi'an, Shaanxi 710062, People's Republic of China
| | - Yuanying Li
- Key Laboratory for Macromolecular Science of Shaanxi Province, School of Chemistry & Chemical Engineering, Shaanxi Normal University , Xi'an, Shaanxi 710062, People's Republic of China
| | - Bin Wang
- Key Laboratory for Macromolecular Science of Shaanxi Province, School of Chemistry & Chemical Engineering, Shaanxi Normal University , Xi'an, Shaanxi 710062, People's Republic of China
| | - Minjuan Liu
- Key Laboratory for Macromolecular Science of Shaanxi Province, School of Chemistry & Chemical Engineering, Shaanxi Normal University , Xi'an, Shaanxi 710062, People's Republic of China
| | - Hongjuan Wang
- Key Laboratory for Macromolecular Science of Shaanxi Province, School of Chemistry & Chemical Engineering, Shaanxi Normal University , Xi'an, Shaanxi 710062, People's Republic of China
| | - Wenliang Wang
- Key Laboratory for Macromolecular Science of Shaanxi Province, School of Chemistry & Chemical Engineering, Shaanxi Normal University , Xi'an, Shaanxi 710062, People's Republic of China
| | - Fengyi Liu
- Key Laboratory for Macromolecular Science of Shaanxi Province, School of Chemistry & Chemical Engineering, Shaanxi Normal University , Xi'an, Shaanxi 710062, People's Republic of China
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16
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Herzig LM, Elamri I, Schwalbe H, Wachtveitl J. Light-induced antibiotic release from a coumarin-caged compound on the ultrafast timescale. Phys Chem Chem Phys 2017; 19:14835-14844. [DOI: 10.1039/c7cp02030a] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
A photocaged puromycin derivative, DEACM-puromycin, was synthesized and characterized. The successful restoration of the antibiotic activity was demonstrated in insect cells.
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Affiliation(s)
- L.-M. Herzig
- Institute of Physical and Theoretical Chemistry
- Goethe University Frankfurt
- 60438 Frankfurt/Main
- Germany
| | - I. Elamri
- Institute of Organic Chemistry and Chemical Biology
- Center for Biomolecular Magnetic Resonance (BMRZ)
- Goethe University Frankfurt
- 60438 Frankfurt/Main
- Germany
| | - H. Schwalbe
- Institute of Organic Chemistry and Chemical Biology
- Center for Biomolecular Magnetic Resonance (BMRZ)
- Goethe University Frankfurt
- 60438 Frankfurt/Main
- Germany
| | - J. Wachtveitl
- Institute of Physical and Theoretical Chemistry
- Goethe University Frankfurt
- 60438 Frankfurt/Main
- Germany
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17
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Iyer ESS, Misra R, Maity A, Liubashevski O, Sudo Y, Sheves M, Ruhman S. Temperature Independence of Ultrafast Photoisomerization in Thermophilic Rhodopsin: Assessment versus Other Microbial Proton Pumps. J Am Chem Soc 2016; 138:12401-7. [DOI: 10.1021/jacs.6b05002] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
| | - Ramprasad Misra
- Department
of Organic Chemistry, The Weizmann Institute of Science, Rehovot 7610001, Israel
| | - Arnab Maity
- Institute
of Chemistry, The Hebrew University of Jerusalem, Jerusalem 9190501, Israel
| | - Oleg Liubashevski
- Institute
of Chemistry, The Hebrew University of Jerusalem, Jerusalem 9190501, Israel
| | - Yuki Sudo
- Division
of Pharmaceutical sciences, Okayama University, Kita-Ku, Okayama 700-0082, Japan
| | - Mordechai Sheves
- Department
of Organic Chemistry, The Weizmann Institute of Science, Rehovot 7610001, Israel
| | - Sanford Ruhman
- Institute
of Chemistry, The Hebrew University of Jerusalem, Jerusalem 9190501, Israel
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18
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Gueye M, Nillon J, Crégut O, Léonard J. Broadband UV-Vis vibrational coherence spectrometer based on a hollow fiber compressor. THE REVIEW OF SCIENTIFIC INSTRUMENTS 2016; 87:093109. [PMID: 27782548 DOI: 10.1063/1.4962699] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
We describe a broadband transient absorption (TA) spectrometer devised to excite and probe, in the blue to UV range, vibrational coherence dynamics in organic molecules in condensed phase. A 800-nm Ti:Sa amplifier and a hollow fiber compressor are used to generate a 6-fs short pulse at 1 kHz. Broadband sum frequency generation with the fundamental pulse is implemented to produce a 400-nm, 8-fs Fourier limited short pulse. A UV-Vis white-light supercontinuum is implemented as a probe with intensity self-referencing to achieve a shot-noise-limited sensitivity. Rapid scanning of the pump-probe delay is shown very efficient in suppressing the noise resulting from low-frequency pump intensity fluctuations. Using either of the 800-nm or 400-nm broadband pulses as the pump for TA spectroscopy of organic molecules in solution, we resolve oscillatory signals down to the 320 nm probing wavelength with a 3200 cm-1 FWHM bandwidth. Their Fourier transformation reveals the corresponding molecular vibrational spectra. Finally, we demonstrate the use of this setup as a vibrational coherence spectrometer for the investigation of the vibrational dynamics accompanying the sub-ps C=C photoisomerization of a retinal-like molecular switch through a conical intersection.
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Affiliation(s)
- Moussa Gueye
- Institut de Physique et Chimie des Matériaux de Strasbourg & Labex NIE, Université de Strasbourg, CNRS UMR 7504, 23 rue du Loess, Strasbourg 67034, France
| | - Julien Nillon
- Institut de Physique et Chimie des Matériaux de Strasbourg & Labex NIE, Université de Strasbourg, CNRS UMR 7504, 23 rue du Loess, Strasbourg 67034, France
| | - Olivier Crégut
- Institut de Physique et Chimie des Matériaux de Strasbourg & Labex NIE, Université de Strasbourg, CNRS UMR 7504, 23 rue du Loess, Strasbourg 67034, France
| | - Jérémie Léonard
- Institut de Physique et Chimie des Matériaux de Strasbourg & Labex NIE, Université de Strasbourg, CNRS UMR 7504, 23 rue du Loess, Strasbourg 67034, France
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19
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Farag MH, Jansen TLC, Knoester J. Probing the Interstate Coupling near a Conical Intersection by Optical Spectroscopy. J Phys Chem Lett 2016; 7:3328-3334. [PMID: 27509384 DOI: 10.1021/acs.jpclett.6b01463] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Conical intersections are points where adiabatic potential energy surfaces cross. The interstate coupling between the potential energy surfaces plays a crucial role in many processes associated with conical intersections. Still no method exists to measure this coupling driving the chemical reactions between the potential energy surfaces involved. In this Letter, using a generic model for photoisomerization, we propose a novel experimental approach to estimate the coupling that mixes the electronic states near a conical intersection. The approach is based on analyzing the vibrational wavepacket of the reactant in the adiabatic ground and excited electronic states. The nuclear wavepacket dynamics are extracted from linear absorption and two-dimensional electronic spectroscopy. Comparing the frequencies of the coupling mode in the adiabatic ground and excited states from models with and without coupling between the potential energy surfaces suggests an experimental tool to determine the interstate coupling.
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Affiliation(s)
- Marwa H Farag
- Zernike Institute for Advanced Materials, University of Groningen , Nijenborgh 4, 9747 AG Groningen, The Netherlands
| | - Thomas L C Jansen
- Zernike Institute for Advanced Materials, University of Groningen , Nijenborgh 4, 9747 AG Groningen, The Netherlands
| | - Jasper Knoester
- Zernike Institute for Advanced Materials, University of Groningen , Nijenborgh 4, 9747 AG Groningen, The Netherlands
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20
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Paolino M, Gueye M, Pieri E, Manathunga M, Fusi S, Cappelli A, Latterini L, Pannacci D, Filatov M, Léonard J, Olivucci M. Design, Synthesis, and Dynamics of a Green Fluorescent Protein Fluorophore Mimic with an Ultrafast Switching Function. J Am Chem Soc 2016; 138:9807-25. [DOI: 10.1021/jacs.5b10812] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Affiliation(s)
- Marco Paolino
- Dipartimento di Biotecnologie, Chimica
e Farmacia, Università di Siena, Via A. Moro 2, 53100 Siena, Italy
| | - Moussa Gueye
- Institut de Physique et Chimie des Matériaux de Strasbourg & Labex NIE, Université de Strasbourg, CNRS UMR 7504, Strasbourg, France
| | - Elisa Pieri
- Dipartimento di Biotecnologie, Chimica
e Farmacia, Università di Siena, Via A. Moro 2, 53100 Siena, Italy
| | - Madushanka Manathunga
- Chemistry Department, Bowling Green State University, Bowling
Green, Ohio, United States
| | - Stefania Fusi
- Dipartimento di Biotecnologie, Chimica
e Farmacia, Università di Siena, Via A. Moro 2, 53100 Siena, Italy
| | - Andrea Cappelli
- Dipartimento di Biotecnologie, Chimica
e Farmacia, Università di Siena, Via A. Moro 2, 53100 Siena, Italy
| | - Loredana Latterini
- Dipartimento di Chimica, Biologia e Biotecnologie, Università di Perugia, Via Elce di Sotto, 8, 06123 Perugia, Italy
| | - Danilo Pannacci
- Dipartimento di Chimica, Biologia e Biotecnologie, Università di Perugia, Via Elce di Sotto, 8, 06123 Perugia, Italy
| | - Michael Filatov
- Department of Chemistry,
School of Natural Sciences, Ulsan National Institute of Science and Technology (UNIST), Ulsan 689-798, Korea
| | - Jérémie Léonard
- Institut de Physique et Chimie des Matériaux de Strasbourg & Labex NIE, Université de Strasbourg, CNRS UMR 7504, Strasbourg, France
| | - Massimo Olivucci
- Dipartimento di Biotecnologie, Chimica
e Farmacia, Università di Siena, Via A. Moro 2, 53100 Siena, Italy
- Chemistry Department, Bowling Green State University, Bowling
Green, Ohio, United States
- University of Strasbourg Institute for Advanced Studies, 5, allée du Général
Rouvillois F-67083 Strasbourg, France
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21
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García-Iriepa C, Ernst HA, Liang Y, Unterreiner AN, Frutos LM, Sampedro D. Study of Model Systems for Bilirubin and Bilin Chromophores: Determination and Modification of Thermal and Photochemical Properties. J Org Chem 2016; 81:6292-302. [PMID: 27391671 DOI: 10.1021/acs.joc.6b00892] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Abstract
Bilin chromophores and bilirubin are involved in relevant biological functions such as light perception in plants and as protective agents against Alzheimer and other diseases. Despite their extensive use, a deep rationalization of the main factors controlling the thermal and photochemical properties has not been performed yet, which in turn hampers further applications of these versatile molecules. In an effort to understand those factors and allow control of the relevant properties, a combined experimental and computational study has been carried out for diverse model systems to understand the interconversion between Z and E isomers. In this study, we have demonstrated the crucial role of steric hindrance and hydrogen-bond interactions in thermal stability and the ability to control them by designing novel compounds. We also determined several photochemical properties and studied the photodynamics of two model systems in more detail, observing a fast relaxation of the excited state shorter than 2 ps in both cases. Finally, the computational study allowed us to rationalize the experimental evidence.
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Affiliation(s)
- Cristina García-Iriepa
- Unidad Docente de Química Física, Universidad de Alcalá , Alcalá de Henares, E-28871 Madrid, Spain
| | - Hanna A Ernst
- Institute of Physical Chemistry, Karlsruhe Institute of Technology (KIT) , 76128 Karlsruhe, Germany
| | - Yu Liang
- Institute of Physical Chemistry, Karlsruhe Institute of Technology (KIT) , 76128 Karlsruhe, Germany
| | - Andreas-Neil Unterreiner
- Institute of Physical Chemistry, Karlsruhe Institute of Technology (KIT) , 76128 Karlsruhe, Germany
| | - Luis Manuel Frutos
- Unidad Docente de Química Física, Universidad de Alcalá , Alcalá de Henares, E-28871 Madrid, Spain
| | - Diego Sampedro
- Departamento de Química, Centro de Investigación en Síntesis Química (CISQ), Universidad de La Rioja , Madre de Dios 53, E-26006 Logroño, Spain
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22
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Everhart SC, Jayasundara UK, Kim H, Procúpez-Schtirbu R, Stanbery WA, Mishler CH, Frost BJ, Cline JI, Bell TW. Synthesis and Photoisomerization of Substituted Dibenzofulvene Molecular Rotors. Chemistry 2016; 22:11291-302. [PMID: 27363530 DOI: 10.1002/chem.201600854] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2016] [Indexed: 12/18/2022]
Abstract
The synthesis, spectral and structural characterization, and photoisomerization of a family of 2-substituted dibenzofulvene molecular actuators based on (2,2,2-triphenylethylidene)fluorene (TEF) are reported. The 2-substituted species investigated are nitro (NTEF), cyano (CTEF), and iodo (ITEF). X-ray structures of these three compounds and three intermediates were determined to assign alkene configuration and investigate the effects of the 2-substituents on steric gearing. The addition-elimination reaction of Z-9 with trityl anion to form Z-10 proceeded with complete retention of configuration. Rates of photoisomerization were measured at irradiation wavelengths between 266-355 nm in acetonitrile/dioxane solutions at room temperature. Photoisomerization quantum yields (φ) were calculated by means of a mathematical model that accounts for a certain degree of photodecomposition in the cases of CTEF and ITEF. Quantum yields vary significantly with substituent, having maximum values of φ=0.26 for NTEF, 0.39 for CTEF, and 0.50 for ITEF. NTEF is photochemically robust and has a large quantum yield for photoisomerization in the near-UV, making it a particularly promising drive rotor moiety for light-powered molecular devices.
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Affiliation(s)
- Stephanie C Everhart
- Department of Chemistry and Program in Chemical Physics, University of Nevada, Reno, NV, 89557-0216, USA
| | - Udaya K Jayasundara
- Department of Chemistry and Program in Chemical Physics, University of Nevada, Reno, NV, 89557-0216, USA
| | - HyunJong Kim
- Department of Chemistry and Program in Chemical Physics, University of Nevada, Reno, NV, 89557-0216, USA
| | - Rolando Procúpez-Schtirbu
- Department of Chemistry and Program in Chemical Physics, University of Nevada, Reno, NV, 89557-0216, USA.,Coordinador Sección Química General, Escuela de Química, Universidad de Costa Rica, P.O. Box 11501-2060, Costa Rica
| | - Wayne A Stanbery
- Department of Chemistry and Program in Chemical Physics, University of Nevada, Reno, NV, 89557-0216, USA
| | - Clay H Mishler
- Department of Chemistry and Program in Chemical Physics, University of Nevada, Reno, NV, 89557-0216, USA
| | - Brian J Frost
- Department of Chemistry and Program in Chemical Physics, University of Nevada, Reno, NV, 89557-0216, USA
| | - Joseph I Cline
- Department of Chemistry and Program in Chemical Physics, University of Nevada, Reno, NV, 89557-0216, USA
| | - Thomas W Bell
- Department of Chemistry and Program in Chemical Physics, University of Nevada, Reno, NV, 89557-0216, USA.
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23
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Schapiro I. The Origin of Bond Selectivity and Excited-State Reactivity in Retinal Analogues. J Phys Chem A 2016; 120:3353-65. [DOI: 10.1021/acs.jpca.6b00701] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Igor Schapiro
- Fritz Haber
Center for Molecular
Dynamics, Institute of Chemistry, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
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24
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Nikiforov A, Gamez JA, Thiel W, Filatov M. Computational Design of a Family of Light-Driven Rotary Molecular Motors with Improved Quantum Efficiency. J Phys Chem Lett 2016; 7:105-10. [PMID: 26670164 PMCID: PMC4707559 DOI: 10.1021/acs.jpclett.5b02575] [Citation(s) in RCA: 60] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/16/2023]
Abstract
Two new light-driven molecular rotary motors based on the N-alkylated indanylidene benzopyrrole frameworks are proposed and studied using quantum chemical calculations and nonadiabatic molecular dynamics simulations. These new motors perform pure axial rotation, and the photochemical steps of the rotary cycle are dominated by the fast bond-length-alternation motion that enables ultrafast access to the S1/S0 intersection. The new motors are predicted to display a quantum efficiency higher than that of the currently available synthetic all-hydrocarbon motors. Remarkably, the quantum efficiency is not governed by the topography (peaked versus sloped) of the minimum-energy conical intersection, whereas the S1 decay time depends on the topography as well as on the energy of the intersection relative to the S1 minimum. It is the axial chirality (helicity), rather than the point chirality, that controls the sense of rotation of the motor.
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Affiliation(s)
- Alexander Nikiforov
- Max-Planck-Institut
für Kohlenforschung, Kaiser-Wilhelm-Platz 1, D-45470 Mülheim an der Ruhr, Germany
| | - Jose A. Gamez
- Institute
of Technical and Macromolecular Chemistry, RWTH Aachen University, Worringerweg 1, 52074 Aachen, Germany
| | - Walter Thiel
- Max-Planck-Institut
für Kohlenforschung, Kaiser-Wilhelm-Platz 1, D-45470 Mülheim an der Ruhr, Germany
| | - Michael Filatov
- Department
of Chemistry, Southern Methodist University, 3215 Daniel Avenue, Dallas, Texas 75275-0314, United States
- Department of Chemistry, School
of Natural Sciences, Ulsan National Institute
of Science and Technology (UNIST), Ulsan 689-798, Korea
- E-mail:
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25
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Manathunga M, Yang X, Luk HL, Gozem S, Frutos LM, Valentini A, Ferrè N, Olivucci M. Probing the Photodynamics of Rhodopsins with Reduced Retinal Chromophores. J Chem Theory Comput 2016; 12:839-50. [PMID: 26640959 DOI: 10.1021/acs.jctc.5b00945] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
While the light-induced population dynamics of different photoresponsive proteins has been investigated spectroscopically, systematic computational studies have not yet been possible due to the phenomenally high cost of suitable high level quantum chemical methods and the need of propagating hundreds, if not thousands, of nonadiabatic trajectories. Here we explore the possibility of studying the photodynamics of rhodopsins by constructing and investigating quantum mechanics/molecular mechanics (QM/MM) models featuring reduced retinal chromophores. In order to do so we use the sensory rhodopsin found in the cyanobacterium Anabaena PCC7120 (ASR) as a benchmark system. We find that the basic mechanistic features associated with the excited state dynamics of ASR QM/MM models are reproduced using models incorporating a minimal (i.e., three double-bond) chromophore. Furthermore, we show that ensembles of nonadiabatic ASR trajectories computed using the same abridged models replicate, at both the CASPT2 and CASSCF levels of theory, the trends in spectroscopy and lifetimes estimated using unabridged models and observed experimentally at room temperature. We conclude that a further expansion of these studies may lead to low-cost QM/MM rhodopsin models that may be used as effective tools in high-throughput in silico mutant screening.
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Affiliation(s)
- Madushanka Manathunga
- Department of Chemistry, Bowling Green State University , Bowling Green, Ohio 43403, United States
| | - Xuchun Yang
- Department of Chemistry, Bowling Green State University , Bowling Green, Ohio 43403, United States
| | - Hoi Ling Luk
- Department of Chemistry, Bowling Green State University , Bowling Green, Ohio 43403, United States
| | - Samer Gozem
- Department of Chemistry, Bowling Green State University , Bowling Green, Ohio 43403, United States
| | - Luis Manuel Frutos
- Departamento de Química Física, Universidad de Alcalá , E-28871 Alcalá de Henares, Madrid, Spain
| | - Alessio Valentini
- Dipartimento di Biotecnologie, Chimica e Farmacia, Università di Siena , via A. Moro 2, I-53100 Siena, Siena, Italy.,Departamento de Química Física, Universidad de Alcalá , E-28871 Alcalá de Henares, Madrid, Spain
| | - Nicolas Ferrè
- Aix-Marseille Université, CNRS, Institut de Chimie Radicalaire, 13397 Marseille, Cedex 20, France
| | - Massimo Olivucci
- Department of Chemistry, Bowling Green State University , Bowling Green, Ohio 43403, United States.,Dipartimento di Biotecnologie, Chimica e Farmacia, Università di Siena , via A. Moro 2, I-53100 Siena, Siena, Italy.,University of Strasbourg Institute for Advanced Studies, 5, allée du Général Rouvillois, F-67083 Strasbourg, France
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26
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Aquilante F, Autschbach J, Carlson RK, Chibotaru LF, Delcey MG, De Vico L, Fdez Galván I, Ferré N, Frutos LM, Gagliardi L, Garavelli M, Giussani A, Hoyer CE, Li Manni G, Lischka H, Ma D, Malmqvist PÅ, Müller T, Nenov A, Olivucci M, Pedersen TB, Peng D, Plasser F, Pritchard B, Reiher M, Rivalta I, Schapiro I, Segarra-Martí J, Stenrup M, Truhlar DG, Ungur L, Valentini A, Vancoillie S, Veryazov V, Vysotskiy VP, Weingart O, Zapata F, Lindh R. Molcas 8: New capabilities for multiconfigurational quantum chemical calculations across the periodic table. J Comput Chem 2015; 37:506-41. [PMID: 26561362 DOI: 10.1002/jcc.24221] [Citation(s) in RCA: 1126] [Impact Index Per Article: 125.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2015] [Revised: 09/07/2015] [Accepted: 09/09/2015] [Indexed: 12/17/2022]
Abstract
In this report, we summarize and describe the recent unique updates and additions to the Molcas quantum chemistry program suite as contained in release version 8. These updates include natural and spin orbitals for studies of magnetic properties, local and linear scaling methods for the Douglas-Kroll-Hess transformation, the generalized active space concept in MCSCF methods, a combination of multiconfigurational wave functions with density functional theory in the MC-PDFT method, additional methods for computation of magnetic properties, methods for diabatization, analytical gradients of state average complete active space SCF in association with density fitting, methods for constrained fragment optimization, large-scale parallel multireference configuration interaction including analytic gradients via the interface to the Columbus package, and approximations of the CASPT2 method to be used for computations of large systems. In addition, the report includes the description of a computational machinery for nonlinear optical spectroscopy through an interface to the QM/MM package Cobramm. Further, a module to run molecular dynamics simulations is added, two surface hopping algorithms are included to enable nonadiabatic calculations, and the DQ method for diabatization is added. Finally, we report on the subject of improvements with respects to alternative file options and parallelization.
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Affiliation(s)
- Francesco Aquilante
- Department of Chemistry - Ångström, The Theoretical Chemistry Programme, Uppsala University, Box 518, Uppsala, 751 20, Sweden.,Dipartimento di Chimica "G. Ciamician", Università di Bologna, via Selmi 2, IT-40126, Bologna, Italy
| | - Jochen Autschbach
- Department of Chemistry, University at Buffalo, State University of New York, Buffalo, New York, 14260-3000, USA
| | - Rebecca K Carlson
- Department of Chemistry, Supercomputing Institute, and Chemical Theory Center, University of Minnesota, Minneapolis, Minnesota, 55455-0431, USA
| | - Liviu F Chibotaru
- Division of Quantum and Physical Chemistry, and INPAC, Institute for Nanoscale Physics and Chemistry, Katholieke Universiteit Leuven Celestijnenlaan, 200F, 3001, Belgium
| | - Mickaël G Delcey
- Department of Chemistry - Ångström, The Theoretical Chemistry Programme, Uppsala University, Box 518, Uppsala, 751 20, Sweden
| | - Luca De Vico
- Department of Chemistry, Copenhagen University, Universitetsparken 5, Copenhagen Ø, 2100, Denmark
| | - Ignacio Fdez Galván
- Department of Chemistry - Ångström, The Theoretical Chemistry Programme, Uppsala University, Box 518, Uppsala, 751 20, Sweden.,Uppsala Center for Computational Chemistry - UC3, Uppsala University, Box 518, Uppsala, 751 20, Sweden
| | - Nicolas Ferré
- Université d'Aix-Marseille, CNRS, Institut de Chimie Radicalaire, Campus Étoile/Saint-Jérôme Case 521, Avenue Esc. Normandie Niemen, Marseille Cedex 20, 13397, France
| | - Luis Manuel Frutos
- Unidad Docente de Química Física, Universidad de Alcalá, E-28871 Alcalá de Henares, Madrid, Spain
| | - Laura Gagliardi
- Department of Chemistry, Supercomputing Institute, and Chemical Theory Center, University of Minnesota, Minneapolis, Minnesota, 55455-0431, USA
| | - Marco Garavelli
- Dipartimento di Chimica "G. Ciamician", Università di Bologna, via Selmi 2, IT-40126, Bologna, Italy.,Université de Lyon, CNRS, École Normale Supérieure de Lyon, 46 Allée d'Italie, Lyon Cedex 07, F-69364, France
| | - Angelo Giussani
- Dipartimento di Chimica "G. Ciamician", Università di Bologna, via Selmi 2, IT-40126, Bologna, Italy
| | - Chad E Hoyer
- Department of Chemistry, Supercomputing Institute, and Chemical Theory Center, University of Minnesota, Minneapolis, Minnesota, 55455-0431, USA
| | - Giovanni Li Manni
- Department of Chemistry, Supercomputing Institute, and Chemical Theory Center, University of Minnesota, Minneapolis, Minnesota, 55455-0431, USA.,Max Planck Institut für Festkörperforschung, Heisenbergstraße 1, Stuttgart, 70569, Germany
| | - Hans Lischka
- Department of Chemistry and Biochemistry, Texas Tech University, Memorial Circle and Boston, Lubbock, Texas, 79409-1061, USA.,Institute for Theoretical Chemistry, University of Vienna, Währingerstraße 17, Vienna, A-1090, Austria
| | - Dongxia Ma
- Department of Chemistry, Supercomputing Institute, and Chemical Theory Center, University of Minnesota, Minneapolis, Minnesota, 55455-0431, USA.,Max Planck Institut für Festkörperforschung, Heisenbergstraße 1, Stuttgart, 70569, Germany
| | - Per Åke Malmqvist
- Department of Theoretical Chemistry, Lund University, Chemical Center, P.O.B 124 S-221 00, Lund, Sweden
| | - Thomas Müller
- Jülich Supercomputing Centre (JSC), Forschungszentrum Jülich GmbH, Institute for Advanced Simulation (IAS), Wilhelm-Johnen-Straße, Jülich, 52425, Germany
| | - Artur Nenov
- Dipartimento di Chimica "G. Ciamician", Università di Bologna, via Selmi 2, IT-40126, Bologna, Italy
| | - Massimo Olivucci
- Department of Biotechnology, Chemistry and Pharmacy, University of Siena, via Aldo Moro 2, Siena, 53100, Italy.,Chemistry Department, Bowling Green State University, 141 Overman Hall, Bowling Green, Ohio, 43403, USA.,Institut de Physique et Chimie des Matériaux de Strasbourg & Labex NIE, Université de Strasbourg, CNRS UMR 7504, 23 Rue du Loess, Strasbourg, 67034, France
| | - Thomas Bondo Pedersen
- Centre for Theoretical and Computational Chemistry, Department of Chemistry, University of Oslo, P.O. Box 1033 Blindern, Oslo, 0315, Norway
| | - Daoling Peng
- College of Chemistry and Environment, South China Normal University, Guangzhou, 510006, China
| | - Felix Plasser
- Institute for Theoretical Chemistry, University of Vienna, Währingerstraße 17, Vienna, A-1090, Austria
| | - Ben Pritchard
- Department of Chemistry, University at Buffalo, State University of New York, Buffalo, New York, 14260-3000, USA
| | - Markus Reiher
- ETH Zurich, Laboratorium für Physikalische Chemie, Vladimir-Prelog-Weg 2, Zurich, CH-8093, Switzerland
| | - Ivan Rivalta
- Université de Lyon, CNRS, École Normale Supérieure de Lyon, 46 Allée d'Italie, Lyon Cedex 07, F-69364, France
| | - Igor Schapiro
- Institut de Physique et Chimie des Matériaux de Strasbourg & Labex NIE, Université de Strasbourg, CNRS UMR 7504, 23 Rue du Loess, Strasbourg, 67034, France.,Fritz Haber Center for Molecular Dynamics, Institute of Chemistry, The Hebrew University of Jerusalem, Jerusalem, 91904, Israel
| | - Javier Segarra-Martí
- Dipartimento di Chimica "G. Ciamician", Università di Bologna, via Selmi 2, IT-40126, Bologna, Italy
| | - Michael Stenrup
- Department of Chemistry - Ångström, The Theoretical Chemistry Programme, Uppsala University, Box 518, Uppsala, 751 20, Sweden.,Uppsala Center for Computational Chemistry - UC3, Uppsala University, Box 518, Uppsala, 751 20, Sweden
| | - Donald G Truhlar
- Department of Chemistry, Supercomputing Institute, and Chemical Theory Center, University of Minnesota, Minneapolis, Minnesota, 55455-0431, USA
| | - Liviu Ungur
- Division of Quantum and Physical Chemistry, and INPAC, Institute for Nanoscale Physics and Chemistry, Katholieke Universiteit Leuven Celestijnenlaan, 200F, 3001, Belgium
| | - Alessio Valentini
- Unidad Docente de Química Física, Universidad de Alcalá, E-28871 Alcalá de Henares, Madrid, Spain.,Department of Biotechnology, Chemistry and Pharmacy, University of Siena, via Aldo Moro 2, Siena, 53100, Italy
| | - Steven Vancoillie
- Department of Theoretical Chemistry, Lund University, Chemical Center, P.O.B 124 S-221 00, Lund, Sweden
| | - Valera Veryazov
- Department of Theoretical Chemistry, Lund University, Chemical Center, P.O.B 124 S-221 00, Lund, Sweden
| | - Victor P Vysotskiy
- Department of Theoretical Chemistry, Lund University, Chemical Center, P.O.B 124 S-221 00, Lund, Sweden
| | - Oliver Weingart
- Institut für Theoretische Chemie und Computerchemie, Heinrich-Heine-Universität Düsseldorf, Universitätsstraße 1, Düsseldorf, 40225, Germany
| | - Felipe Zapata
- Unidad Docente de Química Física, Universidad de Alcalá, E-28871 Alcalá de Henares, Madrid, Spain
| | - Roland Lindh
- Department of Chemistry - Ångström, The Theoretical Chemistry Programme, Uppsala University, Box 518, Uppsala, 751 20, Sweden.,Uppsala Center for Computational Chemistry - UC3, Uppsala University, Box 518, Uppsala, 751 20, Sweden
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27
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Zhou J, Guo X, Katz HE, Bragg AE. Molecular Switching via Multiplicity-Exclusive E/Z Photoisomerization Pathways. J Am Chem Soc 2015; 137:10841-50. [PMID: 26258436 DOI: 10.1021/jacs.5b07348] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Mutual exclusivity in the nature of forward and reserve isomerization pathways holds promise for predictably controlling responses of photoswitchable materials according to molecular structure or external stimuli. Herein we have characterized the E/Z photoisomerization mechanisms of the visible-light-triggered switch 1,2-dithienyl-1,2-dicyanoethene (4TCE) in chlorobenzene with ultrafast transient absorption spectroscopy. We observe that switching mechanisms occur exclusively by relaxation through electronic manifolds of different spin multiplicity: trans-to-cis isomerization only occurs via electronic relaxation within the singlet manifold on a time scale of 40 ps; in contrast, cis-to-trans isomerization is not observed above 440 nm, but occurs via two rapid ISC processes into and out of the triplet manifold on time scales of ∼2 ps and 0.4 ns, respectively, when excited at higher energies (e.g., 420 nm). Observation of ultrafast ISC in cis-4TCE is consistent with photoinduced dynamics of related thiophene-based oligomers. Interpretation of the photophysical pathways underlying these isomerization reactions is supported by the observation that cis-to-trans isomerization occurs efficiently via triplet-sensitized energy transfer, whereas trans-to-cis isomerization does not. Quantum-chemical calculations reveal that the T1 potential energy surface is barrierless along the coordinate of the central ethylene dihedral angle (θ) from the cis Franck-Condon region (θ = 175°) to geometries that are within the region of the trans ground-state well; furthermore, the T1 and S1 surfaces cross with a substantial spin-orbital coupling. In total, we demonstrate that E/Z photoswitching of 4TCE operates by multiplicity-exclusive pathways, enabling additional means for tailoring switch performance by manipulating spin-orbit couplings through variations in molecular structure or physical environment.
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Affiliation(s)
- Jiawang Zhou
- Department of Chemistry, Johns Hopkins University , Baltimore, Maryland 21218, United States
| | - Xin Guo
- Department of Materials Science and Engineering, Johns Hopkins University , Baltimore, Maryland 21218, United States
| | - Howard E Katz
- Department of Chemistry, Johns Hopkins University , Baltimore, Maryland 21218, United States.,Department of Materials Science and Engineering, Johns Hopkins University , Baltimore, Maryland 21218, United States
| | - Arthur E Bragg
- Department of Chemistry, Johns Hopkins University , Baltimore, Maryland 21218, United States
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28
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Mandal S, Mahato S, Jana CK. Direct β-C(sp3)–H Functionalization of Aliphatic Amines to α,β-Unsaturated Imines, Aldehydes, and Chromenes. Org Lett 2015. [DOI: 10.1021/acs.orglett.5b01744] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Affiliation(s)
- Sumana Mandal
- Department of Chemistry, Indian Institute of Technology Guwahati, Guwahati 781039, Assam, India
| | - Sujit Mahato
- Department of Chemistry, Indian Institute of Technology Guwahati, Guwahati 781039, Assam, India
| | - Chandan K. Jana
- Department of Chemistry, Indian Institute of Technology Guwahati, Guwahati 781039, Assam, India
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29
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Floß G, Saalfrank P. The Photoinduced E → Z Isomerization of Bisazobenzenes: A Surface Hopping Molecular Dynamics Study. J Phys Chem A 2015; 119:5026-37. [DOI: 10.1021/acs.jpca.5b02933] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Affiliation(s)
- Gereon Floß
- Institut
für Chemie, Universität Potsdam, Karl-Liebknecht-Strasse 24-25, D-14476 Potsdam, Germany
| | - Peter Saalfrank
- Institut
für Chemie, Universität Potsdam, Karl-Liebknecht-Strasse 24-25, D-14476 Potsdam, Germany
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30
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Vibrational coherence transfer in an electronically decoupled molecular dyad. Sci Rep 2015; 5:9368. [PMID: 25797419 PMCID: PMC4369738 DOI: 10.1038/srep09368] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2014] [Accepted: 03/02/2015] [Indexed: 11/08/2022] Open
Abstract
The ring opening of a dithienylethene photoswitch incorporated in a bridged boron-dipyrromethene - dithienylethene molecular dyad was investigated with ultrafast spectroscopy. Coherent vibrations in the electronic ground state of the boron-dipyrromethene are triggered after selective photoexcitation of the closed dithienylethene indicating vibrational coupling although the two moieties are electronically isolated. A distribution of short-lived modes and a long-lived mode at 143 cm(-1) are observed. Analysis of the theoretical frequency spectrum indicates two modes at 97 cm(-1) and 147 cm(-1) which strongly modulate the electronic transition energy. Both modes exhibit a characteristic displacement of the bridge suggesting that the mechanical momentum of the initial geometry change after photoexcitation of the dithienylethene is transduced to the boron-dipyrromethene. The relaxation to the dithienylethene electronic ground state is accompanied by significant heat dissipation into the surrounding medium. In the investigated dyad, the boron-dipyrromethene acts as probe for the ultrafast photophysical processes in the dithienylethene.
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31
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Schnedermann C, Liebel M, Kukura P. Mode-Specificity of Vibrationally Coherent Internal Conversion in Rhodopsin during the Primary Visual Event. J Am Chem Soc 2015; 137:2886-91. [DOI: 10.1021/ja508941k] [Citation(s) in RCA: 69] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Christoph Schnedermann
- Physical
and Theoretical
Chemistry Laboratory, Oxford University, South Parks Road, Oxford OX1 3QZ, U.K
| | - Matz Liebel
- Physical
and Theoretical
Chemistry Laboratory, Oxford University, South Parks Road, Oxford OX1 3QZ, U.K
| | - Philipp Kukura
- Physical
and Theoretical
Chemistry Laboratory, Oxford University, South Parks Road, Oxford OX1 3QZ, U.K
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32
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Marchand G, Eng J, Schapiro I, Valentini A, Frutos LM, Pieri E, Olivucci M, Léonard J, Gindensperger E. Directionality of Double-Bond Photoisomerization Dynamics Induced by a Single Stereogenic Center. J Phys Chem Lett 2015; 6:599-604. [PMID: 26262473 DOI: 10.1021/jz502644h] [Citation(s) in RCA: 49] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
In light-driven single-molecule rotary motors, the photoisomerization of a double bond converts light energy into the rotation of a moiety (the rotor) with respect to another (the stator). However, at the level of a molecular population, an effective rotary motion can only be achieved if a large majority of the rotors rotate in the same, specific direction. Here we present a quantitative investigation of the directionality (clockwise vs counterclockwise) induced by a single stereogenic center placed in allylic position with respect to the reactive double bond of a model of the biomimetic indanylidene-pyrrolinium framework. By computing ensembles of nonadiabatic trajectories at 300 K, we predict that the photoisomerization is >70% unidirectional for the Z → E and E → Z conversions. Most importantly, we show that such directionality, resulting from the asymmetry of the excited state force field, can still be observed in the presence of a small (ca. 2°) pretwist or helicity of the reactive double bond. This questions the validity of the conjecture that a significant double-bond pretwist (e.g., >10°) in the ground state equilibrium structure of synthetic or natural rotary motors would be required for unidirectional motion.
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Affiliation(s)
- Gabriel Marchand
- ‡Institut de Chimie, Université de Strasbourg, CNRS UMR 7177, 1 rue Blaise Pascal, Strasbourg 67008, France
| | - Julien Eng
- ‡Institut de Chimie, Université de Strasbourg, CNRS UMR 7177, 1 rue Blaise Pascal, Strasbourg 67008, France
| | | | - Alessio Valentini
- §Department of Biotechnology, Chemistry and Pharmacy, University of Siena, via Aldo Moro, 2, Siena 53100, Italy
- ⊥Unidad Docente de Química Física, Universidad de Alcalá, E-28871 Alcalá de Henares, Madrid, Spain
| | - Luis Manuel Frutos
- ⊥Unidad Docente de Química Física, Universidad de Alcalá, E-28871 Alcalá de Henares, Madrid, Spain
| | - Elisa Pieri
- §Department of Biotechnology, Chemistry and Pharmacy, University of Siena, via Aldo Moro, 2, Siena 53100, Italy
| | - Massimo Olivucci
- §Department of Biotechnology, Chemistry and Pharmacy, University of Siena, via Aldo Moro, 2, Siena 53100, Italy
- ∥Chemistry Department, Bowling Green State University, 141 Overman Hall, Bowling Green, Ohio 43403, United States
| | | | - Etienne Gindensperger
- ‡Institut de Chimie, Université de Strasbourg, CNRS UMR 7177, 1 rue Blaise Pascal, Strasbourg 67008, France
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33
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Cheminal A, Léonard J, Kim SY, Jung KH, Kandori H, Haacke S. 100 fs photo-isomerization with vibrational coherences but low quantum yield in Anabaena Sensory Rhodopsin. Phys Chem Chem Phys 2015; 17:25429-39. [DOI: 10.1039/c5cp04353k] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Counter-intuitive photochemistry: in Anabaena Sensory Rhodopsin, the retinal 13-cis isomer isomerizes much faster than all-trans ASR, but with a 3-times lower quantum yield.
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Affiliation(s)
- Alexandre Cheminal
- Institut de Physique et Chimie des Matériaux de Strasbourg & Labex NIE
- Université de Strasbourg – CNRS
- 67034 Strasbourg
- France
| | - Jérémie Léonard
- Institut de Physique et Chimie des Matériaux de Strasbourg & Labex NIE
- Université de Strasbourg – CNRS
- 67034 Strasbourg
- France
| | - So-Young Kim
- Department of Life Science and Institute of Biological Interfaces
- Sogang University
- Mapo-Gu
- South Korea
| | - Kwang-Hwan Jung
- Department of Life Science and Institute of Biological Interfaces
- Sogang University
- Mapo-Gu
- South Korea
| | - Hideki Kandori
- Department of Frontier Materials
- Nagoya Institute of Technology
- Showa-ku
- Japan
| | - Stefan Haacke
- Institut de Physique et Chimie des Matériaux de Strasbourg & Labex NIE
- Université de Strasbourg – CNRS
- 67034 Strasbourg
- France
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34
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Schapiro I, Fusi S, Olivucci M, Andruniów T, Sasidharanpillai S, Loppnow GR. Initial Excited-State Dynamics of an N-Alkylated Indanylidene–Pyrroline (NAIP) Rhodopsin Analog. J Phys Chem B 2014; 118:12243-50. [DOI: 10.1021/jp508060z] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Igor Schapiro
- Department of Chemistry, Bowling Green State University, Bowling Green, Ohio 43403, United States
| | - Stefania Fusi
- Department of Biotechnology, Chemistry and Pharmacy, University of Siena, Siena 53100, Italy
| | - Massimo Olivucci
- Department of Biotechnology, Chemistry and Pharmacy, University of Siena, Siena 53100, Italy
- Department of Chemistry, Bowling Green State University, Bowling Green, Ohio 43403, United States
| | - Tadeusz Andruniów
- Institute of Physical
and Theoretical Chemistry, Wroclaw University of Technology, Wrocław 50-370, Poland
| | | | - Glen R. Loppnow
- Department
of Chemistry, University of Alberta, Edmonton, Alberta T6G 2G2, Canada
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35
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Filatov M, Olivucci M. Designing Conical Intersections for Light-Driven Single Molecule Rotary Motors: From Precessional to Axial Motion. J Org Chem 2014; 79:3587-600. [DOI: 10.1021/jo5004289] [Citation(s) in RCA: 55] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Michael Filatov
- Institut
für Physikalische und Theoretische Chemie, Universität Bonn, Beringstrasse 4, D-53115 Bonn, Germany
| | - Massimo Olivucci
- Dipartimento
di Chimica, Università di Siena, Siena, Italy
- Department
of Chemistry, Bowling Green State University, Bowling Green, Ohio 43403, United States
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36
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Gozem S, Melaccio F, Luk HL, Rinaldi S, Olivucci M. Learning from photobiology how to design molecular devices using a computer. Chem Soc Rev 2014; 43:4019-36. [DOI: 10.1039/c4cs00037d] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Learning how to model photo-responsive proteins may open the way to the design of lightpowered biomimetic molecular devices.
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Affiliation(s)
- S. Gozem
- Department of Chemistry
- Bowling Green State University
- Bowling Green, USA
| | - F. Melaccio
- Dipartimento di Chimica
- Università di Siena
- Siena, Italy
| | - H. L. Luk
- Department of Chemistry
- Bowling Green State University
- Bowling Green, USA
| | - S. Rinaldi
- Dipartimento di Chimica
- Università di Siena
- Siena, Italy
| | - M. Olivucci
- Department of Chemistry
- Bowling Green State University
- Bowling Green, USA
- Dipartimento di Chimica
- Università di Siena
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37
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Renth F, Siewertsen R, Strübe F, Mattay J, Temps F. Ultrafast Z → E photoisomerisation of structurally modified furylfulgides. Phys Chem Chem Phys 2014; 16:19556-63. [DOI: 10.1039/c4cp01739k] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Femtosecond transient absorption spectroscopy of Z-fulgides with selected structural motifs revealed fast and direct excited-state dynamics independent of chemical modifications.
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Affiliation(s)
- Falk Renth
- Institut für Physikalische Chemie
- Christian-Albrechts-Universität zu Kiel
- D-24098 Kiel, Germany
| | - Ron Siewertsen
- Institut für Physikalische Chemie
- Christian-Albrechts-Universität zu Kiel
- D-24098 Kiel, Germany
| | - Frank Strübe
- Organische Chemie I
- Fakultät für Chemie
- Universität Bielefeld
- D-33501 Bielefeld, Germany
| | - Jochen Mattay
- Organische Chemie I
- Fakultät für Chemie
- Universität Bielefeld
- D-33501 Bielefeld, Germany
| | - Friedrich Temps
- Institut für Physikalische Chemie
- Christian-Albrechts-Universität zu Kiel
- D-24098 Kiel, Germany
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García-Iriepa C, Marazzi M, Zapata F, Valentini A, Sampedro D, Frutos LM. Chiral Hydrogen Bond Environment Providing Unidirectional Rotation in Photoactive Molecular Motors. J Phys Chem Lett 2013; 4:1389-96. [PMID: 26282290 DOI: 10.1021/jz302152v] [Citation(s) in RCA: 54] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/15/2023]
Abstract
Generation of a chiral hydrogen bond environment in efficient molecular photoswitches is proposed as a novel strategy for the design of photoactive molecular motors. Here, the following strategy is used to design a retinal-based motor presenting singular properties: (i) a single excitation wavelength is needed to complete the unidirectional rotation process (360°); (ii) the absence of any thermal step permits the process to take place at low temperatures; and (iii) the ultrafast process permits high rotational frequencies.
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Affiliation(s)
- Cristina García-Iriepa
- †Departamento de Quı́mica Fı́sica, Universidad de Alcalá, E-28871 Alcalá de Henares, Madrid, Spain
- ‡Departamento de Quı́mica, Centro de Investigación en Sı́ntesis Química (CISQ), Madre de Dios 51, E-26006 Logroño, Spain
| | - Marco Marazzi
- †Departamento de Quı́mica Fı́sica, Universidad de Alcalá, E-28871 Alcalá de Henares, Madrid, Spain
| | - Felipe Zapata
- †Departamento de Quı́mica Fı́sica, Universidad de Alcalá, E-28871 Alcalá de Henares, Madrid, Spain
| | - Alessio Valentini
- †Departamento de Quı́mica Fı́sica, Universidad de Alcalá, E-28871 Alcalá de Henares, Madrid, Spain
| | - Diego Sampedro
- ‡Departamento de Quı́mica, Centro de Investigación en Sı́ntesis Química (CISQ), Madre de Dios 51, E-26006 Logroño, Spain
| | - Luis Manuel Frutos
- †Departamento de Quı́mica Fı́sica, Universidad de Alcalá, E-28871 Alcalá de Henares, Madrid, Spain
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39
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Léonard J, Polli D, Cerullo G, Olivucci M, Haacke S. Influence of the Chemical Design on the Coherent Photoisomerization of Biomimetic Molecular Switches. EPJ WEB OF CONFERENCES 2013. [DOI: 10.1051/epjconf/20134105006] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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