1
|
Phelps R, Agapaki E, Brechin EK, Johansson JO. Tracking the conical intersection dynamics for the photoinduced Jahn-Teller switch of a Mn(iii) complex. Chem Sci 2024; 15:11956-11964. [PMID: 39092124 PMCID: PMC11290422 DOI: 10.1039/d4sc00145a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2024] [Accepted: 06/24/2024] [Indexed: 08/04/2024] Open
Abstract
Octahedral Mn(iii) ions predominantly exhibit an axially elongated Jahn-Teller (JT) distortion, which is responsible for their large uniaxial magnetic anisotropy. As a result, they are often used in the synthesis of single-molecule magnets (SMMs). Modulation of the JT distortion using femtosecond laser pulses could offer a route to controlling the magnetisation direction, and therefore is promising for the development of data storage devices that work on ultrafast timescales. Photoinduced switching of the distortion from an axially elongated to an axially compressed structure has been demonstrated for various Mn(iii) complexes. However, the dynamics around the region of the conical intersection for the photoinduced JT switch remains unclear. Here, ultrafast transient absorption spectra were recorded for solutions of tris(2,2,6,6-tetramethyl-3,5-heptanedionato)manganese(iii) (Mn(dpm)3) in ethanol to further explore the dynamics of the photoinduced JT switch. We observe the generation of a vibrational wavepacket on the excited state surface, which has a frequency of approximately 155 cm-1 and encompasses a JT-active vibrational mode. This coherent motion is maintained after passage through the conical intersection back to the ground state, which launches wavepackets along the ground state potential energy surface (PES) with frequencies of approximately 180 and 110 cm-1 that we assign to the elongated and compressed state, respectively. Inspection of the relative phases of the frequencies reveals phase shifts that are consistent with a one-mode reaction coordinate, and passes through the conical intersection at 1/4 and 3/4 of the excited state vibrational period. Our results provide direct insights into the non-adiabatic dynamics of Mn(iii) complexes, which can be used to guide the synthesis of optically controlled SMMs.
Collapse
Affiliation(s)
- Ryan Phelps
- EaStCHEM School of Chemistry, University of Edinburgh David Brewster Road EH9 3FJ Edinburgh UK
| | - Eleftheria Agapaki
- EaStCHEM School of Chemistry, University of Edinburgh David Brewster Road EH9 3FJ Edinburgh UK
| | - Euan K Brechin
- EaStCHEM School of Chemistry, University of Edinburgh David Brewster Road EH9 3FJ Edinburgh UK
| | - J Olof Johansson
- EaStCHEM School of Chemistry, University of Edinburgh David Brewster Road EH9 3FJ Edinburgh UK
| |
Collapse
|
2
|
Wang J, Dong B, Zhang M, Deng Y, Jian X, Li Z, Liu Y. Ultrafast Imaging of Jahn-Teller Distortion and the Correlated Proton Migration in Photoionized Cyclopropane. J Am Chem Soc 2024; 146:10443-10450. [PMID: 38530937 DOI: 10.1021/jacs.3c13999] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/28/2024]
Abstract
The Jahn-Teller (JT) distortion is one of the fundamental processes in molecules and condensed phase matters. For photoionized organic molecules with high symmetry, the JT effect leads to geometric instability in certain electron configurations and thus has a significant effect on the subsequent isomerization and proton migration processes. Utilizing the femtosecond pump-probe Coulomb explosion method, we probe the isomerization dynamics process of a monovalent cyclopropane cation (C3H6+) caused by proton migration and reveal the relationship between proton migration and JT distortion. We found that the C3H6+ cation evolves from the D3h symmetric equilateral triangle geometry either to the acute triangle via two elongated C-C bonds (JT1) or to the obtuse triangle via a single elongated C-C bond (JT2). The JT1 pathway does not involve proton migration, while the JT2 pathway drives proton migration and can be mapped into the indirect dissociation channel of Coulomb explosion. The time-resolved experiment indicates that the delay time between those two JT pathways can be as large as ∼600 fs. After the JT distortion, the cyclopropane cation undergoes a subsequent structural evolution, which brings a greater variety of dissociation channels.
Collapse
Affiliation(s)
- Jiguo Wang
- State Key Laboratory for Mesoscopic Physics, School of Physics, Peking University, Beijing 100871, China
| | - Bowen Dong
- State Key Laboratory for Mesoscopic Physics, School of Physics, Peking University, Beijing 100871, China
| | - Ming Zhang
- State Key Laboratory for Mesoscopic Physics, School of Physics, Peking University, Beijing 100871, China
| | - Yongkai Deng
- State Key Laboratory for Mesoscopic Physics, School of Physics, Peking University, Beijing 100871, China
| | - Xiaopeng Jian
- State Key Laboratory for Mesoscopic Physics, School of Physics, Peking University, Beijing 100871, China
| | - Zheng Li
- State Key Laboratory for Mesoscopic Physics, School of Physics, Peking University, Beijing 100871, China
- Collaborative Innovation Center of Extreme Optics, Shanxi University, Taiyuan, Shanxi 030006, China
- Peking University Yangtze Delta Institute of Optoelectronics, Nantong, Jiangsu 226010, China
| | - Yunquan Liu
- State Key Laboratory for Mesoscopic Physics, School of Physics, Peking University, Beijing 100871, China
- Collaborative Innovation Center of Extreme Optics, Shanxi University, Taiyuan, Shanxi 030006, China
- Center for Applied Physics and Technology, HEDPS, Peking University, Beijing 100871, China
| |
Collapse
|
3
|
Perrett S, Chatrchyan V, Buckup T, van Thor JJ. Application of density matrix Wigner transforms for ultrafast macromolecular and chemical x-ray crystallography. J Chem Phys 2024; 160:100901. [PMID: 38456527 DOI: 10.1063/5.0188888] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2023] [Accepted: 02/12/2024] [Indexed: 03/09/2024] Open
Abstract
Time-Resolved Serial Femtosecond Crystallography (TR-SFX) conducted at X-ray Free Electron Lasers (XFELs) has become a powerful tool for capturing macromolecular structural movies of light-initiated processes. As the capabilities of XFELs advance, we anticipate that a new range of coherent control and structural Raman measurements will become achievable. Shorter optical and x-ray pulse durations and increasingly more exotic pulse regimes are becoming available at free electron lasers. Moreover, with high repetition enabled by the superconducting technology of European XFEL (EuXFEL) and Linac Coherent Light Source (LCLS-II) , it will be possible to improve the signal-to-noise ratio of the light-induced differences, allowing for the observation of vibronic motion on the sub-Angstrom level. To predict and assign this coherent motion, which is measurable with a structural technique, new theoretical approaches must be developed. In this paper, we present a theoretical density matrix approach to model the various population and coherent dynamics of a system, which considers molecular system parameters and excitation conditions. We emphasize the use of the Wigner transform of the time-dependent density matrix, which provides a phase space representation that can be directly compared to the experimental positional displacements measured in a TR-SFX experiment. Here, we extend the results from simple models to include more realistic schemes that include large relaxation terms. We explore a variety of pulse schemes using multiple model systems using realistic parameters. An open-source software package is provided to perform the density matrix simulation and Wigner transformations. The open-source software allows us to define any arbitrary level schemes as well as any arbitrary electric field in the interaction Hamiltonian.
Collapse
Affiliation(s)
- Samuel Perrett
- Department of Life Sciences, Faculty of Natural Sciences, Imperial College London, London, United Kingdom
| | - Viktoria Chatrchyan
- Physikalisch Chemisches Institut, Ruprecht-Karls Universität, D-69120 Heidelberg, Germany
| | - Tiago Buckup
- Physikalisch Chemisches Institut, Ruprecht-Karls Universität, D-69120 Heidelberg, Germany
| | - Jasper J van Thor
- Department of Life Sciences, Faculty of Natural Sciences, Imperial College London, London, United Kingdom
| |
Collapse
|
4
|
Francis WJC, Grewal H, Wainwright AAC, Yang X, Olivucci M, Miller RJD. Resonant multiphoton processes and excitation limits to structural dynamics. STRUCTURAL DYNAMICS (MELVILLE, N.Y.) 2024; 11:024301. [PMID: 38433875 PMCID: PMC10908556 DOI: 10.1063/4.0000239] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/20/2023] [Accepted: 02/13/2024] [Indexed: 03/05/2024]
Abstract
Understanding the chemical reactions that give rise to functional biological systems is at the core of structural biology. As techniques are developed to study the chemical reactions that drive biological processes, it must be ensured that the reaction occurring is indeed a biologically relevant pathway. There is mounting evidence indicating that there has been a propagation of systematic error in the study of photoactive biological processes; the optical methods used to probe the structural dynamics of light activated protein functions have failed to ensure that the photoexcitation prepares a well-defined initial state relevant to the biological process of interest. Photoexcitation in nature occurs in the linear (one-photon per chromophore) regime; however, the extreme excitation conditions used experimentally give rise to biologically irrelevant multiphoton absorption. To evaluate and ensure the biological relevance of past and future experiments, a theoretical framework has been developed to determine the excitation conditions, which lead to resonant multiphoton absorption (RMPA) and thus define the excitation limit in general for the study of structural dynamics within the 1-photon excitation regime. Here, we apply the theoretical model to bacteriorhodopsin (bR) and show that RMPA occurs when excitation conditions exceed the linear saturation threshold, well below typical excitation conditions used in this class of experiments. This work provides the guidelines to ensure excitation in the linear 1-photon regime is relevant to biological and chemical processes.
Collapse
Affiliation(s)
- William J C Francis
- Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario M5S 3H6, Canada and Department of Physics, University of Toronto, 60 St. George Street, Toronto, Ontario M5S 3J1, Canada
| | - Harmanjot Grewal
- Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario M5S 3H6, Canada and Department of Physics, University of Toronto, 60 St. George Street, Toronto, Ontario M5S 3J1, Canada
| | - Alexander A C Wainwright
- Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario M5S 3H6, Canada and Department of Physics, University of Toronto, 60 St. George Street, Toronto, Ontario M5S 3J1, Canada
| | | | | | - R J Dwayne Miller
- Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario M5S 3H6, Canada and Department of Physics, University of Toronto, 60 St. George Street, Toronto, Ontario M5S 3J1, Canada
| |
Collapse
|
5
|
Rouse DM, Kushwaha A, Tomasi S, Lovett BW, Gauger EM, Kassal I. Light-Harvesting Efficiency Cannot Depend on Optical Coherence in the Absence of Orientational Order. J Phys Chem Lett 2024; 15:254-261. [PMID: 38165172 DOI: 10.1021/acs.jpclett.3c02847] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2024]
Abstract
The coherence of light has been proposed as a quantum-mechanical control for enhancing light-harvesting efficiency. In particular, optical coherence can be manipulated by changing either the polarization state or the spectral phase of the light. Here, we show that, in weak light, light-harvesting efficiency cannot be controlled using any form of optical coherence in molecular light-harvesting systems and, more broadly, those comprising orientationally disordered subunits and operating on longer-than-ultrafast time scales. Under those conditions, optical coherence does not affect the light-harvesting efficiency, meaning that it cannot be used for control. Specifically, polarization-state control is lost in disordered samples or when the molecules reorient on the time scales of light harvesting, and spectral-phase control is lost when the efficiency is time-averaged over a period longer than the optical coherence time. In practice, efficiency is always averaged over long times, meaning that coherent optical control is only possible through polarization and only in systems with orientational order.
Collapse
Affiliation(s)
- Dominic M Rouse
- School of Physics and Astronomy, University of Glasgow, Glasgow G12 8QQ, United Kingdom
- Department of Physics and Astronomy, University of Manchester, Manchester M13 9PL, United Kingdom
| | - Adesh Kushwaha
- School of Chemistry and University of Sydney Nano Institute, University of Sydney, Sydney, NSW 2006, Australia
| | - Stefano Tomasi
- School of Chemistry and University of Sydney Nano Institute, University of Sydney, Sydney, NSW 2006, Australia
| | - Brendon W Lovett
- SUPA, School of Physics and Astronomy, University of St Andrews, St Andrews KY16 9SS, United Kingdom
| | - Erik M Gauger
- SUPA, Institute of Photonics and Quantum Sciences, Heriot-Watt University, Edinburgh EH14 4AS, United Kingdom
| | - Ivan Kassal
- School of Chemistry and University of Sydney Nano Institute, University of Sydney, Sydney, NSW 2006, Australia
| |
Collapse
|
6
|
Liu N, Zhang Y, Niu K, Lu F, Zhong D. Optical Control of Crossing the Conical Intersection in β-Carotene. J Phys Chem Lett 2023; 14:9215-9221. [PMID: 37811837 DOI: 10.1021/acs.jpclett.3c01932] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/10/2023]
Abstract
Optical control of dynamic processes has been challenging yet has only been demonstrated in several chemical and biological systems. The control of a reaction passing the widely present conical intersection has not been realized. Here, we modulated the phase of the excitation pulse to control the dynamics of β-carotene through accessing the conical intersection (CI). We observed different dynamics in 110-220 fs into the CI and the consecutive process in 400-600 fs through another CI by various chirped excitation pulses. We successfully controlled those ultrafast wavepacket dynamics passing the CIs on the femtosecond time scales. The method developed here can be used to control a various of ultrafast chemical and biological reactions through the CI(s).
Collapse
Affiliation(s)
| | | | | | | | - Dongping Zhong
- Department of Physics, Department of Chemistry and Biochemistry, and Program of Biophysics, Program of Chemical Physics, and Program of Biochemistry, The Ohio State University, Columbus, Ohio 43210, United States
| |
Collapse
|
7
|
Aerts A, Jolly SW, Kockaert P, Gorza SP, Auwera JV, Vaeck N. Modulated super-Gaussian laser pulse to populate a dark rovibrational state of acetylene. J Chem Phys 2023; 159:084303. [PMID: 37638622 DOI: 10.1063/5.0160526] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2023] [Accepted: 08/10/2023] [Indexed: 08/29/2023] Open
Abstract
A pulse-shaping technique in the mid-infrared spectral range based on pulses with a super-Gaussian temporal profile is considered for laser control. We show a realistic and efficient path to the population of a dark rovibrational state in acetylene (C2H2). The laser-induced dynamics in C2H2 are simulated using fully experimental structural parameters. Indeed, the rotation-vibration energy structure, including anharmonicities, is defined by the global spectroscopic Hamiltonian for the ground electronic state of C2H2 built from the extensive high-resolution spectroscopy studies on the molecule, transition dipole moments from intensities, and the effects of the (inelastic) collisions that are parameterized from line broadenings using the relaxation matrix [A. Aerts, J. Vander Auwera, and N. Vaeck, J. Chem. Phys. 154, 144308 (2021)]. The approach, based on an effective Hamiltonian, outperforms today's ab initio computations both in terms of accuracy and computational cost for this class of molecules. With such accuracy, the Hamiltonian permits studying the inner mechanism of theoretical pulse shaping [A. Aerts et al., J. Chem. Phys. 156, 084302 (2022)] for laser quantum control. Here, the generated control pulse presents a number of interferences that take advantage of the control mechanism to populate the dark state. An experimental setup is proposed for in-laboratory investigation.
Collapse
Affiliation(s)
- Antoine Aerts
- Université Libre de Bruxelles, Spectroscopy, Quantum Chemistry and Atmospheric Remote Sensing (SQUARES), 50 Avenue F. Roosevelt, C.P. 160/09, Brussels 1050, Belgium
| | - Spencer W Jolly
- Université Libre de Bruxelles, OPERA-Photonique, 50 Avenue F. Roosevelt, C.P. 194/05, Brussels 1050, Belgium
| | - Pascal Kockaert
- Université Libre de Bruxelles, OPERA-Photonique, 50 Avenue F. Roosevelt, C.P. 194/05, Brussels 1050, Belgium
| | - Simon-Pierre Gorza
- Université Libre de Bruxelles, OPERA-Photonique, 50 Avenue F. Roosevelt, C.P. 194/05, Brussels 1050, Belgium
| | - Jean Vander Auwera
- Université Libre de Bruxelles, Spectroscopy, Quantum Chemistry and Atmospheric Remote Sensing (SQUARES), 50 Avenue F. Roosevelt, C.P. 160/09, Brussels 1050, Belgium
| | - Nathalie Vaeck
- Université Libre de Bruxelles, Spectroscopy, Quantum Chemistry and Atmospheric Remote Sensing (SQUARES), 50 Avenue F. Roosevelt, C.P. 160/09, Brussels 1050, Belgium
| |
Collapse
|
8
|
Fadini A, Hutchison CDM, Morozov D, Chang J, Maghlaoui K, Perrett S, Luo F, Kho JCX, Romei MG, Morgan RML, Orr CM, Cordon-Preciado V, Fujiwara T, Nuemket N, Tosha T, Tanaka R, Owada S, Tono K, Iwata S, Boxer SG, Groenhof G, Nango E, van Thor JJ. Serial Femtosecond Crystallography Reveals that Photoactivation in a Fluorescent Protein Proceeds via the Hula Twist Mechanism. J Am Chem Soc 2023. [PMID: 37418747 PMCID: PMC10375524 DOI: 10.1021/jacs.3c02313] [Citation(s) in RCA: 9] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/09/2023]
Abstract
Chromophore cis/trans photoisomerization is a fundamental process in chemistry and in the activation of many photosensitive proteins. A major task is understanding the effect of the protein environment on the efficiency and direction of this reaction compared to what is observed in the gas and solution phases. In this study, we set out to visualize the hula twist (HT) mechanism in a fluorescent protein, which is hypothesized to be the preferred mechanism in a spatially constrained binding pocket. We use a chlorine substituent to break the twofold symmetry of the embedded phenolic group of the chromophore and unambiguously identify the HT primary photoproduct. Through serial femtosecond crystallography, we then track the photoreaction from femtoseconds to the microsecond regime. We observe signals for the photoisomerization of the chromophore as early as 300 fs, obtaining the first experimental structural evidence of the HT mechanism in a protein on its femtosecond-to-picosecond timescale. We are then able to follow how chromophore isomerization and twisting lead to secondary structure rearrangements of the protein β-barrel across the time window of our measurements.
Collapse
Affiliation(s)
- Alisia Fadini
- Department of Life Sciences, Faculty of Natural Sciences, Imperial College London, London SW7 2AZ, U.K
| | - Christopher D M Hutchison
- Department of Life Sciences, Faculty of Natural Sciences, Imperial College London, London SW7 2AZ, U.K
| | - Dmitry Morozov
- Nanoscience Center and Department of Chemistry, University of Jyväskylä, Jyväskylä 40014, Finland
| | - Jeffrey Chang
- Department of Physics, Stanford University, Stanford, California 94305, United States
| | - Karim Maghlaoui
- Department of Life Sciences, Faculty of Natural Sciences, Imperial College London, London SW7 2AZ, U.K
| | - Samuel Perrett
- Department of Life Sciences, Faculty of Natural Sciences, Imperial College London, London SW7 2AZ, U.K
| | - Fangjia Luo
- RIKEN Spring-8 Center, 1-1-1 Kouto, Sayo, Sayo, Hyogo 679-5148, Japan
| | - Jeslyn C X Kho
- Department of Life Sciences, Faculty of Natural Sciences, Imperial College London, London SW7 2AZ, U.K
| | - Matthew G Romei
- Department of Chemistry, Stanford University, Stanford, California 94305, United States
| | - R Marc L Morgan
- Department of Life Sciences, Faculty of Natural Sciences, Imperial College London, London SW7 2AZ, U.K
| | - Christian M Orr
- Diamond Light Source Ltd, Harwell Science & Innovation Campus, Didcot OX11 0DE, U.K
| | - Violeta Cordon-Preciado
- Department of Life Sciences, Faculty of Natural Sciences, Imperial College London, London SW7 2AZ, U.K
| | - Takaaki Fujiwara
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, 2-1-1 Katahira, Aoba, Sendai, Miyagi 980-8577, Japan
| | - Nipawan Nuemket
- RIKEN Spring-8 Center, 1-1-1 Kouto, Sayo, Sayo, Hyogo 679-5148, Japan
- Department of Cell Biology, Graduate School of Medicine, Kyoto University, Yoshidakonoe, Sakyo, Kyoto 606-8501, Japan
| | - Takehiko Tosha
- RIKEN Spring-8 Center, 1-1-1 Kouto, Sayo, Sayo, Hyogo 679-5148, Japan
| | - Rie Tanaka
- RIKEN Spring-8 Center, 1-1-1 Kouto, Sayo, Sayo, Hyogo 679-5148, Japan
- Department of Cell Biology, Graduate School of Medicine, Kyoto University, Yoshidakonoe, Sakyo, Kyoto 606-8501, Japan
| | - Shigeki Owada
- RIKEN Spring-8 Center, 1-1-1 Kouto, Sayo, Sayo, Hyogo 679-5148, Japan
- Japan Synchrotron Radiation Research Institute, 1-1-1 Kouto, Sayo, Sayo, Hyogo 679-5198, Japan
| | - Kensuke Tono
- RIKEN Spring-8 Center, 1-1-1 Kouto, Sayo, Sayo, Hyogo 679-5148, Japan
- Japan Synchrotron Radiation Research Institute, 1-1-1 Kouto, Sayo, Sayo, Hyogo 679-5198, Japan
| | - So Iwata
- RIKEN Spring-8 Center, 1-1-1 Kouto, Sayo, Sayo, Hyogo 679-5148, Japan
- Department of Cell Biology, Graduate School of Medicine, Kyoto University, Yoshidakonoe, Sakyo, Kyoto 606-8501, Japan
| | - Steven G Boxer
- Department of Chemistry, Stanford University, Stanford, California 94305, United States
| | - Gerrit Groenhof
- Nanoscience Center and Department of Chemistry, University of Jyväskylä, Jyväskylä 40014, Finland
| | - Eriko Nango
- RIKEN Spring-8 Center, 1-1-1 Kouto, Sayo, Sayo, Hyogo 679-5148, Japan
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, 2-1-1 Katahira, Aoba, Sendai, Miyagi 980-8577, Japan
| | - Jasper J van Thor
- Department of Life Sciences, Faculty of Natural Sciences, Imperial College London, London SW7 2AZ, U.K
| |
Collapse
|
9
|
Howard AJ, Britton M, Streeter ZL, Cheng C, Forbes R, Reynolds JL, Allum F, McCracken GA, Gabalski I, Lucchese RR, McCurdy CW, Weinacht T, Bucksbaum PH. Filming enhanced ionization in an ultrafast triatomic slingshot. Commun Chem 2023; 6:81. [PMID: 37106058 PMCID: PMC10140156 DOI: 10.1038/s42004-023-00882-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2022] [Accepted: 04/13/2023] [Indexed: 04/29/2023] Open
Abstract
Filming atomic motion within molecules is an active pursuit of molecular physics and quantum chemistry. A promising method is laser-induced Coulomb Explosion Imaging (CEI) where a laser pulse rapidly ionizes many electrons from a molecule, causing the remaining ions to undergo Coulomb repulsion. The ion momenta are used to reconstruct the molecular geometry which is tracked over time (i.e., filmed) by ionizing at an adjustable delay with respect to the start of interatomic motion. Results are distorted, however, by ultrafast motion during the ionizing pulse. We studied this effect in water and filmed the rapid "slingshot" motion that enhances ionization and distorts CEI results. Our investigation uncovered both the geometry and mechanism of the enhancement which may inform CEI experiments in many other polyatomic molecules.
Collapse
Affiliation(s)
- Andrew J Howard
- Department of Applied Physics, Stanford University, Stanford, CA, 94305, USA.
- Stanford PULSE Institute, SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA, 94025, USA.
| | - Mathew Britton
- Stanford PULSE Institute, SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA, 94025, USA
- Department of Physics, Stanford University, Stanford, CA, 94305, USA
| | - Zachary L Streeter
- Department of Chemistry, University of California, Davis, Davis, CA, 95616, USA
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Chuan Cheng
- Department of Physics and Astronomy, Stony Brook University, Stony Brook, NY, 11794, USA
| | - Ruaridh Forbes
- Stanford PULSE Institute, SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA, 94025, USA
- Linac Coherent Light Source, SLAC National Accelerator Laboratory, Menlo Park, CA, 94025, USA
| | - Joshua L Reynolds
- Department of Applied Physics, Stanford University, Stanford, CA, 94305, USA
| | - Felix Allum
- Stanford PULSE Institute, SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA, 94025, USA
- Linac Coherent Light Source, SLAC National Accelerator Laboratory, Menlo Park, CA, 94025, USA
| | - Gregory A McCracken
- Department of Applied Physics, Stanford University, Stanford, CA, 94305, USA
- Stanford PULSE Institute, SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA, 94025, USA
| | - Ian Gabalski
- Department of Applied Physics, Stanford University, Stanford, CA, 94305, USA
- Stanford PULSE Institute, SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA, 94025, USA
| | - Robert R Lucchese
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - C William McCurdy
- Department of Chemistry, University of California, Davis, Davis, CA, 95616, USA
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Thomas Weinacht
- Department of Physics and Astronomy, Stony Brook University, Stony Brook, NY, 11794, USA
| | - Philip H Bucksbaum
- Department of Applied Physics, Stanford University, Stanford, CA, 94305, USA.
- Stanford PULSE Institute, SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA, 94025, USA.
- Department of Physics, Stanford University, Stanford, CA, 94305, USA.
- Linac Coherent Light Source, SLAC National Accelerator Laboratory, Menlo Park, CA, 94025, USA.
| |
Collapse
|
10
|
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.
Collapse
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
| |
Collapse
|
11
|
Chuang C, Brumer P. Steady State Photoisomerization Quantum Yield of Model Rhodopsin: Insights from Wavepacket Dynamics? J Phys Chem Lett 2022; 13:4963-4970. [PMID: 35639452 DOI: 10.1021/acs.jpclett.2c01200] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
We simulate the nonequilibrium steady state cis-trans photoisomerization of retinal chromophore in rhodopsin on the basis of a two-state, two-mode model coupled to a thermal environment. By analyzing the systematic trends within an inhomogeneously broadened ensemble of systems, we find that the steady state reaction quantum yield (QY) correlates strongly with the excess energy above the crossing point of the system, in agreement with the prediction of the short-time dynamical wavepacket picture. However, the nontrivial dependence of the QY on the system-environment interaction indicates that a pure dynamical picture is insufficient and that environment-induced partial internal energy redistribution takes place before the reaction concludes. These results imply that a proper treatment of the photoisomerization reaction, particularly its high QY, must account for the redistribution and dissipation of energy beyond the dynamical wavepacket motion that is typically employed in the literature and that is appropriate only in the transient regime.
Collapse
Affiliation(s)
- Chern Chuang
- Chemical Physics Theory Group, Department of Chemistry, and Center for Quantum Information and Quantum Control, University of Toronto, Toronto, Ontario M5S 3H6, Canada
| | - Paul Brumer
- Chemical Physics Theory Group, Department of Chemistry, and Center for Quantum Information and Quantum Control, University of Toronto, Toronto, Ontario M5S 3H6, Canada
| |
Collapse
|
12
|
Abstract
Bacteriorhodopsin is a seven-helix light-driven proton-pump that was structurally and functionally extensively studied. Despite a wealth of data, the single molecule kinetics of the reaction cycle remain unknown. Here, we use high-speed atomic force microscopy methods to characterize the single molecule kinetics of wild-type bR exposed to continuous light and short pulses. Monitoring bR conformational changes with millisecond temporal resolution, we determine that the cytoplasmic gate opens 2.9 ms after photon absorption, and stays open for proton capture for 13.2 ms. Surprisingly, a previously active protomer cannot be reactivated for another 37.6 ms, even under excess continuous light, giving a single molecule reaction cycle of ~20 s−1. The reaction cycle slows at low light where the closed state is prolonged, and at basic or acidic pH where the open state is extended. Here, the authors use high-speed atomic force microscopy (HS-AFM) methods to characterize the single molecule kinetics of wild-type bacteriorhodopsin (bR) with millisecond temporal resolution, providing new insights into the bR conformational cycle.
Collapse
|
13
|
Renken S, Pandya R, Georgiou K, Jayaprakash R, Gai L, Shen Z, Lidzey DG, Rao A, Musser AJ. Untargeted effects in organic exciton-polariton transient spectroscopy: A cautionary tale. J Chem Phys 2021; 155:154701. [PMID: 34686047 DOI: 10.1063/5.0063173] [Citation(s) in RCA: 25] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Strong light-matter coupling to form exciton- and vibropolaritons is increasingly touted as a powerful tool to alter the fundamental properties of organic materials. It is proposed that these states and their facile tunability can be used to rewrite molecular potential energy landscapes and redirect photophysical pathways, with applications from catalysis to electronic devices. Crucial to their photophysical properties is the exchange of energy between coherent, bright polaritons and incoherent dark states. One of the most potent tools to explore this interplay is transient absorption/reflectance spectroscopy. Previous studies have revealed unexpectedly long lifetimes of the coherent polariton states, for which there is no theoretical explanation. Applying these transient methods to a series of strong-coupled organic microcavities, we recover similar long-lived spectral effects. Based on transfer-matrix modeling of the transient experiment, we find that virtually the entire photoresponse results from photoexcitation effects other than the generation of polariton states. Our results suggest that the complex optical properties of polaritonic systems make them especially prone to misleading optical signatures and that more challenging high-time-resolution measurements on high-quality microcavities are necessary to uniquely distinguish the coherent polariton dynamics.
Collapse
Affiliation(s)
- Scott Renken
- Department of Chemistry and Chemical Biology, Cornell University, Ithaca, New York 14853, USA
| | - Raj Pandya
- Cavendish Laboratory, University of Cambridge, JJ Thomson Avenue, CB3 0HE Cambridge, United Kingdom
| | - Kyriacos Georgiou
- Department of Physics and Astronomy, University of Sheffield, Sheffield, United Kingdom
| | - Rahul Jayaprakash
- Department of Physics and Astronomy, University of Sheffield, Sheffield, United Kingdom
| | - Lizhi Gai
- Key Laboratory of Organosilicon Chemistry and Material Technology, Ministry of Education, Hangzhou Normal University, Hangzhou 311121, China
| | - Zhen Shen
- State Key Laboratory of Coordination and Chemistry, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210046, China
| | - David G Lidzey
- Department of Physics and Astronomy, University of Sheffield, Sheffield, United Kingdom
| | - Akshay Rao
- Cavendish Laboratory, University of Cambridge, JJ Thomson Avenue, CB3 0HE Cambridge, United Kingdom
| | - Andrew J Musser
- Department of Chemistry and Chemical Biology, Cornell University, Ithaca, New York 14853, USA
| |
Collapse
|
14
|
Merritt ICD, Jacquemin D, Vacher M. Attochemistry: Is Controlling Electrons the Future of Photochemistry? J Phys Chem Lett 2021; 12:8404-8415. [PMID: 34436903 DOI: 10.1021/acs.jpclett.1c02016] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Controlling matter with light has always been a great challenge, leading to the ever-expanding field of photochemistry. In addition, since the first generation of light pulses of attosecond (1 as = 10-18 s) duration, a great deal of effort has been devoted to observing and controlling electrons on their intrinsic time scale. Because of their short duration, attosecond pulses have a large spectral bandwidth populating several electronically excited states in a coherent manner, i.e., an electronic wavepacket. Because of interference, such a wavepacket has a new electronic distribution implying a potentially different and totally new reactivity as compared to traditional photochemistry, leading to the novel concept of "attochemistry". This nascent field requires the support of theory right from the start. In this Perspective, we discuss the opportunities offered by attochemistry, the related challenges, and the current and future state-of-the-art developments in theoretical chemistry needed to model it accurately.
Collapse
Affiliation(s)
| | - Denis Jacquemin
- Université de Nantes, CNRS, CEISAM, UMR 6230, F-44000 Nantes, France
| | - Morgane Vacher
- Université de Nantes, CNRS, CEISAM, UMR 6230, F-44000 Nantes, France
| |
Collapse
|
15
|
Keefer D, Rouxel JR, Aleotti F, Segatta F, Garavelli M, Mukamel S. Diffractive Imaging of Conical Intersections Amplified by Resonant Infrared Fields. J Am Chem Soc 2021; 143:13806-13815. [PMID: 34402612 DOI: 10.1021/jacs.1c06068] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
The fate of virtually all photochemical reactions is determined by conical intersections. These are energetically degenerate regions of molecular potential energy surfaces that strongly couple electronic states, thereby enabling fast relaxation channels. Their direct spectroscopic detection relies on weak features that are often buried beneath stronger, less interesting contributions. For azobenzene photoisomerization, a textbook photochemical reaction, we demonstrate how a resonant infrared field can be employed during the conical intersection passage to significantly enhance its coherence signatures in time-resolved X-ray diffraction while leaving the product yield intact. This transition-state amplification holds promise to bring signals of conical intersections above the detection threshold.
Collapse
Affiliation(s)
- Daniel Keefer
- Departments of Chemistry and Physics & Astronomy, University of California, Irvine, California 92697-2025, United States
| | - Jérémy R Rouxel
- University Lyon, UJM-Saint-Étienne, CNRS, Graduate School Optics Institute, Laboratoire Hubert Curien UMR 5516, Saint-Étienne 42023, France
| | - Flavia Aleotti
- Dipartimento di Chimica Industriale, Università degli Studi di Bologna, Viale del Risorgimento 4, I-40136 Bologna, Italy
| | - Francesco Segatta
- Dipartimento di Chimica Industriale, Università degli Studi di Bologna, Viale del Risorgimento 4, I-40136 Bologna, Italy
| | - Marco Garavelli
- Dipartimento di Chimica Industriale, Università degli Studi di Bologna, Viale del Risorgimento 4, I-40136 Bologna, Italy
| | - Shaul Mukamel
- Departments of Chemistry and Physics & Astronomy, University of California, Irvine, California 92697-2025, United States
| |
Collapse
|
16
|
Keefer D, Mukamel S. Selective Enhancement of Spectroscopic Features by Quantum Optimal Control. PHYSICAL REVIEW LETTERS 2021; 126:163202. [PMID: 33961451 DOI: 10.1103/physrevlett.126.163202] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/26/2021] [Revised: 03/12/2021] [Accepted: 03/16/2021] [Indexed: 06/12/2023]
Abstract
Tailored light can be used to steer atomic motions into selected quantum pathways. In optimal control theory (OCT), the target is usually expressed in terms of the molecular wave function, a quantity that is not directly observable in experiment. We present simulations using OCT that optimize the spectroscopic signal itself. By shaping the optical pump, the x-ray stimulated Raman signal, which occurs solely during the passage through conical intersections, is temporally controlled and amplified by up to 2 orders of magnitude. This enhancement can be crucial in order to bring small coherence-based signatures above the detectable threshold. Our approach is applicable to any signal that depends on the expectation value of a positive definite operator.
Collapse
Affiliation(s)
- Daniel Keefer
- Departments of Chemistry and Physics and Astronomy, University of California, Irvine, California 92697-2025, USA
| | - Shaul Mukamel
- Departments of Chemistry and Physics and Astronomy, University of California, Irvine, California 92697-2025, USA
| |
Collapse
|
17
|
Chuang C, Brumer P. Extreme Parametric Sensitivity in the Steady-State Photoisomerization of Two-Dimensional Model Rhodopsin. J Phys Chem Lett 2021; 12:3618-3624. [PMID: 33825472 DOI: 10.1021/acs.jpclett.1c00577] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
We computationally studied the photoisomerization reaction of the retinal chromophore in rhodopsin using a two-state two-mode model coupled to thermal baths. Reaction quantum yields at the steady state (10 ps and beyond) were found to be considerably different than their transient values, suggesting a weak correlation between transient and steady-state dynamics in these systems. Significantly, the steady-state quantum yield was highly sensitive to minute changes in system parameters, while transient dynamics was nearly unaffected. Correlation of such sensitivity with standard level spacing statistics of the nonadiabatic vibronic system suggests a possible origin in quantum chaos. The significance of this observation of quantum yield parametric sensitivity in biological models of vision has profound conceptual and fundamental implications.
Collapse
Affiliation(s)
- Chern Chuang
- Chemical Physics Theory Group, Department of Chemistry, and Center for Quantum Information and Quantum Control, University of Toronto, Toronto, Ontario M5S 3H6, Canada
| | - Paul Brumer
- Chemical Physics Theory Group, Department of Chemistry, and Center for Quantum Information and Quantum Control, University of Toronto, Toronto, Ontario M5S 3H6, Canada
| |
Collapse
|
18
|
Gaulier G, Dietschi Q, Bhattacharyya S, Schmidt C, Montagnese M, Chauvet A, Hermelin S, Chiodini F, Bonacina L, Herrera PL, Rothlisberger U, Rodriguez I, Wolf JP. Ultrafast pulse shaping modulates perceived visual brightness in living animals. SCIENCE ADVANCES 2021; 7:7/18/eabe1911. [PMID: 33910906 PMCID: PMC8081367 DOI: 10.1126/sciadv.abe1911] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/05/2020] [Accepted: 03/09/2021] [Indexed: 06/12/2023]
Abstract
Vision is usually assumed to be sensitive to the light intensity and spectrum but not to its spectral phase. However, experiments performed on retinal proteins in solution showed that the first step of vision consists in an ultrafast photoisomerization that can be coherently controlled by shaping the phase of femtosecond laser pulses, especially in the multiphoton interaction regime. The link between these experiments in solution and the biological process allowing vision was not demonstrated. Here, we measure the electric signals fired from the retina of living mice upon femtosecond multipulse and single-pulse light stimulation. Our results show that the electrophysiological signaling is sensitive to the manipulation of the light excitation on a femtosecond time scale. The mechanism relies on multiple interactions with the light pulses close to the conical intersection, like pump-dump (photoisomerization interruption) and pump-repump (reverse isomerization) processes. This interpretation is supported both experimentally and by dynamics simulations.
Collapse
Affiliation(s)
- Geoffrey Gaulier
- Group of Applied Physics, University of Geneva, 22 Ch. de Pinchat, 1211 Geneva, Switzerland
| | - Quentin Dietschi
- Department of Genetics and Evolution, University of Geneva, 30 Quai Ansermet, 1211 Geneva, Switzerland
| | - Swarnendu Bhattacharyya
- Institute of Chemical Sciences and Engineering, Ecole Polytechnique Fédérale de Lausanne, 1015 Lausanne, Switzerland
| | - Cédric Schmidt
- Group of Applied Physics, University of Geneva, 22 Ch. de Pinchat, 1211 Geneva, Switzerland
| | - Matteo Montagnese
- Group of Applied Physics, University of Geneva, 22 Ch. de Pinchat, 1211 Geneva, Switzerland
| | - Adrien Chauvet
- Group of Applied Physics, University of Geneva, 22 Ch. de Pinchat, 1211 Geneva, Switzerland
| | - Sylvain Hermelin
- Group of Applied Physics, University of Geneva, 22 Ch. de Pinchat, 1211 Geneva, Switzerland
| | - Florence Chiodini
- Biobanque de tissus thérapeutiques, Department of Diagnostic, University Hospitals of Geneva, Rue Gabrielle-Perret-Gentil 4, 1205 Geneva, Switzerland
| | - Luigi Bonacina
- Group of Applied Physics, University of Geneva, 22 Ch. de Pinchat, 1211 Geneva, Switzerland
| | - Pedro L Herrera
- Department of Genetic Medicine and Development, University of Geneva, 1 Rue Michel-Servet, 1211 Geneva, Switzerland
| | - Ursula Rothlisberger
- Institute of Chemical Sciences and Engineering, Ecole Polytechnique Fédérale de Lausanne, 1015 Lausanne, Switzerland
| | - Ivan Rodriguez
- Department of Genetics and Evolution, University of Geneva, 30 Quai Ansermet, 1211 Geneva, Switzerland
| | - Jean-Pierre Wolf
- Group of Applied Physics, University of Geneva, 22 Ch. de Pinchat, 1211 Geneva, Switzerland.
| |
Collapse
|
19
|
Qi H, Lian Z, Fei D, Chen Z, Hu Z. Manipulation of matter with shaped-pulse light field and its applications. ADVANCES IN PHYSICS: X 2021. [DOI: 10.1080/23746149.2021.1949390] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022] Open
Affiliation(s)
- Hongxia Qi
- Institute of Atomic and Molecular Physics, Jilin University, Changchun, China
- Advanced Light Field and Modern Medical Treatment Science and Technology Innovation Center of Jilin Province, Jilin University, Changchun, China
| | - Zhenzhong Lian
- Institute of Atomic and Molecular Physics, Jilin University, Changchun, China
| | - Dehou Fei
- Institute of Atomic and Molecular Physics, Jilin University, Changchun, China
| | - Zhou Chen
- Institute of Atomic and Molecular Physics, Jilin University, Changchun, China
- Advanced Light Field and Modern Medical Treatment Science and Technology Innovation Center of Jilin Province, Jilin University, Changchun, China
| | - Zhan Hu
- Advanced Light Field and Modern Medical Treatment Science and Technology Innovation Center of Jilin Province, Jilin University, Changchun, China
| |
Collapse
|
20
|
Provazza J, Segatta F, Coker DF. Modeling Nonperturbative Field-Driven Vibronic Dynamics: Selective State Preparation and Nonlinear Spectroscopy. J Chem Theory Comput 2020; 17:29-39. [DOI: 10.1021/acs.jctc.0c01035] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Justin Provazza
- Department of Chemistry, Boston University, 590 Commonwealth Avenue, Boston, Massachusetts 02215, United States
| | - Francesco Segatta
- Department of Chemistry, Boston University, 590 Commonwealth Avenue, Boston, Massachusetts 02215, United States
- Dipartimento di Chimica Industriale “Toso Montanari”, University of Bologna, Viale del Risorgimento, 4, 40136 Bologna, Italy
| | - David F. Coker
- Department of Chemistry, Boston University, 590 Commonwealth Avenue, Boston, Massachusetts 02215, United States
| |
Collapse
|
21
|
Dey D, Henriksen NE. On Weak-Field (One-Photon) Coherent Control of Photoisomerization. J Phys Chem Lett 2020; 11:8470-8476. [PMID: 32936656 DOI: 10.1021/acs.jpclett.0c02273] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Photochemistry induced by phase-coherent laser light is an intriguing topic. The possibility of weak-field (one-photon) phase-only control of photoisomerization is controversial. Experimental studies on the weak-field coherent control of cis-trans isomerization have led to conflicting results. Here we address this issue by quantum dynamical calculations, focusing on a mechanism where different "phase-shaped" wave packets are quickly stabilized ("dumped") in the trans configuration because of prompt energy dissipation. We systematically investigate different relaxation rates with the system-bath dynamics described within the time-dependent Hartree approximation leading to a friction-type force. We find evidence for phase control of trans-isomer yields (about 5%) in this model with pure energy dissipation given sufficiently strong dampening.
Collapse
Affiliation(s)
- Diptesh Dey
- Department of Chemistry, Technical University of Denmark, Building 207, DK-2800 Lyngby, Denmark
| | - Niels E Henriksen
- Department of Chemistry, Technical University of Denmark, Building 207, DK-2800 Lyngby, Denmark
| |
Collapse
|
22
|
Rich CC, Frontiera RR. Uncovering the Functional Role of Coherent Phonons during the Photoinduced Phase Transition in a Molecular Crystal. J Phys Chem Lett 2020; 11:7502-7509. [PMID: 32845635 DOI: 10.1021/acs.jpclett.0c01834] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
The atomic motions that make up phonons and molecular vibrations in molecular crystals influence their photophysical and electronic properties, including polaron formation, carrier mobility, and phase transitions. Discriminating between spectator and driving motions is a significant challenge hindering optimization. Unlocking this information and developing fine-tuned controls over actively participating phonon modes would not only lead to a stronger understanding of photochemistry but also provide a significant new tool in controlling solid state chemistry. We present a strategy using rationally designed double pulses to unveil the unique function of specific excited state phonon modes. Using ultrafast spectroscopy, we identified 50 and 90 cm-1 phonons involved in modulating the photoinduced spin-Peierls melting of potassium tetracyanoquinodimethane crystals. We show that the 50 cm-1 phonon specifically corresponds to the coherent nuclear wavepacket involved in the charge transfer component of the overall spin-Peierls phase melting process, while the 90 cm-1 phonon facilitates the phase transition component.
Collapse
Affiliation(s)
- Christopher C Rich
- Department of Chemistry, University of Minnesota, Minneapolis, Minnesota 55455, United States
| | - Renee R Frontiera
- Department of Chemistry, University of Minnesota, Minneapolis, Minnesota 55455, United States
| |
Collapse
|
23
|
Sub-cycle atomic-scale forces coherently control a single-molecule switch. Nature 2020; 585:58-62. [PMID: 32879499 DOI: 10.1038/s41586-020-2620-2] [Citation(s) in RCA: 33] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2019] [Accepted: 06/30/2020] [Indexed: 12/31/2022]
Abstract
Scanning probe techniques can leverage atomically precise forces to sculpt matter at surfaces, atom by atom. These forces have been applied quasi-statically to create surface structures1-7 and influence chemical processes8,9, but exploiting local dynamics10-14 to realize coherent control on the atomic scale remains an intriguing prospect. Chemical reactions15-17, conformational changes18,19 and desorption20 have been followed on ultrafast timescales, but directly exerting femtosecond forces on individual atoms to selectively induce molecular motion has yet to be realized. Here we show that the near field of a terahertz wave confined to an atomically sharp tip provides femtosecond atomic-scale forces that selectively induce coherent hindered rotation in the molecular frame of a bistable magnesium phthalocyanine molecule. Combining lightwave-driven scanning tunnelling microscopy21-24 with ultrafast action spectroscopy10,13, we find that the induced rotation modulates the probability of the molecule switching between its two stable adsorption geometries by up to 39 per cent. Mapping the response of the molecule in space and time confirms that the force acts on the atomic scale and within less than an optical cycle (that is, faster than an oscillation period of the carrier wave of light). We anticipate that our strategy might ultimately enable the coherent manipulation of individual atoms within single molecules or solids so that chemical reactions and ultrafast phase transitions can be manipulated on their intrinsic spatio-temporal scales.
Collapse
|
24
|
Binz M, Bruder L, Chen L, Gelin MF, Domcke W, Stienkemeier F. Effects of high pulse intensity and chirp in two-dimensional electronic spectroscopy of an atomic vapor. OPTICS EXPRESS 2020; 28:25806-25829. [PMID: 32906864 DOI: 10.1364/oe.396108] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/24/2020] [Accepted: 06/06/2020] [Indexed: 06/11/2023]
Abstract
The effects of high pulse intensity and chirp on two-dimensional electronic spectroscopy signals are experimentally investigated in the highly non-perturbative regime using atomic rubidium vapor as clean model system. Data analysis is performed based on higher-order Feynman diagrams and non-perturbative numerical simulations of the system response. It is shown that higher-order contributions may lead to a fundamental change of the static appearance and beating-maps of the 2D spectra and that chirped pulses enhance or suppress distinct higher-order pathways. We further give an estimate of the threshold intensity beyond which the high-intensity effects become visible for the system under consideration.
Collapse
|
25
|
Moormann W, Tellkamp T, Stadler E, Röhricht F, Näther C, Puttreddy R, Rissanen K, Gescheidt G, Herges R. Efficient Conversion of Light to Chemical Energy: Directional, Chiral Photoswitches with Very High Quantum Yields. Angew Chem Int Ed Engl 2020; 59:15081-15086. [PMID: 32348617 PMCID: PMC7496762 DOI: 10.1002/anie.202005361] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2020] [Indexed: 12/14/2022]
Abstract
Photochromic systems have been used to achieve a number of engineering functions such as light energy conversion, molecular motors, pumps, actuators, and sensors. Key to practical applications is a high efficiency in the conversion of light to chemical energy, a rigid structure for the transmission of force to the environment, and directed motion during isomerization. We present a novel type of photochromic system (diindane diazocines) that converts visible light with an efficiency of 18 % to chemical energy. Quantum yields are exceptionally high with >70 % for the cis-trans isomerization and 90 % for the back-reaction and thus higher than the biochemical system rhodopsin (64 %). Two diastereomers (meso and racemate) were obtained in only two steps in high yields. Both isomers are directional switches with high conversion rates (76-99 %). No fatigue was observed after several thousands of switching cycles in both systems.
Collapse
Affiliation(s)
- Widukind Moormann
- Otto-Diels-Institut für Organische ChemieChristian-Albrechts-Universität zu KielOtto-Hahn-Platz 424118KielGermany
| | - Tobias Tellkamp
- Otto-Diels-Institut für Organische ChemieChristian-Albrechts-Universität zu KielOtto-Hahn-Platz 424118KielGermany
| | - Eduard Stadler
- Institute of Physical and Theoretical ChemistryGraz University of TechnologyStremayrgasse 98010GrazAustria
| | - Fynn Röhricht
- Otto-Diels-Institut für Organische ChemieChristian-Albrechts-Universität zu KielOtto-Hahn-Platz 424118KielGermany
| | - Christian Näther
- Institut für Anorganische ChemieChristian-Albrechts-Universität zu KielMax-Eyth-Str. 224118KielGermany
| | - Rakesh Puttreddy
- University of JyvaskylaDepartment of ChemistryP.O. Box 3540014JyväskyläFinland
- Smart Photonic MaterialsFaculty of Engineering and Natural SciencesTampere UniversityP. O. Box 54133101TampereFinland
| | - Kari Rissanen
- University of JyvaskylaDepartment of ChemistryP.O. Box 3540014JyväskyläFinland
| | - Georg Gescheidt
- Institute of Physical and Theoretical ChemistryGraz University of TechnologyStremayrgasse 98010GrazAustria
| | - Rainer Herges
- Otto-Diels-Institut für Organische ChemieChristian-Albrechts-Universität zu KielOtto-Hahn-Platz 424118KielGermany
| |
Collapse
|
26
|
Lavigne C, Brumer P. Pulsed two-photon coherent control of channelrhodopsin-2 photocurrent in live brain cells. J Chem Phys 2020; 153:034303. [PMID: 32716190 DOI: 10.1063/5.0012642] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022] Open
Abstract
Channelrhodopsin-2 (ChR2) is an ion channel activated by the absorption of light. A recent experiment demonstrated that the current emanating from neurons in live brain cells expressing ChR2 can be controlled using two-photon phase control. Here, we propose an experimentally testable coherent control mechanism for this phenomenon. Significantly, we describe how femtosecond, quantum coherent processes arising from weak-field ultrafast excitation are responsible for the reported control of the millisecond classical dynamics of the neuronal current.
Collapse
Affiliation(s)
- Cyrille Lavigne
- Chemical Physics Theory Group, Department of Chemistry, and Center for Quantum Information and Quantum Control, University of Toronto, Toronto, Ontario M5S 3H6, Canada
| | - Paul Brumer
- Chemical Physics Theory Group, Department of Chemistry, and Center for Quantum Information and Quantum Control, University of Toronto, Toronto, Ontario M5S 3H6, Canada
| |
Collapse
|
27
|
Conti I, Buma WJ, Garavelli M, Amirjalayer S. Photoinduced Forward and Backward Pedalo-Type Motion of a Molecular Switch. J Phys Chem Lett 2020; 11:4741-4746. [PMID: 32412764 DOI: 10.1021/acs.jpclett.0c01094] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Photoresponsive molecular switches enable spatial and temporal control of molecular processes and are therefore crucial for the development of smart functional materials. Because the light-induced dynamics of these switching units are at the core of the resulting functionality, a detailed insight into their structural time evolution is fundamental for molecular embedding. Here, we performed a hybrid quantum mechanics (CASPT2 and TDDFT)/molecular mechanics (QM/MM) study to elucidate the photodynamics of an azodicarboxamide-based molecular switch, which is a promising candidate for implementation in highly dense environments such as polymers. In particular, we report a detailed picture of the molecular motion at the atomic level based on a relevant number of excited-state trajectories. We show that the azodicarboxamide-based molecular switch undergoes both a forward and backward pedalo-type motion upon excitation. Trans-cis photoisomerization on the other hand, which is well-known to occur for other azo-based chromophores, is shown to be a negligible pathway. By validating the volume-conserving pedalo-type motion, we provide a rational basis for the design of novel types of photoresponsive functional materials in which the active component must operate in a confined space.
Collapse
Affiliation(s)
- Irene Conti
- Dipartimento di Chimica Industriale, Università degli Studi di Bologna, Viale del Risorgimento 4, 40136 Bologna, Italy
| | - Wybren Jan Buma
- Van 't Hoff Institute for Molecular Sciences, University of Amsterdam, Science Park 904, 1098 XH Amsterdam, The Netherlands
- Institute for Molecules and Materials, FELIX Laboratory, Radboud University, Toernooiveld 7c, 6525 ED Nijmegen, The Netherlands
| | - Marco Garavelli
- Dipartimento di Chimica Industriale, Università degli Studi di Bologna, Viale del Risorgimento 4, 40136 Bologna, Italy
| | - Saeed Amirjalayer
- Physikalisches Institut, Westfälische Wilhelms-Universität Münster, Wilhelm-Klemm-Str.10, 48149 Münster, Germany
- Center for Nanotechnology, Heisenbergstraße 11, 48149 Münster, Germany
- Center for Multiscale Theory and Computation, Wilhelm-Klemm-Str.10, 48149 Münster, Germany
| |
Collapse
|
28
|
Moormann W, Tellkamp T, Stadler E, Röhricht F, Näther C, Puttreddy R, Rissanen K, Gescheidt G, Herges R. Effiziente Umwandlung von Licht in chemische Energie: Gerichtete, chirale Photoschalter mit sehr hohen Quantenausbeuten. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.202005361] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Widukind Moormann
- Otto-Diels-Institut für Organische Chemie Christian-Albrechts-Universität zu Kiel Otto-Hahn-Platz 4 24118 Kiel Deutschland
| | - Tobias Tellkamp
- Otto-Diels-Institut für Organische Chemie Christian-Albrechts-Universität zu Kiel Otto-Hahn-Platz 4 24118 Kiel Deutschland
| | - Eduard Stadler
- Institute of Physical and Theoretical Chemistry Graz University of Technology Stremayrgasse 9 8010 Graz Österreich
| | - Fynn Röhricht
- Otto-Diels-Institut für Organische Chemie Christian-Albrechts-Universität zu Kiel Otto-Hahn-Platz 4 24118 Kiel Deutschland
| | - Christian Näther
- Institut für Anorganische Chemie Christian-Albrechts-Universität zu Kiel Max-Eyth-Str. 2 24118 Kiel Deutschland
| | - Rakesh Puttreddy
- University of Jyvaskyla Department of Chemistry P.O. Box 35 40014 Jyväskylä Finnland
- Smart Photonic Materials Faculty of Engineering and Natural Sciences Tampere University P. O. Box 541 33101 Tampere Finnland
| | - Kari Rissanen
- University of Jyvaskyla Department of Chemistry P.O. Box 35 40014 Jyväskylä Finnland
| | - Georg Gescheidt
- Institute of Physical and Theoretical Chemistry Graz University of Technology Stremayrgasse 9 8010 Graz Österreich
| | - Rainer Herges
- Otto-Diels-Institut für Organische Chemie Christian-Albrechts-Universität zu Kiel Otto-Hahn-Platz 4 24118 Kiel Deutschland
| |
Collapse
|
29
|
Liu C, Liu W, Wang S, Li H, Lv Z, Zhang F, Zhang D, Teng J, Zheng T, Li D, Zhang M, Xu P, Gong Q. Super-resolution nanoscopy by coherent control on nanoparticle emission. SCIENCE ADVANCES 2020; 6:eaaw6579. [PMID: 32494590 PMCID: PMC7164939 DOI: 10.1126/sciadv.aaw6579] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/14/2019] [Accepted: 01/24/2020] [Indexed: 05/28/2023]
Abstract
Super-resolution nanoscopy based on wide-field microscopic imaging provided high efficiency but limited resolution. Here, we demonstrate a general strategy to push its resolution down to ~50 nm, which is close to the range of single molecular localization microscopy, without sacrificing the wide-field imaging advantage. It is done by actively and simultaneously modulating the characteristic emission of each individual emitter at high density. This method is based on the principle of excited state coherent control on single-particle two-photon fluorescence. In addition, the modulation efficiently suppresses the noise for imaging. The capability of the method is verified both in simulation and in experiments on ZnCdS quantum dot-labeled films and COS7 cells. The principle of coherent control is generally applicable to single-multiphoton imaging and various probes.
Collapse
Affiliation(s)
- Congyue Liu
- State Key Laboratory for Artificial Microstructure and Mesoscopic Physics, Department of Physics, Peking University, Beijing 100871, China
| | - Wei Liu
- State Key Laboratory for Artificial Microstructure and Mesoscopic Physics, Department of Physics, Peking University, Beijing 100871, China
| | - Shufeng Wang
- State Key Laboratory for Artificial Microstructure and Mesoscopic Physics, Department of Physics, Peking University, Beijing 100871, China
- Collaborative Innovation Center of Extreme Optics, Shanxi University, Taiyuan 030006, Shanxi, China
- Frontiers Science Center for Nano-optoelectronics, Peking University, Collaborative Innovation Center of Quantum Matter, Beijing 100871, China
| | - Hongjia Li
- High Performance Computer Research Center, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Zhilong Lv
- High Performance Computer Research Center, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Fa Zhang
- High Performance Computer Research Center, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, China
| | - Donghui Zhang
- Key Laboratory of Cell Proliferation and Differentiation of the Ministry of Education and State Key Laboratory of Membrane Biology, College of Life Sciences, Peking University, Beijing 100871, China
| | - Junlin Teng
- Key Laboratory of Cell Proliferation and Differentiation of the Ministry of Education and State Key Laboratory of Membrane Biology, College of Life Sciences, Peking University, Beijing 100871, China
| | - Tao Zheng
- Peking-Tsinghua Center for Life Sciences, Academy for Advanced Interdisciplinary Studies, Peking University, Beijing 100871, China
| | - Donghai Li
- Institut für Physikalische und Theoretische Chemie, Universität Würzburg, Am Hubland, 97074 Würzburg, Germany
| | - Mingshu Zhang
- Key Laboratory of RNA Biology, Institute of Biophysics, Chinese Academy of Sciences, Beijing, 100101, China
| | - Pingyong Xu
- Key Laboratory of RNA Biology, Institute of Biophysics, Chinese Academy of Sciences, Beijing, 100101, China
- College of Life Sciences, University of Chinese Academy of Sciences, Beijing, 100101, China
| | - Qihuang Gong
- State Key Laboratory for Artificial Microstructure and Mesoscopic Physics, Department of Physics, Peking University, Beijing 100871, China
- Collaborative Innovation Center of Extreme Optics, Shanxi University, Taiyuan 030006, Shanxi, China
- Frontiers Science Center for Nano-optoelectronics, Peking University, Collaborative Innovation Center of Quantum Matter, Beijing 100871, China
| |
Collapse
|
30
|
Lau JA, Choudhury A, Li C, Schwarzer D, Verma VB, Wodtke AM. Observation of an isomerizing double-well quantum system in the condensed phase. Science 2020. [PMID: 31919218 DOI: 10.1126/science.aaz3407 article] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022]
Abstract
Molecular isomerization fundamentally involves quantum states bound within a potential energy function with multiple minima. For isolated gas-phase molecules, eigenstates well above the isomerization saddle points have been characterized. However, to observe the quantum nature of isomerization, systems in which transitions between the eigenstates occur-such as condensed-phase systems-must be studied. Efforts to resolve quantum states with spectroscopic tools are typically unsuccessful for such systems. An exception is CO adsorbed on NaCl(100), which is bound with the well-known OC-Na+ structure. We observe an unexpected upside-down isomer (CO-Na+) produced by infrared laser excitation and obtain well-resolved infrared fluorescence spectra from highly energetic vibrational states of both orientational isomers. This distinctive condensed-phase system is ideally suited to spectroscopic investigations of the quantum nature of isomerization.
Collapse
Affiliation(s)
- Jascha A Lau
- Institute for Physical Chemistry, University of Göttingen, Tammannstr. 6, 37077 Göttingen, Germany.,Department of Dynamics at Surfaces, Max-Planck Institute for Biophysical Chemistry, Am Faßberg 11, 37077 Göttingen, Germany
| | - Arnab Choudhury
- Institute for Physical Chemistry, University of Göttingen, Tammannstr. 6, 37077 Göttingen, Germany.,Department of Dynamics at Surfaces, Max-Planck Institute for Biophysical Chemistry, Am Faßberg 11, 37077 Göttingen, Germany
| | - Chen Li
- Department of Dynamics at Surfaces, Max-Planck Institute for Biophysical Chemistry, Am Faßberg 11, 37077 Göttingen, Germany
| | - Dirk Schwarzer
- Department of Dynamics at Surfaces, Max-Planck Institute for Biophysical Chemistry, Am Faßberg 11, 37077 Göttingen, Germany
| | - Varun B Verma
- National Institute of Standards and Technology, Boulder, CO 80305, USA
| | - Alec M Wodtke
- Institute for Physical Chemistry, University of Göttingen, Tammannstr. 6, 37077 Göttingen, Germany. .,Department of Dynamics at Surfaces, Max-Planck Institute for Biophysical Chemistry, Am Faßberg 11, 37077 Göttingen, Germany.,International Center for Advanced Studies of Energy Conversion, Georg-August University of Göttingen, Tammannstraße 6, 37077 Göttingen, Germany
| |
Collapse
|
31
|
Lau JA, Choudhury A, Li C, Schwarzer D, Verma VB, Wodtke AM. Observation of an isomerizing double-well quantum system in the condensed phase. Science 2020; 367:175-178. [DOI: 10.1126/science.aaz3407] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2019] [Accepted: 11/12/2019] [Indexed: 12/23/2022]
Affiliation(s)
- Jascha A. Lau
- Institute for Physical Chemistry, University of Göttingen, Tammannstr. 6, 37077 Göttingen, Germany
- Department of Dynamics at Surfaces, Max-Planck Institute for Biophysical Chemistry, Am Faßberg 11, 37077 Göttingen, Germany
| | - Arnab Choudhury
- Institute for Physical Chemistry, University of Göttingen, Tammannstr. 6, 37077 Göttingen, Germany
- Department of Dynamics at Surfaces, Max-Planck Institute for Biophysical Chemistry, Am Faßberg 11, 37077 Göttingen, Germany
| | - Chen Li
- Department of Dynamics at Surfaces, Max-Planck Institute for Biophysical Chemistry, Am Faßberg 11, 37077 Göttingen, Germany
| | - Dirk Schwarzer
- Department of Dynamics at Surfaces, Max-Planck Institute for Biophysical Chemistry, Am Faßberg 11, 37077 Göttingen, Germany
| | - Varun B. Verma
- National Institute of Standards and Technology, Boulder, CO 80305, USA
| | - Alec M. Wodtke
- Institute for Physical Chemistry, University of Göttingen, Tammannstr. 6, 37077 Göttingen, Germany
- Department of Dynamics at Surfaces, Max-Planck Institute for Biophysical Chemistry, Am Faßberg 11, 37077 Göttingen, Germany
- International Center for Advanced Studies of Energy Conversion, Georg-August University of Göttingen, Tammannstraße 6, 37077 Göttingen, Germany
| |
Collapse
|
32
|
|
33
|
Time-resolved serial femtosecond crystallography at the European XFEL. Nat Methods 2019; 17:73-78. [PMID: 31740816 PMCID: PMC9113060 DOI: 10.1038/s41592-019-0628-z] [Citation(s) in RCA: 86] [Impact Index Per Article: 17.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2019] [Accepted: 10/03/2019] [Indexed: 11/08/2022]
Abstract
The European XFEL (EuXFEL) is a 3.4 km long X-ray source, which produces femtosecond, ultra-brilliant and spatially coherent X-ray pulses at megahertz repetition rates. This X-ray source has been designed to enable the observation of ultrafast processes with near-atomic spatial resolution. Time-resolved crystallographic investigations on biological reactions constitute a particularly important class of experiments with biomedical and health related implications. Due to the unusual X-ray pulse structure, such an experiment is challenging. Here we demonstrate how a biological reaction can be followed on ultrafast time scales at the EuXFEL. We investigate the picosecond time range in the photocycle of photoactive yellow protein (PYP) with MHz X-ray pulse rates. We show that difference electron density maps of excellent quality can be obtained. Results connect the previously explored femtosecond PYP dynamics to time scales accessible at synchrotrons. This opens the door to a wide range of time resolved studies at the EuXFEL.
Collapse
|
34
|
Zhang Y, Nelson T, Tretiak S. Non-adiabatic molecular dynamics of molecules in the presence of strong light-matter interactions. J Chem Phys 2019; 151:154109. [PMID: 31640366 DOI: 10.1063/1.5116550] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Affiliation(s)
- Yu Zhang
- Physics and Chemistry of Materials, Theoretical Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, USA
| | - Tammie Nelson
- Physics and Chemistry of Materials, Theoretical Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, USA
| | - Sergei Tretiak
- Physics and Chemistry of Materials, Theoretical Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, USA
- Center for Integrated Nanotechnologies, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, USA
| |
Collapse
|
35
|
Wickstrand C, Nogly P, Nango E, Iwata S, Standfuss J, Neutze R. Bacteriorhodopsin: Structural Insights Revealed Using X-Ray Lasers and Synchrotron Radiation. Annu Rev Biochem 2019; 88:59-83. [DOI: 10.1146/annurev-biochem-013118-111327] [Citation(s) in RCA: 39] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
Directional transport of protons across an energy transducing membrane—proton pumping—is ubiquitous in biology. Bacteriorhodopsin (bR) is a light-driven proton pump that is activated by a buried all- trans retinal chromophore being photoisomerized to a 13- cis conformation. The mechanism by which photoisomerization initiates directional proton transport against a proton concentration gradient has been studied by a myriad of biochemical, biophysical, and structural techniques. X-ray free electron lasers (XFELs) have created new opportunities to probe the structural dynamics of bR at room temperature on timescales from femtoseconds to milliseconds using time-resolved serial femtosecond crystallography (TR-SFX). Wereview these recent developments and highlight where XFEL studies reveal new details concerning the structural mechanism of retinal photoisomerization and proton pumping. We also discuss the extent to which these insights were anticipated by earlier intermediate trapping studies using synchrotron radiation. TR-SFX will open up the field for dynamical studies of other proteins that are not naturally light-sensitive.
Collapse
Affiliation(s)
- Cecilia Wickstrand
- Department of Chemistry and Molecular Biology, University of Gothenburg, SE-40530 Gothenburg, Sweden
| | - Przemyslaw Nogly
- Department of Biology, Institute of Molecular Biology and Biophysics, ETH Zürich, 8093 Zürich, Switzerland
| | - Eriko Nango
- RIKEN SPring-8 Center, Hyogo 679-5148, Japan
- Department of Cell Biology, Graduate School of Medicine, Kyoto University, Yoshidakonoe-cho, Sakyo-ku, Kyoto, 606-8501, Japan
| | - So Iwata
- RIKEN SPring-8 Center, Hyogo 679-5148, Japan
- Department of Cell Biology, Graduate School of Medicine, Kyoto University, Yoshidakonoe-cho, Sakyo-ku, Kyoto, 606-8501, Japan
| | - Jörg Standfuss
- Laboratory of Biomolecular Research, Division of Biology and Chemistry, Paul Scherrer Institut, 5232 Villigen, Switzerland
| | - Richard Neutze
- Department of Chemistry and Molecular Biology, University of Gothenburg, SE-40530 Gothenburg, Sweden
| |
Collapse
|
36
|
Agathangelou D, Orozco-Gonzalez Y, Del Carmen Marín M, Roy PP, Brazard J, Kandori H, Jung KH, Léonard J, Buckup T, Ferré N, Olivucci M, Haacke S. Effect of point mutations on the ultrafast photo-isomerization of Anabaena sensory rhodopsin. Faraday Discuss 2019; 207:55-75. [PMID: 29388996 DOI: 10.1039/c7fd00200a] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Anabaena sensory rhodopsin (ASR) is a particular microbial retinal protein for which light-adaptation leads to the ability to bind both the all-trans, 15-anti (AT) and the 13-cis, 15-syn (13C) isomers of the protonated Schiff base of retinal (PSBR). In the context of obtaining insight into the mechanisms by which retinal proteins catalyse the PSBR photo-isomerization reaction, ASR is a model system allowing to study, within the same protein, the protein-PSBR interactions for two different PSBR conformers at the same time. A detailed analysis of the vibrational spectra of AT and 13C, and their photo-products in wild-type ASR obtained through femtosecond (pump-) four-wave-mixing is reported for the first time, and compared to bacterio- and channelrhodopsin. As part of an extensive study of ASR mutants with blue-shifted absorption spectra, we present here a detailed computational analysis of the origin of the mutation-induced blue-shift of the absorption spectra, and identify electrostatic interactions as dominating steric effects that would entail a red-shift. The excited state lifetimes and isomerization reaction times (IRT) for the three mutants V112N, W76F, and L83Q are studied experimentally by femtosecond broadband transient absorption spectroscopy. Interestingly, in all three mutants, isomerization is accelerated for AT with respect to wild-type ASR, and this the more, the shorter the wavelength of maximum absorption. On the contrary, the 13C photo-reaction is slightly slowed down, leading to an inversion of the ESLs of AT and 13C, with respect to wt-ASR, in the blue-most absorbing mutant L83Q. Possible mechanisms for these mutation effects, and their steric and electrostatic origins are discussed.
Collapse
Affiliation(s)
- D Agathangelou
- University of Strasbourg, CNRS, Inst. de Physique et Chimie des Matériaux de Strasbourg, 67034 Strasbourg, France.
| | | | | | | | | | | | | | | | | | | | | | | |
Collapse
|
37
|
Inoue T, Matsunaka A, Funahashi A, Okuda T, Nishio K, Awatsuji Y. Spatiotemporal observations of light propagation in multiple polarization states. OPTICS LETTERS 2019; 44:2069-2072. [PMID: 30985813 DOI: 10.1364/ol.44.002069] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/20/2019] [Accepted: 03/25/2019] [Indexed: 06/09/2023]
Abstract
Real-time imaging techniques involving light propagation are commonly applied in the fields of physics, chemistry, and biomedicine. However, conventional techniques provide only the intensity change associated with light propagation. Here, we propose an imaging technique to visualize the ultrafast behavior of the polarization state of a propagating light pulse with four different linear polarization components. This approach provides ultrahigh temporal resolution to observe the light in motion. We recorded a motion picture of a three-dimensional image of a light pulse propagating through a diffuser and a calcite crystal at 56.8 and 75.4 ps, respectively. This technique can contribute to revealing the polarization state of propagating light pulses in a medium and ultrafast phenomenon.
Collapse
|
38
|
Schmidt M. Time-Resolved Macromolecular Crystallography at Pulsed X-ray Sources. Int J Mol Sci 2019; 20:ijms20061401. [PMID: 30897736 PMCID: PMC6470897 DOI: 10.3390/ijms20061401] [Citation(s) in RCA: 34] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2019] [Revised: 03/14/2019] [Accepted: 03/18/2019] [Indexed: 11/30/2022] Open
Abstract
The focus of structural biology is shifting from the determination of static structures to the investigation of dynamical aspects of macromolecular function. With time-resolved macromolecular crystallography (TRX), intermediates that form and decay during the macromolecular reaction can be investigated, as well as their reaction dynamics. Time-resolved crystallographic methods were initially developed at synchrotrons. However, about a decade ago, extremely brilliant, femtosecond-pulsed X-ray sources, the free electron lasers for hard X-rays, became available to a wider community. TRX is now possible with femtosecond temporal resolution. This review provides an overview of methodological aspects of TRX, and at the same time, aims to outline the frontiers of this method at modern pulsed X-ray sources.
Collapse
Affiliation(s)
- Marius Schmidt
- Physics Department, University of Wisconsin-Milwaukee, Milwaukee, WI 53211, USA.
| |
Collapse
|
39
|
Wu EC, Ge Q, Arsenault EA, Lewis NHC, Gruenke NL, Head-Gordon MJ, Fleming GR. Two-dimensional electronic-vibrational spectroscopic study of conical intersection dynamics: an experimental and electronic structure study. Phys Chem Chem Phys 2019; 21:14153-14163. [DOI: 10.1039/c8cp05264f] [Citation(s) in RCA: 25] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The relaxation from the lowest singlet excited state of the triphenylmethane dyes, crystal violet and malachite green, is studied via two-dimensional electronic-vibrational (2DEV) spectroscopy.
Collapse
Affiliation(s)
- Eric C. Wu
- Department of Chemistry
- University of California
- Berkeley
- USA
- Molecular Biophysics and Integrated Bioimaging Division
| | - Qinghui Ge
- Department of Chemistry
- University of California
- Berkeley
- USA
| | - Eric A. Arsenault
- Department of Chemistry
- University of California
- Berkeley
- USA
- Molecular Biophysics and Integrated Bioimaging Division
| | | | - Natalie L. Gruenke
- Department of Chemistry
- University of California
- Berkeley
- USA
- Molecular Biophysics and Integrated Bioimaging Division
| | | | - Graham R. Fleming
- Department of Chemistry
- University of California
- Berkeley
- USA
- Molecular Biophysics and Integrated Bioimaging Division
| |
Collapse
|
40
|
Kraack JP, Motzkus M, Buckup T. Excited State Vibrational Spectra of All- trans Retinal Derivatives in Solution Revealed By Pump-DFWM Experiments. J Phys Chem B 2018; 122:12271-12281. [PMID: 30507189 DOI: 10.1021/acs.jpcb.8b08495] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
The ultrafast structural changes during the photoinduced isomerization of the retinal-protonated Schiff base (RPSB) is still a poorly understood aspect in the retinal's photochemistry. In this work, we apply pump-degenerate four-wave mixing (pump-DFWM) to all- trans retinal (ATR) and retinal Schiff bases (RSB) to resolve coherent high- and low-frequency vibrational signatures from excited electronic states. We show that the vibrational spectra of excited singlet states in these samples exhibit pronounced differences compared to the relaxed ground state. Pump-DFWM results indicate three major features for ATR and RSB. (i) Excited state vibrational spectra of ATR and RSB consist predominately of low-frequency modes in the energetic range 100-500 cm-1. (ii) Excited state vibrational spectra show distinct differences for excitation in specific regions of electronic transitions of excited state absorption and emission. (iii) Low-frequency modes in ATR and RSB are inducible during the entire lifetime of the excited electronic states. This latter effect points to a transient molecular structure that, following initial relaxation between different excited electronic states, does not change anymore over the lifetime of the finally populated excited electronic state.
Collapse
Affiliation(s)
- Jan Philip Kraack
- Physikalisch-Chemisches Institut , Ruprecht-Karls Universität Heidelberg , D-69210 Heidelberg , Germany
| | - Marcus Motzkus
- Physikalisch-Chemisches Institut , Ruprecht-Karls Universität Heidelberg , D-69210 Heidelberg , Germany
| | - Tiago Buckup
- Physikalisch-Chemisches Institut , Ruprecht-Karls Universität Heidelberg , D-69210 Heidelberg , Germany
| |
Collapse
|
41
|
Ma F. Dynamics and Coherent Control of Exciton–Exciton Annihilation in Aqueous J-Aggregate. J Phys Chem B 2018; 122:10746-10753. [DOI: 10.1021/acs.jpcb.8b09891] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Fei Ma
- Division of Chemical Physics, Department of Chemistry, Lund University, 221 00 Lund, Sweden
| |
Collapse
|
42
|
Wilma K, Shu CC, Scherf U, Hildner R. Visualizing Hidden Ultrafast Processes in Individual Molecules by Single-Pulse Coherent Control. J Am Chem Soc 2018; 140:15329-15335. [DOI: 10.1021/jacs.8b08674] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Kevin Wilma
- Soft Matter Spectroscopy, University of Bayreuth, 95440 Bayreuth, Germany
| | - Chuan-Cun Shu
- Institute of Super-Microstructure and Ultrafast Process in Advanced Materials, School of Physics and Electronics, Central South University, Changsha 410083, China
- School of Engineering and Information Technology, University of New South Wales, Canberra, Australian Capital Territory 2600, Australia
| | - Ullrich Scherf
- Fachbereich C − Mathematik und Naturwissenschaften and Institut für Polymertechnologie, Universität Wuppertal, 42097 Wuppertal, Germany
| | - Richard Hildner
- Soft Matter Spectroscopy, University of Bayreuth, 95440 Bayreuth, Germany
| |
Collapse
|
43
|
Rathbone HW, Davis JA, Michie KA, Goodchild SC, Robertson NO, Curmi PMG. Coherent phenomena in photosynthetic light harvesting: part two-observations in biological systems. Biophys Rev 2018; 10:1443-1463. [PMID: 30242555 PMCID: PMC6233342 DOI: 10.1007/s12551-018-0456-x] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2018] [Accepted: 09/06/2018] [Indexed: 10/28/2022] Open
Abstract
Considerable debate surrounds the question of whether or not quantum mechanics plays a significant, non-trivial role in photosynthetic light harvesting. Many have proposed that quantum superpositions and/or quantum transport phenomena may be responsible for the efficiency and robustness of energy transport present in biological systems. The critical experimental observations comprise the observation of coherent oscillations or "quantum beats" via femtosecond laser spectroscopy, which have been observed in many different light harvesting systems. Part Two of this review aims to provide an overview of experimental observations of energy transfer in the most studied light harvesting systems. Length scales, derived from crystallographic studies, are combined with energy and time scales of the beats observed via spectroscopy. A consensus is emerging that most long-lived (hundreds of femtoseconds) coherent phenomena are of vibrational or vibronic origin, where the latter may result in coherent excitation transport within a protein complex. In contrast, energy transport between proteins is likely to be incoherent in nature. The question of whether evolution has selected for these non-trivial quantum phenomena may be an unanswerable question, as dense packings of chromophores will lead to strong coupling and hence non-trivial quantum phenomena. As such, one cannot discern whether evolution has optimised light harvesting systems for high chromophore density or for the ensuing quantum effects as these are inextricably linked and cannot be switched off.
Collapse
Affiliation(s)
- Harry W Rathbone
- School of Physics, The University of New South Wales, Sydney, New South Wales, 2052, Australia
| | - Jeffery A Davis
- Centre for Quantum and Optical Science, Faculty of Science, Engineering and Technology, Swinburne University of Technology, Hawthorn, Victoria, 3122, Australia
| | - Katharine A Michie
- School of Physics, The University of New South Wales, Sydney, New South Wales, 2052, Australia
| | - Sophia C Goodchild
- Department of Chemistry and Biomolecular Sciences, Macquarie University, Sydney, New South Wales, Australia
| | - Neil O Robertson
- School of Physics, The University of New South Wales, Sydney, New South Wales, 2052, Australia
| | - Paul M G Curmi
- School of Physics, The University of New South Wales, Sydney, New South Wales, 2052, Australia.
| |
Collapse
|
44
|
Abstract
In 1998, the first successful quantum control experiment with application to a molecular framework was conducted with a shaped laser pulse, optimizing the branching ratio between different organometallic reaction channels. This work induced a vast activity in quantum control during the next 10 years, and different optimization aims were achieved in the gas phase, liquid phase, and even in biologically relevant molecules like light-harvesting complexes. Accompanying and preceding this development were important advances in theoretical quantum control simulations. They predicted several control scenarios and explained how and why quantum control experiments work. After many successful proofs of concept in molecular science, the big challenge is to expand its huge conceptual potential of directly being able to steer nuclear and/or electronic motion to more applied implementations. In this Account, based on several recent advances, we give a personal evaluation of where the field of molecular quantum control is at the moment and especially where we think promising applications can be in the near future. One of these paths leads to synthetic chemistry. The synthesis of novel pharmaceutical compounds or natural products often involves many synthetic steps, each one devouring resources and lowering the product yield. Shaped laser pulses can possibly act as photonic reagents and shorten the synthetic route toward the desired product. Chemical synthesis usually takes place in solution, and by including explicit solvent molecules in our quantum control simulations, we were able to identify their highly inhomogeneous influence on chemical reactions and how this affects potential quantum control. More important, we demonstrated for a synthetically relevant example that these complications can be overcome in theory, and laser pulses can be optimized to initiate the desired carbon-carbon bond formation. Putting this into context with the recently emerging concept of flow chemistry, which brings several practical advantages to the application of laser pulses, we want to encourage experimental groups to exploit this concept. Another path was opened by several additions to the commonly used laser pulse optimization algorithm (optimal control theory, OCT), several of which were developed in our group. The OCT algorithm as such is a purely mathematical optimization procedure, with no direct relation to experimental requirements. This means that usually the electric fields obtained out of OCT optimizations do not resemble laser pulses that can be achieved experimentally. However, the previously mentioned additions are aimed at closing the gap toward the experiment. In a recent quantum control study of our group, these algorithmic developments came to fruition. We were able to suggest a shaped laser pulse which can induce a long-living wave packet in the excited state of uracil. This might pave the way for novel experiments dedicated to investigating the formation of biological photodamage in DNA and RNA. The pulse we suggest is surprisingly simple because of the extended OCT algorithm and fulfills all criteria to be experimentally accessible.
Collapse
Affiliation(s)
- Daniel Keefer
- Department Chemie, Ludwig-Maximilians-Universität München, D-81377 München, Germany
| | | |
Collapse
|
45
|
Blasing DB, Pérez-Ríos J, Yan Y, Dutta S, Li CH, Zhou Q, Chen YP. Observation of Quantum Interference and Coherent Control in a Photochemical Reaction. PHYSICAL REVIEW LETTERS 2018; 121:073202. [PMID: 30169056 DOI: 10.1103/physrevlett.121.073202] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/27/2018] [Indexed: 06/08/2023]
Abstract
Coherent control of reactants remains a long-standing challenge in quantum chemistry. In particular, we have studied laser-induced molecular formation (photoassociation) in a Raman-dressed spin-orbit-coupled ^{87}Rb Bose-Einstein condensate, whose spin quantum state is a superposition of multiple bare spin components. In contrast to the notably different photoassociation-induced fractional atom losses observed for the bare spin components of a statistical mixture, a superposition state with a comparable spin composition displays the same fractional loss on every spin component. We interpret this as the superposition state itself undergoing photoassociation. For superposition states induced by a large Raman coupling and zero Raman detuning, we observe a nearly complete suppression of the photoassociation rate. This suppression is consistent with a model based upon quantum destructive interference between two photoassociation pathways for colliding atoms with different spin combinations. This model also explains the measured dependence of the photoassociation rate on the Raman detuning at a moderate Raman coupling. Our work thus suggests that preparing atoms in quantum superpositions may represent a powerful new technique to coherently control photochemical reactions.
Collapse
Affiliation(s)
- David B Blasing
- Department of Physics and Astronomy, Purdue University, West Lafayette, Indiana 47907, USA
| | - Jesús Pérez-Ríos
- School of Materials Sciences and Technology, Universidad del Turabo, Gurabo, Puerto Rico 00778, USA
| | - Yangqian Yan
- Department of Physics and Astronomy, Purdue University, West Lafayette, Indiana 47907, USA
| | - Sourav Dutta
- Department of Physics and Astronomy, Purdue University, West Lafayette, Indiana 47907, USA
- Department of Physics, Indian Institute of Science Education and Research, Bhopal 462066, India
| | - Chuan-Hsun Li
- School of Electrical and Computer Engineering, Purdue University, West Lafayette, Indiana 47907, USA
| | - Qi Zhou
- Department of Physics and Astronomy, Purdue University, West Lafayette, Indiana 47907, USA
- Purdue Quantum Center, Purdue University, West Lafayette, Indiana 47907, USA
| | - Yong P Chen
- Department of Physics and Astronomy, Purdue University, West Lafayette, Indiana 47907, USA
- School of Electrical and Computer Engineering, Purdue University, West Lafayette, Indiana 47907, USA
- Purdue Quantum Center, Purdue University, West Lafayette, Indiana 47907, USA
| |
Collapse
|
46
|
Torres M, Khan S, Duplanty M, Lozano HC, Morris TJ, Nguyen T, Rostovtsev YV, DeYonker NJ, Mirsaleh-Kohan N. Raman and Infrared Studies of Platinum-Based Drugs: Cisplatin, Carboplatin, Oxaliplatin, Nedaplatin, and Heptaplatin. J Phys Chem A 2018; 122:6934-6952. [PMID: 30071735 DOI: 10.1021/acs.jpca.8b04023] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Affiliation(s)
- Marjorie Torres
- Department of Chemistry & Biochemistry, Texas Woman’s University, Denton, Texas 76204, United States
| | - Sidrah Khan
- Department of Chemistry & Biochemistry, Texas Woman’s University, Denton, Texas 76204, United States
| | - Michael Duplanty
- Department of Chemistry & Biochemistry, Texas Woman’s University, Denton, Texas 76204, United States
| | - Hannah C. Lozano
- Department of Chemistry, University of Memphis, Memphis, Tennessee 38152, United States
| | - Tyree J. Morris
- Department of Chemistry, University of Memphis, Memphis, Tennessee 38152, United States
| | - Trang Nguyen
- Department of Chemistry & Biochemistry, Texas Woman’s University, Denton, Texas 76204, United States
| | - Yuri V. Rostovtsev
- Center for Nonlinear Sciences and Department of Physics, University of North Texas, Denton, Texas 76203, United States
| | - Nathan J. DeYonker
- Department of Chemistry, University of Memphis, Memphis, Tennessee 38152, United States
| | - Nasrin Mirsaleh-Kohan
- Department of Chemistry & Biochemistry, Texas Woman’s University, Denton, Texas 76204, United States
| |
Collapse
|
47
|
Nagasaka T, Kunishi T, Sotome H, Koga M, Morimoto M, Irie M, Miyasaka H. Multiphoton-gated cycloreversion reaction of a fluorescent diarylethene derivative as revealed by transient absorption spectroscopy. Phys Chem Chem Phys 2018; 20:19776-19783. [PMID: 29876548 DOI: 10.1039/c8cp01467a] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
Abstract
The one- and two-photon cycloreversion reactions of a fluorescent diarylethene derivative with oxidized benzothiophene moieties were investigated by means of ultrafast laser spectroscopy. Femtosecond transient absorption spectroscopy under the one-photon excitation condition revealed that the excited closed-ring isomer is simply deactivated into the initial ground state with a time constant of 2.6 ns without remarkable cycloreversion, the results of which are consistent with the very low cycloreversion reaction yield (<10-5) under steady-state light irradiation. On the other hand, an efficient cycloreversion reaction was observed under irradiation with a picosecond laser pulse at 532 nm. The excitation intensity dependence of the cycloreversion reaction indicates that a highly excited state attained by the stepwise two-photon absorption is responsible for the marked increase of the cycloreversion reaction, and the quantum yield at the highly excited state was estimated to be 0.018 from quantitative analysis, indicating that the reaction is enhanced by a factor of >1800.
Collapse
Affiliation(s)
- Tatsuhiro Nagasaka
- Division of Frontier Materials Science and Center for Advanced Interdisciplinary Research, Graduate School of Engineering Science, Osaka University, Toyonaka, Osaka 560-8531, Japan.
| | | | | | | | | | | | | |
Collapse
|
48
|
Nogly P, Weinert T, James D, Carbajo S, Ozerov D, Furrer A, Gashi D, Borin V, Skopintsev P, Jaeger K, Nass K, Båth P, Bosman R, Koglin J, Seaberg M, Lane T, Kekilli D, Brünle S, Tanaka T, Wu W, Milne C, White T, Barty A, Weierstall U, Panneels V, Nango E, Iwata S, Hunter M, Schapiro I, Schertler G, Neutze R, Standfuss J. Retinal isomerization in bacteriorhodopsin captured by a femtosecond x-ray laser. Science 2018; 361:science.aat0094. [PMID: 29903883 DOI: 10.1126/science.aat0094] [Citation(s) in RCA: 230] [Impact Index Per Article: 38.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2018] [Accepted: 05/29/2018] [Indexed: 12/23/2022]
Abstract
Ultrafast isomerization of retinal is the primary step in photoresponsive biological functions including vision in humans and ion transport across bacterial membranes. We used an x-ray laser to study the subpicosecond structural dynamics of retinal isomerization in the light-driven proton pump bacteriorhodopsin. A series of structural snapshots with near-atomic spatial resolution and temporal resolution in the femtosecond regime show how the excited all-trans retinal samples conformational states within the protein binding pocket before passing through a twisted geometry and emerging in the 13-cis conformation. Our findings suggest ultrafast collective motions of aspartic acid residues and functional water molecules in the proximity of the retinal Schiff base as a key facet of this stereoselective and efficient photochemical reaction.
Collapse
Affiliation(s)
- Przemyslaw Nogly
- Division of Biology and Chemistry-Laboratory for Biomolecular Research, Paul Scherrer Institut, 5232 Villigen, Switzerland
| | - Tobias Weinert
- Division of Biology and Chemistry-Laboratory for Biomolecular Research, Paul Scherrer Institut, 5232 Villigen, Switzerland.,Photon Science Division-Swiss Light Source, Paul Scherrer Institut, 5232 Villigen, Switzerland
| | - Daniel James
- Division of Biology and Chemistry-Laboratory for Biomolecular Research, Paul Scherrer Institut, 5232 Villigen, Switzerland
| | - Sergio Carbajo
- Linac Coherent Light Source (LCLS), SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Dmitry Ozerov
- Science IT, Paul Scherrer Institut, 5232 Villigen, Switzerland
| | - Antonia Furrer
- Division of Biology and Chemistry-Laboratory for Biomolecular Research, Paul Scherrer Institut, 5232 Villigen, Switzerland
| | - Dardan Gashi
- SwissFEL, Paul Scherrer Institut, 5232 Villigen, Switzerland
| | - Veniamin Borin
- Fritz Haber Center for Molecular Dynamics, Institute of Chemistry, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
| | - Petr Skopintsev
- Division of Biology and Chemistry-Laboratory for Biomolecular Research, Paul Scherrer Institut, 5232 Villigen, Switzerland
| | - Kathrin Jaeger
- Division of Biology and Chemistry-Laboratory for Biomolecular Research, Paul Scherrer Institut, 5232 Villigen, Switzerland
| | - Karol Nass
- SwissFEL, Paul Scherrer Institut, 5232 Villigen, Switzerland.,Photon Science Division-Swiss Light Source, Paul Scherrer Institut, 5232 Villigen, Switzerland
| | - Petra Båth
- Department of Chemistry and Molecular Biology, University of Gothenburg, Box 462, SE- 40530 Gothenburg, Sweden
| | - Robert Bosman
- Department of Chemistry and Molecular Biology, University of Gothenburg, Box 462, SE- 40530 Gothenburg, Sweden
| | - Jason Koglin
- Linac Coherent Light Source (LCLS), SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Matthew Seaberg
- Linac Coherent Light Source (LCLS), SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Thomas Lane
- Linac Coherent Light Source (LCLS), SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Demet Kekilli
- Division of Biology and Chemistry-Laboratory for Biomolecular Research, Paul Scherrer Institut, 5232 Villigen, Switzerland
| | - Steffen Brünle
- Division of Biology and Chemistry-Laboratory for Biomolecular Research, Paul Scherrer Institut, 5232 Villigen, Switzerland
| | - Tomoyuki Tanaka
- RIKEN SPring-8 Center, 1-1-1 Kouto, Sayo-cho, Sayo-gun, Hyogo 679-5148, Japan.,Department of Cell Biology, Graduate School of Medicine, Kyoto University, Yoshidakonoe- cho, Sakyo-ku, Kyoto 606-8501, Japan
| | - Wenting Wu
- Division of Biology and Chemistry-Laboratory for Biomolecular Research, Paul Scherrer Institut, 5232 Villigen, Switzerland
| | | | - Thomas White
- Center for Free-Electron Laser Science (CFEL), DESY, Notkestrasse 85, 22607 Hamburg, Germany
| | - Anton Barty
- Center for Free-Electron Laser Science (CFEL), DESY, Notkestrasse 85, 22607 Hamburg, Germany
| | - Uwe Weierstall
- Department of Physics, Arizona State University, Tempe, AZ 85287, USA
| | - Valerie Panneels
- Division of Biology and Chemistry-Laboratory for Biomolecular Research, Paul Scherrer Institut, 5232 Villigen, Switzerland
| | - Eriko Nango
- RIKEN SPring-8 Center, 1-1-1 Kouto, Sayo-cho, Sayo-gun, Hyogo 679-5148, Japan.,Department of Cell Biology, Graduate School of Medicine, Kyoto University, Yoshidakonoe- cho, Sakyo-ku, Kyoto 606-8501, Japan
| | - So Iwata
- RIKEN SPring-8 Center, 1-1-1 Kouto, Sayo-cho, Sayo-gun, Hyogo 679-5148, Japan.,Department of Cell Biology, Graduate School of Medicine, Kyoto University, Yoshidakonoe- cho, Sakyo-ku, Kyoto 606-8501, Japan
| | - Mark Hunter
- Linac Coherent Light Source (LCLS), SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA
| | - Igor Schapiro
- Fritz Haber Center for Molecular Dynamics, Institute of Chemistry, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
| | - Gebhard Schertler
- Division of Biology and Chemistry-Laboratory for Biomolecular Research, Paul Scherrer Institut, 5232 Villigen, Switzerland.,Department of Biology, ETH Zürich, 8093 Zürich, Switzerland
| | - Richard Neutze
- Department of Chemistry and Molecular Biology, University of Gothenburg, Box 462, SE- 40530 Gothenburg, Sweden
| | - Jörg Standfuss
- Division of Biology and Chemistry-Laboratory for Biomolecular Research, Paul Scherrer Institut, 5232 Villigen, Switzerland.
| |
Collapse
|
49
|
Brühl E, Buckup T, Motzkus M. Experimental and numerical investigation of a phase-only control mechanism in the linear intensity regime. J Chem Phys 2018; 148:214310. [DOI: 10.1063/1.5029805] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022] Open
Affiliation(s)
- Elisabeth Brühl
- Physikalisch-Chemisches Institut, Ruprecht-Karls-Universität Heidelberg, D-69120 Heidelberg, Germany
| | - Tiago Buckup
- Physikalisch-Chemisches Institut, Ruprecht-Karls-Universität Heidelberg, D-69120 Heidelberg, Germany
| | - Marcus Motzkus
- Physikalisch-Chemisches Institut, Ruprecht-Karls-Universität Heidelberg, D-69120 Heidelberg, Germany
| |
Collapse
|
50
|
Domratcheva T, Schlichting I. Spiers Memorial Lecture. Introductory lecture: the impact of structure on photoinduced processes in nucleic acids and proteins. Faraday Discuss 2018; 207:9-26. [PMID: 29583144 DOI: 10.1039/c8fd00058a] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Light is an important environmental variable and most organisms have evolved means to sense, exploit or avoid it and to repair detrimental effects on their genome. In general, light absorption is the task of specific chromophores, however other biomolecules such as oligonucleotides also do so which can result in undesired outcomes such as mutations and cancer. Given the biological importance of light-induced processes and applications for imaging, optogenetics, photodynamic therapy or photovoltaics, there is a great interest in understanding the detailed molecular mechanisms of photoinduced processes in proteins and nucleic acids. The processes are typically characterized by time-resolved spectroscopic approaches or computation, inferring structural information on transient species from stable ground state structures. Recently, however, structure determination of excited states or other short-lived species has become possible with the advent of X-ray free-electron lasers. This review gives an overview of the impact of structure on the understanding of photoinduced processes in macromolecules, focusing on systems presented at this Faraday Discussion meeting.
Collapse
Affiliation(s)
- Tatiana Domratcheva
- Max Planck Institute for Medical Research, Jahnstr. 29, 69120 Heidelberg, Germany.
| | - Ilme Schlichting
- Max Planck Institute for Medical Research, Jahnstr. 29, 69120 Heidelberg, Germany.
| |
Collapse
|