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Iwamura M, Urayama R, Fukui A, Nozaki K, Liu L, Kuramochi H, Takeuchi S, Tahara T. Spectroscopic mapping of the gold complex oligomers (dimer, trimer, tetramer, and pentamer) by excited-state coherent nuclear wavepacket motion in aqueous solutions. Phys Chem Chem Phys 2023; 25:966-974. [PMID: 36515079 DOI: 10.1039/d2cp04823j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/05/2022]
Abstract
We investigate the excited-state dynamics of the [Au(CN)2-] oligomers following photo-initiated intermolecular Au-Au bond formation by carrying out femtosecond time-resolved absorption and emission measurements at various concentrations (0.080-0.6 mol dm-3) with different photoexcitation wavelengths (290-340 nm). The temporal profiles of the time-resolved absorption signals exhibit clear oscillations arising from the Au-Au stretch coherent wavepacket motion of the excited-state oligomers, which is initiated with the photo-induced Au-Au bond formation. The frequency of the observed oscillation is changed with the change of the concentration, excitation wavelength, and wavelength of the excited-state absorption monitored, reflecting the change in the size of the oligomers detected. Fourier transforms (FTs) of the oscillations provide 2D plots of the FT amplitude against the oscillation frequency versus the detected wavelengths. Because the FT amplitude exhibits a node at the peak wavelength of the absorption of the species that gives rise to the oscillation, the 2D plots enabled us to determine the peak wavelength of the excited-state absorption of the dimer, trimer, tetramer, and pentamer. We also performed femtosecond time-resolved absorption measurements for the 0.3 mol dm-3 solution with 260 nm photoexcitation, which is the condition employed in previous time-resolved X-ray studies (e.g., K. H. Kim et al. Nature, 2015, 518 (7539), 385-389). It was found that various excited-state oligomers, including the dimer, were simultaneously generated under this condition, although the analysis of the previous time-resolved X-ray studies was made by assuming that only the excited-state trimer was generated. The obtained results show that the excited-state dynamics of the trimer claimed based on the time-resolved X-ray data is questionable and that re-analysis and re-examining of its data are necessary.
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Affiliation(s)
- Munetaka Iwamura
- Graduate School of Science and Engineering, University of Toyama, 3190 Gofuku, Toyama 930-8555, Japan.
| | - Rina Urayama
- Graduate School of Science and Engineering, University of Toyama, 3190 Gofuku, Toyama 930-8555, Japan.
| | - Airi Fukui
- Graduate School of Science and Engineering, University of Toyama, 3190 Gofuku, Toyama 930-8555, Japan.
| | - Koichi Nozaki
- Graduate School of Science and Engineering, University of Toyama, 3190 Gofuku, Toyama 930-8555, Japan.
| | - Li Liu
- Molecular Spectroscopy Laboratory, RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
| | - Hikaru Kuramochi
- Molecular Spectroscopy Laboratory, RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan.,Ultrafast Spectroscopy Research Team, RIKEN Center for Advanced Photonics (RAP), RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
| | - Satoshi Takeuchi
- Molecular Spectroscopy Laboratory, RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan.,Ultrafast Spectroscopy Research Team, RIKEN Center for Advanced Photonics (RAP), RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
| | - Tahei Tahara
- Molecular Spectroscopy Laboratory, RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan.,Ultrafast Spectroscopy Research Team, RIKEN Center for Advanced Photonics (RAP), RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
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Choi EH, Lee Y, Heo J, Ihee H. Reaction dynamics studied via femtosecond X-ray liquidography at X-ray free-electron lasers. Chem Sci 2022; 13:8457-8490. [PMID: 35974755 PMCID: PMC9337737 DOI: 10.1039/d2sc00502f] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2022] [Accepted: 06/06/2022] [Indexed: 02/04/2023] Open
Abstract
X-ray free-electron lasers (XFELs) provide femtosecond X-ray pulses suitable for pump–probe time-resolved studies with a femtosecond time resolution. Since the advent of the first XFEL in 2009, recent years have witnessed a great number of applications with various pump–probe techniques at XFELs. Among these, time-resolved X-ray liquidography (TRXL) is a powerful method for visualizing structural dynamics in the liquid solution phase. Here, we classify various chemical and biological molecular systems studied via femtosecond TRXL (fs-TRXL) at XFELs, depending on the focus of the studied process, into (i) bond cleavage and formation, (ii) charge distribution and electron transfer, (iii) orientational dynamics, (iv) solvation dynamics, (v) coherent nuclear wavepacket dynamics, and (vi) protein structural dynamics, and provide a brief review on each category. We also lay out a plausible roadmap for future fs-TRXL studies for areas that have not been explored yet. Femtosecond X-ray liquidography using X-ray free-electron lasers (XFELs) visualizes various aspects of reaction dynamics.![]()
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Affiliation(s)
- Eun Hyuk Choi
- Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, Republic of Korea
- KI for the BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, Republic of Korea
- Center for Advanced Reaction Dynamics, Institute for Basic Science (IBS), Daejeon, 34141, Republic of Korea
| | - Yunbeom Lee
- Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, Republic of Korea
- KI for the BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, Republic of Korea
- Center for Advanced Reaction Dynamics, Institute for Basic Science (IBS), Daejeon, 34141, Republic of Korea
| | - Jun Heo
- Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, Republic of Korea
- KI for the BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, Republic of Korea
- Center for Advanced Reaction Dynamics, Institute for Basic Science (IBS), Daejeon, 34141, Republic of Korea
| | - Hyotcherl Ihee
- Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, Republic of Korea
- KI for the BioCentury, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, Republic of Korea
- Center for Advanced Reaction Dynamics, Institute for Basic Science (IBS), Daejeon, 34141, Republic of Korea
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Kim JG, Choi EH, Lee Y, Ihee H. Femtosecond X-ray Liquidography Visualizes Wavepacket Trajectories in Multidimensional Nuclear Coordinates for a Bimolecular Reaction. Acc Chem Res 2021; 54:1685-1698. [PMID: 33733724 DOI: 10.1021/acs.accounts.0c00812] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
ConspectusVibrational wavepacket motions on potential energy surfaces are one of the critical factors that determine the reaction dynamics of photoinduced reactions. The motions of vibrational wavepackets are often discussed in the interpretation of observables measured with various time-resolved vibrational or electronic spectroscopies but mostly in terms of the frequencies of wavepacket motions, which are approximated by normal modes, rather than the actual positions of the wavepacket. Although the time-dependent positions (that is, the trajectory) of wavepackets are hypothesized or drawn in imagined or calculated potential energy surfaces, it is not trivial to experimentally determine the trajectory of wavepackets, especially in multidimensional nuclear coordinates for a polyatomic molecule. Recently, we performed a femtosecond X-ray liquidography (solution scattering) experiment on a gold trimer complex (GTC), [Au(CN)2-]3, in water at X-ray free-electron lasers (XFELs) and elucidated the time-dependent positions of vibrational wavepackets from the Franck-Condon region to equilibrium structures on both excited and ground states in the course of the formation of covalent bonds between gold atoms.Bond making is an essential process in chemical reactions, but it is challenging to keep track of detailed atomic movements associated with bond making because of its bimolecular nature that requires slow diffusion of two reaction parties to meet each other. Bond formation in the solution phase has been elusive because the diffusion of the reactants limits the reaction rate of a bimolecular process, making it difficult to initiate and track the bond-making processes with an ultrafast time resolution. In principle, if the bimolecular encounter can be controlled to overcome the limitation caused by diffusion, the bond-making processes can be tracked in a time-resolved manner, providing valuable insight into the bimolecular reaction mechanism. In this regard, GTC offers a good model system for studying the dynamics of bond formation in solution. Au(I) atoms in GTC exhibit a noncovalent aurophilic interaction, making GTC an aggregate complex without any covalent bond. Upon photoexcitation of GTC, an electron is excited from an antibonding orbital to a bonding orbital, leading to the formation of covalent bonds among Au atoms. Since Au atoms in the ground state of GTC are located in close proximity within the same solvent cage, the formation of Au-Au covalent bonds occurs without its reaction rate being limited by diffusion through the solvent.Femtosecond time-resolved X-ray liquidography (fs-TRXL) data revealed that the ground state has an asymmetric bent structure. From the wavepacket trajectory determined in three-dimensional nuclear coordinates (two internuclear distances and one bond angle), we found that two covalent bonds are formed between three Au atoms of GTC asynchronously. Specifically, one covalent bond is formed first for the shorter Au-Au pair (of the asymmetric and bent ground-state structure) in 35 fs, and subsequently, the other covalent bond is formed for the longer Au-Au pair within 360 fs. The resultant trimer complex has a symmetric and linear geometry, implying the occurrence of bent-to-linear transformation concomitant with the formation of two equivalent covalent bonds, and exhibits vibrations that can be unambiguously assigned to specific normal modes based on the wavepacket trajectory, even without the vibrational frequencies provided by quantum calculation.
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Affiliation(s)
- Jong Goo Kim
- Department of Chemistry, KAIST, Daejeon 34141, Republic of Korea
- KI for the BioCentury, KAIST, Daejeon 34141, Republic of Korea
- Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon 34141, Republic of Korea
| | - Eun Hyuk Choi
- Department of Chemistry, KAIST, Daejeon 34141, Republic of Korea
- KI for the BioCentury, KAIST, Daejeon 34141, Republic of Korea
- Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon 34141, Republic of Korea
| | - Yunbeom Lee
- Department of Chemistry, KAIST, Daejeon 34141, Republic of Korea
- KI for the BioCentury, KAIST, Daejeon 34141, Republic of Korea
- Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon 34141, Republic of Korea
| | - Hyotcherl Ihee
- Department of Chemistry, KAIST, Daejeon 34141, Republic of Korea
- KI for the BioCentury, KAIST, Daejeon 34141, Republic of Korea
- Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon 34141, Republic of Korea
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Kim JG, Nozawa S, Kim H, Choi EH, Sato T, Kim TW, Kim KH, Ki H, Kim J, Choi M, Lee Y, Heo J, Oang KY, Ichiyanagi K, Fukaya R, Lee JH, Park J, Eom I, Chun SH, Kim S, Kim M, Katayama T, Togashi T, Owada S, Yabashi M, Lee SJ, Lee S, Ahn CW, Ahn DS, Moon J, Choi S, Kim J, Joo T, Kim J, Adachi SI, Ihee H. Mapping the emergence of molecular vibrations mediating bond formation. Nature 2020; 582:520-524. [PMID: 32581378 DOI: 10.1038/s41586-020-2417-3] [Citation(s) in RCA: 44] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2019] [Accepted: 04/16/2020] [Indexed: 11/09/2022]
Abstract
Fundamental studies of chemical reactions often consider the molecular dynamics along a reaction coordinate using a calculated or suggested potential energy surface1-5. But fully mapping such dynamics experimentally, by following all nuclear motions in a time-resolved manner-that is, the motions of wavepackets-is challenging and has not yet been realized even for the simple stereotypical bimolecular reaction6-8: A-B + C → A + B-C. Here we track the trajectories of these vibrational wavepackets during photoinduced bond formation of the gold trimer complex [Au(CN)2-]3 in an aqueous monomer solution, using femtosecond X-ray liquidography9-12 with X-ray free-electron lasers13,14. In the complex, which forms when three monomers A, B and C cluster together through non-covalent interactions15,16, the distance between A and B is shorter than that between B and C. Tracking the wavepacket in three-dimensional nuclear coordinates reveals that within the first 60 femtoseconds after photoexcitation, a covalent bond forms between A and B to give A-B + C. The second covalent bond, between B and C, subsequently forms within 360 femtoseconds to give a linear and covalently bonded trimer complex A-B-C. The trimer exhibits harmonic vibrations that we map and unambiguously assign to specific normal modes using only the experimental data. In principle, more intense X-rays could visualize the motion not only of highly scattering atoms such as gold but also of lighter atoms such as carbon and nitrogen, which will open the door to the direct tracking of the atomic motions involved in many chemical reactions.
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Affiliation(s)
- Jong Goo Kim
- Department of Chemistry, KAIST, Daejeon, Republic of Korea.,KI for the BioCentury, KAIST, Daejeon, Republic of Korea.,Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon, Republic of Korea
| | - Shunsuke Nozawa
- Photon Factory, Institute of Materials Structure Science, High Energy Accelerator Research Organization (KEK), Tsukuba, Japan.,Department of Materials Structure Science, School of High Energy Accelerator Science, The Graduate University for Advanced Studies, Tsukuba, Japan
| | - Hanui Kim
- Department of Chemistry, KAIST, Daejeon, Republic of Korea.,KI for the BioCentury, KAIST, Daejeon, Republic of Korea.,Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon, Republic of Korea
| | - Eun Hyuk Choi
- Department of Chemistry, KAIST, Daejeon, Republic of Korea.,KI for the BioCentury, KAIST, Daejeon, Republic of Korea.,Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon, Republic of Korea
| | - Tokushi Sato
- Center for Free-Electron Laser Science (CFEL), Deutsches Elektronen-Synchrotron (DESY), Hamburg, Germany.,European XFEL, Schenefeld, Germany
| | - Tae Wu Kim
- Department of Chemistry, KAIST, Daejeon, Republic of Korea.,KI for the BioCentury, KAIST, Daejeon, Republic of Korea.,Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon, Republic of Korea
| | - Kyung Hwan Kim
- Department of Chemistry, Pohang University of Science and Technology (POSTECH), Pohang, Republic of Korea
| | - Hosung Ki
- Department of Chemistry, KAIST, Daejeon, Republic of Korea.,KI for the BioCentury, KAIST, Daejeon, Republic of Korea.,Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon, Republic of Korea
| | - Jungmin Kim
- Department of Chemistry, KAIST, Daejeon, Republic of Korea.,KI for the BioCentury, KAIST, Daejeon, Republic of Korea.,Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon, Republic of Korea
| | - Minseo Choi
- Department of Chemistry, KAIST, Daejeon, Republic of Korea.,KI for the BioCentury, KAIST, Daejeon, Republic of Korea.,Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon, Republic of Korea
| | - Yunbeom Lee
- Department of Chemistry, KAIST, Daejeon, Republic of Korea.,KI for the BioCentury, KAIST, Daejeon, Republic of Korea.,Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon, Republic of Korea
| | - Jun Heo
- Department of Chemistry, KAIST, Daejeon, Republic of Korea.,KI for the BioCentury, KAIST, Daejeon, Republic of Korea.,Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon, Republic of Korea
| | - Key Young Oang
- Radiation Center for Ultrafast Science, Quantum Optics Division, Korea Atomic Energy Research Institute (KAERI), Daejeon, Republic of Korea
| | - Kouhei Ichiyanagi
- Photon Factory, Institute of Materials Structure Science, High Energy Accelerator Research Organization (KEK), Tsukuba, Japan
| | - Ryo Fukaya
- Photon Factory, Institute of Materials Structure Science, High Energy Accelerator Research Organization (KEK), Tsukuba, Japan
| | - Jae Hyuk Lee
- Pohang Accelerator Laboratory, Pohang, Republic of Korea
| | - Jaeku Park
- Pohang Accelerator Laboratory, Pohang, Republic of Korea
| | - Intae Eom
- Pohang Accelerator Laboratory, Pohang, Republic of Korea
| | - Sae Hwan Chun
- Pohang Accelerator Laboratory, Pohang, Republic of Korea
| | - Sunam Kim
- Pohang Accelerator Laboratory, Pohang, Republic of Korea
| | - Minseok Kim
- Pohang Accelerator Laboratory, Pohang, Republic of Korea
| | - Tetsuo Katayama
- Japan Synchrotron Radiation Research Institute (JASRI), Sayo, Japan.,RIKEN SPring-8 Center, Sayo, Japan
| | - Tadashi Togashi
- Japan Synchrotron Radiation Research Institute (JASRI), Sayo, Japan.,RIKEN SPring-8 Center, Sayo, Japan
| | - Sigeki Owada
- Japan Synchrotron Radiation Research Institute (JASRI), Sayo, Japan.,RIKEN SPring-8 Center, Sayo, Japan
| | - Makina Yabashi
- Japan Synchrotron Radiation Research Institute (JASRI), Sayo, Japan.,RIKEN SPring-8 Center, Sayo, Japan
| | - Sang Jin Lee
- Department of Chemistry, KAIST, Daejeon, Republic of Korea.,KI for the BioCentury, KAIST, Daejeon, Republic of Korea.,Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon, Republic of Korea
| | - Seonggon Lee
- Department of Chemistry, KAIST, Daejeon, Republic of Korea.,KI for the BioCentury, KAIST, Daejeon, Republic of Korea.,Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon, Republic of Korea
| | - Chi Woo Ahn
- Department of Chemistry, KAIST, Daejeon, Republic of Korea.,KI for the BioCentury, KAIST, Daejeon, Republic of Korea.,Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon, Republic of Korea
| | - Doo-Sik Ahn
- Department of Chemistry, KAIST, Daejeon, Republic of Korea.,KI for the BioCentury, KAIST, Daejeon, Republic of Korea.,Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon, Republic of Korea
| | - Jiwon Moon
- Department of Chemistry, The Catholic University of Korea, Bucheon, Republic of Korea
| | - Seungjoo Choi
- Department of Chemistry, Inha University, Incheon, Republic of Korea
| | - Joonghan Kim
- Department of Chemistry, The Catholic University of Korea, Bucheon, Republic of Korea
| | - Taiha Joo
- Department of Chemistry, Pohang University of Science and Technology (POSTECH), Pohang, Republic of Korea
| | - Jeongho Kim
- Department of Chemistry, Inha University, Incheon, Republic of Korea
| | - Shin-Ichi Adachi
- Photon Factory, Institute of Materials Structure Science, High Energy Accelerator Research Organization (KEK), Tsukuba, Japan.,Department of Materials Structure Science, School of High Energy Accelerator Science, The Graduate University for Advanced Studies, Tsukuba, Japan
| | - Hyotcherl Ihee
- Department of Chemistry, KAIST, Daejeon, Republic of Korea. .,KI for the BioCentury, KAIST, Daejeon, Republic of Korea. .,Center for Nanomaterials and Chemical Reactions, Institute for Basic Science (IBS), Daejeon, Republic of Korea.
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