1
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Hervé du Penhoat MA, Souchaud A, Rajpal A, Vuilleumier R, Gaigeot MP, Tavernelli I, Fujii K, Yokoya A, Díaz-Tendero S, Politis MF. Ultrafast fragmentation of highly-excited doubly-ionized deoxyribose: role of the liquid water environment. Phys Chem Chem Phys 2024; 26:15693-15704. [PMID: 38766756 DOI: 10.1039/d4cp00489b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/22/2024]
Abstract
Ab initio molecular dynamics simulations are used to investigate the fragmentation dynamics following the double ionization of 2-deoxy-D-ribose (DR), a major component in the DNA chain. Different ionization scenarios are considered to provide a complete picture. First focusing on isolated DR2+, fragmentation patterns are determined for the ground electronic state, adding randomly distributed excitation energy to the nuclei. These patterns differ for the two isomers studied. To compare thermal and electronic excitation effects, Ehrenfest dynamics are also performed, allowing to remove the two electrons from selected molecular orbitals. Two intermediate-energy orbitals, localized on the carbon chain, were selected. The dissociation pattern corresponds to the most frequent pattern obtained when adding thermal excitation. On the contrary, targeting the four deepest orbitals, localized on the oxygen atoms, leads to selective ultrafast C-O and/or O-H bond dissociation. To probe the role of environment, a system consisting of a DR molecule embedded in liquid water is then studied. The two electrons are removed from either the DR or the water molecules directly linked to the sugar through hydrogen bonds. Although the dynamics onset is similar to that of isolated DR when removing the same deep orbitals localized on the sugar oxygen atoms, the subsequent fragmentation patterns differ. Sugar damage also occurs following the Coulomb explosion of neighboring H2O2+ molecules due to interaction with the emitted O or H atoms.
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Affiliation(s)
| | | | - Aashini Rajpal
- IMPMC, Sorbonne Université, UMR CNRS 7590, MNHN, Paris, France.
| | - Rodolphe Vuilleumier
- PASTEUR, Département de Chimie, École Normale Supérieure, PSL University, Sorbonne Université, CNRS, 75005 Paris, France
| | - Marie-Pierre Gaigeot
- Université Paris-Saclay, Univ Evry, CY Cergy Paris Université, CNRS, LAMBE, 91025 Evry-Courcouronnes, France
- Institut Universitaire de France (IUF), 75005 Paris, France
| | | | - Kentaro Fujii
- Institute for Quantum Life Science, National Institutes for Quantum Science and Technology, Chiba 263-8555, Japan
| | - Akinari Yokoya
- Institute for Quantum Life Science, National Institutes for Quantum Science and Technology, Chiba 263-8555, Japan
| | - Sergio Díaz-Tendero
- Departamento de Química, Universidad Autónoma de Madrid, Madrid, Spain
- Institute for Advanced Research in Chemistry (IAdChem), Universidad Autónoma de Madrid, 28049 Madrid, Spain
- Condensed Matter Physics Center (IFIMAC), Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - Marie-Françoise Politis
- Université Paris-Saclay, Univ Evry, CY Cergy Paris Université, CNRS, LAMBE, 91025 Evry-Courcouronnes, France
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2
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Li Y, He F, Sato T, Ishikawa KL. Implementation of the Time-Dependent Complete-Active-Space Self-Consistent-Field Method for Diatomic Molecules. J Phys Chem A 2024; 128:1523-1532. [PMID: 38373288 DOI: 10.1021/acs.jpca.3c06799] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/21/2024]
Abstract
We present a computational approach that implements the time-dependent complete-active-space self-consistent-field method, as introduced in [Phys. Rev. A 88, 023402 (2013)]. Our implementation addresses the challenge of diatomic molecules subjected to an intense laser pulse by considering the full dimensionality of the problem using prolate spheroidal coordinates. The method incorporates the gauge-invariant frozen-core approximation, boosts the evaluation of the electron-electron interaction term using finite-element discrete-variable representation with Neumann expansion, and utilizes an exponential time differencing scheme tailored for the stable propagation of the stiff nonlinear orbital functions. We have successfully applied this methodology to study high-harmonic generation in diatomic molecules such as H2, LiH, and N2, shedding light on the impact of electron correlations in these systems.
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Affiliation(s)
- Yang Li
- Key Laboratory for Laser Plasmas (Ministry of Education) and School of Physics and Astronomy, Shanghai Jiao Tong University, Shanghai 200240, China
- Graduate School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan
| | - Feng He
- Key Laboratory for Laser Plasmas (Ministry of Education) and School of Physics and Astronomy, Shanghai Jiao Tong University, Shanghai 200240, China
- CAS Center for Excellence in Ultra-intense Laser Science, Shanghai 201800, China
| | - Takeshi Sato
- Graduate School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan
- Photon Science Center, School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan
- Research Institute for Photon Science and Laser Technology, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan
| | - Kenichi L Ishikawa
- Graduate School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan
- Photon Science Center, School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan
- Research Institute for Photon Science and Laser Technology, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan
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3
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Kuraoka T, Goto S, Kanno M, Díaz-Tendero S, Reino-González J, Trinter F, Pier A, Sommerlad L, Melzer N, McGinnis OD, Kruse J, Wenzel T, Jahnke T, Xue H, Kishimoto N, Yoshikawa K, Tamura Y, Ota F, Hatada K, Ueda K, Martín F. Tracing Photoinduced Hydrogen Migration in Alcohol Dications from Time-Resolved Molecular-Frame Photoelectron Angular Distributions. J Phys Chem A 2024; 128:1241-1249. [PMID: 38324399 PMCID: PMC10895665 DOI: 10.1021/acs.jpca.3c07640] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2023] [Revised: 01/12/2024] [Accepted: 01/16/2024] [Indexed: 02/09/2024]
Abstract
The recent implementation of attosecond and few-femtosecond X-ray pump/X-ray probe schemes in large-scale free-electron laser facilities has opened the way to visualize fast nuclear dynamics in molecules with unprecedented temporal and spatial resolution. Here, we present the results of theoretical calculations showing how polarization-averaged molecular-frame photoelectron angular distributions (PA-MFPADs) can be used to visualize the dynamics of hydrogen migration in methanol, ethanol, propanol, and isopropyl alcohol dications generated by X-ray irradiation of the corresponding neutral species. We show that changes in the PA-MFPADs with the pump-probe delay as a result of intramolecular photoelectron diffraction carry information on the dynamics of hydrogen migration in real space. Although visualization of this dynamics is more straightforward in the smaller systems, methanol and ethanol, one can still recognize the signature of that motion in propanol and isopropyl alcohol and assign a tentative path to it. A possible pathway for a corresponding experiment requires an angularly resolved detection of photoelectrons in coincidence with molecular fragment ions used to define a molecular frame of reference. Such studies have become, in principle, possible since the first XFELs with sufficiently high repetition rates have emerged. To further support our findings, we provide experimental evidence of H migration in ethanol-OD from ion-ion coincidence measurements performed with synchrotron radiation.
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Affiliation(s)
- T. Kuraoka
- Department
of Physics, University of Toyama, Gofuku 3190, Toyama 930-8555, Japan
| | - S. Goto
- Department
of Physics, University of Toyama, Gofuku 3190, Toyama 930-8555, Japan
| | - M. Kanno
- Department
of Chemistry, Tohoku University, 6-3 Aramaki Aza-Aoba, Aoba-ku, Sendai 980-8578, Japan
| | - S. Díaz-Tendero
- Departamento
de Química, Universidad Autónoma
de Madrid, Madrid 28049, Spain
- Condensed
Matter Physics Center (IFIMAC), Universidad
Autónoma de Madrid, Madrid 28049, Spain
- Institute
for Advanced Research in Chemical Sciences (IAdChem), Universidad Autónoma de Madrid, Madrid 28049, Spain
| | - J. Reino-González
- Instituto
Madrileño de Estudios Avanzados en Nanociencia (IMDEA-Nano), Campus de Cantoblanco, Madrid 28049, Spain
| | - F. Trinter
- Molecular
Physics, Fritz-Haber-Institut der Max-Planck-Gesellschaft, Faradayweg 4-6, Berlin 14195, Germany
| | - A. Pier
- Institut
für Kernphysik, Goethe-Universität
Frankfurt, Max-von-Laue-Straβe 1, Frankfurt am
Main 60438, Germany
| | - L. Sommerlad
- Institut
für Kernphysik, Goethe-Universität
Frankfurt, Max-von-Laue-Straβe 1, Frankfurt am
Main 60438, Germany
| | - N. Melzer
- Institut
für Kernphysik, Goethe-Universität
Frankfurt, Max-von-Laue-Straβe 1, Frankfurt am
Main 60438, Germany
| | - O. D. McGinnis
- Institut
für Kernphysik, Goethe-Universität
Frankfurt, Max-von-Laue-Straβe 1, Frankfurt am
Main 60438, Germany
| | - J. Kruse
- Institut
für Kernphysik, Goethe-Universität
Frankfurt, Max-von-Laue-Straβe 1, Frankfurt am
Main 60438, Germany
| | - T. Wenzel
- Institut
für Kernphysik, Goethe-Universität
Frankfurt, Max-von-Laue-Straβe 1, Frankfurt am
Main 60438, Germany
| | - T. Jahnke
- Max-Planck-Institut
für Kernphysik, Saupfercheckweg 1, Heidelberg 69117, Germany
- European
XFEL, Holzkoppel
4, Schenefeld 22869, Germany
| | - H. Xue
- Department
of Chemistry, Tohoku University, 6-3 Aramaki Aza-Aoba, Aoba-ku, Sendai 980-8578, Japan
| | - N. Kishimoto
- Department
of Chemistry, Tohoku University, 6-3 Aramaki Aza-Aoba, Aoba-ku, Sendai 980-8578, Japan
| | - K. Yoshikawa
- Department
of Physics, University of Toyama, Gofuku 3190, Toyama 930-8555, Japan
| | - Y. Tamura
- Department
of Physics, University of Toyama, Gofuku 3190, Toyama 930-8555, Japan
| | - F. Ota
- Department
of Physics, University of Toyama, Gofuku 3190, Toyama 930-8555, Japan
| | - K. Hatada
- Department
of Physics, University of Toyama, Gofuku 3190, Toyama 930-8555, Japan
| | - K. Ueda
- Department
of Chemistry, Tohoku University, 6-3 Aramaki Aza-Aoba, Aoba-ku, Sendai 980-8578, Japan
| | - F. Martín
- Departamento
de Química, Universidad Autónoma
de Madrid, Madrid 28049, Spain
- Instituto
Madrileño de Estudios Avanzados en Nanociencia (IMDEA-Nano), Campus de Cantoblanco, Madrid 28049, Spain
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4
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Gong X, Zhang W, Lu P, Ni H, Wu J. Probing and Steering Attosecond Electron Motion Using Tailored Ultrafast Laser Fields. J Phys Chem A 2024; 128:401-412. [PMID: 38181198 DOI: 10.1021/acs.jpca.3c06613] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2024]
Abstract
An ultrafast intense laser field is one of the most important tools to observe and manipulate electronic and nuclear dynamics with subcycle precision in highly nonlinear light-matter interactions, which provides access to attosecond chemistry and physics. In this review, we briefly summarize the protocol of attosecond chronoscopy and its application in probing the attosecond photoemission dynamics from atoms and molecules. We also review the control schemes of attosecond electron motion in atoms and molecules as well as molecular bond formation and cleavage with the assistance of tailored femtosecond laser fields.
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Affiliation(s)
- Xiaochun Gong
- State Key Laboratory of Precision Spectroscopy, East China Normal University, Shanghai 200241, China
| | - Wenbin Zhang
- State Key Laboratory of Precision Spectroscopy, East China Normal University, Shanghai 200241, China
| | - Peifen Lu
- State Key Laboratory of Precision Spectroscopy, East China Normal University, Shanghai 200241, China
| | - Hongcheng Ni
- State Key Laboratory of Precision Spectroscopy, East China Normal University, Shanghai 200241, China
| | - Jian Wu
- State Key Laboratory of Precision Spectroscopy, East China Normal University, Shanghai 200241, China
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5
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Pranjal P, González-Vázquez J, Bello RY, Martín F. Resonant Photoionization of CO 2 up to the Fourth Ionization Threshold. J Phys Chem A 2024; 128:182-190. [PMID: 38118433 PMCID: PMC10788902 DOI: 10.1021/acs.jpca.3c06947] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2023] [Revised: 11/28/2023] [Accepted: 11/29/2023] [Indexed: 12/22/2023]
Abstract
We present a comprehensive theoretical study of valence-shell photoionization of the CO2 molecule by using the XCHEM methodology. This method makes use of a fully correlated molecular electronic continuum at a level comparable to that provided by state-of-the-art quantum chemistry packages in bound-state calculations. The calculated total and angularly resolved photoionization cross sections are presented and discussed, with particular emphasis on the series of autoionizing resonances that appear between the first and the fourth ionization thresholds. Ten series of Rydberg autoionizing states are identified, including some not previously reported in the literature, and their energy positions and widths are provided. This is relevant in the context of ongoing experimental and theoretical efforts aimed at observing in real-time (attosecond time scale) the autoionization dynamics in molecules.
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Affiliation(s)
- Prateek Pranjal
- Instituto
Madrileño de Estudios Avanzados en Nanociencia (IMDEA-Nanociencia),
Cantoblanco, 28049 Madrid, Spain
| | - Jesús González-Vázquez
- Departamento
de Química, Módulo 13, Facultad de Ciencias, Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - Roger Y. Bello
- Departamento
de Química Física Aplicada, Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - Fernando Martín
- Instituto
Madrileño de Estudios Avanzados en Nanociencia (IMDEA-Nanociencia),
Cantoblanco, 28049 Madrid, Spain
- Departamento
de Química, Módulo 13, Facultad de Ciencias, Universidad Autónoma de Madrid, 28049 Madrid, Spain
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