1
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Tikhonov DS, Lee JWL, Schnell M. On the thermodynamic stability of polycations. J Chem Phys 2024; 160:244110. [PMID: 38934634 DOI: 10.1063/5.0207526] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2024] [Accepted: 06/10/2024] [Indexed: 06/28/2024] Open
Abstract
We present a simple approximation to estimate the largest charge that a given molecule can hold until fragmentation into smaller charged species becomes more energetically favorable. This approximation solely relies on the ionization potentials, electron affinities of the parent and fragment species, and also on the neutral parent's dissociation energy. By parameterizing these quantities, it is possible to obtain analytical phase diagrams of polycationic stability. We demonstrate the applicability of this approach by discussing the maximal charge dependence on the size of the molecular system. A numerical demonstration for linear polyenes, monocyclic annulenes, and helium clusters is provided.
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Affiliation(s)
- Denis S Tikhonov
- Deutsches Elektronen-Synchrotron DESY, Notkestr. 85, 22607 Hamburg, Germany
| | - Jason W L Lee
- Deutsches Elektronen-Synchrotron DESY, Notkestr. 85, 22607 Hamburg, Germany
| | - Melanie Schnell
- Deutsches Elektronen-Synchrotron DESY, Notkestr. 85, 22607 Hamburg, Germany
- Institute of Physical Chemistry, Christian-Albrechts-Universität zu Kiel, Max-Eyth-Str. 1, 24118 Kiel, Germany
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2
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Aguilar-Galindo F, Nguyen VTT, Singh R, Domaracka A, Huber BA, Díaz-Tendero S, Rousseau P, Maclot S. Unexpected and delayed fragmentation dynamics of the organometallic ferrocene induced by ion-collision. Phys Chem Chem Phys 2024; 26:7638-7646. [PMID: 38363201 DOI: 10.1039/d3cp05430f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/17/2024]
Abstract
We have investigated the fragmentation dynamics of the organometallic ferrocene molecule after interaction with multiply charged ions using multicoincidence mass spectrometry and quantum chemistry calculations. We observed unexpected fragmentation dynamics of the two-body breakup channels from ferrocene dications revealing a charge screening effect from the iron atom and delayed fragmentation dynamics. These observations are rationalized through the population of a specific long-lived excited state, where one positive charge is located on each cyclopentadienyl ring.
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Affiliation(s)
- F Aguilar-Galindo
- Department of Chemistry, Universidad Autónoma de Madrid, 28049, Madrid, Spain
- Institute for Advanced Research in Chemistry (IAdChem), Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - V T T Nguyen
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000, Caen, France
| | - R Singh
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000, Caen, France
| | - A Domaracka
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000, Caen, France
| | - B A Huber
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000, Caen, France
| | - S Díaz-Tendero
- Department of Chemistry, Universidad Autónoma de Madrid, 28049, 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
| | - P Rousseau
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000, Caen, France
| | - S Maclot
- Institut Lumière Matière UMR 5306, Université Claude Bernard Lyon 1, CNRS, Univ Lyon, 69100 Villeurbanne, France.
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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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Ascenzi D, Erdmann E, Bolognesi P, Avaldi L, Castrovilli MC, Thissen R, Romanzin C, Alcaraz C, Rabadan I, Mendez L, Díaz-Tendero S, Cartoni A. H 2O˙ + and OH + reactivity versus furan: experimental low energy absolute cross sections for modeling radiation damage. Phys Chem Chem Phys 2023; 25:24643-24656. [PMID: 37665608 DOI: 10.1039/d3cp02772d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/05/2023]
Abstract
Radiotherapy is one of the most widespread and efficient strategies to fight malignant tumors. Despite its broad application, the mechanisms of radiation-DNA interaction are still under investigation. Theoretical models to predict the effects of a particular delivered dose are still in their infancy due to the difficulty of simulating a real cell environment, as well as the inclusion of a large variety of secondary processes. This work reports the first experimental study of the ion-molecule reactions of the H2O˙+ and OH+ ions, produced by photoionization with synchrotron radiation, with a furan (c-C4H4O) molecule, a template for deoxyribose sugar in DNA. The present experiments, performed as a function of the collision energy of the ions and the tunable photoionization energy, provide key parameters for the theoretical modelling of the effect of radiation dose, like the absolute cross sections for producing protonated furan (furanH+) and a radical cation (furan˙+), the most abundant products, which can amount up to 200 Å2 at very low collision energies (<1.0 eV). The experimental results show that furanH+ is more fragile, indicating how the protonation of the sugar component of the DNA may favor its dissociation with possible major radiosensitizing effects. Moreover, the ring opening of furanH+ isomers and the potential energy surface of the most important fragmentation channels have been explored by molecular dynamics simulations and quantum chemistry calculations. The results show that, in the most stable isomer of furanH+, the ring opening occurs via a low energy pathway with carbon-oxygen bond cleavage, followed by the loss of neutral carbon monoxide and the formation of the allyl cation CH2CHCH2+, which instead is not observed in the fragmentation of furan˙+. At higher energies the ring opening through the carbon-carbon bond is accompanied by the loss of formaldehyde, producing HCCCH2+, the most intense fragment ion detected in the experiments. This work highlights the importance of the secondary processes, like the ion-molecule reactions at low energies in the radiation damage due to their very large cross sections, and it aims to provide benchmark data for the development of suitable models to approach this low collision energy range.
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Affiliation(s)
- Daniela Ascenzi
- Department of Physics, University of Trento, Via Sommarive 14, 38123 Trento, Italy
| | - Ewa Erdmann
- Faculty of Applied Physics and Mathematics, Gdansk University of Technology, Narutowicza 11/12, 80-233 Gdansk, Poland
| | - Paola Bolognesi
- Institute of Structure of Matter-CNR (ISM-CNR), Area della Ricerca di Roma 1, Via Salaria km 29.300, 00015, Monterotondo, Italy
| | - Lorenzo Avaldi
- Institute of Structure of Matter-CNR (ISM-CNR), Area della Ricerca di Roma 1, Via Salaria km 29.300, 00015, Monterotondo, Italy
| | - Mattea Carmen Castrovilli
- Institute of Structure of Matter-CNR (ISM-CNR), Area della Ricerca di Roma 1, Via Salaria km 29.300, 00015, Monterotondo, Italy
| | - Roland Thissen
- Université Paris-Saclay, CNRS, Institut de Chimie Physique, UMR8000, 91405 Orsay, France
- Synchrotron SOLEIL, L'Orme des Merisiers, 91192 Saint Aubin, Gif-sur-Yvette, France
| | - Claire Romanzin
- Université Paris-Saclay, CNRS, Institut de Chimie Physique, UMR8000, 91405 Orsay, France
- Synchrotron SOLEIL, L'Orme des Merisiers, 91192 Saint Aubin, Gif-sur-Yvette, France
| | - Christian Alcaraz
- Université Paris-Saclay, CNRS, Institut de Chimie Physique, UMR8000, 91405 Orsay, France
- Synchrotron SOLEIL, L'Orme des Merisiers, 91192 Saint Aubin, Gif-sur-Yvette, France
| | - Ismanuel Rabadan
- Department of Chemistry, Universidad Autónoma de Madrid, 28049, Madrid, Spain.
| | - Luis Mendez
- Department of Chemistry, Universidad Autónoma de Madrid, 28049, Madrid, Spain.
| | - Sergio Díaz-Tendero
- Department of Chemistry, Universidad Autónoma de Madrid, 28049, 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
| | - Antonella Cartoni
- Department of Chemistry, Sapienza University of Rome, P. le Aldo Moro 5, Rome, 00185, Italy.
- Institute of Structure of Matter-CNR (ISM-CNR), Area della Ricerca di Roma 1, Via Salaria km 29.300, 00015, Monterotondo, Italy
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5
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Tiefenthaler L, Scheier P, Erdmann E, Aguirre NF, Díaz-Tendero S, Luxford TFM, Kočišek J. Non-ergodic fragmentation upon collision-induced activation of cysteine-water cluster cations. Phys Chem Chem Phys 2023; 25:5361-5371. [PMID: 36647750 PMCID: PMC9930733 DOI: 10.1039/d2cp04172c] [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: 09/07/2022] [Accepted: 10/20/2022] [Indexed: 01/18/2023]
Abstract
Cysteine-water cluster cations Cys(H2O)3,6+ and Cys(H2O)3,6H+ are assembled in He droplets and probed by tandem mass spectrometry with collision-induced activation. Benchmark experimental data for this biologically important system are complemented with theory to elucidate the details of the collision-induced activation process. Experimental energy thresholds for successive release of water are compared to water dissociation energies from DFT calculations showing that clusters do not only fragment exclusively by sequential emission of single water molecules but also by the release of small water clusters. Release of clustered water is observed also in the ADMP (atom centered density matrix propagation) molecular dynamics model of small Cys(H2O)3+ and Cys(H2O)3H+ clusters. For large clusters Cys(H2O)6+ and Cys(H2O)6H+ the less computationally demanding statistical Microcanonical Metropolis Monte-Carlo method (M3C) is used to model the experimental fragmentation patterns. We are able to detail the energy redistribution in clusters upon collision activation. In the present case, about two thirds of the collision energy redistribute via an ergodic process, while the remaining one third is transferred into a non-ergodic channel leading to ejection of a single water molecule from the cluster. In contrast to molecular fragmentation, which can be well described by statistical models, modelling of collision-induced activation of weakly bound clusters requires inclusion of non-ergodic processes.
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Affiliation(s)
- Lukas Tiefenthaler
- Institute for Ion Physics and Applied Physics, University of Innsbruck, Austria.
| | - Paul Scheier
- Institute for Ion Physics and Applied Physics, University of Innsbruck, Austria.
| | - Ewa Erdmann
- Faculty of Applied Physics and Mathematics, Gdansk University of Technology, Narutowicza 11/12, 80-233 Gdansk, Poland
- Departamento de Química, Universidad Autónoma de Madrid, 28049, Madrid, Spain.
| | - Néstor F Aguirre
- Software for Chemistry and Materials (SCM), Amsterdam, The Netherlands
| | - Sergio Díaz-Tendero
- Departamento de Química, Universidad Autónoma de Madrid, 28049, Madrid, Spain.
- Condensed Matter Physics Center (IFIMAC), Universidad Autónoma de Madrid, 28049 Madrid, Spain
- Institute for Advanced Research in ChemicalSciences (IAdChem), Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - Thomas F M Luxford
- J. Heyrovský Institute of Physical Chemistry v.v.i., The Czech Academy of Sciences, Dolejškova 3, 18223 Prague, Czechia.
| | - Jaroslav Kočišek
- J. Heyrovský Institute of Physical Chemistry v.v.i., The Czech Academy of Sciences, Dolejškova 3, 18223 Prague, Czechia.
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6
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Prieto Zamudio E, Cisneros Gudiño C, Hallado Abaunza LX, Álvarez Torres I, Guerrero Tapia AE. Effect of radiation intensity on the fragmentation of furan through multiphoton ionization at 532 and 355 nm. Radiat Phys Chem Oxf Engl 1993 2022. [DOI: 10.1016/j.radphyschem.2022.110261] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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7
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Andriolo CV, Novaes FJM, Pereira HMG, Sardela VF, Rezende CM. Metabolic study of cafestol using in silico approach, zebrafish water tank experiments and liquid chromatography high-resolution mass spectrometry analyses. J Chromatogr B Analyt Technol Biomed Life Sci 2021; 1186:123028. [PMID: 34801941 DOI: 10.1016/j.jchromb.2021.123028] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2021] [Revised: 10/09/2021] [Accepted: 11/06/2021] [Indexed: 12/19/2022]
Abstract
Coffee is one of the most consumed beverages worldwide. Cafestol is an endogenous coffee diterpene present in raw coffee beans and also found in hot beverages, with several biological activities. However, there is still little information on this molecule after ingestion of coffee infusion. Zebrafish (Danio rerio) is a promising in vivo model for metabolic studies due to the annotation of mammalian orthologs to encode enzymes related to drug metabolism. Experiments using Zebrafish Water Tank (ZWT) model produce more significant number of metabolites for molecular investigation in a cleaner matrix than other classical models, such as purified hepatocytes. This work aimed to investigate the biotransformation of cafestol by the ZWT model using ultra-performance liquid chromatography coupled to hybrid quadrupole-orbitrap high-resolution mass spectrometry equipped with electrospray ionization (UPLC-HRMS) supported by in silico approach using SMARTCyp, Way2Drug and XenoSite Softwares. Twenty-five metabolites of cafestol were proposed by in silico analysis, in which 5 phase I metabolites were confirmed in the ZWT by UPLC and MS/HRMS investigation: 6-hydroxy-cafestol, 6,12-dihydroxy-cafestol, 2-oxo-cafestol, 6-oxo-cafestol and one isomer whose position in the carboxyl group was not determined. These metabolites were observed during 9 h of the experiment, whose contents were associated with the behavioral responses of the fish.
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Affiliation(s)
- Cyrus Veiga Andriolo
- Universidade Federal do Rio de Janeiro, Instituto de Química, Laboratório de Análise de Aromas, Avenida Athos da Silveira Ramos, 149, Bloco A, Instituto de Química, Sala 626A, Rio de Janeiro, RJ 21941-895, Brazil
| | - Fábio Junior M Novaes
- Universidade Federal do Rio de Janeiro, Instituto de Química, Laboratório de Análise de Aromas, Avenida Athos da Silveira Ramos, 149, Bloco A, Instituto de Química, Sala 626A, Rio de Janeiro, RJ 21941-895, Brazil; Universidade Federal de Viçosa, Departamento de Química, Avenida Peter Henry Rolfs, s/n, Campus Universitário, Viçosa, MG 36570-900, Brazil
| | - Henrique Marcelo Gualberto Pereira
- Universidade Federal do Rio de Janeiro, Instituto de Química, Laboratório Brasileiro de Controle de Dopagem (LBCD-LADETEC), Avenida Horácio Macedo, 1281, Pólo de Química, Bloco C, Cidade Universitária, Rio de Janeiro, RJ, 21941-598, Brazil
| | - Vinícius Figueiredo Sardela
- Universidade Federal do Rio de Janeiro, Instituto de Química, Laboratório Brasileiro de Controle de Dopagem (LBCD-LADETEC), Avenida Horácio Macedo, 1281, Pólo de Química, Bloco C, Cidade Universitária, Rio de Janeiro, RJ, 21941-598, Brazil
| | - Claudia Moraes Rezende
- Universidade Federal do Rio de Janeiro, Instituto de Química, Laboratório de Análise de Aromas, Avenida Athos da Silveira Ramos, 149, Bloco A, Instituto de Química, Sala 626A, Rio de Janeiro, RJ 21941-895, Brazil.
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8
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Erdmann E, Aguirre NF, Indrajith S, Chiarinelli J, Domaracka A, Rousseau P, Huber BA, Bolognesi P, Richter R, Avaldi L, Díaz-Tendero S, Alcamí M, Łabuda M. A general approach to study molecular fragmentation and energy redistribution after an ionizing event. Phys Chem Chem Phys 2021; 23:1859-1867. [PMID: 33439170 DOI: 10.1039/d0cp04890a] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We propose to combine quantum chemical calculations, statistical mechanical methods, and photoionization and particle collision experiments to unravel the redistribution of internal energy of the furan cation and its dissociation pathways. This approach successfully reproduces the relative intensity of the different fragments as a function of the internal energy of the system in photoelectron-photoion coincidence experiments and the different mass spectra obtained when ions ranging from Ar+ to Xe25+ or electrons are used in collision experiments. It provides deep insights into the redistribution of the internal energy in the ionized molecule and its influence on the dissociation pathways and resulting charged fragments. The present pilot study demonstrates the efficiency of a statistical exchange of excitation energy among various degrees of freedom of the molecule and proves that the proposed approach is mature to be extended to more complex systems.
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Affiliation(s)
- Ewa Erdmann
- Faculty of Applied Physics and Mathematics, Gdańsk University of Technology, Narutowicza 11/12, 80-233 Gdańsk, Poland.
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9
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Zawadzki M, Luxford TFM, Kočišek J. Carboxylation Enhances Fragmentation of Furan upon Resonant Electron Attachment. J Phys Chem A 2020; 124:9427-9435. [PMID: 33125242 PMCID: PMC7667636 DOI: 10.1021/acs.jpca.0c07283] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2020] [Revised: 10/17/2020] [Indexed: 01/18/2023]
Abstract
We report a dissociative electron attachment study to 2-furoic acid (C5H4O3) isolated in a gas phase, which is a model molecule consisting of a carboxylic group and a furan ring. Dissociation of furan by low energy electrons is accessible only via electronic excited Feshbach resonances at energies of incident electrons above 5 eV. On the other hand, carboxylic acids are well-known to dissociate via attachment of electrons at subexcitation energies. Here we elucidate how the electron and proton transfer reactions induced by carboxylation influence stability of the furan ring. Overlap of the furan and carboxyl π orbitals results in transformation of the nondissociative π2 resonance of the furan ring to a dissociative resonance. The interpretation of hydrogen transfer reactions is supported by experimental studies of 3-methyl-2-furoic and 5-methyl-2-furoic acids (C6H6O3) and density functional theory (DFT) calculations.
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Affiliation(s)
- Mateusz Zawadzki
- J.
Heyrovský Institute of Physical Chemistry, Czech Academy of
Sciences, Dolejškova 3, 18223 Prague, Czech Republic
- Atomic
Physics Division, Department of Atomic, Molecular and Optical Physics,
Faculty of Applied Physics and Mathematics, Gdańsk University of Technology, ul. G. Narutowicza 11/12, 80-233 Gdańsk, Poland
| | - Thomas F. M. Luxford
- J.
Heyrovský Institute of Physical Chemistry, Czech Academy of
Sciences, Dolejškova 3, 18223 Prague, Czech Republic
| | - Jaroslav Kočišek
- J.
Heyrovský Institute of Physical Chemistry, Czech Academy of
Sciences, Dolejškova 3, 18223 Prague, Czech Republic
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10
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Dissociation dynamics of the diamondoid adamantane upon photoionization by XUV femtosecond pulses. Sci Rep 2020; 10:2884. [PMID: 32076001 PMCID: PMC7031298 DOI: 10.1038/s41598-020-59649-1] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2019] [Accepted: 01/29/2020] [Indexed: 11/08/2022] Open
Abstract
This work presents a photodissociation study of the diamondoid adamantane using extreme ultraviolet femtosecond pulses. The fragmentation dynamics of the dication is unraveled by the use of advanced ion and electron spectroscopy giving access to the dissociation channels as well as their energetics. To get insight into the fragmentation dynamics, we use a theoretical approach combining potential energy surface determination, statistical fragmentation methods and molecular dynamics simulations. We demonstrate that the dissociation dynamics of adamantane dications takes place in a two-step process: barrierless cage opening followed by Coulomb repulsion-driven fragmentation.
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11
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Charge Transfer, Complexes Formation and Furan Fragmentation Induced by Collisions with Low-Energy Helium Cations. Int J Mol Sci 2019; 20:ijms20236022. [PMID: 31795357 PMCID: PMC6929036 DOI: 10.3390/ijms20236022] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2019] [Revised: 11/14/2019] [Accepted: 11/25/2019] [Indexed: 01/24/2023] Open
Abstract
The present work focuses on unraveling the collisional processes leading to the fragmentation of the gas-phase furan molecules under the He+ and He2+ cations impact in the energy range 5–2000 eV. The presence of different mechanisms was identified by the analysis of the optical fragmentation spectra measured using the collision-induced emission spectroscopy (CIES) in conjunction with the ab initio calculations. The measurements of the fragmentation spectra of furan were performed at the different kinetic energies of both cations. In consequence, several excited products were identified by their luminescence. Among them, the emission of helium atoms excited to the 1s4d1D2, 3D1,2,3 states was recorded. The structure of the furan molecule lacks an He atom. Therefore, observation of its emission lines is spectroscopic evidence of an impact reaction occurring via relocation of the electronic charge between interacting entities. Moreover, the recorded spectra revealed significant variations of relative band intensities of the products along with the change of the projectile charge and its velocity. In particular, at lower velocities of He+, the relative cross-sections of dissociation products have prominent resonance-like maxima. In order to elucidate the experimental results, the calculations have been performed by using a high level of quantum chemistry methods. The calculations showed that in both impact systems two collisional processes preceded fragmentation. The first one is an electron transfer from furan molecules to cations that leads to the neutralization and further excitation of the cations. The second mechanism starts from the formation of the He−C4H4O+/2+ temporary clusters before decomposition, and it is responsible for the appearance of the narrow resonances in the relative cross-section curves.
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Upadhyaya HP. Ground-state dissociation pathways for the molecular cation of 2-chlorothiophene: A time-of-flight mass spectrometry and computational study. RAPID COMMUNICATIONS IN MASS SPECTROMETRY : RCM 2019; 33:1598-1612. [PMID: 31148314 DOI: 10.1002/rcm.8497] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/25/2019] [Revised: 05/15/2019] [Accepted: 05/27/2019] [Indexed: 06/09/2023]
Abstract
RATIONALE Halogenated thiophenes are an important class of compounds mostly used in the synthesis of various materials, showing unusual electronic and optical properties. The Thiophene Ring Fragmentation (TRF) process is widely used in synthetic chemistry. In this study, the fragmentation pattern of the molecular cation of halogenated thiophene, namely, 2-chlorothiophene, was monitored to establish its dissociation mechanism. METHODS The molecular cation of 2-chlorothiophene was prepared using multiphoton excitation using a laser at 235 nm. Various product ions upon fragmentation of the molecular ion were mass analyzed using time-of-flight mass spectrometry. Laser power dependence studies were also conducted for various product ions to arrive at the dissociation mechanism. Theoretical calculations were carried out to estimate the reaction enthalpies for various reactions and compared with the experimental data available in the literature. RESULTS The most abundant product ion was observed as the HCS+ radical cation followed by the C3 H3 + ion and the H2 CCCCS+ radical cation. Other product ions such as SCCl+ , ClHCCS+ radical cations were also observed to a lesser extent in the fragmentation pattern of the parent molecular ion. Various dissociation channels were identified and supported with ab initio calculation. It has been inferred that the TRF process is usually initiated by the H/Cl atom transfer process. The appearance energies of the various fragment ions were also estimated theoretically and compared with literature values. CONCLUSIONS In conclusion, the fragmentation pattern of the molecular cation of 2-chlorothiophene was studied and the formation mechanisms of various product ions have been assigned. The appearance energies of the various fragment ions were also calculated. Finally, it is inferred that a TRF process is initiated by the H/Cl atom migration and subsequent ring opening either by C-C or C-S bond cleavage leading to the various isomers and their subsequent fragmentation. The ionization energies were accurately predicted for various species using ab initio calculation.
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Affiliation(s)
- Hari P Upadhyaya
- Radiation & Photochemistry Division, Bhabha Atomic Research Centre, Trombay, Mumbai, 400 085, India
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Wolff W, Rudek B, da Silva LA, Hilgers G, Montenegro EC, Homem MGP. Absolute ionization and dissociation cross sections of tetrahydrofuran: Fragmentation-ion production mechanisms. J Chem Phys 2019. [DOI: 10.1063/1.5115403] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023] Open
Affiliation(s)
- W. Wolff
- Instituto de Física, Universidade Federal do Rio de Janeiro, 21941-972, Rio de Janeiro, RJ, Brazil
| | - B. Rudek
- Physikalisch-Technische Bundesanstalt, Bundesallee 100, Braunschweig, Germany
| | - L. A. da Silva
- Departamento de Química, Universidade Federal de São Carlos, 13565-905, São Carlos, SP, Brazil
| | - G. Hilgers
- Physikalisch-Technische Bundesanstalt, Bundesallee 100, Braunschweig, Germany
| | - E. C. Montenegro
- Instituto de Física, Universidade Federal do Rio de Janeiro, 21941-972, Rio de Janeiro, RJ, Brazil
| | - M. G. P. Homem
- Departamento de Química, Universidade Federal de São Carlos, 13565-905, São Carlos, SP, Brazil
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Aguirre NF, Díaz-Tendero S, IdBarkach T, Chabot M, Béroff K, Alcamí M, Martín F. Fully versus constrained statistical fragmentation of carbon clusters and their heteronuclear derivatives. J Chem Phys 2019; 150:144301. [PMID: 30981259 DOI: 10.1063/1.5083864] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The Microcanonical Metropolis Monte Carlo (MMMC) method has been shown to describe reasonably well fragmentation of clusters composed of identical atomic species. However, this is not so clear in the case of heteronuclear clusters as some regions of phase space might be inaccessible due to the different mobility of the different atomic species, the existence of large isomerization barriers, or the quite different chemical nature of the possible intermediate species. In this paper, we introduce a constrained statistical model that extends the range of applicability of the MMMC method to such mixed clusters. The method is applied to describe fragmentation of isolated clusters with high, moderate, and no heteronuclear character, namely, CnHm, CnN, and Cn clusters for which experimental fragmentation branching ratios are available in the literature. We show that the constrained statistical model describes fairly well fragmentation of CnHm clusters in contrast with the poor description provided by the fully statistical model. The latter model, however, works pretty well for both Cn and CnN clusters, thus showing that the ultimate reason for this discrepancy is the inability of the MMMC method to selectively explore the whole phase space. This conclusion has driven us to predict the fragmentation patterns of the C4N cluster for which experiments are not yet available.
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Affiliation(s)
- Néstor F Aguirre
- Departamento de Química, Módulo 13, Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - Sergio Díaz-Tendero
- Departamento de Química, Módulo 13, Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - Tijani IdBarkach
- Institut de Physique Nucléaire d'Orsay, IN2P3-CNRS and Université Paris-Sud, F-91406 Orsay Cedex, France
| | - Marin Chabot
- Institut de Physique Nucléaire d'Orsay, IN2P3-CNRS and Université Paris-Sud, F-91406 Orsay Cedex, France
| | - Karine Béroff
- Institut des Sciences Moléculaires d'Orsay, INP-CNRS and Université Paris-Sud, F-91405 Orsay Cedex, France
| | - Manuel Alcamí
- Departamento de Química, Módulo 13, Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - Fernando Martín
- Departamento de Química, Módulo 13, Universidad Autónoma de Madrid, 28049 Madrid, Spain
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Sun B, Liang H, Che D, Liu H, Guo S. Mechanistic investigation of CO generation by pyrolysis of furan and its main derivatives. RSC Adv 2019; 9:9099-9105. [PMID: 35517696 PMCID: PMC9062040 DOI: 10.1039/c8ra10106j] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2018] [Accepted: 03/06/2019] [Indexed: 11/21/2022] Open
Abstract
A large amount of furan and its derivatives are contained in the biomass pyrolysis products, which mainly lead to the formation of combustible CO with an increase in the pyrolysis temperature; in this study, to illuminate the reaction mechanisms involved in the evolution of CO during the pyrolysis of furan and its main derivatives, quantum chemical theory has been adopted with the GGA-RPBE method, and nine possible reaction pathways have been investigated for the pyrolysis of furan, furfural (FF), furfuryl alcohol (FA) and 5-hydroxymethylfurfural (5-HMF) to generate CO. According to the calculation results, the optimal path for the pyrolysis of furan and its main derivatives to generate CO is as follows: at first, a ring opening reaction of furan occurs to form an aldehyde group, and then, decarbonylation occurs to form CO. Furthermore, the side chain functional groups on the furan ring can promote the ring opening reaction of the furan ring. In addition, the reaction energy barriers of the rate-determining step for the pyrolysis of furan, furfural, furfuryl alcohol and 5-hydroxymethylfurfural (5-HMF) to form CO have been determined as 343 kJ mol−1, 330 kJ mol−1, 317 kJ mol−1 and 363 kJ mol−1, respectively. Quantum chemical theory has been used to study the furan and its derivatives pyrolysis reaction, nine possible reaction pathways has been studied. Results show that decarbonylation of CO after ring opening is easier than direct decarbonylation.![]()
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Affiliation(s)
- Baizhong Sun
- School of Energy and Power Engineering
- Northeast Electric Power University
- Jilin 132000
- China
| | - Honglin Liang
- School of Energy and Power Engineering
- Northeast Electric Power University
- Jilin 132000
- China
| | - Deyong Che
- School of Energy and Power Engineering
- Northeast Electric Power University
- Jilin 132000
- China
| | - Hongpeng Liu
- School of Energy and Power Engineering
- Northeast Electric Power University
- Jilin 132000
- China
| | - Shuai Guo
- School of Energy and Power Engineering
- Northeast Electric Power University
- Jilin 132000
- China
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