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Jones D, Ali E, Chakraborty H, Ning C, García G, Madison D, Brunger M. A dynamical (e,2e) investigation into the ionization of pyrazine. Chem Phys Lett 2021. [DOI: 10.1016/j.cplett.2021.139000] [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]
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Pereira-da-Silva J, Mendes M, Kossoski F, Lozano AI, Rodrigues R, Jones NC, Hoffmann SV, Ferreira da Silva F. Perfluoro effect on the electronic excited states of para-benzoquinone revealed by experiment and theory. Phys Chem Chem Phys 2021; 23:2141-2153. [PMID: 33437976 DOI: 10.1039/d0cp05626j] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We report a comprehensive study on the electronic excited states of tetrafluoro-1,4-benzoquinone, through high-resolution vacuum ultraviolet photoabsorption spectroscopy and time-dependent density functional theory calculations performed within the nuclear ensemble approach. Absolute cross section values were experimentally determined in the 3.8-10.8 eV energy range. The present experimental results represent the highest resolution data yet reported for this molecule and reveal previously unresolved spectral structures. The interpretation of the results was made in close comparison with the available data for para-benzoquinone [Jones et al., J. Chem. Phys., 2017, 146, 184303]. While the dominant absorption features for both molecules arise from analogous π* ← π transitions, some remarkable differences have been identified. The perfluoro effect manifests in different ways: shifts in band positions and cross sections, appearance of features associated with excitations to σCF* orbitals, and spectrum broadening by quenching of either vibrational or Rydberg progressions. The level of agreement between experiment and theory is very satisfactory, yet that required the inclusion of nuclear quantum effects in the calculations. We have also discussed the role of temperature on the absorption spectrum, as well as the involvement of core-excited resonances in promoting dissociative electron attachment reactions in the 3-5 eV range.
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Affiliation(s)
- J Pereira-da-Silva
- Atomic and Molecular Collisions Laboratory, CEFITEC, Department of Physics, Universidade NOVA de Lisboa, 2829-516 Caparica, Portugal.
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Ali E, Chakraborty HS, Madison DH. Improved theoretical calculations for electron-impact ionization of DNA analogue molecules. J Chem Phys 2020; 152:124303. [PMID: 32241131 DOI: 10.1063/1.5143148] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Ionizing interactions between charged particles and molecules of biological relevance have attracted considerable interest in the last decade due to its importance in medical radiation therapy. We have previously calculated triply differential cross sections for five biomolecules in collaboration with experimental groups. We used the molecular 3-body distorted wave approximation for these calculations. For ionization of biomolecules, experimentalists are unable to determine the orientation of the molecule at the time of ionization, which means that the calculated cross sections need to be averaged over all molecular orientations. At the time the calculations were performed, it was not numerically feasible for us to perform proper averaging over orientations, so we introduced the orientation averaged molecular orbital approximation to make the calculations possible. We now have the computational capability to properly perform this average, so, here, we present new results with a proper average over orientations and compare with the previous calculations and experiment. Since the original calculations, results from two different distorted-wave models have also been published and the new results will also be compared with those calculations. Overall, the new results are in better agreement with the experiment.
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Affiliation(s)
- Esam Ali
- Department of Natural Sciences, D. L. Hubbard Center for Innovation, Northwest Missouri State University, Maryville, Missouri 64468, USA
| | - H S Chakraborty
- Department of Natural Sciences, D. L. Hubbard Center for Innovation, Northwest Missouri State University, Maryville, Missouri 64468, USA
| | - D H Madison
- Missouri University of Science and Technology, Rolla, Missouri 65402, USA
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Jones DB, Ali E, Ning CG, Ferreira da Silva F, Ingólfsson O, Lopes MCA, Chakraborty HS, Madison DH, Brunger MJ. A dynamical (e,2e) investigation into the ionization of the outermost orbitals of R-carvone. J Chem Phys 2019; 151:124306. [PMID: 31575183 DOI: 10.1063/1.5123526] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023] Open
Abstract
We report an experimental and theoretical investigation into the dynamics of electron-impact ionization of R-carvone. Experimental triple differential cross sections are obtained in asymmetric coplanar kinematic conditions for the ionization of the unresolved combination of the three outermost molecular orbitals (41a-39a) of R-carvone. These cross sections are compared with theoretical cross sections calculated within a molecular 3-body distorted wave (M3DW) framework employing either a proper orientation average or orbital average to account for the random orientation of the molecule probed in the experiment. Here, we observe that the overall scattering behavior observed in the experiment is fairly well reproduced within the M3DW framework when implementing the proper average over orientations. The character of the ionized orbitals also provides some qualitative explanation for the observed scattering behavior. This represents substantial progress when trying to describe the scattering dynamics observed for larger molecules under intermediate-impact energy and asymmetric energy sharing scattering conditions.
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Affiliation(s)
- D B Jones
- College of Science and Engineering, Flinders University, GPO Box 2100, Adelaide, SA 5001, Australia
| | - E Ali
- Department of Natural Sciences, D. L. Hubbard Center for Innovation, Northwest Missouri State University, Maryville, Missouri 64468, USA
| | - C G Ning
- State Key Laboratory of Low-Dimensional Quantum Physics, Department of Physics, Tsinghua University, Beijing 100084, China
| | - F Ferreira da Silva
- Atomic and Molecular Collisions Laboratory, CEFITEC, Department of Physics, Universidade NOVA de Lisboa, 2829-516 Caparica, Portugal
| | - O Ingólfsson
- Department of Chemistry and Science Institute, University of Iceland, 107 Reykjavík, Iceland
| | - M C A Lopes
- Departamento de Física, Universidade Federal de Juiz de Fora, Juiz de Fora, MG 36036-900, Brazil
| | - H S Chakraborty
- Department of Natural Sciences, D. L. Hubbard Center for Innovation, Northwest Missouri State University, Maryville, Missouri 64468, USA
| | - D H Madison
- Department of Physics, Missouri University of Science and Technology, Rolla, Missouri 65409, USA
| | - M J Brunger
- College of Science and Engineering, Flinders University, GPO Box 2100, Adelaide, SA 5001, Australia
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da Costa RF, Ruivo JC, Kossoski F, Varella MTDN, Bettega MHF, Jones DB, Brunger MJ, Lima MAP. An ab initio investigation for elastic and electronically inelastic electron scattering from para-benzoquinone. J Chem Phys 2018; 149:174308. [DOI: 10.1063/1.5050622] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- R. F. da Costa
- Centro de Ciências Exatas, Departamento de Física, Universidade Federal do Espírito Santo, 29075-910 Vitória, Espírito Santo, Brazil
- Instituto de Física “Gleb Wataghin”, Universidade Estadual de Campinas, 13083-859 Campinas, São Paulo, Brazil
| | - J. C. Ruivo
- Instituto de Física, Universidade de São Paulo, Rua do Matão 1731, 05508-090 São Paulo, Brazil
| | - F. Kossoski
- Instituto de Física “Gleb Wataghin”, Universidade Estadual de Campinas, 13083-859 Campinas, São Paulo, Brazil
| | - M. T. do N. Varella
- Instituto de Física, Universidade de São Paulo, Rua do Matão 1731, 05508-090 São Paulo, Brazil
| | - M. H. F. Bettega
- Departamento de Física, Universidade Federal do Paraná, CP 19044, 81531-990 Curitiba, Paraná, Brazil
| | - D. B. Jones
- College of Science and Engineering, Flinders University, GPO Box 2100, Adelaide, SA 5001, Australia
| | - M. J. Brunger
- College of Science and Engineering, Flinders University, GPO Box 2100, Adelaide, SA 5001, Australia
| | - M. A. P. Lima
- Instituto de Física “Gleb Wataghin”, Universidade Estadual de Campinas, 13083-859 Campinas, São Paulo, Brazil
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Lozano AI, Oller JC, Jones DB, da Costa RF, Varella MTDN, Bettega MHF, Ferreira da Silva F, Limão-Vieira P, Lima MAP, White RD, Brunger MJ, Blanco F, Muñoz A, García G. Total electron scattering cross sections from para-benzoquinone in the energy range 1-200 eV. Phys Chem Chem Phys 2018; 20:22368-22378. [PMID: 30129642 DOI: 10.1039/c8cp03297a] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
Total electron scattering cross sections, from para-benzoquinone, for impact energies ranging between 1 to 200 eV, have been obtained by measuring the attenuation of a linear electron beam under magnetic confinement conditions. Random uncertainty limits on these values have been found to be within 5%. Systematic errors, due to the axial magnetic beam conditions in combination with the acceptance angle of the detector, have been evaluated by integrating our calculated independent atom model with the screening corrected additivity rule and interference term elastic differential cross sections over that detection acceptance angle. Our previous calculations and measurements on this molecule (Jones et al., J. Chem. Phys., 2018, 148, 124312 and J. Chem. Phys., 2018, 148, 204305), have been compiled and complemented with new elastic and inelastic scattering cross section calculations in order to obtain a comprehensive cross section data base, within the considered energy range, for modelling purposes. The self-consistency of the present data set has been evaluated by simulating the electron transport of 15 eV electrons in para-benzoquinone, and comparing those results with the observed transmitted intensity distribution.
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Affiliation(s)
- A I Lozano
- Instituto de Fisica Fundamental, CSIC, Serrano 113-bis, E-28006 Madrid, Spain.
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Jones DB, da Costa RF, Kossoski F, Varella MTDN, Bettega MHF, Ferreira da Silva F, Limão-Vieira P, García G, Lima MAP, White RD, Brunger MJ. Electron-impact electronic-state excitation of para-benzoquinone. J Chem Phys 2018; 148:124312. [DOI: 10.1063/1.5023494] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- D. B. Jones
- College of Science and Engineering, Flinders University, GPO Box 2100, Adelaide, SA 5001, Australia
| | - R. F. da Costa
- Instituto de Física “Gleb Wataghin,” Universidade Estadual de Campinas, 13083-859 Campinas, São Paulo, Brazil
- Centro de Ciências Exatas, Departamento de Física, Universidade Federal do Espírito Santo, 29075-910 Vitória, Espírito Santo, Brazil
| | - F. Kossoski
- Instituto de Física “Gleb Wataghin,” Universidade Estadual de Campinas, 13083-859 Campinas, São Paulo, Brazil
| | - M. T. do N. Varella
- Instituto de Física, Universidade de São Paulo, Rua do Matão 1731, 05508-090 São Paulo, São Paulo, Brazil
| | - M. H. F. Bettega
- Departamento de Física, Universidade Federal do Paraná, CP 19044, 81531-990 Curitiba, Paraná, Brazil
| | - F. Ferreira da Silva
- Laboratório de Colisões Atómicas e Moleculares, CEFITEC, Departamento de Física, Faculdade de Ciências e Tecnologia, Universidade NOVA de Lisboa, 2829-516 Caparica, Portugal
| | - P. Limão-Vieira
- Laboratório de Colisões Atómicas e Moleculares, CEFITEC, Departamento de Física, Faculdade de Ciências e Tecnologia, Universidade NOVA de Lisboa, 2829-516 Caparica, Portugal
| | - G. García
- Instituto de Fisica Fundamental, CSIC, Serrano 113-bis, E-28006 Madrid, Spain
| | - M. A. P. Lima
- Instituto de Física “Gleb Wataghin,” Universidade Estadual de Campinas, 13083-859 Campinas, São Paulo, Brazil
| | - R. D. White
- College of Science and Engineering, James Cook University, Townsville, Australia
| | - M. J. Brunger
- College of Science and Engineering, Flinders University, GPO Box 2100, Adelaide, SA 5001, Australia
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Jones DB, Blanco F, García G, da Costa RF, Kossoski F, Varella MTDN, Bettega MHF, Lima MAP, White RD, Brunger MJ. Elastic scattering and vibrational excitation for electron impact onpara-benzoquinone. J Chem Phys 2017; 147:244304. [DOI: 10.1063/1.5010831] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Affiliation(s)
- D. B. Jones
- College of Science and Engineering, Flinders University, GPO Box 2100, Adelaide, South Australia 5001, Australia
| | - F. Blanco
- Departamento de Física Atómica, Molecular y Nuclear, Universidad Complutense de Madrid, Madrid E-28040, Spain
| | - G. García
- Instituto de Física Fundamental, CSIC, Serano 113-bis, E-28006 Madrid, Spain
| | - R. F. da Costa
- Instituto de Física “Gleb Wataghin,” Universidade Estadual de Campinas, Campinas, São Paulo 13083-859, Brazil
- Centro de Ciências Exatas, Departamento de Física, Universidade Federal do Espírito Santo, 29075-901 Vitória, Espírito Santo, Brazil
| | - F. Kossoski
- Instituto de Física “Gleb Wataghin,” Universidade Estadual de Campinas, Campinas, São Paulo 13083-859, Brazil
| | - M. T. do N. Varella
- Instituto de Física, Universidade de São Paulo, Rua do Matão 1731, São Paulo 05508-090, Brazil
| | - M. H. F. Bettega
- Departamento de Física, Universidade Federal do Paraná, CP 19044, Curitiba, Paraná 81531-990, Brazil
| | - M. A. P. Lima
- Instituto de Física “Gleb Wataghin,” Universidade Estadual de Campinas, Campinas, São Paulo 13083-859, Brazil
| | - R. D. White
- College of Science and Engineering, James Cook University, Townsville, Qld 4811, Australia
| | - M. J. Brunger
- College of Science and Engineering, Flinders University, GPO Box 2100, Adelaide, South Australia 5001, Australia
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Jones DB, Limão-Vieira P, Mendes M, Jones NC, Hoffmann SV, da Costa RF, Varella MTDN, Bettega MHF, Blanco F, García G, Ingólfsson O, Lima MAP, Brunger MJ. An experimental and theoretical investigation into the electronically excited states of para-benzoquinone. J Chem Phys 2017. [DOI: 10.1063/1.4982940] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- D. B. Jones
- School of Chemical and Physical Sciences, Flinders University, GPO Box 2100, Adelaide, SA 5001, Australia
| | - P. Limão-Vieira
- Laboratório de Colisões Atómicas e Moleculares, CEFITEC, Departamento de Física, Faculdade de Ciências e Tecnologia, Universidade NOVA de Lisboa, 2829-516 Caparica, Portugal
| | - M. Mendes
- Laboratório de Colisões Atómicas e Moleculares, CEFITEC, Departamento de Física, Faculdade de Ciências e Tecnologia, Universidade NOVA de Lisboa, 2829-516 Caparica, Portugal
| | - N. C. Jones
- ISA, Department of Physics and Astronomy, Aarhus University, Ny Munkegade, DK-8000 Aarhus C, Denmark
| | - S. V. Hoffmann
- ISA, Department of Physics and Astronomy, Aarhus University, Ny Munkegade, DK-8000 Aarhus C, Denmark
| | - R. F. da Costa
- Instituto de Física “Gleb Wataghin,” Universidade Estadual de Campinas, 13083-859 Campinas, São Paulo, Brazil
- Centro de Ciências Exatas, Departamento de Física, Universidade Federal do Espírito Santo, 29075-910 Vitória, Espírito Santo, Brazil
| | - M. T. do N. Varella
- Instituto de Física, Universidade de São Paulo, Rua do Matão 1731, 05508-090 São Paulo, São Paulo, Brazil
| | - M. H. F. Bettega
- Departamento de Física, Universidade Federal do Paraná, CP 19044, 81531-990 Curitiba, Paraná, Brazil
| | - F. Blanco
- Departamento de Física Atómica, Molecular y Nuclear, Universidad Complutense de Madrid, Madrid E-28040, Spain
| | - G. García
- Instituto de Fisica Fundamental, CSIC, Serrano 113-Bis, 28006 Madrid, Spain
| | - O. Ingólfsson
- Science Institute and Department of Chemistry, University of Iceland, Dunhagi 3, 107 Reykjavík, Iceland
| | - M. A. P. Lima
- Instituto de Física “Gleb Wataghin,” Universidade Estadual de Campinas, 13083-859 Campinas, São Paulo, Brazil
| | - M. J. Brunger
- School of Chemical and Physical Sciences, Flinders University, GPO Box 2100, Adelaide, SA 5001, Australia
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Brunger MJ. Electron scattering and transport in biofuels, biomolecules and biomass fragments. INT REV PHYS CHEM 2017. [DOI: 10.1080/0144235x.2017.1301030] [Citation(s) in RCA: 58] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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