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Milia V, Tarrat N, Zanon C, Cortés J, Rapacioli M. Exploring Molecular Energy Landscapes by Coupling the DFTB Potential with a Tree-Based Stochastic Algorithm: Investigation of the Conformational Diversity of Phthalates. J Chem Inf Model 2024; 64:3290-3301. [PMID: 38497727 DOI: 10.1021/acs.jcim.3c01981] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/19/2024]
Abstract
Exploring the global energy landscape of relatively large molecules at the quantum level is a challenging problem. In this work, we report the coupling of a nonredundant conformational space exploration method, namely, the robotics-inspired iterative global exploration and local optimization (IGLOO) algorithm, with the quantum-chemical density functional tight binding (DFTB) potential. The application of this fast and efficient computational approach to three close-sized molecules of the phthalate family (DBP, BBP, and DEHP) showed that they present different conformational landscapes. These differences have been rationalized by making use of descriptors based on distances and dihedral angles. Coulomb interactions, steric hindrance, and dispersive interactions have been found to drive the geometric properties. A strong correlation has been evidenced between the two dihedral angles describing the side-chain orientation of the phthalate molecules. Our approach identifies low-energy minima without prior knowledge of the potential energy surface, paving the way for future investigations into transition paths and states.
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Affiliation(s)
- Valentin Milia
- LAAS-CNRS, Université de Toulouse, CNRS, 31031 Toulouse, France
- Laboratoire de Chimie et Physique Quantiques LCPQ/FERMI, UMR 5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Nathalie Tarrat
- CEMES, Université de Toulouse, CNRS, 29 Rue Jeanne Marvig, F-31055 Toulouse, France
| | | | - Juan Cortés
- LAAS-CNRS, Université de Toulouse, CNRS, 31031 Toulouse, France
| | - Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques LCPQ/FERMI, UMR 5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
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Berné O, Habart E, Peeters E, Schroetter I, Canin A, Sidhu A, Chown R, Bron E, Haworth TJ, Klaassen P, Trahin B, Van De Putte D, Alarcón F, Zannese M, Abergel A, Bergin EA, Bernard-Salas J, Boersma C, Cami J, Cuadrado S, Dartois E, Dicken D, Elyajouri M, Fuente A, Goicoechea JR, Gordon KD, Issa L, Joblin C, Kannavou O, Khan B, Lacinbala O, Languignon D, Le Gal R, Maragkoudakis A, Meshaka R, Okada Y, Onaka T, Pasquini S, Pound MW, Robberto M, Röllig M, Schefter B, Schirmer T, Simmer T, Tabone B, Tielens AGGM, Vicente S, Wolfire MG, Aleman I, Allamandola L, Auchettl R, Baratta GA, Baruteau C, Bejaoui S, Bera PP, Black JH, Boulanger F, Bouwman J, Brandl B, Brechignac P, Brünken S, Buragohain M, Burkhardt A, Candian A, Cazaux S, Cernicharo J, Chabot M, Chakraborty S, Champion J, Colgan SWJ, Cooke IR, Coutens A, Cox NLJ, Demyk K, Meyer JD, Engrand C, Foschino S, García-Lario P, Gavilan L, Gerin M, Godard M, Gottlieb CA, Guillard P, Gusdorf A, Hartigan P, He J, Herbst E, Hornekaer L, Jäger C, Janot-Pacheco E, Kaufman M, Kemper F, Kendrew S, Kirsanova MS, Knight C, Kwok S, Labiano Á, Lai TSY, Lee TJ, Lefloch B, Le Petit F, Li A, Linz H, Mackie CJ, Madden SC, Mascetti J, McGuire BA, Merino P, Micelotta ER, Morse JA, Mulas G, Neelamkodan N, Ohsawa R, Paladini R, Palumbo ME, Pathak A, Pendleton YJ, Petrignani A, Pino T, Puga E, Rangwala N, Rapacioli M, Ricca A, Roman-Duval J, Roueff E, Rouillé G, Salama F, Sales DA, Sandstrom K, Sarre P, Sciamma-O'Brien E, Sellgren K, Shannon MJ, Simonnin A, Shenoy SS, Teyssier D, Thomas RD, Togi A, Verstraete L, Witt AN, Wootten A, Ysard N, Zettergren H, Zhang Y, Zhang ZE, Zhen J. A far-ultraviolet-driven photoevaporation flow observed in a protoplanetary disk. Science 2024; 383:988-992. [PMID: 38422128 DOI: 10.1126/science.adh2861] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2023] [Accepted: 01/12/2024] [Indexed: 03/02/2024]
Abstract
Most low-mass stars form in stellar clusters that also contain massive stars, which are sources of far-ultraviolet (FUV) radiation. Theoretical models predict that this FUV radiation produces photodissociation regions (PDRs) on the surfaces of protoplanetary disks around low-mass stars, which affects planet formation within the disks. We report James Webb Space Telescope and Atacama Large Millimeter Array observations of a FUV-irradiated protoplanetary disk in the Orion Nebula. Emission lines are detected from the PDR; modeling their kinematics and excitation allowed us to constrain the physical conditions within the gas. We quantified the mass-loss rate induced by the FUV irradiation and found that it is sufficient to remove gas from the disk in less than a million years. This is rapid enough to affect giant planet formation in the disk.
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Affiliation(s)
- Olivier Berné
- Institut de Recherche en Astrophysique et Planétologie, Université de Toulouse, Centre National de la Recherche Scientifique (CNRS), Centre National d'Etudes Spatiales, 31028 Toulouse, France
| | - Emilie Habart
- Institut d'Astrophysique Spatiale, Université Paris-Saclay, CNRS, 91405 Orsay, France
| | - Els Peeters
- Department of Physics and Astronomy, The University of Western Ontario, London, ON N6A 3K7, Canada
- Institute for Earth and Space Exploration, The University of Western Ontario, London, ON N6A 3K7, Canada
- Carl Sagan Center, Search for ExtraTerrestrial Intelligence Institute, Mountain View, CA 94043, USA
| | - Ilane Schroetter
- Institut de Recherche en Astrophysique et Planétologie, Université de Toulouse, Centre National de la Recherche Scientifique (CNRS), Centre National d'Etudes Spatiales, 31028 Toulouse, France
| | - Amélie Canin
- Institut de Recherche en Astrophysique et Planétologie, Université de Toulouse, Centre National de la Recherche Scientifique (CNRS), Centre National d'Etudes Spatiales, 31028 Toulouse, France
| | - Ameek Sidhu
- Department of Physics and Astronomy, The University of Western Ontario, London, ON N6A 3K7, Canada
- Institute for Earth and Space Exploration, The University of Western Ontario, London, ON N6A 3K7, Canada
| | - Ryan Chown
- Department of Physics and Astronomy, The University of Western Ontario, London, ON N6A 3K7, Canada
- Institute for Earth and Space Exploration, The University of Western Ontario, London, ON N6A 3K7, Canada
| | - Emeric Bron
- Laboratoire d'Etudes du Rayonnement et de la Matière, Observatoire de Paris, Université Paris Science et Lettres, CNRS, Sorbonne Universités, F-92190 Meudon, France
| | - Thomas J Haworth
- School of Physics and Astronomy, Queen Mary University of London, London E1 4NS, UK
| | - Pamela Klaassen
- UK Astronomy Technology Centre, Royal Observatory Edinburgh, Blackford Hill EH9 3HJ, UK
| | - Boris Trahin
- Institut d'Astrophysique Spatiale, Université Paris-Saclay, CNRS, 91405 Orsay, France
| | | | - Felipe Alarcón
- Department of Astronomy, University of Michigan, Ann Arbor, MI 48109, USA
| | - Marion Zannese
- Institut d'Astrophysique Spatiale, Université Paris-Saclay, CNRS, 91405 Orsay, France
| | - Alain Abergel
- Institut d'Astrophysique Spatiale, Université Paris-Saclay, CNRS, 91405 Orsay, France
| | - Edwin A Bergin
- Department of Astronomy, University of Michigan, Ann Arbor, MI 48109, USA
| | - Jeronimo Bernard-Salas
- ACRI-ST, Centre d'Etudes et de Recherche de Grasse, F-06130 Grasse, France
- Innovative Common Laboratory for Space Spectroscopy, 06130 Grasse, France
| | | | - Jan Cami
- Department of Physics and Astronomy, The University of Western Ontario, London, ON N6A 3K7, Canada
- Institute for Earth and Space Exploration, The University of Western Ontario, London, ON N6A 3K7, Canada
- Carl Sagan Center, Search for ExtraTerrestrial Intelligence Institute, Mountain View, CA 94043, USA
| | - Sara Cuadrado
- Instituto de Física Fundamental, Consejo Superior de Investigaciones Científicas, 28006 Madrid, Spain
| | - Emmanuel Dartois
- Institut des Sciences Moléculaires d'Orsay, Université Paris-Saclay, CNRS, 91405 Orsay, France
| | - Daniel Dicken
- Institut d'Astrophysique Spatiale, Université Paris-Saclay, CNRS, 91405 Orsay, France
| | - Meriem Elyajouri
- Institut d'Astrophysique Spatiale, Université Paris-Saclay, CNRS, 91405 Orsay, France
| | - Asunción Fuente
- Centro de Astrobiología, Consejo Superior de Investigaciones Científicas, and Instituto Nacional de Técnica Aeroespacial, 28850 Torrejón de Ardoz, Spain
| | - Javier R Goicoechea
- Instituto de Física Fundamental, Consejo Superior de Investigaciones Científicas, 28006 Madrid, Spain
| | - Karl D Gordon
- Space Telescope Science Institute, Baltimore, MD 21218, USA
- Johns Hopkins University, Baltimore, MD 21218, USA
| | - Lina Issa
- Institut de Recherche en Astrophysique et Planétologie, Université de Toulouse, Centre National de la Recherche Scientifique (CNRS), Centre National d'Etudes Spatiales, 31028 Toulouse, France
| | - Christine Joblin
- Institut de Recherche en Astrophysique et Planétologie, Université de Toulouse, Centre National de la Recherche Scientifique (CNRS), Centre National d'Etudes Spatiales, 31028 Toulouse, France
| | - Olga Kannavou
- Institut d'Astrophysique Spatiale, Université Paris-Saclay, CNRS, 91405 Orsay, France
| | - Baria Khan
- Department of Physics and Astronomy, The University of Western Ontario, London, ON N6A 3K7, Canada
| | - Ozan Lacinbala
- Institut d'Astrophysique Spatiale, Université Paris-Saclay, CNRS, 91405 Orsay, France
| | - David Languignon
- Laboratoire d'Etudes du Rayonnement et de la Matière, Observatoire de Paris, Université Paris Science et Lettres, CNRS, Sorbonne Universités, F-92190 Meudon, France
| | - Romane Le Gal
- Institut de Recherche en Astrophysique et Planétologie, Université de Toulouse, Centre National de la Recherche Scientifique (CNRS), Centre National d'Etudes Spatiales, 31028 Toulouse, France
- Institut de Planétologie et d'Astrophysique de Grenoble, Université Grenoble Alpes, CNRS, F-38000 Grenoble, France
- Institut de Radioastronomie Millimétrique, F-38406 Saint-Martin d'Hères, France
| | | | - Raphael Meshaka
- Institut d'Astrophysique Spatiale, Université Paris-Saclay, CNRS, 91405 Orsay, France
| | - Yoko Okada
- I. Physikalisches Institut, Universität zu Köln, 50937 Köln, Germany
| | - Takashi Onaka
- Department of Astronomy, Graduate School of Science, The University of Tokyo, Tokyo 113-0033, Japan
- Department of Physics, Faculty of Science and Engineering, Meisei University, Hino, Tokyo 191-8506, Japan
| | - Sofia Pasquini
- Department of Physics and Astronomy, The University of Western Ontario, London, ON N6A 3K7, Canada
| | - Marc W Pound
- Astronomy Department, University of Maryland, College Park, MD 20742, USA
| | - Massimo Robberto
- Space Telescope Science Institute, Baltimore, MD 21218, USA
- Johns Hopkins University, Baltimore, MD 21218, USA
| | - Markus Röllig
- I. Physikalisches Institut, Universität zu Köln, 50937 Köln, Germany
| | - Bethany Schefter
- Department of Physics and Astronomy, The University of Western Ontario, London, ON N6A 3K7, Canada
| | - Thiébaut Schirmer
- Institut d'Astrophysique Spatiale, Université Paris-Saclay, CNRS, 91405 Orsay, France
- Department of Space, Earth and Environment, Chalmers University of Technology, Onsala Space Observatory, SE-439 92 Onsala, Sweden
| | - Thomas Simmer
- Institut d'Astrophysique Spatiale, Université Paris-Saclay, CNRS, 91405 Orsay, France
| | - Benoit Tabone
- Institut d'Astrophysique Spatiale, Université Paris-Saclay, CNRS, 91405 Orsay, France
| | - Alexander G G M Tielens
- Astronomy Department, University of Maryland, College Park, MD 20742, USA
- Leiden Observatory, Leiden University, 2300 RA Leiden, Netherlands
| | - Sílvia Vicente
- Instituto de Astrofísica e Ciências do Espaço, P-1349-018 Lisboa, Portugal
| | - Mark G Wolfire
- Astronomy Department, University of Maryland, College Park, MD 20742, USA
| | - Isabel Aleman
- Instituto de Física e Química, Universidade Federal de Itajubá, Itajubá, Brazil
| | - Louis Allamandola
- Astronomy Department, University of Maryland, College Park, MD 20742, USA
- Bay Area Environmental Research Institute, Moffett Field, CA 94035, USA
| | - Rebecca Auchettl
- Australian Synchrotron, Australian Nuclear Science and Technology Organisation, Victoria, Australia
| | | | - Clément Baruteau
- Institut de Recherche en Astrophysique et Planétologie, Université de Toulouse, Centre National de la Recherche Scientifique (CNRS), Centre National d'Etudes Spatiales, 31028 Toulouse, France
| | - Salma Bejaoui
- Astronomy Department, University of Maryland, College Park, MD 20742, USA
| | - Partha P Bera
- Astronomy Department, University of Maryland, College Park, MD 20742, USA
- Bay Area Environmental Research Institute, Moffett Field, CA 94035, USA
| | - John H Black
- Department of Space, Earth, and Environment, Chalmers University of Technology, Onsala Space Observatory, 43992 Onsala, Sweden
| | - Francois Boulanger
- Laboratoire de Physique de l'École Normale Supérieure, Université Paris Science et Lettres, CNRS, Sorbonne Université, Université de Paris, 75005, Paris, France
| | - Jordy Bouwman
- Laboratory for Atmospheric and Space Physics, University of Colorado, Boulder, CO 80303, USA
- Department of Chemistry, University of Colorado, Boulder, CO 80309, USA
- Institute for Modeling Plasma, Atmospheres, and Cosmic Dust, University of Colorado, Boulder, CO 80303, USA
| | - Bernhard Brandl
- I. Physikalisches Institut, Universität zu Köln, 50937 Köln, Germany
- Faculty of Aerospace Engineering, Delft University of Technology, 2629 HS Delft, Netherlands
| | | | - Sandra Brünken
- Institute for Molecules and Materials, Free-Electron Lasers for Infrared eXperiments Laboratory, Radboud University, 6525 ED Nijmegen, Netherlands
| | | | - Andrew Burkhardt
- Department of Physics, Wellesley College, Wellesley, MA 02481, USA
| | - Alessandra Candian
- I. Physikalisches Institut, Universität zu Köln, 50937 Köln, Germany
- Anton Pannekoek Institute for Astronomy, University of Amsterdam, 1098 XH Amsterdam, Netherlands
| | - Stéphanie Cazaux
- Department of Astronomy, University of Michigan, Ann Arbor, MI 48109, USA
| | - Jose Cernicharo
- Instituto de Física Fundamental, Consejo Superior de Investigaciones Científicas, 28006 Madrid, Spain
| | - Marin Chabot
- Laboratoire de Physique des deux infinis Irène Joliot-Curie, Université Paris-Saclay, CNRS, 91405 Orsay Cedex, France
| | - Shubhadip Chakraborty
- Institut de Physique de Rennes, CNRS, Université de Rennes 1, 35042 Rennes, France
- Department of Chemistry, Gandhi Institute of Technology and Management, Bangalore, India
| | - Jason Champion
- Institut de Recherche en Astrophysique et Planétologie, Université de Toulouse, Centre National de la Recherche Scientifique (CNRS), Centre National d'Etudes Spatiales, 31028 Toulouse, France
| | - Sean W J Colgan
- Department of Space, Earth and Environment, Chalmers University of Technology, Onsala Space Observatory, SE-439 92 Onsala, Sweden
| | - Ilsa R Cooke
- Department of Chemistry, The University of British Columbia, Vancouver, BC, Canada
| | - Audrey Coutens
- Institut de Recherche en Astrophysique et Planétologie, Université de Toulouse, Centre National de la Recherche Scientifique (CNRS), Centre National d'Etudes Spatiales, 31028 Toulouse, France
| | - Nick L J Cox
- ACRI-ST, Centre d'Etudes et de Recherche de Grasse, F-06130 Grasse, France
- Innovative Common Laboratory for Space Spectroscopy, 06130 Grasse, France
| | - Karine Demyk
- Institut de Recherche en Astrophysique et Planétologie, Université de Toulouse, Centre National de la Recherche Scientifique (CNRS), Centre National d'Etudes Spatiales, 31028 Toulouse, France
| | | | - Cécile Engrand
- Laboratoire de Physique des deux infinis Irène Joliot-Curie, Université Paris-Saclay, CNRS, 91405 Orsay Cedex, France
| | - Sacha Foschino
- Institute for Earth and Space Exploration, The University of Western Ontario, London, ON N6A 3K7, Canada
| | | | - Lisseth Gavilan
- Department of Space, Earth and Environment, Chalmers University of Technology, Onsala Space Observatory, SE-439 92 Onsala, Sweden
| | - Maryvonne Gerin
- Laboratoire d'Etudes du Rayonnement et de la Matière, Observatoire de Paris, Paris Science et Lettres University, Sorbonne Université, 75014, Paris, France
| | - Marie Godard
- ACRI-ST, Centre d'Etudes et de Recherche de Grasse, F-06130 Grasse, France
| | - Carl A Gottlieb
- Harvard-Smithsonian Center for Astrophysics, Cambridge, MA 02138, USA
| | - Pierre Guillard
- Institut d'Astrophysique de Paris, Sorbonne Université, CNRS, 75014 Paris, France
- Institut Universitaire de France, Ministère de l'Enseignement Supérieur et de la Recherche, 75231 Paris, France
| | - Antoine Gusdorf
- Laboratoire de Physique de l'École Normale Supérieure, Université Paris Science et Lettres, CNRS, Sorbonne Université, Université de Paris, 75005, Paris, France
- Laboratoire d'Etudes du Rayonnement et de la Matière, Observatoire de Paris, Paris Science et Lettres University, Sorbonne Université, 75014, Paris, France
| | - Patrick Hartigan
- Department of Physics and Astronomy, Rice University, Houston, TX 77005, USA
| | - Jinhua He
- Yunnan Observatories, Chinese Academy of Sciences, Kunming 650216, China
- Chinese Academy of Sciences South America Center for Astronomy, National Astronomical Observatories, Beijing 100101, China
- Departamento de Astronomía, Universidad de Chile, Santiago, Chile
| | - Eric Herbst
- Departments of Chemistry and Astronomy, University of Virginia, Charlottesville, VA 22904, USA
| | - Liv Hornekaer
- Center for Interstellar Catalysis, Department of Physics and Astronomy, Aarhus University, 8000 Aarhus C, Denmark
| | - Cornelia Jäger
- Institute of Solid State Physics, Max Planck Institute for Astronomy, Friedrich Schiller University Jena, 07743 Jena, Germany
| | - Eduardo Janot-Pacheco
- Instituto de Astronomia, Geofísica e Ciências Atmosféricas, Universidade de São Paulo, 05509-090 São Paulo, Brazil
| | - Michael Kaufman
- Department of Physics and Astronomy, San José State University, San Jose, CA 95192, USA
| | - Francisca Kemper
- Institut de Ciencies de l'Espai, Centro Superior de Investigacion Cientifica, E-08193, Barcelona, Spain
- Institución Catalana de Investigación y Estudios Avanzados, E-08010 Barcelona, Spain
- Institut d'Estudis Espacials de Catalunya, E-08034 Barcelona, Spain
| | - Sarah Kendrew
- European Space Agency, Space Telescope Science Institute, Baltimore, MD 21218, USA
| | - Maria S Kirsanova
- Institute of Astronomy, Russian Academy of Sciences, 119017 Moscow, Russia
| | - Collin Knight
- Department of Physics and Astronomy, The University of Western Ontario, London, ON N6A 3K7, Canada
| | - Sun Kwok
- Department of Earth, Ocean, and Atmospheric Sciences, University of British Columbia, BC V6T 1Z4, Canada
| | - Álvaro Labiano
- Telespazio UK, European Space Agency, E-28692 Villanueva de la Cañada, Madrid, Spain
| | - Thomas S-Y Lai
- Infrared Processing and Analysis Center, California Institute of Technology, Pasadena, CA 91125, USA
| | - Timothy J Lee
- Department of Space, Earth and Environment, Chalmers University of Technology, Onsala Space Observatory, SE-439 92 Onsala, Sweden
| | - Bertrand Lefloch
- Leiden Observatory, Leiden University, 2300 RA Leiden, Netherlands
| | | | - Aigen Li
- Department of Physics and Astronomy, University of Missouri, Columbia, MO 65211, USA
| | - Hendrik Linz
- Max Planck Institute for Astronomy, Königstuhl 17, 69117 Heidelberg, Germany
| | - Cameron J Mackie
- Chemical Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
- Pitzer Center for Theoretical Chemistry, College of Chemistry, University of California, Berkeley, CA, USA
| | - Suzanne C Madden
- Astrophysics, Instrumentation and Modelling, Commissariat à l'Énergie Atomique et aux Énergies Alternatives, CNRS, Université Paris-Saclay, Université Paris Diderot, Sorbonne Paris Cité, 91191 Gif-sur-Yvette, France
| | - Joëlle Mascetti
- Institut des Sciences Moléculaires, CNRS, Université de Bordeaux, 33405 Talence, France
| | - Brett A McGuire
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
- National Radio Astronomy Observatory, Charlottesville, VA 22903, USA
| | - Pablo Merino
- Instituto de Ciencia de Materiales de Madrid, Centro Superior de Investigacion Cientifica, E28049, Madrid, Spain
| | | | - Jon A Morse
- Steward Observatory, University of Arizona, Tucson, AZ 85721, USA
| | - Giacomo Mulas
- Institut de Recherche en Astrophysique et Planétologie, Université de Toulouse, Centre National de la Recherche Scientifique (CNRS), Centre National d'Etudes Spatiales, 31028 Toulouse, France
- Osservatorio Astronomico di Cagliari, Instituto Nazionale di Astrofisca, 09047 Selargius, Italy
| | - Naslim Neelamkodan
- Department of Physics, College of Science, United Arab Emirates University, Al-Ain 15551, United Arab Emirates
| | - Ryou Ohsawa
- National Astronomical Observatory of Japan, Tokyo 181-8588, Japan
| | - Roberta Paladini
- Infrared Processing and Analysis Center, California Institute of Technology, Pasadena, CA 91125, USA
| | | | - Amit Pathak
- Department of Physics, Institute of Science, Banaras Hindu University, Varanasi 221005, India
| | - Yvonne J Pendleton
- Department of Physics, University of Central Florida, Orlando, FL 32816, USA
| | - Annemieke Petrignani
- Van't Hoff Institute for Molecular Sciences, University of Amsterdam, 1090 GD Amsterdam, Netherlands
| | - Thomas Pino
- Innovative Common Laboratory for Space Spectroscopy, 06130 Grasse, France
| | - Elena Puga
- European Space Agency, Villanueva de la Cañada, E-28692 Madrid, Spain
| | | | - Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques, Université de Toulouse, CNRS, Toulouse, France
| | - Alessandra Ricca
- Department of Physics and Astronomy, The University of Western Ontario, London, ON N6A 3K7, Canada
- Department of Space, Earth and Environment, Chalmers University of Technology, Onsala Space Observatory, SE-439 92 Onsala, Sweden
| | - Julia Roman-Duval
- Institut des Sciences Moléculaires d'Orsay, Université Paris-Saclay, CNRS, 91405 Orsay, France
| | - Evelyne Roueff
- Department of Astronomy, University of Michigan, Ann Arbor, MI 48109, USA
| | - Gaël Rouillé
- Institute of Solid State Physics, Max Planck Institute for Astronomy, Friedrich Schiller University Jena, 07743 Jena, Germany
| | - Farid Salama
- NASA Ames Research Center, Moffett Field, CA 94035, USA
| | - Dinalva A Sales
- Instituto de Matemática, Estatística e Física, Universidade Federal do Rio Grande, 96201-900, Rio Grande, Brazil
| | - Karin Sandstrom
- Center for Astrophysics and Space Sciences, Department of Physics, University of California, San Diego, CA 92093, USA
| | - Peter Sarre
- School of Chemistry, The University of Nottingham, Nottingham NG7 2RD, UK
| | | | - Kris Sellgren
- Astronomy Department, Ohio State University, Columbus, OH 43210, USA
| | | | - Adrien Simonnin
- Institut de Recherche en Astrophysique et Planétologie, Université de Toulouse, Centre National de la Recherche Scientifique (CNRS), Centre National d'Etudes Spatiales, 31028 Toulouse, France
| | | | - David Teyssier
- European Space Agency, Villanueva de la Cañada, E-28692 Madrid, Spain
| | - Richard D Thomas
- Department of Physics, Stockholm University, SE-10691 Stockholm, Sweden
| | - Aditya Togi
- Department of Physics, Texas State University, San Marcos, TX 78666, USA
| | - Laurent Verstraete
- Institut d'Astrophysique Spatiale, Université Paris-Saclay, CNRS, 91405 Orsay, France
| | - Adolf N Witt
- Ritter Astrophysical Research Center, University of Toledo, Toledo, OH 43606, USA
| | - Alwyn Wootten
- National Radio Astronomy Observatory, Charlottesville, VA 22903, USA
| | - Nathalie Ysard
- Institut de Recherche en Astrophysique et Planétologie, Université de Toulouse, Centre National de la Recherche Scientifique (CNRS), Centre National d'Etudes Spatiales, 31028 Toulouse, France
- Institut d'Astrophysique Spatiale, Université Paris-Saclay, CNRS, 91405 Orsay, France
| | | | - Yong Zhang
- School of Physics and Astronomy, Sun Yat-sen University, Zhuhai 519000, China
| | - Ziwei E Zhang
- Star and Planet Formation Laboratory, Rikagaku Kenkyusho Cluster for Pioneering Research, Saitama 351-0198, Japan
| | - Junfeng Zhen
- Key Laboratory of Crust-Mantle Materials and Environment, Chinese Academy of Science, University of Science and Technology of China, Anhui 230026, China
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Yusef-Buey M, Mineva T, Talbi D, Rapacioli M. Temperature driven transformations of glycine molecules embedded in interstellar ice. Phys Chem Chem Phys 2024; 26:2414-2425. [PMID: 38168973 DOI: 10.1039/d3cp03575a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2024]
Abstract
The formation of glycine amino acid on ice grains in space raises fundamental questions about glycine chemistry in interstellar media. In this work, we studied glycine conformational space and the related tautomerization mechanisms in water media by means of QM/MM molecular dynamics simulations of four glycine conformational isomers (cc, ct, tc, and tt). Interstellar low density amorphous (LDA) ice and T = 20 K were considered as representative for a cold interstellar ice environment, while temperatures of 250 and 450 K were included to model rapid local heating in the ice. In addition to the LDA environment, water clusters with 4, 17, and 27 H2O molecules were subjected to QM/MM dynamics simulations that allowed glycine tautomerization behaviour to be evaluated in water surface-like environments. The tautomerization processes were found to be strongly dependent on the number of water molecules and specific isomer structure. All the glycine isomers mostly preserve their canonical "neutral" conformations under interstellar conditions.
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Affiliation(s)
- Maysa Yusef-Buey
- Laboratoire de Chimie et Physique Quantique (LCPQ/FERMI), UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Tzonka Mineva
- ICGM, Univ. Montpellier, CNRS, ENSCM, Montpellier, France.
| | - Dahbia Talbi
- LUPM, Univ. Montpellier, CNRS, Montpellier, France.
| | - Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantique (LCPQ/FERMI), UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France.
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4
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Rapacioli M, Buey MY, Spiegelman F. Addressing electronic and dynamical evolution of molecules and molecular clusters: DFTB simulations of energy relaxation in polycyclic aromatic hydrocarbons. Phys Chem Chem Phys 2024; 26:1499-1515. [PMID: 37933901 PMCID: PMC10793726 DOI: 10.1039/d3cp02852f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2023] [Accepted: 10/17/2023] [Indexed: 11/08/2023]
Abstract
We present a review of the capabilities of the density functional based Tight Binding (DFTB) scheme to address the electronic relaxation and dynamical evolution of molecules and molecular clusters following energy deposition via either collision or photoabsorption. The basics and extensions of DFTB for addressing these systems and in particular their electronic states and their dynamical evolution are reviewed. Applications to PAH molecules and clusters, carbonaceous systems of major interest in astrochemical/astrophysical context, are reported. A variety of processes are examined and discussed such as collisional hydrogenation, fast collisional processes and induced electronic and charge dynamics, collision-induced fragmentation, photo-induced fragmentation, relaxation in high electronic states, electronic-to-vibrational energy conversion and statistical versus non-statistical fragmentation. This review illustrates how simulations may help to unravel different relaxation mechanisms depending on various factors such as the system size, specific electronic structure or excitation conditions, in close connection with experiments.
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Affiliation(s)
- Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantique (LCPQ/FERMI), UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France.
| | - Maysa Yusef Buey
- Laboratoire de Chimie et Physique Quantique (LCPQ/FERMI), UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France.
| | - Fernand Spiegelman
- Laboratoire de Chimie et Physique Quantique (LCPQ/FERMI), UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France.
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5
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Leboucher H, Simon A, Rapacioli M. Erratum: Structures and stabilities of PAH clusters solvated by water aggregates: The case of the pyrene dimer [J. Chem. Phys. 158, 114308 (2023)]. J Chem Phys 2023; 159:209903. [PMID: 38010337 DOI: 10.1063/5.0177039] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2023] [Accepted: 10/16/2023] [Indexed: 11/29/2023] Open
Affiliation(s)
- H Leboucher
- Laboratoire de Chimie et Physique Quantiques LCPQ/FERMI, UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - A Simon
- Laboratoire de Chimie et Physique Quantiques LCPQ/FERMI, UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - M Rapacioli
- Laboratoire de Chimie et Physique Quantiques LCPQ/FERMI, UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
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6
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Salomon G, Tarrat N, Schön JC, Rapacioli M. Low-Energy Transformation Pathways between Naphthalene Isomers. Molecules 2023; 28:5778. [PMID: 37570748 PMCID: PMC10420886 DOI: 10.3390/molecules28155778] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2023] [Revised: 07/26/2023] [Accepted: 07/27/2023] [Indexed: 08/13/2023] Open
Abstract
The transformation pathways between low-energy naphthalene isomers are studied by investigating the topology of the energy landscape of this astrophysically relevant molecule. The threshold algorithm is used to identify the minima basins of the isomers on the potential energy surface of the system and to evaluate the probability flows between them. The transition pathways between the different basins and the associated probabilities were investigated for several lid energies up to 11 eV, this value being close to the highest photon energy in the interstellar medium (13.6 eV). More than a hundred isomers were identified and a set of 23 minima was selected among them, on the basis of their energy and probability of occurrence. The return probabilities of these 23 minima and the transition probabilities between them were computed for several lid energies up to 11 eV. The first connection appeared at 3.5 eV while all minima were found to be connected at 9.5 eV. The local density of state was also sampled inside their respective basins. This work gives insight into both energy and entropic barriers separating the different basins, which also provides information about the transition regions of the energy landscape.
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Affiliation(s)
- Grégoire Salomon
- ISAE-SUPAERO, 10 Avenue Édouard-Belin BP 54032, 31055 Toulouse CEDEX 4, France
- CEMES, Université de Toulouse, CNRS, 29 Rue Jeanne Marvig, 31055 Toulouse, France
- MPI for Solid State Research, Heisenbergstr. 1, D-70569 Stuttgart, Germany
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS) and CNRS, 31062 Toulouse, France
| | - Nathalie Tarrat
- CEMES, Université de Toulouse, CNRS, 29 Rue Jeanne Marvig, 31055 Toulouse, France
| | - J. Christian Schön
- MPI for Solid State Research, Heisenbergstr. 1, D-70569 Stuttgart, Germany
| | - Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS) and CNRS, 31062 Toulouse, France
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7
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Leboucher H, Simon A, Rapacioli M. Structures and stabilities of PAH clusters solvated by water aggregates: The case of the pyrene dimer. J Chem Phys 2023; 158:114308. [PMID: 36948831 DOI: 10.1063/5.0139482] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/02/2023] Open
Abstract
Although clusters made of polycyclic aromatic hydrocarbon and water monomers are relevant objects in both atmospheric and astrophysical science, little is known about their energetic and structural properties. In this work, we perform global explorations of the potential energy landscapes of neutral clusters made of two pyrene units and one to ten water molecules using a density-functional-based tight-binding (DFTB) potential followed by local optimizations at the density-functional theory level. We discuss the binding energies with respect to various dissociation channels. It shows that cohesion energies of the water clusters interacting with a pyrene dimer are larger than those of the pure water clusters, reaching for the largest clusters an asymptotic limit similar to that of pure water clusters and that, although the hexamer and octamer can be considered magic numbers for isolated water clusters, it is not the case anymore when they are interacting with a pyrene dimer. Ionization potentials are also computed by making use of the configuration interaction extension of DFTB, and we show that in cations, the charge is mostly carried by the pyrene molecules.
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Affiliation(s)
- H Leboucher
- Laboratoire de Chimie et Physique Quantiques LCPQ/FERMI, UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - A Simon
- Laboratoire de Chimie et Physique Quantiques LCPQ/FERMI, UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - M Rapacioli
- Laboratoire de Chimie et Physique Quantiques LCPQ/FERMI, UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
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8
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Garcia GA, Dontot L, Rapacioli M, Spiegelman F, Bréchignac P, Nahon L, Joblin C. Electronic effects in the dissociative ionisation of pyrene clusters. Phys Chem Chem Phys 2023; 25:4501-4510. [PMID: 36722859 DOI: 10.1039/d2cp05679h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
We present a combined experimental and theoretical study on the dissociative ionisation of clusters of pyrene. We measured the experimental appearance energies in the photon energy range 7.2-12.0 eV of the fragments formed from neutral monomer loss for clusters up to the hexamer. The results obtained show a deviation from statistical dissociation. From electronic structure calculations, we suggest that the role of excited states must be considered in the interpretation of experimental results, even in these relatively large systems. Non-statistical effects in the dissociative ionization process of polycyclic aromatic hydrocarbon (PAH) clusters may have an impact on the assessment of mechanisms determining the stability of these clusters in astrophysical environments.
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Affiliation(s)
- Gustavo A Garcia
- Synchrotron SOLEIL, L'Orme des Merisiers, Départamentale 128, 91190 Saint Aubin, France.
| | - Léo Dontot
- Institut de Recherche en Astrophysique et Planétologie, Université de Toulouse III - Paul Sabatier, CNRS, CNES, 9 avenue du Colonel Roche, BP 44346, F-31028 Toulouse, France.,Laboratoire de Chimie et Physique Quantiques, FERMI, Université de Toulouse III - Paul Sabatier, CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques, FERMI, Université de Toulouse III - Paul Sabatier, CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Fernand Spiegelman
- Laboratoire de Chimie et Physique Quantiques, FERMI, Université de Toulouse III - Paul Sabatier, CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Philippe Bréchignac
- Institut des Sciences Moléculaires d'Orsay, CNRS, Université Paris-Saclay, F-91405 Orsay, France
| | - Laurent Nahon
- Synchrotron SOLEIL, L'Orme des Merisiers, Départamentale 128, 91190 Saint Aubin, France.
| | - Christine Joblin
- Institut de Recherche en Astrophysique et Planétologie, Université de Toulouse III - Paul Sabatier, CNRS, CNES, 9 avenue du Colonel Roche, BP 44346, F-31028 Toulouse, France
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9
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Bonnot K, Benoit P, Hoyau S, Mamy L, Patureau D, Servien R, Rapacioli M, Bessac F. Accuracy of Computational Chemistry Methods to Calculate Organic Contaminant Molecular Properties. ChemistrySelect 2022. [DOI: 10.1002/slct.202203586] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Affiliation(s)
- Kevin Bonnot
- INRAE Univ. Montpellier, LBE, 102 avenue des Etangs 11100 Narbonne France
- Université Paris-Saclay INRAE AgroParisTech, UMR ECOSYS 78850 Thiverval-Grignon France
| | - Pierre Benoit
- Université Paris-Saclay INRAE AgroParisTech, UMR ECOSYS 78850 Thiverval-Grignon France
| | - Sophie Hoyau
- Université de Toulouse; Laboratoire de Chimie et Physique Quantiques (UMR 5626), UPS, CNRS 118, route de Narbonne F-31062 Toulouse France
| | - Laure Mamy
- Université Paris-Saclay INRAE AgroParisTech, UMR ECOSYS 78850 Thiverval-Grignon France
| | - Dominique Patureau
- INRAE Univ. Montpellier, LBE, 102 avenue des Etangs 11100 Narbonne France
| | - Rémi Servien
- INRAE Univ. Montpellier, LBE, 102 avenue des Etangs 11100 Narbonne France
| | - Mathias Rapacioli
- Université de Toulouse; Laboratoire de Chimie et Physique Quantiques (UMR 5626), UPS, CNRS 118, route de Narbonne F-31062 Toulouse France
| | - Fabienne Bessac
- Université de Toulouse; Laboratoire de Chimie et Physique Quantiques (UMR 5626), UPS, CNRS 118, route de Narbonne F-31062 Toulouse France
- Université de Toulouse; INPT; Ecole d'Ingénieurs de Purpan 75, voie du TOEC, BP 57611 F-31076 Toulouse Cedex 03 France
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10
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Lacinbala O, Calvo F, Dubosq C, Falvo C, Parneix P, Rapacioli M, Simon A, Pino T. Radiative relaxation in isolated large carbon clusters: Vibrational emission versus recurrent fluorescence. J Chem Phys 2022; 156:144305. [DOI: 10.1063/5.0080494] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Recurrent fluorescence (RF) from isolated carbon clusters containing between 24 and 60 atoms is theoretically investigated as a function of internal energy, cluster size, and structural features. The vibrational relaxation kinetics and the associated IR emission spectra are determined by means of a Monte Carlo approach with vibrational density of states computed in the harmonic approximation. RF is generally found to be highly competitive with vibrational emission. The behaviors predicted for clusters of various sizes and archetypal structures indicate that the IR emission spectra are strongly influenced by RF, an energy gap law being obtained for the evolution of the RF rate constant depending on the electronic excitation state. The present results are relevant to the photophysics of the interstellar medium and could contribute to elucidating the carriers of the extended red emission bands and the continuum emission lying below the aromatic infrared bands believed to originate from mixed aromatic–aliphatic compounds.
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Affiliation(s)
- O. Lacinbala
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d’Orsay (ISMO), 91405 Orsay, France
| | - F. Calvo
- Université Grenoble-Alpes, CNRS, LIPhy, 38000 Grenoble, France
| | - C. Dubosq
- Laboratoire de Chimie et Physique Quantiques (LCPQ), Fédération FeRMI, Université de Toulouse, CNRS, 31062 Toulouse, France
| | - C. Falvo
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d’Orsay (ISMO), 91405 Orsay, France
- Université Grenoble-Alpes, CNRS, LIPhy, 38000 Grenoble, France
| | - P. Parneix
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d’Orsay (ISMO), 91405 Orsay, France
| | - M. Rapacioli
- Laboratoire de Chimie et Physique Quantiques (LCPQ), Fédération FeRMI, Université de Toulouse, CNRS, 31062 Toulouse, France
| | - A. Simon
- Laboratoire de Chimie et Physique Quantiques (LCPQ), Fédération FeRMI, Université de Toulouse, CNRS, 31062 Toulouse, France
| | - T. Pino
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d’Orsay (ISMO), 91405 Orsay, France
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11
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Yusef Buey M, Mineva T, Rapacioli M. Coupling density functional based tight binding with class 1 force fields in a hybrid QM/MM scheme. Theor Chem Acc 2022. [DOI: 10.1007/s00214-022-02878-6] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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12
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Zheng L, Cuny J, Zamith S, L'Hermite JM, Rapacioli M. Collision-induced dissociation of protonated uracil water clusters probed by molecular dynamics simulations. Phys Chem Chem Phys 2021; 23:27404-27416. [PMID: 34859809 DOI: 10.1039/d1cp03228c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Collision-induced dissociation experiments of hydrated molecular species can provide a wealth of important information. However, they often need a theoretical support to extract chemical information. In the present article, in order to provide a detailed description of recent experimental measurements [Braud et al., J. Chem. Phys., 2019, 150, 014303], collision simulations between low-energy protonated uracil water clusters (H2O)1-7,11,12UH+ and an Ar atom were performed using a quantum mechanics/molecular mechanics formalism based on the self-consistent-charge density-functional based tight-binding method. The theoretical proportion of formed neutral vs. protonated uracil containing clusters, total fragmentation cross sections as well as the mass spectra of charged fragments are consistent with the experimental data which highlights the accuracy of the present simulations. They allow to probe which fragments are formed on the short time scale and rationalize the location of the excess proton on these fragments. We demonstrate that this latter property is highly influenced by the nature of the aggregate undergoing the collision. Analyses of the time evolution of the fragments populations and of their relative abundances demonstrate that, up to 7 water molecules, a direct dissociation mechanism occurs after collision whereas for 11 and 12 water molecules a statistical mechanism is more likely to participate. Although scarce in the literature, the present simulations appear as a useful tool to complement collision-induced dissociation experiments of hydrated molecular species.
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Affiliation(s)
- Linjie Zheng
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France.
| | - Jérôme Cuny
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France.
| | - Sébastien Zamith
- Laboratoire Collisions Agrégats Réactivié LCAR/IRSAMC, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Jean-Marc L'Hermite
- Laboratoire Collisions Agrégats Réactivié LCAR/IRSAMC, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France.
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13
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Pla P, Dubosq C, Rapacioli M, Posenitskiy E, Alcamí M, Simon A. Hydrogenation of C 24 Carbon Clusters: Structural Diversity and Energetic Properties. J Phys Chem A 2021; 125:5273-5288. [PMID: 34132096 DOI: 10.1021/acs.jpca.1c02359] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
This work aims at exploring the potential energy surfaces of C24Hn=0,6,12,18,24 using the genetic algorithm in combination with the density functional based tight binding potential. The structural diversity was analyzed using order parameters, in particular the sum of the numbers of 5- and 6-carbon rings R5/6. The most abundant and lowest energy population was designated as the flake population (isomers of variable shapes, large R5/6 values), characterized by an increasing number of spherical isomers when nH/nC increases. Simultaneously, the fraction of the pretzel population (spherical isomers, smaller R5/6 values) increases. The fraction of the cage population (largest R5/6 values) remains extremely minor while the branched population (smallest R5/6 values) remains the highest energy population for all nH/nC ratios. For all C24Hn=0,6,12,18,24 clusters, the evolution of the carbon ring size distribution with energy clearly shows the correlation between the stability and the number of 6-carbon rings. The average values of the ionization potentials of all populations were found to decrease when nH/nC increases, ranging from 7.9 down to 6.4 eV. This trend was correlated to geometric and electronic factors, in particular to carbon hybridization. These results are of astrophysical interest, especially regarding the role of carbon species in the gas ionization.
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Affiliation(s)
- Paula Pla
- Departamento de Química, Universidad Autónoma de Madrid, Módulo 13, 28049 Madrid, Spain
| | - Clément Dubosq
- Laboratoire de Chimie et Physique Quantiques (LCPQ), Fédération FeRMI, Université Toulouse UT3 and CNRS, UMR5626, 118 Route Narbonne, F-31062 Toulouse, France
| | - Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques (LCPQ), Fédération FeRMI, Université Toulouse UT3 and CNRS, UMR5626, 118 Route Narbonne, F-31062 Toulouse, France
| | - Evgeny Posenitskiy
- Laboratoire Collisions Agrégats et Réactivité (LCAR), Université de Toulouse (UPS) and CNRS, UMR5589, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Manuel Alcamí
- Departamento de Química, Universidad Autónoma de Madrid, Módulo 13, 28049 Madrid, Spain
- Instituto Madrileño de Estudios Avanzados en Nanociencia (IMDEA-Nanociencia), 28049 Madrid, Spain
- Institute for Advanced Research in Chemical Sciences (IAdChem), Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - Aude Simon
- Laboratoire de Chimie et Physique Quantiques (LCPQ), Fédération FeRMI, Université Toulouse UT3 and CNRS, UMR5626, 118 Route Narbonne, F-31062 Toulouse, France
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14
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Chakraborty S, Mulas G, Rapacioli M, Joblin C. Anharmonic Infrared Spectra of Thermally Excited Pyrene (C 16H 10): A Combined View of DFT-Based GVPT2 with AnharmonicCaOs, and Approximate DFT Molecular dynamics with DemonNano. J Mol Spectrosc 2021; 378:111466. [PMID: 34257467 PMCID: PMC7611198 DOI: 10.1016/j.jms.2021.111466] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
The study of the Aromatic Infrared Bands (AIBs) in astronomical environments has opened interesting spectroscopic questions on the effect of anharmonicity on the infrared (IR) spectrum of hot polycyclic aromatic hydrocarbons (PAHs) and related species in isolated conditions. The forthcoming James Webb Space Telescope will unveil unprecedented spatial and spectral details in the AIB spectrum; significant advancement is thus necessary now to model the infrared emission of PAHs, their presumed carriers, with enough detail to exploit the information content of the AIBs. This requires including anharmonicity in such models, and to do so systematically for all species included, requiring a difficult compromise between accuracy and efficiency. We performed a benchmark study to compare the performances of two methods in calculating anharmonic spectra, comparing them to available experimental data. One is a full quantum method, AnharmoniCaOs, relying on an ab initio potential, and the other relies on Molecular Dynamics simulations using a Density Functional based Tight Binding potential. The first one is found to be very accurate and detailed, but it becomes computationally very expensive for increasing temperature; the second is faster and can be used for arbitrarily high temperatures, but is less accurate. Still, its results can be used to model the evolution with temperature of isolated bands. We propose a new recipe to model anharmonic AIB emission using minimal assumptions on the general behaviour of band positions and widths with temperature, which can be defined by a small number of empirical parameters. Modelling accuracy will depend critically on these empirical parameters, allowing for an incremental improvement in model results, as better estimates become gradually available.
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Affiliation(s)
- Shubhadip Chakraborty
- Institut de Recherche en Astrophysique et Planétologie, Université de Toulouse (UPS), CNRS, CNES, 9 Av. du Colonel Roche, 31028 Toulouse Cedex 4, France
| | - Giacomo Mulas
- Institut de Recherche en Astrophysique et Planétologie, Université de Toulouse (UPS), CNRS, CNES, 9 Av. du Colonel Roche, 31028 Toulouse Cedex 4, France
- Istituto Nazionale di Astrofisica (INAF), Osservatorio Astronomico di Cagliari, 09047 Selargius (CA), Italy
| | - Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques (LCPQ/IRSAMC), Université de Toulouse (UPS),CNRS, 118 Route de Narbonne, 31062 Toulouse, France
| | - Christine Joblin
- Institut de Recherche en Astrophysique et Planétologie, Université de Toulouse (UPS), CNRS, CNES, 9 Av. du Colonel Roche, 31028 Toulouse Cedex 4, France
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15
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Bernard J, Al-Mogeeth A, Martin S, Montagne G, Joblin C, Dontot L, Spiegelman F, Rapacioli M. Experimental and theoretical study of photo-dissociation spectroscopy of pyrene dimer radical cations stored in a compact electrostatic ion storage ring. Phys Chem Chem Phys 2021; 23:6017-6028. [PMID: 33667290 DOI: 10.1039/d0cp05779g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In this paper, we present an experimental and theoretical study of the photo-dissociation of free-flying dimer radical cations of pyrene (C16H10)2+. Experimentally, the dimers were produced in the plasma of an electron cyclotron resonance ion source and stored in an electrostatic ion storage ring, the Mini-Ring for times up to 10 ms and the photo-dissociation spectrum was recorded in the 400 to 2000 nm range. Two broad absorption bands were observed at 550 (2.25 eV) and 1560 nm (0.79 eV), respectively. Theoretical simulations of the absorption spectrum as a function of the temperature were performed using the Density Functional based Tight Binding approach within the Extended Configuration Interaction scheme (DFTB-EXCI) to determine the electronic structure. The simulation involved all excited electronic states correlated asymptotically with the five lowest excited states D1-D5 of the monomer cation and a Monte Carlo exploration of the electronic ground state potential energy surface. The simulations exhibit three major bands at 1.0, 2.1 and 2.8 eV respectively. They allow assigning the experimental band at 1560 nm to absorption by the charge resonance (CR) excited state correlated with the ground state of the monomer D0. The band at 550 nm is tentatively attributed to dimer states correlated with excited states D2-D4, in the monomer cation. Simulations also show that the CR band broadens and shifts towards longer wavelength with increasing temperature. It results from the dependence on the geometry of the energy gap between the ground state and the lowest excited state. The comparison of the experimental spectrum with theoretical spectra at various temperatures allows us to estimate the temperature of the stored (C16H10)2+ in the 300-400 K range, which is also in line with the expected temperatures of the ions deduced from the analysis of the natural decay curve.
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Affiliation(s)
- J Bernard
- Institut Lumière Matière, UMR5306 Université Lyon 1-CNRS, Université de Lyon, 69622 Villeurbanne cedex, France.
| | - A Al-Mogeeth
- Institut Lumière Matière, UMR5306 Université Lyon 1-CNRS, Université de Lyon, 69622 Villeurbanne cedex, France.
| | - S Martin
- Institut Lumière Matière, UMR5306 Université Lyon 1-CNRS, Université de Lyon, 69622 Villeurbanne cedex, France.
| | - G Montagne
- Institut Lumière Matière, UMR5306 Université Lyon 1-CNRS, Université de Lyon, 69622 Villeurbanne cedex, France.
| | - C Joblin
- Institut de Recherche en Astrophysique et Planétologie, Université de Toulouse (UPS), CNRS, CNES, 9 Avenue du Colonel Roche, F-31028 Toulouse, France
| | - L Dontot
- Laboratoire de Chimie et de Physique Quantiques (LCPQ), IRSAMC, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - F Spiegelman
- Laboratoire de Chimie et de Physique Quantiques (LCPQ), IRSAMC, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - M Rapacioli
- Laboratoire de Chimie et de Physique Quantiques (LCPQ), IRSAMC, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
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16
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Dontot L, Spiegelman F, Zamith S, Rapacioli M. Dependence upon charge of the vibrational spectra of small Polycyclic Aromatic Hydrocarbon clusters: the example of pyrene. Eur Phys J D At Mol Opt Phys 2020; 74:216. [PMID: 33597829 PMCID: PMC7116754 DOI: 10.1140/epjd/e2020-10081-0] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/13/2020] [Revised: 07/18/2020] [Accepted: 09/01/2020] [Indexed: 06/12/2023]
Abstract
Infrared spectra are computed for neutral and cationic clusters of Polycyclic Aromatic Hydrocarbon clusters, namely( C 16 H 10 ) n = 1 , 4 ( 0 / + ) , using the Density Functional based Tight Binding scheme combined with a Configuration Interaction scheme (DFTB-CI) in the double harmonic approximation. Cross-comparison is carried out with DFT and simple DFTB. Similarly to the monomer cation, the IR spectra of cluster cations are characterized by a depletion of the intensity of the CH stretch modes around 3000 cm-1, with a weak revival for n = 3 and 4. The in-plane CCC modes in the region 1400-2000 cm-1 are enhanced while the CH bending modes in the range 700-1000 cm-1 are significantly weakened with respect to the monomer cation, in particular for n = 2. Finally, soft modes corresponding to diedral fluctuations of the monomers within the central stack of the ion structure, possibly mixed with monomer folding, are also observed in the region 70-120 cm-1.
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Affiliation(s)
- Léo Dontot
- Laboratoire de Chimie et Physique Quantique (LCPQ/IRSAMC), UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Fernand Spiegelman
- Laboratoire de Chimie et Physique Quantique (LCPQ/IRSAMC), UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Sébastien Zamith
- Laboratoire Collisions Agrégats Réactivité (LCAR/IRSAMC), UMR5589, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantique (LCPQ/IRSAMC), UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
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17
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Cuny J, Cerda Calatayud J, Ansari N, Hassanali AA, Rapacioli M, Simon A. Simulation of Liquids with the Tight-Binding Density-Functional Approach and Improved Atomic Charges. J Phys Chem B 2020; 124:7421-7432. [PMID: 32696649 DOI: 10.1021/acs.jpcb.0c04167] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Theoretical description of liquids, especially liquid water, is an ongoing subject with important implications in various domains such as homogeneous catalysis; solvation of molecular, ionic, and biomolecular species; and reactivity. Various formalisms exist to describe liquids, each one displaying its own balance between accuracy and computational cost that defines its range of applications. The present article revisits the ability of the density-functional-based tight-binding (SCC-DFTB) approach to model liquids by focusing on liquid water and liquid benzene under ambient conditions. To do so, we benchmark a recent correction for the SCC-DFTB atomic charges that allows for a drastic improvement of the pair radial distribution functions of liquid water as compared to both experimental data and density-functional theory results performed in the generalized-gradient approximation. We also report the coupling of the deMonNano and i-PI codes to perform path-integral molecular dynamics. This allows us to rationalize the impact of nuclear quantum effects on the SCC-DFTB description of liquid water. This study evidences the rather good ability of SCC-DFTB to describe liquid water and liquid benzene. As the first example of application, we also present results for a benzene molecule solvated in water with the perspectives of further studies devoted to solvent/water interfaces.
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Affiliation(s)
- Jérôme Cuny
- Laboratoire de Chimie et Physique Quantiques (LCPQ), Université de Toulouse III [UPS] and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Jesus Cerda Calatayud
- Laboratoire de Chimie et Physique Quantiques (LCPQ), Université de Toulouse III [UPS] and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Narjes Ansari
- The Abdus Salam International Center for Theoretical Physics, Condensed Matter and Statistical Physics Section, Strada Costiera 11, 34151 Trieste, Italy.,Department of Chemistry and Applied Biosciences, ETH Zurich, 3 c/o USI Campus, Via Giuseppe Buffi13, 6900 Lugano, Switzerland.,Facoltà di informatica, Istituto di Scienze Computazionali, Università della Svizzera Italiana, CH-6900 Lugano, Switzerland
| | - Ali A Hassanali
- The Abdus Salam International Center for Theoretical Physics, Condensed Matter and Statistical Physics Section, Strada Costiera 11, 34151 Trieste, Italy
| | - Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques (LCPQ), Université de Toulouse III [UPS] and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Aude Simon
- Laboratoire de Chimie et Physique Quantiques (LCPQ), Université de Toulouse III [UPS] and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
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18
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Zamith S, L’Hermite JM, Dontot L, Zheng L, Rapacioli M, Spiegelman F, Joblin C. Threshold collision induced dissociation of pyrene cluster cations. J Chem Phys 2020; 153:054311. [PMID: 32770931 PMCID: PMC7116296 DOI: 10.1063/5.0015385] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We report threshold collision induced dissociation experiments on cationic pyrene clusters, for sizes n = 2-6. Fragmentation cross sections are recorded as a function of the collision energy and analyzed with a statistical model. This model can account for the dissociation cascades and provides values for the dissociation energies. These values, of the order of 0.7 eV-1 eV, are in excellent agreement with those previously derived from thermal evaporation. They confirm the charge resonance stability enhancement predicted by theoretical calculations. In addition, remarkable agreement is obtained with theoretical predictions for the two smaller sizes n = 2 and 3. For the larger sizes, the agreement remains good, although the theoretical values obtained for the most stable structures are systematically higher by 0.2 eV. This offset could be attributed to approximations in the calculations. Still, there is an indication in the results of an incomplete description of the role of isomerization and/or direct dissociation upon collisions. Finally, by-product clusters containing dehydrogenated species are found to dissociate at energies comparable to the non-dehydrogenated ones, which shows no evidence for covalent bonds within the clusters.
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Affiliation(s)
- Sébastien Zamith
- Laboratoire Collision Agrégats Réactivité (LCAR/IRSAMC), UMR5589, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Jean-Marc L’Hermite
- Laboratoire Collision Agrégats Réactivité (LCAR/IRSAMC), UMR5589, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Léo Dontot
- Laboratoire de Chimie et Physique Quantique (LCPQ/IRSAMC), UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Linjie Zheng
- Laboratoire de Chimie et Physique Quantique (LCPQ/IRSAMC), UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantique (LCPQ/IRSAMC), UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Fernand Spiegelman
- Laboratoire de Chimie et Physique Quantique (LCPQ/IRSAMC), UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Christine Joblin
- Institut de Recherche en Astrophysique et Planétologie (IRAP), UMR5277, Université de Toulouse (UPS) and CNRS, 9 avenue du Colonel Roche, F-31028 Toulouse, France
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19
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Posenitskiy E, Rapacioli M, Lemoine D, Spiegelman F. Theoretical investigation of the electronic relaxation in highly excited chrysene and tetracene: The effect of armchair vs zigzag edge. J Chem Phys 2020; 152:074306. [PMID: 32087654 DOI: 10.1063/1.5135369] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Non-adiabatic molecular dynamics of neutral chrysene and tetracene molecules is investigated using Tully's fewest switches surface hopping algorithm coupled to the time-dependent density functional based tight-binding (TD-DFTB) method for electronic structure calculations. We first assess the performance of two DFTB parameter sets based on the computed TD-DFTB absorption spectra. The main focus is given to the analysis of the electronic relaxation from the brightest excited state following absorption of a UV photon. We determine the dynamical relaxation times and discuss the underlying mechanisms. Our results show that the electronic population of the brightest excited singlet state in armchair-edge chrysene decays an order-of-magnitude faster than the one in zigzag-edge tetracene. This is correlated with a qualitatively similar difference of energy gaps between the brightest state and the state lying just below in energy, which is also consistent with our previous study on polyacenes.
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Affiliation(s)
- Evgeny Posenitskiy
- Laboratoire Collisions Agrégats et Réactivité (LCAR), IRSAMC UMR5589, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques (LCPQ), IRSAMC UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Didier Lemoine
- Laboratoire Collisions Agrégats et Réactivité (LCAR), IRSAMC UMR5589, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Fernand Spiegelman
- Laboratoire de Chimie et Physique Quantiques (LCPQ), IRSAMC UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
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20
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Spiegelman F, Tarrat N, Cuny J, Dontot L, Posenitskiy E, Martí C, Simon A, Rapacioli M. Density-functional tight-binding: basic concepts and applications to molecules and clusters. Adv Phys X 2020; 5:1710252. [PMID: 33154977 PMCID: PMC7116320 DOI: 10.1080/23746149.2019.1710252] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2019] [Accepted: 12/19/2019] [Indexed: 06/10/2023] Open
Abstract
The scope of this article is to present an overview of the Density Functional based Tight Binding (DFTB) method and its applications. The paper introduces the basics of DFTB and its standard formulation up to second order. It also addresses methodological developments such as third order expansion, inclusion of non-covalent interactions, schemes to solve the self-interaction error, implementation of long-range short-range separation, treatment of excited states via the time-dependent DFTB scheme, inclusion of DFTB in hybrid high-level/low level schemes (DFT/DFTB or DFTB/MM), fragment decomposition of large systems, large scale potential energy landscape exploration with molecular dynamics in ground or excited states, non-adiabatic dynamics. A number of applications are reviewed, focusing on -(i)- the variety of systems that have been studied such as small molecules, large molecules and biomolecules, bare orfunctionalized clusters, supported or embedded systems, and -(ii)- properties and processes, such as vibrational spectroscopy, collisions, fragmentation, thermodynamics or non-adiabatic dynamics. Finally outlines and perspectives are given.
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Affiliation(s)
- Fernand Spiegelman
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS)and CNRS, Toulouse, France
| | - Nathalie Tarrat
- CEMES, Université de Toulouse (UPS), CNRS, UPR8011, Toulouse, Toulouse, France
| | - Jérôme Cuny
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS)and CNRS, Toulouse, France
| | - Leo Dontot
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS)and CNRS, Toulouse, France
| | - Evgeny Posenitskiy
- Laboratoire Collisions Agrégats et Réactivité LCAR/IRSAMC, UMR5589, Université de Toulouse (UPS) and CNRS, Toulouse, France
| | - Carles Martí
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS)and CNRS, Toulouse, France
- Laboratoire de Chimie, UMR5182, Ecole Normale Supérieure de Lyon, Université de Lyon and CNRS, Lyon, France
| | - Aude Simon
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS)and CNRS, Toulouse, France
| | - Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS)and CNRS, Toulouse, France
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21
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Lei L, Yao Y, Zhang J, Tronrud D, Kong W, Zhang C, Xue L, Dontot L, Rapacioli M. Electron Diffraction of Pyrene Nanoclusters Embedded in Superfluid Helium Droplets. J Phys Chem Lett 2020; 11:724-729. [PMID: 31884792 PMCID: PMC7104692 DOI: 10.1021/acs.jpclett.9b03603] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
We report electron diffraction of pyrene nanoclusters embedded in superfluid helium droplets. Using a least-squares fitting procedure, we have been able to separate the contribution of helium from those of the pyrene nanoclusters and determine the most likely structures for dimers and trimers. We confirm that pyrene dimers form a parallel double-layer structure with an interlayer distance of 3.5 Å and suggest that pyrene trimers form a sandwich structure but that the molecular planes are not completely parallel. The relative contributions of the dimers and trimers are ∼6:1. This work is an extension of our effort of solving structures of biological molecules using serial single-molecule electron diffraction imaging. The success of electron diffraction from an all-light-atom sample embedded in helium droplets offers reassuring evidence of the feasibility of this approach.
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Affiliation(s)
- Lei Lei
- Department of Chemistry, Oregon State University, Corvallis, Oregon 97331, United States
| | - Yuzhong Yao
- Department of Chemistry, Oregon State University, Corvallis, Oregon 97331, United States
| | - Jie Zhang
- Department of Chemistry, Oregon State University, Corvallis, Oregon 97331, United States
| | - Dale Tronrud
- Department of Chemistry, Oregon State University, Corvallis, Oregon 97331, United States
| | - Wei Kong
- Department of Chemistry, Oregon State University, Corvallis, Oregon 97331, United States
| | - Chengzhu Zhang
- Department of Statistics, Oregon State University, Corvallis, Oregon 97331, United States
| | - Lan Xue
- Department of Statistics, Oregon State University, Corvallis, Oregon 97331, United States
| | - Léo Dontot
- Laboratoire de Chimie et Physique Quantiques, LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques, LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
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22
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Rapacioli M, Spiegelman F, Tarrat N. Evidencing the relationship between isomer spectra and melting: the 20- and 55-atom silver and gold cluster cases. Phys Chem Chem Phys 2019; 21:24857-24866. [PMID: 31539012 DOI: 10.1039/c9cp03897c] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The present work highlights the links between melting properties and structural excitation spectra of small gold and silver clusters. The heat capacity curves are computed for Ag20, Au20, Ag55, Au55 and their ions, using a parallel-tempering molecular dynamics scheme to explore the density functional based tight binding (DFTB) potential energy surfaces and the multiple histogram method. It is found that clusters having very symmetric lowest energy structures (Au20, Ag55 and their ions) present sharp or relatively sharp solid-to-liquid transitions and large melting temperatures, important structural excitation energies and a discrete isomer spectrum. Opposite trends are observed for less ordered clusters (Ag20, Au55 and their ions). Regarding the structural evolution with temperature, very symmetric clusters exhibit minor evolution up to the starting melting temperature. The present study also highlights that, in contrast with the case of Au20, a single electron excess or deficiency is not determinant regarding the melting characteristics, even quantitatively, for clusters containing 55 atoms, for gold as for silver.
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Affiliation(s)
- Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France.
| | - Fernand Spiegelman
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France.
| | - Nathalie Tarrat
- CEMES, Université de Toulouse, CNRS, 29, rue Jeanne Marvig, 31055 Toulouse, France.
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23
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Abstract
This work presents a study of the thermal evaporation and stability of pyrene (C16H10)n clusters. Thermal evaporation rates of positively charged mass-selected clusters are measured for sizes in the range n = 3-40 pyrene units. The experimental setup consists of a gas aggregation source, a thermalization chamber, and a time of flight mass spectrometer. A microcanonical Phase Space Theory (PST) simulation is used to determine the dissociation energies of pyrene clusters by fitting the experimental breakdown curves. Calculations using the Density Functional based Tight Binding combined with a Configuration Interaction (CI-DFTB) model and a hierarchical optimization scheme are also performed in the range n = 2-7 to determine the harmonic frequencies and a theoretical estimation of the dissociation energies. The frequencies are used in the calculations of the density of states needed in the PST simulations, assuming an extrapolation scheme for clusters larger than 7 units. Using the PST model with a minimal set of adjustable parameters, we obtain good fits of the experimental breakdown curves over the full studied size range. The approximations inherent to the PST simulation and the influence of the used parameters are carefully estimated. The derived dissociation energies show significant variations over the studied size range. Compared with neutral clusters, significantly higher values of the dissociation energies are obtained for the smaller sizes and attributed to charge resonance in line with CI-DFTB calculations.
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Affiliation(s)
- Sébastien Zamitha
- Laboratoire Collisions Agrégats Réactivité (LCAR/IRSAMC) UMR5589, Université de Toulouse and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Ming-Chao Ji
- Institut de Recherche en Astrophysique et Planétologie (IRAP) UMR5277, Université de Toulouse, CNRS, CNES, 9 avenue du Colonel Roche, F-31028 Toulouse, France
| | - Jean-Marc L’Hermite
- Laboratoire Collisions Agrégats Réactivité (LCAR/IRSAMC) UMR5589, Université de Toulouse and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Christine Joblin
- Institut de Recherche en Astrophysique et Planétologie (IRAP) UMR5277, Université de Toulouse, CNRS, CNES, 9 avenue du Colonel Roche, F-31028 Toulouse, France
| | - Léo Dontot
- Institut de Recherche en Astrophysique et Planétologie (IRAP) UMR5277, Université de Toulouse, CNRS, CNES, 9 avenue du Colonel Roche, F-31028 Toulouse, France
- Laboratoire de Chimie et Physique Quantiques (LCPQ/IRSAMC) UMR5626, Université de Toulouse and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques (LCPQ/IRSAMC) UMR5626, Université de Toulouse and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Fernand Spiegelman
- Laboratoire de Chimie et Physique Quantiques (LCPQ/IRSAMC) UMR5626, Université de Toulouse and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
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24
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Abstract
The low energy structures of neutral and cationic pyrene clusters containing up to seven molecules are searched through a global exploration scheme combining parallel tempering Monte Carlo algorithm and local quenches. The potential energies are computed at the density functional based tight binding level for neutrals and configuration interaction density functional based tight binding for cations in order to treat properly the charge resonance. New simplified versions of these schemes are also presented and used during the global exploration. Neutral clusters are shown to be made of compact assemblies of sub-blocs containing up to three units whereas cations present a charged dimer or trimer core surrounded by neutral units. The structural features of the clusters are analyzed and correlated for the cation with the charge distribution. The stability of clusters is also discussed in terms of cohesive and evaporation energies. Adiabatic and vertical ionization potentials are also discussed.
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Affiliation(s)
- Léo Dontot
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Fernand Spiegelman
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
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25
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Posenitskiy E, Rapacioli M, Lepetit B, Lemoine D, Spiegelman F. Non-adiabatic molecular dynamics investigation of the size dependence of the electronic relaxation in polyacenes. Phys Chem Chem Phys 2019; 21:12139-12149. [DOI: 10.1039/c9cp00603f] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Electronic relaxation from the brightest excited state has been investigated for neutral polyacenes ranging in size from naphthalene to heptacene.
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Affiliation(s)
- Evgeny Posenitskiy
- Laboratoire Collisions Agrégats et Réactivité (LCAR)
- IRSAMC UMR5589
- Université de Toulouse (UPS) and CNRS
- F-31062 Toulouse
- France
| | - Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques (LCPQ)
- IRSAMC UMR5626
- Université de Toulouse (UPS) and CNRS
- F-31062 Toulouse
- France
| | - Bruno Lepetit
- Laboratoire Collisions Agrégats et Réactivité (LCAR)
- IRSAMC UMR5589
- Université de Toulouse (UPS) and CNRS
- F-31062 Toulouse
- France
| | - Didier Lemoine
- Laboratoire Collisions Agrégats et Réactivité (LCAR)
- IRSAMC UMR5589
- Université de Toulouse (UPS) and CNRS
- F-31062 Toulouse
- France
| | - Fernand Spiegelman
- Laboratoire de Chimie et Physique Quantiques (LCPQ)
- IRSAMC UMR5626
- Université de Toulouse (UPS) and CNRS
- F-31062 Toulouse
- France
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26
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Simon A, Rapacioli M, Michoulier E, Zheng L, Korchagina K, Cuny J. Contribution of the density-functional-based tight-binding scheme to the description of water clusters: methods, applications and extension to bulk systems. Molecular Simulation 2018. [DOI: 10.1080/08927022.2018.1554903] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- A. Simon
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse and CNRS, Toulouse, France
| | - M. Rapacioli
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse and CNRS, Toulouse, France
| | - E. Michoulier
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse and CNRS, Toulouse, France
- Laboratoire Collisions Agrégats et Réactivité LCAR/IRSAMC, Université de Toulouse and CNRS, Toulouse, France
| | - L. Zheng
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse and CNRS, Toulouse, France
| | - K. Korchagina
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse and CNRS, Toulouse, France
| | - J. Cuny
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse and CNRS, Toulouse, France
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27
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Rapacioli M, Cazaux S, Foley N, Simon A, Hoekstra R, Schlathölter T. Atomic hydrogen interactions with gas-phase coronene cations: hydrogenation versus fragmentation. Phys Chem Chem Phys 2018; 20:22427-22438. [PMID: 29947389 DOI: 10.1039/c8cp03024c] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Sequential hydrogenation of polycyclic aromatic hydrocarbon (PAH) cations drives a gradual transition from a planar to a puckered geometry and from an aromatic to an aliphatic electronic structure. The resulting H-induced weakening of the molecular structure together with the exothermic nature of the consecutive H-attachment processes can lead to substantial molecular fragmentation. We have studied H attachment to gas-phase coronene cations in a radiofrequency ion trap using tandem mass spectrometry. With increasing hydrogenation, C2Hi loss and multifragmentation are identified as main de-excitation channels. To understand the dependence of both channels on H-exposure time, we have simulated the molecular stability and fragmentation channels of hydrogenated PAHs using a molecular dynamics approach employing potential energies determined by a density functional based tight binding method. As the coronene fragmentation patterns depend on the balance between energy deposition by H-attachment and the extent of cooling in between subsequent attachment processes, we investigate several scenarios for the energy distribution of hydrogenated PAHs. Good agreement between experiment and simulation is reached, when realistic energy distributions are considered.
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Affiliation(s)
- Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
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Cuny J, Tarrat N, Spiegelman F, Huguenot A, Rapacioli M. Density-functional tight-binding approach for metal clusters, nanoparticles, surfaces and bulk: application to silver and gold. J Phys Condens Matter 2018; 30:303001. [PMID: 29916820 DOI: 10.1088/1361-648x/aacd6c] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Density-functional based tight-binding (DFTB) is an efficient quantum mechanical method that can describe a variety of systems, going from organic and inorganic compounds to metallic and hybrid materials. The present topical review addresses the ability and performance of DFTB to investigate energetic, structural, spectroscopic and dynamical properties of gold and silver materials. After a brief overview of the theoretical basis of DFTB, its parametrization and its transferability, we report its past and recent applications to gold and silver systems, including small clusters, nanoparticles, bulk and surfaces, bare and interacting with various organic and inorganic compounds. The range of applications covered by those studies goes from plasmonics and molecular electronics, to energy conversion and surface chemistry. Finally, perspectives of DFTB in the field of gold and silver surfaces and NPs are outlined.
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Affiliation(s)
- Jérôme Cuny
- Laboratoire de Chimie et Physique Quantiques (LCPQ), Université de Toulouse III [UPS] and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
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Abstract
Structural aspects of the Au147 cluster have been investigated through a density functional based tight binding global optimization involving a parallel tempering molecular dynamics scheme with quenching followed by geometries relaxation at the Density Functional Theory (DFT) level. The focus is put on the competition between relaxed ordered regular geometries and disordered (or amorphous) structures. The present work shows that Au147 amorphous geometries are relevant low energy candidates and are likely to contribute in finite temperature dynamics and thermodynamics. The structure of the amorphous-like isomers is discussed from the anisotropy parameters, the atomic coordinations, the radial and pair distribution functions, the IR spectra, and the vibrational DOS. With respect to the regular structures, the amorphous geometries are shown to be characterized by a larger number of surface atoms, a less dense volume with reduced coordination number per atom, a propensity to increase the dimension of flat facets at the surface, and a stronger anisotropy. Moreover, all amorphous clusters have similar IR spectra, almost continuous with active frequencies over the whole spectral range, while symmetric clusters are characterized by a few lines with large intensities.
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Affiliation(s)
- Nathalie Tarrat
- CEMES, Université de Toulouse, CNRS, 29, Rue Jeanne Marvig, 31055 Toulouse, France
| | - Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Fernand Spiegelman
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
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30
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Michoulier E, Ben Amor N, Rapacioli M, Noble JA, Mascetti J, Toubin C, Simon A. Theoretical determination of adsorption and ionisation energies of polycyclic aromatic hydrocarbons on water ice. Phys Chem Chem Phys 2018; 20:11941-11953. [PMID: 29667677 DOI: 10.1039/c8cp01175c] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In dense interstellar environments, Polycyclic Aromatic Hydrocarbons (PAHs) are likely to condense onto or integrate into water ice mantles covering dust grains. Understanding the role of ice in the photo-induced processes involving adsorbed PAHs is therefore a key issue in astrochemistry. This requires (i) the knowledge of PAH-ice interactions, i.e. PAH-ice adsorption energies and local structures at the PAH-ice interface, as well as (ii) the understanding of the fate of electrons in the PAH-ice system upon excitation. Regarding (i), in this work, we determined the lowest energy structures of PAH-ice systems for a variety of PAHs ranging from naphthalene to ovalene on three types of ice - crystalline (Ih and Ic) and amorphous (low density) - using an explicit description of the electrons and a finite-sized system. The electronic structure was determined using the Self Consistent Charge Density Functional based Tight Binding (SCC-DFTB) scheme with modified Mulliken charges in order to ensure a good description of the studied systems. Regarding (ii), the influence of the interaction with ice on the Vertical Ionisation Potentials (VIPs) of the series of PAHs was determined using the constrained SCC-DFTB scheme benchmarked against correlated wavefunction results for PAH-(H2O)n (n = 1-6, 13) clusters. The results show a deviation equal, at most, to ∼1.4 eV of the VIPs of PAHs adsorbed on ice with respect to the gas phase values. Our results are discussed in the light of experimental data and previous theoretical studies.
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Affiliation(s)
- Eric Michoulier
- Lab. Chim. & Phys. Quant. LCPQ IRSAMC, Univ. Toulouse [UPS] UPS & CNRS, UMR5626, 118 Route Narbonne, F-31062, Toulouse, France.
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31
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Affiliation(s)
- Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Nathalie Tarrat
- CEMES, Université de Toulouse, CNRS, 29 rue Jeanne Marvig, 31055 Toulouse, France
| | - Fernand Spiegelman
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
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Joblin C, Dontot L, Garcia GA, Spiegelman F, Rapacioli M, Nahon L, Parneix P, Pino T, Bréchignac P. Size Effect in the Ionization Energy of PAH Clusters. J Phys Chem Lett 2017; 8:3697-3702. [PMID: 28742357 PMCID: PMC5545758 DOI: 10.1021/acs.jpclett.7b01546] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2017] [Accepted: 07/25/2017] [Indexed: 05/12/2023]
Abstract
We report the first experimental measurement of the near-threshold photoionization spectra of polycyclic aromatic hydrocarbon clusters made of pyrene C16H10 and coronene C24H12, obtained using imaging photoelectron-photoion coincidence spectrometry with a VUV synchrotron beamline. The experimental results of the ionization energy are compared to calculated ones obtained from simulations using dedicated electronic structure treatment for large ionized molecular clusters. Experiment and theory consistently find a decrease of the ionization energy with cluster size. The inclusion of temperature effects in the simulations leads to a lowering of this energy and to quantitative agreement with the experiment. In the case of pyrene, both theory and experiment show a discontinuity in the IE trend for the hexamer. This work demonstrates the ability of the models to describe the electronic structure of PAH clusters and suggests that these species are ionized in astronomical environments where they are thought to be present.
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Affiliation(s)
- C. Joblin
- IRAP, Université de
Toulouse, CNRS, UPS, CNES, 9 Av. du Colonel Roche, 31028 Toulouse Cedex 4, France
| | - L. Dontot
- IRAP, Université de
Toulouse, CNRS, UPS, CNES, 9 Av. du Colonel Roche, 31028 Toulouse Cedex 4, France
| | - G. A. Garcia
- Synchrotron
SOLEIL, L’Orme
des Merisiers, 91192 Gif sur Yvette Cedex, France
| | - F. Spiegelman
- Laboratoire
de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, 31062 Toulouse, France
| | - M. Rapacioli
- Laboratoire
de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, 31062 Toulouse, France
| | - L. Nahon
- Synchrotron
SOLEIL, L’Orme
des Merisiers, 91192 Gif sur Yvette Cedex, France
| | - P. Parneix
- Institut
des Sciences Moléculaires d’Orsay, CNRS, Univ Paris
Sud, Université Paris-Saclay, F-91405 Orsay, France
| | - T. Pino
- Institut
des Sciences Moléculaires d’Orsay, CNRS, Univ Paris
Sud, Université Paris-Saclay, F-91405 Orsay, France
| | - P. Bréchignac
- Institut
des Sciences Moléculaires d’Orsay, CNRS, Univ Paris
Sud, Université Paris-Saclay, F-91405 Orsay, France
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Tarrat N, Rapacioli M, Cuny J, Morillo J, Heully JL, Spiegelman F. Global optimization of neutral and charged 20- and 55-atom silver and gold clusters at the DFTB level. COMPUT THEOR CHEM 2017. [DOI: 10.1016/j.comptc.2017.01.022] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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Simon A, Rapacioli M, Rouaut G, Trinquier G, Gadéa FX. Dissociation of polycyclic aromatic hydrocarbons: molecular dynamics studies. Philos Trans A Math Phys Eng Sci 2017; 375:rsta.2016.0195. [PMID: 28320900 PMCID: PMC5360896 DOI: 10.1098/rsta.2016.0195] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Accepted: 09/10/2016] [Indexed: 05/12/2023]
Abstract
We present dynamical studies of the dissociation of polycyclic aromatic hydrocarbon (PAH) radical cations in their ground electronic states with significant internal energy. Molecular dynamics simulations are performed, the electronic structure being described on-the-fly at the self-consistent-charge density functional-based tight binding (SCC-DFTB) level of theory. The SCC-DFTB approach is first benchmarked against DFT results. Extensive simulations are achieved for naphthalene [Formula: see text], pyrene [Formula: see text] and coronene [Formula: see text] at several energies. Such studies enable one to derive significant trends on branching ratios, kinetics, structures and hints on the formation mechanism of the ejected neutral fragments. In particular, dependence of branching ratios on PAH size and energy were retrieved. The losses of H and C2H2 (recognized as the ethyne molecule) were identified as major dissociation channels. The H/C2H2 ratio was found to increase with PAH size and to decrease with energy. For [Formula: see text], which is the most interesting PAH from the astrophysical point of view, the loss of H was found as the quasi-only channel for an internal energy of 30 eV. Overall, in line with experimental trends, decreasing the internal energy or increasing the PAH size will favour the hydrogen loss channels with respect to carbonaceous fragments.This article is part of the themed issue 'Theoretical and computational studies of non-equilibrium and non-statistical dynamics in the gas phase, in the condensed phase and at interfaces'.
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Affiliation(s)
- A Simon
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, 31062 Toulouse, France
| | - M Rapacioli
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, 31062 Toulouse, France
| | - G Rouaut
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, 31062 Toulouse, France
| | - G Trinquier
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, 31062 Toulouse, France
| | - F X Gadéa
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, 31062 Toulouse, France
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Korchagina K, Simon A, Rapacioli M, Spiegelman F, L’Hermite JM, Braud I, Zamith S, Cuny J. Theoretical investigation of the solid–liquid phase transition in protonated water clusters. Phys Chem Chem Phys 2017; 19:27288-27298. [DOI: 10.1039/c7cp04863g] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Molecular dynamics simulations provide an atomistic scale description of the phase transition in protonated water clusters (H2O)nH+(n= 20–23) and an interpretation to recent nano-calorimetric experiments.
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Affiliation(s)
- Kseniia Korchagina
- Laboratoire de Chimie et Physique Quantiques (LCPQ/IRSAMC)
- Université de Toulouse and CNRS
- F-31062 Toulouse
- France
| | - Aude Simon
- Laboratoire de Chimie et Physique Quantiques (LCPQ/IRSAMC)
- Université de Toulouse and CNRS
- F-31062 Toulouse
- France
| | - Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques (LCPQ/IRSAMC)
- Université de Toulouse and CNRS
- F-31062 Toulouse
- France
| | - Fernand Spiegelman
- Laboratoire de Chimie et Physique Quantiques (LCPQ/IRSAMC)
- Université de Toulouse and CNRS
- F-31062 Toulouse
- France
| | - Jean-Marc L’Hermite
- Laboratoire Collisions Agrégats Réactivité (LCAR/IRSAMC)
- Université de Toulouse and CNRS
- F-31062 Toulouse
- France
| | - Isabelle Braud
- Laboratoire Collisions Agrégats Réactivité (LCAR/IRSAMC)
- Université de Toulouse and CNRS
- F-31062 Toulouse
- France
| | - Sébastien Zamith
- Laboratoire Collisions Agrégats Réactivité (LCAR/IRSAMC)
- Université de Toulouse and CNRS
- F-31062 Toulouse
- France
| | - Jérôme Cuny
- Laboratoire de Chimie et Physique Quantiques (LCPQ/IRSAMC)
- Université de Toulouse and CNRS
- F-31062 Toulouse
- France
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Korchagina KA, Simon A, Rapacioli M, Spiegelman F, Cuny J. Structural Characterization of Sulfur-Containing Water Clusters Using a Density-Functional Based Tight-Binding Approach. J Phys Chem A 2016; 120:9089-9100. [DOI: 10.1021/acs.jpca.6b08251] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Kseniia A. Korchagina
- Laboratoire de Chimie et
Physique Quantiques (LCPQ), Université de Toulouse III [UPS] and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Aude Simon
- Laboratoire de Chimie et
Physique Quantiques (LCPQ), Université de Toulouse III [UPS] and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Mathias Rapacioli
- Laboratoire de Chimie et
Physique Quantiques (LCPQ), Université de Toulouse III [UPS] and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Fernand Spiegelman
- Laboratoire de Chimie et
Physique Quantiques (LCPQ), Université de Toulouse III [UPS] and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
| | - Jérôme Cuny
- Laboratoire de Chimie et
Physique Quantiques (LCPQ), Université de Toulouse III [UPS] and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
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Oliveira LFL, Tarrat N, Cuny J, Morillo J, Lemoine D, Spiegelman F, Rapacioli M. Benchmarking Density Functional Based Tight-Binding for Silver and Gold Materials: From Small Clusters to Bulk. J Phys Chem A 2016; 120:8469-8483. [DOI: 10.1021/acs.jpca.6b09292] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
| | - Nathalie Tarrat
- CEMES CNRS UPR 8011, 29 rue Jeanne Marvig, BP 94347, 31055 Toulouse Cedex 4, France
| | | | - Joseph Morillo
- CEMES CNRS UPR 8011, 29 rue Jeanne Marvig, BP 94347, 31055 Toulouse Cedex 4, France
- Université de Toulouse (UPS), 118
Route de Narbonne, F-31062 Toulouse Cedex 9, France
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Dontot L, Suaud N, Rapacioli M, Spiegelman F. An extended DFTB-CI model for charge-transfer excited states in cationic molecular clusters: model studies versus ab initio calculations in small PAH clusters. Phys Chem Chem Phys 2016; 18:3545-57. [PMID: 26750534 DOI: 10.1039/c5cp06344b] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We present an extension of the constrained density functional tight binding scheme combined with configuration interaction (DFTB-CI) to efficiently compute excited states of molecular cluster cations.
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Affiliation(s)
- Léo Dontot
- Laboratoire de Chimie et de Physique Quantiques (LCPQ)
- IRSAMC
- Université de Toulouse (UPS) and CNRS
- F-31062 Toulouse
- France
| | - Nicolas Suaud
- Laboratoire de Chimie et de Physique Quantiques (LCPQ)
- IRSAMC
- Université de Toulouse (UPS) and CNRS
- F-31062 Toulouse
- France
| | - Mathias Rapacioli
- Laboratoire de Chimie et de Physique Quantiques (LCPQ)
- IRSAMC
- Université de Toulouse (UPS) and CNRS
- F-31062 Toulouse
- France
| | - Fernand Spiegelman
- Laboratoire de Chimie et de Physique Quantiques (LCPQ)
- IRSAMC
- Université de Toulouse (UPS) and CNRS
- F-31062 Toulouse
- France
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Rapacioli M, Simon A, Marshall CCM, Cuny J, Kokkin D, Spiegelman F, Joblin C. Cationic Methylene-Pyrene Isomers and Isomerization Pathways: Finite Temperature Theoretical Studies. J Phys Chem A 2015; 119:12845-54. [PMID: 26600076 DOI: 10.1021/acs.jpca.5b09494] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
This paper provides spectral characterizations of the two isomers of the 1-methylenepyrene cation, namely, the 1-pyrenemethylium and a pyrene-like isomer owing a tropylium cycle. Both are possible photodissociation products of the 1-methylpyrene cation and were proposed as potential contributors to the diffuse interstellar bands. In that respect, vibrational and electronic spectra are computed for the optimized structures at the density functional theory (DFT) and time-dependent (TD-)DFT levels. Finite temperature effects on these spectra are estimated from molecular dynamics simulations within the density functional-based tight-binding (DFTB) and TD-DFTB frameworks, these methods being first benchmarked against DFT and TD-DFT calculations. The computed spectra allow discrimination of the two isomers. When the temperature increases, bands are observed to redshift and merge. The isomerization mechanism is investigated with the metadynamics technique, a biased dynamics scheme allowing to probe reaction mechanisms with high energy barriers by investigating the free energy surface at various temperatures. Four pathways with similar barrier heights (3.5-4 eV) are found, showing that the interconversion process would only occur in interstellar clouds under photoactivation. The present study opens the way to simulations on larger methyl- and methylenePAHs of astrophysical interest and their experimental investigation.
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Affiliation(s)
- Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse (UPS) and CNRS , 118 Route de Narbonne, F-31062 Toulouse, France
| | - Aude Simon
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse (UPS) and CNRS , 118 Route de Narbonne, F-31062 Toulouse, France
| | - Charlotte C M Marshall
- Université de Toulouse, UPS-OMP, IRAP , 31400 Toulouse, France.,CNRS, IRAP , 9 Avenue du Colonel Roche, BP 44346-31028 Toulouse Cedex 4, France
| | - Jérôme Cuny
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse (UPS) and CNRS , 118 Route de Narbonne, F-31062 Toulouse, France
| | - Damian Kokkin
- Université de Toulouse, UPS-OMP, IRAP , 31400 Toulouse, France.,CNRS, IRAP , 9 Avenue du Colonel Roche, BP 44346-31028 Toulouse Cedex 4, France
| | - Fernand Spiegelman
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse (UPS) and CNRS , 118 Route de Narbonne, F-31062 Toulouse, France
| | - Christine Joblin
- Université de Toulouse, UPS-OMP, IRAP , 31400 Toulouse, France.,CNRS, IRAP , 9 Avenue du Colonel Roche, BP 44346-31028 Toulouse Cedex 4, France
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Oliveira LFL, Cuny J, Morinière M, Dontot L, Simon A, Spiegelman F, Rapacioli M. Phase changes of the water hexamer and octamer in the gas phase and adsorbed on polycyclic aromatic hydrocarbons. Phys Chem Chem Phys 2015; 17:17079-89. [PMID: 26067775 DOI: 10.1039/c5cp02099a] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We investigate thermodynamic properties of small water clusters adsorbed on polycyclic aromatic hydrocarbons (PAHs), which are relevant systems in the context of astrophysical and atmospheric chemistry. We present heat capacity curves computed from parallel-tempering molecular dynamics and Monte Carlo simulations that were performed using the self-consistent-charge density-functional based tight-binding method. These curves are characteristic of the phase changes occurring in the aggregates and provide useful information on the evolution of the interaction between the water molecules and the PAHs as a function of temperature. After benchmarking our approach on the water hexamer and octamer in the gas phase, we present some results for these same clusters adsorbed on coronene and circumcoronene. When compared to the curves obtained for the isolated water clusters, the phase change temperature significantly decreases for the (H2O)8-PAH clusters whereas it depends on the nature of the PAH in the case of the hexamer. We analyse these differences as connected to the relative energies of the optimized characteristic isomers and to their dynamical behavior. We also evidence the population changes of the various cluster isomers as a function of temperature.
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Affiliation(s)
- Luiz Fernando L Oliveira
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, Université de Toulouse (UPS) and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
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Scemama A, Renon N, Rapacioli M. A Sparse Self-Consistent Field Algorithm and Its Parallel Implementation: Application to Density-Functional-Based Tight Binding. J Chem Theory Comput 2014; 10:2344-54. [DOI: 10.1021/ct500115v] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Anthony Scemama
- Laboratoire
de Chimie et Physique Quantiques, Université de Toulouse−CNRS−IRSAMC, 31062 Toulouse Cedex 04, France
| | - Nicolas Renon
- CALMIP, Université de Toulouse−CNRS−INPT−INSA−UPS, F-31062 Toulouse Cedex 4, France
| | - Mathias Rapacioli
- Laboratoire
de Chimie et Physique Quantiques, Université de Toulouse−CNRS−IRSAMC, 31062 Toulouse Cedex 04, France
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Iftner C, Simon A, Korchagina K, Rapacioli M, Spiegelman F. A density functional tight binding/force field approach to the interaction of molecules with rare gas clusters: Application to (C6H6)+/0Arn clusters. J Chem Phys 2014; 140:034301. [DOI: 10.1063/1.4861431] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Scholz R, Luschtinetz R, Seifert G, Jägeler-Hoheisel T, Körner C, Leo K, Rapacioli M. Quantifying charge transfer energies at donor-acceptor interfaces in small-molecule solar cells with constrained DFTB and spectroscopic methods. J Phys Condens Matter 2013; 25:473201. [PMID: 24135026 DOI: 10.1088/0953-8984/25/47/473201] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
Charge transfer states around the donor-acceptor interface in an organic solar cell determine the device performance in terms of the open circuit voltage. In the present work, we propose a computational scheme based on constrained density functional tight binding theory (c-DFTB) to assess the energy of the lowest charge transfer (CT) state in such systems. A comparison of the c-DFTB scheme with Hartree-Fock based configuration interaction of singles (CIS) and with time-dependent density functional theory (TD-DFT) using the hybrid functional B3LYP reveals that CIS and c-DFTB reproduce the correct Coulomb asymptotics between cationic donor and anionic acceptor configurations, whereas TD-DFT gives a qualitatively wrong excitation energy. Together with an embedding scheme accounting for the polarizable medium, this c-DFTB scheme is applied to several donor-acceptor combinations used in molecular solar cells. The external quantum efficiency of photovoltaic cells based on zinc phthalocyanine-C60 blends reveals a CT band remaining much narrower than the density of states of acceptor HOMO and donor LUMO, an observation which can be interpreted in a natural way in terms of Marcus transfer theory. A detailed comparison with c-DFTB calculations reveals an energy difference of 0.32 eV between calculated and observed absorption from the electronic ground state into the CT state. In a blend of a functionalized thiophene and C60, the photoluminescence spectra differ significantly from neat films, allowing again an assignment to CT states. The proposed computational scheme reproduces the observed trends of the observed open circuit voltages in photovoltaic devices relying on several donor-acceptor blends, finding an offset of 1.16 eV on average. This value is similar as in polymer-fullerene photovoltaic systems where it amounts to about 0.9 eV, indicating that the photophysics of CT states in molecular donor-acceptor blends and in polymer-fullerene blends are governed by the same mechanisms.
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Affiliation(s)
- Reinhard Scholz
- Institut für Angewandte Photophysik, Technische Universität Dresden, D-01062 Dresden, Germany
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Abstract
We present and implement the calculation of analytical n-order geometric derivatives of the energy obtained within the framework of the density functional based tight binding approach. The use of automatic differentiation techniques allows a unique implementation for the calculation of derivatives up to any order providing that the computational facilities are sufficient. As first applications, the derivatives are used to build an analytical potential energy surface around the optimized geometry of acetylene. We also discuss the relevant anharmonic contributions that have to be considered when building such an analytical potential energy surface for acetylene, ethylene, ethane, benzene, and naphtalene.
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Affiliation(s)
- Antonio Gamboa
- Université de Toulouse , UPS, LCPQ (Laboratoire de Chimie et Physique Quantiques), IRSAMC, 118 Route de Narbonne, F-31062 Toulouse, France.,CNRS, LCPQ (Laboratoire de Chimie et Physique Quantiques), IRSAMC , F-31062 Toulouse, France
| | - Mathias Rapacioli
- Université de Toulouse , UPS, LCPQ (Laboratoire de Chimie et Physique Quantiques), IRSAMC, 118 Route de Narbonne, F-31062 Toulouse, France.,CNRS, LCPQ (Laboratoire de Chimie et Physique Quantiques), IRSAMC , F-31062 Toulouse, France
| | - Fernand Spiegelman
- Université de Toulouse , UPS, LCPQ (Laboratoire de Chimie et Physique Quantiques), IRSAMC, 118 Route de Narbonne, F-31062 Toulouse, France.,CNRS, LCPQ (Laboratoire de Chimie et Physique Quantiques), IRSAMC , F-31062 Toulouse, France
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Simon A, Rapacioli M, Mascetti J, Spiegelman F. Vibrational spectroscopy and molecular dynamics of water monomers and dimers adsorbed on polycyclic aromatic hydrocarbons. Phys Chem Chem Phys 2012; 14:6771-86. [PMID: 22495405 DOI: 10.1039/c2cp40321h] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
This paper reports structures, energetics, dynamics and spectroscopy of H2O and (H2O)2 systems adsorbed on coronene (C24H12), a compact polycyclic aromatic hydrocarbon (PAH). On-the-fly Born-Oppenheimer molecular dynamics simulations are performed for temperatures T varying from 10 to 300 K, on a potential energy surface obtained within the self-consistent-charge density-functional based tight-binding (SCC-DFTB) approach. Anharmonic infrared (IR) spectra are extracted from these simulations. We first benchmark the SCC-DFTB semi-empirical hamiltonian vs. DFT (Density Functional Theory) calculations that include dispersion, on (C6H6)(H2O)1,2 small complexes. We find that charge corrections and inclusion of dispersion contributions in DFTB are necessary to obtain consistent structures, energetics and IR spectra. Using this Hamiltonian, the structures, energetics and IR features of the low-energy isomers of (C24H12)(H2O)1,2 are found to be similar to the DFT ones, with evidence for a stabilizing edge-coordination. The temperature dependence of the motions of H2O and (H2O)2 on the surface of C24H12 is analysed, revealing ultra-fast periodic motion. The water dimer starts diffusing at a higher temperature than the water monomer (150 K vs. 10 K respectively), which appears to be consistent with the binding energies. Qualitative and quantitative analyses of the effects of T on the IR spectra are performed. Anharmonic factors in particular are derived and it is shown that they can be used as signatures for the presence of PAH-water complexes. Finally, this paper lays the foundations for the studies of larger (PAH)m(H2O)n clusters, that can be treated with the efficient computational approach benchmarked in this paper.
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Affiliation(s)
- Aude Simon
- Laboratoire de Chimie et Physique Quantiques (LCPQ), Université de Toulouse [UPS] and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France.
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Simon A, Rapacioli M, Lanza M, Joalland B, Spiegelman F. Molecular dynamics simulations on [FePAH]+ π-complexes of astrophysical interest: anharmonic infrared spectroscopy. Phys Chem Chem Phys 2011; 13:3359-74. [PMID: 21243160 DOI: 10.1039/c0cp00990c] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In this article, classical Born-Oppenheimer molecular dynamics (MD) simulations in the microcanonical ensemble are performed on neutral and cationic polycyclic aromatic hydrocarbon (PAH) species, focusing on [FePAH](+)π-complexes. Their anharmonic mid-infrared (mid-IR) spectra in the classical approximation are derived. This approach allows us to describe the influence of the energy of a system on its IR spectrum in terms of band-shifts and broadenings. The MD simulations are performed on a potential energy surface (PES) described at the self-consistent-charge density functional tight-binding level of theory. The PES is benchmarked on DFT calculations, showing the validity of the approach for complexes of Fe(+) with PAHs larger than coronene (C(24)H(12)) that are of astrophysical interest. MD simulations at high temperature show the occurrence of the diffusion of the Fe cation on the surface of the PAH. It proceeds through the edge of the carbon skeleton which is the lowest energy pathway presenting barriers smaller than 1 eV. Although only qualitative information on the band broadenings can be obtained, we show that the dependence of the computed positions of the main bands of [C(24)H(12)](0/+)and [FeC(24)H(12)](+)π-complexes on temperature can be fit by linear laws. The spectral trends determined for [FeC(24)H(12)](+) are compared to those of N-substituted [C(23)NH(12)](+)and [SiC(24)H(12)](+)π-complexes of astrophysical interest.
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Affiliation(s)
- Aude Simon
- Laboratoire de Chimie et Physique Quantiques, IRSAMC, Université de Toulouse, UPS, LCPQ, 118 Route de Narbonne, F-31062 Toulouse, France.
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Spiegelman F, Rapacioli M, Simon A. Perspectives from Quantum Chemistry for molecules and nanograins with astrophysical Interest. EPJ Web of Conferences 2011. [DOI: 10.1051/epjconf/20111806003] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Rapacioli M, Spiegelman F, Scemama A, Mirtschink A. Modeling Charge Resonance in Cationic Molecular Clusters: Combining DFT-Tight Binding with Configuration Interaction. J Chem Theory Comput 2010; 7:44-55. [DOI: 10.1021/ct100412f] [Citation(s) in RCA: 39] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Affiliation(s)
- Mathias Rapacioli
- Université de Toulouse, UPS, LCPQ (Laboratoire de Chimie et Physique Quantiques), IRSAMC, 118 Route de Narbonne, F-31062 Toulouse, France, and CNRS, LCPQ (Laboratoire de Chimie et Physique Quantiques), IRSAMC, F-31062 Toulouse, France
| | - Fernand Spiegelman
- Université de Toulouse, UPS, LCPQ (Laboratoire de Chimie et Physique Quantiques), IRSAMC, 118 Route de Narbonne, F-31062 Toulouse, France, and CNRS, LCPQ (Laboratoire de Chimie et Physique Quantiques), IRSAMC, F-31062 Toulouse, France
| | - Anthony Scemama
- Université de Toulouse, UPS, LCPQ (Laboratoire de Chimie et Physique Quantiques), IRSAMC, 118 Route de Narbonne, F-31062 Toulouse, France, and CNRS, LCPQ (Laboratoire de Chimie et Physique Quantiques), IRSAMC, F-31062 Toulouse, France
| | - André Mirtschink
- Université de Toulouse, UPS, LCPQ (Laboratoire de Chimie et Physique Quantiques), IRSAMC, 118 Route de Narbonne, F-31062 Toulouse, France, and CNRS, LCPQ (Laboratoire de Chimie et Physique Quantiques), IRSAMC, F-31062 Toulouse, France
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Joalland B, Rapacioli M, Simon A, Joblin C, Marsden CJ, Spiegelman F. Molecular dynamics simulations of anharmonic infrared spectra of [SiPAH](+) pi-complexes. J Phys Chem A 2010; 114:5846-54. [PMID: 20394399 DOI: 10.1021/jp911526n] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
This paper presents an investigation of anharmonic effects in the IR spectra of [SiPAH](+) complexes by using Born-Oppenheimer molecular dynamics for a variety of PAHs ranging from naphthalene (C(10)H(8)) to ovalene (C(32)H(14)). The potential energy surfaces are calculated with the self-consistent charge density functional-based tight binding approach (DFTB). The DFTB parameters are modified to reproduce potential energy surfaces and the harmonic infrared spectra of the studied complexes with respect to DFT calculations. For bare PAHs, we find that the evolution of the vibrational frequencies of the C-H out-of-plane bending and C-C stretching modes as a function of temperature follows a linear law in quantitative agreement with experimental data. For cationic PAHs, the anharmonicity of the bands in terms of position shifts is found to be enhanced with respect to that of neutrals. As compared with bare cationic PAHs, the coordination of Si induces (i) larger broadenings, (ii) a slightly larger shift of the C-C stretching mode, and (iii) a smaller shift of the C-H out-of-plane bending modes. We discuss the implications of the work and the spectroscopic constraints for the detection of [SiPAH](+) in the interstellar medium.
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Affiliation(s)
- B Joalland
- Université de Toulouse, UPS, Centre d'Etude Spatiale des Rayonnements, Observatoire Midi-Pyrénées, 9 Av. du Colonel Roche, F-31028 Toulouse cedex 04, France.
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