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Bödecker M, Mihrin D, Suhm MA, Wugt Larsen R. Regularities and Anomalies in Neon Matrix Shifts of Hydrogen-Bonded O-H Stretching Fundamentals. J Phys Chem A 2024; 128:7124-7136. [PMID: 39155731 PMCID: PMC11372756 DOI: 10.1021/acs.jpca.4c03468] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/20/2024]
Abstract
O-H bond stretching vibrations in hydrogen-bonded complexes embedded into cryogenic neon matrices are subtly downshifted from cold gas phase reference wavenumbers. To the extent that this shift is systematic, it enables neon matrices as more universally applicable spectroscopic benchmark environments for quantum chemical predictions. Outliers are indicative of either an assignment problem in one of the two cryogenic experiments or they reveal interesting dynamics or structural effects on the complexes as a function of the environment. We compile 6 literature-known pairs of experimental data in jet and neon matrix expansions and realize a 6-fold expansion of that number through targeted matrix isolation and/or slit jet expansion spectroscopy presented in this work. In many cases, the neon matrix shift is less than the uncertainty of the currently best-performing blind quantum chemical predictions for the gas phase, but in specific cases, it may exceed the currently achievable theoretical accuracy. Some evidence for a positive correlation of the matrix shift with the hydrogen bond shift is found, similar to observations for helium nanodroplets. Outliers in particular for water acting as a donor are discussed, and in a few cases they call for a future reinvestigation. Substantial improvement in the correlation of the matrix shift with the hydrogen bond shift is achieved for ketone monohydrates by removing a vibrational resonance. New insights into nitrile hydration isomerism are obtained, and the linear OH stretching spectrum of the jet-cooled ammonia-water complex is presented for the first time. Vibrational spectroscopy in weakly perturbing solid rare gas quantum matrices for the benchmarking of gas phase theory and future explicit theoretical treatments of the quantum matrix environment to better understand the outliers are both encouraged.
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Affiliation(s)
- Margarethe Bödecker
- Institute of Physical Chemistry, University of Göttingen, Tammannstrasse 6, 37077 Göttingen, Germany
| | - Dmytro Mihrin
- Department of Chemistry, Technical University of Denmark, Kemitorvet 206, 2800 Kgs. Lyngby, Denmark
| | - Martin A Suhm
- Institute of Physical Chemistry, University of Göttingen, Tammannstrasse 6, 37077 Göttingen, Germany
| | - René Wugt Larsen
- Department of Chemistry, Technical University of Denmark, Kemitorvet 206, 2800 Kgs. Lyngby, Denmark
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Bader F, Tremblay JC, Paulus B. Theoretical modeling of molecules in weakly interacting environments: trifluoride anions in argon. Phys Chem Chem Phys 2022; 24:3555-3567. [PMID: 35080559 DOI: 10.1039/d1cp02338a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The properties of molecules can be affected by the presence of a host environment. Even in inert rare gas matrices such effects are observable, as for instance in matrix isolation spectroscopy. In this work we study the trifluoride anion in cryogenic argon environments. To investigate the structure and vibrational properties of the guest-host systems, a potential energy surface of compound F-3-argon structures is determined from ab initio calculations with the CCSD(T)-F12b approach. Argon environments are probed with minima hopping optimizations of extended trifluoride-argon clusters. The vibrations of F-3 within the optimized environments are examined with anharmonic vibrational analyses. Among the three identified structural surroundings for the trifluoride, two are characterized by relatively favorable guest-host and host-host interactions as well as vibrational zero-point energies. A striking dependence of the trifluoride properties on the particular argon environment reveals the delicate influence of the host atoms on the guest molecule. Very good agreement with measured data suggests that in experiment F-3 occupies a double-vacancy site.
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Affiliation(s)
- Frederik Bader
- Institut für Chemie und Biochemie, Freie Universität Berlin, D-14195, Berlin, Germany.
| | - Jean Christophe Tremblay
- Laboratoire de Physique et Chimie Théoriques, CNRS-Université de Lorraine, UMR 7019, ICPM, 1Bd Arago, 57070 Metz, France
| | - Beate Paulus
- Institut für Chemie und Biochemie, Freie Universität Berlin, D-14195, Berlin, Germany.
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Bader F, Tremblay JC, Paulus B. A pair potential modeling study of F3− in neon matrices. Phys Chem Chem Phys 2021; 23:886-899. [DOI: 10.1039/d0cp05031h] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
First-principles investigations of the trifluoride anion in a neon environment reveal a small blue-shift of the fundamental vibrational excitations.
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Affiliation(s)
- Frederik Bader
- Institut für Chemie und Biochemie
- Freie Universität Berlin
- D-14195, Berlin
- Germany
| | | | - Beate Paulus
- Institut für Chemie und Biochemie
- Freie Universität Berlin
- D-14195, Berlin
- Germany
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Bader F, Lindic T, Paulus B. A Validation of Cluster Modeling in the Description of Matrix Isolation Spectroscopy. J Comput Chem 2019; 41:751-758. [DOI: 10.1002/jcc.26123] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2019] [Revised: 11/08/2019] [Accepted: 11/13/2019] [Indexed: 11/06/2022]
Affiliation(s)
- Frederik Bader
- Institut für Chemie und BiochemieFreie Universität Berlin, D‐14195 Berlin Germany
| | - Tilen Lindic
- Institut für Chemie und BiochemieFreie Universität Berlin, D‐14195 Berlin Germany
| | - Beate Paulus
- Institut für Chemie und BiochemieFreie Universität Berlin, D‐14195 Berlin Germany
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Othmani H, Ben Said R, Terzi N, Jaidane NE, Mogren Al Mogren M, Elmarghany A, Hochlaf M. Structural, energetic and spectroscopic characterisation of 5-fluorouracil anticarcinogenic drug isomers, tautomers and ions. Mol Phys 2018. [DOI: 10.1080/00268976.2018.1548715] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Affiliation(s)
- H. Othmani
- Laboratoire de Modélisation et Simulation Multi Echelle, Université Paris-Est, MSME UMR 8208 CNRS, Champs-sur-Marne, France
- Faculté des Sciences de Tunis, Laboratoire de Spectroscopie Atomique, Moléculaire et Applications-LSAMA, Université de Tunis El-Manar, Tunis, Tunisia
| | - R. Ben Said
- Department of Chemistry, College of Science & Arts at Al-Rass, Qassim University, Al-Rass, Kingdom of Saudi Arabia
- Unité de recherche Physico-Chimie des Matériaux à l’Etat Condensé, Département de Chimie, Faculté des Sciences de Tunis, Université Tunis El Manar, Tunis, Tunisia
| | - N. Terzi
- Faculté des Sciences de Tunis, Laboratoire de Spectroscopie Atomique, Moléculaire et Applications-LSAMA, Université de Tunis El-Manar, Tunis, Tunisia
| | - N.-E. Jaidane
- Faculté des Sciences de Tunis, Laboratoire de Spectroscopie Atomique, Moléculaire et Applications-LSAMA, Université de Tunis El-Manar, Tunis, Tunisia
| | - M. Mogren Al Mogren
- Chemistry Department, Faculty of Science, King Saud University, Riyadh, Kingdom of Saudi Arabia
| | - A. Elmarghany
- Chemistry Department, Faculty of Science, King Saud University, Riyadh, Kingdom of Saudi Arabia
- Faculty of Science, Suez University, Suez, Egypt
| | - M. Hochlaf
- Laboratoire de Modélisation et Simulation Multi Echelle, Université Paris-Est, MSME UMR 8208 CNRS, Champs-sur-Marne, France
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Makina Y, Mahjoubi K, Benoit DM, Jaidane NE, Al-Mogren MM, Hochlaf M. Periodic Dispersion-Corrected Approach for Isolation Spectroscopy of N 2 in an Argon Environment: Clusters, Surfaces, and Matrices. J Phys Chem A 2017; 121:4093-4102. [PMID: 28485607 DOI: 10.1021/acs.jpca.7b00093] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Ab initio and Perdew, Burke, and Ernzerhof (PBE) density functional theory with dispersion correction (PBE-D3) calculations are performed to study N2-Arn (n ≤ 3) complexes and N2 trapped in Ar matrix (i.e., N2@Ar). For cluster computations, we used both Møller-Plesset (MP2) and PBE-D3 methods. For N2@Ar, we used a periodic-dispersion corrected model for Ar matrix, which consists on a slab of four layers of Ar atoms. We determined the equilibrium structures and binding energies of N2 interacting with these entities. We also deduced the N2 vibrational frequency shifts caused by clustering or embedding compared to an isolated N2 molecule. Upon complexation or embedding, the vibrational frequency of N2 is slightly shifted, while its equilibrium distance remains unchanged. This is due to the weak interactions between N2 and Ar within these compounds. Our calculations show the importance of inclusion of dispersion effects for the accurate description of geometrical and spectroscopic parameters of N2 isolated, in interaction with Ar surfaces, or trapped in Ar matrices.
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Affiliation(s)
- Y Makina
- Laboratoire de Spectroscopie Atomique, Moléculaire et Applications-LSAMA, Université de Tunis El Manar , Tunis 1068, Tunisia
| | - K Mahjoubi
- Laboratoire de Spectroscopie Atomique, Moléculaire et Applications-LSAMA, Université de Tunis El Manar , Tunis 1068, Tunisia
| | - D M Benoit
- Chemistry, School of Mathematical and Physical Sciences, University of Hull , Hull HU6 7RX, U.K
| | - N-E Jaidane
- Laboratoire de Spectroscopie Atomique, Moléculaire et Applications-LSAMA, Université de Tunis El Manar , Tunis 1068, Tunisia
| | - M Mogren Al-Mogren
- Chemistry Department, Faculty of Science, King Saud University , PO Box 2455, Riyadh 11451, Kingdom of Saudi Arabia
| | - M Hochlaf
- Université Paris-Est , Laboratoire Modélisation et Simulation Multi Echelle, MSME UMR 8208 CNRS, 5 bd Descartes, 77454 Marne-la-Vallée, France
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