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Brahem S, Missaoui D, Yazidi O, Najar F, Senent ML. Theoretical structural and spectroscopic characterization of peroxyacetic acid (CH 3-CO-OOH): study of the far infrared region. Phys Chem Chem Phys 2024; 26:12600-12609. [PMID: 38597218 DOI: 10.1039/d3cp05783f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/11/2024]
Abstract
Peroxyacetic acid, a non-rigid oxygenated organic molecule which acts in the atmosphere as a reservoir of HOX and ROX radicals, is studied using highly correlated ab initio methods with the aim of its spectroscopic characterization in the gas phase. The study focuses on the far infrared region providing reliable rovibrational parameters such as energy levels and splittings. The molecule presents three conformers that inter-convert by internal rotation, drawing a potential energy surface of 12 minima. One of them shows prominent stability due to the formation of one weak intramolecular bond between the hydrogen atom of the hydroperoxy group and the oxygen atom of the carbonyl group. For the three minimum energy structures, rotational constants and centrifugal distortion constants are provided. It may be expected that the most stable conformer is the only one contributing to the spectral features in further measurements at low temperature. In this structure, the methyl torsional barrier has been found to be very low, V3 = 88.6 cm-1 producing a splitting of 2.262 cm-1 for the ground vibrational state. The study confirms that the ν20 torsional mode interacts strongly with the other two torsional modes ν19 and ν21, but slightly with the remaining vibrations. Then, a variational procedure in three dimensions allows the exploration of the low-frequency modes. The methyl torsional fundamental ν21 was found to be 49.1 cm-1 (Ai) and 33.4 cm-1 (E). The fundamentals of ν20 (C-O bond torsion) and ν19 (OH torsion) have been computed to be 216.7 cm-1 (A2) and 218.5 cm-1 (E) and 393.6 cm-1 (A2) and 394.1 cm-1. Since non-rigidity can have effects on the reactivity due to the conformer interconversion, and transitions involving low-lying levels can be observed with many spectroscopic techniques, this work can help kinetic studies and assignments of further spectroscopic studies needed for the detection in the gas phase of trace molecules.
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Affiliation(s)
- Sinda Brahem
- Laboratoire de Spectroscopie Atomique Moléculaire et Applications, Faculté des Sciences de Tunis, Université de Tunis El Manar, 2092, Tunisia
- Departamento de Química y Física Teóricas, Instituto de Estructura de la Materia, IEM-CSIC, Serrano 121, Madrid 28006, Spain
- Unidad Asociada GIFMAN, CSIC-UHU, Spain.
| | - Dorsaf Missaoui
- Laboratoire de Spectroscopie Atomique Moléculaire et Applications, Faculté des Sciences de Tunis, Université de Tunis El Manar, 2092, Tunisia
- Departamento de Química y Física Teóricas, Instituto de Estructura de la Materia, IEM-CSIC, Serrano 121, Madrid 28006, Spain
- Unidad Asociada GIFMAN, CSIC-UHU, Spain.
| | - Ounaies Yazidi
- Laboratoire de Spectroscopie Atomique Moléculaire et Applications, Faculté des Sciences de Tunis, Université de Tunis El Manar, 2092, Tunisia
| | - Faouzi Najar
- Laboratoire de Spectroscopie Atomique Moléculaire et Applications, Faculté des Sciences de Tunis, Université de Tunis El Manar, 2092, Tunisia
| | - María Luisa Senent
- Departamento de Química y Física Teóricas, Instituto de Estructura de la Materia, IEM-CSIC, Serrano 121, Madrid 28006, Spain
- Unidad Asociada GIFMAN, CSIC-UHU, Spain.
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Ventura ON, Segovia M, Vega-Teijido M, Katz A, Kieninger M, Tasinato N, Salta Z. Correcting the Experimental Enthalpies of Formation of Some Members of the Biologically Significant Sulfenic Acids Family. J Phys Chem A 2022; 126:6091-6109. [PMID: 36044372 DOI: 10.1021/acs.jpca.2c04235] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Sulfenic acids are important intermediates in the oxidation of cysteine thiol groups in proteins by reactive oxygen species. The mechanism is influenced heavily by the presence of polar groups, other thiol groups, and solvent, all of which determines the need to compute precisely the energies involved in the process. Surprisingly, very scarce experimental information exists about a very basic property of sulfenic acids, the enthalpies of formation. In this Article, we use high level quantum chemical methods to derive the enthalpy of formation at 298.15 K of methane-, ethene-, ethyne-, and benzenesulfenic acids, the only ones for which some experimental information exists. The methods employed were tested against well-known experimental data of related species and extensive CCSD(T) calculations. Our best results consistently point out to a much lower enthalpy of formation of methanesulfenic acid, CH3SOH (ΔfH0(298.15K) = -35.1 ± 0.4 kcal mol-1), than the one reported in the NIST thermochemical data tables. The enthalpies of formation derived for ethynesulfenic acid, HC≡CSOH, +32.9 ± 1.0 kcal/mol, and benzenesulfenic acid, C6H5SOH, -2.6 ± 0.6 kcal mol-1, also differ markedly from the experimental values, while the enthalpy of formation of ethenesulfenic acid CH2CHSOH, not available experimentally, was calculated as -11.2 ± 0.7 kcal mol-1.
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Affiliation(s)
- Oscar N Ventura
- Computational Chemistry and Biology Group, CCBG, DETEMA, Facultad de Química, Universidad de la República, 11400 Montevideo, Uruguay
| | - Marc Segovia
- Computational Chemistry and Biology Group, CCBG, DETEMA, Facultad de Química, Universidad de la República, 11400 Montevideo, Uruguay
| | - Mauricio Vega-Teijido
- Computational Chemistry and Biology Group, CCBG, DETEMA, Facultad de Química, Universidad de la República, 11400 Montevideo, Uruguay
| | - Aline Katz
- Computational Chemistry and Biology Group, CCBG, DETEMA, Facultad de Química, Universidad de la República, 11400 Montevideo, Uruguay
| | - Martina Kieninger
- Computational Chemistry and Biology Group, CCBG, DETEMA, Facultad de Química, Universidad de la República, 11400 Montevideo, Uruguay
| | - Nicola Tasinato
- SMART Lab, Scuola Normale Superiore, piazza dei Cavalieri 7, 56126 Pisa, Italy
| | - Zoi Salta
- SMART Lab, Scuola Normale Superiore, piazza dei Cavalieri 7, 56126 Pisa, Italy
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Pitsevich GA, Malevich AE, Kisuryna DG, Ostyakov AA, Sapeshka UU. Torsional States and Tunneling Probability in HOSOH, DOSOD, and DOSOH Molecules Analyzed at the CBS Limit. J Phys Chem A 2020; 124:8733-8743. [PMID: 32991168 DOI: 10.1021/acs.jpca.0c06411] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Torsional vibrations of a sulfoxylic acid molecule (HOSOH) and its two deuterated isotopologues were analyzed for the first time. Harmonic and anharmonic calculations of the vibrational frequencies of the trans- and cis-conformers were performed. More rigorous consideration of the torsional vibrations was made based on 2D potential energy and kinematic coefficient surface calculations. These calculations were made at the MP2/cc-pVTZ and MP2/cc-pVQZ levels of theory, and then the results were extrapolated to the complete basis set limit. The 2D surface of the zero-point vibrational energy of a sulfoxylic acid molecule was calculated at the MP2/cc-pVTZ level of theory in anharmonic approximation and taken into account. The energies of the torsional states were found by numerical solution of the vibrational Schrödinger equation of the restricted dimensionality using the Fourier method. 2D surfaces of the dipole moment components were calculated too. Using all these data, the torsional IR spectra of the trans- and cis-conformers of the HOSOH, DOSOD, and DOSOH molecules were also modeled at different temperatures.
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Affiliation(s)
- G A Pitsevich
- Department of Physical Optics and Applied Informatics, Faculty of Physics, Belarusian State University, Nezavisimosti Avenue, 4, 220030 Minsk, Belarus
| | - A E Malevich
- Department of Differential Equations and System Analysis, Faculty of Mechanics and Mathematics, Belarusian State University, Nezavisimosti Avenue, 4, 220030 Minsk, Belarus
| | - D G Kisuryna
- Department of Physical Optics and Applied Informatics, Faculty of Physics, Belarusian State University, Nezavisimosti Avenue, 4, 220030 Minsk, Belarus
| | - A A Ostyakov
- Department of Physical Optics and Applied Informatics, Faculty of Physics, Belarusian State University, Nezavisimosti Avenue, 4, 220030 Minsk, Belarus
| | - U U Sapeshka
- Faculty of Physics, The University of Illinois at Chicago, 845 W Taylor Street, Chicago, Illinois 60607, United States
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Pitsevich GA, Malevich AE, Kisuryna DG, Vasilevsky AU, Vasilevich AS, Sapeshka UU, Kamnev AA. Quantum aspects of torsional vibrations in the HO 3H, DO 3H and DO 3D molecules. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2020; 239:118209. [PMID: 32512338 DOI: 10.1016/j.saa.2020.118209] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/14/2019] [Revised: 02/09/2020] [Accepted: 02/29/2020] [Indexed: 06/11/2023]
Abstract
The hydrogen trioxide (HT) molecule HOOOH is 1) a prototype for a class of molecules of the form X(ZY)2 with two equivalent internal tops (ZY) and 2) the second representative of the polyoxides series of the form HOnH (n ≥ 2). Due to this, it is the subject of close attention of researchers. In this paper, we performed a group theory analysis of the torsional and spin states of the HOOOH, DOOOH, and DOOOD molecules. The relationships have been established between the symmetry species of the C2V(M) molecular symmetry group to which the HOOOH and DOOOD molecules belong, and the symmetry species of the C2 and CS point groups to which the equilibrium configurations of trans- and cis-conformers of the above molecules belong, respectively. 2D PES and 2D surfaces of kinematic coefficients related to torsional vibrations of hydroxyl groups were calculated at the complete basis set (CBS) limit by extrapolating the results of calculations at the MP2/cc-pVTZ and MP2/cc-pVQZ levels of theory. For all the three molecules, the energies of the stationary torsional states were computed using the Fourier method for a numerical solution of the 2D vibrational Schrödinger equation. Symmetry species of torsional states and the values of quantum numbers defining the types of torsional vibrations were found by analyzing the torsional wave functions. The selection rules for transitions between torsional states in the dipole approximation were also formulated.
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Affiliation(s)
- G A Pitsevich
- Department of Physical Optics and Applied Informatics, Faculty of Physics, Belarusian State University, Nezavisimosti ave., 4, 220030, Minsk, Belarus
| | - A E Malevich
- Department of Physical Optics and Applied Informatics, Faculty of Physics, Belarusian State University, Nezavisimosti ave., 4, 220030, Minsk, Belarus
| | - D G Kisuryna
- Department of Physical Optics and Applied Informatics, Faculty of Physics, Belarusian State University, Nezavisimosti ave., 4, 220030, Minsk, Belarus
| | - A U Vasilevsky
- Department of Physical Optics and Applied Informatics, Faculty of Physics, Belarusian State University, Nezavisimosti ave., 4, 220030, Minsk, Belarus
| | - A S Vasilevich
- Department of Physical Optics and Applied Informatics, Faculty of Physics, Belarusian State University, Nezavisimosti ave., 4, 220030, Minsk, Belarus
| | - U U Sapeshka
- University of Illinois at Chicago, Chicago, Ill., USA
| | - A A Kamnev
- Institute of Biochemistry and Physiology of Plants and Microorganisms, Russian Academy of Sciences, Prosp. Entuziastov, 13, Saratov 410049, Russia.
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Dalbouha S, Senent ML, Komiha N, Domínguez-Gómez R. Structural and spectroscopic characterization of methyl isocyanate, methyl cyanate, methyl fulminate, and acetonitrile N-oxide using highly correlated ab initio methods. J Chem Phys 2017; 145:124309. [PMID: 27782665 DOI: 10.1063/1.4963186] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023] Open
Abstract
Various astrophysical relevant molecules obeying the empirical formula C2H3NO are characterized using explicitly correlated coupled cluster methods (CCSD(T)-F12). Rotational and rovibrational parameters are provided for four isomers: methyl isocyanate (CH3NCO), methyl cyanate (CH3OCN), methyl fulminate (CH3ONC), and acetonitrile N-oxide (CH3CNO). A CH3CON transition state is inspected. A variational procedure is employed to explore the far infrared region because some species present non-rigidity. Second order perturbation theory is used for the determination of anharmonic frequencies, rovibrational constants, and to predict Fermi resonances. Three species, methyl cyanate, methyl fulminate, and CH3CON, show a unique methyl torsion hindered by energy barriers. In methyl isocyanate, the methyl group barrier is so low that the internal top can be considered a free rotor. On the other hand, acetonitrile N-oxide presents a linear skeleton, C3v symmetry, and free internal rotation. Its equilibrium geometry depends strongly on electron correlation. The remaining isomers present a bend skeleton. Divergences between theoretical rotational constants and previous parameters fitted from observed lines for methyl isocyanate are discussed on the basis of the relevant rovibrational interaction and the quasi-linearity of the molecular skeleton.
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Affiliation(s)
- S Dalbouha
- Departamento de Química y Física Teóricas, Instituto de Estructura de la Materia, IEM-CSIC, Serrano 121, Madrid 28006, Spain
| | - M L Senent
- Departamento de Química y Física Teóricas, Instituto de Estructura de la Materia, IEM-CSIC, Serrano 121, Madrid 28006, Spain
| | - N Komiha
- LS3ME-Equipe de chimie théorique et Modélisation, Faculté des Sciences Rabat-Université Mohammed V, 4 Avenue Ibn Battouta B.P. 1014 RP, Rabat, Morocco
| | - R Domínguez-Gómez
- E.T.S. de Ingeniería Civil, Universidad Politécnica de Madrid, Alfonso XII, 3-5, Madrid 28014, Spain
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Boussessi R, Senent ML, Jaïdane N. Weak intramolecular interaction effects on the torsional spectra of ethylene glycol, an astrophysical species. J Chem Phys 2017; 144:164110. [PMID: 27131534 DOI: 10.1063/1.4947088] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022] Open
Abstract
An elaborate variational procedure of reduced dimensionality based on explicitly correlated coupled clusters calculations is applied to understand the far infrared spectrum of ethylene-glycol, an astrophysical species. This molecule can be classified in the double molecular symmetry group G8 and displays nine stable conformers, gauche and trans. In the gauche region, the effect of the potential energy surface anisotropy due to the formation of intramolecular hydrogen bonds is relevant. For the primary conformer, stabilized by a hydrogen bond, the ground vibrational state rotational constants are computed to be A0 = 15 369.57 MHz, B0 = 5579.87 MHz, and C0 = 4610.02 MHz corresponding to differences of 6.3 MHz, 7.2 MHz, and 3.5 MHz from the experimental parameters. Ethylene glycol displays very low torsional energy levels whose classification is not straightforward and requires a detailed analysis of the torsional wavefunctions. Tunneling splittings are significant and unpredictable due to the anisotropy of the potential energy surface PES. The ground vibrational state splits into 16 sublevels separated ∼142 cm(-1). The splitting of the "G1 sublevels" was calculated to be ∼0.26 cm(-1) in very good agreement with the experimental data (0.2 cm(-1) = 6.95 MHz). Transitions corresponding to the three internal rotation modes allow assignment of previously observed Q branches. Band patterns, calculated between 362.3 cm(-1) and 375.2 cm(-1), 504 cm(-1) and 517 cm(-1), and 223.3 cm(-1) and 224.1 cm(-1), that correspond to the tunnelling components of the v21 fundamental (v21 = OH-torsional mode), are assigned to the prominent experimental Q branches.
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Affiliation(s)
- R Boussessi
- Departamento de Química y Física Teóricas, I. Estructura de la Materia, IEM-CSIC, Serrano 121, Madrid 28006, Spain
| | - M L Senent
- Departamento de Química y Física Teóricas, I. Estructura de la Materia, IEM-CSIC, Serrano 121, Madrid 28006, Spain
| | - N Jaïdane
- Laboratoire de Spectroscopie Atomique, Moléculaire et Applications-LSAMA LR01ES09, Faculté des sciences de Tunis, Université de Tunis El Manar, 2092 Tunis, Tunisia
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Senent ML, Dalbouha S, Cuisset A, Sadovskii D. Theoretical Spectroscopic Characterization at Low Temperatures of Dimethyl Sulfoxide: The Role of Anharmonicity. J Phys Chem A 2015; 119:9644-52. [DOI: 10.1021/acs.jpca.5b06941] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- M. L. Senent
- Departamento de Química
y Física Teóricas, Instituto de Estructura de la Materia, IEM-C.S.I.C., Serrano 121, Madrid 28006, Spain
| | - S. Dalbouha
- Departamento de Química
y Física Teóricas, Instituto de Estructura de la Materia, IEM-C.S.I.C., Serrano 121, Madrid 28006, Spain
| | - A. Cuisset
- Laboratoire
de Physico-Chimie de l’Atmosphère, Maison de la Recherche
en Environnement Industriel, Université du Littoral − Côte d’Opale, 59140 Dunkerque, France
| | - D. Sadovskii
- Laboratoire
de Physico-Chimie de l’Atmosphère, Maison de la Recherche
en Environnement Industriel, Université du Littoral − Côte d’Opale, 59140 Dunkerque, France
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