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Belogolova EF, Shlykov SA, Eroshin AV, Doronina EP, Sidorkin VF. The hierarchy of ab initio and DFT methods for describing an intramolecular non-covalent SiN contact in the silicon compounds using electron diffraction geometries. Phys Chem Chem Phys 2021; 23:2762-2774. [PMID: 33496285 DOI: 10.1039/d0cp05872f] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In the series of silatranes XSi(OCH2CH2)3N, 1 (X = Me, 1a; H, 1b; F, 1c) with the known gas electron diffraction (GED) structures, the problematic geometry of 1-methylsilatrane 1a has been revised. In particular, the new value of the SiN distance (dSiN) in 1a turned out to be ∼0.06 Å longer than the generally accepted one. This dSiN resolves the long-standing contradiction between the data of the structural and spectral experiments regarding the sensitivity of 1 to the medium effect. We also performed the ab initio and DFT study of the combined series of silatranes 1a-c, silylalkylamines H3Si(CH2)3NMe2 (2a) and F3SiCH2NMe2 (2b), silylhydrazines F3SiN(Me)NMe2 (2c) and F3SiN(SiMe3)NMe2 (2d), and silyloxyamines ClH2SiONMe2 (2e,f), (F3C)F2SiONMe2 (2g,h) and F3SiONMe2 (2i), in which the GED dSiN values are in a wide range of 2-3 Å. None of the involved quantum chemical methods has succeeded in reproducing all the experimental gas-phase dSiN values in 1a-c, 2a-i with an acceptable accuracy (0.01-0.03 Å). The problems of the used methods, primarily CCSD with the Pople basis sets, are caused by four molecules with the geminal SiNN and SiON fragments (2d,f-i) and dSiN < 2.3 Å. A reasonable hierarchy of computationally accessible theory levels for studying the physicochemical manifestation of the non-covalent intramolecular SiN interactions can be constructed only at dSiN > 2.3 Å: MP2 < PBE0 ∼ B3PW91 ∼ SCS-MP2 < CCSD < CCSD(T).
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Affiliation(s)
- Elena F Belogolova
- A. E. Favorsky Irkutsk Institute of Chemistry, Siberian Branch of the Russian Academy of Sciences, 1 Favorsky Street, 664033 Irkutsk, Russian Federation.
| | - Sergey A Shlykov
- Ivanovo State University of Chemistry and Technology, Sheremetievskiy ave. 7, 153000 Ivanovo, Russian Federation.
| | - Alexey V Eroshin
- Ivanovo State University of Chemistry and Technology, Sheremetievskiy ave. 7, 153000 Ivanovo, Russian Federation.
| | - Evgeniya P Doronina
- A. E. Favorsky Irkutsk Institute of Chemistry, Siberian Branch of the Russian Academy of Sciences, 1 Favorsky Street, 664033 Irkutsk, Russian Federation.
| | - Valery F Sidorkin
- A. E. Favorsky Irkutsk Institute of Chemistry, Siberian Branch of the Russian Academy of Sciences, 1 Favorsky Street, 664033 Irkutsk, Russian Federation.
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Phien TD, Kuzmina LE, Arnason I, Jonsdottir NR, Shlykov SA. The conformational behavior and structure of monosubstituted-1,3,5-trisilacyclohexanes: 1-N,N-dimethylamino-1,3,5-trisilacyclohexane. J Mol Struct 2021. [DOI: 10.1016/j.molstruc.2020.129046] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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3
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1-t-Butyl-1-phenyl-1-silacyclohexane: Synthesis, conformational analysis in gas and solution by GED, FT-IR and theoretical calculations. J Organomet Chem 2020. [DOI: 10.1016/j.jorganchem.2020.121433] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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Vishnevskiy YV, Blomeyer S, Reuter CG, Pimenov OA, Shlykov SA. Combined gas electron diffraction and mass spectrometric experimental setup at Bielefeld University. THE REVIEW OF SCIENTIFIC INSTRUMENTS 2020; 91:073103. [PMID: 32752877 DOI: 10.1063/5.0012071] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/27/2020] [Accepted: 06/15/2020] [Indexed: 06/11/2023]
Abstract
We have designed and constructed a combined experimental setup for synchronous measurements of electron diffraction patterns and mass-spectra of gas samples. Test measurements have been performed for acetic acid at two temperatures, 296 K and 457 K. Electron diffraction data have been analyzed taking into account mass spectra measured in the same experiments. From the diffraction intensities, molecular structures and mole fractions of the acetic acid monomer and dimer have been refined. The obtained results demonstrate the importance of measuring mass spectra in gas electron diffraction experiments. In particular, it is possible to detect the sample decomposition, which can be used for the optimization of experimental conditions and for the data interpretation. The length of the hydrogen bond in the acetic acid dimer determined in this work, re(O⋯H) = 1.657(9) Å, is in good agreement with modern theoretical predictions. We recommend measuring the diffraction patterns of acetic acid for the calibration of the sample pressure in the diffraction volume.
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Affiliation(s)
- Yury V Vishnevskiy
- Lehrstuhl für Anorganische Chemie und Strukturchemie, Universität Bielefeld, Universitätsstraße 25, 33615 Bielefeld, Germany
| | - Sebastian Blomeyer
- Lehrstuhl für Anorganische Chemie und Strukturchemie, Universität Bielefeld, Universitätsstraße 25, 33615 Bielefeld, Germany
| | - Christian G Reuter
- Lehrstuhl für Anorganische Chemie und Strukturchemie, Universität Bielefeld, Universitätsstraße 25, 33615 Bielefeld, Germany
| | - Oleg A Pimenov
- Ivanovo State University of Chemistry and Technology, Sheremetievskiy Avenue, 7, 153000 Ivanovo, Russian Federation
| | - Sergey A Shlykov
- Ivanovo State University of Chemistry and Technology, Sheremetievskiy Avenue, 7, 153000 Ivanovo, Russian Federation
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Shainyan BA, Suslova EN, Phien TD, Shlykov SA, Heydenreich M, Kleinpeter E. 1-Methylthio-1-phenyl-1-silacyclohexane: Synthesis, conformational preferences in gas and solution by GED, NMR and theoretical calculations. Tetrahedron 2019. [DOI: 10.1016/j.tet.2019.130677] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Conformational rivalry of geminal substituents in silacyclohexane derivatives: 1-Phenyl vs. 1-OR, R=H or Me. Tetrahedron 2019. [DOI: 10.1016/j.tet.2019.04.044] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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7
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Kuzmina LE, Arnason I, Wallevik SÓ, Giricheva NI, Girichev GV, Shlykov SA. 1-Dimethylamino-1-silacyclohexane: Synthesis, molecular structure and conformational behavior by gas-phase electron diffraction, Raman spectroscopy and detailed quantum chemical calculations. J Mol Struct 2019. [DOI: 10.1016/j.molstruc.2018.08.076] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
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8
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Phien TD, Kuzmina LE, Kvaran Á, Jonsdottir S, Arnason I, Shlykov SA. Cyanocyclohexane: Axial-to-equatorial “seesaw” parity in gas and condensed phases. J Mol Struct 2018. [DOI: 10.1016/j.molstruc.2018.05.013] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
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9
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Shainyan BA, Suslova EN, Phien TD, Shlykov SA, Kleinpeter E. Synthesis, conformational preferences in gas and solution, and molecular gear rotation in 1-(dimethylamino)-1-phenyl-1-silacyclohexane by gas phase electron diffraction (GED), LT NMR and theoretical calculations. Tetrahedron 2018. [DOI: 10.1016/j.tet.2018.06.023] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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Shlykov SA, Puchkov BV, Arnason I, Wallevik SÓ, Giricheva NI, Girichev GV, Zhabanov YA. 1-Methoxy-1-silacyclohexane: Synthesis, molecular structure and conformational behavior by gas electron diffraction, Raman spectroscopy and quantum chemical calculations. J Mol Struct 2018. [DOI: 10.1016/j.molstruc.2017.10.088] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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Group 14 structural variations: perhalo derivatives of the “dimetallenes”: dicarbenes, disilenes, digermenes, distannenes, and diplumbenes. Struct Chem 2013. [DOI: 10.1007/s11224-012-0194-9] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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Tackett BS, Li Y, Clouthier DJ, Pacheco KL, Schick GA, Judge RH. Single vibronic level emission spectroscopic studies of the ground state energy levels and molecular structures of jet-cooled HGeBr, DGeBr, HGeI, and DGeI. J Chem Phys 2006; 125:114301. [PMID: 16999468 DOI: 10.1063/1.2355496] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Single vibronic level dispersed fluorescence spectra of jet-cooled HGeBr, DGeBr, HGeI, and DGeI have been obtained by laser excitation of selected bands of the A (1)A(")-X (1)A(') electronic transition. The measured ground state vibrational intervals were assigned and fitted to anharmonicity expressions, which allowed the harmonic frequencies to be determined for both isotopomers. In some cases, lack of a suitable range of emission data necessitated that some of the anharmonicity constants and vibrational frequencies be estimated from those of HGeClDGeCl and the corresponding silylenes (HSiX). Harmonic force fields were obtained for both molecules, although only four of the six force constants could be determined. The ground state effective rotational constants and force field data were combined to calculate average (r(z)) and approximate equilibrium (r(e) (z)) structures. For HGeBr r(e) (z)(GeH)=1.593(9) A, r(e) (z)(GeBr)=2.325(21) A, and the bond angle was fixed at our CCSD(T)/aug-cc-pVTZ ab initio value of 93.6 degrees . For HGeI we obtained r(e) (z)(GeH)=1.589(1) A, r(e) (z)(GeI)=2.525(5) A, and bond angle=93.2 degrees . Franck-Condon simulations of the emission spectra using ab initio Cartesian displacement coordinates reproduce the observed intensity distributions satisfactorily. The trends in structural parameters in the halogermylenes and halosilylenes can be readily understood based on the electronegativity of the halogen substituent.
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Affiliation(s)
- Brandon S Tackett
- Department of Chemistry, University of Kentucky, Lexington, Kentucky 40506-0055, USA
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Szabados Á, Hargittai M. Molecular Structure of Carbene Analogues: A Computational Study. J Phys Chem A 2003. [DOI: 10.1021/jp027466j] [Citation(s) in RCA: 35] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Ágnes Szabados
- Structural Chemistry Research Group of the Hungarian Academy of Sciences, P.O. Box 32, Eötvös University, H-1518 Budapest, Hungary
| | - Magdolna Hargittai
- Structural Chemistry Research Group of the Hungarian Academy of Sciences, P.O. Box 32, Eötvös University, H-1518 Budapest, Hungary
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14
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Affiliation(s)
- M Hargittai
- Structural Chemistry Research Group, Hungarian Academy of Sciences, Eötvös University, Pf. 32, H-1518 Budapest, Hungary
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Escalante S, Vargas R, Vela A. Structure and Energetics of Group 14 (IV-A) Halides: A Comparative Density Functional-Pseudopotential Study. J Phys Chem A 1999. [DOI: 10.1021/jp991172p] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Sigfrido Escalante
- Departamento de Química Inorgánica, Posgrado, Facultad de Química, Universidad Nacional Autónoma de México, México D.F. 04510, Mexico
| | - Rubicelia Vargas
- Departamento de Química, Universidad Autónoma Metropolitana−Iztapalapa, A.P. 55−534, México D.F. 09340, Mexico
| | - Alberto Vela
- Departamento de Química, Centro de Investigación y de Estudios Avanzados del I.P.N., A.P. 14−740, México D.F. 07000, Mexico
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Giricheva NI, Lapshina SB, Girichev GV. Structural, vibrational, and energy characteristics of halide molecules of group II–V elements. J STRUCT CHEM+ 1996. [DOI: 10.1007/bf02437035] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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