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Pietruś W, Kurczab R, Kafel R, Machalska E, Kalinowska-Tłuścik J, Hogendorf A, Żylewski M, Baranska M, Bojarski AJ. How can fluorine directly and indirectly affect the hydrogen bonding in molecular systems? - A case study for monofluoroanilines. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2021; 252:119536. [PMID: 33588362 DOI: 10.1016/j.saa.2021.119536] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/20/2020] [Revised: 01/06/2021] [Accepted: 01/24/2021] [Indexed: 06/12/2023]
Abstract
Hydrogen bonds (HBs) directly engaging fluorine has been extensively studied, but the indirect effect of fluorine on adjacent donors and acceptors is poorly understood and still difficult to predict. The indirect and direct effect of the fluorination of aniline on HB patterns observed in monofluoroanilines was studied via experimental (vibrational spectroscopy and crystal structure analysis) and theoretical (ab initio molecular dynamics and electrostatic surface potential) methods. It was found that a fluorine substituent decreases the strength and frequency of N-H⋯N HBs and, at the same time, increases the acidity of CH protons, enhancing the competitiveness of weaker interactions. Additionally, the position of fluorine in the aromatic ring strongly affects the C-F bond length, and a direct intramolecular N-H⋯F HB causes an increase in the N-H bond stability. We also provide a methodology to identify and separate individual HBs concerning the type of donor or acceptor from the ab initio molecular dynamics trajectories.
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Affiliation(s)
- Wojciech Pietruś
- Department of Medicinal Chemistry, Maj Institute of Pharmacology, Polish Academy of Sciences, Smetna 12, 31-343 Kraków, Poland; Faculty of Chemistry Jagiellonian University, Gronostajowa 2, 30-387 Kraków, Poland
| | - Rafał Kurczab
- Department of Medicinal Chemistry, Maj Institute of Pharmacology, Polish Academy of Sciences, Smetna 12, 31-343 Kraków, Poland; Faculty of Mathematical and Natural Sciences, University of Applied Sciences in Tarnów, Mickiewicza 8, 33-100 Tarnów, Poland.
| | - Rafał Kafel
- Department of Medicinal Chemistry, Maj Institute of Pharmacology, Polish Academy of Sciences, Smetna 12, 31-343 Kraków, Poland
| | - Ewa Machalska
- Faculty of Chemistry Jagiellonian University, Gronostajowa 2, 30-387 Kraków, Poland; Jagiellonian Centre for Experimental Therapeutic (JCET), Jagiellonian University, Bobrzynskiego 14, 30-348 Kraków, Poland
| | | | - Adam Hogendorf
- Department of Medicinal Chemistry, Maj Institute of Pharmacology, Polish Academy of Sciences, Smetna 12, 31-343 Kraków, Poland
| | - Marek Żylewski
- Jagiellonian Center of Innovation, Life Science Park, Bobrzyńskiego 14, 30-348 Kraków, Poland
| | - Malgorzata Baranska
- Faculty of Chemistry Jagiellonian University, Gronostajowa 2, 30-387 Kraków, Poland; Jagiellonian Centre for Experimental Therapeutic (JCET), Jagiellonian University, Bobrzynskiego 14, 30-348 Kraków, Poland
| | - Andrzej J Bojarski
- Department of Medicinal Chemistry, Maj Institute of Pharmacology, Polish Academy of Sciences, Smetna 12, 31-343 Kraków, Poland
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Al-Otaibi JS, Mary YS, Mary YS, Kaya S, Serdaroglu G. DFT computational study of trihalogenated aniline derivative's adsorption onto graphene/fullerene/fullerene-like nanocages, X 12Y 12 (X = Al, B, and Y = N, P). J Biomol Struct Dyn 2021; 40:8630-8643. [PMID: 33876711 DOI: 10.1080/07391102.2021.1914172] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Adsorption of 2,4,6-tribromoaniline (BA), 2,4,6-trifluoroaniline (FA) and 2,4,6-trichloroaniline (CA) onto the surface of coronene/fullerene/fullerene-like nanocages was investigated by theoretical calculations. Due to the adsorption of BA/FA/CA, there are significant changes in chemical descriptors and nonlinear optical properties. Energy gap values of all nanoclusters are lowered, giving an increase in conductivity of complexes except for fullerene. All complex's ultraviolet visible wavenumber is blue-shifted and especially for fullerene complex, the values are very high. The enhancement of Raman intensities shows that it is possible to design a nanocage sensor for detecting these compounds by surface-enhanced Raman scattering (SERS).Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Jamelah S Al-Otaibi
- Department of Chemistry, College of Science, Princess Nourah bint Abdulrahman University, Saudi Arabia
| | | | | | - Savaş Kaya
- Health Services Vocational School, Department of Pharmacy, Sivas Cumhuriyet University, Sivas, Turkey
| | - Goncagül Serdaroglu
- Faculty of Education, Math. and Sci. Edu, Sivas Cumhuriyet University, Sivas, Turkey
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Solomonov BN, Yagofarov MI. An approach for the calculation of vaporization enthalpies of aromatic and heteroaromatic compounds at 298.15 K applicable to supercooled liquids. J Mol Liq 2020. [DOI: 10.1016/j.molliq.2020.114330] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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Paulechka E, Kazakov A. Critical evaluation of the enthalpies of formation for fluorinated compounds using experimental data and high-level ab initio calculations. JOURNAL OF CHEMICAL AND ENGINEERING DATA 2019; 64:10.1021/acs.jced.9b00386. [PMID: 33364634 PMCID: PMC7754204 DOI: 10.1021/acs.jced.9b00386] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
The ab initio method for prediction of the enthalpies of formation for CHON-containing organic compounds proposed earlier (J. Chem. Theory Comput. 2018, 14, 5920-5932) has been extended to their fluorinated derivatives. A single experimental Δf H o m is typically available for compounds in this scope. Thus, a priori evaluation of the data quality was found to be inefficient despite all available experimental data for C1─C3 hydrofluorocarbons and 34 data points for medium-size organofluorine compounds being considered. The training set was derived by analyzing consistency of the experimental and predicted values and removal of outliers. Significant issues in the experimental data, including inconsistency across different laboratories, were identified and potential causes for these problems were discussed. A conservative estimate of uncertainty for the experimental Δf H o m of organofluorine compounds was proposed.
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Affiliation(s)
- Eugene Paulechka
- Thermodynamics Research Center, Applied Chemicals and Materials Division, National Institute of Standards and Technology, 325 Broadway, Boulder, CO 80305-3337
| | - Andrei Kazakov
- Thermodynamics Research Center, Applied Chemicals and Materials Division, National Institute of Standards and Technology, 325 Broadway, Boulder, CO 80305-3337
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Alantary D, Yalkowsky SH. Estimating the Physicochemical Properties of Polysubstituted Aromatic Compounds Using UPPER. J Pharm Sci 2018; 107:297-306. [DOI: 10.1016/j.xphs.2017.10.018] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2017] [Revised: 10/12/2017] [Accepted: 10/13/2017] [Indexed: 12/01/2022]
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Ribeiro da Silva MAV, Cabral JITA, Gomes JRB. Experimental and Computational Study on the Molecular Energetics of Indoline and Indole. J Phys Chem A 2008; 112:12263-9. [DOI: 10.1021/jp8065212] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Manuel A. V. Ribeiro da Silva
- Centro de Investigação em Química, Department of Chemistry, Faculty of Science, University of Porto, Rua do Campo Alegre, 687, P-4169-007 Porto, Portugal
- CICECO, Department of Chemistry, University of Aveiro, Campus Universitário de Santiago, P-3810-193 Aveiro, Portugal
| | - Joana I. T. A. Cabral
- Centro de Investigação em Química, Department of Chemistry, Faculty of Science, University of Porto, Rua do Campo Alegre, 687, P-4169-007 Porto, Portugal
- CICECO, Department of Chemistry, University of Aveiro, Campus Universitário de Santiago, P-3810-193 Aveiro, Portugal
| | - José R. B. Gomes
- Centro de Investigação em Química, Department of Chemistry, Faculty of Science, University of Porto, Rua do Campo Alegre, 687, P-4169-007 Porto, Portugal
- CICECO, Department of Chemistry, University of Aveiro, Campus Universitário de Santiago, P-3810-193 Aveiro, Portugal
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