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Tyagi R, Zen A, Voora VK. Quantifying the Impact of Halogenation on Intermolecular Interactions and Binding Modes of Aromatic Molecules. J Phys Chem A 2023. [PMID: 37406194 DOI: 10.1021/acs.jpca.3c02291] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/07/2023]
Abstract
Halogenation of aromatic molecules is frequently used to modulate intermolecular interactions with ramifications for optoelectronic and mechanical properties. In this work, we accurately quantify and understand the nature of intermolecular interactions in perhalogenated benzene (PHB) clusters. Using benchmark binding energies from the fixed-node diffusion Monte Carlo (FN-DMC) method, we show that generalized Kohn-Sham semicanonical projected random phase approximation (GKS-spRPA) plus approximate exchange kernel (AKX) provides reliable interaction energies with mean absolute error (MAE) of 0.23 kcal/mol. Using the GKS-spRPA+AXK method, we quantify the interaction energies of several binding modes of PHB clusters ((C6X6)n; X = F, Cl, Br, I; n = 2, 3). For a given binding mode, the interaction energies increase 3-4 times from X = F to X = I; the X-X binding modes have energies in the range of 2-4 kcal/mol, while the π-π binding mode has interaction energies in the range of 4-12 kcal/mol. SAPT-DFT-based energy decomposition analysis is then used to show that the equilibrium geometries are dictated primarily by the dispersion and exchange interactions. Finally, we test the accuracy of several dispersion-corrected density functional approximations and show that only the r2SCAN-D4 method has a low MAE and correct long-range behavior, which makes it suitable for large-scale simulations and for developing structure-function relationships of halogenated aromatic systems.
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Affiliation(s)
- Ritaj Tyagi
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Homi Bhabha Road, Colaba, Mumbai 400005, India
| | - Andrea Zen
- Dipartimento di Fisica Ettore Pancini, Università di Napoli Federico II, Monte S. Angelo, I-80126 Napoli, Italy
| | - Vamsee K Voora
- Department of Chemical Sciences, Tata Institute of Fundamental Research, Homi Bhabha Road, Colaba, Mumbai 400005, India
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2
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Three types of noncovalent interactions studied between pyrazine and XF. J Mol Model 2021; 28:15. [PMID: 34961885 DOI: 10.1007/s00894-021-05012-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2021] [Accepted: 12/15/2021] [Indexed: 10/19/2022]
Abstract
Three types noncovalent interactions (type I, II and III) between pyrazine (C4H4N2) and XF (X = F, Cl, Br, and I) have been discovered at the MP2/aug-cc-pVTZ level. TypeI is σ-hole interaction between the positive site on the halogen X of XF and the negative site on one of the pyrazine nitrogens. Type II is counterintuitive σ-hole interaction driven by polarization between the positive site on the halogen X of XF and a portion of the pyrazine ring. Type III is an interaction between the lateral regions of the halogen X of XF and the position of the pyrazine ring. Through comparing the calculated interaction energy, we can know that the type II and type III interactions are weaker than the corresponding type I interactions, and type III interactions are weaker than the corresponding type II interactions in C4H4N2-XF complexes. SAPT analysis shows that the electrostatic energy are the major source of the attraction for the type I (σ-hole) interactions while the type III interactions are mainly dispersion energy. For the type II (counterintuitive σ-hole) interactions in C4H4N2-XF (X = F and Cl) complexes, electrostatic energy are the major source of the attraction, while in C4H4N2-XF (X = Br and I) complexes, the electrostatic term, induction and dispersion play equally important role in the total attractive interaction. NBO analysis, AIM theory, and conceptual DFT are also being utilized.
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3
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Kanao E, Morinaga T, Kubo T, Naito T, Matsumoto T, Sano T, Maki H, Yan M, Otsuka K. Separation of halogenated benzenes enabled by investigation of halogen-π interactions with carbon materials. Chem Sci 2019; 11:409-418. [PMID: 32190261 PMCID: PMC7067276 DOI: 10.1039/c9sc04906a] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2019] [Accepted: 11/16/2019] [Indexed: 12/16/2022] Open
Abstract
We report the existence of bimodal interactions, the π–π and halogen–π interactions, between the halogenated benzenes and aromatic materials.
The halogen–π (X–π) interaction is an intermolecular interaction between the electron-poor region of bonded halogen atoms and aromatic rings. We report an experimental evaluation of the halogen–π (X–π) interaction using liquid chromatography with carbon-material coated columns providing strong π interactions in the normal phase mode. A C70-fullerene (C70)-coated column showed higher retentions for halogenated benzenes as the number of halogen substitutions increased as a result of X–π interactions. In addition, the strength of the X–π interaction increased in the order of F < Cl < Br < I. Changes to the UV absorption of C70 and the brominated benzenes suggested that the intermolecular interaction changed from the π–π interaction to X–π interaction as the number of bromo substitutions increased. Computer simulations also showed that the difference in dipole moments among structural isomers affected the strength of the π–π interaction. Furthermore, we concluded from small peak shifts in 1H NMR and from computer simulations that the orbital interaction contributes to the X–π interactions. Finally, we succeeded in the one-pot separation of all isomers of brominated benzenes using the C70-coated column by optimizing the mobile phase conditions.
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Affiliation(s)
- Eisuke Kanao
- Graduate School of Engineering , Kyoto University , Katsura, Nishikyo-ku , Kyoto 615-8510 , Japan . ; ; Tel: +81-75-383-2448
| | - Takuya Morinaga
- Graduate School of Engineering , Kyoto University , Katsura, Nishikyo-ku , Kyoto 615-8510 , Japan . ; ; Tel: +81-75-383-2448
| | - Takuya Kubo
- Graduate School of Engineering , Kyoto University , Katsura, Nishikyo-ku , Kyoto 615-8510 , Japan . ; ; Tel: +81-75-383-2448
| | - Toyohiro Naito
- Graduate School of Engineering , Kyoto University , Katsura, Nishikyo-ku , Kyoto 615-8510 , Japan . ; ; Tel: +81-75-383-2448
| | - Takatoshi Matsumoto
- Institute of Multidisciplinary Research for Advanced Materials , Tohoku University , 2-1-1, Katahira, Aoba-ku , Sendai 980-8577 , Japan
| | - Tomoharu Sano
- Center for Environmental Measurement and Analysis , National Institute for Environmental Studies , Onogawa 16-2 , Tsukuba , Ibaraki 305-8506 , Japan
| | - Hideshi Maki
- Center for Environmental Management , Kobe University , 1-1 Rokkodai-cho, Nada-ku , Kobe 657-8501 , Japan.,Department of Chemical Science and Engineering , Graduate School of Engineering , Kobe University , 1-1 Rokkodai-cho , Nada-ku , Kobe 657-8501 , Japan
| | - Mingdi Yan
- Department of Chemistry , University of Massachusetts Lowell , One University Ave. , Lowell , MA 01854 , USA
| | - Koji Otsuka
- Graduate School of Engineering , Kyoto University , Katsura, Nishikyo-ku , Kyoto 615-8510 , Japan . ; ; Tel: +81-75-383-2448
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Stasyuk OA, Sedlak R, Guerra CF, Hobza P. Comparison of the DFT-SAPT and Canonical EDA Schemes for the Energy Decomposition of Various Types of Noncovalent Interactions. J Chem Theory Comput 2018; 14:3440-3450. [PMID: 29926727 DOI: 10.1021/acs.jctc.8b00034] [Citation(s) in RCA: 59] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Interaction energies computed with density functional theory can be divided into physically meaningful components by symmetry-adapted perturbation theory (DFT-SAPT) or the canonical energy decomposition analysis (EDA). In this work, the decomposition results obtained by these schemes were compared for more than 200 hydrogen-, halogen-, and pnicogen-bonded, dispersion-bound, and mixed complexes to investigate their similarity in the evaluation of the nature of noncovalent interactions. BLYP functional with D3(BJ) correction was used for the EDA scheme, whereas asymptotically corrected PBE0 functional for DFT-SAPT provided some of the best combinations for description of noncovalent interactions. Both schemes provide similar results concerning total interaction energies and insight into the individual energy components. For most complexes, the dominant energetic term was identified equally by both decomposition schemes. Because the canonical EDA is computationally less demanding than the DFT-SAPT, the former can be especially used in cases where the systems investigated are very large.
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Affiliation(s)
- Olga A Stasyuk
- Institute of Organic Chemistry and Biochemistry , Academy of Sciences of the Czech Republic , 166 10 Prague 6, Czech Republic
| | - Robert Sedlak
- Institute of Organic Chemistry and Biochemistry , Academy of Sciences of the Czech Republic , 166 10 Prague 6, Czech Republic.,Regional Centre of Advanced Technologies and Materials, Department of Physical Chemistry , Palacký University , 771 46 Olomouc , Czech Republic
| | - Célia Fonseca Guerra
- Department of Theoretical Chemistry and Amsterdam Center for Multiscale Modeling , VU Amsterdam , De Boelelaan 1083 , 1081 HV Amsterdam , The Netherlands.,Leiden Institute of Chemistry, Gorlaeus Laboratories , Leiden University , P.O. Box 9502, 2300 RA Leiden , The Netherlands
| | - Pavel Hobza
- Institute of Organic Chemistry and Biochemistry , Academy of Sciences of the Czech Republic , 166 10 Prague 6, Czech Republic.,Regional Centre of Advanced Technologies and Materials, Department of Physical Chemistry , Palacký University , 771 46 Olomouc , Czech Republic
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Galván JE, Defonsi Lestard ME, Piro OE, Echeverria G, Molina RDI, Arena ME, Ulic SE, Tuttolomondo ME, Ben Altabef A. Synthesis, characterization and crystal structure of 2-chloroethyl(methylsulfonyl)methanesulfonate. NEW J CHEM 2018. [DOI: 10.1039/c7nj05138g] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
This is a study of structure – reactivity relationship of clomesone.
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Affiliation(s)
- J. E. Galván
- INQUINOA-CONICET
- Instituto de Química Física
- Facultad de Bioquímica
- Química y Farmacia
- Universidad Nacional de Tucumán
| | - M. E. Defonsi Lestard
- INQUINOA-CONICET
- Instituto de Química Física
- Facultad de Bioquímica
- Química y Farmacia
- Universidad Nacional de Tucumán
| | - O. E. Piro
- Departamento de Física
- Facultad de Ciencias Exactas
- Universidad Nacional de La Plata and Institute IFLP (CONICET, CCT-La Plata)
- 1900 La Plata
- Argentina
| | - G. Echeverria
- Departamento de Física
- Facultad de Ciencias Exactas
- Universidad Nacional de La Plata and Institute IFLP (CONICET, CCT-La Plata)
- 1900 La Plata
- Argentina
| | - R. D. I. Molina
- INBIOFAL-CONICET (Instituto de Biotecnología Farmacéutica y Alimentaria)
- Universidad Nacional de Tucumán
- Argentina
| | - M. E. Arena
- INBIOFAL-CONICET (Instituto de Biotecnología Farmacéutica y Alimentaria)
- Universidad Nacional de Tucumán
- Argentina
| | - S. E. Ulic
- CEQUINOR (CONICET-UNLP)
- Facultad de Ciencias Exactas
- Universidad Nacional de La Plata
- 1900 La Plata
- Argentina
| | - M. E. Tuttolomondo
- INQUINOA-CONICET
- Instituto de Química Física
- Facultad de Bioquímica
- Química y Farmacia
- Universidad Nacional de Tucumán
| | - A. Ben Altabef
- INQUINOA-CONICET
- Instituto de Química Física
- Facultad de Bioquímica
- Química y Farmacia
- Universidad Nacional de Tucumán
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Han Z, Czap G, Chiang CL, Xu C, Wagner PJ, Wei X, Zhang Y, Wu R, Ho W. Imaging the halogen bond in self-assembled halogenbenzenes on silver. Science 2017; 358:206-210. [DOI: 10.1126/science.aai8625] [Citation(s) in RCA: 118] [Impact Index Per Article: 16.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2016] [Revised: 06/07/2017] [Accepted: 08/29/2017] [Indexed: 12/29/2022]
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Affiliation(s)
- Michal H. Kolář
- Institute
of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Flemingovo nám. 2, 16610 Prague, Czech Republic
- Institute
of Neuroscience and Medicine (INM-9) and Institute for Advanced Simulations
(IAS-5), Forschungszentrum Jülich GmbH, 52428 Jülich, Federal Republic of Germany
| | - Pavel Hobza
- Institute
of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Flemingovo nám. 2, 16610 Prague, Czech Republic
- Department
of Physical Chemistry, Regional Centre of Advanced Technologies and
Materials, Palacky University, 771 46 Olomouc, Czech Republic
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8
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Landeros-Rivera B, Moreno-Esparza R, Hernández-Trujillo J. Theoretical study of intermolecular interactions in crystalline arene–perhaloarene adducts in terms of the electron density. RSC Adv 2016. [DOI: 10.1039/c6ra14957j] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The intermolecular interactions in C6X6–arene crystals (X = F, Cl) and the halogen substitution effect can be quantified by the electron density.
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9
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Wang W, Zhang Y, Wang YB. Noncovalent π⋅⋅⋅π interaction between graphene and aromatic molecule: structure, energy, and nature. J Chem Phys 2014; 140:094302. [PMID: 24606356 DOI: 10.1063/1.4867071] [Citation(s) in RCA: 73] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023] Open
Abstract
Noncovalent π⋅⋅⋅π interactions between graphene and aromatic molecules have been studied by using density functional theory with empirical dispersion correction (ωB97X-D) combined with zeroth-order symmetry adapted perturbation theory (SAPT0). Excellent agreement of the interaction energies computed by means of ωB97X-D and spin component scaled (SCS) SAPT0 methods, respectively, shows great promise for the two methods in the study of the adsorption of aromatic molecules on graphene. The other important finding in this study is that, according to SCS-SAPT0 analyses, π⋅⋅⋅π interactions between graphene and aromatic molecules are largely dependent on both dispersion and electrostatic type interactions. It is also noticed that π⋅⋅⋅π interactions become stronger and more dispersive (less electrostatic) upon substitution of the very electronegative fluorine atoms onto the aromatic molecules.
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Affiliation(s)
- Weizhou Wang
- College of Chemistry and Chemical Engineering, Luoyang Normal University, Luoyang 471022, China
| | - Yu Zhang
- College of Chemistry and Chemical Engineering, Luoyang Normal University, Luoyang 471022, China
| | - Yi-Bo Wang
- Department of Chemistry and Key Laboratory of Guizhou High Performance Computational Chemistry, Guizhou University, Guiyang 550025, China
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10
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Sancho-García JC, Pérez-Jiménez AJ. Theoretical study of stability and charge-transport properties of coronene molecule and some of its halogenated derivatives: A path to ambipolar organic-based materials? J Chem Phys 2014; 141:134708. [DOI: 10.1063/1.4897205] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- J. C. Sancho-García
- Departamento de Química Física, Universidad de Alicante, E-03080 Alicante, Spain
| | - A. J. Pérez-Jiménez
- Departamento de Química Física, Universidad de Alicante, E-03080 Alicante, Spain
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11
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Tang Q, Bao J, Li Y, Zhou Z, Chen Z. Tuning band gaps of BN nanosheets and nanoribbons via interfacial dihalogen bonding and external electric field. NANOSCALE 2014; 6:8624-8634. [PMID: 24824079 DOI: 10.1039/c4nr00008k] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Density functional theory computations with dispersion corrections (DFT-D) were performed to investigate the dihalogen interactions and their effect on the electronic band structures of halogenated (fluorinated and chlorinated) BN bilayers and aligned halogen-passivated zigzag BN nanoribbons (BNNRs). Our results reveal the presence of considerable homo-halogen (FF and ClCl) interactions in bilayer fluoro (chloro)-BN sheets and the aligned F (Cl)-ZBNNRs, as well as substantial hetero-halogen (FCl) interactions in hybrid fluoro-BN/chloro-BN bilayer and F-Cl-ZBNNRs. The existence of interfacial dihalogen interactions leads to significant band-gap modifications for the studied BN nanosystems. Compared with the individual fluoro (chloro)-BN monolayers or pristine BNNRs, the gap reduction in bilayer fluoro-BN (B-FF-N array), hybrid fluoro-BN/chloro-BN bilayer (N-FCl-N array), aligned Cl-ZBNNRs (B-ClCl-N alignment), and hybrid F-Cl-ZBNNRs (B-FCl-N alignment) is mainly due to interfacial polarizations, while the gap narrowing in bilayer chloro-BN (N-ClCl-N array) is ascribed to the interfacial nearly-free-electron states. Moreover, the binding strengths and electronic properties of the interactive BN nanosheets and nanoribbons can be controlled by applying an external electric field, and extensive modulation from large-gap to medium-gap semiconductors, or even metals can be realized by adjusting the direction and strength of the applied electric field. This interesting strategy for band gap control based on weak interactions offers unique opportunities for developing BN nanoscale electronic devices.
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Affiliation(s)
- Qing Tang
- Tianjin Key Laboratory of Metal and Molecule Based Material Chemistry, Key Laboratory of Advanced Energy Materials Chemistry (Ministry of Education), Computational Centre for Molecular Science, Institute of New Energy Material Chemistry, Collaborative Innovation Center of Chemical Science and Engineering (Tianjin), Nankai University, Tianjin 300071, PR China.
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12
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Tewari AK, Srivastava P, Singh VP, Singh P, Kumar R, Khanna RS, Srivastava P, Gnanasekaran R, Hobza P. Selective induced polarization through electron transfer in acetone and pyrazole ester derivatives via C–H⋯OC interaction. NEW J CHEM 2014. [DOI: 10.1039/c4nj00679h] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A set of organic compounds (pyrazole ester derivatives,viz.5-[3-(substituted)-propoxy]-3-methyl-1-phenyl-1H-pyrazole-4-carboxylic acid methyl ester and 5-[2-(substituted)-ethoxy]-3-methyl-1-phenyl-1H-pyrazole-4-carboxylic acid methyl ester) was synthesized and their affinity and stability towards the acetone molecule were tested by NMR.
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Affiliation(s)
- Ashish Kumar Tewari
- Department of Chemistry
- Faculty of Science
- Banaras Hindu University
- Varanasi-221 005, India
| | - Priyanka Srivastava
- Department of Chemistry
- Faculty of Science
- Banaras Hindu University
- Varanasi-221 005, India
| | - Ved P. Singh
- Department of Chemistry
- Faculty of Science
- Banaras Hindu University
- Varanasi-221 005, India
| | - Praveen Singh
- Department of Chemistry
- Faculty of Science
- Banaras Hindu University
- Varanasi-221 005, India
| | - Ranjeet Kumar
- Department of Chemistry
- Faculty of Science
- Banaras Hindu University
- Varanasi-221 005, India
| | - Ranjana S. Khanna
- Department of Chemistry
- Faculty of Science
- Banaras Hindu University
- Varanasi-221 005, India
| | - Pankaj Srivastava
- Department of Chemistry
- Faculty of Science
- Banaras Hindu University
- Varanasi-221 005, India
| | - Ramachandran Gnanasekaran
- Institute of Organic Chemistry and Biochemistry
- Academy of Sciences of the Czech Republic
- 16610 Prague, Czech Republic
| | - Pavel Hobza
- Institute of Organic Chemistry and Biochemistry
- Academy of Sciences of the Czech Republic
- 16610 Prague, Czech Republic
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13
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Kolář M, Hostaš J, Hobza P. The strength and directionality of a halogen bond are co-determined by the magnitude and size of the σ-hole. Phys Chem Chem Phys 2014; 16:9987-96. [DOI: 10.1039/c3cp55188a] [Citation(s) in RCA: 114] [Impact Index Per Article: 11.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
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Vener MV, Shishkina AV, Rykounov AA, Tsirelson VG. Cl···Cl interactions in molecular crystals: insights from the theoretical charge density analysis. J Phys Chem A 2013; 117:8459-67. [PMID: 23924151 DOI: 10.1021/jp405119x] [Citation(s) in RCA: 54] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Abstract
The structure, IR harmonic frequencies and intensities of normal vibrations of 20 molecular crystals with the X-Cl···Cl-X contacts of different types, where X = C, Cl, and F and the Cl···Cl distance varying from ~3.0 to ~4.0 Å, are computed using the solid-state DFT method. The obtained crystalline wave functions have been further used to define and describe quantitatively the Cl···Cl interactions via the electron-density features at the Cl···Cl bond critical points. We found that the electron-density at the bond critical point is almost independent of the particular type of the contact or hybridization of the ipso carbon atom. The energy of Cl···Cl interactions, E(int), is evaluated from the linking E(int) and local electronic kinetic energy density at the Cl···Cl bond critical points. E(int) varies from 2 to 12 kJ/mol. The applicability of the geometrical criterion for the detection of the Cl···Cl interactions in crystals with two or more intermolecular Cl···Cl contacts for the unique chlorine atom is not straightforward. The detection of these interactions in such crystals may be done by the quantum-topological analysis of the periodic electron density.
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Affiliation(s)
- Mikhail V Vener
- Department of Quantum Chemistry, Mendeleev University of Chemical Technology, Miusskaya Square 9, 125047 Moscow, Russia.
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