1
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Amonov A, Scheiner S. Halogen Bonding to the π-Systems of Polycyclic Aromatics. Chemphyschem 2024:e202400482. [PMID: 38923736 DOI: 10.1002/cphc.202400482] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2024] [Revised: 06/06/2024] [Accepted: 06/26/2024] [Indexed: 06/28/2024]
Abstract
The propensity of the π-electron system lying above a polycyclic aromatic system to engage in a halogen bond is examined by DFT calculations. Prototype Lewis acid CF3I is placed above the planes of benzene, naphthalene, anthracene, phenanthrene, naphthacene, chrysene, triphenyl, pyrene, and coronene. The I atom positions itself some 3.3-3.4 Å above the polycyclic plane, and the associated interaction energy is about 4 kcal/mol. This quantity is a little smaller for benzene, but is roughly equal for the larger polycyclics. The energy only oscillates a little as the Lewis acid slides across the face of the polycyclic, preferring regions of higher π-electron density over minima of the electrostatic potential. The binding is dominated by dispersion which contributes half of the total interaction energy.
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Affiliation(s)
- Akhtam Amonov
- Department of Optics and Spectroscopy, Institute of Engineering Physics Samarkand State University, University blv. 15, 140104, Samarkand, Uzbekistan
| | - Steve Scheiner
- Department of Chemistry and Biochemistry, Utah State University, Logan, Utah, 84322-0300, USA
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2
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Krishnamoorthy A, Nomura KI, Baradwaj N, Shimamura K, Ma R, Fukushima S, Shimojo F, Kalia RK, Nakano A, Vashishta P. Hydrogen Bonding in Liquid Ammonia. J Phys Chem Lett 2022; 13:7051-7057. [PMID: 35900140 PMCID: PMC9358710 DOI: 10.1021/acs.jpclett.2c01608] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2022] [Accepted: 07/08/2022] [Indexed: 06/15/2023]
Abstract
The nature of hydrogen bonding in condensed ammonia phases, liquid and crystalline ammonia has been a topic of much investigation. Here, we use quantum molecular dynamics simulations to investigate hydrogen bond structure and lifetimes in two ammonia phases: liquid ammonia and crystalline ammonia-I. Unlike liquid water, which has two covalently bonded hydrogen and two hydrogen bonds per oxygen atom, each nitrogen atom in liquid ammonia is found to have only one hydrogen bond at 2.24 Å. The computed lifetime of the hydrogen bond is t ≅ 0.1 ps. In contrast to crystalline water-ice, we find that hydrogen bonding is practically nonexistent in crystalline ammonia-I.
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Affiliation(s)
- Aravind Krishnamoorthy
- Collaboratory for Advanced Computing and Simulations, Department of Chemical Engineering and Materials Science, Department of Physics & Astronomy, and Department of Computer Science, University of Southern California, Los Angeles, California 90089, United States
| | - Ken-Ichi Nomura
- Collaboratory for Advanced Computing and Simulations, Department of Chemical Engineering and Materials Science, Department of Physics & Astronomy, and Department of Computer Science, University of Southern California, Los Angeles, California 90089, United States
| | - Nitish Baradwaj
- Collaboratory for Advanced Computing and Simulations, Department of Chemical Engineering and Materials Science, Department of Physics & Astronomy, and Department of Computer Science, University of Southern California, Los Angeles, California 90089, United States
| | - Kohei Shimamura
- Department of Physics, Kumamoto University, Kumamoto 860-8555, Japan
| | - Ruru Ma
- Collaboratory for Advanced Computing and Simulations, Department of Chemical Engineering and Materials Science, Department of Physics & Astronomy, and Department of Computer Science, University of Southern California, Los Angeles, California 90089, United States
| | - Shogo Fukushima
- Department of Physics, Kumamoto University, Kumamoto 860-8555, Japan
| | - Fuyuki Shimojo
- Department of Physics, Kumamoto University, Kumamoto 860-8555, Japan
| | - Rajiv K Kalia
- Collaboratory for Advanced Computing and Simulations, Department of Chemical Engineering and Materials Science, Department of Physics & Astronomy, and Department of Computer Science, University of Southern California, Los Angeles, California 90089, United States
| | - Aiichiro Nakano
- Collaboratory for Advanced Computing and Simulations, Department of Chemical Engineering and Materials Science, Department of Physics & Astronomy, and Department of Computer Science, University of Southern California, Los Angeles, California 90089, United States
| | - Priya Vashishta
- Collaboratory for Advanced Computing and Simulations, Department of Chemical Engineering and Materials Science, Department of Physics & Astronomy, and Department of Computer Science, University of Southern California, Los Angeles, California 90089, United States
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3
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Abstract
The fundamental underpinnings of noncovalent bonds are presented, focusing on the σ-hole interactions that are closely related to the H-bond. Different means of assessing their strength and the factors that control it are discussed. The establishment of a noncovalent bond is monitored as the two subunits are brought together, allowing the electrostatic, charge redistribution, and other effects to slowly take hold. Methods are discussed that permit prediction as to which site an approaching nucleophile will be drawn, and the maximum number of bonds around a central atom in its normal or hypervalent states is assessed. The manner in which a pair of anions can be held together despite an overall Coulombic repulsion is explained. The possibility that first-row atoms can participate in such bonds is discussed, along with the introduction of a tetrel analog of the dihydrogen bond.
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Affiliation(s)
- Steve Scheiner
- Department of Chemistry and Biochemistry, Utah State University, Logan, Utah 84322-0300, USA
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4
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Grabarz A, Michalczyk M, Zierkiewicz W, Scheiner S. Noncovalent Bonds between Tetrel Atoms. Chemphyschem 2020; 21:1934-1944. [DOI: 10.1002/cphc.202000444] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2020] [Revised: 07/07/2020] [Indexed: 12/14/2022]
Affiliation(s)
- Anna Grabarz
- Faculty of Chemistry Wrocław University of Science and Technology Wybrzeże Wyspiańskiego 27 50-370 Wrocław Poland
| | - Mariusz Michalczyk
- Faculty of Chemistry Wrocław University of Science and Technology Wybrzeże Wyspiańskiego 27 50-370 Wrocław Poland
| | - Wiktor Zierkiewicz
- Faculty of Chemistry Wrocław University of Science and Technology Wybrzeże Wyspiańskiego 27 50-370 Wrocław Poland
| | - Steve Scheiner
- Department of Chemistry and Biochemistry Utah State University Logan Utah 84322-0300 United States
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5
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Zhou Y, Yamaguchi T, Ikeda K, Yoshida K, Otomo T, Fang C, Zhang W, Zhu F. Dihydrogen Bonds in Aqueous NaBD 4 Solution by Neutron and X-ray Diffraction. J Phys Chem Lett 2020; 11:1622-1628. [PMID: 32053379 DOI: 10.1021/acs.jpclett.9b03183] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Neutron diffraction, X-ray diffraction, and empirical potential structure refinement modeling were employed to study the structure of alkaline aqueous NaBD4 solutions at different NaBD4 concentrations and temperatures. In 1.0 mol·dm-3 NaBD4 aqueous solutions, about 5.6 ± 1.6 water molecules bond to BD4- via tetrahedral edges or tetrahedral corners without a very specific hydration geometry; that is, each hydrogen atom of BD4- bonds to 2.2 ± 1.0 water molecules through dihydrogen bonds with the D(B)···D(W) distance of 1.95 Å. The number of dihydrogen bonds decreases with increasing concentration and increases with temperature. Dihydrogen bonding is a predominantly electrostatic interaction which shows relatively lower directionality and saturability in comparison with the regular hydrogen bonds between water molecules. The water orientation around BD4- shows that the proportion of tetrahedral-edge dihydrogen bonds increases with temperature and decreases with concentration.
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Affiliation(s)
- Yongquan Zhou
- Key Laboratory of Comprehensive and Highly Efficient Utilization of Salt Lake Resources, Qinghai Institute of Salt Lakes, Chinese Academy of Sciences, Xining 810008, China
- Key Laboratory of Salt Lake Resources Chemistry of Qinghai Province, Xining 810008, China
| | - Toshio Yamaguchi
- Department of Chemistry, Faculty of Science, Fukuoka University, 8-19-1 Nanakuma, Jonan, Fukuoka 814-0180, Japan
| | - Kazutaka Ikeda
- High Energy Accelerator Research Organization (KEK), Tsukuba, Ibaraki 305-0801, Japan
| | - Koji Yoshida
- Department of Chemistry, Faculty of Science, Fukuoka University, 8-19-1 Nanakuma, Jonan, Fukuoka 814-0180, Japan
| | - Toshiya Otomo
- High Energy Accelerator Research Organization (KEK), Tsukuba, Ibaraki 305-0801, Japan
| | - Chunhui Fang
- Key Laboratory of Comprehensive and Highly Efficient Utilization of Salt Lake Resources, Qinghai Institute of Salt Lakes, Chinese Academy of Sciences, Xining 810008, China
- Key Laboratory of Salt Lake Resources Chemistry of Qinghai Province, Xining 810008, China
| | - Wenqian Zhang
- Key Laboratory of Comprehensive and Highly Efficient Utilization of Salt Lake Resources, Qinghai Institute of Salt Lakes, Chinese Academy of Sciences, Xining 810008, China
- Key Laboratory of Salt Lake Resources Chemistry of Qinghai Province, Xining 810008, China
| | - Fayan Zhu
- Key Laboratory of Comprehensive and Highly Efficient Utilization of Salt Lake Resources, Qinghai Institute of Salt Lakes, Chinese Academy of Sciences, Xining 810008, China
- Key Laboratory of Salt Lake Resources Chemistry of Qinghai Province, Xining 810008, China
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6
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Scheiner S. The ditetrel bond: noncovalent bond between neutral tetrel atoms. Phys Chem Chem Phys 2020; 22:16606-16614. [DOI: 10.1039/d0cp03068f] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
The ability of a tetrel atom to serve in the capacity of electron donor in a σ-hole noncovalent bond is tested by quantum calculations.
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Affiliation(s)
- Steve Scheiner
- Department of Chemistry and Biochemistry
- Utah State University Logan
- Logan
- USA
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7
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Duraisamy PD, Gopalan P, Angamuthu A. Molecular structure, FT-IR and NMR analyses of dihydrogen-bonded B3N3H6···HM complexes: a DFT and MP2 approach. CHEMICAL PAPERS 2019. [DOI: 10.1007/s11696-019-01011-5] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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8
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Honacker C, Kappelt B, Jabłoński M, Hepp A, Layh M, Rogel F, Uhl W. Aluminium Functionalized Germanes: Intramolecular Activation of Ge–H Bonds, Formation of a Dihydrogen Bond and Facile Hydrogermylation of Unsaturated Substrates. Eur J Inorg Chem 2019. [DOI: 10.1002/ejic.201900543] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Christian Honacker
- Institut für Anorganische und Analytische Chemie Universität Münster Corrensstraße 30 48149 Münster Germany
| | - Benedikt Kappelt
- Institut für Anorganische und Analytische Chemie Universität Münster Corrensstraße 30 48149 Münster Germany
| | - Mirosław Jabłoński
- Department of Quantum Chemistry Faculty of Chemistry Nicolaus Copernicus University in Toruń 7, Gagarina St. 87‐100 Toruń Poland
| | - Alexander Hepp
- Institut für Anorganische und Analytische Chemie Universität Münster Corrensstraße 30 48149 Münster Germany
| | - Marcus Layh
- Institut für Anorganische und Analytische Chemie Universität Münster Corrensstraße 30 48149 Münster Germany
| | - Friedhelm Rogel
- Institut für Anorganische und Analytische Chemie Universität Münster Corrensstraße 30 48149 Münster Germany
| | - Werner Uhl
- Institut für Anorganische und Analytische Chemie Universität Münster Corrensstraße 30 48149 Münster Germany
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9
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Abstract
A catalytic transfer-hydrogenation utilizing a well-defined Bi(I) complex as catalyst and ammonia-borane as transfer agent has been developed. This transformation represents a unique example of low-valent pnictogen catalysis cycling between oxidation states I and III, and proved useful for the hydrogenation of azoarenes and the partial reduction of nitroarenes. Interestingly, the bismuthinidene catalyst performs well in the presence of low-valent transition-metal sensitive functional groups and presents orthogonal reactivity compared to analogous phosphorus-based catalysis. Mechanistic investigations suggest the intermediacy of an elusive bismuthine species, which is proposed to be responsible for the hydrogenation and the formation of hydrogen.
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Affiliation(s)
- Feng Wang
- Max-Planck-Institut für Kohlenforschung , Kaiser-Wilhelm-Platz 1 , Mülheim an der Ruhr , 45470 , Germany
| | - Oriol Planas
- Max-Planck-Institut für Kohlenforschung , Kaiser-Wilhelm-Platz 1 , Mülheim an der Ruhr , 45470 , Germany
| | - Josep Cornella
- Max-Planck-Institut für Kohlenforschung , Kaiser-Wilhelm-Platz 1 , Mülheim an der Ruhr , 45470 , Germany
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10
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Shelyganov PA, Virovets A, Peresypkina E, Scheer M, Timoshkin AY. Tetraglymes as Prochiral Host Reagents for Ammonia Borane. Z Anorg Allg Chem 2019. [DOI: 10.1002/zaac.201800333] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Pavel A. Shelyganov
- Institute of Chemistry; Saint Petersburg State University; Universitetskaya nab. 7/9 199034 St. Petersburg Russia
| | - Alexander Virovets
- Nikolaev Institute of Inorganic Chemistry; Siberian Division of RAS; Acad. Lavrentyev prosp. 3 630090 Novosibirsk Russia
- Department of Natural Sciences; Novosibirsk State University; Ul. Pirogova, 2 630090 Novosibirsk Russia
| | - Eugenia Peresypkina
- Nikolaev Institute of Inorganic Chemistry; Siberian Division of RAS; Acad. Lavrentyev prosp. 3 630090 Novosibirsk Russia
- Department of Natural Sciences; Novosibirsk State University; Ul. Pirogova, 2 630090 Novosibirsk Russia
| | - Manfred Scheer
- Institut für Anorganische Chemie; Universität Regensburg; Universitätsstr. 31 93049 Regensburg Germany
| | - Alexey Y. Timoshkin
- Institute of Chemistry; Saint Petersburg State University; Universitetskaya nab. 7/9 199034 St. Petersburg Russia
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11
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Basma NS, Headen TF, Shaffer MSP, Skipper NT, Howard CA. Local Structure and Polar Order in Liquid N-Methyl-2-pyrrolidone (NMP). J Phys Chem B 2018; 122:8963-8971. [DOI: 10.1021/acs.jpcb.8b08020] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
Affiliation(s)
- Nadir S. Basma
- Department of Chemistry, Imperial College London, South Kensington, London SW7 2AZ, U.K
- Department of Physics and Astronomy, University College London, London WC1E 6BT, U.K
| | - Thomas F. Headen
- ISIS Neutron and Muon Source, Rutherford Appleton Laboratory, Harwell Campus, Didcot OX11 0QX, Oxfordshire, U.K
| | - Milo S. P. Shaffer
- Department of Chemistry, Imperial College London, South Kensington, London SW7 2AZ, U.K
| | - Neal T. Skipper
- Department of Physics and Astronomy, University College London, London WC1E 6BT, U.K
| | - Christopher A. Howard
- Department of Physics and Astronomy, University College London, London WC1E 6BT, U.K
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