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Grabowski SJ. Hydrogen bond types which do not fit accepted definitions. Chem Commun (Camb) 2024; 60:6239-6255. [PMID: 38828514 DOI: 10.1039/d4cc01769b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/05/2024]
Abstract
There are various interactions that either partially fit or do not fit the currently accepted definitions of the hydrogen bond. However, they possess characteristics of this interaction. It seems that it is partly connected to the fact that these definitions are not precise. The typical 3c-4e (three centres - four electrons) A-H⋯B hydrogen bond is characterized by the single-atom A and B centres that are highly electronegative. On the other hand, non-typical interactions that do not fit the hydrogen bond definitions well are characterised by uncommon proton donors and/or proton acceptors. The cases of multi-centre proton acceptors, π-electron or σ-electron systems are well known - such interactions are designated as A-H⋯π and A-H⋯σ hydrogen bonds, respectively. However, the cases of interactions with the multi-centre proton donors and proton acceptors do not fit the majority of definitions of hydrogen bond. The π⋯H+⋯π system in the proton-bound homodimer of acetylene is an example. This system can be classified as a hydrogen bond according to the two-sites hydrogen bond, 2sHB, definition. There are various types of interactions discussed in this review; among them, those that are undoubtedly unclassified as hydrogen bonds, i.e., hydride bonds, and charge inverted hydrogen bonds, CIHBs. Special emphasis is also put here on the proton sponges and other systems such as the [FHF]- anion or [NgHNg]+ cation (Ng is the noble gas centre).
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Affiliation(s)
- Sławomir J Grabowski
- Polimero eta Material Aurreratuak: Fisika, Kimika eta Teknologia, Kimika Fakultatea, Euskal Herriko Unibertsitatea UPV/EHU & Donostia International Physics Center (DIPC) PK 1072, 20080 Donostia, Spain
- Ikerbasque, Basque Foundation for Science, 48011 Bilbao, Spain.
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2
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Chu R, Zeng Y, Liu M, Zheng S, Meng L. Insight into the Effects of Electrostatic Potentials on the Conversion Mechanism of the Hydrogen-Bonded Complexes and Carbon-Bonded Complexes: An Ab Initio and Quantum Theory of "Atoms in Molecules" Investigation. ACS OMEGA 2019; 4:231-241. [PMID: 31459327 PMCID: PMC6648873 DOI: 10.1021/acsomega.8b02669] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/06/2018] [Accepted: 12/21/2018] [Indexed: 06/10/2023]
Abstract
Carbon bond and hydrogen bond are common noncovalent interactions; although recent advances on these interactions have been achieved in both the experimental and computational aspects, little is known about the conversion mechanism between them. Here, MP2 calculations with aug-cc-pVDZ basis set (aug-cc-pVDZ-pp for element Sn) were used to optimize the geometric configurations of the hydrogen-bonded complexes MH3F···HCN (M = C, Si, Ge, and Sn), carbon-bonded complexes HCN···MH3F (M = C, Si, Ge, and Sn), and transition states; the conversion mechanism between these two types of interactions has been carried out. The molecular electrostatic potential, especially the σ-hole, is directly related to the flatten degree of intrinsic reaction coordinate (IRC) curve. The energy barriers from the hydrogen-bonded complexes to the carbon-bonded complexes are 6.99, 7.73, 10.56, and 13.59 kJ·mol-1. The energy barriers from the carbon-bonded complexes to the hydrogen-bonded complexes are 4.65, 7.81, 9.10, and 13.04 kJ·mol-1. The breakage and formation of the bonds along the reaction paths have been discussed by the topological analysis of electronic density. The energy barriers are obviously related to the width of the structure transition region (STR). For the first derivative curve of IRC energy surface versus reaction coordinate, there is a maximum peak and a minimum peak, reflecting the structural transition states in the ring STRs.
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Affiliation(s)
- Runtian Chu
- Institute
of Computational Quantum Chemistry, College of Chemistry
and Material Science, and National Demonstration Center for Experimental Chemistry
Education, Hebei Normal University, Shijiazhuang 050024, P. R. China
| | - Yanli Zeng
- Institute
of Computational Quantum Chemistry, College of Chemistry
and Material Science, and National Demonstration Center for Experimental Chemistry
Education, Hebei Normal University, Shijiazhuang 050024, P. R. China
| | - Mengyu Liu
- Institute
of Computational Quantum Chemistry, College of Chemistry
and Material Science, and National Demonstration Center for Experimental Chemistry
Education, Hebei Normal University, Shijiazhuang 050024, P. R. China
| | - Shijun Zheng
- Institute
of Computational Quantum Chemistry, College of Chemistry
and Material Science, and National Demonstration Center for Experimental Chemistry
Education, Hebei Normal University, Shijiazhuang 050024, P. R. China
| | - Lingpeng Meng
- Institute
of Computational Quantum Chemistry, College of Chemistry
and Material Science, and National Demonstration Center for Experimental Chemistry
Education, Hebei Normal University, Shijiazhuang 050024, P. R. China
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3
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Khanh PN, Phan CD, Ho DQ, Van Vo Q, Ngan VT, Nguyen MT, Trung NT. Insights into the cooperativity between multiple interactions of dimethyl sulfoxide with carbon dioxide and water. J Comput Chem 2018; 40:464-474. [DOI: 10.1002/jcc.25732] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2018] [Revised: 09/15/2018] [Accepted: 09/30/2018] [Indexed: 02/02/2023]
Affiliation(s)
- Pham N. Khanh
- Laboratory of Computational Chemistry and Modelling (LCCM), and Department of ChemistryQuy Nhon University Quy Nhon Vietnam
| | - Cam‐Tu D. Phan
- Laboratory of Computational Chemistry and Modelling (LCCM), and Department of ChemistryQuy Nhon University Quy Nhon Vietnam
| | - Dai Q. Ho
- Laboratory of Computational Chemistry and Modelling (LCCM), and Department of ChemistryQuy Nhon University Quy Nhon Vietnam
| | - Quan Van Vo
- Department of Natural SciencesQuang Tri Teachers Training College Quang Tri Vietnam
| | - Vu T. Ngan
- Laboratory of Computational Chemistry and Modelling (LCCM), and Department of ChemistryQuy Nhon University Quy Nhon Vietnam
| | - Minh Tho Nguyen
- Department of ChemistryKU Leuven, Celestijnenlaan 200F B‐3001 Leuven Belgium
| | - Nguyen T. Trung
- Laboratory of Computational Chemistry and Modelling (LCCM), and Department of ChemistryQuy Nhon University Quy Nhon Vietnam
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Esrafili MD, Asadollahi S, Mousavian P. Exploring hydride-π interactions and their tuning by σ-hole bonds: an ab initio study. Mol Phys 2018. [DOI: 10.1080/00268976.2017.1369186] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- Mehdi D. Esrafili
- Department of Chemistry, Laboratory of Theoretical Chemistry, University of Maragheh, Maragheh, Iran
| | - Soheila Asadollahi
- Department of Chemistry, Laboratory of Theoretical Chemistry, University of Maragheh, Maragheh, Iran
| | - Parisasadat Mousavian
- Department of Chemistry, Laboratory of Theoretical Chemistry, University of Maragheh, Maragheh, Iran
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Özsoy H, Uras-Aytemiz N, Balcı FM. Hydrogen-bonding behavior of various conformations of the HNO 3…(CH 3OH) 2 ternary system. J Mol Model 2017; 24:23. [PMID: 29270854 DOI: 10.1007/s00894-017-3543-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2017] [Accepted: 11/22/2017] [Indexed: 12/01/2022]
Abstract
Nine minima were found on the intermolecular potential energy surface for the ternary system HNO3(CH3OH)2 at the MP2/aug-cc-pVDZ level of theory. The cooperative effect, which is a measure of the hydrogen-bonding strength, was probed in these nine conformations of HNO3…(CH3OH)2. The results are discussed here in terms of structures, energetics, infrared vibrational frequencies, and topological parameters. The cooperative effect was observed to be an important contributor to the total interaction energies of the cyclic conformers of HNO3…(CH3OH)2, meaning that it cannot be neglected in simulations in which the pair-additive potential is applied. Graphical abstract The H-bonding behavior of various conformations of the HNO3(CH3OH)2 trimer was investigated.
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Affiliation(s)
- Hasan Özsoy
- Department of Chemistry, Karabük University, 78050, Karabük, Turkey
| | | | - F Mine Balcı
- Department of Chemistry, Süleyman Demirel University, 32260, Isparta, Turkey
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Cooperative effects between halogen bonds and pnicogen bonds in XBr∙∙∙OFH2P∙∙∙NH3 (X = F, Cl, CN, NC, OH, and NO2) complexes. J Mol Model 2015; 22:5. [DOI: 10.1007/s00894-015-2872-1] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2015] [Accepted: 11/22/2015] [Indexed: 12/16/2022]
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Interplay between halogen and chalcogen bonding in the XCl∙∙∙OCS∙∙∙NH3 (X = F, OH, NC, CN, and FCC) complex. J Mol Model 2014; 20:2458. [DOI: 10.1007/s00894-014-2458-3] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2014] [Accepted: 09/01/2014] [Indexed: 10/24/2022]
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8
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A theoretical study of the thermodynamic and hydrogen-bond basicity of TEMPO radical and related nitroxides. Struct Chem 2014. [DOI: 10.1007/s11224-014-0484-5] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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Theoretical investigations on the enhancing effect of the cation–π interaction on the halogen bond in the M∙∙∙HCCX∙∙∙NH3 (M = Li+, Na+, Cu+, Ag+, Au+; X = Cl, Br) complexes. J Mol Model 2014; 20:2235. [DOI: 10.1007/s00894-014-2235-3] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2014] [Accepted: 04/03/2014] [Indexed: 01/27/2023]
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Monteiro NKV, Firme CL. Hydrogen-hydrogen bonds in highly branched alkanes and in alkane complexes: A DFT, ab initio, QTAIM, and ELF study. J Phys Chem A 2014; 118:1730-40. [PMID: 24533436 DOI: 10.1021/jp500131z] [Citation(s) in RCA: 53] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The hydrogen-hydrogen (H-H) bond or hydrogen-hydrogen bonding is formed by the interaction between a pair of identical or similar hydrogen atoms that are close to electrical neutrality and it yields a stabilizing contribution to the overall molecular energy. This work provides new, important information regarding hydrogen-hydrogen bonds. We report that stability of alkane complexes and boiling point of alkanes are directly related to H-H bond, which means that intermolecular interactions between alkane chains are directional H-H bond, not nondirectional induced dipole-induced dipole. Moreover, we show the existence of intramolecular H-H bonds in highly branched alkanes playing a secondary role in their increased stabilities in comparison with linear or less branched isomers. These results were accomplished by different approaches: density functional theory (DFT), ab initio, quantum theory of atoms in molecules (QTAIM), and electron localization function (ELF).
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Affiliation(s)
- Norberto K V Monteiro
- Institute of Chemistry, Federal University of Rio Grande do Norte , Natal, Rio Grande do Norte, Brazil , CEP 59078-970
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11
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Oliveira BGD. Structure, energy, vibrational spectrum, and Bader's analysis of π⋯H hydrogen bonds and H−δ⋯H+δdihydrogen bonds. Phys Chem Chem Phys 2013; 15:37-79. [DOI: 10.1039/c2cp41749a] [Citation(s) in RCA: 59] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
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12
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Interplay between dihydrogen and alkali–halogen bonds: Is there some covalency upon complexation of ternary systems? COMPUT THEOR CHEM 2012. [DOI: 10.1016/j.comptc.2012.07.031] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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13
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Varfolomeev MA, Klimovitskii AE, Abaidullina DI, Madzhidov TI, Solomonov BN. "Additive" cooperativity of hydrogen bonds in complexes of catechol with proton acceptors in the gas phase: FTIR spectroscopy and quantum chemical calculations. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2012; 91:75-82. [PMID: 22366617 DOI: 10.1016/j.saa.2012.01.061] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/24/2011] [Revised: 01/16/2012] [Accepted: 01/24/2012] [Indexed: 05/31/2023]
Abstract
Experimental study of hydrogen bond cooperativity in hetero-complexes in the gas phase was carried out by IR-spectroscopy method. Stretching vibration frequencies of O-H groups in phenol and catechol molecules as well as of their complexes with nitriles and ethers were determined in the gas phase using a specially designed cell. O-H groups experimental frequency shifts in the complexes of catechol induced by the formation of intermolecular hydrogen bonds are significantly higher than in the complexes of phenol due to the hydrogen bond cooperativity. It was shown that the cooperativity factors of hydrogen bonds in the complexes of catechol with nitriles and ethers in the gas phase are approximately the same. Quantum chemical calculations of the studied systems have been performed using density functional theory (DFT) methods. It was shown, that theoretically obtained cooperativity factors of hydrogen bonds in the complexes of catechol with proton acceptors are in good agreement with experimental values. Cooperative effects lead to a strengthening of intermolecular hydrogen bonds in the complexes of catechol on about 30%, despite the significant difference in the proton acceptor ability of the bases. The analysis within quantum theory of atoms in molecules was carried out for the explanation of this fact.
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Affiliation(s)
- Mikhail A Varfolomeev
- Department of Physical Chemistry, Chemical Institute, Kazan (Volga region) Federal University, Kremlevskaya 18, 420008 Kazan, Russia.
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Theoretical Study on Cooperativity Effects between Anion-π and Halogen-Bonding Interactions. Chemphyschem 2011; 12:2742-50. [DOI: 10.1002/cphc.201100492] [Citation(s) in RCA: 76] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2011] [Indexed: 11/07/2022]
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15
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Zhao Q, Feng D, Hao J. The cooperativity between hydrogen and halogen bond in the XY···HNC···XY (X, Y = F, Cl, Br) complexes. J Mol Model 2011; 17:2817-23. [PMID: 21287212 DOI: 10.1007/s00894-011-0974-y] [Citation(s) in RCA: 40] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2010] [Accepted: 01/14/2011] [Indexed: 11/27/2022]
Affiliation(s)
- Qiang Zhao
- Key Laboratory of Colloid and Interface Chemistry, Shandong University, Ministry of Education, Jinan 250100, People's Republic of China
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16
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Hydrogen bonding interactions in cysteine–urea complexes: Theoretical studies of structures, properties and topologies. ACTA ACUST UNITED AC 2010. [DOI: 10.1016/j.theochem.2010.08.029] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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17
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Del Bene JE, Alkorta I, Elguero J. Ab Initio Study of Nonadditivity Effects: Spin−Spin Coupling Constants for Tetrafluoroethene in Ternary π Complexes. J Phys Chem A 2010; 114:3713-7. [DOI: 10.1021/jp1003159] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Janet E. Del Bene
- Department of Chemistry, Youngstown State University, Youngstown, Ohio 44555, and Instituto de Química Médica (CSIC), Juan de la Cierva, 3; 28006-Madrid (Spain)
| | - Ibon Alkorta
- Department of Chemistry, Youngstown State University, Youngstown, Ohio 44555, and Instituto de Química Médica (CSIC), Juan de la Cierva, 3; 28006-Madrid (Spain)
| | - José Elguero
- Department of Chemistry, Youngstown State University, Youngstown, Ohio 44555, and Instituto de Química Médica (CSIC), Juan de la Cierva, 3; 28006-Madrid (Spain)
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Alkorta I, Blanco F, Deyà PM, Elguero J, Estarellas C, Frontera A, Quiñonero D. Cooperativity in multiple unusual weak bonds. Theor Chem Acc 2009. [DOI: 10.1007/s00214-009-0690-1] [Citation(s) in RCA: 196] [Impact Index Per Article: 13.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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Lucas X, Estarellas C, Escudero D, Frontera A, Quiñonero D, Deyà PM. Very Long-Range Effects: Cooperativity between Anion-π and Hydrogen-Bonding Interactions. Chemphyschem 2009; 10:2256-64. [DOI: 10.1002/cphc.200900157] [Citation(s) in RCA: 75] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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Del Bene JE, Alkorta I, Elguero J. Characterizing Complexes with F−Li+−F Lithium Bonds: Structures, Binding Energies, and Spin−Spin Coupling Constants. J Phys Chem A 2009; 113:8359-65. [DOI: 10.1021/jp9020917] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Janet E. Del Bene
- Department of Chemistry, Youngstown State University, Youngstown, Ohio 44555, and Instituto de Química Médica, CSIC, Juan de la Cierva, 3, E-28006 Madrid, Spain
| | - Ibon Alkorta
- Department of Chemistry, Youngstown State University, Youngstown, Ohio 44555, and Instituto de Química Médica, CSIC, Juan de la Cierva, 3, E-28006 Madrid, Spain
| | - José Elguero
- Department of Chemistry, Youngstown State University, Youngstown, Ohio 44555, and Instituto de Química Médica, CSIC, Juan de la Cierva, 3, E-28006 Madrid, Spain
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Alkorta I, Blanco F, Elguero J, Estarellas C, Frontera A, Quiñonero D, Deyà PM. Simultaneous Interaction of Tetrafluoroethene with Anions and Hydrogen-Bond Donors: A Cooperativity Study. J Chem Theory Comput 2009; 5:1186-94. [PMID: 26609628 DOI: 10.1021/ct800444e] [Citation(s) in RCA: 50] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Blanco F, Alkorta I, Solimannejad M, Elguero J. Theoretical Study of the 1:1 Complexes between Carbon Monoxide and Hypohalous Acids. J Phys Chem A 2009; 113:3237-44. [DOI: 10.1021/jp810462h] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Fernando Blanco
- Instituto de Química Médica (CSIC), Juan de la Cierva, 28006-Madrid, Spain, Quantum Chemistry Group, Department of Chemistry, Arak University, 38156-879 Arak, Iran, and Centre for Theoretical and Computational Chemistry, Department of Chemistry, University of Oslo, P.O. Box 1033, Blindern, N-0315 Oslo, Norway
| | - Ibon Alkorta
- Instituto de Química Médica (CSIC), Juan de la Cierva, 28006-Madrid, Spain, Quantum Chemistry Group, Department of Chemistry, Arak University, 38156-879 Arak, Iran, and Centre for Theoretical and Computational Chemistry, Department of Chemistry, University of Oslo, P.O. Box 1033, Blindern, N-0315 Oslo, Norway
| | - Mohammad Solimannejad
- Instituto de Química Médica (CSIC), Juan de la Cierva, 28006-Madrid, Spain, Quantum Chemistry Group, Department of Chemistry, Arak University, 38156-879 Arak, Iran, and Centre for Theoretical and Computational Chemistry, Department of Chemistry, University of Oslo, P.O. Box 1033, Blindern, N-0315 Oslo, Norway
| | - Jose Elguero
- Instituto de Química Médica (CSIC), Juan de la Cierva, 28006-Madrid, Spain, Quantum Chemistry Group, Department of Chemistry, Arak University, 38156-879 Arak, Iran, and Centre for Theoretical and Computational Chemistry, Department of Chemistry, University of Oslo, P.O. Box 1033, Blindern, N-0315 Oslo, Norway
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Alkorta I, Elguero J, Solimannejad M. Dihydrogen bond cooperativity in (HCCBeH)n clusters. J Chem Phys 2008; 129:064115. [DOI: 10.1063/1.2966007] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022] Open
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