1
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Lefrancois-Gagnon KM, Mawhinney RC. Toward Universal Substituent Constants: Relating QTAIM Functional Group Descriptors to Substituent Effect Proxies. J Chem Inf Model 2023; 63:6068-6080. [PMID: 37729015 DOI: 10.1021/acs.jcim.3c00987] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/22/2023]
Abstract
Substituents modulate reactions, but their effects are commonly described by using proxies to their functional group properties. Substituent descriptors from the quantum theory of atoms in molecules, which are true functional group properties, are related here to these proxies, which have historically had chemically relevant meaning. Due to the large number of descriptors, multivariate analysis is used to intuit their significance. Multiple linear regression, principal component, and partial least squares regression analyses highlight that these substituent descriptors contain similar information to the proxies while being intrinsic, predictable substituent properties. Sources of error limiting quantitative reproduction of the proxy data include transferability, experimental accuracy, and solvation issues.
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Affiliation(s)
| | - Robert C Mawhinney
- Department of Chemistry, Lakehead University, 955 Oliver Road, Thunder Bay, Ontario P7B 5E1, Canada
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2
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Prakash M, Rudharachari Maiyelvaganan K, Lakshman NG, Mogren Al-Mogren M, Hochlaf M. Formation of Eigen or Zundel Features at Protonated Water Cluster-Aromatic Interfaces. Chemphyschem 2023; 24:e202300267. [PMID: 37283005 DOI: 10.1002/cphc.202300267] [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: 04/16/2023] [Revised: 05/27/2023] [Accepted: 06/02/2023] [Indexed: 06/08/2023]
Abstract
Interfacial interactions of protonated water clusters adsorbed at aromatic surfaces play an important role in biology, and in atmospheric, chemical and materials sciences. Here, we investigate the interaction of protonated water clusters ((H+ H2 O)n (where n=1-3)) with benzene (Bz), coronene (Cor) and dodecabenzocoronene (Dbc)). To study the structure, stability and spectral features of these complexes, computations are done using DFT-PBE0(+D3) and SAPT0 methods. These interactions are probed by AIM electron density topography and non-covalent interactions index (NCI) analyses. We suggest that the excess proton plays a crucial role in the stability of these model interfaces through strong inductive effects and the formation of Eigen or Zundel features. Also, computations reveal that the extension of the π-aromatic system and the increase of the number of water molecules in the H-bounded water network led to a strengthening of the interactions between the corresponding aromatic compound and protonated water molecules, except when a Zundel ion is formed. The present findings may serve to understand in-depth the role of proton localized at aqueous medium interacting with large aromatic surfaces such as graphene interacting with acidic liquid water. Besides, we give the IR and UV-Vis spectra of these complexes, which may help for their identification in laboratory.
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Affiliation(s)
- Muthuramalingam Prakash
- Department of Chemistry, Faculty of Engineering and Technology, SRM Institute of Science and Technology, Kattankulathur, 603203, Chengalpattu District, Tamil Nadu, India
| | - K Rudharachari Maiyelvaganan
- Department of Chemistry, Faculty of Engineering and Technology, SRM Institute of Science and Technology, Kattankulathur, 603203, Chengalpattu District, Tamil Nadu, India
| | - N Giri Lakshman
- Department of Chemistry, Faculty of Engineering and Technology, SRM Institute of Science and Technology, Kattankulathur, 603203, Chengalpattu District, Tamil Nadu, India
| | - Muneerah Mogren Al-Mogren
- Department of Chemistry, College of Sciences, King Saud University, PO Box 2455, Riyadh, 11451, Saudi Arabia
| | - Majdi Hochlaf
- Université Gustave Eiffel, COSYS/IMSE, 5 Bd Descartes, 77454, Champs Sur Marne, France
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3
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Srivastava A, Singh H, Mishra R, Dev K, Tandon P, Maurya R. Structural insights, protein-ligand interactions and spectroscopic characterization of isoformononetin. J Mol Struct 2017. [DOI: 10.1016/j.molstruc.2016.12.043] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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4
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Wu W, Li X, Meng L, Zheng S, Zeng Y. Understanding the Properties of Inorganic Benzenes Based on π-Electron Densities. J Phys Chem A 2015; 119:2091-7. [DOI: 10.1021/jp511862u] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Wenjie Wu
- College
of Chemistry and Material Science, Hebei Normal University, Shijiazhuang 050024, P. R. China
- Beijing
Key Laboratory of Photoelectronic/Electrophotonic Conversion Materials,
School of Chemistry, Beijing Institute of Technology, Beijing 100081, China
| | - Xiaoyan Li
- College
of Chemistry and Material Science, Hebei Normal University, Shijiazhuang 050024, P. R. China
| | - Lingpeng Meng
- College
of Chemistry and Material Science, Hebei Normal University, Shijiazhuang 050024, P. R. China
| | - Shijun Zheng
- College
of Chemistry and Material Science, Hebei Normal University, Shijiazhuang 050024, P. R. China
| | - Yanli Zeng
- College
of Chemistry and Material Science, Hebei Normal University, Shijiazhuang 050024, P. R. China
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5
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Enhancing effects of hydrogen/halogen bonds on σ-hole interactions involving ylide. J Mol Model 2014; 20:2282. [DOI: 10.1007/s00894-014-2282-9] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2014] [Accepted: 04/25/2014] [Indexed: 11/28/2022]
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6
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Hęclik K, Dębska B, Dobrowolski JC. On the non-additivity of the substituent effect in ortho-, meta- and para-homo-disubstituted benzenes. RSC Adv 2014. [DOI: 10.1039/c4ra02294g] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The non-additivity of the substituent effect in para-, meta-, and ortho- homo-disubstituted benzenes on π-valence orbitals is smaller than that on σ-ones. The former increases while the latter decreases with π-electron-donating character of the substituent which demonstrates the role of hyperconjugation in the substituent effect.
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Affiliation(s)
- K. Hęclik
- Rzeszow University of Technology
- 35-959 Rzeszow, Poland
- National Medicines Institute
- 00-723 Warsaw, Poland
| | - B. Dębska
- Rzeszow University of Technology
- 35-959 Rzeszow, Poland
| | - J. Cz. Dobrowolski
- National Medicines Institute
- 00-723 Warsaw, Poland
- Institute of Chemistry and Nuclear Technology
- 03-195 Warsaw, Poland
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7
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Hassan A, Dinadayalane TC, Grabowski SJ, Leszczynski J. Structural, energetic, spectroscopic and QTAIM analyses of cation–π interactions involving mono- and bi-cyclic ring fused benzene systems. Phys Chem Chem Phys 2013; 15:20839-56. [PMID: 24196371 DOI: 10.1039/c3cp53927j] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Affiliation(s)
- Ayorinde Hassan
- Interdisciplinary Center for Nanotoxicity, Department of Chemistry and Biochemistry, Jackson State University, 1400 J.R. Lynch Street, P.O. Box 17910, Jackson, MS 39217, USA.
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8
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Prakash M, Gopalsamy K, Subramanian V. Studies on the structure, stability, and spectral signatures of hydride ion-water clusters. J Chem Phys 2012; 135:214308. [PMID: 22149793 DOI: 10.1063/1.3663708] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The gas-phase structure, stability, spectra, and electron density topography of H(-)W(n) clusters (where n = 1-8) have been calculated using coupled-cluster CCSD(T) and Møller-Plesset second-order perturbation (MP2) theory combined with complete basis set (CBS) approaches. The performance of various density functional theory (DFT) based methods such as B3LYP, M05-2X, M06, M06-L, and M06-2X using 6-311++G(d,p), and aug-cc-pVXZ (aVXZ, where X = D, T, and Q) basis sets has also been assessed by considering values calculated using CCSD(T)/CBS limit as reference. The performance of the functionals has been ranked based on the mean signed/unsigned error. The comparison of geometrical parameters elicits that the geometrical parameters predicted by B3LYP/aVTZ method are in good agreement with those values obtained at MP2/aVTZ level of theory. Results show that M05-2X functional outperform other functionals in predicting the energetics when compared to CCSD(T)/CBS value. On the other hand, values predicted by M06-2X, and M06 methods, are closer to those values obtained from MP2/CBS approach. It is evident from the calculations that H(-)W(n) (where n = 5-8) clusters adopt several interesting structural motifs such as pyramidal, prism, book, Clessidra, cubic, cage, and bag. The important role played by ion-water (O-H···H(-)) and water-water (O-H···O) interactions in determining the stability of the clusters has also been observed. Analysis of the results indicates that the most stable cluster is made up of minimum number of O-H···H(-) interaction in conjugation with the maximum number of O-H···O interactions. The Bader theory of atoms in molecules (AIM) and natural bond orbital (NBO) analyses has also been carried out to characterize the nature of interactions between hydride ion and water molecules. It can be observed from the vibrational spectra of H(-)W(n) clusters, the stretching frequencies involving ion-water interaction always exhibit larger redshift and intensities than that of water-water (inter solvent) interactions.
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Affiliation(s)
- M Prakash
- Chemical Laboratory, CSIR-Central Leather Research Institute, Adyar, Chennai 600 020, India
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9
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Krygowski TM, Dobrowolski MA, Cyrański MK, Oziminski WP, Bultinck P. Substituent effects in 1,4-disubstituted benzene and cyclohexadiene: Olefinic vs aromatic electron shift pathway of the substituent effect. COMPUT THEOR CHEM 2012. [DOI: 10.1016/j.comptc.2012.01.004] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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10
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Zhu M, Meng L, Zheng S, Wang J, Zeng Y. Theoretical Studies on the Hydrogen-bonding and π-Stacking Interactions in the m-Nisoldipine Polymorphism Dimers. CHINESE J CHEM 2012. [DOI: 10.1002/cjoc.201180468] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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11
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Zeng Y, Hao J, Zheng S, Meng L. Cooperativity between S···π and Rg···π in the OCS···C6H6···Rg (Rg = He, Ne, Ar, and Kr) van der Waals Complexes. J Phys Chem A 2011; 115:11057-66. [DOI: 10.1021/jp206835m] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Yanli Zeng
- Institute of Computational Quantum Chemistry, College of Chemistry and Material Science, Hebei Normal University, Shijiazhuang 050016, People's Republic of China
| | - Jing Hao
- Institute of Computational Quantum Chemistry, College of Chemistry and Material Science, Hebei Normal University, Shijiazhuang 050016, People's Republic of China
| | - Shijun Zheng
- Institute of Computational Quantum Chemistry, College of Chemistry and Material Science, Hebei Normal University, Shijiazhuang 050016, People's Republic of China
| | - Lingpeng Meng
- Institute of Computational Quantum Chemistry, College of Chemistry and Material Science, Hebei Normal University, Shijiazhuang 050016, People's Republic of China
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Grabowski SJ. Red- and Blue-Shifted Hydrogen Bonds: the Bent Rule from Quantum Theory of Atoms in Molecules Perspective. J Phys Chem A 2011; 115:12789-99. [DOI: 10.1021/jp203908n] [Citation(s) in RCA: 83] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Sławomir J. Grabowski
- Kimika Fakultatea, Euskal Herriko Unibertsitatea and Donostia International Physics Center (DIPC), P.K. 1072, 20080 Donostia, Euskadi, Spain
- IKERBASQUE, Basque Foundation for Science, 48011, Bilbao, Spain
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13
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Insight into the nature of the interactions of furan and thiophene with hydrogen halides and lithium halides: ab initio and QTAIM studies. J Mol Model 2011; 17:2907-18. [DOI: 10.1007/s00894-011-0987-6] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2010] [Accepted: 01/24/2011] [Indexed: 11/25/2022]
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14
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Kržan A, Mavri J. Atomic volume as a descriptor for carbon electronic structure and stability. J Org Chem 2011; 76:1891-3. [PMID: 21314105 DOI: 10.1021/jo102152s] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Electron density at the carbon atom is a significant factor determining the stability of molecules, but it is difficult to quantify. Using the Atoms in Molecules (AIM) quantum theory, we calculated the atomic charges and volumes of carbon atoms in highly oxidized compounds. The two parameters are shown to be good quantitative descriptors of electron depletion and can be used as an indicator for stability/reactivity of such compounds.
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Affiliation(s)
- Andrej Kržan
- National Institute of Chemistry, Hajdrihova 19, 1000 Ljubljana, Slovenia.
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15
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Zeng Y, Li X, Zhang X, Meng L, Zheng S. Theoretical Studies on the Halogen Bond between Propargyl Radical and Dihalogen Molecules. CHINESE J CHEM 2011. [DOI: 10.1002/cjoc.201190002] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
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16
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Grabowski SJ, Ugalde JM. Bond Paths Show Preferable Interactions: Ab Initio and QTAIM Studies on the X−H···π Hydrogen Bond. J Phys Chem A 2010; 114:7223-9. [DOI: 10.1021/jp103047p] [Citation(s) in RCA: 88] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Sławomir J. Grabowski
- Kimika Fakultatea, Euskal Herriko Unibertsitatea and Donostia International Physics Center (DIPC), P.K. 1072, 20080 Donostia, Euskadi (Spain), Fax: (+34)943015270, and IKERBASQUE, Basque Foundation for Science, 48011, Bilbao, Spain
| | - Jesus M. Ugalde
- Kimika Fakultatea, Euskal Herriko Unibertsitatea and Donostia International Physics Center (DIPC), P.K. 1072, 20080 Donostia, Euskadi (Spain), Fax: (+34)943015270, and IKERBASQUE, Basque Foundation for Science, 48011, Bilbao, Spain
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17
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Zhang X, Zeng Y, Li X, Meng L, Zheng S. Comparison in the complexes of oxygen-containing σ-electron donor with hydrogen halide and dihalogen molecules. ACTA ACUST UNITED AC 2010. [DOI: 10.1016/j.theochem.2010.03.020] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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