1
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Zhang W, He X, Li M, Zhang J, Zhao D, Liu S, Rong C. Simultaneous identification of strong and weak interactions with Pauli energy, Pauli potential, Pauli force, and Pauli charge. J Chem Phys 2023; 159:184104. [PMID: 37942871 DOI: 10.1063/5.0173666] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2023] [Accepted: 10/12/2023] [Indexed: 11/10/2023] Open
Abstract
Strong and weak interatomic interactions in chemical and biological systems are ubiquitous, yet how to identify them on a unified theoretical foundation is still not well established. Recently, we proposed employing Pauli energy-based indexes, such as strong covalent interaction and bonding and noncovalent interaction indexes, in the framework of density functional theory for the purpose. In this work, we extend our previous theoretical work by directly employing Pauli energy, Pauli potential, Pauli force, and Pauli charge to simultaneously identify both strong covalent bonding and weak noncovalent interactions. Our results from this work elucidate that using their signature isosurfaces, we can identify different types of interactions, either strong or weak, including single, double, triple, and quadruple covalent bonds, ionic bond, metallic bond, hydrogen bonding, and van der Waals interaction. We also discovered strong linear correlations between Pauli energy derived quantities and different covalent bond orders. These qualitative and quantitative results from our present study solidify the viewpoint that a unified approach to simultaneously identify both strong and weak interactions is possible. In our view, this work signifies one step forward towards the goal of establishing a density-based theory of chemical reactivity in density functional theory.
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Affiliation(s)
- Wenbiao Zhang
- Key Laboratory of Light Energy Conversion Materials of Hunan Province College, Hunan Normal University, Changsha 410081, Hunan, People's Republic of China
| | - Xin He
- Qingdao Institute for Theoretical and Computational Sciences, Institute of Frontier and Interdisciplinary Science, Shandong University, Qingdao, Shandong 266237, China
| | - Meng Li
- Key Laboratory of Light Energy Conversion Materials of Hunan Province College, Hunan Normal University, Changsha 410081, Hunan, People's Republic of China
| | - Jingwen Zhang
- Key Laboratory of Light Energy Conversion Materials of Hunan Province College, Hunan Normal University, Changsha 410081, Hunan, People's Republic of China
| | - Dongbo Zhao
- Institute of Biomedical Research, Yunnan University, Kunming 650500, People's Republic of China
| | - Shubin Liu
- Research Computing Center, University of North Carolina, Chapel Hill, North Carolina 27599-3420, USA
- Department of Chemistry, University of North Carolina, Chapel Hill, North Carolina 27599-3290, USA
| | - Chunying Rong
- Key Laboratory of Light Energy Conversion Materials of Hunan Province College, Hunan Normal University, Changsha 410081, Hunan, People's Republic of China
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2
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Li M, Wan X, Rong C, Zhao D, Liu S. Directionality and additivity effects of molecular acidity and aromaticity for substituted benzoic acids under external electric fields. Phys Chem Chem Phys 2023; 25:27805-27816. [PMID: 37814823 DOI: 10.1039/d3cp02982d] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/11/2023]
Abstract
Our recent study [M. Li et al.Phys. Chem. Chem. Phys., 2023, 25, 2595-2605] unveiled that the impact of an external electric field on molecular acidity and aromaticity for benzoic acid is directional, which can be understood using changes in frontier orbitals and partial charges. However, it is unclear if the effect will disappear when substituting groups are present and whether new patterns of changes will show up. In this work, as a continuation of our efforts to appreciate the impact of external electric fields on physiochemical properties, we find that the directionality effect is still in place for substituted benzoic acid derivatives and that there exists the additivity effect with respect to the number of substituent groups, regardless of the direction of the applied field and the type of substituting groups. We confirm the findings using electron-donating and electron-accepting groups with the electric field applied either parallelly or perpendicularly to the carboxyl group along the benzene ring. The directionality and additivity effects uncovered from this work should enrich the body of our knowledge about the impact of external electric fields on physiochemical properties and could be applicable to other systems and properties as well.
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Affiliation(s)
- Meng Li
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), Hunan Normal University, Changsha, Hunan 410081, P. R. China.
| | - Xinjie Wan
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), Hunan Normal University, Changsha, Hunan 410081, P. R. China.
| | - Chunying Rong
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), Hunan Normal University, Changsha, Hunan 410081, P. R. China.
| | - Dongbo Zhao
- Institute of Biomedical Research, Yunnan University, Kunming 650500, P. R. China.
| | - Shubin Liu
- Research Computing Center, University of North Carolina, Chapel Hill, NC 27599-3420, USA.
- Department of Chemistry, University of North Carolina, Chapel Hill, NC 27599-3290, USA
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3
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He X, Lu T, Rong C, Liu S, Ayers PW, Liu W. Topological analysis of information-theoretic quantities in density functional theory. J Chem Phys 2023; 159:054112. [PMID: 37548307 DOI: 10.1063/5.0159941] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2023] [Accepted: 07/06/2023] [Indexed: 08/08/2023] Open
Abstract
We have witnessed considerable research interest in the recent literature about the development and applications of quantities from the information-theoretic approach (ITA) in density functional theory. These ITA quantities are explicit density functionals, whose local distributions in real space are continuous and well-behaved. In this work, we further develop ITA by systematically analyzing the topological behavior of its four representative quantities, Shannon entropy, two forms of Fisher information, and relative Shannon entropy (also called information gain or Kullback-Leibler divergence). Our results from their topological analyses for 103 molecular systems provide new insights into bonding interactions and physiochemical properties, such as electrophilicity, nucleophilicity, acidity, and aromaticity. We also compare our results with those from the electron density, electron localization function, localized orbital locator, and Laplacian functions. Our results offer a new methodological approach and practical tool for applications that are especially promising for elucidating chemical bonding and reactivity propensity.
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Affiliation(s)
- Xin He
- Qingdao Institute for Theoretical and Computational Sciences, Institute of Frontier and Interdisciplinary Science, Shandong University, Qingdao, Shandong 266237, China
| | - Tian Lu
- Beijing Kein Research Center for Natural Sciences, Beijing 100022, China
| | - Chunying Rong
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), Hunan Normal University, Changsha, Hunan 410081, China
| | - Shubin Liu
- Research Computing Center, University of North Carolina, Chapel Hill, North Carolina 27599-3420, USA
- Department of Chemistry, University of North Carolina, Chapel Hill, North Carolina 27599-3290, USA
| | - Paul W Ayers
- Department of Chemistry and Chemical Biology, McMaster University, Hamilton, Ontario L8S 4M1, Canada
| | - Wenjian Liu
- Qingdao Institute for Theoretical and Computational Sciences, Institute of Frontier and Interdisciplinary Science, Shandong University, Qingdao, Shandong 266237, China
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4
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Ong HW, Truong A, Kwarcinski F, de Silva C, Avalani K, Havener TM, Chirgwin M, Galal KA, Willis C, Krämer A, Liu S, Knapp S, Derbyshire ER, Zutshi R, Drewry DH. Discovery of potent Plasmodium falciparum protein kinase 6 (PfPK6) inhibitors with a type II inhibitor pharmacophore. Eur J Med Chem 2023; 249:115043. [PMID: 36736152 PMCID: PMC10052868 DOI: 10.1016/j.ejmech.2022.115043] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2022] [Revised: 12/20/2022] [Accepted: 12/20/2022] [Indexed: 01/01/2023]
Abstract
Malaria is a devastating disease that causes significant global morbidity and mortality. The rise of drug resistance against artemisinin-based combination therapy demonstrates the necessity to develop alternative antimalarials with novel mechanisms of action. We report the discovery of Ki8751 as an inhibitor of essential kinase PfPK6. 79 derivatives were designed, synthesized and evaluated for PfPK6 inhibition and antiplasmodial activity. Using group efficiency analyses, we established the importance of key groups on the scaffold consistent with a type II inhibitor pharmacophore. We highlight modifications on the tail group that contribute to antiplasmodial activity, cumulating in the discovery of compound 67, a PfPK6 inhibitor (IC50 = 13 nM) active against the P. falciparum blood stage (EC50 = 160 nM), and compound 79, a PfPK6 inhibitor (IC50 < 5 nM) with dual-stage antiplasmodial activity against P. falciparum blood stage (EC50 = 39 nM) and against P. berghei liver stage (EC50 = 220 nM).
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Affiliation(s)
- Han Wee Ong
- Structural Genomics Consortium and Division of Chemical Biology and Medicinal Chemistry, Eshelman School of Pharmacy, University of North Carolina at Chapel Hill, Chapel Hill, NC, 27599, USA
| | - Anna Truong
- Department of Chemistry, Duke University, 124 Science Drive, Durham, NC, 27708, USA
| | - Frank Kwarcinski
- Luceome Biotechnologies, L.L.C, 1665 E. 18th Street, Suite 106, Tucson, AZ, 85719, USA
| | - Chandi de Silva
- Luceome Biotechnologies, L.L.C, 1665 E. 18th Street, Suite 106, Tucson, AZ, 85719, USA
| | - Krisha Avalani
- Luceome Biotechnologies, L.L.C, 1665 E. 18th Street, Suite 106, Tucson, AZ, 85719, USA
| | - Tammy M Havener
- Structural Genomics Consortium and Division of Chemical Biology and Medicinal Chemistry, Eshelman School of Pharmacy, University of North Carolina at Chapel Hill, Chapel Hill, NC, 27599, USA
| | - Michael Chirgwin
- Department of Chemistry, Duke University, 124 Science Drive, Durham, NC, 27708, USA
| | - Kareem A Galal
- Structural Genomics Consortium and Division of Chemical Biology and Medicinal Chemistry, Eshelman School of Pharmacy, University of North Carolina at Chapel Hill, Chapel Hill, NC, 27599, USA
| | - Caleb Willis
- Luceome Biotechnologies, L.L.C, 1665 E. 18th Street, Suite 106, Tucson, AZ, 85719, USA
| | - Andreas Krämer
- Structural Genomics Consortium, Institute of Pharmaceutical Chemistry, Goethe University Frankfurt am Main, Max-von-Laue-Str. 9, 60438, Frankfurt am Main, Germany
| | - Shubin Liu
- Research Computing Center, University of North Carolina, Chapel Hill, NC, 27599-3420, USA; Department of Chemistry, University of North Carolina, Chapel Hill, NC, 27599-3420, USA
| | - Stefan Knapp
- Structural Genomics Consortium, Institute of Pharmaceutical Chemistry, Goethe University Frankfurt am Main, Max-von-Laue-Str. 9, 60438, Frankfurt am Main, Germany
| | - Emily R Derbyshire
- Department of Chemistry, Duke University, 124 Science Drive, Durham, NC, 27708, USA; Department of Molecular Genetics and Microbiology, Duke University Medical Center, 213 Research Drive, Durham, NC, 27710, USA.
| | - Reena Zutshi
- Luceome Biotechnologies, L.L.C, 1665 E. 18th Street, Suite 106, Tucson, AZ, 85719, USA.
| | - David H Drewry
- Structural Genomics Consortium and Division of Chemical Biology and Medicinal Chemistry, Eshelman School of Pharmacy, University of North Carolina at Chapel Hill, Chapel Hill, NC, 27599, USA; Lineberger Comprehensive Cancer Center, Department of Medicine, School of Medicine, University of North Carolina at Chapel Hill, Chapel Hill, NC, 27599, USA.
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5
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Li M, Wan X, He X, Rong C, Liu S. Impacts of external fields on aromaticity and acidity of benzoic acid: a density functional theory, conceptual density functional theory and information-theoretic approach study. Phys Chem Chem Phys 2023; 25:2595-2605. [PMID: 36602177 DOI: 10.1039/d2cp04557e] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
The impact of external fields on the molecular structure and reactivity properties has been of considerable interest in the recent literature. Benzoic acid as one of the most widely used compounds in medicinal and materials sciences is known for its dual propensity in aromaticity and acidity. In this work, we systematically investigate the impact of a uniform external electric field on these properties. We apply density functional theory, conceptual density functional theory, and an information-theoretic approach to appreciate the change pattern of aromaticity and acidity properties in external fields with different strengths. Our results show that they possess different change patterns under external fields, which can be satisfactorily rationalized by variations in reactivity descriptors and partial charges. The surprising yet novel results from this study should enrich the body of our knowledge about the impact of external fields for different kinds of electronic properties and provide guidance and foundation for future studies of this phenomenon in other molecular systems.
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Affiliation(s)
- Meng Li
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research, Ministry of Education of China), Hunan Normal University, Changsha, Hunan 410081, P. R. China.
| | - Xinjie Wan
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research, Ministry of Education of China), Hunan Normal University, Changsha, Hunan 410081, P. R. China.
| | - Xin He
- Qingdao Institute for Theoretical and Computational Sciences, Institute of Frontier and Interdisciplinary Science, Shandong University, Qingdao, Shandong 266237, P. R. China
| | - Chunying Rong
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research, Ministry of Education of China), Hunan Normal University, Changsha, Hunan 410081, P. R. China.
| | - Shubin Liu
- Research Computing Center, University of North Carolina, Chapel Hill, NC 27599-3420, USA. .,Department of Chemistry, University of North Carolina, Chapel Hill, NC 27599-3290, USA
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6
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Wu J, Kang Y, Pan P, Hou T. Machine learning methods for pK a prediction of small molecules: Advances and challenges. Drug Discov Today 2022; 27:103372. [PMID: 36167281 DOI: 10.1016/j.drudis.2022.103372] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2022] [Revised: 08/15/2022] [Accepted: 09/21/2022] [Indexed: 11/27/2022]
Abstract
The acid-base dissociation constant (pKa) is a fundamental property influencing many ADMET properties of small molecules. However, rapid and accurate pKa prediction remains a great challenge. In this review, we outline the current advances in machine-learning-based QSAR models for pKa prediction, including descriptor-based and graph-based approaches, and summarize their pros and cons. Moreover, we highlight the current challenges and future directions regarding experimental data, crucial factors influencing pKa and in silico prediction tools. We hope that this review can provide a practical guidance for the follow-up studies.
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Affiliation(s)
- Jialu Wu
- Innovation Institute for Artificial Intelligence in Medicine of Zhejiang University, College of Pharmaceutical Sciences and Cancer Center, Zhejiang University, Hangzhou 310058, Zhejiang, China
| | - Yu Kang
- Innovation Institute for Artificial Intelligence in Medicine of Zhejiang University, College of Pharmaceutical Sciences and Cancer Center, Zhejiang University, Hangzhou 310058, Zhejiang, China
| | - Peichen Pan
- Innovation Institute for Artificial Intelligence in Medicine of Zhejiang University, College of Pharmaceutical Sciences and Cancer Center, Zhejiang University, Hangzhou 310058, Zhejiang, China.
| | - Tingjun Hou
- Innovation Institute for Artificial Intelligence in Medicine of Zhejiang University, College of Pharmaceutical Sciences and Cancer Center, Zhejiang University, Hangzhou 310058, Zhejiang, China.
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7
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Benomrane B, Hamza Reguig F, Krallafa AM. Effectiveness electronic density‐based descriptor to index hard–hard interaction. J PHYS ORG CHEM 2022. [DOI: 10.1002/poc.4395] [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)
- Brahim Benomrane
- LCPM Laboratory, Faculty of Sciences, Chemistry Department University of Oran 1 Ahmed BenBella Oran Algeria
| | - Farouk Hamza Reguig
- LCPM Laboratory, Faculty of Sciences, Chemistry Department University of Oran 1 Ahmed BenBella Oran Algeria
| | - Abdelghani Mohamed Krallafa
- LCPM Laboratory, Faculty of Sciences, Chemistry Department University of Oran 1 Ahmed BenBella Oran Algeria
- SirMa CNRS UMR 7369, MEDyC University of Reims Champagne‐Ardenne Reims France
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8
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Wang B, Zhao D, Lu T, Liu S, Rong C. Quantifications and Applications of Relative Fisher Information in Density Functional Theory. J Phys Chem A 2021; 125:3802-3811. [PMID: 33891419 DOI: 10.1021/acs.jpca.1c02099] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
Though density functional theory is widely accepted as one of the most successful developments in theoretical chemistry in the past few decades, the knowledge of how to apply this new electronic structure theory, to help us better understand chemical processes and transformations, is still an unaccomplished task. The information-theoretic approach is emerging as a viable option for that purpose in the recent literature, providing new insights about steric effect, cooperativity, electrophilicity, nucleophilicity, stereoselectivity, homochirality, etc. In this work, based on the result from a recent paper by one of us [ J. Chem. Phys, 2019, 151, 141103], we present two quantifications of the relative Fisher information and discuss their physiochemical properties and possible applications. To that end, their analytical properties have been elucidated. They have also been applied to six categories of systems to illustrate their applicability. A better descriptor to quantify the single bond rotation barrier has been obtained. The relative Fisher information can also simultaneously determine electrophilicity and nucleophilicity, and effectively describe helical structures with different homochiral and heterochiral propensities. As integral parts of the information-theoretic approach, these newly introduced quantities will provide us with more analytical tools toward the long-term goal of crafting a chemical reactivity theory in the density-based language.
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Affiliation(s)
- Bin Wang
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), Hunan Normal University, Changsha, Hunan 410081, P.R. China
| | - Dongbo Zhao
- Institute of Biomedical Research, Yunnan University, Chenggong District, Kunming 650500, Yunnan P.R. China
| | - Tian Lu
- Beijing Kein Research Center for Natural Sciences, Beijing 100022, P.R. China
| | - Shubin Liu
- Research Computing Center, University of North Carolina Chapel Hill, North Carolina 27599-3420, United States
| | - Chunying Rong
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), Hunan Normal University, Changsha, Hunan 410081, P.R. China
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9
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Kramer M, Watts D, Vedernikov AN. Catalytic Deuteration of C(sp 2)–H Bonds of Substituted (Hetero)arenes in a Pt(II) CNN-Pincer Complex/2,2,2-Trifluoroethanol- d1 System: Effect of Substituents on the Reaction Rate and Selectivity. Organometallics 2020. [DOI: 10.1021/acs.organomet.0c00652] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Morgan Kramer
- Department of Chemistry and Biochemistry, University of Maryland, College Park, Maryland 20742, United States
| | - David Watts
- Department of Chemistry and Biochemistry, University of Maryland, College Park, Maryland 20742, United States
| | - Andrei N. Vedernikov
- Department of Chemistry and Biochemistry, University of Maryland, College Park, Maryland 20742, United States
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10
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Stuyver T, Shaik S. Unifying Conceptual Density Functional and Valence Bond Theory: The Hardness-Softness Conundrum Associated with Protonation Reactions and Uncovering Complementary Reactivity Modes. J Am Chem Soc 2020; 142:20002-20013. [PMID: 33180491 PMCID: PMC7735708 DOI: 10.1021/jacs.0c09041] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
In this study, we address the long-standing issue-arising prominently from conceptual density functional theory (CDFT)-of the relative importance of electrostatic, i.e., "hard-hard", versus spin-pairing, i.e., "soft-soft", interactions in determining regiochemical preferences. We do so from a valence bond (VB) perspective and demonstrate that VB theory readily enables a clear-cut resolution of both of these contributions to the bond formation/breaking process. Our calculations indicate that appropriate local reactivity descriptors can be used to gauge the magnitude of both interactions individually, e.g., Fukui functions or HOMO/LUMO orbitals for the spin-pairing/(frontier) orbital interactions and molecular electrostatic potentials (and/or partial charges) for the electrostatic interactions. In contrast to previous reports, we find that protonation reactions cannot generally be classified as either charge- or frontier orbital-controlled; instead, our results indicate that these two bonding contributions generally interplay in more subtle patterns, only giving the impression of a clear-cut dichotomy. Finally, we demonstrate that important covalent, i.e., spin pairing, reactivity modes can be missed when only a single spin-pairing/orbital interaction descriptor is considered. This study constitutes an important step in the unification of CDFT and VB theory.
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Affiliation(s)
- Thijs Stuyver
- Institute of Chemistry, Edmond J. Safara Campus at Givat Ram, The Hebrew University, Jerusalem 9190401, Israel
| | - Sason Shaik
- Institute of Chemistry, Edmond J. Safara Campus at Givat Ram, The Hebrew University, Jerusalem 9190401, Israel
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11
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Chakkamalayath J, Chandrakumar KRS, Ghosh SK. Reactivity Parameters and Substitution Effect in Organic Acids. J Phys Chem A 2020; 124:3770-3777. [PMID: 32164409 DOI: 10.1021/acs.jpca.9b10258] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
We investigate a few density functional theory-based reactivity indices of chemistry, with a view to arrive at an intercomparison and also consider their applications toward the problems of chemical significance. In particular, we propose to use the concepts of fugality and atom-atom polarizability to study the acidic strength of para-substituted benzoic acid derivatives. The nature of the variations and trends in the correlation of reactivity parameters and pKa values is shown to provide an insight into the applicability of these concepts to such reactions.
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Affiliation(s)
| | - K R S Chandrakumar
- Theoretical Chemistry Section, Bhabha Atomic Research Centre, Homi Bhabha National Institute, Mumbai 400085, India
| | - Swapan K Ghosh
- UM-DAE-Centre for Excellence in Basic Sciences, University of Mumbai, Kalina, Santacruz (East), Mumbai 400098, India
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12
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Analysis of the Gas Phase Acidity of Substituted Benzoic Acids Using Density Functional Concepts. Molecules 2020; 25:molecules25071631. [PMID: 32252296 PMCID: PMC7180886 DOI: 10.3390/molecules25071631] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2020] [Revised: 03/27/2020] [Accepted: 03/29/2020] [Indexed: 01/17/2023] Open
Abstract
A theoretical study of the effect of the substituent Z on the gas phase acidity of substituted benzoic acids ZC6H4COOH in terms of density functional theory descriptors (chemical potential, softness and Fukui function) is presented. The calculated gas phase ΔacidG° values obtained were close to the experimental ones reported in the literature. The good relationship between the ΔacidG° values and the electronegativity of ZC6H4COOH and its fragments, suggested a better importance of the inductive than polarizability contributions. The balance of inductive and resonance contributions of the substituent in the acidity of substituted benzoic acids showed that the highest inductive and resonance effects were for the -SO2CF3 and -NH2 substituents in the para- and ortho-position, respectively. The Fukui function confirmed that the electron-releasing substituent attached to the phenyl ring of benzoic acid decreased the acidity in the trend ortho > meta > para, and the electron-withdrawing substituent increased the acidity in the trend ortho < meta < para.
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13
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Rong C, Wang B, Zhao D, Liu S. Information‐theoretic approach in density functional theory and its recent applications to chemical problems. WILEY INTERDISCIPLINARY REVIEWS-COMPUTATIONAL MOLECULAR SCIENCE 2019. [DOI: 10.1002/wcms.1461] [Citation(s) in RCA: 29] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Chunying Rong
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China) Hunan Normal University Changsha P.R. China
- Department of Chemistry, College of Chemistry and Chemical Engineering Hunan Normal University Changsha P.R. China
| | - Bin Wang
- Department of Chemistry, College of Chemistry and Chemical Engineering Hunan Normal University Changsha P.R. China
| | - Dongbo Zhao
- Department of Chemistry, School of Chemistry and Chemical Engineering Nanjing University Nanjing P.R. China
| | - Shubin Liu
- Research Computing Centre University of North Carolina Chapel Hill North Carolina
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14
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Correlation between molecular acidity (pKa) and vibrational spectroscopy. J Mol Model 2019; 25:48. [DOI: 10.1007/s00894-019-3928-4] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2018] [Accepted: 01/03/2019] [Indexed: 12/17/2022]
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15
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Yu D, Rong C, Lu T, De Proft F, Liu S. Baird's Rule in Substituted Fulvene Derivatives: An Information-Theoretic Study on Triplet-State Aromaticity and Antiaromaticity. ACS OMEGA 2018; 3:18370-18379. [PMID: 31458411 PMCID: PMC6643592 DOI: 10.1021/acsomega.8b02881] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/19/2018] [Accepted: 12/14/2018] [Indexed: 06/10/2023]
Abstract
Originated from the cyclic delocalization of electrons resulting in extra stability and instability, aromaticity and antiaromaticity are important chemical concepts whose appreciation and quantification are still much of recent interest in the literature. Employing information-theoretic quantities can provide us with more insights and better understanding about them, as we have previously demonstrated. In this work, we examine the triplet-state aromaticity and antiaromaticity, which are governed by Baird's 4n rule, instead of Hückel's 4n + 2 rule for the singlet state. To this end, we have made use of 4 different aromaticity indexes and 8 information-theoretic quantities, examined a total of 22 substituted fulvene derivatives, and compared the results both in singlet and triplet states. It is found that cross-correlations of these two categories of molecular property descriptors enable us to better understand the nature and propensity of aromaticity and antiaromaticity for the triplet state. Our results have not only demonstrated the existence and validity of Baird's rule but also shown that Hückel's rule and Baird's rule indeed share the same theoretical foundation because with these cross-correlation patterns we are able to distinguish them from each other simultaneously in both singlet and triplet states. Our results should provide new insights into the nature of aromaticity and antiaromaticity in the triplet state and pave the road toward new ways to quantify this pair of important chemical concepts.
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Affiliation(s)
- Donghai Yu
- Key Laboratory of
Chemical Biology and Traditional Chinese Medicine Research (Ministry
of Education of China), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha 410081, China
- Research Group of General Chemistry (ALGC), Vrije Universiteit Brussel (VUB), Pleinlaan 2, 1050 Brussels, Belgium
| | - Chunying Rong
- Key Laboratory of
Chemical Biology and Traditional Chinese Medicine Research (Ministry
of Education of China), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha 410081, China
| | - Tian Lu
- Beijing Kein Research Center for Natural Sciences, Beijing 100022, China
| | - Frank De Proft
- Research Group of General Chemistry (ALGC), Vrije Universiteit Brussel (VUB), Pleinlaan 2, 1050 Brussels, Belgium
| | - Shubin Liu
- Research Computing Center, University of North Carolina, Chapel Hill, North Carolina 27599-3420, United States
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16
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Yu D, Du R, Xiao JC, Xu S, Rong C, Liu S. Theoretical Study of pKa Values for Trivalent Rare-Earth Metal Cations in Aqueous Solution. J Phys Chem A 2018; 122:700-707. [DOI: 10.1021/acs.jpca.7b12074] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Donghai Yu
- Key
Laboratory of Organofluorine Chemistry, Shanghai Institute of Organic
Chemistry, University of Chinese Academy of Sciences, Chinese Academy of Sciences, 345 Lingling Road, Shanghai 200032, China
- Key
Laboratory of Chemical Biology and Traditional Chinese Medicine Research
(Ministry of Education of China), College of Chemistry and Chemical
Engineering, Hunan Normal University, Changsha, Hunan 410081, China
| | - Ruobing Du
- Key
Laboratory of Organofluorine Chemistry, Shanghai Institute of Organic
Chemistry, University of Chinese Academy of Sciences, Chinese Academy of Sciences, 345 Lingling Road, Shanghai 200032, China
| | - Ji-Chang Xiao
- Key
Laboratory of Organofluorine Chemistry, Shanghai Institute of Organic
Chemistry, University of Chinese Academy of Sciences, Chinese Academy of Sciences, 345 Lingling Road, Shanghai 200032, China
| | - Shengming Xu
- Institute
of Nuclear and New Energy Technology, Tsinghua University, Beijing 100084, China
| | - Chunying Rong
- Key
Laboratory of Organofluorine Chemistry, Shanghai Institute of Organic
Chemistry, University of Chinese Academy of Sciences, Chinese Academy of Sciences, 345 Lingling Road, Shanghai 200032, China
| | - Shubin Liu
- Research
Computing Center, University of North Carolina, Chapel Hill, North Carolina 27599-3420, United States
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17
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Deng Y, Yu D, Cao X, Liu L, Rong C, Lu T, Liu S. Structure, aromaticity and reactivity of corannulene and its analogues: a conceptual density functional theory and density functional reactivity theory study. Mol Phys 2017. [DOI: 10.1080/00268976.2017.1403657] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Affiliation(s)
- Youer Deng
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, P.R. China
| | - Donghai Yu
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, P.R. China
| | - Xiaofang Cao
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, P.R. China
| | - Lianghong Liu
- Department of Pharmacy, Hunan University of Medicine, Huaihua, P.R. China
| | - Chunying Rong
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, P.R. China
| | - Tian Lu
- Beijing Kein Research Center for Natural Sciences, Beijing, P.R. China
| | - Shubin Liu
- Research Computing Center, University of North Carolina, Chapel Hill, NC, USA
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18
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Cao X, Rong C, Zhong A, Lu T, Liu S. Molecular acidity: An accurate description with information-theoretic approach in density functional reactivity theory. J Comput Chem 2017; 39:117-129. [PMID: 29076175 DOI: 10.1002/jcc.25090] [Citation(s) in RCA: 38] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2017] [Revised: 09/14/2017] [Accepted: 10/06/2017] [Indexed: 11/10/2022]
Abstract
Molecular acidity is one of the important physiochemical properties of a molecular system, yet its accurate calculation and prediction are still an unresolved problem in the literature. In this work, we propose to make use of the quantities from the information-theoretic (IT) approach in density functional reactivity theory and provide an accurate description of molecular acidity from a completely new perspective. To illustrate our point, five different categories of acidic series, singly and doubly substituted benzoic acids, singly substituted benzenesulfinic acids, benzeneseleninic acids, phenols, and alkyl carboxylic acids, have been thoroughly examined. We show that using IT quantities such as Shannon entropy, Fisher information, Ghosh-Berkowitz-Parr entropy, information gain, Onicescu information energy, and relative Rényi entropy, one is able to simultaneously predict experimental pKa values of these different categories of compounds. Because of the universality of the quantities employed in this work, which are all density dependent, our approach should be general and be applicable to other systems as well. © 2017 Wiley Periodicals, Inc.
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Affiliation(s)
- Xiaofang Cao
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research, (Ministry of Education of China), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, Hunan, 410081, People's Republic of China
| | - Chunying Rong
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research, (Ministry of Education of China), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, Hunan, 410081, People's Republic of China
| | - Aiguo Zhong
- School of Pharmaceutical and Chemical Engineering, Taizhou University, 1139 Shifu Road, Linhai, Zhejiang, 318000, People's Republic of China
| | - Tian Lu
- Beijing Kein Research Center for Natural Sciences, Beijing, 100022, People's Republic of China
| | - Shubin Liu
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research, (Ministry of Education of China), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, Hunan, 410081, People's Republic of China.,Research Computing Center, University of North Carolina, Chapel Hill, North Carolina, 27599-3420
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19
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Hu P, Chen L, Deming CP, Lu JE, Bonny LW, Chen S. Effects of para-substituents of styrene derivatives on their chemical reactivity on platinum nanoparticle surfaces. NANOSCALE 2016; 8:12013-12021. [PMID: 27242019 DOI: 10.1039/c6nr02296k] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
Stable platinum nanoparticles were successfully prepared by the self-assembly of para-substituted styrene derivatives onto the platinum surfaces as a result of platinum-catalyzed dehydrogenation and transformation of the vinyl groups to the acetylene ones, forming platinum-vinylidene/-acetylide interfacial bonds. Transmission electron microscopic measurements showed that the nanoparticles were well dispersed without apparent aggregation, suggesting sufficient protection of the nanoparticles by the organic capping ligands, and the average core diameter was estimated to be 2.0 ± 0.3 nm, 1.3 ± 0.2 nm, and 1.1 ± 0.2 nm for the nanoparticles capped with 4-tert-butylstyrene, 4-methoxystyrene, and 4-(trifluoromethyl)styrene, respectively, as a result of the decreasing rate of dehydrogenation with the increasing Taft (polar) constant of the para-substituents. Importantly, the resulting nanoparticles exhibited unique photoluminescence, where an increase of the Hammett constant of the para-substituents corresponded to a blue-shift of the photoluminescence emission, suggesting an enlargement of the HOMO-LUMO band gap of the nanoparticle-bound acetylene moieties. Furthermore, the resulting nanoparticles exhibited apparent electrocatalytic activity towards oxygen reduction in acidic media, with the best performance among the series of samples observed with the 4-tert-butylstyrene-capped nanoparticles due to an optimal combination of the nanoparticle core size and ligand effects on the bonding interactions between platinum and oxygen species.
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Affiliation(s)
- Peiguang Hu
- Department of Chemistry and Biochemistry, University of California, 1156 High Street, Santa Cruz, California 95064, USA.
| | - Limei Chen
- Department of Chemistry and Biochemistry, University of California, 1156 High Street, Santa Cruz, California 95064, USA.
| | - Christopher P Deming
- Department of Chemistry and Biochemistry, University of California, 1156 High Street, Santa Cruz, California 95064, USA.
| | - Jia-En Lu
- Department of Chemistry and Biochemistry, University of California, 1156 High Street, Santa Cruz, California 95064, USA.
| | - Lewis W Bonny
- Department of Chemistry and Biochemistry, University of California, 1156 High Street, Santa Cruz, California 95064, USA.
| | - Shaowei Chen
- Department of Chemistry and Biochemistry, University of California, 1156 High Street, Santa Cruz, California 95064, USA.
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20
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Tognetti V, Morell C, Joubert L. Quantifying electro/nucleophilicity by partitioning the dual descriptor. J Comput Chem 2015; 36:649-59. [PMID: 25649932 DOI: 10.1002/jcc.23840] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2014] [Revised: 12/19/2014] [Accepted: 12/20/2014] [Indexed: 12/28/2022]
Abstract
Translating local electro/nucleophilicities into the language of reactive sites is an appealing theoretical challenge that could be conducive to strengthen the collaborative dialogue between experimentalists and quantum chemists. The usual schemes for such condensation, relying on atomic charges, may however lead to important information loss, due to a sometimes inappropriate averaging of the reactivity anisotropy. In this article, we present instead an approach based on the dual descriptor Δf, which aims at partitioning real space into nonoverlapping reactive domains that feature a constant Δf sign. This strategy enables not only to identify the nucleo/electrophilic regions inside a molecule but also to quantify meaningful properties (mean value, volume, electron population…). Its interest is then illustrated on two specific chemical problems: the measure of σ-holes in the context of halogen bonds, and of the electrophilicity of organic carbocations, casting the light on the versatility of this method.
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Affiliation(s)
- Vincent Tognetti
- Normandy University, COBRA UMR 6014 & FR 3038, Université de Rouen, INSA Rouen, CNRS, 1 rue Tesniére, 76821, Mont St Aignan, Cedex, France
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21
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Rong C, Lu T, Ayers PW, Chattaraj PK, Liu S. Scaling properties of information-theoretic quantities in density functional reactivity theory. Phys Chem Chem Phys 2015; 17:4977-88. [DOI: 10.1039/c4cp05609d] [Citation(s) in RCA: 59] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A number of strong linear correlations between information-theoretic quantities and electron populations for atoms, molecules, and atoms-in-molecules have been disclosed.
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Affiliation(s)
- Chunying Rong
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China)
- College of Chemistry and Chemical Engineering
- Hunan Normal University
- Changsha Hunan 410081
- China
| | - Tian Lu
- Beijing Kein Research Center for Natural Sciences
- Beijing 100022
- P. R. China
| | - Paul W. Ayers
- Department of Chemistry
- McMaster University
- Hamilton
- Canada
| | - Pratim K. Chattaraj
- Department of Chemistry and Center for Theoretical Studies
- Indian Institute of Technology
- Kharagpur 721302
- India
| | - Shubin Liu
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China)
- College of Chemistry and Chemical Engineering
- Hunan Normal University
- Changsha Hunan 410081
- China
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22
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Wu Z, Rong C, Lu T, Ayers PW, Liu S. Density functional reactivity theory study of SN2 reactions from the information-theoretic perspective. Phys Chem Chem Phys 2015; 17:27052-61. [DOI: 10.1039/c5cp04442a] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Strong linear correlations were unveiled between barrier heights of bimolecular nucleophilic substitution (SN2) reactions and quantities from the information-theoretic approach.
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Affiliation(s)
- Zemin Wu
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China)
- College of Chemistry and Chemical Engineering
- Hunan Normal University
- Changsha Hunan 410081
- China
| | - Chunying Rong
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China)
- College of Chemistry and Chemical Engineering
- Hunan Normal University
- Changsha Hunan 410081
- China
| | - Tian Lu
- Beijing Kein Research Center for Natural Sciences
- Beijing 100022
- P. R. China
| | - Paul W. Ayers
- Department of Chemistry
- McMaster University
- Hamilton
- Canada L8S 4M1
| | - Shubin Liu
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research (Ministry of Education of China)
- College of Chemistry and Chemical Engineering
- Hunan Normal University
- Changsha Hunan 410081
- China
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23
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Razak NA, Yusof NSM, Khan MN. Kinetics and mechanism of nanoparticles (CTABr/MX/H2O)-catalyzed piperidinolysis of ionized phenyl salicylate. 1. J Taiwan Inst Chem Eng 2014. [DOI: 10.1016/j.jtice.2014.07.011] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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24
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Abstract
Computational prediction of condensed phase acidity is a topic of much interest in the field today. We introduce the methods available for predicting gas phase acidity and pKas in aqueous and non-aqueous solvents including high-level electronic structure methods, empirical linear free energy relationships (LFERs), implicit solvent methods, explicit solvent statistical free energy methods, and hybrid implicit–explicit approaches. The focus of this paper is on implicit solvent methods, and we review recent developments including new electronic structure methods, cluster-continuum schemes for calculating ionic solvation free energies, as well as address issues relating to the choice of proton solvation free energy to use with implicit solvation models, and whether thermodynamic cycles are necessary for the computation of pKas. A comparison of the scope and accuracy of implicit solvent methods with ab initio molecular dynamics free energy methods is also presented. The present status of the theory and future directions are outlined.
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25
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Ménová P, Dvořáková H, Eigner V, Ludvík J, Cibulka R. Electron-Deficient Alloxazinium Salts: Efficient Organocatalysts of Mild and Chemoselective Sulfoxidations with Hydrogen Peroxide. Adv Synth Catal 2013. [DOI: 10.1002/adsc.201300617] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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26
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ZHAO DONGBO, RONG CHUNYING, YIN DULIN, LIU SHUBIN. MOLECULAR ACIDITY OF BUILDING BLOCKS OF BIOLOGICAL SYSTEMS: A DENSITY FUNCTIONAL REACTIVITY THEORY STUDY. JOURNAL OF THEORETICAL & COMPUTATIONAL CHEMISTRY 2013. [DOI: 10.1142/s021963361350034x] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Abstract
An accurate prediction of the molecular acidity by employing ab initio or density functional approaches for typical molecular systems is still challenging. Recently, we proposed to utilize two quantum descriptors, molecular electrostatic potential (MEP) and the sum of valence natural atomic orbital (NAO) energies on the nucleus of both the acidic atom and leaving proton, to quantitatively evaluate the pKa values. This new approach has been validated by a number of organic and inorganic systems and justified within the framework of density functional reactivity theory (DFRT). In this work, we apply the approach to building blocks of biological systems, namely, 20 natural α-amino acids and 5 DNA/RNA bases, together with a few other biologically relevant species. Our results show that there exists a strong linear correlation between MEP on the nucleus of the N atom and the sum of N 2p NAO energies, with the correlation coefficient R2 = 0.99. Also, we observe that both MEP on the nitrogen nucleus and the sum of N 2p NAO energies correlate well with experimental pKa values, with the correlation coefficient equal to 0.91. Using this established model, we predicted the trend of pKa changes of amino acids in proteins with different dielectric constants. We also applied the model to predict pKa values for dipeptides. Implications of these linear relationships to understand functions and reactivity of biological systems are discussed as well.
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Affiliation(s)
- DONGBO ZHAO
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research, Ministry of Education of China and Key Laboratory of Resource Fine-Processing and Advanced Materials of Hunan Province, College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, Hunan 410081, P. R. China
| | - CHUNYING RONG
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research, Ministry of Education of China and Key Laboratory of Resource Fine-Processing and Advanced Materials of Hunan Province, College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, Hunan 410081, P. R. China
| | - DULIN YIN
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research, Ministry of Education of China and Key Laboratory of Resource Fine-Processing and Advanced Materials of Hunan Province, College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, Hunan 410081, P. R. China
| | - SHUBIN LIU
- Key Laboratory of Chemical Biology and Traditional Chinese Medicine Research, Ministry of Education of China and Key Laboratory of Resource Fine-Processing and Advanced Materials of Hunan Province, College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha, Hunan 410081, P. R. China
- Research Computing Center, University of North Carolina, Chapel Hill, North Carolina 27599-3420, USA
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27
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A theoretical study on the gas-phase protonation of pyridine and phosphinine derivatives. J Mol Model 2013; 19:4049-58. [PMID: 23892566 DOI: 10.1007/s00894-013-1925-6] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2012] [Accepted: 06/16/2013] [Indexed: 10/26/2022]
Abstract
In this paper, we study the protonation of pyridine and phosphinine derivatives. In particular, the geometries, the amount of charge transfer, and the nature of the created N-H and P-H bonds are discussed, underlying the fundamental differences between the phosphorus and the nitrogen atoms as proton acceptors. Conceptual density functional theory and Bader's quantum theory of atoms-in-molecules are notably used to rationalize these trends and to predict the overall energies of these prototype gas-phase acid-base reactions.
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28
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Sčavničar A, Balaban AT, Pompe M. Application of variable anti-connectivity index to active sites. Modelling pK(a) values of aliphatic monocarboxylic acids. SAR AND QSAR IN ENVIRONMENTAL RESEARCH 2013; 24:553-63. [PMID: 23297770 DOI: 10.1080/1062936x.2012.751552] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
A partial distance-weighted variable anti-connectivity topological index was introduced for modelling pK(a) values of 31 aliphatic carboxylic acids and haloalkyl-carboxylic acids. The partial distance-weighted variable anti-connectivity index showed superior modelling capabilities compared with the index calculated from the complete graph, because it is capable of accounting correctly for the intramolecular interactions of unconnected vertices to specific bond strengths (active site), thereby improving the RMS(CV) error by about 30% (0.221 pK(a) units).
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Affiliation(s)
- A Sčavničar
- Faculty of Chemistry and Chemical Technology, University of Ljubljana, Ljubljana, Slovenia
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29
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Affiliation(s)
- Luis Rincón
- Departamento
de Química, Facultad de Ciencias, Universidad de Los Andes, La Hechicera, Merida-5101,
Venezuela
| | - Rafael Almeida
- Departamento
de Química, Facultad de Ciencias, Universidad de Los Andes, La Hechicera, Merida-5101,
Venezuela
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30
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Alipour M, Mohajeri A. From density functional steric analysis and molecular electrostatic potential to the estimation of etherification rate constant. J PHYS ORG CHEM 2012. [DOI: 10.1002/poc.2921] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Mojtaba Alipour
- Department of Chemistry, College of Sciences; Shiraz University; Shiraz; 71454; Iran
| | - Afshan Mohajeri
- Department of Chemistry, College of Sciences; Shiraz University; Shiraz; 71454; Iran
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31
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Huang Y, Liu L, Liu S. Towards understanding proton affinity and gas-phase basicity with density functional reactivity theory. Chem Phys Lett 2012. [DOI: 10.1016/j.cplett.2012.01.014] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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