1
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Escayola S, Bahri-Laleh N, Poater A. % VBur index and steric maps: from predictive catalysis to machine learning. Chem Soc Rev 2024; 53:853-882. [PMID: 38113051 DOI: 10.1039/d3cs00725a] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2023]
Abstract
Steric indices are parameters used in chemistry to describe the spatial arrangement of atoms or groups of atoms in molecules. They are important in determining the reactivity, stability, and physical properties of chemical compounds. One commonly used steric index is the steric hindrance, which refers to the obstruction or hindrance of movement in a molecule caused by bulky substituents or functional groups. Steric hindrance can affect the reactivity of a molecule by altering the accessibility of its reactive sites and influencing the geometry of its transition states. Notably, the Tolman cone angle and %VBur are prominent among these indices. Actually, steric effects can also be described using the concept of steric bulk, which refers to the space occupied by a molecule or functional group. Steric bulk can affect the solubility, melting point, boiling point, and viscosity of a substance. Even though electronic indices are more widely used, they have certain drawbacks that might shift preferences towards others. They present a higher computational cost, and often, the weight of electronics in correlation with chemical properties, e.g. binding energies, falls short in comparison to %VBur. However, it is worth noting that this may be because the steric index inherently captures part of the electronic content. Overall, steric indices play an important role in understanding the behaviour of chemical compounds and can be used to predict their reactivity, stability, and physical properties. Predictive chemistry is an approach to chemical research that uses computational methods to anticipate the properties and behaviour of these compounds and reactions, facilitating the design of new compounds and reactivities. Within this domain, predictive catalysis specifically targets the prediction of the performance and behaviour of catalysts. Ultimately, the goal is to identify new catalysts with optimal properties, leading to chemical processes that are both more efficient and sustainable. In this framework, %VBur can be a key metric for deepening our understanding of catalysis, emphasizing predictive catalysis and sustainability. Those latter concepts are needed to direct our efforts toward identifying the optimal catalyst for any reaction, minimizing waste, and reducing experimental efforts while maximizing the efficacy of the computational methods.
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Affiliation(s)
- Sílvia Escayola
- Institut de Química Computacional i Catàlisi and Departament de Química, Universitat de Girona, c/Mª Aurèlia Capmany 69, 17003 Girona, Catalonia, Spain.
- Donostia International Physics Center (DIPC), 20018 Donostia, Euskadi, Spain
| | - Naeimeh Bahri-Laleh
- Iran Polymer and Petrochemical Institute (IPPI), P.O. Box 14965/115, Tehran, Iran
- Institute for Sustainability with Knotted Chiral Meta Matter (WPI-SKCM), Hiroshima University, Hiroshima, 739-8526, Japan
| | - Albert Poater
- Institut de Química Computacional i Catàlisi and Departament de Química, Universitat de Girona, c/Mª Aurèlia Capmany 69, 17003 Girona, Catalonia, Spain.
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2
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Nishijima M, Sasano Y, Iwabuchi Y, Araki Y. Comprehensive Structural and Electronic Properties of 2-Azaadamantane N-Oxyl Derivatives Correlated with Their Catalytic Ability. ACS OMEGA 2023; 8:49067-49072. [PMID: 38162740 PMCID: PMC10753544 DOI: 10.1021/acsomega.3c06902] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/10/2023] [Revised: 11/22/2023] [Accepted: 11/23/2023] [Indexed: 01/03/2024]
Abstract
Herein, a comprehensive kinetic study is performed to compare the catalytic efficiency of 2-azaadamantane N-oxyl (AZADO) derivatives with that of 2,2,6,6-tetramethylpiperidine N-oxyl (TEMPO) used as radical catalysts in the aerobic oxidation of l-menthol. Furthermore, the correlation between the catalytic activity and structural/electronic parameters of AZADOs and TEMPO is elucidated. The reaction rate constants achieved with several AZADO derivatives exhibit moderate relationships with spectroscopic parameters, such as the hyperfine coupling constant of the N atom (AN) and NO stretching vibration frequency (νNO) observed in electron spin resonance and infrared spectra, respectively. The planarity C-(NO)-C angle (φ) at the N atom, determined by density functional theory (DFT) calculations, also strongly correlates with the AN and νNO. Moreover, the bond order of NO, which strongly depends on the structural and electronic properties of NO radicals, correlates with radical activity; thus, the radical activity can be predicted by DFT calculations, thereby accelerating the synthesis of new AZADO derivatives without requiring alcohol oxidation experiments.
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Affiliation(s)
- Masaki Nishijima
- Institute
of Multidisciplinary Research for Advanced Materials (IMRAM), Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai, Miyagi 980-8577, Japan
- Department
of Chemistry, Graduate School of Science, Tohoku University, Sendai 980-8578, Japan
| | - Yusuke Sasano
- Graduate
School of Pharmaceutical Sciences, Tohoku
University, 6-3 Aza-aoba,
Aramaki, Aoba-ku, Sendai 980-8578, Japan
| | - Yoshiharu Iwabuchi
- Graduate
School of Pharmaceutical Sciences, Tohoku
University, 6-3 Aza-aoba,
Aramaki, Aoba-ku, Sendai 980-8578, Japan
| | - Yasuyuki Araki
- Institute
of Multidisciplinary Research for Advanced Materials (IMRAM), Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai, Miyagi 980-8577, Japan
- Department
of Chemistry, Graduate School of Science, Tohoku University, Sendai 980-8578, Japan
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3
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Starosta R. Tris(aminomethyl)phosphines and Their Copper(I) (Pseudo)halide Complexes with Aromatic Diimines-A Critical Retrospection. Pharmaceuticals (Basel) 2023; 16:ph16050766. [PMID: 37242549 DOI: 10.3390/ph16050766] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2023] [Revised: 05/16/2023] [Accepted: 05/17/2023] [Indexed: 05/28/2023] Open
Abstract
Metal complexes feature a wide range of available geometries, diversified lability, controllable hydrolytic stability, and easily available rich redox activity. These characteristics, combined with the specific properties of coordinated organic molecules, result in many different mechanisms of biological action, making each of the myriads of the classes of metal coordination compounds unique. This focused review presents combined and systematized results of the studies of a group of copper(I) (pseudo)halide complexes with aromatic diimines and tris(aminomethyl)phosphines of a general formula [CuX(NN)PR3], where X = I- or NCS-, NN = 2,2'-bipyridyl, 1,10-phenanthroline, 2,9-dimethyl-1,10-phenanthroline or 2,2'-biquinoline, and PR3 = air-stable tris(aminomethyl)phosphines. The structural and electronic properties of the phosphine ligands and luminescent complexes are discussed. The complexes with 2,9-dimethyl-1,10-phenanthroline, apart from being air- and water-stable, exhibit a very high in vitro antimicrobial activity against the Staphylococcus aureus and Candida albicans. Moreover, some of these complexes also show a strong in vitro antitumor activity against human ovarian carcinoma cell lines: MDAH 2774 and SCOV 3, CT26 (mouse colon carcinoma), and A549 (human lung adenocarcinoma) cell lines. The tested complexes are moderately able to induce DNA lesions through free radical processes, however the trends do not reflect observed differences in biological activity.
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Affiliation(s)
- Radosław Starosta
- Faculty of Chemistry, University of Wroclaw, F. Joliot-Curie 14, 50-383 Wroclaw, Poland
- Centro de Química Estrutural, Institute of Molecular Sciences, Faculdade de Ciências da Universidade de Lisboa, Campo Grande, 1749-016 Lisboa, Portugal
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4
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Krishnapriya VU, Suresh CH. Imidazolin-2-imine and Imidazolin-2-methylidene Substitutions to Benzene, Pyridine, Phosphine, and N-Heterocyclic Carbene Predict Highly Electron-rich Ligands. Organometallics 2023. [DOI: 10.1021/acs.organomet.2c00666] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/29/2023]
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5
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Patel TR, Ganguly B. Metal‐Free Catalytic Functionalization of Second −
C
sp
2
−H Bond of 1‐Methyl Pyrrole Using Bishomocubane‐Derived Aminoborane Frustrated Lewis Pairs: A Computational Study. ChemistrySelect 2023. [DOI: 10.1002/slct.202202728] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Affiliation(s)
- Tulsi R. Patel
- Computation and Simulation Unit (Analytical & Environmental Science Division and Centralized Instrument Facility) CSIR-Central Salt & Marine Chemicals Research Institute Bhavnagar 364 002 Gujarat India
- Academy of Scientific and Innovative Research (AcSIR) Ghaziabad 201002 India
| | - Bishwajit Ganguly
- Computation and Simulation Unit (Analytical & Environmental Science Division and Centralized Instrument Facility) CSIR-Central Salt & Marine Chemicals Research Institute Bhavnagar 364 002 Gujarat India
- Academy of Scientific and Innovative Research (AcSIR) Ghaziabad 201002 India
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6
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Suresh CH, Remya GS, Anjalikrishna PK. Molecular electrostatic potential analysis: A powerful tool to interpret and predict chemical reactivity. WIRES COMPUTATIONAL MOLECULAR SCIENCE 2022. [DOI: 10.1002/wcms.1601] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Cherumuttathu H. Suresh
- Chemical Sciences and Technology Division CSIR‐National Institute for Interdisciplinary Science and Technology Thiruvananthapuram Kerala India
- Academy of Scientific and Innovative Research (AcSIR) Ghaziabad India
| | - Geetha S. Remya
- Chemical Sciences and Technology Division CSIR‐National Institute for Interdisciplinary Science and Technology Thiruvananthapuram Kerala India
- Academy of Scientific and Innovative Research (AcSIR) Ghaziabad India
| | - Puthannur K. Anjalikrishna
- Chemical Sciences and Technology Division CSIR‐National Institute for Interdisciplinary Science and Technology Thiruvananthapuram Kerala India
- Academy of Scientific and Innovative Research (AcSIR) Ghaziabad India
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7
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Gensch T, Dos Passos Gomes G, Friederich P, Peters E, Gaudin T, Pollice R, Jorner K, Nigam A, Lindner-D'Addario M, Sigman MS, Aspuru-Guzik A. A Comprehensive Discovery Platform for Organophosphorus Ligands for Catalysis. J Am Chem Soc 2022; 144:1205-1217. [PMID: 35020383 DOI: 10.1021/jacs.1c09718] [Citation(s) in RCA: 68] [Impact Index Per Article: 34.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
The design of molecular catalysts typically involves reconciling multiple conflicting property requirements, largely relying on human intuition and local structural searches. However, the vast number of potential catalysts requires pruning of the candidate space by efficient property prediction with quantitative structure-property relationships. Data-driven workflows embedded in a library of potential catalysts can be used to build predictive models for catalyst performance and serve as a blueprint for novel catalyst designs. Herein we introduce kraken, a discovery platform covering monodentate organophosphorus(III) ligands providing comprehensive physicochemical descriptors based on representative conformer ensembles. Using quantum-mechanical methods, we calculated descriptors for 1558 ligands, including commercially available examples, and trained machine learning models to predict properties of over 300000 new ligands. We demonstrate the application of kraken to systematically explore the property space of organophosphorus ligands and how existing data sets in catalysis can be used to accelerate ligand selection during reaction optimization.
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Affiliation(s)
- Tobias Gensch
- Department of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States.,Department of Chemistry, TU Berlin, Straße des 17. Juni 135, Sekr. C2, 10623 Berlin, Germany
| | - Gabriel Dos Passos Gomes
- Chemical Physics Theory Group, Department of Chemistry, University of Toronto, 80 St. George St., Toronto, Ontario M5S 3H6, Canada.,Department of Computer Science, University of Toronto, 214 College St., Toronto, Ontario M5T 3A1, Canada.,Vector Institute for Artificial Intelligence, 661 University Ave. Suite 710, Toronto, Ontario M5G 1M1, Canada
| | - Pascal Friederich
- Chemical Physics Theory Group, Department of Chemistry, University of Toronto, 80 St. George St., Toronto, Ontario M5S 3H6, Canada.,Department of Computer Science, University of Toronto, 214 College St., Toronto, Ontario M5T 3A1, Canada.,Institute of Nanotechnology, Karlsruhe Institute of Technology, Hermann-von-Helmholtz-Platz 1, 76344 Eggenstein-Leopoldshafen, Germany
| | - Ellyn Peters
- Department of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
| | - Théophile Gaudin
- Department of Computer Science, University of Toronto, 214 College St., Toronto, Ontario M5T 3A1, Canada.,IBM Research Zurich, Säumerstrasse 4, 8803 Rüschlikon, Switzerland
| | - Robert Pollice
- Chemical Physics Theory Group, Department of Chemistry, University of Toronto, 80 St. George St., Toronto, Ontario M5S 3H6, Canada.,Department of Computer Science, University of Toronto, 214 College St., Toronto, Ontario M5T 3A1, Canada
| | - Kjell Jorner
- Chemical Physics Theory Group, Department of Chemistry, University of Toronto, 80 St. George St., Toronto, Ontario M5S 3H6, Canada.,Department of Computer Science, University of Toronto, 214 College St., Toronto, Ontario M5T 3A1, Canada.,Early Chemical Development, Pharmaceutical Sciences, R&D, AstraZeneca, Macclesfield K10 2NA, United Kingdom
| | - AkshatKumar Nigam
- Chemical Physics Theory Group, Department of Chemistry, University of Toronto, 80 St. George St., Toronto, Ontario M5S 3H6, Canada.,Department of Computer Science, University of Toronto, 214 College St., Toronto, Ontario M5T 3A1, Canada
| | - Michael Lindner-D'Addario
- Chemical Physics Theory Group, Department of Chemistry, University of Toronto, 80 St. George St., Toronto, Ontario M5S 3H6, Canada.,Department of Computer Science, University of Toronto, 214 College St., Toronto, Ontario M5T 3A1, Canada
| | - Matthew S Sigman
- Department of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112, United States
| | - Alán Aspuru-Guzik
- Chemical Physics Theory Group, Department of Chemistry, University of Toronto, 80 St. George St., Toronto, Ontario M5S 3H6, Canada.,Department of Computer Science, University of Toronto, 214 College St., Toronto, Ontario M5T 3A1, Canada.,Vector Institute for Artificial Intelligence, 661 University Ave. Suite 710, Toronto, Ontario M5G 1M1, Canada.,Lebovic Fellow, Canadian Institute for Advanced Research (CIFAR), 661 University Ave., Toronto, Ontario M5G, Canada
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8
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Sayyed FB, Kolis SP, Xia H. Quantum Mechanical Methods for Thermal Hazard Risk Assessment in Early Phase Pharmaceutical Development. Org Process Res Dev 2022. [DOI: 10.1021/acs.oprd.1c00391] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Fareed Bhasha Sayyed
- Synthetic Molecule Design & Development, Eli Lilly Services India Pvt Ltd., Devarabeesanahalli, Bengaluru 560103, India
| | - Stanley P. Kolis
- Synthetic Molecule Design & Development, Eli Lilly and Company, Lilly Corporate Center, Indianapolis, Indiana 46285, United States
| | - Han Xia
- Synthetic Molecule Design & Development, Eli Lilly and Company, Lilly Corporate Center, Indianapolis, Indiana 46285, United States
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9
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Patel TR, Ganguly B. Metal‐free catalytic activation and borylation of the ––H bond of 1‐methyl pyrrole using adamantane‐derived aminoborane frustrated Lewis pairs: A density functional theory study. J PHYS ORG CHEM 2021. [DOI: 10.1002/poc.4250] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
Affiliation(s)
- Tulsi R. Patel
- Computation and Simulation Unit, Analytical and Environmental Science Division and Centralized Instrument Facility CSIR‐Central Salt & Marine Chemicals Research Institute Bhavnagar India
- Academy of Scientific and Innovative Research (AcSIR) Ghaziabad India
| | - Bishwajit Ganguly
- Computation and Simulation Unit, Analytical and Environmental Science Division and Centralized Instrument Facility CSIR‐Central Salt & Marine Chemicals Research Institute Bhavnagar India
- Academy of Scientific and Innovative Research (AcSIR) Ghaziabad India
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10
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Divya VV, Suresh CH. Tuning the donating strength of dye sensitizers using molecular electrostatic potential analysis. NEW J CHEM 2021. [DOI: 10.1039/d0nj04797j] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The significance of electron releasing groups at the donors of D–π–A systems for improving the donating strength and power conversion efficiency of photosensitizers.
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Affiliation(s)
- Velayudhan V. Divya
- Chemical Sciences and Technology Division
- CSIR-National Institute for Interdisciplinary Science and Technology
- Thiruvananthapuram
- India
- Academy of Scientific and Innovative Research (AcSIR)
| | - Cherumuttathu H. Suresh
- Chemical Sciences and Technology Division
- CSIR-National Institute for Interdisciplinary Science and Technology
- Thiruvananthapuram
- India
- Academy of Scientific and Innovative Research (AcSIR)
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11
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Hesabi N, Ebrahimi A. The electrochemical properties and PIM1 kinase enzyme inhibition of some 2-(hydroxy phenyl amino) naphthalene-1,4-dione derivatives. J Mol Liq 2020. [DOI: 10.1016/j.molliq.2020.112874] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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12
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Divya VV, Suresh CH. Density functional theory study on the donating strength of donor systems in dye-sensitized solar cells. NEW J CHEM 2020. [DOI: 10.1039/d0nj00723d] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Donating strength of typically used donors in dye-sensitized solar cells.
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Affiliation(s)
- Velayudhan V. Divya
- Chemical Sciences and Technology Division
- CSIR-National Institute for Interdisciplinary Science and Technology (CSIR-NIIST)
- Thiruvananthapuram
- India
- Academy of Scientific and Innovative Research (AcSIR)
| | - Cherumuttathu H. Suresh
- Chemical Sciences and Technology Division
- CSIR-National Institute for Interdisciplinary Science and Technology (CSIR-NIIST)
- Thiruvananthapuram
- India
- Academy of Scientific and Innovative Research (AcSIR)
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13
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Saberi F, Ostovar S, Behazin R, Rezvani A, Ebrahimi A, Shaterian HR. Insight into 6-aminopenicillanic acid structure and study of the quantum mechanical calculations of the acid–base site on γ-Fe 2O 3@SiO 2 core–shell nanocomposites and as efficient catalysts in multicomponent reactions. NEW J CHEM 2020. [DOI: 10.1039/d0nj02942d] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
Magnetic 6-APA/γ-Fe2O3@Sio2 nanocomposites have been developed by exploiting the potential of the acid–base bifunctional system to study the quantum mechanistic calculations.
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Affiliation(s)
- Farveh Saberi
- Department of Chemistry
- University of Sistan and Baluchestan
- Faculty of Sciences
- Zahedan
- Iran
| | - Somayeh Ostovar
- Department of Chemistry
- University of Sistan and Baluchestan
- Faculty of Sciences
- Zahedan
- Iran
| | - Roya Behazin
- Department of Chemistry
- University of Sistan and Baluchestan
- Faculty of Sciences
- Zahedan
- Iran
| | - Alireza Rezvani
- Department of Chemistry
- University of Sistan and Baluchestan
- Faculty of Sciences
- Zahedan
- Iran
| | - Ali Ebrahimi
- Department of Chemistry
- University of Sistan and Baluchestan
- Faculty of Sciences
- Zahedan
- Iran
| | - Hamid Reza Shaterian
- Department of Chemistry
- University of Sistan and Baluchestan
- Faculty of Sciences
- Zahedan
- Iran
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14
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Zhang J, Li X. Intramolecular hydrogen bonding, π-π stacking interactions, and substituent effects of 8-hydroxyquinoline derivative supermolecular structures: a theoretical study. J Mol Model 2019; 25:241. [DOI: 10.1007/s00894-019-4140-2] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2019] [Accepted: 07/14/2019] [Indexed: 10/26/2022]
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15
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Divya VV, Sayyed FB, Suresh CH. Substituent Effect Transmission Power of Alkyl, Alkenyl, Alkynyl, Phenyl, Thiophenyl, and Polyacene Spacers. Chemphyschem 2019; 20:1752-1758. [PMID: 30973660 DOI: 10.1002/cphc.201900206] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2019] [Indexed: 11/08/2022]
Abstract
The transmission of substituent effect through a variety of spacers, that is to say, alkyl, alkenyl, alkynyl, phenyl, thiophenyl, and polyacene has been studied by modeling Y-G-X type molecular systems (Y: reaction center; G: spacer moiety; X: substituent) using B3LYP/6-31G(d,p) density functional theory calculations. The reaction center is always kept as a C=C double bond and the molecular electrostatic potential (MESP) minimum (Vmin ) observed for this bond showed subtle variation with respect to the changes in the spacer unit and the nature of substituent. Strong linear correlations are observed between Hammett substituent constants (σI and σp ) and Vmin , which recommend the aptness of Vmin as an electronic descriptor to quantify the substituent effect. Since Vmin offers an alternative measure of substituent effect, the correlation between Vmin and σp has been used for assessing the transmission of substituent effect through a variety of spacer moieties. The highest transmission coefficient (γ) is always observed for smaller spacer length. Among all the spacers, alkenyl showed the highest and alkyl showed the lowest transmission power. The study recommends the use of short chains of C=C double, C≡C triple or a combination of both as spacers for the effective transmission of substituent effect to the reaction center.
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Affiliation(s)
- Velayudhan V Divya
- Chemical Sciences and Technology Division, CSIR - National Institute for Interdisciplinary Science and Technology Thiruvananthapuram, Kerala, 695 019, India.,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad-, 201002, India
| | - Fareed Bhasha Sayyed
- Chemical Sciences and Technology Division, CSIR - National Institute for Interdisciplinary Science and Technology Thiruvananthapuram, Kerala, 695 019, India
| | - Cherumuttathu H Suresh
- Chemical Sciences and Technology Division, CSIR - National Institute for Interdisciplinary Science and Technology Thiruvananthapuram, Kerala, 695 019, India.,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad-, 201002, India
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16
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Abstract
Ligands, especially phosphines and carbenes, can play a key role in modifying and controlling homogeneous organometallic catalysts, and they often provide a convenient approach to fine-tuning the performance of known catalysts. The measurable outcomes of such catalyst modifications (yields, rates, selectivity) can be set into context by establishing their relationship to steric and electronic descriptors of ligand properties, and such models can guide the discovery, optimization, and design of catalysts. In this review we present a survey of calculated ligand descriptors, with a particular focus on homogeneous organometallic catalysis. A range of different approaches to calculating steric and electronic parameters are set out and compared, and we have collected descriptors for a range of representative ligand sets, including 30 monodentate phosphorus(III) donor ligands, 23 bidentate P,P-donor ligands, and 30 carbenes, with a view to providing a useful resource for analysis to practitioners. In addition, several case studies of applications of such descriptors, covering both maps and models, have been reviewed, illustrating how descriptor-led studies of catalysis can inform experiments and highlighting good practice for model comparison and evaluation.
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Affiliation(s)
- Derek J Durand
- School of Chemistry , University of Bristol , Cantock's Close , Bristol BS8 1TS , U.K
| | - Natalie Fey
- School of Chemistry , University of Bristol , Cantock's Close , Bristol BS8 1TS , U.K
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17
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Parrish KA, King M, Ligare MR, Johnson GE, Hernández H. Role of sterics in phosphine-ligated gold clusters. Phys Chem Chem Phys 2019; 21:1689-1699. [DOI: 10.1039/c8cp04961k] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
This study examined the solution-phase exchange reactions of triphenylphosphine (PPh3) ligands on Au8L72+ (L = PPh3) gold clusters with three different tolyl ligands using electrospray ionization mass spectrometry to provide insight into how steric differences in the phosphines influence the extent of ligand exchange and the stability of the resulting mixed-phosphine clusters.
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Affiliation(s)
| | - Mary King
- Department of Chemistry
- University of Texas at Austin
- Austin
- USA
| | - Marshall R. Ligare
- Physical Sciences Division
- Pacific Northwest National Laboratory
- Richland
- USA
| | - Grant E. Johnson
- Physical Sciences Division
- Pacific Northwest National Laboratory
- Richland
- USA
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18
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Behazin R, Ebrahimi A. The physicochemical properties and tyrosinase inhibitory activity of ectoine and its analogues: A theoretical study. COMPUT THEOR CHEM 2018. [DOI: 10.1016/j.comptc.2018.03.003] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
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19
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Remya GS, Suresh CH. Quantification and classification of substituent effects in organic chemistry: a theoretical molecular electrostatic potential study. Phys Chem Chem Phys 2018; 18:20615-26. [PMID: 27412764 DOI: 10.1039/c6cp02936a] [Citation(s) in RCA: 72] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
Substituent effects in organic chemistry are generally described in terms of experimentally derived Hammett parameters whereas a convenient theoretical tool to study these effects in π-conjugated molecular systems is molecular electrostatic potential (MESP) analysis. The present study shows that the difference between MESP at the nucleus of the para carbon of substituted benzene and a carbon atom in benzene, designated as ΔVC, is very useful to quantify and classify substituent effects. On the basis of positive and negative ΔVC values, a broad classification of around 381 substituents into electron withdrawing and donating categories is made. Each category is again sorted based on the magnitude of ΔVC into subcategories such as very strong, strong, medium, and weak electron donating/withdrawing. Furthermore, the data are used to show the transferability and additivity of substituent effects in π-conjugated organic molecules such as condensed aromatic, olefinic, acetylenic, and heterocyclic systems. The transferability properties hold good for ΔVC in all these molecular systems. The additive properties of substituent effects are strongly reflected on ΔVC and the predictive power of the data to assign the total substituent effects of multi-substituted systems is verified. The ΔVC data and the present classification of substituents are very useful to design π-conjugated organic molecular systems with desired electron rich/poor character.
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Affiliation(s)
- Geetha S Remya
- Chemical Sciences and Technology Division, CSIR-National Institute for Interdisciplinary Science and Technology, Thiruvananthapuram, 695 019, India.
| | - Cherumuttathu H Suresh
- Chemical Sciences and Technology Division, CSIR-National Institute for Interdisciplinary Science and Technology, Thiruvananthapuram, 695 019, India.
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20
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Biswas AK, Si MK, Ganguly B. The effect of σ/π, σ and π donors on the basicity of silylene superbases: a density functional theory study. NEW J CHEM 2018. [DOI: 10.1039/c8nj00263k] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In this study, we examined computationally that the combination of π-and σ-donor substituents results in higher basicity of silylene compounds compared to the usage of π-donor substituents alone.
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Affiliation(s)
- Abul Kalam Biswas
- Analytical Discipline and Centralized Instrument Facility
- Academy of Scientific and Innovative Research
- CSIR–Central Salt & Marine Chemicals Research Institute
- Bhavnagar
- India
| | - Mrinal Kanti Si
- Analytical Discipline and Centralized Instrument Facility
- Academy of Scientific and Innovative Research
- CSIR–Central Salt & Marine Chemicals Research Institute
- Bhavnagar
- India
| | - Bishwajit Ganguly
- Analytical Discipline and Centralized Instrument Facility
- Academy of Scientific and Innovative Research
- CSIR–Central Salt & Marine Chemicals Research Institute
- Bhavnagar
- India
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21
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Ozawa Y, Iwamoto H, Ito H. Copper(i)-catalysed regio- and diastereoselective intramolecular alkylboration of terminal allenes via allylcopper(i) isomerization. Chem Commun (Camb) 2018; 54:4991-4994. [DOI: 10.1039/c8cc02692k] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
We report the first copper(i)-catalysed intramolecular alkylboration of terminal allenes with an alkyl halide moiety.
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Affiliation(s)
- Yu Ozawa
- Division of Applied Chemistry and Frontier Chemistry Center
- Graduate School of Engineering
- Hokkaido University
- Sapporo 060-8628
- Japan
| | - Hiroaki Iwamoto
- Division of Applied Chemistry and Frontier Chemistry Center
- Graduate School of Engineering
- Hokkaido University
- Sapporo 060-8628
- Japan
| | - Hajime Ito
- Division of Applied Chemistry and Frontier Chemistry Center
- Graduate School of Engineering
- Hokkaido University
- Sapporo 060-8628
- Japan
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22
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Pakzad F, Ebrahimi A, Azizi A. The π–π stacking of tanshinone I and isotanshinone I with phenylalanine: The effects of isomerization, complexation and environment. JOURNAL OF THEORETICAL & COMPUTATIONAL CHEMISTRY 2017. [DOI: 10.1142/s0219633617500675] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Abstract
The misfolding and aggregation of amyloid-[Formula: see text] (A[Formula: see text] peptides into amyloid fibrils is regarded as one of the possible causes of Alzheimer’s disease (AD). Aromatic interactions (i.e. [Formula: see text]–[Formula: see text] interactions) between tanshinone drugs extracted from Chinese herb Salvia Miltiorrhiza (SM) and aromatic residues of A[Formula: see text] peptides have been shown to prevent further growth of amyloid aggregates. In this work, the effects of isomerization, complexation and polarity of environment on the strength of [Formula: see text]–[Formula: see text] stacking interactions of tanshinone I (TS1) and isotanshinone I (IS1), as the two diterpenoid quinones in the SM herb, and their complexes with Mg[Formula: see text] cation, IS1-Mg[Formula: see text] and TS1-Mg[Formula: see text], with phenylalanine (PHE), as an aromatic amino acid in A[Formula: see text] structure have been investigated using the quantum mechanical calculations in the gas-phase, ether, acetone, DMSO, and water solvent. Molecular electrostatic potential (MEP), which are used to predict the nucleophile active sites, electron densities calculated at the bond critical points ([Formula: see text] and ring critical points ([Formula: see text] by the atoms in molecules (AIM) method and the donor–acceptor interaction energies ([Formula: see text] calculated using the natural bond orbital (NBO) method were used to investigate the interplay between [Formula: see text]–[Formula: see text] stacking and complexation. The results show that the IS1/TS1-Mg[Formula: see text] compounds have a more protective role compared to TS1/IS1-Mg[Formula: see text] compounds due to the stronger interaction with PHE of A[Formula: see text] in antiaggregation for further development of A[Formula: see text] inhibitors to prevent and disaggregate amyloid formation. Complexation with Mg[Formula: see text] increases the interaction diterpenoid drugs with PHE and makes notable changes in structural and electronic properties of diterpenoids. Also, the interactions between diterpenoid and PHE in less polar environment are more than other environments. Low-polarity environments have the best mimics of the A[Formula: see text] binding site.
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Affiliation(s)
- Fatemeh Pakzad
- Department of Chemistry, Computational Quantum Chemistry Laboratory, University of Sistan and Baluchestan, P.O. Box 98135-674, Zahedan, Iran
| | - Ali Ebrahimi
- Department of Chemistry, Computational Quantum Chemistry Laboratory, University of Sistan and Baluchestan, P.O. Box 98135-674, Zahedan, Iran
| | - Abolfazl Azizi
- Department of Chemistry, Computational Quantum Chemistry Laboratory, University of Sistan and Baluchestan, P.O. Box 98135-674, Zahedan, Iran
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23
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Bijina PV, Suresh CH, Gadre SR. Electrostatics for probing lone pairs and their interactions. J Comput Chem 2017; 39:488-499. [PMID: 29094379 DOI: 10.1002/jcc.25082] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2017] [Revised: 09/22/2017] [Accepted: 09/24/2017] [Indexed: 01/21/2023]
Abstract
The value of the molecular electrostatic potential minimum (Vmin ) and its topographical features (position, as well as the eigenvalues and eigenvectors of the corresponding Hessian matrix) are recently proposed as the criteria for characterizing a lone pair (Kumar A. et al., J. Phys. Chem. 2014, A118, 526). This electrostatic characterization of lone pairs is examined for a large number of small molecules employing MP4/6-311++G(d,p)//MP2/6-311++G(d,p) theory. The eigenvector of the Hessian matrix corresponding to its largest eigenvalue (λmax ), is found to be directed toward the lone pair-bearing-atom, with λmax showing a strong linear correlation with Vmin . Large magnitudes of Vmin and λmax indicate a charge-dense lone pair. The topographical features of Vmin are seen to provide insights into the interactive behavior of the molecules with model electrophiles, viz. HF, CO2 , and Li+ . In all the complexes of HF and majority of the other complexes, the interaction energy (Eint ) correlates well with the respective Vmin, value, but for some deviations occurring due to other competing secondary interactions. The electrostatic interactions are found to be highly directional in nature as the orientation of interacting atom correlates strongly to the position of lone pair. In summary, the present study on a large number of test molecules shows that electrostatics is able to probe lone pairs in molecules and offers a simple interpretation of chemical reactivity. © 2017 Wiley Periodicals, Inc.
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Affiliation(s)
- Padinjare Veetil Bijina
- Chemical Sciences and Technology Division and Academy of Scientific & Innovative Research (AcSIR), CSIR-National Institute for Interdisciplinary Science and Technology, Trivandrum, 695019, India
| | - Cherumuttathu H Suresh
- Chemical Sciences and Technology Division and Academy of Scientific & Innovative Research (AcSIR), CSIR-National Institute for Interdisciplinary Science and Technology, Trivandrum, 695019, India
| | - Shridhar R Gadre
- Interdisciplinary School of Scientific Computing, Savitribai Phule Pune University, Pune, 411007, India
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24
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Pakzad F, Ebrahimi A, Azizi A. Tanshinone I and isotanshinone I: The effects of media, isomerization and complexation on structural and electronic parameters. COMPUT THEOR CHEM 2017. [DOI: 10.1016/j.comptc.2017.07.005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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25
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Sandhya KS, Suresh CH. Quantification of Thermodynamic Hydridicity of Hydride Complexes of Mn, Re, Mo, and W Using the Molecular Electrostatic Potential. J Phys Chem A 2017; 121:2814-2819. [DOI: 10.1021/acs.jpca.6b12271] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- K. S. Sandhya
- Inorganic and Theoretical
Chemistry Section, CSTD, CSIR-National Institute for Interdisciplinary Science and Technology, Trivandrum 695 019, India
| | - Cherumuttathu H. Suresh
- Inorganic and Theoretical
Chemistry Section, CSTD, CSIR-National Institute for Interdisciplinary Science and Technology, Trivandrum 695 019, India
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26
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Biswas AK, Ganguly B. Revealing Germylene Compounds to Attain Superbasicity with Sigma Donor Substituents: A Density Functional Theory Study. Chemistry 2017; 23:2700-2705. [DOI: 10.1002/chem.201605209] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2016] [Indexed: 11/10/2022]
Affiliation(s)
- Abul Kalam Biswas
- Analytical Discipline and Centralized Instrument Facility; Academy of Scientific and Innovative Research; CSIR-Central Salt and Marine Chemicals Research Institute; Bhavnagar- 364002 India
| | - Bishwajit Ganguly
- Analytical Discipline and Centralized Instrument Facility; Academy of Scientific and Innovative Research; CSIR-Central Salt and Marine Chemicals Research Institute; Bhavnagar- 364002 India
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27
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Safi ZS. A theoretical study on the structure of thiazolidine-2,4-dione and its 5-substituted derivatives in the gas phase. Implications for the thiazolidine-2,4-dione -water complex. ARAB J CHEM 2016. [DOI: 10.1016/j.arabjc.2015.03.016] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022] Open
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28
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Britvin SN, Rumyantsev AM, Zobnina AE, Padkina MV. Between Adamantane and Atrane: Intrabridgehead Interactions in the Cage-Like Phosphane Related to a Novel Tris(homoadamantane) Ring System. Chemistry 2016; 22:14227-35. [PMID: 27531034 DOI: 10.1002/chem.201601637] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2016] [Indexed: 11/05/2022]
Affiliation(s)
- Sergey N. Britvin
- Department of Crystallography; Saint Petersburg State University; Universitetskaya Nab. 7/9 199034 St. Petersburg Russia
| | - Andrey M. Rumyantsev
- Department of Genetics and Biotechnology; Saint Petersburg State University; Universitetskaya Nab. 7/9 199034 St. Petersburg Russia
| | - Anastasia E. Zobnina
- Department of Genetics and Biotechnology; Saint Petersburg State University; Universitetskaya Nab. 7/9 199034 St. Petersburg Russia
| | - Marina V. Padkina
- Department of Genetics and Biotechnology; Saint Petersburg State University; Universitetskaya Nab. 7/9 199034 St. Petersburg Russia
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29
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Farrokhzadeh A, Modarresi-Alam AR, Akher FB, Ebrahimi A. A theoretical study of π-stacking interactions in C-substituted tetrazoles. J Mol Graph Model 2016; 67:85-93. [PMID: 27258189 DOI: 10.1016/j.jmgm.2016.05.005] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2016] [Revised: 05/09/2016] [Accepted: 05/10/2016] [Indexed: 11/28/2022]
Abstract
The π-stacking effects of benzene ring (Ben) with 1H- and 2H-tetrazole derivatives (1H-TZ-X and 2H-TZ-X) substituted at C5 (where X is Cl, COH, NO, NO2, CN, NH2, OH, OCH3, SH and H) has been investigated by the quantum mechanical calculations at the M06-2X/6-311++G** level. The results indicate the 1H-TZ-X||Ben complexes (|| donates π-stacking interaction) are more stable than 2H-TZ-X||Ben while in unstacked forms, 1H-TZ-X is less stable than 2H-TZ-X. All substituents enhance the π-stacking interaction relative to the unsubstituted ones and enhancement is higher for the electron-withdrawing substituents (EWSs). Also, investigation of the local and direct effect of substituents in stacking interaction showed that all substituents regardless of whether are electron donating or electron withdrawing have an additive effect in π-stacking interaction. Excellent correlations were found between the binding energies of the complexes and combination of substituent constant terms. The results showed that the electrostatic interaction alone is not responsible for stacking stabilization but charge penetration is important. Furthermore, analysis of aromaticity, AIM, ESP and NPA were investigated to obtain aromaticity index, non-bonding interactions, chemical reactivity and polarity (dipole moment), respectively.
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Affiliation(s)
| | | | | | - Ali Ebrahimi
- Department of Chemistry, University of Sistan and Baluchestan, Zahedan, Iran
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30
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Johnson GE, Laskin J. Understanding ligand effects in gold clusters using mass spectrometry. Analyst 2016; 141:3573-89. [PMID: 27221357 DOI: 10.1039/c6an00263c] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
This review summarizes recent research on the influence of phosphine ligands on the size, stability, and reactivity of gold clusters synthesized in solution. Sub-nanometer clusters exhibit size- and composition-dependent properties that are unique from those of larger nanoparticles. The highly tunable properties of clusters and their high surface-to-volume ratio make them promising candidates for a variety of technological applications. However, because "each-atom-counts" toward defining cluster properties it is critically important to develop robust synthesis methods to efficiently prepare clusters of predetermined size. For decades phosphines have been known to direct the size-selected synthesis of gold clusters. Despite the preparation of numerous species it is still not understood how different functional groups at phosphine centers affect the size and properties of gold clusters. Using electrospray ionization mass spectrometry (ESI-MS) it is possible to characterize the effect of ligand substitution on the distribution of clusters formed in solution at defined reaction conditions. In addition, ligand exchange reactions on preformed clusters may be monitored using ESI-MS. Collision induced dissociation (CID) may also be employed to obtain qualitative insight into the fragmentation of mixed ligand clusters and the relative binding energies of differently substituted phosphines. Quantitative ligand binding energies and cluster stability may be determined employing surface induced dissociation (SID) in a custom-built Fourier transform ion cyclotron resonance mass spectrometer (FT-ICR-MS). Rice-Ramsperger-Kassel-Marcus (RRKM) based modeling of the SID data allows dissociation energies and entropy values to be extracted. The charge reduction and reactivity of atomically precise gold clusters, including partially ligated species generated in the gas-phase by in source CID, on well-defined surfaces may be explored using ion soft landing (SL) in a custom-built instrument combined with in situ time of flight secondary ion mass spectrometry (TOF-SIMS). Jointly, this multipronged experimental approach allows characterization of the full spectrum of relevant phenomena including cluster synthesis, ligand exchange, thermochemistry, surface immobilization, and reactivity. The fundamental insights obtained from this work will facilitate the directed synthesis of gold clusters with predetermined size and properties for specific applications.
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Affiliation(s)
- Grant E Johnson
- Physical Sciences Division, Pacific Northwest National Laboratory, P. O. Box 999, MSIN K8-88, Richland, Washington 99352, USA.
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31
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Ivanova-Shor EA, Shor AM, Nasluzov VA, Rubailo AI. A quantum chemical study of the effect of phosphine ligand on the structure of the Mn and Fe vinylidene binuclear complex. J STRUCT CHEM+ 2016. [DOI: 10.1134/s0022476616020049] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
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32
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Anjali BA, Sayyed FB, Suresh CH. Correlation and Prediction of Redox Potentials of Hydrogen Evolution Mononuclear Cobalt Catalysts via Molecular Electrostatic Potential: A DFT Study. J Phys Chem A 2016; 120:1112-9. [DOI: 10.1021/acs.jpca.5b11543] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Bai Amutha Anjali
- Chemical Sciences and Technology Division and ‡Academy of Scientific & Innovative Research (AcSIR), CSIR-National Institute for Interdisciplinary Science and Technology, Trivandrum 695019, India
| | - Fareed Bhasha Sayyed
- Chemical Sciences and Technology Division and ‡Academy of Scientific & Innovative Research (AcSIR), CSIR-National Institute for Interdisciplinary Science and Technology, Trivandrum 695019, India
| | - Cherumuttathu H. Suresh
- Chemical Sciences and Technology Division and ‡Academy of Scientific & Innovative Research (AcSIR), CSIR-National Institute for Interdisciplinary Science and Technology, Trivandrum 695019, India
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33
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Computational and 31 P NMR studies of moisture-metastable cyclic diaminophosphine oxide preligands. Polyhedron 2016. [DOI: 10.1016/j.poly.2015.12.017] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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34
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Delarami HS, Ebrahimi A. Theoretical investigation of the backbone···π and π···π stacking interactions in substituted-benzene||3-methyl-2′-deoxyadenosine: a perspective to the DNA repair. Mol Phys 2015. [DOI: 10.1080/00268976.2015.1118569] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Affiliation(s)
- Hojat Samareh Delarami
- Computational Quantum Chemistry Laboratory, Department of Chemistry, University of Sistan and Baluchestan, Zahedan, Iran
| | - Ali Ebrahimi
- Computational Quantum Chemistry Laboratory, Department of Chemistry, University of Sistan and Baluchestan, Zahedan, Iran
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35
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Wolters LP, Koekkoek R, Bickelhaupt FM. Role of Steric Attraction and Bite-Angle Flexibility in Metal-Mediated C–H Bond Activation. ACS Catal 2015. [DOI: 10.1021/acscatal.5b01354] [Citation(s) in RCA: 52] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Lando P. Wolters
- Department
of Theoretical Chemistry and Amsterdam Center for Multiscale Modeling, VU University, De Boelelaan 1083, NL-1081 HV Amsterdam, The Netherlands
| | - Rick Koekkoek
- Department
of Theoretical Chemistry and Amsterdam Center for Multiscale Modeling, VU University, De Boelelaan 1083, NL-1081 HV Amsterdam, The Netherlands
| | - F. Matthias Bickelhaupt
- Department
of Theoretical Chemistry and Amsterdam Center for Multiscale Modeling, VU University, De Boelelaan 1083, NL-1081 HV Amsterdam, The Netherlands
- Institute
for Molecules and Materials, Radboud University Nijmegen, Heyendaalseweg
135, NL-6525 AJ
Nijmegen, The Netherlands
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36
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Momeni Z, Ebrahimi A. Investigation of the effect of π–π stacking interaction on the properties of –CONH2 functional group of benzamide. Struct Chem 2015. [DOI: 10.1007/s11224-015-0615-7] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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37
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Sandhya KS, Suresh CH. Designing metal hydride complexes for water splitting reactions: a molecular electrostatic potential approach. Dalton Trans 2015; 43:12279-87. [PMID: 24984110 DOI: 10.1039/c4dt01343c] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
The hydridic character of octahedral metal hydride complexes of groups VI, VII and VIII has been systematically studied using molecular electrostatic potential (MESP) topography. The absolute minimum of MESP at the hydride ligand (Vmin) and the MESP value at the hydride nucleus (VH) are found to be very good measures of the hydridic character of the hydride ligand. The increasing/decreasing electron donating feature of the ligand environment is clearly reflected in the increasing/decreasing negative character of Vmin and VH. The formation of an outer sphere metal hydride-water complex showing the HH dihydrogen interaction is supported by the location and the value of Vmin near the hydride ligand. A higher negative MESP suggested lower activation energy for H2 elimination. Thus, MESP features provided a way to fine-tune the ligand environment of a metal-hydride complex to achieve high hydridicity for the hydride ligand. The applicability of an MESP based hydridic descriptor in designing water splitting reactions is tested for group VI metal hydride model complexes of tungsten.
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Affiliation(s)
- K S Sandhya
- Inorganic and Theoretical Chemistry Section, CSTD, CSIR-National Institute for Interdisciplinary Science and Technology, Trivandrum-695019, India.
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38
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Britvin SN, Lotnyk A. Water-Soluble Phosphine Capable of Dissolving Elemental Gold: The Missing Link between 1,3,5-Triaza-7-phosphaadamantane (PTA) and Verkade's Ephemeral Ligand. J Am Chem Soc 2015; 137:5526-35. [PMID: 25897572 DOI: 10.1021/jacs.5b01851] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
We herein describe a tricyclic phosphine with previously unreported tris(homoadamantane) cage architecture. That water-soluble, air- and thermally stable ligand, 1,4,7-triaza-9-phosphatricyclo[5.3.2.1(4,9)]tridecane (hereinafter referred to as CAP) exhibits unusual chemical behavior toward gold and gold compounds: it readily reduces Au(III) to Au(0), promotes oxidative dissolution of nanocrystalline gold(0) with the formation of water-soluble trigonal CAP-Au(I) complexes, and displaces cyanide from [Au(CN)2](-) affording triangular [Au(CAP)3](+) cation. From the stereochemical point of view, CAP can be regarded as an intermediate between 1,3,5-triaza-7-phosphaadamantane (PTA) and very unstable aminophosphine synthesized by Verkade's group: hexahydro-2a,4a,6a-triaza-6b-phosphacyclopenta[cd]pentalene. The chemical properties of CAP are likely related to its anomalous stereoelectronic profile: combination of strong electron-donating power (Tolman's electronic parameter 2056.8 cm(-1)) with the low steric demand (cone angle of 109°). CAP can be considered as macrocyclic counterpart of PTA with the electron-donating power approaching that of strongest known phosphine electron donors such as P(t-Bu)3 and PCy3. Therefore, CAP as sterically undemanding and electron-rich ligand populates the empty field on the stereoelectronic map of phosphine ligands: the niche between the classic tertiary phosphines and the sterically undemanding aminophosphines.
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Affiliation(s)
- Sergey N Britvin
- †Department of Crystallography, Saint Petersburg State University, Universitetskaya Nab. 7/9, 199034 Saint Petersburg, Russia.,‡Nanomaterials Research Center, Kola Science Center, Russian Academy of Sciences, 184200 Apatity, Murmansk Region, Russia
| | - Andriy Lotnyk
- §Leibniz Institute of Surface Modification, Permoserstrassse 15, D-04318 Leipzig, Germany
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39
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Chung LW, Sameera WMC, Ramozzi R, Page AJ, Hatanaka M, Petrova GP, Harris TV, Li X, Ke Z, Liu F, Li HB, Ding L, Morokuma K. The ONIOM Method and Its Applications. Chem Rev 2015; 115:5678-796. [PMID: 25853797 DOI: 10.1021/cr5004419] [Citation(s) in RCA: 743] [Impact Index Per Article: 82.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Affiliation(s)
- Lung Wa Chung
- †Department of Chemistry, South University of Science and Technology of China, Shenzhen 518055, China
| | - W M C Sameera
- ‡Fukui Institute for Fundamental Chemistry, Kyoto University, 34-4 Takano Nishihiraki-cho, Sakyo, Kyoto 606-8103, Japan
| | - Romain Ramozzi
- ‡Fukui Institute for Fundamental Chemistry, Kyoto University, 34-4 Takano Nishihiraki-cho, Sakyo, Kyoto 606-8103, Japan
| | - Alister J Page
- §Newcastle Institute for Energy and Resources, The University of Newcastle, Callaghan 2308, Australia
| | - Miho Hatanaka
- ‡Fukui Institute for Fundamental Chemistry, Kyoto University, 34-4 Takano Nishihiraki-cho, Sakyo, Kyoto 606-8103, Japan
| | - Galina P Petrova
- ∥Faculty of Chemistry and Pharmacy, University of Sofia, Bulgaria Boulevard James Bourchier 1, 1164 Sofia, Bulgaria
| | - Travis V Harris
- ‡Fukui Institute for Fundamental Chemistry, Kyoto University, 34-4 Takano Nishihiraki-cho, Sakyo, Kyoto 606-8103, Japan.,⊥Department of Chemistry, State University of New York at Oswego, Oswego, New York 13126, United States
| | - Xin Li
- #State Key Laboratory of Molecular Reaction Dynamics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
| | - Zhuofeng Ke
- ∇School of Chemistry and Chemical Engineering, Sun Yat-sen University, Guangzhou 510275, China
| | - Fengyi Liu
- ○Key Laboratory of Macromolecular Science of Shaanxi Province, School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an, Shaanxi 710119, China
| | - Hai-Bei Li
- ■School of Ocean, Shandong University, Weihai 264209, China
| | - Lina Ding
- ▲School of Pharmaceutical Sciences, Zhengzhou University, 100 Kexue Avenue, Zhengzhou, Henan 450001, China
| | - Keiji Morokuma
- ‡Fukui Institute for Fundamental Chemistry, Kyoto University, 34-4 Takano Nishihiraki-cho, Sakyo, Kyoto 606-8103, Japan
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40
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Johnson GE, Olivares A, Hill D, Laskin J. Cationic gold clusters ligated with differently substituted phosphines: effect of substitution on ligand reactivity and binding. Phys Chem Chem Phys 2015; 17:14636-46. [DOI: 10.1039/c5cp01686j] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Loss of substituted phosphine ligands is strongly correlated with the electron donating ability of the phosphorous lone pair. The results indicate that the relative ligand binding energies increase in the order PMe3 < PPhMe2 < PPh2Me < PPh3 < PPh2Cy < PPhCy2 < PCy3.
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Affiliation(s)
- Grant E. Johnson
- Physical Sciences Division
- Pacific Northwest National Laboratory
- Richland
- USA
| | - Astrid Olivares
- Physical Sciences Division
- Pacific Northwest National Laboratory
- Richland
- USA
| | - David Hill
- Physical Sciences Division
- Pacific Northwest National Laboratory
- Richland
- USA
| | - Julia Laskin
- Physical Sciences Division
- Pacific Northwest National Laboratory
- Richland
- USA
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41
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Dong L, Wen J, Li W. A theoretical investigation of substituent effects on the stability and reactivity of N-heterocyclic olefin carboxylates. Org Biomol Chem 2015; 13:8533-44. [DOI: 10.1039/c5ob01021g] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Introduction of four phenyl groups at C-position and N-position not only favors decarboxylation but also ensures NHO as a strong nucleophile.
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Affiliation(s)
- Liang Dong
- Institute of Nuclear Physics and Chemistry
- China Academy of Engineering Physics
- Mianyang
- P. R. China
| | - Jun Wen
- Institute of Nuclear Physics and Chemistry
- China Academy of Engineering Physics
- Mianyang
- P. R. China
| | - Weiyi Li
- School of Science
- Xihua University
- Chengdu
- P. R. China
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42
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Proton affinity and molecular basicity of m - and p -substituted benzamides in gas phase and in solution: A theoretical study. Chem Phys Lett 2014. [DOI: 10.1016/j.cplett.2014.07.050] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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43
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Mampa RM, Fernandes MA, Carlton L. Iron-57 NMR and Structural Study of [Fe(η5-Cp)(SnPh3)(CO)(PR3)] (PR3 = Phosphine, Phosphite). Separation of Steric and Electronic σ and π Effects. Organometallics 2014. [DOI: 10.1021/om4011593] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Richard M. Mampa
- Molecular
Science Institute, School of Chemistry, University of the Witwatersrand, Johannesburg 2050, Republic of South Africa
| | - Manuel A. Fernandes
- Molecular
Science Institute, School of Chemistry, University of the Witwatersrand, Johannesburg 2050, Republic of South Africa
| | - Laurence Carlton
- Molecular
Science Institute, School of Chemistry, University of the Witwatersrand, Johannesburg 2050, Republic of South Africa
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44
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Mohan N, Suresh CH, Kumar A, Gadre SR. Molecular electrostatics for probing lone pair-π interactions. Phys Chem Chem Phys 2014; 15:18401-9. [PMID: 24085157 DOI: 10.1039/c3cp53379d] [Citation(s) in RCA: 77] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Abstract
An electrostatics-based approach has been proposed for probing the weak interactions between lone pair containing molecules and π deficient molecular systems. For electron-rich molecules, the negative minima in molecular electrostatic potential (MESP) topography give the location of electron localization and the MESP value at the minimum (Vmin) quantifies the electron-rich character of that region. Interactive behavior of a lone pair bearing molecule with electron deficient π-systems, such as hexafluorobenzene, 1,3,5-trinitrobenzene, 2,4,6-trifluoro-1,3,5-triazine and 1,2,4,5-tetracyanobenzene explored within DFT brings out good correlation of the lone pair-π interaction energy (E(int)) with the Vmin value of the electron-rich system. Such interaction is found to be portrayed well with the Electrostatic Potential for Intermolecular Complexation (EPIC) model. On the basis of the precise location of MESP minimum, a prediction for the orientation of a lone pair bearing molecule with an electron deficient π-system is possible in the majority of the cases studied.
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Affiliation(s)
- Neetha Mohan
- Chemical Sciences and Technology Division, CSIR-National Institute for Interdisciplinary Science and Technology, Trivandrum, 695019, India.
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45
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Correa-Basurto J, Bello M, Rosales-Hernández M, Hernández-Rodríguez M, Nicolás-Vázquez I, Rojo-Domínguez A, Trujillo-Ferrara J, Miranda R, Flores-Sandoval C. QSAR, docking, dynamic simulation and quantum mechanics studies to explore the recognition properties of cholinesterase binding sites. Chem Biol Interact 2014; 209:1-13. [DOI: 10.1016/j.cbi.2013.12.001] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2013] [Revised: 11/25/2013] [Accepted: 12/02/2013] [Indexed: 11/30/2022]
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46
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Biswas AK, Lo R, Ganguly B. First Principles Studies toward the Design of Silylene Superbases: A Density Functional Theory Study. J Phys Chem A 2013; 117:3109-17. [DOI: 10.1021/jp401076j] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
Affiliation(s)
- Abul Kalam Biswas
- Analytical Discipline and Centralized Instrument Facility, Central Salt & Marine Chemicals Research Institute (Council of Scientific and Industrial Research), Bhavnagar, Gujarat, India 364 002
| | - Rabindranath Lo
- Analytical Discipline and Centralized Instrument Facility, Central Salt & Marine Chemicals Research Institute (Council of Scientific and Industrial Research), Bhavnagar, Gujarat, India 364 002
| | - Bishwajit Ganguly
- Analytical Discipline and Centralized Instrument Facility, Central Salt & Marine Chemicals Research Institute (Council of Scientific and Industrial Research), Bhavnagar, Gujarat, India 364 002
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47
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A Green Approach to the Production of Hybrid Diindolylmethane-Phenylboronic Acids via a 3MCR: Promising Antineoplasic Molecules. J CHEM-NY 2013. [DOI: 10.1155/2013/531208] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023] Open
Abstract
The current role of the “Green Chemistry Protocol” in multicomponent reactions is first highlighted. Then, the green approach to the production of three novel hybrid diindolylmethanes-phenylboronic acids via a 3MCR is discussed, which features the following: solventless conditions, the use of microwave irradiation to activate the reactions, the absence of catalyst, and an efficient atom economy. The products were achieved with moderate yields (41–61%) within a short time frame (5 min) and appropriately characterized by elemental analysis and spectroscopic methods (NMR:1H,13C,11B; MS: EI, CI, FAB+, HRMS). During the FAB+MS determinations, various artifacts that are associated with the boron atom via an interaction with thioglycerol from the matrix were noted in the corresponding FAB+mass spectra; in addition, the accurate mass determination of these adducts unequivocally confirmed the presence of the target molecules. Moreover, the activity of these target molecules was evaluated in the presence of six cancer cell lines (U251 = glia of the central nerve system, PC-3 = prostate, K562 = leukemia, HCT-15 = colon, MCF-7 = breast, and SKLU-1 = lung), which resulted in themeta-regioisomer being the most active. Finally, the products were also analyzed using computational chemistry in order to determine their most stable geometries and reactivities by computing the respective molecular electrostatic potentials.
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48
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Sayyed FB, Suresh CH. Accurate prediction of cation-π interaction energy using substituent effects. J Phys Chem A 2012; 116:5723-32. [PMID: 22616763 DOI: 10.1021/jp3034193] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Substituent effects on cation-π interactions have been quantified using a variety of Φ-X···M(+) complexes where Φ, X, and M(+) are the π-system, substituent, and cation, respectively. The cation-π interaction energy, E(M(+)), showed a strong linear correlation with the molecular electrostatic potential (MESP) based measure of the substituent effect, ΔV(min) (the difference between the MESP minimum (V(min)) on the π-region of a substituted system and the corresponding unsubstituted system). This linear relationship is E(M(+)) = C(M(+))(ΔV(min)) + E(M(+))' where C(M(+)) is the reaction constant and E(M(+))' is the cation-π interaction energy of the unsubstituted complex. This relationship is similar to the Hammett equation and its first term yields the substituent contribution of the cation-π interaction energy. Further, a linear correlation between C(M(+))() and E(M(+))()' has been established, which facilitates the prediction of C(M(+)) for unknown cations. Thus, a prediction of E(M(+)) for any Φ-X···M(+) complex is achieved by knowing the values of E(M(+))' and ΔV(min). The generality of the equation is tested for a variety of cations (Li(+), Na(+), K(+), Mg(+), BeCl(+), MgCl(+), CaCl(+), TiCl(3)(+), CrCl(2)(+), NiCl(+), Cu(+), ZnCl(+), NH(4)(+), CH(3)NH(3)(+), N(CH(3))(4)(+), C(NH(2))(3)(+)), substituents (N(CH(3))(2), NH(2), OCH(3), CH(3), OH, H, SCH(3), SH, CCH, F, Cl, COOH, CHO, CF(3), CN, NO(2)), and a large number of π-systems. The tested systems also include multiple substituted π-systems, viz. ethylene, acetylene, hexa-1,3,5-triene, benzene, naphthalene, indole, pyrrole, phenylalanine, tryptophan, tyrosine, azulene, pyrene, [6]-cyclacene, and corannulene and found that E(M)(+) follows the additivity of substituent effects. Further, the substituent effects on cationic sandwich complexes of the type C(6)H(6)···M(+)···C(6)H(5)X have been assessed and found that E(M(+)) can be predicted with 97.7% accuracy using the values of E(M(+))' and ΔV(min). All the Φ-X···M(+) systems showed good agreement between the calculated and predicted E(M(+))() values, suggesting that the ΔV(min) approach to substituent effect is accurate and useful for predicting the interactive behavior of substituted π-systems with cations.
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Affiliation(s)
- Fareed Bhasha Sayyed
- Chemical Sciences and Technology Division, National Institute for Interdisciplinary Science and Technology (CSIR), Trivandrum, India 695019
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49
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Ajitha MJ, Suresh CH. Assessment of Stereoelectronic Factors That Influence the CO2 Fixation Ability of N-Heterocyclic Carbenes: A DFT Study. J Org Chem 2012; 77:1087-94. [DOI: 10.1021/jo202382g] [Citation(s) in RCA: 66] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Manjaly J. Ajitha
- Computational Modeling
and Simulation Section, National Institute for Interdisciplinary Science and Technology (CSIR), Trivandrum, India
| | - Cherumuttathu H. Suresh
- Computational Modeling
and Simulation Section, National Institute for Interdisciplinary Science and Technology (CSIR), Trivandrum, India
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50
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Lo R, Ballabh A, Singh A, Dastidar P, Ganguly B. Probing the O⋯Br–Br halogen bonding in X-ray crystal structures with ab initio calculations. CrystEngComm 2012. [DOI: 10.1039/c2ce06283f] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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