1
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Zhai YJ, Zhou ZZ, Gao LL, Li JN, Pescitelli G, Gao JM, Han WB. Ethylidene-Tethered Chromene-Pyrone Hybrids as Potential Plant-Growth Regulators from an Endolichenic Phaeosphaeria Species. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2023; 71:4615-4624. [PMID: 36945879 DOI: 10.1021/acs.jafc.2c08710] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
Abstract
Phaeosphaeria sp., a lichen-associated fungus, produced six skeletally new dimeric spiciferones (1-6) and four known metabolites (7-10). The new structures were elucidated by spectroscopic analysis, and their absolute configurations were determined by electronic circular dichroism calculations. Compounds 1 and 3-6 represent the first examples of ethylidene-bridged dimers from the building blocks 4H-chromene-4,7(8H)-dione and α-pyrone, and 2 is a unique homodimer of spiciferone. Compounds 1, 2, and 5-9 significantly inhibited the growth of weed-like dicot Arabidopsis thaliana at 100.0 μM. Notably, 8 showed the strongest inhibitory activity against the fresh weight and root elongation of A. thaliana with the IC50 values of 32.04 and 26.78 μM, respectively, whereas 1, 8, and 9 stimulated the growth of A. thaliana at lower concentrations. Meanwhile, compounds 2 and 6 exhibited weak inhibitory effects on the root elongation of monocot rice, while 1 and 8 exhibited growth-promoting effects on the shoot and root elongation of rice in a roughly dose-dependent manner.
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Affiliation(s)
- Yi-Jie Zhai
- Shaanxi Key Laboratory of Natural Products & Chemical Biology, College of Chemistry & Pharmacy, Northwest A&F University, Yangling, 712100 Shaanxi, People's Republic of China
| | - Zhen-Zhen Zhou
- Provincial Key Laboratory of Agrobiology and Institute of Germplasm Resources and Biotechnology, Jiangsu Academy of Agricultural Sciences, 210014 Nanjing, China
| | - Lin-Lin Gao
- Shaanxi Key Laboratory of Natural Products & Chemical Biology, College of Chemistry & Pharmacy, Northwest A&F University, Yangling, 712100 Shaanxi, People's Republic of China
| | - Jian-Nan Li
- Shaanxi Key Laboratory of Natural Products & Chemical Biology, College of Chemistry & Pharmacy, Northwest A&F University, Yangling, 712100 Shaanxi, People's Republic of China
| | - Gennaro Pescitelli
- Dipartimento di Chimica e Chimica Industriale, University of Pisa, via Moruzzi 13, 56124 Pisa, Italy
| | - Jin-Ming Gao
- Shaanxi Key Laboratory of Natural Products & Chemical Biology, College of Chemistry & Pharmacy, Northwest A&F University, Yangling, 712100 Shaanxi, People's Republic of China
| | - Wen-Bo Han
- Shaanxi Key Laboratory of Natural Products & Chemical Biology, College of Chemistry & Pharmacy, Northwest A&F University, Yangling, 712100 Shaanxi, People's Republic of China
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2
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Wang Y, Walker BD, Liu C, Ren P. An Efficient Approach to Large-Scale Ab Initio Conformational Energy Profiles of Small Molecules. Molecules 2022; 27:8567. [PMID: 36500658 PMCID: PMC9738817 DOI: 10.3390/molecules27238567] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2022] [Revised: 11/19/2022] [Accepted: 11/27/2022] [Indexed: 12/12/2022] Open
Abstract
Accurate conformational energetics of molecules are of great significance to understand maby chemical properties. They are also fundamental for high-quality parameterization of force fields. Traditionally, accurate conformational profiles are obtained with density functional theory (DFT) methods. However, obtaining a reliable energy profile can be time-consuming when the molecular sizes are relatively large or when there are many molecules of interest. Furthermore, incorporation of data-driven deep learning methods into force field development has great requirements for high-quality geometry and energy data. To this end, we compared several possible alternatives to the traditional DFT methods for conformational scans, including the semi-empirical method GFN2-xTB and the neural network potential ANI-2x. It was found that a sequential protocol of geometry optimization with the semi-empirical method and single-point energy calculation with high-level DFT methods can provide satisfactory conformational energy profiles hundreds of times faster in terms of optimization.
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Affiliation(s)
| | | | | | - Pengyu Ren
- Department of Biomedical Engineering, The University of Texas at Austin, Austin, TX 78712, USA
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3
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Iribarren I, Trujillo C. Efficiency and Suitability when Exploring the Conformational Space of Phase-Transfer Catalysts. J Chem Inf Model 2022; 62:5568-5580. [PMID: 36271836 PMCID: PMC9709918 DOI: 10.1021/acs.jcim.2c00934] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
In this study, a complete exploration of the conformational space of different phase-transfer catalysts by means of computational method benchmarking is presented. For this particular research work, only the most significant and relevant conformational analysis approaches have been chosen to characterize the main Cinchona alkaloid-based phase-transfer catalysts. This particular guiding study aims to rigorously compare the performance of different conformational methods, determining the strengths of each method and providing recommendations regarding suitable and efficient choices of methods for analysis.
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4
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Bizzocchi L, Alessandrini S, Melosso M, Puzzarini C. Dipolar spin-spin coupling as an auxiliary tool for the structure determination of small isolated molecules. Phys Chem Chem Phys 2022; 24:15173-15181. [PMID: 35703976 DOI: 10.1039/d2cp01124g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The "gold standard" for obtaining accurate equilibrium structures is the so-called semi-experimental (SE) approach, which exploits the structural information contained in rotational constants. Within the SE approach, ground-state rotational constants-accurately obtained from high-resolution spectroscopic studies-are computationally corrected in order to remove vibrational effects. The resulting SE equilibrium rotational constants for a significant set of isotopic species allow for retrieving a unique set of equilibrium bond lengths and angles for the molecule under consideration. However, in some cases, the lack of isotopic substitution hampers or even prevents a rigorous and complete structure determination. In this perspective, we introduce the use of dipolar spin-spin coupling constants as an additional source of structural information in support of the standard SE approach. As a proof-of-concept, we tested this new strategy on some prototypical species, such as water, ammonia, phosphine, and their fluorinated counterparts. Our results indicate that-even when the molecular structure can be obtained from a large set of isotopic rotational constants-the use of dipolar spin-spin coupling constants guarantees a better accuracy and reduces the correlations among the geometrical parameters. Moreover, we point out that our approach offers the possibility to fully derive the molecular structure of PF3, a species for which any isotopic substitution is not possible.
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Affiliation(s)
- Luca Bizzocchi
- Dipartimento di Chimica "Giacomo Ciamician", Università di Bologna, via F. Selmi 2, 40126 Bologna, Italy.
| | - Silvia Alessandrini
- Dipartimento di Chimica "Giacomo Ciamician", Università di Bologna, via F. Selmi 2, 40126 Bologna, Italy. .,Scuola Normale Superiore, Piazza dei Cavalieri 7, 56126 Pisa, Italy.
| | - Mattia Melosso
- Dipartimento di Chimica "Giacomo Ciamician", Università di Bologna, via F. Selmi 2, 40126 Bologna, Italy. .,Scuola Superiore Meridionale, Università di Napoli Federico II, Largo San Marcellino 10, 80138 Naples, Italy.
| | - Cristina Puzzarini
- Dipartimento di Chimica "Giacomo Ciamician", Università di Bologna, via F. Selmi 2, 40126 Bologna, Italy.
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5
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Bartolo ND, Demkiw KM, Read JA, Valentín EM, Yang Y, Dillon AM, Hu CT, Ward MD, Woerpel KA. Conformationally Biased Ketones React Diastereoselectively with Allylmagnesium Halides. J Org Chem 2022; 87:3042-3065. [PMID: 35167300 PMCID: PMC9022492 DOI: 10.1021/acs.joc.1c02844] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The addition of the highly reactive reagent allylmagnesium halide to α-substituted acyclic chiral ketones proceeded with high stereoselectivity. The stereoselectivity cannot be analyzed by conventional stereochemical models because these reactions do not conform to the requirements of those models. Instead, the stereoselectivity arises from the approach of the nucleophile to the most accessible diastereofaces of the lowest-energy conformations of the ketones. High stereoselectivity is expected, and the stereochemical outcome can be predicted, with conformationally biased ketones that have sterically distinguishable diastereofaces wherein only one face is accessible for nucleophilic addition. The conformations of the ketones can be determined by a combination of computational modeling and, in some cases, structure determination by X-ray crystallography.
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Affiliation(s)
- Nicole D. Bartolo
- Department of Chemistry, New York University, 100 Washington Square East, New York, NY 10003 USA
| | - Krystyna M. Demkiw
- Department of Chemistry, New York University, 100 Washington Square East, New York, NY 10003 USA
| | - Jacquelyne A. Read
- Department of Chemistry, New York University, 100 Washington Square East, New York, NY 10003 USA
| | | | - Yingying Yang
- Department of Chemistry, New York University, 100 Washington Square East, New York, NY 10003 USA
| | - Alexandra M. Dillon
- Department of Chemistry, New York University, 100 Washington Square East, New York, NY 10003 USA
| | - Chunhua T. Hu
- Department of Chemistry, New York University, 100 Washington Square East, New York, NY 10003 USA
| | - Michael D. Ward
- Department of Chemistry, New York University, 100 Washington Square East, New York, NY 10003 USA
| | - K. A. Woerpel
- Department of Chemistry, New York University, 100 Washington Square East, New York, NY 10003 USA
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6
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Pescitelli G. ECD exciton chirality method today: a modern tool for determining absolute configurations. Chirality 2021; 34:333-363. [PMID: 34791704 PMCID: PMC9299504 DOI: 10.1002/chir.23393] [Citation(s) in RCA: 45] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2021] [Revised: 10/26/2021] [Accepted: 10/27/2021] [Indexed: 02/02/2023]
Abstract
The application of the exciton chirality method (ECM) to interpret electronic circular dichroism (ECD) spectra is a well‐established and still popular approach to assign the absolute configuration (AC) of natural products, chiral organic compounds, and organometallic species. The method applies to compounds containing at least two chromophores with electric dipole allowed transitions (e.g., π–π* transitions). The exciton chirality rule correlates the sign of an exciton couplet (two ECD bands with opposite sign and similar intensity) with the overall molecular stereochemistry, including the AC. A correct application of the ECM requires three main prerequisites: (a) the knowledge of the molecular conformation, (b) the knowledge of the directions of the electric transition moments (TDMs), and (c) the assumption that the exciton coupling mechanism must be the major source of the observed ECD signals. All these prerequisites can be easily verified by means of quantum‐mechanical (QM) calculations. In the present review, we shortly introduce the general principles that underpin the use of the ECM for configurational assignments and survey its applications, both classic ones and some reported in the recent literature. Based on these examples, we will stress the advantages of the ECM but also the key requisites for its correct application. Additionally, we will discuss the dependence of the couplet sign on geometrical parameters (angles α,β,γ between TDMs), which can be helpful for discerning the sign of exciton chirality in ambiguous situations. Finally, we will present a molecular orbital (MO) description of the exciton coupling phenomenon.
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Affiliation(s)
- Gennaro Pescitelli
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, Pisa, Italy
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7
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Borges R, Colby SM, Das S, Edison AS, Fiehn O, Kind T, Lee J, Merrill AT, Merz KM, Metz TO, Nunez JR, Tantillo DJ, Wang LP, Wang S, Renslow RS. Quantum Chemistry Calculations for Metabolomics. Chem Rev 2021; 121:5633-5670. [PMID: 33979149 PMCID: PMC8161423 DOI: 10.1021/acs.chemrev.0c00901] [Citation(s) in RCA: 35] [Impact Index Per Article: 11.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2020] [Indexed: 02/07/2023]
Abstract
A primary goal of metabolomics studies is to fully characterize the small-molecule composition of complex biological and environmental samples. However, despite advances in analytical technologies over the past two decades, the majority of small molecules in complex samples are not readily identifiable due to the immense structural and chemical diversity present within the metabolome. Current gold-standard identification methods rely on reference libraries built using authentic chemical materials ("standards"), which are not available for most molecules. Computational quantum chemistry methods, which can be used to calculate chemical properties that are then measured by analytical platforms, offer an alternative route for building reference libraries, i.e., in silico libraries for "standards-free" identification. In this review, we cover the major roadblocks currently facing metabolomics and discuss applications where quantum chemistry calculations offer a solution. Several successful examples for nuclear magnetic resonance spectroscopy, ion mobility spectrometry, infrared spectroscopy, and mass spectrometry methods are reviewed. Finally, we consider current best practices, sources of error, and provide an outlook for quantum chemistry calculations in metabolomics studies. We expect this review will inspire researchers in the field of small-molecule identification to accelerate adoption of in silico methods for generation of reference libraries and to add quantum chemistry calculations as another tool at their disposal to characterize complex samples.
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Affiliation(s)
- Ricardo
M. Borges
- Walter
Mors Institute of Research on Natural Products, Federal University of Rio de Janeiro, Rio de Janeiro 21941-901, Brazil
| | - Sean M. Colby
- Biological
Science Division, Pacific Northwest National
Laboratory, Richland, Washington 99352, United States
| | - Susanta Das
- Department
of Chemistry, Michigan State University, East Lansing, Michigan 48824, United States
| | - Arthur S. Edison
- Departments
of Genetics and Biochemistry and Molecular Biology, Complex Carbohydrate
Research Center and Institute of Bioinformatics, University of Georgia, Athens, Georgia 30602, United States
| | - Oliver Fiehn
- West
Coast Metabolomics Center for Compound Identification, UC Davis Genome
Center, University of California, Davis, California 95616, United States
| | - Tobias Kind
- West
Coast Metabolomics Center for Compound Identification, UC Davis Genome
Center, University of California, Davis, California 95616, United States
| | - Jesi Lee
- West
Coast Metabolomics Center for Compound Identification, UC Davis Genome
Center, University of California, Davis, California 95616, United States
- Department
of Chemistry, University of California, Davis, California 95616, United States
| | - Amy T. Merrill
- Department
of Chemistry, University of California, Davis, California 95616, United States
| | - Kenneth M. Merz
- Department
of Chemistry, Michigan State University, East Lansing, Michigan 48824, United States
| | - Thomas O. Metz
- Biological
Science Division, Pacific Northwest National
Laboratory, Richland, Washington 99352, United States
| | - Jamie R. Nunez
- Biological
Science Division, Pacific Northwest National
Laboratory, Richland, Washington 99352, United States
| | - Dean J. Tantillo
- Department
of Chemistry, University of California, Davis, California 95616, United States
| | - Lee-Ping Wang
- Department
of Chemistry, University of California, Davis, California 95616, United States
| | - Shunyang Wang
- West
Coast Metabolomics Center for Compound Identification, UC Davis Genome
Center, University of California, Davis, California 95616, United States
- Department
of Chemistry, University of California, Davis, California 95616, United States
| | - Ryan S. Renslow
- Biological
Science Division, Pacific Northwest National
Laboratory, Richland, Washington 99352, United States
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8
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Chiarucci M, Mazzanti A, Righi P, Bencivenni G, Mancinelli M. Noncovalent Interactions between Stacked Arenes in 1,8‐Bis‐(1‐naphthyl)‐naphthalenes. European J Org Chem 2021. [DOI: 10.1002/ejoc.202100044] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Michel Chiarucci
- Polycrystalline S.p.A Via della Cooperazione 29 40059 Medicina Italy
| | - Andrea Mazzanti
- Department of Industrial Chemistry “Toso Montanari” and INSTM Research Unit Bologna University of Bologna Viale Risorgimento 4 40136 Bologna Italy
| | - Paolo Righi
- Department of Industrial Chemistry “Toso Montanari” and INSTM Research Unit Bologna University of Bologna Viale Risorgimento 4 40136 Bologna Italy
| | - Giorgio Bencivenni
- Department of Industrial Chemistry “Toso Montanari” and INSTM Research Unit Bologna University of Bologna Viale Risorgimento 4 40136 Bologna Italy
| | - Michele Mancinelli
- Department of Industrial Chemistry “Toso Montanari” and INSTM Research Unit Bologna University of Bologna Viale Risorgimento 4 40136 Bologna Italy
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9
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Lewis-Atwell T, Townsend PA, Grayson MN. Comparisons of different force fields in conformational analysis and searching of organic molecules: A review. Tetrahedron 2021. [DOI: 10.1016/j.tet.2020.131865] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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10
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Chen R, Shen Y, Yang S, Zhang Y. Conformational Design Principles in Total Synthesis. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.202003735] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- Renzhi Chen
- Department of Chemistry and Key Laboratory of Chemical Biology of Fujian Province, iChEM College of Chemistry and Chemical Engineering Xiamen University Xiamen Fujian 361005 China
| | - Yang Shen
- Department of Chemistry and Key Laboratory of Chemical Biology of Fujian Province, iChEM College of Chemistry and Chemical Engineering Xiamen University Xiamen Fujian 361005 China
| | - Sihan Yang
- Department of Chemistry and Key Laboratory of Chemical Biology of Fujian Province, iChEM College of Chemistry and Chemical Engineering Xiamen University Xiamen Fujian 361005 China
| | - Yandong Zhang
- Department of Chemistry and Key Laboratory of Chemical Biology of Fujian Province, iChEM College of Chemistry and Chemical Engineering Xiamen University Xiamen Fujian 361005 China
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11
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Chen R, Shen Y, Yang S, Zhang Y. Conformational Design Principles in Total Synthesis. Angew Chem Int Ed Engl 2020; 59:14198-14210. [DOI: 10.1002/anie.202003735] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2020] [Indexed: 12/17/2022]
Affiliation(s)
- Renzhi Chen
- Department of Chemistry and Key Laboratory of Chemical Biology of Fujian Province, iChEM College of Chemistry and Chemical Engineering Xiamen University Xiamen Fujian 361005 China
| | - Yang Shen
- Department of Chemistry and Key Laboratory of Chemical Biology of Fujian Province, iChEM College of Chemistry and Chemical Engineering Xiamen University Xiamen Fujian 361005 China
| | - Sihan Yang
- Department of Chemistry and Key Laboratory of Chemical Biology of Fujian Province, iChEM College of Chemistry and Chemical Engineering Xiamen University Xiamen Fujian 361005 China
| | - Yandong Zhang
- Department of Chemistry and Key Laboratory of Chemical Biology of Fujian Province, iChEM College of Chemistry and Chemical Engineering Xiamen University Xiamen Fujian 361005 China
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12
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Bertuzzi G, Silvestrini F, Moimare P, Pecorari D, Mazzanti A, Bernardi L, Fochi M. Chemodivergent Preparation of Various Heterocycles
via
Phase‐Transfer Catalysis: Enantioselective Synthesis of Functionalized Piperidines. Adv Synth Catal 2020. [DOI: 10.1002/adsc.201901500] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Affiliation(s)
- Giulio Bertuzzi
- Department of Industrial Chemistry “Toso Montanari” & INSTM RU BolognaAlma Mater Studiorum University of Bologna V. Risorgimento 4 40136 Bologna Italy
| | - Filippo Silvestrini
- Department of Industrial Chemistry “Toso Montanari” & INSTM RU BolognaAlma Mater Studiorum University of Bologna V. Risorgimento 4 40136 Bologna Italy
| | - Pierluigi Moimare
- Department of Industrial Chemistry “Toso Montanari” & INSTM RU BolognaAlma Mater Studiorum University of Bologna V. Risorgimento 4 40136 Bologna Italy
| | - Daniel Pecorari
- Department of Industrial Chemistry “Toso Montanari” & INSTM RU BolognaAlma Mater Studiorum University of Bologna V. Risorgimento 4 40136 Bologna Italy
| | - Andrea Mazzanti
- Department of Industrial Chemistry “Toso Montanari” & INSTM RU BolognaAlma Mater Studiorum University of Bologna V. Risorgimento 4 40136 Bologna Italy
| | - Luca Bernardi
- Department of Industrial Chemistry “Toso Montanari” & INSTM RU BolognaAlma Mater Studiorum University of Bologna V. Risorgimento 4 40136 Bologna Italy
| | - Mariafrancesca Fochi
- Department of Industrial Chemistry “Toso Montanari” & INSTM RU BolognaAlma Mater Studiorum University of Bologna V. Risorgimento 4 40136 Bologna Italy
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13
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Chan B. Aqueous-Phase Conformations of Lactose, Maltose, and Sucrose and the Assessment of Low-Cost DFT Methods with the DSCONF Set of Conformers for the Three Disaccharides. J Phys Chem A 2020; 124:582-590. [PMID: 31927999 DOI: 10.1021/acs.jpca.9b10932] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
In the present study, we have examined a range of quantum chemistry methods for the calculation of conformers for lactose, maltose, and sucrose. We find that the DSD-PBE-P86/aug'-cc-pVTZ//B3-LYP-D3BJ/6-311+G(2d,p) protocol yields good relative energies in comparison with reference CCSD(T)/CBS//B3-LYP-D3BJ/maug-cc-pVTZ values. We have surveyed a total of ∼550 conformers for the three disaccharides with the chosen DSD-PBE-P86 method in conjunction with continuum aqueous solvation. In each case, the lowest free energy conformer is characterized by hydrogen bond(s) between the two rings. Another finding is that the major contributors to the overall variations in aqueous free energies are the electronic energies and the solvation energies. To facilitate investigations of larger systems, we have compiled the DSCONF set of conformers for the three disaccharides, and we have assessed lower cost methods with this set. We find MS1-D3/6-31+G(2d,p) to be cost-effective and accurate for both geometry optimization and the calculation of relative energies for disaccharides. In addition, we note that MS1-D3 has previously been found to yield good relative energies for the WATER27 set of water clusters. We thus deem this method to be appropriate for the study of saccharide conformations in both gas phase and aqueous solution.
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Affiliation(s)
- Bun Chan
- Graduate School of Engineering , Nagasaki University , Bunkyo 1-14 , Nagasaki 852-8521 , Japan
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14
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Di Carmine G, Ragno D, Brandolese A, Bortolini O, Pecorari D, Sabuzi F, Mazzanti A, Massi A. Enantioselective Desymmetrization of 1,4-Dihydropyridines by Oxidative NHC Catalysis. Chemistry 2019; 25:7469-7474. [PMID: 30947379 DOI: 10.1002/chem.201901243] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2019] [Indexed: 12/21/2022]
Abstract
The unprecedented desymmetrization of prochiral dialdehydes catalyzed by N-heterocyclic carbenes under oxidative conditions was applied to the highly enantioselective synthesis of 1,4-dihydropyridines (DHPs) starting from 3,5-dicarbaldehyde substrates. Synthetic elaboration of the resulting 5-formyl-1,4-DHP-3-carboxylates allowed for access to the class of pharmaceutically relevant 1,4-DHP-3,5-dicarboxylates (Hantzsch esters). DFT calculations suggested that the enantioselectivity of the process is determined by the transition state involving the oxidation of the Breslow intermediate by the external quinone oxidant.
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Affiliation(s)
- Graziano Di Carmine
- Department of Chemical and Pharmaceutical Sciences, University of Ferrara, Via L. Borsari 46, I-44121, Ferrara, Italy
| | - Daniele Ragno
- Department of Chemical and Pharmaceutical Sciences, University of Ferrara, Via L. Borsari 46, I-44121, Ferrara, Italy
| | - Arianna Brandolese
- Department of Chemical and Pharmaceutical Sciences, University of Ferrara, Via L. Borsari 46, I-44121, Ferrara, Italy
| | - Olga Bortolini
- Department of Chemical and Pharmaceutical Sciences, University of Ferrara, Via L. Borsari 46, I-44121, Ferrara, Italy
| | - Daniel Pecorari
- Department of Industrial Chemistry "Toso Montanari", University of Bologna, V. Risorgimento 4, I-40136, Bologna, Italy
| | - Federica Sabuzi
- Department of Chemical Science and Technologies, University of Roma Tor Vergata, V. Ricerca Scientifica, I-00131, Roma, Italy
| | - Andrea Mazzanti
- Department of Industrial Chemistry "Toso Montanari", University of Bologna, V. Risorgimento 4, I-40136, Bologna, Italy
| | - Alessandro Massi
- Department of Chemical and Pharmaceutical Sciences, University of Ferrara, Via L. Borsari 46, I-44121, Ferrara, Italy
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15
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Pescitelli G. For a Correct Application of the CD Exciton Chirality Method: The Case of Laucysteinamide A. Mar Drugs 2018; 16:E388. [PMID: 30332852 PMCID: PMC6213868 DOI: 10.3390/md16100388] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2018] [Revised: 10/10/2018] [Accepted: 10/15/2018] [Indexed: 12/15/2022] Open
Abstract
The circular dichroism (CD) exciton chirality method (ECM) is a very popular approach for assigning the absolute configuration (AC) of natural products, thanks to its immediacy and ease of application. The sign of an exciton couplet (two electronic CD bands with opposite sign and similar intensity) can be directly correlated with the molecular stereochemistry, including the AC. However, a correct application of the ECM necessitates several prerequisites: knowledge of the molecular conformation; knowledge of transition moment direction; and preeminence of the exciton coupling mechanism with respect to other sources of CD signals. In recent years, by using quantum-chemical CD calculations, we have demonstrated that some previous applications of ECM were wrong or based on incorrect assumptions. In a recent publication of this journal (Mar. Drugs, 2017, 15(4), 121), the ECM was employed to assign the AC of a marine metabolite, laucysteinamide A. This is a further case of incorrect application of the method, where none of the aforementioned prerequisites is fully met. Using this example, we will discuss the criteria required for a correct application of the ECM.
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Affiliation(s)
- Gennaro Pescitelli
- Department of Chemistry and Industrial Chemistry, University of Pisa, Via G. Moruzzi 13, 56124 Pisa, Italy.
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16
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Knežević A, Novak J, Pescitelli G, Vinković V. Determination of the Absolute Configuration of ( S
)- N
-(1-Aryl-allyl)-3,5-dinitrobenzamides and Their Elution Order on Brush-Type Chiral Stationary Phases. European J Org Chem 2018. [DOI: 10.1002/ejoc.201800346] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Anamarija Knežević
- Division of Organic Chemistry and Biochemistry; Ruđer Bošković Institute; Bijenička cesta 54 Zagreb Croatia
| | - Jurica Novak
- Division of Physical Chemistry; Ruđer Bošković Institute; Bijenička cesta 54 Zagreb Croatia
| | - Gennaro Pescitelli
- Dipartimento di Chimica e Chimica Industriale; Università di Pisa; Via Moruzzi 13 Pisa Italy
| | - Vladimir Vinković
- Division of Organic Chemistry and Biochemistry; Ruđer Bošković Institute; Bijenička cesta 54 Zagreb Croatia
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17
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Meazza M, Kamlar M, Jašíková L, Formánek B, Mazzanti A, Roithová J, Veselý J, Rios R. Synergistic formal ring contraction for the enantioselective synthesis of spiropyrazolones. Chem Sci 2018; 9:6368-6373. [PMID: 30310564 PMCID: PMC6115638 DOI: 10.1039/c8sc00913a] [Citation(s) in RCA: 31] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2018] [Accepted: 06/28/2018] [Indexed: 01/10/2023] Open
Abstract
We report the first ring contraction/formal [6 + 2] cycloaddition using synergistic Pd(0)/secondary amine catalysis, obtaining [5,5]-spiropyrazolone derivatives in excellent yields and stereoselectivities. We detected the key palladium activated intermediate in its protonated form by mass spectrometry and characterized its structure by infrared spectroscopy and DFT calculations, allowing us to propose a conceivable mechanistic pathway for this reaction.
The rapid generation of molecular complexity from simple reactants is a key challenge in organic synthesis. Spiro compounds, underrepresented 3D motifs in chemical libraries, represent a challenge due to the creation of spiro quaternary carbon and the need to control the 3D shape in one step. Herein, we report the first ring contraction/formal [6 + 2] cycloaddition using synergistic Pd(0)/secondary amine catalysis, obtaining [5,5]-spiropyrazolone derivatives in excellent yields and stereoselectivities. We demonstrate that this reaction has a broad scope of early and late stage derivatization that will benefit the creation of highly valuable chemical libraries using spiropyrazolone motifs. We detected the key palladium activated intermediate in its protonated form by mass spectrometry and characterized its structure by infrared spectroscopy and DFT calculations, allowing us to propose a conceivable mechanistic pathway for this reaction.
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Affiliation(s)
- Marta Meazza
- Faculty of Natural & Environmental Sciences , University of Southampton , Highfield Campus , Southampton , SO17 1BJ , UK .
| | - Martin Kamlar
- Department of Organic Chemistry , Faculty of Science , Charles University , Hlavova 2030/8 , 128 43 , Prague 2 , Czech Republic
| | - Lucie Jašíková
- Department of Organic Chemistry , Faculty of Science , Charles University , Hlavova 2030/8 , 128 43 , Prague 2 , Czech Republic
| | - Bedřich Formánek
- Department of Organic Chemistry , Faculty of Science , Charles University , Hlavova 2030/8 , 128 43 , Prague 2 , Czech Republic
| | - Andrea Mazzanti
- Department of Industrial Chemistry "Toso Montanari" , School of Science , University of Bologna , Viale Risorgimento 4 , 40136 , Bologna , Italy
| | - Jana Roithová
- Department of Organic Chemistry , Faculty of Science , Charles University , Hlavova 2030/8 , 128 43 , Prague 2 , Czech Republic
| | - Jan Veselý
- Department of Organic Chemistry , Faculty of Science , Charles University , Hlavova 2030/8 , 128 43 , Prague 2 , Czech Republic
| | - Ramon Rios
- Faculty of Natural & Environmental Sciences , University of Southampton , Highfield Campus , Southampton , SO17 1BJ , UK .
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18
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Masnyk M, Butkiewicz A, Górecki M, Luboradzki R, Paluch P, Potrzebowski MJ, Frelek J. In Depth Analysis of Chiroptical Properties of Enones Derived from Abietic Acid. J Org Chem 2018; 83:3547-3561. [PMID: 29490457 DOI: 10.1021/acs.joc.7b02911] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
With the use of inexpensive commercially available abietic acid, a whole series of abietane enones were prepared in high yields. The structures of all the products obtained were determined by comprehensive spectroscopic analysis with particular emphasis on the use of advanced NMR techniques, comparison with previously reported data and, where possible, by single crystal X-ray diffraction. However, in cases where X-ray crystallography was not applicable or compounds tested were unstable, a final stereochemical assignment could be inferred only by electronic circular dichroism (ECD) supported by vibrational circular dichroism to increase credibility. To reveal the relationship between structure and chiroptical properties, we used combined experimental and theoretical analysis of geometries, structural parameters, and chiroptical properties of all enones synthesized. A thorough analysis of their conformational flexibility by examining the effect of solvent and temperature on the ECD spectra was also used to achieve desired objectives. As a result, the impact of substituents adjacent to the enone chromophore on the conformation was determined by demonstrating that even slight changes in the position of hydroxyl and isopropyl groups attached to carbon C13 may substantially affect ECD curves' pattern, leading in some cases to Cotton effects sign reversal.
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Affiliation(s)
- Marek Masnyk
- Institute of Organic Chemistry , Polish Academy of Sciences , Kasprzaka 44/52 , 01-224 Warsaw , Poland
| | - Aleksandra Butkiewicz
- Institute of Organic Chemistry , Polish Academy of Sciences , Kasprzaka 44/52 , 01-224 Warsaw , Poland
| | - Marcin Górecki
- Institute of Organic Chemistry , Polish Academy of Sciences , Kasprzaka 44/52 , 01-224 Warsaw , Poland
| | - Roman Luboradzki
- Institute of Physical Chemistry , Polish Academy of Sciences , Kasprzaka 44/52 , 01-224 Warsaw , Poland
| | - Piotr Paluch
- Centre of Molecular and Macromolecular Studies , Polish Academy of Sciences , Sienkiewicza 112 , 90-363 Lodz , Poland
| | - Marek J Potrzebowski
- Centre of Molecular and Macromolecular Studies , Polish Academy of Sciences , Sienkiewicza 112 , 90-363 Lodz , Poland
| | - Jadwiga Frelek
- Institute of Organic Chemistry , Polish Academy of Sciences , Kasprzaka 44/52 , 01-224 Warsaw , Poland
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19
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Di Carmine G, Ragno D, Bortolini O, Giovannini PP, Mazzanti A, Massi A, Fogagnolo M. Enantioselective Dearomatization of Alkylpyridiniums by N-Heterocyclic Carbene-Catalyzed Nucleophilic Acylation. J Org Chem 2018; 83:2050-2057. [DOI: 10.1021/acs.joc.7b02996] [Citation(s) in RCA: 33] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Graziano Di Carmine
- Dipartimento
di Scienze Chimiche e Farmaceutiche, Università di Ferrara, Via L. Borsari, 46, I-44121 Ferrara, Italy
| | - Daniele Ragno
- Dipartimento
di Scienze Chimiche e Farmaceutiche, Università di Ferrara, Via L. Borsari, 46, I-44121 Ferrara, Italy
| | - Olga Bortolini
- Dipartimento
di Scienze Chimiche e Farmaceutiche, Università di Ferrara, Via L. Borsari, 46, I-44121 Ferrara, Italy
| | - Pier Paolo Giovannini
- Dipartimento
di Scienze Chimiche e Farmaceutiche, Università di Ferrara, Via L. Borsari, 46, I-44121 Ferrara, Italy
| | - Andrea Mazzanti
- Dipartimento
di Chimica Industriale “Toso Montanari”, Università di Bologna, V. Risorgimento 4, I-40136 Bologna, Italy
| | - Alessandro Massi
- Dipartimento
di Scienze Chimiche e Farmaceutiche, Università di Ferrara, Via L. Borsari, 46, I-44121 Ferrara, Italy
| | - Marco Fogagnolo
- Dipartimento
di Scienze Chimiche e Farmaceutiche, Università di Ferrara, Via L. Borsari, 46, I-44121 Ferrara, Italy
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20
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Ciogli A, Vivek Kumar S, Mancinelli M, Mazzanti A, Perumal S, Severi C, Villani C. Atropisomerism in 3-arylthiazolidine-2-thiones. A combined dynamic NMR and dynamic HPLC study. Org Biomol Chem 2018; 14:11137-11147. [PMID: 27830854 DOI: 10.1039/c6ob02145j] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Sterically hindered 3-arylthiazolidine-2-thiones were prepared by a solvent-free reaction with arylisothiocyanates and 1,4-dithiane-2,5-diol. Atropisomerism was observed in two compounds (3 and 4, aryl = 1-naphthyl and 2-methylnaphth-1-yl), whose rotational energy barriers were measured using dynamic NMR and dynamic HPLC. The experimental analyses were supported by DFT calculations. Thermally stable atropisomers were obtained by dehydration of compounds 3 and 4 and the absolute configuration of the atropisomers of compound 6 was determined by theoretical simulation of the ECD and VCD spectra.
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Affiliation(s)
- A Ciogli
- Department of Chemistry and Technologies of Drug, Sapienza University of Rome, Piazzale A. Moro 5, I-00185 Rome, Italy
| | - S Vivek Kumar
- Department of Organic Chemistry, School of Chemistry, Madurai Kamaraj University, Madurai-625021, Tamil Nadu, India
| | - M Mancinelli
- Department of Industrial Chemistry "Toso Montanari", University of Bologna, Viale Risorgimento 4, I-40136 Bologna, Italy.
| | - A Mazzanti
- Department of Industrial Chemistry "Toso Montanari", University of Bologna, Viale Risorgimento 4, I-40136 Bologna, Italy.
| | - S Perumal
- Department of Organic Chemistry, School of Chemistry, Madurai Kamaraj University, Madurai-625021, Tamil Nadu, India
| | - C Severi
- Department of Industrial Chemistry "Toso Montanari", University of Bologna, Viale Risorgimento 4, I-40136 Bologna, Italy.
| | - C Villani
- Department of Chemistry and Technologies of Drug, Sapienza University of Rome, Piazzale A. Moro 5, I-00185 Rome, Italy
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21
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How and How Much Molecular Conformation Affects Electronic Circular Dichroism: The Case of 1,1-Diarylcarbinols. Molecules 2018; 23:molecules23010128. [PMID: 29315220 PMCID: PMC6017593 DOI: 10.3390/molecules23010128] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2017] [Revised: 12/29/2017] [Accepted: 01/08/2018] [Indexed: 11/25/2022] Open
Abstract
Chiroptical spectra such as electronic circular dichroism (ECD) are said to be much more sensitive to conformation than their non-chiroptical counterparts, however, it is difficult to demonstrate such a common notion in a clear-cut way. We run DFT and TDDFT calculations on two closely related 1,1-diarylmethanols which show mirror-image ECD spectra for the same absolute configuration. We demonstrate that the main reason for the different chiroptical response of the two compounds lies in different conformational ensembles, caused by a single hydrogen-to-methyl substitution. We conclude that two compounds, having the same configuration but different conformation, may exhibit mirror-image ECD signals, stressing the importance and impact of conformational factors on ECD spectra.
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22
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Masi M, Meyer S, Górecki M, Mandoli A, Di Bari L, Pescitelli G, Cimmino A, Cristofaro M, Clement S, Evidente A. Pyriculins A and B, two monosubstituted hex-4-ene-2,3-diols and other phytotoxic metabolites produced by Pyricularia grisea
isolated from buffelgrass (Cenchrus ciliaris
). Chirality 2017; 29:726-736. [DOI: 10.1002/chir.22744] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2017] [Revised: 07/13/2017] [Accepted: 07/21/2017] [Indexed: 12/18/2022]
Affiliation(s)
- Marco Masi
- Dipartimento di Scienze Chimiche; Università di Napoli Federico II, Complesso Universitario Monte S. Angelo; Naples Italy
- BBCA Onlus; Rome Italy
| | - Susan Meyer
- Shrub Sciences Laboratory; U.S. Forest Service Rocky Mountain Research Station; Provo Utah USA
| | - Marcin Górecki
- Dipartimento di Chimica e Chimica Industriale; Università di Pisa; Pisa Italy
| | - Alessandro Mandoli
- Dipartimento di Chimica e Chimica Industriale; Università di Pisa; Pisa Italy
| | - Lorenzo Di Bari
- Dipartimento di Chimica e Chimica Industriale; Università di Pisa; Pisa Italy
| | - Gennaro Pescitelli
- Dipartimento di Chimica e Chimica Industriale; Università di Pisa; Pisa Italy
| | - Alessio Cimmino
- Dipartimento di Scienze Chimiche; Università di Napoli Federico II, Complesso Universitario Monte S. Angelo; Naples Italy
| | | | - Suzette Clement
- Shrub Sciences Laboratory; U.S. Forest Service Rocky Mountain Research Station; Provo Utah USA
| | - Antonio Evidente
- Dipartimento di Scienze Chimiche; Università di Napoli Federico II, Complesso Universitario Monte S. Angelo; Naples Italy
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23
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Bertuzzi G, Sinisi A, Pecorari D, Caruana L, Mazzanti A, Bernardi L, Fochi M. Nucleophilic Dearomatization of Pyridines under Enamine Catalysis: Regio-, Diastereo-, and Enantioselective Addition of Aldehydes to Activated N-Alkylpyridinium Salts. Org Lett 2017; 19:834-837. [PMID: 28128963 DOI: 10.1021/acs.orglett.6b03824] [Citation(s) in RCA: 46] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Catalytic addition of chiral enamines to azinium salts is a powerful tool for the synthesis of enantioenriched heterocycles. An unprecedented asymmetric dearomative addition of aldehydes to activated N-alkylpyridinium salts is presented. The process exhibits complete C-4 regioselectivity along with high levels of diastereo- and enantiocontrol, achieving a high-yielding synthesis of a broad range of optically active 1,4-dihydropyridines. Moreover, the presented methodology enables the synthesis of functionalized octahydropyrrolo[2,3-c]pyridines, the core structure of anticancer peptidomimetics.
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Affiliation(s)
- Giulio Bertuzzi
- Department of Industrial Chemistry "Toso Montanari" and INSTM RU Bologna, Alma Mater Studiorum-University of Bologna , Via Risorgimento 4, 40136 Bologna, Italy
| | - Alessandro Sinisi
- Department of Industrial Chemistry "Toso Montanari" and INSTM RU Bologna, Alma Mater Studiorum-University of Bologna , Via Risorgimento 4, 40136 Bologna, Italy
| | - Daniel Pecorari
- Department of Industrial Chemistry "Toso Montanari" and INSTM RU Bologna, Alma Mater Studiorum-University of Bologna , Via Risorgimento 4, 40136 Bologna, Italy
| | - Lorenzo Caruana
- Department of Industrial Chemistry "Toso Montanari" and INSTM RU Bologna, Alma Mater Studiorum-University of Bologna , Via Risorgimento 4, 40136 Bologna, Italy
| | - Andrea Mazzanti
- Department of Industrial Chemistry "Toso Montanari" and INSTM RU Bologna, Alma Mater Studiorum-University of Bologna , Via Risorgimento 4, 40136 Bologna, Italy
| | - Luca Bernardi
- Department of Industrial Chemistry "Toso Montanari" and INSTM RU Bologna, Alma Mater Studiorum-University of Bologna , Via Risorgimento 4, 40136 Bologna, Italy
| | - Mariafrancesca Fochi
- Department of Industrial Chemistry "Toso Montanari" and INSTM RU Bologna, Alma Mater Studiorum-University of Bologna , Via Risorgimento 4, 40136 Bologna, Italy
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24
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Meazza M, Potter M, Pitak MB, Coles SJ, Mazzanti A, Rios R. Highly Enantioselective Synthesis of Alkylpyridine Derivatives through a Michael/Michael/Aldol Cascade Reaction. European J Org Chem 2017. [DOI: 10.1002/ejoc.201601491] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Affiliation(s)
- Marta Meazza
- School of Chemistry; University of Southampton; Southampton UK
| | - Michael Potter
- School of Chemistry; University of Southampton; Southampton UK
| | - Mateusz B. Pitak
- UK National Crystallography Service; School of Chemistry; University of Southampton; Southampton UK
| | - Simon J. Coles
- UK National Crystallography Service; School of Chemistry; University of Southampton; Southampton UK
| | - Andrea Mazzanti
- Department of Industrial Chemistry “Toso Montanari”; School of Science; University of Bologna; Viale Risorgimento 4 40136 Bologna Italy
| | - Ramon Rios
- School of Chemistry; University of Southampton; Southampton UK
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25
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Karas LJ, Batista PR, Viesser RV, Tormena CF, Rittner R, de Oliveira PR. Trends of intramolecular hydrogen bonding in substituted alcohols: a deeper investigation. Phys Chem Chem Phys 2017. [DOI: 10.1039/c7cp03572a] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
NBO analyses were used to perform a deeper investigation on the effects that drive IAHB strength in substituted acyclic alcohols.
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Affiliation(s)
- Lucas J. Karas
- Conformational Analysis and Renewable Resources Laboratory
- Department of Chemistry and Biology
- Federal University of Technology-Paraná
- Curitiba
- Brazil
| | - Patrick R. Batista
- Conformational Analysis and Renewable Resources Laboratory
- Department of Chemistry and Biology
- Federal University of Technology-Paraná
- Curitiba
- Brazil
| | - Renan V. Viesser
- Physical Organic Chemistry Laboratory
- Institute of Chemistry
- University of Campinas
- 13083-970 Campinas
- Brazil
| | - Cláudio F. Tormena
- Physical Organic Chemistry Laboratory
- Institute of Chemistry
- University of Campinas
- 13083-970 Campinas
- Brazil
| | - Roberto Rittner
- Physical Organic Chemistry Laboratory
- Institute of Chemistry
- University of Campinas
- 13083-970 Campinas
- Brazil
| | - Paulo R. de Oliveira
- Conformational Analysis and Renewable Resources Laboratory
- Department of Chemistry and Biology
- Federal University of Technology-Paraná
- Curitiba
- Brazil
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26
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Górecki M, Roszkowski P, Błachut D, Maurin JK, Budzianowski A, Frelek J, Czarnocki Z. Atropoisomerism in Mono- and Diaryl-Substituted 4-Amino-2,6-lutidines. European J Org Chem 2016. [DOI: 10.1002/ejoc.201600456] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Marcin Górecki
- Institute of Organic Chemistry; Polish Academy of Sciences; Kasprzaka 44/52 01-224 Warsaw Poland
| | - Piotr Roszkowski
- Faculty of Chemistry; University of Warsaw; Pasteura 1 02-093 Warsaw Poland
| | - Dariusz Błachut
- Forensic Laboratory; Internal Security Agency; 1 Sierpnia 30A 02-134 Warsaw Poland
| | - Jan K. Maurin
- National Medicines Institute; Chełmska 30/34 00-725 Warsaw Poland
- National Centre for Nuclear Research; Andrzeja Sołtana 7 05-400 Otwock-Świerk Poland
| | - Armand Budzianowski
- National Centre for Nuclear Research; Andrzeja Sołtana 7 05-400 Otwock-Świerk Poland
| | - Jadwiga Frelek
- Institute of Organic Chemistry; Polish Academy of Sciences; Kasprzaka 44/52 01-224 Warsaw Poland
| | - Zbigniew Czarnocki
- Faculty of Chemistry; University of Warsaw; Pasteura 1 02-093 Warsaw Poland
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27
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Mazzanti A, Mercanti E, Mancinelli M. Axial Chirality about Boron–Carbon Bond: Atropisomeric Azaborines. Org Lett 2016; 18:2692-5. [DOI: 10.1021/acs.orglett.6b01159] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Andrea Mazzanti
- Department of Industrial
Chemistry “Toso Montanari”, University of Bologna, Viale del Risorgimento 4, I-40136 Bologna, Italy
| | - Elia Mercanti
- Department of Industrial
Chemistry “Toso Montanari”, University of Bologna, Viale del Risorgimento 4, I-40136 Bologna, Italy
| | - Michele Mancinelli
- Department of Industrial
Chemistry “Toso Montanari”, University of Bologna, Viale del Risorgimento 4, I-40136 Bologna, Italy
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28
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Bernardi L, Bolzoni G, Fochi M, Mancinelli M, Mazzanti A. An Atropisomerically Enforced Phosphoric Acid for Organocatalytic Asymmetric Reactions. European J Org Chem 2016. [DOI: 10.1002/ejoc.201600296] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Affiliation(s)
- Luca Bernardi
- Department of Industrial Chemistry “Toso Montanari”; University of Bologna; Viale Risorgimento 4 40136 Bologna Italy
| | - Giada Bolzoni
- Department of Industrial Chemistry “Toso Montanari”; University of Bologna; Viale Risorgimento 4 40136 Bologna Italy
| | - Mariafrancesca Fochi
- Department of Industrial Chemistry “Toso Montanari”; University of Bologna; Viale Risorgimento 4 40136 Bologna Italy
| | - Michele Mancinelli
- Department of Industrial Chemistry “Toso Montanari”; University of Bologna; Viale Risorgimento 4 40136 Bologna Italy
| | - Andrea Mazzanti
- Department of Industrial Chemistry “Toso Montanari”; University of Bologna; Viale Risorgimento 4 40136 Bologna Italy
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29
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Pescitelli G, Bruhn T. Good Computational Practice in the Assignment of Absolute Configurations by TDDFT Calculations of ECD Spectra. Chirality 2016; 28:466-74. [PMID: 27098594 DOI: 10.1002/chir.22600] [Citation(s) in RCA: 353] [Impact Index Per Article: 44.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2016] [Revised: 03/03/2016] [Accepted: 03/05/2016] [Indexed: 01/10/2023]
Abstract
Quantum-mechanical calculations of chiroptical properties have rapidly become the most popular method for assigning absolute configurations (AC) of organic compounds, including natural products. Black-box time-dependent Density Functional Theory (TDDFT) calculations of electronic circular dichroism (ECD) spectra are nowadays readily accessible to nonexperts. However, an uncritical attitude may easily deliver a wrong answer. We present to the Chirality Forum a discussion on what can be called good computational practice in running TDDFT ECD calculations, highlighting the most crucial points with several examples from the recent literature. Chirality 28:466-474, 2016. © 2016 Wiley Periodicals, Inc.
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Affiliation(s)
- Gennaro Pescitelli
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, Pisa, Italy
| | - Torsten Bruhn
- Institut für Organische Chemie, Universität Würzburg Am Hubland, Würzburg, Germany
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30
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Meazza M, Light ME, Mazzanti A, Rios R. Synergistic catalysis: cis-cyclopropanation of benzoxazoles. Chem Sci 2016; 7:984-988. [PMID: 29081942 PMCID: PMC5633913 DOI: 10.1039/c5sc03597j] [Citation(s) in RCA: 40] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2015] [Accepted: 10/30/2015] [Indexed: 11/25/2022] Open
Abstract
In the present paper we report our latest efforts in pushing the boundaries of synergistic catalysis. We propose the use of 3 different catalytic cycles working in concert for the formation of cis cyclopropane derivatives of benzoxazoles with excellent stereoselectivities. This is the proof of concept that synergistic catalysis could be successfully used in cascade reactions.
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Affiliation(s)
- Marta Meazza
- Faculty of Natural & Environmental Sciences , University of Southampton , Highfield Campus , Southampton , SO17 1BJ , UK . ; http://www.riosresearchgroup.com
| | - Mark E Light
- Faculty of Natural & Environmental Sciences , University of Southampton , Highfield Campus , Southampton , SO17 1BJ , UK . ; http://www.riosresearchgroup.com
| | - Andrea Mazzanti
- Department of Industrial Chemistry "Toso Montanari" , School of Science , University of Bologna , Viale Risorgimento 4 , 40136 Bologna , Italy
| | - Ramon Rios
- Faculty of Natural & Environmental Sciences , University of Southampton , Highfield Campus , Southampton , SO17 1BJ , UK . ; http://www.riosresearchgroup.com
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31
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Romanini S, Galletti E, Caruana L, Mazzanti A, Himo F, Santoro S, Fochi M, Bernardi L. Catalytic Asymmetric Reactions of 4-Substituted Indoles with Nitroethene: A Direct Entry to Ergot Alkaloid Structures. Chemistry 2015; 21:17578-82. [PMID: 26486074 PMCID: PMC4832839 DOI: 10.1002/chem.201502655] [Citation(s) in RCA: 40] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2015] [Indexed: 12/30/2022]
Abstract
A domino Friedel-Crafts/nitro-Michael reaction between 4-substituted indoles and nitroethene is presented. The reaction is catalyzed by BINOL-derived phosphoric acid catalysts, and delivers the corresponding 3,4-ring-fused indoles with very good results in terms of yields and diastereo- and enantioselectivities. The tricyclic benzo[cd]indole products bear a nitro group at the right position to serve as precursors of ergot alkaloids, as demonstrated by the formal synthesis of 6,7-secoagroclavine from one of the adducts. DFT calculations suggest that the outcome of the reaction stems from the preferential evolution of a key nitronic acid intermediate through a nucleophilic addition pathway, rather than to the expected "quenching" through protonation.
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Affiliation(s)
- Simone Romanini
- Department of Industrial Chemistry "Toso Montanari", University of Bologna, V. Risorgimento 4, 40136 Bologna (Italy)
| | - Emilio Galletti
- Department of Industrial Chemistry "Toso Montanari", University of Bologna, V. Risorgimento 4, 40136 Bologna (Italy)
| | - Lorenzo Caruana
- Department of Industrial Chemistry "Toso Montanari", University of Bologna, V. Risorgimento 4, 40136 Bologna (Italy)
| | - Andrea Mazzanti
- Department of Industrial Chemistry "Toso Montanari", University of Bologna, V. Risorgimento 4, 40136 Bologna (Italy)
| | - Fahmi Himo
- Department of Organic Chemistry, Arrhenius Laboratory, Stockholm University, 10691 Stockholm (Sweden)
| | - Stefano Santoro
- Department of Chemistry, Biology and Biotechnology, University of Perugia, V. Elce di Sotto 8, 06123 Perugia (Italy).
| | - Mariafrancesca Fochi
- Department of Industrial Chemistry "Toso Montanari", University of Bologna, V. Risorgimento 4, 40136 Bologna (Italy).
| | - Luca Bernardi
- Department of Industrial Chemistry "Toso Montanari", University of Bologna, V. Risorgimento 4, 40136 Bologna (Italy).
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Keeri AR, Gualandi A, Mazzanti A, Lewinski J, Cozzi PG. Me
2
Zn‐Mediated Catalytic Enantio‐ and Diastereoselective Addition of TosMIC to Ketones. Chemistry 2015; 21:18949-52. [PMID: 26549317 DOI: 10.1002/chem.201504362] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2015] [Indexed: 01/12/2023]
Affiliation(s)
- Abdul Raheem Keeri
- Dipartimento di Chimica "G: Ciamician", ALMA MATER STUDIORUM, Università di Bologna, Via Selmi 2, 40126, Bologna (Italy)
- Faculty of Chemistry, Warsaw University of Technology, Noakowskiego 3, 00-664, Warsaw (Poland)
| | - Andrea Gualandi
- Dipartimento di Chimica "G: Ciamician", ALMA MATER STUDIORUM, Università di Bologna, Via Selmi 2, 40126, Bologna (Italy).
| | - Andrea Mazzanti
- Dipartimento di Chimica "Toso Montanari", ALMA MATER STUDIORUM, Università di Bologna, Viale del Risorgimento 4, 40136, Bologna (Italy)
| | - Janusz Lewinski
- Faculty of Chemistry, Warsaw University of Technology, Noakowskiego 3, 00-664, Warsaw (Poland)
| | - Pier Giorgio Cozzi
- Dipartimento di Chimica "G: Ciamician", ALMA MATER STUDIORUM, Università di Bologna, Via Selmi 2, 40126, Bologna (Italy).
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Bencivenni G, Righi P, Lunazzi L, Ranieri S, Mancinelli M, Mazzanti A. Enantioselective Preparation, Conformational Analysis and Absolute Configuration of Highly Substituted Aziridines. Chirality 2015; 27:875-87. [DOI: 10.1002/chir.22522] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2015] [Revised: 08/04/2015] [Accepted: 08/04/2015] [Indexed: 12/15/2022]
Affiliation(s)
- Giorgio Bencivenni
- Department of Industrial Chemistry “Toso Montanari”; University of Bologna; Italy
| | - Paolo Righi
- Department of Industrial Chemistry “Toso Montanari”; University of Bologna; Italy
| | - Lodovico Lunazzi
- Department of Industrial Chemistry “Toso Montanari”; University of Bologna; Italy
| | - Silvia Ranieri
- Department of Industrial Chemistry “Toso Montanari”; University of Bologna; Italy
| | - Michele Mancinelli
- Department of Industrial Chemistry “Toso Montanari”; University of Bologna; Italy
| | - Andrea Mazzanti
- Department of Industrial Chemistry “Toso Montanari”; University of Bologna; Italy
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Kozlecki T, Tolstoy PM, Kwocz A, Vovk MA, Kochel A, Polowczyk I, Tretyakov PY, Filarowski A. Conformational state of β-hydroxynaphthylamides: Barriers for the rotation of the amide group around CN bond and dynamics of the morpholine ring. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2015; 149:254-262. [PMID: 25965172 DOI: 10.1016/j.saa.2015.04.052] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/18/2015] [Revised: 04/14/2015] [Accepted: 04/16/2015] [Indexed: 06/04/2023]
Abstract
Three β-hydroxynaphthylamides (morpholine, pyrrolidine and dimethylamine derivatives) have been synthesized and their conformational state was analyzed by NMR, X-ray and DFT calculations. In aprotic solution the molecules contain intramolecular OHO hydrogen bonds, which change into intermolecular ones in solid state. The energy barriers for the amide group rotation around the CN bond were estimated from the line shape analysis of (1)H and (13)C NMR signals. A tentative correlation between the barrier height and the strength of OHO bond was proposed. Calculations of the potential energy profiles for the rotations around CC and CN bonds were done. In case of morpholine derivative experimental indications of additional dynamics: chair-chair 'ring flip' in combination with the twisting around CC bond were obtained and confirmed by quantum chemistry calculations.
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Affiliation(s)
- Tomasz Kozlecki
- Wroclaw University of Technology, Faculty of Chemistry, Division of Chemical Engineering, 50-373 Wrocław, Poland
| | - Peter M Tolstoy
- St. Petersburg State University, Center for Magnetic Resonance, 198504 St. Petersburg, Russia.
| | - Agnieszka Kwocz
- Faculty of Chemistry, University of Wrocław, 50-383 Wrocław, Poland
| | - Mikhail A Vovk
- St. Petersburg State University, Center for Magnetic Resonance, 198504 St. Petersburg, Russia
| | - Andrzej Kochel
- Faculty of Chemistry, University of Wrocław, 50-383 Wrocław, Poland
| | - Izabela Polowczyk
- Wroclaw University of Technology, Faculty of Chemistry, Division of Chemical Engineering, 50-373 Wrocław, Poland
| | | | - Aleksander Filarowski
- Faculty of Chemistry, University of Wrocław, 50-383 Wrocław, Poland; The Joint Institute for Nuclear Research, Frank Laboratory of Neutron Physics, 141980 Dubna, Russia.
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Caruana L, Mondatori M, Corti V, Morales S, Mazzanti A, Fochi M, Bernardi L. Catalytic Asymmetric Addition of Meldrum’s Acid, Malononitrile, and 1,3-Dicarbonyls toortho-Quinone Methides Generated In Situ Under Basic Conditions. Chemistry 2015; 21:6037-41. [DOI: 10.1002/chem.201500710] [Citation(s) in RCA: 101] [Impact Index Per Article: 11.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2015] [Indexed: 11/07/2022]
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Sanchéz-Lozano M, Mandado M, Pérez-Juste I, Hermida-Ramón JM. Theoretical vibrational Raman and surface-enhanced Raman scattering spectra of water interacting with silver clusters. Chemphyschem 2014; 15:4067-76. [PMID: 25263101 DOI: 10.1002/cphc.201402454] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2014] [Indexed: 11/11/2022]
Abstract
In this study, we analyzed the Raman spectrum of a water molecule adsorbed on a cluster of 20 silver atoms, and the plasmonic electromagnetic effect of the silver surface was also considered to give a theoretical prediction of the surface-enhanced Raman scattering spectrum. The calculations were performed at the density functional theory (DFT) level by using both frozen and unfrozen silver clusters. Two different models were used to consider the plasmonic enhancement; one of them was a modified classical (dipole) model and the other was the coupled perturbed Hartree-Fock method with excitation frequencies obtained from time-dependent DFT calculations and with proper detuning of these frequencies. The importance of small geometrical distortions of the silver surface in the orientation of the adsorbed water was shown. Moreover, it was shown how the symmetry of the transition dipole moment and the symmetry of the vibrational modes influence the Raman intensities of the SERS spectrum.
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Affiliation(s)
- Marta Sanchéz-Lozano
- Departamento de Química Física, Facultade de Química, Universidade de Vigo, Campus Lagoas Marcosende s/n, 36310 Vigo (Spain)
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Gunasekaran P, Perumal S, Menéndez JC, Mancinelli M, Ranieri S, Mazzanti A. Axial Chirality of 4-Arylpyrazolo[3,4-b]pyridines. Conformational Analysis and Absolute Configuration. J Org Chem 2014; 79:11039-50. [DOI: 10.1021/jo502047n] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Pethaiah Gunasekaran
- Department
of Organic Chemistry, School of Chemistry, Madurai Kamaraj University, Madurai 625 021, Tamil Nadu, India
| | - Subbu Perumal
- Department
of Organic Chemistry, School of Chemistry, Madurai Kamaraj University, Madurai 625 021, Tamil Nadu, India
| | - J. Carlos Menéndez
- Departamento
de Química Orgánica y Farmacéutica, Facultad
de Farmacia, Universidad Complutense, 28040 Madrid, Spain
| | - Michele Mancinelli
- Department
of Industrial Chemistry “Toso Montanari”, University of Bologna, Viale Risorgimento 4, 40136 Bologna, Italy
| | - Silvia Ranieri
- Department
of Industrial Chemistry “Toso Montanari”, University of Bologna, Viale Risorgimento 4, 40136 Bologna, Italy
| | - Andrea Mazzanti
- Department
of Industrial Chemistry “Toso Montanari”, University of Bologna, Viale Risorgimento 4, 40136 Bologna, Italy
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Dopamine derivatives from the insect Polyrhachis dives as inhibitors of ROCK1/2 and stimulators of neural stem cell proliferation. Tetrahedron 2014. [DOI: 10.1016/j.tet.2014.09.095] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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Hernandez R, Popov AV. Molecular dynamics out of equilibrium: mechanics and measurables. WILEY INTERDISCIPLINARY REVIEWS-COMPUTATIONAL MOLECULAR SCIENCE 2014. [DOI: 10.1002/wcms.1190] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Rigoberto Hernandez
- Center for Computational and Molecular Science and Technology, School of Chemistry and Biochemistry Georgia Institute of Technology Atlanta GA USA
| | - Alexander V. Popov
- Center for Computational and Molecular Science and Technology, School of Chemistry and Biochemistry Georgia Institute of Technology Atlanta GA USA
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Schmidt M, Reinscheid F, Sun H, Abromeit H, Scriba GKE, Sönnichsen FD, John M, Reinscheid UM. Hidden Flexibility of Strychnine. European J Org Chem 2014. [DOI: 10.1002/ejoc.201301760] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
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Caruana L, Fochi M, Franchini MC, Ranieri S, Mazzanti A, Bernardi L. Asymmetric synthesis of 3,4-annulated indoles through an organocatalytic cascade approach. Chem Commun (Camb) 2014; 50:445-7. [DOI: 10.1039/c3cc47841f] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Ambrogi M, Ciogli A, Mancinelli M, Ranieri S, Mazzanti A. Atropisomers of Arylmaleimides: Stereodynamics and Absolute Configuration. J Org Chem 2013; 78:3709-19. [DOI: 10.1021/jo400200v] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Martina Ambrogi
- Department of Industrial Chemistry
“Toso Montanari”, University of Bologna, Viale Risorgimento 4, 40136 - Bologna, Italy
| | - Alessia Ciogli
- Dipartimento di Chimica e Tecnologie
del farmaco, Università di Roma “La Sapienza”, P.le A.Moro 5, 00185 - Roma, Italy
| | - Michele Mancinelli
- Department of Industrial Chemistry
“Toso Montanari”, University of Bologna, Viale Risorgimento 4, 40136 - Bologna, Italy
| | - Silvia Ranieri
- Department of Industrial Chemistry
“Toso Montanari”, University of Bologna, Viale Risorgimento 4, 40136 - Bologna, Italy
| | - Andrea Mazzanti
- Department of Industrial Chemistry
“Toso Montanari”, University of Bologna, Viale Risorgimento 4, 40136 - Bologna, Italy
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Caruana L, Fochi M, Ranieri S, Mazzanti A, Bernardi L. Catalytic highly enantioselective vinylogous Povarov reaction. Chem Commun (Camb) 2013; 49:880-2. [DOI: 10.1039/c2cc38002a] [Citation(s) in RCA: 50] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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Companyó X, Mazzanti A, Moyano A, Janecka A, Rios R. First one-pot organocatalytic synthesis of α-methylene-γ-lactones. Chem Commun (Camb) 2013; 49:1184-6. [DOI: 10.1039/c2cc38659c] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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