1
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Guerrero De León E, Sánchez-Martínez H, Morán-Pinzón JA, Del Olmo Fernández E, López-Pérez JL. Computational Structural Revision of Elaeophorbate and Other Triterpenoids with the Help of NAPROC-13. A New Strategy for Structural Revision of Natural Products. JOURNAL OF NATURAL PRODUCTS 2023; 86:897-908. [PMID: 36881492 DOI: 10.1021/acs.jnatprod.2c01135] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
Abstract
A considerable number of natural products have been published in recent years with misassigned structure, even though they had been correctly elucidated in the past. The availability of databases containing revised structures can prevent the amplification of errors in structural elucidation. NAPROC-13, a dereplication tool based on the 13C chemical shift, has been used to search for substances that, possessing the same chemical shifts, have been described with different structures. The correct structure of these different structural proposals is verified by computational chemistry. This paper reports the structural revision of nine triterpenoids following this methodology.
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Affiliation(s)
- Estela Guerrero De León
- CIPFAR, Departamento de Farmacología, Facultad de Medicina, Universidad de Panamá, Avenue Octavio Mendez Pereira, Panama City 0824, Panama
| | - Hugo Sánchez-Martínez
- CIPFAR, Departamento de Farmacología, Facultad de Medicina, Universidad de Panamá, Avenue Octavio Mendez Pereira, Panama City 0824, Panama
| | - Juan A Morán-Pinzón
- CIPFAR, Departamento de Farmacología, Facultad de Medicina, Universidad de Panamá, Avenue Octavio Mendez Pereira, Panama City 0824, Panama
| | - Esther Del Olmo Fernández
- Departamento de Ciencias Farmacéuticas, Área de Química Farmacéutica, Facultad de Farmacia, CIETUS, IBSAL, Campus Miguel de Unamuno, University of Salamanca, 37007 Salamanca, Spain
| | - José L López-Pérez
- CIPFAR, Departamento de Farmacología, Facultad de Medicina, Universidad de Panamá, Avenue Octavio Mendez Pereira, Panama City 0824, Panama
- Departamento de Ciencias Farmacéuticas, Área de Química Farmacéutica, Facultad de Farmacia, CIETUS, IBSAL, Campus Miguel de Unamuno, University of Salamanca, 37007 Salamanca, Spain
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2
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Hayasaka A, Hashimoto K, Konno K, Tanaka K, Hashimoto M. Isolation, Identification, and DFT-based Conformational Analysis of Sesquikarahanadienone and its Congeners from Freshwater Dothideomycetes Neohelicascus aquaticus KT4120. BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN 2022. [DOI: 10.1246/bcsj.20220063] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Ayane Hayasaka
- Faculty of Agriculture and Life Science, Hirosaki University, 3-Bunkyo-cho, Hirosaki, 036-8561, Japan
| | - Kazuki Hashimoto
- Faculty of Agriculture and Life Science, Hirosaki University, 3-Bunkyo-cho, Hirosaki, 036-8561, Japan
| | - Katsuhiro Konno
- Institute of Natural Medicine, University of Toyama, Toyama 930-0194, Japan
| | - Kazuaki Tanaka
- Faculty of Agriculture and Life Science, Hirosaki University, 3-Bunkyo-cho, Hirosaki, 036-8561, Japan
| | - Masaru Hashimoto
- Faculty of Agriculture and Life Science, Hirosaki University, 3-Bunkyo-cho, Hirosaki, 036-8561, Japan
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3
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de Oliveira MT, Alves JMA, Braga AAC, Wilson DJD, Barboza CA. Do Double-Hybrid Exchange-Correlation Functionals Provide Accurate Chemical Shifts? A Benchmark Assessment for Proton NMR. J Chem Theory Comput 2021; 17:6876-6885. [PMID: 34637284 DOI: 10.1021/acs.jctc.1c00604] [Citation(s) in RCA: 28] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
A benchmark density functional theory (DFT) study of 1H NMR chemical shifts for data sets comprising 200 chemical shifts, including complex natural products, has been carried out to assess the performance of DFT methods. Two new benchmark data sets, NMRH33 and NMRH148, have been established. The meta-GGA revTPSS performs remarkably well against the NMRH33 benchmark set (mean absolute deviation (MAD), 0.10 ppm; maximum deviation (max), 0.26 ppm) with the smallest MAD of all evaluated functionals. The best-performing double-hybrid density functional (DHDF), revDSD-BLYP (MAD, 0.16 ppm; max, 0.35 ppm), performs similarly to hybrid-GGA methods (e.g., mPW1PW91/6-311G(d) (MAD, 0.15 ppm; max, 0.36 ppm)), but at a considerably higher computational cost. The results indicate that currently available double-hybrid DFT methods offer no benefit over GGA (including hybrid and meta) functionals in the calculation of 1H NMR chemical shifts.
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Affiliation(s)
- Marcelo T de Oliveira
- Department of Chemistry and Physics, La Trobe Institute of Molecular Sciences, La Trobe University, Melbourne, Victoria 3086, Australia.,Chemistry Institute of São Carlos, University of São Paulo, Avenida Trabalhador São Carlense 400, 13566-590 São Carlos, São Paulo, Brazil
| | - Júlia M A Alves
- Chemistry Institute of São Carlos, University of São Paulo, Avenida Trabalhador São Carlense 400, 13566-590 São Carlos, São Paulo, Brazil
| | - Ataualpa A C Braga
- Instituto de Química, Universidade de São Paulo, Avenida Prof. Lineu Prestes 748, 05508-000 São Paulo, Brazil
| | - David J D Wilson
- Department of Chemistry and Physics, La Trobe Institute of Molecular Sciences, La Trobe University, Melbourne, Victoria 3086, Australia
| | - Cristina A Barboza
- Institute of Physics, Polish Academy of Sciences, Aleja Lotników 32/46, Warsaw 02-668, Poland
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4
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Colasurdo DD, Arancibia LA, Naspi ML, Laurella SL. Using DP4+ probability for structure elucidation of sesquiterpenic lactones: The case of (−)‐Istanbulin A. J PHYS ORG CHEM 2021. [DOI: 10.1002/poc.4282] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Diego D. Colasurdo
- CEDECOR (Centro de Estudio de Compuestos Orgánicos), Facultad de Ciencias Exactas Universidad Nacional de La Plata (UNLP) La Plata Argentina
| | - Luz A. Arancibia
- Departamento de Química, Química Orgánica Universidad Nacional de la Patagonia San Juan Bosco (UNPSJB) Comodoro Rivadavia Chubut Argentina
| | - Mariana L. Naspi
- Departamento de Química, Química Orgánica Universidad Nacional de la Patagonia San Juan Bosco (UNPSJB) Comodoro Rivadavia Chubut Argentina
- Departamento de Farmacia, Análisis de Medicamentos Universidad Nacional de la Patagonia San Juan Bosco (UNPSJB) Comodoro Rivadavia Chubut Argentina
| | - Sergio L. Laurella
- CEDECOR (Centro de Estudio de Compuestos Orgánicos), Facultad de Ciencias Exactas Universidad Nacional de La Plata (UNLP) La Plata Argentina
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5
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Marcarino MO, Cicetti S, Zanardi MM, Sarotti AM. A critical review on the use of DP4+ in the structural elucidation of natural products: the good, the bad and the ugly. A practical guide. Nat Prod Rep 2021; 39:58-76. [PMID: 34212963 DOI: 10.1039/d1np00030f] [Citation(s) in RCA: 73] [Impact Index Per Article: 24.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Covering: 2015 up to the end of 2020Even in the golden age of NMR, the number of natural products being incorrectly assigned is becoming larger every day. The use of quantum NMR calculations coupled with sophisticated data analysis provides ideal complementary tools to facilitate the elucidation process in challenging cases. Among the current computational methodologies to perform this task, the DP4+ probability is a popular and widely used method. This updated version of Goodman's DP4 synergistically combines NMR calculations at higher levels of theory with the Bayesian analysis of both scaled and unscaled data. Since its publication in late 2015, the use of DP4+ to solve controversial natural products has substantially grown, with several predictions being confirmed by total synthesis. To date, the structures of more than 200 natural products were determined with the aid of DP4+. However, all that glitters is not gold. Besides its intrinsic limitations, on many occasions it has been improperly used with potentially important consequences on the quality of the assignment. Herein we present a critical revision on how the scientific community has been using DP4+, exploring the strengths of the method and how to obtain optimal results from it. We also analyze the weaknesses of DP4+, and the paths to by-pass them to maximize the confidence in the structural elucidation.
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Affiliation(s)
- Maribel O Marcarino
- Instituto de Química Rosario (CONICET), Facultad de Ciencias Bioquímicas y Farmacéuticas, Universidad Nacional de Rosario, Suipacha 531, Rosario 2000, Argentina.
| | - Soledad Cicetti
- Instituto de Química Rosario (CONICET), Facultad de Ciencias Bioquímicas y Farmacéuticas, Universidad Nacional de Rosario, Suipacha 531, Rosario 2000, Argentina.
| | - María M Zanardi
- Instituto de Ingeniería Ambiental, Química y Biotecnología Aplicada (INGEBIO), Facultad de Química e Ingeniería del Rosario, Pontificia Universidad Católica Argentina, Av. Pellegrini 3314, Rosario 2000, Argentina.
| | - Ariel M Sarotti
- Instituto de Química Rosario (CONICET), Facultad de Ciencias Bioquímicas y Farmacéuticas, Universidad Nacional de Rosario, Suipacha 531, Rosario 2000, Argentina.
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6
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Nazarski RB. Summary of DFT calculations coupled with current statistical and/or artificial neural network (ANN) methods to assist experimental NMR data in identifying diastereomeric structures. Tetrahedron Lett 2021. [DOI: 10.1016/j.tetlet.2020.152548] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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7
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Lopes DT, Hoye TR, Alvarenga ES. Characterization of stereoisomeric 5-(2-nitro-1-phenylethyl)furan-2(5H)-ones by computation of 1 H and 13 C NMR chemical shifts and electronic circular dichroism spectra. MAGNETIC RESONANCE IN CHEMISTRY : MRC 2021; 59:43-51. [PMID: 32621355 PMCID: PMC7985851 DOI: 10.1002/mrc.5073] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/24/2020] [Revised: 06/28/2020] [Accepted: 06/29/2020] [Indexed: 06/11/2023]
Abstract
In the present work, we describe the preparation of two diastereomers from the enantioselective Michael addition of furan-2(5H)-one to (E)-(2-nitrovinyl)benzene catalyzed by a dinuclear Zn-complex. The relative configurations of the diastereomeric products were assigned by comparing nuclear magnetic resonance (NMR) experimental chemical shift data with those computed by density functional theory (DFT) methods. Corrected mean absolute error (CMAE) and CP3 analyses were used to compare the data sets. The absolute configuration of each diastereomer was initially assigned by analysis of electronic circular dichroism (ECD) data, which was consistent with that of the known X-ray crystallographic structure of the product of a related reaction, namely, (R)-5-((R)-1-(4-chlorophenyl)-2-nitroethyl)furan-2(5H)-one.
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Affiliation(s)
- Dayane T. Lopes
- Department of Chemistry, Universidade Federal de Viçosa, Viçosa, MG 36571-900, Brazil
| | - Thomas R. Hoye
- Department of Chemistry, University of Minnesota, Minneapolis, MN 55455, USA
| | - Elson S. Alvarenga
- Department of Chemistry, Universidade Federal de Viçosa, Viçosa, MG 36571-900, Brazil
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8
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Sarotti AM. In Silico Reassignment of (+)-Diplopyrone by NMR Calculations: Use of a DP4/J-DP4/DP4+/DIP Tandem to Revise Both Relative and Absolute Configuration. J Org Chem 2020; 85:11566-11570. [DOI: 10.1021/acs.joc.0c01563] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Ariel M. Sarotti
- Instituto de Quı́mica Rosario (CONICET), Facultad de Ciencias Bioquı́micas y Farmacéuticas, Universidad Nacional de Rosario, Suipacha 531, 2000 Rosario, Argentina
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9
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De Vita S, Terracciano S, Bruno I, Chini MG. From Natural Compounds to Bioactive Molecules through NMR and
In Silico
Methodologies. European J Org Chem 2020. [DOI: 10.1002/ejoc.202000469] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Simona De Vita
- Department of Pharmacy University of Salerno Via Giovanni Paolo II, n°132 84084 Fisciano (SA) Italy
| | - Stefania Terracciano
- Department of Pharmacy University of Salerno Via Giovanni Paolo II, n°132 84084 Fisciano (SA) Italy
| | - Ines Bruno
- Department of Pharmacy University of Salerno Via Giovanni Paolo II, n°132 84084 Fisciano (SA) Italy
| | - Maria Giovanna Chini
- Department of Biosciences and Territory University of Molise C.da Fonte Lappone‐ 86090 Pesche (IS) Italy
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10
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Lauro G, Bifulco G. Elucidating the Relative and Absolute Configuration of Organic Compounds by Quantum Mechanical Approaches. European J Org Chem 2020. [DOI: 10.1002/ejoc.201901878] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Gianluigi Lauro
- Department of Pharmacy; University of Salerno; Via Giovanni Paolo II 132 84084 Fisciano (SA) Italy
| | - Giuseppe Bifulco
- Department of Pharmacy; University of Salerno; Via Giovanni Paolo II 132 84084 Fisciano (SA) Italy
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11
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Nicolay A, Ziegler MS, Small DW, Grünbauer R, Scheer M, Tilley TD. Isomerism and dynamic behavior of bridging phosphaalkynes bound to a dicopper complex. Chem Sci 2020; 11:1607-1616. [PMID: 32206279 PMCID: PMC7069238 DOI: 10.1039/c9sc05835d] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2019] [Accepted: 12/13/2019] [Indexed: 11/21/2022] Open
Abstract
A dicopper complex featuring a symmetrically bridging nitrile ligand and supported by a binucleating naphthyridine-based ligand, [Cu2(μ-η 1 :η 1 -MeCN)DPFN](NTf2)2, was treated with phosphaalkynes (RC[triple bond, length as m-dash]P, isoelectronic analogues of nitriles) to yield dicopper complexes that exhibit phosphaalkynes in rare μ-η 2:η 2 binding coordination modes. X-ray crystallography revealed that these unusual "tilted" structures exist in two isomeric forms (R "up" vs. R "sideways"), depending on the steric profile of the phosphaalkyne's alkyl group (R = Me, Ad, or t Bu). Only one isomer is observed in both solution and the solid state for R = Me (sideways) and t Bu (up). With intermediate steric bulk (R = Ad), the energy difference between the two geometries is small enough that both are observed in solution, and NMR spectroscopy and computations indicate that the solid-state structure corresponds to the minor isomer observed in solution. Meanwhile, treatment of [Cu2(μ-η 1:η 1-MeCN)DPFN](NTf2)2 with 2-butyne affords [Cu2(μ-η 2:η 2-(MeC[triple bond, length as m-dash]CMe))DPFN](NTf2)2: its similar ligand geometry demonstrates that the tilted μ-η 2:η 2 binding mode is not limited to phosphaalkynes but reflects a more general trend, which can be rationalized via an NBO analysis showing maximization of π-backbonding.
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Affiliation(s)
- Amélie Nicolay
- Department of Chemistry , University of California, Berkeley , Berkeley , CA 94720-1460 , USA . .,Chemical Sciences Division , Lawrence Berkeley National Laboratory , Berkeley , California 94720 , USA
| | - Micah S Ziegler
- Department of Chemistry , University of California, Berkeley , Berkeley , CA 94720-1460 , USA . .,Chemical Sciences Division , Lawrence Berkeley National Laboratory , Berkeley , California 94720 , USA
| | - David W Small
- Department of Chemistry , University of California, Berkeley , Berkeley , CA 94720-1460 , USA .
| | - Rebecca Grünbauer
- Institut für Anorganische Chemie , Universität Regensburg , 93040 Regensburg , Germany .
| | - Manfred Scheer
- Institut für Anorganische Chemie , Universität Regensburg , 93040 Regensburg , Germany .
| | - T Don Tilley
- Department of Chemistry , University of California, Berkeley , Berkeley , CA 94720-1460 , USA . .,Chemical Sciences Division , Lawrence Berkeley National Laboratory , Berkeley , California 94720 , USA
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12
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Shepherd ED, Dyson BS, Hak WE, Nguyen QNN, Lee M, Kim MJ, Sohn TI, Kim D, Burton JW, Paton RS. Structure Determination of a Chloroenyne from Laurencia majuscula Using Computational Methods and Total Synthesis. J Org Chem 2019; 84:4971-4991. [PMID: 30977652 PMCID: PMC6503471 DOI: 10.1021/acs.joc.8b02975] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
Abstract
![]()
Despite numerous
advances in spectroscopic methods through the
latter part of the 20th century, the unequivocal structure determination
of natural products can remain challenging, and inevitably, incorrect
structures appear in the literature. Computational methods that allow
the accurate prediction of NMR chemical shifts have emerged as a powerful
addition to the toolbox of methods available for the structure determination
of small organic molecules. Herein, we report the structure determination
of a small, stereochemically rich natural product from Laurencia majuscula using the powerful combination
of computational methods and total synthesis, along with the structure
confirmation of notoryne, using the same approach. Additionally, we
synthesized three further diastereomers of the L. majuscula enyne and have demonstrated that computations are able to distinguish
each of the four synthetic diastereomers from the 32 possible diastereomers
of the natural product. Key to the success of this work is to analyze
the computational data to provide the greatest distinction between
each diastereomer, by identifying chemical shifts that are most sensitive
to changes in relative stereochemistry. The success of the computational
methods in the structure determination of stereochemically rich, flexible
organic molecules will allow all involved in structure determination
to use these methods with confidence.
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Affiliation(s)
- Erin D Shepherd
- Chemistry Research Laboratory, Department of Chemistry , University of Oxford , Mansfield Road , Oxford OX1 3TA , United Kingdom
| | - Bryony S Dyson
- Chemistry Research Laboratory, Department of Chemistry , University of Oxford , Mansfield Road , Oxford OX1 3TA , United Kingdom
| | - William E Hak
- Chemistry Research Laboratory, Department of Chemistry , University of Oxford , Mansfield Road , Oxford OX1 3TA , United Kingdom
| | - Quynh Nhu N Nguyen
- Chemistry Research Laboratory, Department of Chemistry , University of Oxford , Mansfield Road , Oxford OX1 3TA , United Kingdom
| | - Miseon Lee
- The Research Institute of Pharmaceutical Sciences, College of Pharmacy , Seoul National University , Seoul 151-742 , Korea
| | - Mi Jung Kim
- The Research Institute of Pharmaceutical Sciences, College of Pharmacy , Seoul National University , Seoul 151-742 , Korea
| | - Te-Ik Sohn
- The Research Institute of Pharmaceutical Sciences, College of Pharmacy , Seoul National University , Seoul 151-742 , Korea
| | - Deukjoon Kim
- The Research Institute of Pharmaceutical Sciences, College of Pharmacy , Seoul National University , Seoul 151-742 , Korea
| | - Jonathan W Burton
- Chemistry Research Laboratory, Department of Chemistry , University of Oxford , Mansfield Road , Oxford OX1 3TA , United Kingdom
| | - Robert S Paton
- Chemistry Research Laboratory, Department of Chemistry , University of Oxford , Mansfield Road , Oxford OX1 3TA , United Kingdom.,Department of Chemistry , Colorado State University , Fort Collins , Colorado 80523 , United States
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13
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Zanardi MM, Biglione FA, Sortino MA, Sarotti AM. General Quantum-Based NMR Method for the Assignment of Absolute Configuration by Single or Double Derivatization: Scope and Limitations. J Org Chem 2018; 83:11839-11849. [DOI: 10.1021/acs.joc.8b01749] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- María M. Zanardi
- Área Farmacognosia, Facultad de Ciencias Bioquímicas y Farmacéuticas, Universidad Nacional de Rosario, Suipacha 531, Rosario 2000, Argentina
- Facultad de Química e Ingeniería del Rosario, Pontificia Universidad Católica Argentina, Av. Pellegrini 3314, Rosario 2000, Argentina
| | - Franco A. Biglione
- Facultad de Química e Ingeniería del Rosario, Pontificia Universidad Católica Argentina, Av. Pellegrini 3314, Rosario 2000, Argentina
| | - Maximiliano A. Sortino
- Área Farmacognosia, Facultad de Ciencias Bioquímicas y Farmacéuticas, Universidad Nacional de Rosario, Suipacha 531, Rosario 2000, Argentina
| | - Ariel M. Sarotti
- Instituto de Química Rosario (CONICET), Facultad de Ciencias Bioquímicas y Farmacéuticas, Universidad Nacional de Rosario, Suipacha 531, Rosario 2000, Argentina
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14
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Azzena U, Carraro M, Pisano L. Addressing Stereochemistry of Heterocyclic Compounds by DFT NMR Calculations. Chem Heterocycl Compd (N Y) 2018. [DOI: 10.1007/s10593-018-2279-x] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
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15
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Wang J, Tong R. A NMR method for relative stereochemical assignments of the tricyclic core of cephalosporolides, penisporolides and related synthetic analogues. Org Chem Front 2017. [DOI: 10.1039/c6qo00556j] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
A new NMR method is developed to discriminate the four possible diastereomeric SAFLs, leading to revisions of 11 synthetic compounds.
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Affiliation(s)
- Jian Wang
- Department of Chemistry
- Hong Kong University of Science and Technology
- Kowloon
- China
| | - Rongbiao Tong
- Department of Chemistry
- Hong Kong University of Science and Technology
- Kowloon
- China
- HKUST Shenzhen Research Institute
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16
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Zanardi MM, Suárez AG, Sarotti AM. Determination of the Relative Configuration of Terminal and Spiroepoxides by Computational Methods. Advantages of the Inclusion of Unscaled Data. J Org Chem 2016; 82:1873-1879. [DOI: 10.1021/acs.joc.6b02129] [Citation(s) in RCA: 43] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- María M. Zanardi
- Instituto
de Química Rosario (CONICET), Facultad de Ciencias Bioquímicas
y Farmacéuticas, Universidad Nacional de Rosario, Suipacha 531, Rosario 2000, Argentina
- Facultad
de Química e Ingeniería del Rosario, Pontificia Universidad Católica Argentina, Av Pellegrini 3314, Rosario 2000, Argentina
| | - Alejandra G. Suárez
- Instituto
de Química Rosario (CONICET), Facultad de Ciencias Bioquímicas
y Farmacéuticas, Universidad Nacional de Rosario, Suipacha 531, Rosario 2000, Argentina
| | - Ariel M. Sarotti
- Instituto
de Química Rosario (CONICET), Facultad de Ciencias Bioquímicas
y Farmacéuticas, Universidad Nacional de Rosario, Suipacha 531, Rosario 2000, Argentina
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17
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Chini MG, Malafronte N, Vaccaro MC, Gualtieri MJ, Vassallo A, Vasaturo M, Castellano S, Milite C, Leone A, Bifulco G, De Tommasi N, Dal Piaz F. Identification of Limonol Derivatives as Heat Shock Protein 90 (Hsp90) Inhibitors through a Multidisciplinary Approach. Chemistry 2016; 22:13236-50. [DOI: 10.1002/chem.201602242] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2016] [Indexed: 01/23/2023]
Affiliation(s)
- Maria G. Chini
- Department of Pharmacy; University of Salerno; Via Giovanni Paolo II 132 84084 Fisciano Italy
| | - Nicola Malafronte
- Department of Pharmacy; University of Salerno; Via Giovanni Paolo II 132 84084 Fisciano Italy
| | - Maria C. Vaccaro
- Department of Pharmacy; University of Salerno; Via Giovanni Paolo II 132 84084 Fisciano Italy
| | - Maria J. Gualtieri
- Department of Pharmacy; University of Salerno; Via Giovanni Paolo II 132 84084 Fisciano Italy
- Department of Pharmacognosy and Organic Drug; University of Los Andes; Sector Campo de Oro, detrás del IAHULA 5101 Mérida Venezuela
| | - Antonio Vassallo
- Department of Science; University of Basilicata; Viale dell'Ateneo Lucano 10 85100 Potenza Italy
| | - Michele Vasaturo
- Department of Pharmacy; University of Salerno; Via Giovanni Paolo II 132 84084 Fisciano Italy
- PhD Program in Drug Discovery and Development; University of Salerno; Via Giovanni Paolo II 132 84084 Fisciano Italy
| | - Sabrina Castellano
- Department of Pharmacy; University of Salerno; Via Giovanni Paolo II 132 84084 Fisciano Italy
- Department of Medicine and Surgery; University of Salerno; Via Allende 84081 Baronissi Italy
| | - Ciro Milite
- Department of Pharmacy; University of Salerno; Via Giovanni Paolo II 132 84084 Fisciano Italy
| | - Antonietta Leone
- Department of Pharmacy; University of Salerno; Via Giovanni Paolo II 132 84084 Fisciano Italy
| | - Giuseppe Bifulco
- Department of Pharmacy; University of Salerno; Via Giovanni Paolo II 132 84084 Fisciano Italy
| | - Nunziatina De Tommasi
- Department of Pharmacy; University of Salerno; Via Giovanni Paolo II 132 84084 Fisciano Italy
| | - Fabrizio Dal Piaz
- Department of Pharmacy; University of Salerno; Via Giovanni Paolo II 132 84084 Fisciano Italy
- Department of Medicine and Surgery; University of Salerno; Via Allende 84081 Baronissi Italy
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Pisano L, Degennaro L, Carraro M, Azzena U, Fanelli F, Mastrorilli P, Luisi R. Computational NMR as Useful Tool for Predicting Structure and Stereochemistry of Four-Membered Sulfur Heterocycles. European J Org Chem 2016. [DOI: 10.1002/ejoc.201600372] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Luisa Pisano
- Department of Chemistry and Pharmacy; University of Sassari; Via Vienna 2 07100 Sassari Italy
| | - Leonardo Degennaro
- Department of Pharmacy - Drug Sciences, University of Bari “A. Moro”; FLAME-Lab - Flow Chemistry and Microreactor Technology Laboratory; University of Bari; Via E. Orabona 4 70125 Bari Italy
| | - Massimo Carraro
- Department of Chemistry and Pharmacy; University of Sassari; Via Vienna 2 07100 Sassari Italy
| | - Ugo Azzena
- Department of Chemistry and Pharmacy; University of Sassari; Via Vienna 2 07100 Sassari Italy
| | - Flavio Fanelli
- Department of Pharmacy - Drug Sciences, University of Bari “A. Moro”; FLAME-Lab - Flow Chemistry and Microreactor Technology Laboratory; University of Bari; Via E. Orabona 4 70125 Bari Italy
- Institution: CNR, Institue of Crystallography IC-CNR; Via Amendola 127/A 70125 Bari Italy
| | | | - Renzo Luisi
- Department of Pharmacy - Drug Sciences, University of Bari “A. Moro”; FLAME-Lab - Flow Chemistry and Microreactor Technology Laboratory; University of Bari; Via E. Orabona 4 70125 Bari Italy
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Grimblat N, Zanardi MM, Sarotti AM. Beyond DP4: an Improved Probability for the Stereochemical Assignment of Isomeric Compounds using Quantum Chemical Calculations of NMR Shifts. J Org Chem 2015; 80:12526-34. [PMID: 26580165 DOI: 10.1021/acs.joc.5b02396] [Citation(s) in RCA: 851] [Impact Index Per Article: 94.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
The DP4 probability is one of the most sophisticated and popular approaches for the stereochemical assignment of organic molecules using GIAO NMR chemical shift calculations when only one set of experimental data is available. In order to improve the performance of the method, we have developed a modified probability (DP4+), whose main differences from the original DP4 are the inclusion of unscaled data and the use of higher levels of theory for the NMR calculation procedure. With these modifications, a significant improvement in the overall performance was achieved, providing accurate and confident results in establishing the stereochemistry of 48 challenging isomeric compounds.
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Affiliation(s)
- Nicolás Grimblat
- Instituto de Química Rosario (CONICET), Facultad de Ciencias Bioquímicas y Farmacéuticas, Universidad Nacional de Rosario , Suipacha 531, Rosario 2000, Argentina
| | - María M Zanardi
- Instituto de Química Rosario (CONICET), Facultad de Ciencias Bioquímicas y Farmacéuticas, Universidad Nacional de Rosario , Suipacha 531, Rosario 2000, Argentina.,Facultad de Química e Ingeniería "Fray Rogelio Bacón", Pontificia Universidad Católica Argentina , Av. Pellegrini 3314, Rosario 2000, Argentina
| | - Ariel M Sarotti
- Instituto de Química Rosario (CONICET), Facultad de Ciencias Bioquímicas y Farmacéuticas, Universidad Nacional de Rosario , Suipacha 531, Rosario 2000, Argentina
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Casella G, Bagno A, Komorovsky S, Repisky M, Saielli G. Four-Component Relativistic DFT Calculations of 13
C Chemical Shifts of Halogenated Natural Substances. Chemistry 2015; 21:18834-40. [DOI: 10.1002/chem.201502252] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2015] [Indexed: 11/05/2022]
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21
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Zanardi MM, Sarotti AM. GIAO C–H COSY Simulations Merged with Artificial Neural Networks Pattern Recognition Analysis. Pushing the Structural Validation a Step Forward. J Org Chem 2015; 80:9371-8. [DOI: 10.1021/acs.joc.5b01663] [Citation(s) in RCA: 53] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- María M. Zanardi
- Instituto
de Química Rosario (CONICET), Facultad de Ciencias Bioquímicas
y Farmacéuticas, Universidad Nacional de Rosario, Suipacha
531, Rosario 2000, Argentina
- Facultad
de Química e Ingeniería “Fray Rogelio Bacón”, Pontificia Universidad Católica Argentina, Av. Pellegrini 3314, Rosario 2000, Argentina
| | - Ariel M. Sarotti
- Instituto
de Química Rosario (CONICET), Facultad de Ciencias Bioquímicas
y Farmacéuticas, Universidad Nacional de Rosario, Suipacha
531, Rosario 2000, Argentina
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