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Rohrbach S, Šiaučiulis M, Chisholm G, Pirvan PA, Saleeb M, Mehr SHM, Trushina E, Leonov AI, Keenan G, Khan A, Hammer A, Cronin L. Digitization and validation of a chemical synthesis literature database in the ChemPU. Science 2022; 377:172-180. [DOI: 10.1126/science.abo0058] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Despite huge potential, automation of synthetic chemistry has only made incremental progress over the past few decades. We present an automatically executable chemical reaction database of 100 molecules representative of the range of reactions found in contemporary organic synthesis. These reactions include transition metal–catalyzed coupling reactions, heterocycle formations, functional group interconversions, and multicomponent reactions. The chemical reaction codes or χDLs for the reactions have been stored in a database for version control, validation, collaboration, and data mining. Of these syntheses, more than 50 entries from the database have been downloaded and robotically run in seven modular ChemPU’s with yields and purities comparable to those achieved by an expert chemist. We also demonstrate the automatic purification of a range of compounds using a chromatography module seamlessly coupled to the platform and programmed with the same language.
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Affiliation(s)
- Simon Rohrbach
- School of Chemistry, the University of Glasgow, University Avenue, Glasgow G12 8QQ, UK
| | - Mindaugas Šiaučiulis
- School of Chemistry, the University of Glasgow, University Avenue, Glasgow G12 8QQ, UK
| | - Greig Chisholm
- School of Chemistry, the University of Glasgow, University Avenue, Glasgow G12 8QQ, UK
| | - Petrisor-Alin Pirvan
- School of Chemistry, the University of Glasgow, University Avenue, Glasgow G12 8QQ, UK
| | - Michael Saleeb
- School of Chemistry, the University of Glasgow, University Avenue, Glasgow G12 8QQ, UK
| | - S. Hessam M. Mehr
- School of Chemistry, the University of Glasgow, University Avenue, Glasgow G12 8QQ, UK
| | - Ekaterina Trushina
- School of Chemistry, the University of Glasgow, University Avenue, Glasgow G12 8QQ, UK
| | - Artem I. Leonov
- School of Chemistry, the University of Glasgow, University Avenue, Glasgow G12 8QQ, UK
| | - Graham Keenan
- School of Chemistry, the University of Glasgow, University Avenue, Glasgow G12 8QQ, UK
| | - Aamir Khan
- School of Chemistry, the University of Glasgow, University Avenue, Glasgow G12 8QQ, UK
| | - Alexander Hammer
- School of Chemistry, the University of Glasgow, University Avenue, Glasgow G12 8QQ, UK
| | - Leroy Cronin
- School of Chemistry, the University of Glasgow, University Avenue, Glasgow G12 8QQ, UK
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Sarkar P, Sarkar S, Ghosh P. A heteroditopic macrocycle as organocatalytic nanoreactor for pyrroloacridinone synthesis in water. Beilstein J Org Chem 2019; 15:1505-1514. [PMID: 31354868 PMCID: PMC6632221 DOI: 10.3762/bjoc.15.152] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2019] [Accepted: 06/25/2019] [Indexed: 12/13/2022] Open
Abstract
A heteroditopic macrocycle is reported as an efficient organocatalytic nanoreactor for the synthesis of diversely functionalized pyrroloacridinones in aqueous medium. A library of compounds was synthesized in a one-step pathway utilizing 10 mol % of the nanoreactor following a sustainable methodology in water with high yields.
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Affiliation(s)
- Piyali Sarkar
- School of Chemical Sciences, Indian Association for the Cultivation of Science, 2A & 2B Raja S.C Mullick Road, Kolkata-700032, India
| | - Sayan Sarkar
- School of Chemical Sciences, Indian Association for the Cultivation of Science, 2A & 2B Raja S.C Mullick Road, Kolkata-700032, India
| | - Pradyut Ghosh
- School of Chemical Sciences, Indian Association for the Cultivation of Science, 2A & 2B Raja S.C Mullick Road, Kolkata-700032, India
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Yonekura K, Yoshimura Y, Akehi M, Tsuchimoto T. A Heteroarylamine Library: Indium-Catalyzed Nucleophilic Aromatic Substitution of Alkoxyheteroarenes with Amines. Adv Synth Catal 2018. [DOI: 10.1002/adsc.201701452] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Kyohei Yonekura
- Department of Applied Chemistry; School of Science and Technology; Meiji University; 1-1-1 Higashimita, Tama-ku Kawasaki 214-8571 Japan
| | - Yasuhiro Yoshimura
- Department of Applied Chemistry; School of Science and Technology; Meiji University; 1-1-1 Higashimita, Tama-ku Kawasaki 214-8571 Japan
| | - Mizuri Akehi
- Department of Applied Chemistry; School of Science and Technology; Meiji University; 1-1-1 Higashimita, Tama-ku Kawasaki 214-8571 Japan
| | - Teruhisa Tsuchimoto
- Department of Applied Chemistry; School of Science and Technology; Meiji University; 1-1-1 Higashimita, Tama-ku Kawasaki 214-8571 Japan
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Sarkar P, Mukhopadhyay C. Nano-ranged calix[4]arene tetracarboxylic acid catalyzed expeditious protocol for spiro[dihydropyridine-oxindoles] synthesis. Tetrahedron Lett 2016. [DOI: 10.1016/j.tetlet.2016.08.037] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Moors SLC, Brigou B, Hertsen D, Pinter B, Geerlings P, Van Speybroeck V, Catak S, De Proft F. Influence of Solvation and Dynamics on the Mechanism and Kinetics of Nucleophilic Aromatic Substitution Reactions in Liquid Ammonia. J Org Chem 2016; 81:1635-44. [PMID: 26800020 DOI: 10.1021/acs.joc.5b02794] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The role of the solvent and the influence of dynamics on the kinetics and mechanism of the SNAr reaction of several halonitrobenzenes in liquid ammonia, using both static calculations and dynamic ab initio molecular dynamics simulations, are investigated. A combination of metadynamics and committor analysis methods reveals how this reaction can change from a concerted, one-step mechanism in gas phase to a stepwise pathway, involving a metastable Meisenheimer complex, in liquid ammonia. This clearly establishes, among others, the important role of the solvent and highlights the fact that accurately treating solvation is of crucial importance to correctly unravel the reaction mechanism. It is indeed shown that H-bond formation of the reacting NH3 with the solvent drastically reduces the barrier of NH3 addition. The halide elimination step, however, is greatly facilitated by proton transfer from the reacting NH3 to the solvent. Furthermore, the free energy surface strongly depends on the halide substituent and the number of electron-withdrawing nitro substituents.
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Affiliation(s)
- Samuel L C Moors
- Eenheid Algemene Chemie (ALGC), Vrije Universiteit Brussel (VUB) , Pleinlaan 2, 1050 Elsene, Brussels, Belgium
| | - Ben Brigou
- Eenheid Algemene Chemie (ALGC), Vrije Universiteit Brussel (VUB) , Pleinlaan 2, 1050 Elsene, Brussels, Belgium
| | - Dietmar Hertsen
- Center for Molecular Modeling (CMM), Ghent University , Technologiepark 903, 9052 Zwijnaarde, Belgium
| | - Balazs Pinter
- Eenheid Algemene Chemie (ALGC), Vrije Universiteit Brussel (VUB) , Pleinlaan 2, 1050 Elsene, Brussels, Belgium
| | - Paul Geerlings
- Eenheid Algemene Chemie (ALGC), Vrije Universiteit Brussel (VUB) , Pleinlaan 2, 1050 Elsene, Brussels, Belgium
| | - Veronique Van Speybroeck
- Center for Molecular Modeling (CMM), Ghent University , Technologiepark 903, 9052 Zwijnaarde, Belgium
| | - Saron Catak
- Department of Chemistry, Bogazici University , Bebek 34342, Istanbul, Turkey
| | - Frank De Proft
- Eenheid Algemene Chemie (ALGC), Vrije Universiteit Brussel (VUB) , Pleinlaan 2, 1050 Elsene, Brussels, Belgium
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Vivek Kumar S, Muthusubramanian S, Menéndez JC, Perumal S. An efficient synthesis of N-substituted 3-nitrothiophen-2-amines. Beilstein J Org Chem 2015; 11:1707-12. [PMID: 26664589 PMCID: PMC4660920 DOI: 10.3762/bjoc.11.185] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2015] [Accepted: 08/31/2015] [Indexed: 12/17/2022] Open
Abstract
A novel protocol for the synthesis of 3-nitro-N-aryl/alkylthiophen-2-amines in good yields from the reaction of α-nitroketene N,S-aryl/alkylaminoacetals and 1,4-dithiane-2,5-diol in the presence of K2CO3 in refluxing ethanol is described. This transformation generates two C–C bonds in a single operation and presumably proceeds through a reaction sequence comprising 2-mercaptoacetaldehyde generation, nucleophilic carbonyl addition, annelation and elimination steps.
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Affiliation(s)
- Sundaravel Vivek Kumar
- Department of Organic Chemistry, School of Chemistry, Madurai Kamaraj University,Madurai - 625021, Tamil Nadu, India
| | - Shanmugam Muthusubramanian
- Department of Organic Chemistry, School of Chemistry, Madurai Kamaraj University,Madurai - 625021, Tamil Nadu, India
| | - J Carlos Menéndez
- Departmento de Química Orgánica y Farmacéutica, Facultad de Farmacia, Universidad Complutense, 28040 Madrid, Spain
| | - Subbu Perumal
- Department of Organic Chemistry, School of Chemistry, Madurai Kamaraj University,Madurai - 625021, Tamil Nadu, India
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