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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: 0.5] [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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Masui H, Takahashi T. Development of Efficient Synthetic Methods for sp<sup>3</sup> Atom-containing Benzo-aza/oxacycles and Peptide Mimetics based on Skeletal Diversity-oriented Synthesis. J SYN ORG CHEM JPN 2022. [DOI: 10.5059/yukigoseikyokaishi.80.369] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Hisashi Masui
- Department of Basic Medicinal Sciences, Graduate School of Pharmaceutical Sciences, Nagoya University
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Masui H, Naito K, Minoshima M, Kusayanagi A, Yosugi S, Shoji M, Takahashi T. Efficient synthesis of 5-(hydroxymethyl)piperazin-2-ones using automatically prepared chiral bromocarboxylic acid and Garner's aldehyde as versatile building blocks. Bioorg Med Chem Lett 2021; 40:127961. [PMID: 33741461 DOI: 10.1016/j.bmcl.2021.127961] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/14/2021] [Revised: 03/08/2021] [Accepted: 03/10/2021] [Indexed: 11/25/2022]
Abstract
An efficient method for the synthesis of substituted 5-(hydroxymethyl)piperazin-2-ones was established by using an automated synthesis process. Thirteen piperazinones were synthesized from chiral α-bromocarboxylic acids and Garner's aldehyde which were prepared by using our originally developed automated synthesizer, ChemKonzert®. The automated method of synthesizing chiral α-bromocarboxylic acids was efficient and safe because the rate of the dropwise addition of the reagent can be controlled using the automated synthesizer. This method is expected to contribute to the synthesis of pharmaceuticals.
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Affiliation(s)
- Hisashi Masui
- Department of Pharmaceutical Sciences, Yokohama University of Pharmacy, 601 Matano-cho, Totsuka-ku, Yokohama 245-0066, Japan; Graduate School of Pharmaceutical Sciences, Department of Basic Medicinal Sciences, Nagoya University, Furo-cho, Chikusa-ku, Nagoya 464-8601, Japan
| | - Kohei Naito
- Department of Pharmaceutical Sciences, Yokohama University of Pharmacy, 601 Matano-cho, Totsuka-ku, Yokohama 245-0066, Japan
| | - Mai Minoshima
- Department of Pharmaceutical Sciences, Yokohama University of Pharmacy, 601 Matano-cho, Totsuka-ku, Yokohama 245-0066, Japan
| | - Akira Kusayanagi
- Department of Pharmaceutical Sciences, Yokohama University of Pharmacy, 601 Matano-cho, Totsuka-ku, Yokohama 245-0066, Japan
| | - Sae Yosugi
- Department of Pharmaceutical Sciences, Yokohama University of Pharmacy, 601 Matano-cho, Totsuka-ku, Yokohama 245-0066, Japan
| | - Mitsuru Shoji
- Department of Pharmaceutical Sciences, Yokohama University of Pharmacy, 601 Matano-cho, Totsuka-ku, Yokohama 245-0066, Japan
| | - Takashi Takahashi
- Department of Pharmaceutical Sciences, Yokohama University of Pharmacy, 601 Matano-cho, Totsuka-ku, Yokohama 245-0066, Japan; Graduate School of Infection Control Sciences, Kitasato University, 5-9-1 Shirokane, Minato-ku, Tokyo 108-8641, Japan.
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Takahashi T. Connection with People Given Me an Inspirational Opportunity. J SYN ORG CHEM JPN 2019. [DOI: 10.5059/yukigoseikyokaishi.77.736] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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Trobe M, Burke MD. The Molecular Industrial Revolution: Automated Synthesis of Small Molecules. Angew Chem Int Ed Engl 2018; 57:4192-4214. [PMID: 29513400 PMCID: PMC5912692 DOI: 10.1002/anie.201710482] [Citation(s) in RCA: 105] [Impact Index Per Article: 17.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2017] [Revised: 12/05/2017] [Indexed: 11/10/2022]
Abstract
Today we are poised for a transition from the highly customized crafting of specific molecular targets by hand to the increasingly general and automated assembly of different types of molecules with the push of a button. Creating machines that are capable of making many different types of small molecules on demand, akin to that which has been achieved on the macroscale with 3D printers, is challenging. Yet important progress is being made toward this objective with two complementary approaches: 1) Automation of customized synthesis routes to different targets by machines that enable the use of many reactions and starting materials, and 2) automation of generalized platforms that make many different targets using common coupling chemistry and building blocks. Continued progress in these directions has the potential to shift the bottleneck in molecular innovation from synthesis to imagination, and thereby help drive a new industrial revolution on the molecular scale.
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Affiliation(s)
- Melanie Trobe
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Martin D. Burke
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Department of Biochemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA and Carle-Illinois College of Medicine, University of Illinois at Urbana-Champaign, Champaign, IL 61820, USA
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Trobe M, Burke MD. Die molekulare industrielle Revolution: zur automatisierten Synthese organischer Verbindungen. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201710482] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Melanie Trobe
- Department of Chemistry University of Illinois Urbana-Champaign 600 S. Mathews, 454 RAL Urbana-Champaign IL 61801 USA
| | - Martin D. Burke
- Department of Chemistry University of Illinois Urbana-Champaign 600 S. Mathews, 454 RAL Urbana-Champaign IL 61801 USA
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Masui H, Yosugi S, Fuse S, Takahashi T. Solution-phase automated synthesis of an α-amino aldehyde as a versatile intermediate. Beilstein J Org Chem 2017; 13:106-110. [PMID: 28228851 PMCID: PMC5301908 DOI: 10.3762/bjoc.13.13] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2016] [Accepted: 12/19/2016] [Indexed: 11/23/2022] Open
Abstract
A solution-phase automated synthesis of the versatile synthetic intermediate, Garner's aldehyde, was demonstrated. tert-Butoxycarbonyl (Boc) protection, acetal formation, and reduction of the ester to the corresponding aldehyde were performed utilizing our originally developed automated synthesizer, ChemKonzert. The developed procedure was also useful for the synthesis of Garner's aldehyde analogues possessing fluorenylmethyloxycarbonyl (Fmoc) or benzyloxycarbonyl (Cbz) protection.
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Affiliation(s)
- Hisashi Masui
- Yokohama University of Pharmacy, 601 Matano-cho, Totsuka-ku, Yokohama 245-0066, Japan
| | - Sae Yosugi
- Yokohama University of Pharmacy, 601 Matano-cho, Totsuka-ku, Yokohama 245-0066, Japan
| | - Shinichiro Fuse
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama 226-8503, Japan
| | - Takashi Takahashi
- Yokohama University of Pharmacy, 601 Matano-cho, Totsuka-ku, Yokohama 245-0066, Japan
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Fuse S, Ikebe A, Oosumi K, Karasawa T, Matsumura K, Izumikawa M, Johmoto K, Uekusa H, Shin-ya K, Doi T, Takahashi T. Asymmetric Total Synthesis ofent-Pyripyropene A. Chemistry 2015; 21:9454-60. [DOI: 10.1002/chem.201500703] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2015] [Indexed: 11/09/2022]
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Fuse S, Takahashi T. Efficient Organic Synthesis based on Micro-flow Photo-reaction, Imidoylation, and Acylation. J SYN ORG CHEM JPN 2015. [DOI: 10.5059/yukigoseikyokaishi.73.442] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Affiliation(s)
- Shinichiro Fuse
- Tokyo Institute of Technology, Chemical Resources Laboratory
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Rossi R, Bellina F, Lessi M, Manzini C. Development and applications of highly selective palladium-catalyzed monocoupling reactions of (cyclo)alkenes and 1,3-alkadienes bearing two or three electrophilic sites and bis(enol triflates) with terminal alkynes. Tetrahedron 2013. [DOI: 10.1016/j.tet.2013.06.002] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
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Jean M, Tomasi S, van de Weghe P. When the nine-membered enediynes play hide and seek. Org Biomol Chem 2012; 10:7453-6. [PMID: 22898710 DOI: 10.1039/c2ob26033f] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Abstract
The lack of stability of the 9-membered enediynes not associated with an apoprotein may explain the low number of isolated natural compounds containing this core. To overcome such a problem, particular attention should be paid during the process of extraction and isolation of secondary metabolites, especially from microorganisms such as actinomycetes in order to identify the non-cycloaromatized derivatives.
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Affiliation(s)
- Mickaël Jean
- Université de Rennes 1, UMR 6226, Institut des Sciences Chimiques de Rennes, Equipe PNSCM, UFR Sciences Biologiques et Pharmaceutiques, 2 avenue du Prof Léon Bernard, F-35043 Rennes Cedex, France
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Zang Q, Javed S, Hill D, Ullah F, Bi D, Porubsky P, Neuenswander B, Lushington GH, Santini C, Organ MG, Hanson PR. Automated synthesis of a library of triazolated 1,2,5-thiadiazepane 1,1-dioxides via a double aza-Michael strategy. ACS COMBINATORIAL SCIENCE 2012; 14:456-9. [PMID: 22853708 DOI: 10.1021/co300049u] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
The construction of a 96-member library of triazolated 1,2,5-thiadiazepane 1,1-dioxides was performed on a Chemspeed Accelerator (SLT-100) automated parallel synthesis platform, culminating in the successful preparation of 94 out of 96 possible products. The key step, a one-pot, sequential elimination, double-aza-Michael reaction, and [3 + 2] Huisgen cycloaddition pathway has been automated and utilized in the production of two sets of triazolated sultam products.
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Affiliation(s)
- Qin Zang
- Department of Chemistry, University of Kansas, 1251 Wescoe Hall Drive, Lawrence,
Kansas 66045-7582, United States
- The University of Kansas Center for Chemical Methodologies and Library Development (KU-CMLD), 2034 Becker Drive, Del Shankel Structural
Biology Center, Lawrence, Kansas 66047, United States
| | - Salim Javed
- Department of Chemistry, University of Kansas, 1251 Wescoe Hall Drive, Lawrence,
Kansas 66045-7582, United States
- The University of Kansas Center for Chemical Methodologies and Library Development (KU-CMLD), 2034 Becker Drive, Del Shankel Structural
Biology Center, Lawrence, Kansas 66047, United States
| | - David Hill
- The University of Kansas Center for Chemical Methodologies and Library Development (KU-CMLD), 2034 Becker Drive, Del Shankel Structural
Biology Center, Lawrence, Kansas 66047, United States
| | - Farman Ullah
- The University of Kansas Center for Chemical Methodologies and Library Development (KU-CMLD), 2034 Becker Drive, Del Shankel Structural
Biology Center, Lawrence, Kansas 66047, United States
- Department of Chemistry, York University, 4700 Keele Street, Toronto, ON, M3J
1P3 Canada
| | - Danse Bi
- Department of Chemistry, University of Kansas, 1251 Wescoe Hall Drive, Lawrence,
Kansas 66045-7582, United States
| | - Patrick Porubsky
- The University of Kansas Center for Chemical Methodologies and Library Development (KU-CMLD), 2034 Becker Drive, Del Shankel Structural
Biology Center, Lawrence, Kansas 66047, United States
| | - Benjamin Neuenswander
- The University of Kansas Center for Chemical Methodologies and Library Development (KU-CMLD), 2034 Becker Drive, Del Shankel Structural
Biology Center, Lawrence, Kansas 66047, United States
| | - Gerald H. Lushington
- The University of Kansas Center for Chemical Methodologies and Library Development (KU-CMLD), 2034 Becker Drive, Del Shankel Structural
Biology Center, Lawrence, Kansas 66047, United States
| | - Conrad Santini
- The University of Kansas Center for Chemical Methodologies and Library Development (KU-CMLD), 2034 Becker Drive, Del Shankel Structural
Biology Center, Lawrence, Kansas 66047, United States
| | - Michael G. Organ
- The University of Kansas Center for Chemical Methodologies and Library Development (KU-CMLD), 2034 Becker Drive, Del Shankel Structural
Biology Center, Lawrence, Kansas 66047, United States
- Department of Chemistry, York University, 4700 Keele Street, Toronto, ON, M3J
1P3 Canada
| | - Paul R. Hanson
- Department of Chemistry, University of Kansas, 1251 Wescoe Hall Drive, Lawrence,
Kansas 66045-7582, United States
- The University of Kansas Center for Chemical Methodologies and Library Development (KU-CMLD), 2034 Becker Drive, Del Shankel Structural
Biology Center, Lawrence, Kansas 66047, United States
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Fuse S, Okada K, Iijima Y, Munakata A, Machida K, Takahashi T, Takagi M, Shin-ya K, Doi T. Total synthesis of spiruchostatin B aided by an automated synthesizer. Org Biomol Chem 2011; 9:3825-33. [DOI: 10.1039/c0ob01169j] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
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Takahashi T. Efficient Syntheses of Natural Products and Their Analogues Using Laboratory Automation Technology. J SYN ORG CHEM JPN 2011. [DOI: 10.5059/yukigoseikyokaishi.69.379] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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Tanaka H, Tanaka Y, Minoshima M, Yamaguchi S, Fuse S, Doi T, Kawauchi S, Sugiyama H, Takahashi T. Synthesis of bicyclic enediynes that possess a photosensitive triggering device and exhibit strong DNA cleaving activity. Chem Commun (Camb) 2010; 46:5942-4. [DOI: 10.1039/c0cc01286f] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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