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Boswell BR, Zhao Z, Gonciarz RL, Pandya KM. Regioselective Pyridine to Benzene Edit Inspired by Water-Displacement. J Am Chem Soc 2024; 146:19660-19666. [PMID: 38996188 DOI: 10.1021/jacs.4c05999] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/14/2024]
Abstract
Late-stage derivatization of drug-like functional groups can accelerate drug discovery efforts by swiftly exchanging hydrogen-bond donors with acceptors, or by modulating key physicochemical properties like logP, solubility, or polar surface area. A proven derivatization strategy to improve ligand potency is to extend the ligand to displace water molecules that are mediating the interactions with a receptor. Inspired by this application, we developed a method to regioselectively transmute the nitrogen atom from pyridine into carbon bearing an ester, a flexible functional group handle. We applied this method to a variety of substituted pyridines, as well as late-stage transformation of FDA-approved drugs.
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Affiliation(s)
- Benjamin R Boswell
- Discovery Chemistry, Exelixis Inc., Alameda, California 94502, United States
| | - Zhensheng Zhao
- Discovery Chemistry, Exelixis Inc., Alameda, California 94502, United States
| | - Ryan L Gonciarz
- Discovery Chemistry, Exelixis Inc., Alameda, California 94502, United States
| | - Keyur M Pandya
- Pharmaceutical Operations & Supply Chain, Exelixis Inc., Alameda, California 94502, United States
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2
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Falcone NA, He S, Hoskin JF, Mangat S, Sorensen EJ. N-Oxide-to-Carbon Transmutations of Azaarene N-Oxides. Org Lett 2024; 26:4280-4285. [PMID: 38739528 DOI: 10.1021/acs.orglett.4c01263] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/16/2024]
Abstract
Reactions that change the identity of an atom within a ring system are emerging as valuable tools for the site-selective editing of molecular structures. Herein, we describe the expansion of an underdeveloped transformation that directly converts azaarene-derived N-oxides to all-carbon arenes. This ring transmutation exhibits good functional group tolerance and replaces the N-oxide moiety with either unsubstituted, substituted, or isotopically labeled carbon atoms in a single laboratory operation.
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Affiliation(s)
- Nicholas A Falcone
- Department of Chemistry, Princeton University, Princeton, New Jersey 08544, United States
| | - Sam He
- Department of Chemistry, Princeton University, Princeton, New Jersey 08544, United States
| | - John F Hoskin
- Department of Chemistry, Princeton University, Princeton, New Jersey 08544, United States
| | - Sandeep Mangat
- Department of Chemistry, Princeton University, Princeton, New Jersey 08544, United States
| | - Erik J Sorensen
- Department of Chemistry, Princeton University, Princeton, New Jersey 08544, United States
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3
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Lu H, Zhang Y, Wang XH, Zhang R, Xu PF, Wei H. Carbon-nitrogen transmutation in polycyclic arenol skeletons to access N-heteroarenes. Nat Commun 2024; 15:3772. [PMID: 38704373 PMCID: PMC11069502 DOI: 10.1038/s41467-024-48265-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2024] [Accepted: 04/25/2024] [Indexed: 05/06/2024] Open
Abstract
Developing skeletal editing tools is not a trivial task, and realizing the corresponding single-atom transmutation in a ring system without altering the ring size is even more challenging. Here, we introduce a skeletal editing strategy that enables polycyclic arenols, a highly prevalent motif in bioactive molecules, to be readily converted into N-heteroarenes through carbon-nitrogen transmutation. The reaction features selective nitrogen insertion into the C-C bond of the arenol frameworks by azidative dearomatization and aryl migration, followed by ring-opening, and ring-closing (ANRORC) to achieve carbon-to-nitrogen transmutation in the aromatic framework of the arenol. Using widely available arenols as N-heteroarene precursors, this alternative approach allows the streamlined assembly of complex polycyclic heteroaromatics with broad functional group tolerance. Finally, pertinent transformations of the products, including synthesis complex biheteroarene skeletons, were conducted and exhibited significant potential in materials chemistry.
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Affiliation(s)
- Hong Lu
- Key Laboratory of Synthetic and Natural Functional Molecule of the Ministry of Education, College of Chemistry & Materials Science, Northwest University, Xi'an, 710069, China
| | - Yu Zhang
- Key Laboratory of Synthetic and Natural Functional Molecule of the Ministry of Education, College of Chemistry & Materials Science, Northwest University, Xi'an, 710069, China
| | - Xiu-Hong Wang
- Key Laboratory of Synthetic and Natural Functional Molecule of the Ministry of Education, College of Chemistry & Materials Science, Northwest University, Xi'an, 710069, China
| | - Ran Zhang
- Key Laboratory of Synthetic and Natural Functional Molecule of the Ministry of Education, College of Chemistry & Materials Science, Northwest University, Xi'an, 710069, China
| | - Peng-Fei Xu
- State Key Laboratory of Applied Organic Chemistry, College of Chemistry and Chemical Engineering, Lanzhou University, Lanzhou, 730000, China.
| | - Hao Wei
- Key Laboratory of Synthetic and Natural Functional Molecule of the Ministry of Education, College of Chemistry & Materials Science, Northwest University, Xi'an, 710069, China.
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4
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Cheng Q, Bhattacharya D, Haring M, Cao H, Mück-Lichtenfeld C, Studer A. Skeletal editing of pyridines through atom-pair swap from CN to CC. Nat Chem 2024; 16:741-748. [PMID: 38238464 PMCID: PMC11087273 DOI: 10.1038/s41557-023-01428-2] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2023] [Accepted: 12/15/2023] [Indexed: 05/12/2024]
Abstract
Skeletal editing is a straightforward synthetic strategy for precise substitution or rearrangement of atoms in core ring structures of complex molecules; it enables quick diversification of compounds that is not possible by applying peripheral editing strategies. Previously reported skeletal editing of common arenes mainly relies on carbene- or nitrene-type insertion reactions or rearrangements. Although powerful, efficient and applicable to late-stage heteroarene core structure modification, these strategies cannot be used for skeletal editing of pyridines. Here we report the direct skeletal editing of pyridines through atom-pair swap from CN to CC to generate benzenes and naphthalenes in a modular fashion. Specifically, we use sequential dearomatization, cycloaddition and rearomatizing retrocycloaddition reactions in a one-pot sequence to transform the parent pyridines into benzenes and naphthalenes bearing diversified substituents at specific sites, as defined by the cycloaddition reaction components. Applications to late-stage skeletal diversification of pyridine cores in several drugs are demonstrated.
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Affiliation(s)
- Qiang Cheng
- Organisch-Chemisches Institut, Universität Münster, Münster, Germany
- College of Chemistry and Molecular Sciences, Wuhan University, Wuhan, P. R. China
| | | | - Malte Haring
- Organisch-Chemisches Institut, Universität Münster, Münster, Germany
| | - Hui Cao
- Organisch-Chemisches Institut, Universität Münster, Münster, Germany
| | | | - Armido Studer
- Organisch-Chemisches Institut, Universität Münster, Münster, Germany.
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5
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Ficarra F, Silvi M. Atom-swap chemistry could aid drug discovery. Nature 2023; 623:36-37. [PMID: 37914944 DOI: 10.1038/d41586-023-03297-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2023]
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6
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Woo J, Stein C, Christian AH, Levin MD. Carbon-to-nitrogen single-atom transmutation of azaarenes. Nature 2023; 623:77-82. [PMID: 37914946 PMCID: PMC10907950 DOI: 10.1038/s41586-023-06613-4] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2023] [Accepted: 09/05/2023] [Indexed: 11/03/2023]
Abstract
When searching for the ideal molecule to fill a particular functional role (for example, a medicine), the difference between success and failure can often come down to a single atom1. Replacing an aromatic carbon atom with a nitrogen atom would be enabling in the discovery of potential medicines2, but only indirect means exist to make such C-to-N transmutations, typically by parallel synthesis3. Here, we report a transformation that enables the direct conversion of a heteroaromatic carbon atom into a nitrogen atom, turning quinolines into quinazolines. Oxidative restructuring of the parent azaarene gives a ring-opened intermediate bearing electrophilic sites primed for ring reclosure and expulsion of a carbon-based leaving group. Such a 'sticky end' approach subverts existing atom insertion-deletion approaches and as a result avoids skeleton-rotation and substituent-perturbation pitfalls common in stepwise skeletal editing. We show a broad scope of quinolines and related azaarenes, all of which can be converted into the corresponding quinazolines by replacement of the C3 carbon with a nitrogen atom. Mechanistic experiments support the critical role of the activated intermediate and indicate a more general strategy for the development of C-to-N transmutation reactions.
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Affiliation(s)
- Jisoo Woo
- Department of Chemistry, The University of Chicago, Chicago, IL, USA
| | - Colin Stein
- Department of Chemistry, The University of Chicago, Chicago, IL, USA
| | | | - Mark D Levin
- Department of Chemistry, The University of Chicago, Chicago, IL, USA.
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7
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Pearson TJ, Shimazumi R, Driscoll JL, Dherange BD, Park DI, Levin MD. Aromatic nitrogen scanning by ipso-selective nitrene internalization. Science 2023; 381:1474-1479. [PMID: 37769067 PMCID: PMC10910605 DOI: 10.1126/science.adj5331] [Citation(s) in RCA: 20] [Impact Index Per Article: 20.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2023] [Accepted: 08/28/2023] [Indexed: 09/30/2023]
Abstract
Nitrogen scanning in aryl fragments is a valuable aspect of the drug discovery process, but current strategies require time-intensive, parallel, bottom-up synthesis of each pyridyl isomer because of a lack of direct carbon-to-nitrogen (C-to-N) replacement reactions. We report a site-directable aryl C-to-N replacement reaction allowing unified access to various pyridine isomers through a nitrene-internalization process. In a two-step, one-pot procedure, aryl azides are first photochemically converted to 3H-azepines, which then undergo an oxidatively triggered C2-selective cheletropic carbon extrusion through a spirocyclic azanorcaradiene intermediate to afford the pyridine products. Because the ipso carbon of the aryl nitrene is excised from the molecule, the reaction proceeds regioselectively without perturbation of the remainder of the substrate. Applications are demonstrated in the abbreviated synthesis of a pyridyl derivative of estrone, as well as in a prototypical nitrogen scan.
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Affiliation(s)
- Tyler J. Pearson
- Department of Chemistry, University of Chicago, Chicago, IL 60637, USA
| | - Ryoma Shimazumi
- Department of Chemistry, University of Chicago, Chicago, IL 60637, USA
| | - Julia L. Driscoll
- Department of Chemistry, University of Chicago, Chicago, IL 60637, USA
| | - Balu D. Dherange
- Department of Chemistry, University of Chicago, Chicago, IL 60637, USA
| | - Dong-Il Park
- Department of Chemistry, University of Chicago, Chicago, IL 60637, USA
| | - Mark D. Levin
- Department of Chemistry, University of Chicago, Chicago, IL 60637, USA
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8
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Morofuji T, Nagai S, Watanabe A, Inagawa K, Kano N. Streptocyanine as an activation mode of amine catalysis for the conversion of pyridine rings to benzene rings. Chem Sci 2023; 14:485-490. [PMID: 36741523 PMCID: PMC9847661 DOI: 10.1039/d2sc06225a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2022] [Accepted: 12/21/2022] [Indexed: 12/24/2022] Open
Abstract
Amine catalysts have emerged as an invaluable tool in organic synthesis. Iminium, enamine, and enamine radical cation species are representative activation modes of amine catalysis. However, the development of new amine catalysis activation modes that enable novel synthetic strategies remains highly desirable. Herein, we report streptocyanine as a new amine catalysis activation mode, which enables the skeletal editing of pyridine rings to benzene rings. N-Arylation of pyridines bearing an alkenyl substituent at the 3-position generates the corresponding N-arylpyridiniums. The resulting pyridinum reacts with a catalytic amount of piperidine to afford a streptocyanine intermediate. Catalytically generated streptocyanine forms a benzene ring via a ring-closing reaction, thereby releasing the amine catalyst. Consequently, the alkene moiety in the starting pyridines is incorporated into the benzene ring of the products. Pyridiniums bearing various alkene moieties were efficiently converted to formyl-substituted benzene derivatives. Mechanistic studies support the postulation that the present catalytic process was intermediated by streptocyanine. In this reaction system, streptocyanine could be regarded as a new activation mode of amine catalysis.
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Affiliation(s)
- Tatsuya Morofuji
- Department of Chemistry, Faculty of Science, Gakushuin University1-5-1 MejiroToshima-kuTokyo 171-8588Japan
| | - Shota Nagai
- Department of Chemistry, Faculty of Science, Gakushuin University1-5-1 MejiroToshima-kuTokyo 171-8588Japan
| | - Airi Watanabe
- Department of Chemistry, Faculty of Science, Gakushuin University1-5-1 MejiroToshima-kuTokyo 171-8588Japan
| | - Kota Inagawa
- Department of Chemistry, Faculty of Science, Gakushuin University1-5-1 MejiroToshima-kuTokyo 171-8588Japan
| | - Naokazu Kano
- Department of Chemistry, Faculty of Science, Gakushuin University1-5-1 MejiroToshima-kuTokyo 171-8588Japan
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9
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Abstract
A longstanding challenge in fundamental functional group interconversion has been the direct transformation of benzene into pyridine via nitrogen insertion and carbon deletion. Herein, we report a protocol for the transformation of aryl azides, easily accessible from their corresponding anilines, to 2-aminopyridines using blue light and oxygen. Mechanistic studies corroborate that the arene to pyridine conversion is achieved by nitrogen insertion into the benzene ring followed by oxidative carbon extrusion.
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Affiliation(s)
- Sajan C Patel
- Department of Chemistry, Stanford University, Stanford, California 94305, United States
| | - Noah Z Burns
- Department of Chemistry, Stanford University, Stanford, California 94305, United States
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10
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Jurczyk J, Woo J, Kim SF, Dherange BD, Sarpong R, Levin MD. Single-atom logic for heterocycle editing. NATURE SYNTHESIS 2022; 1:352-364. [PMID: 35935106 PMCID: PMC9355079 DOI: 10.1038/s44160-022-00052-1] [Citation(s) in RCA: 99] [Impact Index Per Article: 49.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/29/2023]
Abstract
Medicinal chemistry continues to be impacted by new synthetic methods. Particularly sought after, especially at the drug discovery stage, is the ability to enact the desired chemical transformations in a concise and chemospecific fashion. To this end, the field of organic synthesis has become captivated by the idea of 'molecular editing'-to rapidly build onto, change or prune molecules one atom at a time using transformations that are mild and selective enough to be employed at the late stages of a synthetic sequence. In this Review, the definition and categorization of a particularly promising subclass of molecular editing reactions, termed 'single-atom skeletal editing', are proposed. Although skeletal editing applies to both cyclic and acyclic compounds, this Review focuses on heterocycles, both for their centrality in medicinal chemistry and for the definitional clarity afforded by a focus on ring systems. A classification system is presented by highlighting methods (both historically important examples and recent advances) that achieve such transformations, with the goal to spark interest and inspire further development in this growing field.
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Affiliation(s)
- Justin Jurczyk
- Department of Chemistry, University of California, Berkeley, CA, USA
| | - Jisoo Woo
- Department of Chemistry, University of Chicago, Chicago, IL, USA
- These authors contributed equally: Jisoo Woo, Sojung F. Kim
| | - Sojung F. Kim
- Department of Chemistry, University of California, Berkeley, CA, USA
- These authors contributed equally: Jisoo Woo, Sojung F. Kim
| | - Balu D. Dherange
- Department of Chemistry, University of Chicago, Chicago, IL, USA
| | - Richmond Sarpong
- Department of Chemistry, University of California, Berkeley, CA, USA
- Correspondence should be addressed to Richmond Sarpong or Mark D. Levin. ;
| | - Mark D. Levin
- Department of Chemistry, University of Chicago, Chicago, IL, USA
- Correspondence should be addressed to Richmond Sarpong or Mark D. Levin. ;
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