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Chen A, Han Y, Wu R, Yang B, Zhu L, Zhu F. Palladium-catalyzed Suzuki-Miyaura cross-couplings of stable glycal boronates for robust synthesis of C-1 glycals. Nat Commun 2024; 15:5228. [PMID: 38898022 PMCID: PMC11187158 DOI: 10.1038/s41467-024-49547-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2024] [Accepted: 06/07/2024] [Indexed: 06/21/2024] Open
Abstract
C-1 Glycals serve as pivotal intermediates in synthesizing diverse C-glycosyl compounds and natural products, necessitating the development of concise, efficient and user-friendly methods to obtain C-1 glycosides is essential. The Suzuki-Miyaura cross-coupling of glycal boronates is notable for its reliability and non-toxic nature, but glycal donor stability remains a challenge. Herein, we achieve a significant breakthrough by developing stable glycal boronates, effectively overcoming the stability issue in glycal-based Suzuki-Miyaura coupling. Leveraging the balanced reactivity and stability of our glycal boronates, we establish a robust palladium-catalyzed glycal-based Suzuki-Miyaura reaction, facilitating the formation of various C(sp2)-C(sp), C(sp2)-C(sp2), and C(sp2)-C(sp3) bonds under mild conditions. Notably, we expand upon this achievement by developing the DNA-compatible glycal-based cross-coupling reaction to synthesize various glycal-DNA conjugates. With its excellent reaction reactivity, stability, generality, and ease of handling, the method holds promise for widespread appication in the preparation of C-glycosyl compounds and natural products.
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Grants
- We are grateful for financial support from the National Key R&D Program of China (Grant No. 2023YFA1508800, F. Z.), National Science Foundation (Grant No. 22301178, F. Z.), Shanghai Pilot Program for Basic Research - Shanghai Jiao Tong University (Grant No. 21TQ1400210, F. Z.), Fundamental Research Funds for the Central Universities (Grant No. 22X010201631, F. Z.), the Open Grant from the Pingyuan Laboratory (Grant No. 2023PY-OP-0102, F. Z.), Natural Science Foundation of Shanghai (Grant No. 21ZR1435600, F. Z.), Shanghai Sailing Program (Grant No 21YF1420600, F. Z.). Part of this study was supported by the National Science Foundation (Grant No. 22301180, B. Y.).
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Affiliation(s)
- Anrong Chen
- Frontiers Science Center for Transformative Molecules, Center for Chemical Glycobiology, Shanghai Key Laboratory for Molecular Engineering of Chiral Drugs, School of Chemistry and Chemical Engineering, Zhangjiang Institute for Advanced Study, Shanghai Jiao Tong University, Shanghai, PR China
| | - Yang Han
- Frontiers Science Center for Transformative Molecules, Center for Chemical Glycobiology, Shanghai Key Laboratory for Molecular Engineering of Chiral Drugs, School of Chemistry and Chemical Engineering, Zhangjiang Institute for Advanced Study, Shanghai Jiao Tong University, Shanghai, PR China
| | - Rongfeng Wu
- Discovery Chemistry Unit, HitGen Inc., Chengdu, Sichuan, PR China
| | - Bo Yang
- Frontiers Science Center for Transformative Molecules, Center for Chemical Glycobiology, Shanghai Key Laboratory for Molecular Engineering of Chiral Drugs, School of Chemistry and Chemical Engineering, Zhangjiang Institute for Advanced Study, Shanghai Jiao Tong University, Shanghai, PR China
| | - Lijuan Zhu
- Institute of Molecular Medicine, Renji Hospital, School of Medicine, Shanghai Jiao Tong University, 160 Pujian Road, Shanghai, PR China.
| | - Feng Zhu
- Frontiers Science Center for Transformative Molecules, Center for Chemical Glycobiology, Shanghai Key Laboratory for Molecular Engineering of Chiral Drugs, School of Chemistry and Chemical Engineering, Zhangjiang Institute for Advanced Study, Shanghai Jiao Tong University, Shanghai, PR China.
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2
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Choutka J, Kratochvíl M, Císařová I, Pohl R, Kaminský J, Parkan K. Silicon-bridged (1→1)-disaccharides: an umpoled glycomimetic scaffold. Org Biomol Chem 2022; 20:7613-7621. [PMID: 35861668 DOI: 10.1039/d2ob01161a] [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
Modification of the carbohydrate scaffold is an important theme in drug and vaccine discovery. Therefore, the preparation of novel types of glycomimetics is of interest in synthetic carbohydrate chemistry. In this manuscript, we present an early investigation of the synthesis, structure, and conformational behaviour of (1→1)-Si-disaccharides as a novel type of glycomimetics arising from the replacement of interglycosidic oxygen with a dimethyl-, methylpropyl-, or diisopropylsilyl linkage. We accomplished the preparation of this unusual group of umpoled compounds by the reaction of lithiated glycal or 2-oxyglycal units with dialkyldichlorosilanes. We demonstrated the good stability of the "Si-glycosidic" linkage under acidic conditions even at elevated temperatures. Next, we described the conformational landscape of these compounds by the combination of in silico modelling with spectroscopic and crystallographic methods. Finally, we explained the observed conformational flexibility of these compounds by the absence of gauche stabilizing effects that are typically at play in natural carbohydrates.
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Affiliation(s)
- Jan Choutka
- Department of Chemistry of Natural Compounds, University of Chemistry and Technology, Prague, Technická 5, 166 28, Prague, Czech Republic.
| | - Michal Kratochvíl
- Department of Chemistry of Natural Compounds, University of Chemistry and Technology, Prague, Technická 5, 166 28, Prague, Czech Republic.
| | - Ivana Císařová
- Department of Inorganic Chemistry, Faculty of Science, Charles University in Prague, Hlavova 2030, 128 40, Prague, Czech Republic
| | - Radek Pohl
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Flemingovo nám. 2, 166 10, Prague, Czech Republic
| | - Jakub Kaminský
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Flemingovo nám. 2, 166 10, Prague, Czech Republic
| | - Kamil Parkan
- Department of Chemistry of Natural Compounds, University of Chemistry and Technology, Prague, Technická 5, 166 28, Prague, Czech Republic.
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3
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Alonso‐Gil S, Parkan K, Kaminský J, Pohl R, Miyazaki T. Unlocking the Hydrolytic Mechanism of GH92 α‐1,2‐Mannosidases: Computation Inspires the use of C‐Glycosides as Michaelis Complex Mimics. Chemistry 2022; 28:e202200148. [PMID: 35049087 PMCID: PMC9305736 DOI: 10.1002/chem.202200148] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2022] [Indexed: 11/28/2022]
Abstract
The conformational changes in a sugar moiety along the hydrolytic pathway are key to understand the mechanism of glycoside hydrolases (GHs) and to design new inhibitors. The two predominant itineraries for mannosidases go via OS2→B2,5→1S5 and 3S1→3H4→1C4. For the CAZy family 92, the conformational itinerary was unknown. Published complexes of Bacteroides thetaiotaomicron GH92 catalyst with a S‐glycoside and mannoimidazole indicate a 4C1→4H5/1S5→1S5 mechanism. However, as observed with the GH125 family, S‐glycosides may not act always as good mimics of GH's natural substrate. Here we present a cooperative study between computations and experiments where our results predict the E5→B2,5/1S5→1S5 pathway for GH92 enzymes. Furthermore, we demonstrate the Michaelis complex mimicry of a new kind of C‐disaccharides, whose biochemical applicability was still a chimera.
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Affiliation(s)
- Santiago Alonso‐Gil
- Department of Structural and Computational Biology Max F. Perutz Laboratories University of Vienna Dr.-Bohr-Gasse 9 1030 Vienna Austria
| | - Kamil Parkan
- Department of Chemistry of Natural Compounds University of Chemistry and Technology Technická 5 166 28 Prague Czech Republic
| | - Jakub Kaminský
- Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences Gilead Sciences & IOCB Research Centre Czech Academy of Sciences Flemingovo nám. 2 166 10 Prague Czech Republic
| | - Radek Pohl
- Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences Gilead Sciences & IOCB Research Centre Czech Academy of Sciences Flemingovo nám. 2 166 10 Prague Czech Republic
| | - Takatsugu Miyazaki
- Research Institute of Green Science and Technology Shizuoka University 836 Ohya, Suruga-ku Shizuoka 422-8529 Japan
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4
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Vaňková K, Rahm M, Choutka J, Pohl R, Parkan K. Facile Approach to C-Glucosides by Using a Protecting-Group-Free Hiyama Cross-Coupling Reaction: High-Yielding Dapagliflozin Synthesis. Chemistry 2021; 27:10583-10588. [PMID: 34048112 DOI: 10.1002/chem.202101052] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2021] [Indexed: 12/16/2022]
Abstract
Access to unprotected (hetero)aryl pseudo-C-glucosides via a mild Pd-catalysed Hiyama cross-coupling reaction of protecting-group-free 1-diisopropylsilyl-d-glucal with various (hetero)aryl halides has been developed. In addition, selected unprotected pseudo-C-glucosides were stereoselectively converted into the corresponding α- and β-C-glucosides, as well as 2-deoxy-β-C-glucosides. This methodology was applied to the efficient and high-yielding synthesis of dapagliflozin, a medicament used to treat type 2 diabetes mellitus. Finally, the versatility of our methodology was proved by the synthesis of other analogues of dapagliflozin.
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Affiliation(s)
- Karolína Vaňková
- Department of Chemistry of Natural Compounds, University of Chemistry and Technology Prague, Technická 5, 166 28, Prague 6, Czech Republic
| | - Michal Rahm
- Department of Chemistry of Natural Compounds, University of Chemistry and Technology Prague, Technická 5, 166 28, Prague 6, Czech Republic
| | - Jan Choutka
- Department of Chemistry of Natural Compounds, University of Chemistry and Technology Prague, Technická 5, 166 28, Prague 6, Czech Republic
| | - Radek Pohl
- Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Gilead Sciences & IOCB Research Centre, Flemingovo nám. 2, 166 10, Prague, Czech Republic
| | - Kamil Parkan
- Department of Chemistry of Natural Compounds, University of Chemistry and Technology Prague, Technická 5, 166 28, Prague 6, Czech Republic
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5
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Kinfe HH. Versatility of glycals in synthetic organic chemistry: coupling reactions, diversity oriented synthesis and natural product synthesis. Org Biomol Chem 2019; 17:4153-4182. [PMID: 30893410 DOI: 10.1039/c9ob00343f] [Citation(s) in RCA: 41] [Impact Index Per Article: 8.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Glycals, 1,2-unsaturated sugar derivatives, are versatile starting materials for the synthesis of natural products and the generation of novel structural features in Diversity Oriented Synthesis (DOS). The versatility of glycals in synthesis emanates, among others, from the presence of the ring oxygen and the enol-ether type unsaturation, the different types of stable conformations they can adopt depending on the nature of the protecting groups present and the ease with which the protecting groups of the three hydroxy groups could be tailored to suite for a desired manipulation. This review summarizes the literature on the different transformations of the endo glycals into biologically relevant compounds such as chromans, thiochromans, chromenes, thiochromenes, peptidomimetics, bridged benzopyrans etc., as well as on the use of glycals as chiral building blocks for the synthesis of various natural products such as aspicilin, reblastatin, diospongins, decytospolides, osmundalactones, paclitaxel, isatisine, d-fagomine, and spliceostatin, reported post 2014.
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Affiliation(s)
- Henok H Kinfe
- Department of Chemistry, Center of Synthesis and Catalysis, University of Johannesburg, PO Box 524, Auckland Park 2006, South Africa.
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6
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Kiya N, Hidaka Y, Usui K, Hirai G. Synthesis of CH2-Linked α(1,6)-Disaccharide Analogues by α-Selective Radical Coupling C-Glycosylation. Org Lett 2019; 21:1588-1592. [DOI: 10.1021/acs.orglett.9b00133] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Affiliation(s)
- Noriaki Kiya
- Graduate School of Pharmaceutical Sciences, Kyushu University, 3-1-1 Maidashi, Higashi-ku, Fukuoka 812-8582, Japan
| | - Yu Hidaka
- Graduate School of Pharmaceutical Sciences, Kyushu University, 3-1-1 Maidashi, Higashi-ku, Fukuoka 812-8582, Japan
| | - Kazuteru Usui
- Graduate School of Pharmaceutical Sciences, Kyushu University, 3-1-1 Maidashi, Higashi-ku, Fukuoka 812-8582, Japan
| | - Go Hirai
- Graduate School of Pharmaceutical Sciences, Kyushu University, 3-1-1 Maidashi, Higashi-ku, Fukuoka 812-8582, Japan
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7
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Shelke YG, Yashmeen A, Gholap AVA, Gharpure SJ, Kapdi AR. Homogeneous Catalysis: A Powerful Technology for the Modification of Important Biomolecules. Chem Asian J 2018; 13:2991-3013. [PMID: 30063286 DOI: 10.1002/asia.201801020] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2018] [Revised: 07/29/2018] [Indexed: 12/17/2022]
Abstract
Homogeneous catalysis plays an important and ubiquitous role in the synthesis of simple and complex molecules, including drug compounds, natural products, and agrochemicals. In recent years, the wide-reaching importance of homogeneous catalysis has made it an indispensable tool for the modification of biomolecules, such as carbohydrates (sugars), amino acids, peptides, nucleosides, nucleotides, and steroids. Such a synthetic strategy offers several advantages, which have led to the development of new molecules of biological relevance at a rapid rate relative to the number of available synthetic methods. Given the powerful nature of homogeneous catalysis in effecting these synthetic transformations, this Focus Review has been compiled to highlight these important developments.
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Affiliation(s)
- Yogesh G Shelke
- Department of Chemistry, Indian Institute of Technology, Bombay, Main Gate Road, Powai, Mumbai, 400076, India
| | - Afsana Yashmeen
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai, 400019, India
| | - Aniket V A Gholap
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai, 400019, India
| | - Santosh J Gharpure
- Department of Chemistry, Indian Institute of Technology, Bombay, Main Gate Road, Powai, Mumbai, 400076, India
| | - Anant R Kapdi
- Department of Chemistry, Institute of Chemical Technology, Nathalal Parekh Road, Matunga, Mumbai, 400019, India
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8
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Dubbu S, Chennaiah A, Verma AK, Vankar YD. Stereoselective synthesis of 2-deoxy-β-C-aryl/alkyl glycosides using Prins cyclization: Application in the synthesis of C-disaccharides and differently protected C-aryl glycosides. Carbohydr Res 2018; 468:64-68. [PMID: 30153553 DOI: 10.1016/j.carres.2018.08.013] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2018] [Revised: 08/20/2018] [Accepted: 08/20/2018] [Indexed: 02/02/2023]
Abstract
2-Deoxy-β-C-aryl/alkyl glycosides were synthesized from di-O-pivaloyl protected homoallylic alcohol derived from D-mannitol with various aldehydes via the Prins cyclization. The salient features of this methodology are high yields and excellent stereoselectivity. This method has also been successfully applied to the synthesis of differently protected 2-deoxy-β-C-aryl glycosides and C-disaccharides. One of the 2-deoxy-β-C-aryl glycosides was utilized as a glycosyl acceptor in the glycosylation to synthesize an O-linked disaccharides.
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Affiliation(s)
- Sateesh Dubbu
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur, 208016, India
| | - Ande Chennaiah
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur, 208016, India
| | - Ashish Kumar Verma
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur, 208016, India
| | - Yashwant D Vankar
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur, 208016, India.
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9
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Choutka J, Pohl R, Parkan K. MOP and EE Protecting Groups in Synthesis of α- or β-Naphthyl- C-Glycosides from Glycals. ACS OMEGA 2018; 3:7875-7887. [PMID: 31458930 PMCID: PMC6644498 DOI: 10.1021/acsomega.8b00901] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/04/2018] [Accepted: 06/20/2018] [Indexed: 06/10/2023]
Abstract
The development of effective protection strategies is essential in the synthesis of complex carbohydrates and glycomimetics. This article describes a versatile four-stage protocol for the synthesis of α- or β-aryl-C-glycosides from unprotected d-glycals using two acetal protecting groups, ethoxyethyl and methoxypropyl, which are stable under harsh basic conditions and convenient for the C-1 metalation of glycals. Their stability was investigated in subsequent cross-coupling reactions with 1-iodonaphthalene followed by oxidative/reductive transformations to naphthyl-C-glycosides.
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Affiliation(s)
- Jan Choutka
- Department
of Chemistry of Natural Compounds, University
of Chemistry and Technology, Prague, Technická 5, 166 28 Prague, Czech Republic
| | - Radek Pohl
- Institute
of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Gilead Sciences & IOCB Research Center, Flemingovo nám. 2, 166 10 Prague, Czech Republic
| | - Kamil Parkan
- Department
of Chemistry of Natural Compounds, University
of Chemistry and Technology, Prague, Technická 5, 166 28 Prague, Czech Republic
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10
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Liao H, Ma J, Yao H, Liu XW. Recent progress of C-glycosylation methods in the total synthesis of natural products and pharmaceuticals. Org Biomol Chem 2018; 16:1791-1806. [DOI: 10.1039/c8ob00032h] [Citation(s) in RCA: 67] [Impact Index Per Article: 11.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Abstract
C-Glycosylation has found widespread use in the synthesis of biomedically important natural products and pharmaceuticals.
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Affiliation(s)
- Hongze Liao
- Division of Chemistry and Biological Chemistry
- School of Physical and Mathematical Science
- Nanyang Technological University
- Singapore 637371
| | - Jimei Ma
- Department of Chemistry
- College of Science
- Huazhong Agricultural University
- Wuhan
- China
| | - Hui Yao
- Division of Chemistry and Biological Chemistry
- School of Physical and Mathematical Science
- Nanyang Technological University
- Singapore 637371
| | - Xue-Wei Liu
- Division of Chemistry and Biological Chemistry
- School of Physical and Mathematical Science
- Nanyang Technological University
- Singapore 637371
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11
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Affiliation(s)
- You Yang
- Shanghai
Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, 130 Meilong Road, Shanghai 200237, China
| | - Biao Yu
- State
Key Laboratory of Bio-organic and Natural Products Chemistry, Shanghai
Institute of Organic Chemistry, Chinese Academy of Sciences, 345 Lingling Road, Shanghai 200032, China
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12
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Ni-Catalyzed C–C Couplings Using Alkyl Electrophiles. Top Curr Chem (Cham) 2016; 374:66. [DOI: 10.1007/s41061-016-0067-6] [Citation(s) in RCA: 62] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2016] [Accepted: 08/18/2016] [Indexed: 01/19/2023]
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13
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Vankar YD, Linker T. Recent Developments in the Synthesis of 2-C-Branched and 1,2-Annulated Carbohydrates. European J Org Chem 2015. [DOI: 10.1002/ejoc.201501176] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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