1
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Krömer M, Poštová Slavětínská L, Hocek M. Glyco-DNA: Enzymatic Synthesis of Base-Modified and Hypermodified DNA Displaying up to Four Different Monosaccharide Units in the Major Groove. Chemistry 2024; 30:e202402318. [PMID: 38896019 DOI: 10.1002/chem.202402318] [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: 06/18/2024] [Revised: 06/19/2024] [Accepted: 06/19/2024] [Indexed: 06/21/2024]
Abstract
A portfolio of six modified 2'-deoxyribonucleoside triphosphate (dNTP) derivatives derived from 5-substituted pyrimidine or 7-substituted 7-deazapurine bearing different carbohydrate units (d-glucose, d-galactose, d-mannose, l-fucose, sialic acid and N-Ac-d-galactosamine) tethered through propargyl-glycoside linker was designed and synthesized via the Sonogashira reactions of halogenated dNTPs with the corresponding propargyl-glycosides. The nucleotides were found to be good substrates for DNA polymerases in enzymatic primer extension and PCR synthesis of modified and hypermodified DNA displaying up to four different sugars. Proof of concept binding study of sugar-modified oligonucleotides with concanavalin A showed positive effect of avidity and sugar units count.
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Affiliation(s)
- Matouš Krömer
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Flemingovo nám. 2, 16000, Prague 6, Czech Republic
- Department of Organic Chemistry, Faculty of Science, Charles University, Hlavova 8, 12843, Prague 2, Czech Republic
| | - Lenka Poštová Slavětínská
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Flemingovo nám. 2, 16000, Prague 6, Czech Republic
| | - Michal Hocek
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Flemingovo nám. 2, 16000, Prague 6, Czech Republic
- Department of Organic Chemistry, Faculty of Science, Charles University, Hlavova 8, 12843, Prague 2, Czech Republic
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2
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Wang C, Peng QY, Wu Y, He YL, Zheng XH, Wang HB, Xin JM, He Q, Xie J, Tang L. Iodine-catalyzed regioselective direct sulfenylation of uracil with sulfonyl hydrazide as sulfur source under solvent free conditions. RSC Adv 2024; 14:4587-4590. [PMID: 38318618 PMCID: PMC10840085 DOI: 10.1039/d3ra07398j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2023] [Accepted: 01/28/2024] [Indexed: 02/07/2024] Open
Abstract
A facile method was developed for the selective thioetherification of uracils using sulfonyl hydrazide as the thioetherification reagent. This method offers advantages such as avoiding the use of additives and expensive metal catalysts, and providing good to excellent yields of various uracil thioethers. Experimental studies have demonstrated that the reaction follows a free radical pathway. Notably, the reaction can be carried out without solvent.
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Affiliation(s)
- Cong Wang
- School of Pharmacy, Guizhou Provincial Engineering Technology Research Center for Chemical Drug R&D, Guizhou Medical University Guiyang China
- The First Affiliated Hospital of Guizhou University of Traditional Chinese Medicine, Formulation (R&D) Department Guiyang 550001 China
| | - Qi-Yun Peng
- School of Pharmacy, Guizhou Provincial Engineering Technology Research Center for Chemical Drug R&D, Guizhou Medical University Guiyang China
| | - Yi Wu
- School of Pharmacy, Guizhou Provincial Engineering Technology Research Center for Chemical Drug R&D, Guizhou Medical University Guiyang China
| | - Yan-Ling He
- Zhejiang Hisun Pharmaceutical Co., Ltd. Taizhou Zhejiang 318000 China
| | - Xiao-He Zheng
- Zhejiang Hisun Pharmaceutical Co., Ltd. Taizhou Zhejiang 318000 China
| | - Hai-Bo Wang
- Zhejiang Hongyuan Pharmaceutical Co., Ltd. Linhai Zhejiang 317016 China
| | - Jia-Min Xin
- The First Affiliated Hospital of Guizhou University of Traditional Chinese Medicine, Formulation (R&D) Department Guiyang 550001 China
| | - Qing He
- School of Pharmacy, Guizhou Provincial Engineering Technology Research Center for Chemical Drug R&D, Guizhou Medical University Guiyang China
| | - Jun Xie
- School of Pharmacy, Guizhou Provincial Engineering Technology Research Center for Chemical Drug R&D, Guizhou Medical University Guiyang China
| | - Lei Tang
- School of Pharmacy, Guizhou Provincial Engineering Technology Research Center for Chemical Drug R&D, Guizhou Medical University Guiyang China
- State Key Laboratory of Functions and Applications of Medicinal Plants, Guizhou Medcial University Guiyang China
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3
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Mikami A, Mori S, Osawa T, Obika S. Post-Synthetic Nucleobase Modification of Oligodeoxynucleotides by Sonogashira Coupling and Influence of Alkynyl Modifications on the Duplex-Forming Ability. Chemistry 2023; 29:e202301928. [PMID: 37635089 DOI: 10.1002/chem.202301928] [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: 06/17/2023] [Revised: 08/23/2023] [Accepted: 08/25/2023] [Indexed: 08/29/2023]
Abstract
Recently, it was reported that the alkynyl modification of nucleobases mitigates the toxicity of antisense oligonucleotides (ASO) while maintaining the efficacy. However, the general effect of alkynyl modifications on the duplex-forming ability of oligonucleotides (ONs) is unclear. In this study, post-synthetic nucleobase modification by Sonogashira coupling in aqueous medium was carried out to efficiently evaluate the physiological properties of various ONs with alkynyl-modified nucleobases. Although several undesired reactions, including nucleobase cyclization, were observed, various types of alkynyl-modified ONs were successfully obtained via Sonogashira coupling of ONs containing iodinated nucleobases. Evaluation of the stability of the duplex formed by the synthesized alkynyl-modified ONs showed that the alkynyl modification of pyrimidine was less tolerated than that of purine, although both the modifications occurred in the major groove of the duplex. These results can be attributed to the bond angle of the alkyne on the pyrimidine and the close proximity of the alkynyl substituents to the phosphodiester backbone. The synthetic method developed in this study may contribute to the screening of the optimal chemical modification of ASO because various alkynyl-modified ONs that are effective in reducing the toxicity of ASO can be easily synthesized by this method.
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Affiliation(s)
- Atsushi Mikami
- Graduate School of Pharmaceutical Sciences, Osaka University, 1-6 Yamadaoka, Suita, Osaka, 565-0871, Japan
| | - Shohei Mori
- Graduate School of Pharmaceutical Sciences, Osaka University, 1-6 Yamadaoka, Suita, Osaka, 565-0871, Japan
| | - Takashi Osawa
- Graduate School of Pharmaceutical Sciences, Osaka University, 1-6 Yamadaoka, Suita, Osaka, 565-0871, Japan
| | - Satoshi Obika
- Graduate School of Pharmaceutical Sciences, Osaka University, 1-6 Yamadaoka, Suita, Osaka, 565-0871, Japan
- Institute for Open and Transdisciplinary Research Initiatives (OTRI), 1-3 Yamadaoka, Suita, Osaka, 565-0871, Japan
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4
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Bielski R, Mencer D. New syntheses of thiosaccharides utilizing substitution reactions. Carbohydr Res 2023; 532:108915. [PMID: 37597327 DOI: 10.1016/j.carres.2023.108915] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2023] [Revised: 07/30/2023] [Accepted: 07/31/2023] [Indexed: 08/21/2023]
Abstract
Novel synthetic methods published since 2005 affording carbohydrates containing sulfur atom(s) are reviewed. The review is divided to subchapters based on the position of sulfur atom(s) in the sugar molecule. Only those methods that take advantage of substitution are discussed.
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Affiliation(s)
- Roman Bielski
- Department of Pharmaceutical Sciences, Wilkes University, Wilkes-Barre, PA, 18766, United States; Chemventive, LLC Chadds Ford, PA, 19317, United States.
| | - Donald Mencer
- Department of Chemistry & Biochemistry, Wilkes University, Wilkes-Barre, PA, 18766, United States.
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5
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Ito Y, Takemori C, Hari Y. Chemical Conversion of 5-Fluoromethyl- and 5-Difluoromethyl-Uracil Bases in Oligonucleotides Using Postsynthetic Modification Strategy. Curr Protoc 2023; 3:e837. [PMID: 37494600 DOI: 10.1002/cpz1.837] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/28/2023]
Abstract
This article describes the postsynthetic modification of oligonucleotides (ONs) containing 2'-deoxy-5-fluoromethyluridine (dUCH2F ) and 2'-deoxy-5-difluoromethyluridine (dUCHF2 ). Reactions of fully protected and controlled pore glass (CPG)-attached ONs containing dUCH2F and dUCHF2 in basic solutions result in deprotection of all protecting groups except for the 4,4'-dimethoxytrityl group, cleavage from CPG, and conversion of the fluoromethyl or difluoromethyl groups to afford the corresponding ONs containing 5-substituted 2'-deoxyuridines. Moreover, the difluoromethyl group can be converted to formyl, oxime, or hydrazone via the postsynthetic conversion of protection- and CPG-free ON containing dUCHF2 . © 2023 Wiley Periodicals LLC. Basic Protocol 1: Synthesis of fully protected and CPG-attached oligonucleotides containing 2'-deoxy-5-fluoromethyluridine and 2'-deoxy-5-difluoromethyluridine Basic Protocol 2: Postsynthetic modification of fully protected and CPG-attached oligonucleotides containing 2'-deoxy-5-fluoromethyluridine Basic Protocol 3: Postsynthetic modification of fully protected and CPG-attached oligonucleotide containing 2'-deoxy-5-difluoromethyluridine Basic Protocol 4: Postsynthetic modification of protection- and CPG-free oligonucleotide containing 2'-deoxy-5-difluoromethyluridine Support Protocol: Synthesis of 2'-deoxy-5-fluoromethyluridine and 2'-deoxy-5-difluoromethyluridine phosphoramidites.
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Affiliation(s)
- Yuta Ito
- Faculty of Pharmaceutical Sciences, Tokushima Bunri University, Nishihama, Yamashiro-cho, Tokushima, Japan
| | - Chisa Takemori
- Faculty of Pharmaceutical Sciences, Tokushima Bunri University, Nishihama, Yamashiro-cho, Tokushima, Japan
| | - Yoshiyuki Hari
- Faculty of Pharmaceutical Sciences, Tokushima Bunri University, Nishihama, Yamashiro-cho, Tokushima, Japan
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6
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Yang P, Širvinskas MJ, Li B, Heller NW, Rong H, He G, Yudin AK, Chen G. Teraryl Braces in Macrocycles: Synthesis and Conformational Landscape Remodeling of Peptides. J Am Chem Soc 2023. [PMID: 37326500 DOI: 10.1021/jacs.3c03512] [Citation(s) in RCA: 8] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/17/2023]
Abstract
The three-dimensional structure of medium-sized cyclic peptides accounts for their biological activity and other important physiochemical properties. Despite significant advances in the past few decades, chemists' ability to fine-tune the structure, in particular, the backbone conformation, of short peptides made of canonical amino acids is still quite limited. Nature has shown that cross-linking the aromatic side chains of linear peptide precursors via enzyme catalysis can generate cyclophane-braced products with unusual structures and diverse activities. However, the biosynthetic path to these natural products is challenging to replicate in the synthetic laboratory using practical chemical modifications of peptides. Herein, we report a broadly applicable strategy to remodel the structure of homodetic peptides by cross-linking the aromatic side chains of Trp, His, and Tyr residues with various aryl linkers. The aryl linkers can be easily installed via copper-catalyzed double heteroatom-arylation reactions of peptides with aryl diiodides. These aromatic side chains and aryl linkers can be combined to form a large variety of assemblies of heteroatom-linked multi-aryl units. The assemblies can serve as tension-bearable multijoint braces to modulate the backbone conformation of peptides as an entry to previously inaccessible conformational space.
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Affiliation(s)
- Peng Yang
- State Key Laboratory and Institute of Elemento-Organic Chemistry, College of Chemistry, Nankai University, Tianjin 300071, China
| | | | - Bo Li
- State Key Laboratory and Institute of Elemento-Organic Chemistry, College of Chemistry, Nankai University, Tianjin 300071, China
| | - Nicholas W Heller
- Department of Chemistry, University of Toronto, Toronto M5S 3H4, Canada
| | - Hua Rong
- State Key Laboratory and Institute of Elemento-Organic Chemistry, College of Chemistry, Nankai University, Tianjin 300071, China
| | - Gang He
- State Key Laboratory and Institute of Elemento-Organic Chemistry, College of Chemistry, Nankai University, Tianjin 300071, China
| | - Andrei K Yudin
- Department of Chemistry, University of Toronto, Toronto M5S 3H4, Canada
| | - Gong Chen
- State Key Laboratory and Institute of Elemento-Organic Chemistry, College of Chemistry, Nankai University, Tianjin 300071, China
- Frontiers Science Center for New Organic Matter, Nankai University, Tianjin 300071, China
- Haihe Laboratory of Sustainable Chemical Transformations, Tianjin 300192, China
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7
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Okamura H, Trinh GH, Dong Z, Fan W, Nagatsugi F. Synthesis of 6-Alkynylated Purine-Containing DNA via On-Column Sonogashira Coupling and Investigation of Their Base-Pairing Properties. Molecules 2023; 28:molecules28041766. [PMID: 36838761 PMCID: PMC9965804 DOI: 10.3390/molecules28041766] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2023] [Revised: 02/07/2023] [Accepted: 02/08/2023] [Indexed: 02/16/2023] Open
Abstract
Synthetic unnatural base pairs have been proven to be attractive tools for the development of DNA-based biotechnology. Our group has very recently reported on alkynylated purine-pyridazine pairs, which exhibit selective and stable base-pairing via hydrogen bond formation between pseudo-nucleobases in the major groove of duplex DNA. In this study, we attempted to develop an on-column synthesis methodology of oligodeoxynucleotides (ODNs) containing alkynylated purine derivatives to systematically explore the relationship between the structure and the corresponding base-pairing ability. Through Sonogashira coupling of the ethynyl pseudo-nucleobases and CPG-bound ODNs containing 6-iodopurine, we have demonstrated the synthesis of the ODNs containing three NPu derivatives (NPu1, NPu2, NPu3) as well as three OPu derivatives (OPu1, OPu2, OPu3). The base-pairing properties of each alkynylated purine derivative revealed that the structures of pseudo-nucleobases influence the base pair stability and selectivity. Notably, we found that OPu1 bearing 2-pyrimidinone exhibits higher stability to the complementary NPz than the original OPu, thereby demonstrating the potential of the on-column strategy for convenient screening of the alkynylated purine derivatives with superior pairing ability.
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Affiliation(s)
- Hidenori Okamura
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai 980-8577, Miyagi, Japan
- Department of Chemistry, Graduate School of Science, Tohoku University, 6-3 Aramaki Aza-Aoba, Aoba-ku, Sendai 980-8577, Miyagi, Japan
- Correspondence: (H.O.); (F.N.)
| | - Giang Hoang Trinh
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai 980-8577, Miyagi, Japan
- Department of Chemistry, Graduate School of Science, Tohoku University, 6-3 Aramaki Aza-Aoba, Aoba-ku, Sendai 980-8577, Miyagi, Japan
| | - Zhuoxin Dong
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai 980-8577, Miyagi, Japan
- Department of Chemistry, Graduate School of Science, Tohoku University, 6-3 Aramaki Aza-Aoba, Aoba-ku, Sendai 980-8577, Miyagi, Japan
| | - Wenjue Fan
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai 980-8577, Miyagi, Japan
- Department of Chemistry, Graduate School of Science, Tohoku University, 6-3 Aramaki Aza-Aoba, Aoba-ku, Sendai 980-8577, Miyagi, Japan
| | - Fumi Nagatsugi
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai 980-8577, Miyagi, Japan
- Department of Chemistry, Graduate School of Science, Tohoku University, 6-3 Aramaki Aza-Aoba, Aoba-ku, Sendai 980-8577, Miyagi, Japan
- Correspondence: (H.O.); (F.N.)
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8
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Bruneau A, Gillon E, Furiga A, Brachet E, Alami M, Roques C, Varrot A, Imberty A, Messaoudi S. Discovery of potent 1,1-diarylthiogalactoside glycomimetic inhibitors of Pseudomonas aeruginosa LecA with antibiofilm properties. Eur J Med Chem 2023; 247:115025. [PMID: 36549118 DOI: 10.1016/j.ejmech.2022.115025] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2022] [Revised: 11/28/2022] [Accepted: 12/12/2022] [Indexed: 12/23/2022]
Abstract
In this work, β-thiogalactoside mimetics bearing 1,1-diarylmethylene or benzophenone aglycons have been prepared and assayed for their affinity towards LecA, a lectin and virulence factor from Pseudomonas aeruginosa involved in bacterial adhesion and biofilm formation. The hit compound presents higher efficiency than previously described monovalent inhibitors and the crystal structure confirmed the occurrence of additional contacts between the aglycone and the protein surface. The highest affinity (160 nM) was obtained for a divalent ligand containing two galactosides. The monovalent high affinity compound (Kd = 1 μM) obtained through structure-activity relationship (SAR) showed efficient antibiofilm activity with no associated bactericidal activity.
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Affiliation(s)
- Alexandre Bruneau
- BioCIS, Univ. Paris-Sud, CNRS, University Paris-Saclay, Châtenay-Malabry, France
| | - Emilie Gillon
- Université Grenoble Alpes, CNRS, CERMAV, 38000, Grenoble, France
| | - Aurélie Furiga
- LCG, Laboratoire de Génie Chimique (UMR 5503), Département Bioprocédés et Systèmes Microbiens, Université de Toulouse, CNRS, INPT, UPS, Toulouse, France
| | - Etienne Brachet
- BioCIS, Univ. Paris-Sud, CNRS, University Paris-Saclay, Châtenay-Malabry, France
| | - Mouad Alami
- BioCIS, Univ. Paris-Sud, CNRS, University Paris-Saclay, Châtenay-Malabry, France
| | - Christine Roques
- LCG, Laboratoire de Génie Chimique (UMR 5503), Département Bioprocédés et Systèmes Microbiens, Université de Toulouse, CNRS, INPT, UPS, Toulouse, France
| | - Annabelle Varrot
- Université Grenoble Alpes, CNRS, CERMAV, 38000, Grenoble, France
| | - Anne Imberty
- Université Grenoble Alpes, CNRS, CERMAV, 38000, Grenoble, France.
| | - Samir Messaoudi
- BioCIS, Univ. Paris-Sud, CNRS, University Paris-Saclay, Châtenay-Malabry, France.
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9
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Pesenti T, Domingo-Lopez D, Gillon E, Ibrahim N, Messaoudi S, Imberty A, Nicolas J. Degradable Glycopolyester-like Nanoparticles by Radical Ring-Opening Polymerization. Biomacromolecules 2022; 23:4015-4028. [PMID: 35971824 DOI: 10.1021/acs.biomac.2c00851] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
A small library of degradable polyester-like glycopolymers was successfully prepared by the combination of radical ring-opening copolymerization of 2-methylene-1,3-dioxepane as a cyclic ketene acetal (CKA) with vinyl ether (VE) derivatives and a Pd-catalyzed thioglycoconjugation. The resulting thioglycopolymers were formulated into self-stabilized thioglyconanoparticles, which were stable up to 4 months and were enzymatically degraded. Nanoparticles and their degradation products exhibited a good cytocompatibility on two healthy cell lines. Interactions between thioglyconanoparticles and lectins were investigated and highlighted the presence of both specific carbohydrate/lectin interactions and nonspecific hydrophobic interactions. Fluorescent thioglyconanoparticles were also prepared either by encapsulation of Nile red or by the functionalization of the polymer backbone with rhodamine B. Such nanoparticles were used to prove the cell internalization of the thioglyconanoparticles by lung adenocarcinoma (A549) cells, which underlined the great potential of P(CKA-co-VE) copolymers for biomedical applications.
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Affiliation(s)
- Théo Pesenti
- Université Paris-Saclay, CNRS, Institut Galien Paris-Saclay, 92296 Châtenay-Malabry, France
| | - Daniel Domingo-Lopez
- Université Paris-Saclay, CNRS, Institut Galien Paris-Saclay, 92296 Châtenay-Malabry, France
| | - Emilie Gillon
- Université Grenoble Alpes, CNRS, CERMAV, 38000 Grenoble, France
| | - Nada Ibrahim
- Université Paris-Saclay, CNRS, Institut Galien Paris-Saclay, 92296 Châtenay-Malabry, France
| | - Samir Messaoudi
- Université Paris-Saclay, CNRS, BioCIS, 92296 Châtenay-Malabry, France
| | - Anne Imberty
- Université Grenoble Alpes, CNRS, CERMAV, 38000 Grenoble, France
| | - Julien Nicolas
- Université Paris-Saclay, CNRS, Institut Galien Paris-Saclay, 92296 Châtenay-Malabry, France
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10
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Zhu M, Ghouilem J, Messaoudi S. Visible-Light-Mediated Stadler-Ziegler Arylation of Thiosugars with Anilines. ACS ORGANIC & INORGANIC AU 2022; 2:351-358. [PMID: 36855591 PMCID: PMC9955296 DOI: 10.1021/acsorginorgau.2c00006] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Here, we report a one-pot Stadler-Ziegler reaction toward the synthesis of 1-thioglycosides in good yield from commercially available anilines and (un)protected 1-glycosyl thiols. This simple and mild approach employs the photoredox catalyst [Ru(bpy)3](PF6)2 under visible light.
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11
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Vaskevych AI, Savinchuk NO, Vaskevych RI, Rusanov EB, Vovk MV. Chalcogenation/pyrrolo(pyrido)annulation of 2-(3-butenyl)quinazolin-4(3H)-ones by arylsulfenyl(selenyl) chlorides. Tetrahedron 2022. [DOI: 10.1016/j.tet.2022.132722] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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12
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Ito Y, Hari Y. Synthesis of Nucleobase-Modified Oligonucleotides by Post-Synthetic Modification in Solution. CHEM REC 2022; 22:e202100325. [PMID: 35119181 DOI: 10.1002/tcr.202100325] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2021] [Revised: 01/21/2022] [Indexed: 11/11/2022]
Abstract
Oligonucleotides containing modified nucleobases have applications in various technologies. In general, to synthesize oligonucleotides with different nucleobase structures, each modified phosphoramidite monomer needs to be prepared over multiple steps and then introduced onto the oligonucleotides, which is time-consuming and inefficient. Post-synthetic modification is a powerful strategy for preparing many types of modified oligonucleotides, especially nucleobase-modified ones. Depending on the stage of modification, post-synthetic modification can be divided into two stages: "solid-phase modification," wherein an oligonucleotide attaches to the resin, and "solution-phase modification," wherein an oligonucleotide detaches itself from the resin. In this review, we focus on post-synthetic modification in solution for the synthesis of nucleobase-modified oligonucleotides, except the modifications to linkers for conjugation. Moreover, the reactions are summarized for each modified position of the nucleobases.
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Affiliation(s)
- Yuta Ito
- Faculty of Pharmaceutical Sciences, Tokushima Bunri University, Nishihama, Yamashiro-cho, Tokushima, 770-8514, Japan
| | - Yoshiyuki Hari
- Faculty of Pharmaceutical Sciences, Tokushima Bunri University, Nishihama, Yamashiro-cho, Tokushima, 770-8514, Japan
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13
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Ryzhakov D, Beillard A, Le bideau F, Al-Shuaeeb RAA, Alami M, Bantreil X, Bonnemoy A, Gautier A, Lamaty F, Messaoudi S. Azoliums and Ag(I)‐N‐Heterocyclic Carbene Thioglycosides: synthesis, reactivity and bioactivity. European J Org Chem 2022. [DOI: 10.1002/ejoc.202101499] [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)
| | - Audrey Beillard
- Université de Montpellier: Universite de Montpellier Chemistry FRANCE
| | - Franck Le bideau
- Universite Paris-Saclay Chemistry 5 Rue J. B. Clément, Faculté de PharmacieChâtenay Malabry 92296 Châtenay Malabry FRANCE
| | | | - Mouad Alami
- Paris-Saclay University Faculty of Pharmacy: Universite Paris-Saclay Faculte de Pharmacie Chemistry 5 Rue J. B. Clément, Faculté de PharmacieChâtenay Malabry 92296 Châtenay Malabry FRANCE
| | - Xavier Bantreil
- Montpellier University: Universite de Montpellier chemistry FRANCE
| | - Aurore Bonnemoy
- Institute of Chemistry of Clermont-Ferrand: Institut de Chimie de Clermont-Ferrand chemistry FRANCE
| | | | | | - Samir Messaoudi
- Pharmacy faculty BIOCIS UMR 8076 Chemistry J. B. Clement 92296 Chatenay Malabry FRANCE
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14
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Yang P, Zhang C, Li B, He G, Chen G. Solid Phase Synthesis of Thioether‐linked Peptide Macrocycles via Palladium‐Catalyzed Intramolecular S‐Arylation and S‐Alkenylation. ASIAN J ORG CHEM 2021. [DOI: 10.1002/ajoc.202100561] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Peng Yang
- State Key Laboratory and Institute of Elemento-Organic Chemistry College of Chemistry Nankai University Tianjin 300071 P. R. China
| | - Chao Zhang
- State Key Laboratory and Institute of Elemento-Organic Chemistry College of Chemistry Nankai University Tianjin 300071 P. R. China
| | - Bo Li
- State Key Laboratory and Institute of Elemento-Organic Chemistry College of Chemistry Nankai University Tianjin 300071 P. R. China
| | - Gang He
- State Key Laboratory and Institute of Elemento-Organic Chemistry College of Chemistry Nankai University Tianjin 300071 P. R. China
| | - Gong Chen
- State Key Laboratory and Institute of Elemento-Organic Chemistry College of Chemistry Nankai University Tianjin 300071 P. R. China
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15
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Chu X, Shen L, Li B, Yang P, Du C, Wang X, He G, Messaoudi S, Chen G. Construction of Peptide Macrocycles via Palladium-Catalyzed Multiple S-Arylation: An Effective Strategy to Expand the Structural Diversity of Cross-Linkers. Org Lett 2021; 23:8001-8006. [PMID: 34582221 DOI: 10.1021/acs.orglett.1c03003] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
A simple and versatile method for macrocyclizing unprotected native peptides with a wide range of easily accessible diiodo and triiodoarene reagents via the palladium-catalyzed multiple S-arylation of cysteine residues is developed. Iodoarenes with different arene and heteroarene cores can be incorporated into peptide macrocycles of varied ring sizes and amino acid compositions with high efficiency and selectivity under mild conditions.
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Affiliation(s)
- Xin Chu
- State Key Laboratory and Institute of Elemento-Organic Chemistry, College of Chemistry, Nankai University, Tianjin 300071, China
| | - Linhua Shen
- University Paris-Saclay, CNRS, BioCIS, 92296 Chat̂enay-Malabry, France
| | - Bo Li
- State Key Laboratory and Institute of Elemento-Organic Chemistry, College of Chemistry, Nankai University, Tianjin 300071, China
| | - Peng Yang
- State Key Laboratory and Institute of Elemento-Organic Chemistry, College of Chemistry, Nankai University, Tianjin 300071, China
| | - Chengzhuo Du
- State Key Laboratory and Institute of Elemento-Organic Chemistry, College of Chemistry, Nankai University, Tianjin 300071, China
| | - Xiaoye Wang
- State Key Laboratory and Institute of Elemento-Organic Chemistry, College of Chemistry, Nankai University, Tianjin 300071, China
| | - Gang He
- State Key Laboratory and Institute of Elemento-Organic Chemistry, College of Chemistry, Nankai University, Tianjin 300071, China
| | - Samir Messaoudi
- University Paris-Saclay, CNRS, BioCIS, 92296 Chat̂enay-Malabry, France
| | - Gong Chen
- State Key Laboratory and Institute of Elemento-Organic Chemistry, College of Chemistry, Nankai University, Tianjin 300071, China
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16
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Fatthalla M, Grimblat N, Brachet E, Alami M, Gandon V, Le Bideau F, Messaoudi S. Synthesis of axially chiral biaryl thioglycosides through thiosugar-directed Pd-catalyzed asymmetric C-H activation. Chem Commun (Camb) 2021; 57:10355-10358. [PMID: 34533145 DOI: 10.1039/d1cc03971g] [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
Herein we report for the first time that the thiosugar moiety can be used both as a directing group enabling the regioselective activation of a C-H bond of biaryl scaffolds and as a chiral source inducing axial chirality. Our approach enables the easy generation of complex thioglycoside atropoisomers, thus paving the way to new products of potential biological interest.
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Affiliation(s)
- Maha Fatthalla
- Department of Chemistry, Faculty of Science, Helwan University, 11795 Ain Helwan, Cairo, Egypt.,Université Paris-Saclay, CNRS, BioCIS, 92290, Châtenay-Malabry, France.
| | - Nicolas Grimblat
- Laboratoire de Chimie Moléculaire (LCM), CNRS UMR 9168, Ecole Polytechnique, Institut Polytechnique de Paris, route de Saclay, 91128 Palaiseau Cedex, France.,Instituto de Química Rosario (IQUIR, CONICET-UNR) and Facultad de Ciencias Bioquímicas y Farmacéuticas, Universidad Nacional de Rosario, Suipacha 531 S2002LRK, Rosario, Republica Argentina
| | - Etienne Brachet
- Université de Paris, Faculté de Pharmacie de Paris, UMR CNRS 8038 (CiTCoM), 4 avenue de l'Observatoire, Paris FR-75006, France
| | - Mouad Alami
- Université Paris-Saclay, CNRS, BioCIS, 92290, Châtenay-Malabry, France.
| | - Vincent Gandon
- Laboratoire de Chimie Moléculaire (LCM), CNRS UMR 9168, Ecole Polytechnique, Institut Polytechnique de Paris, route de Saclay, 91128 Palaiseau Cedex, France.,Université Paris-Saclay, CNRS, ICMMO, 91405, Orsay Cedex, France
| | - Franck Le Bideau
- Université Paris-Saclay, CNRS, BioCIS, 92290, Châtenay-Malabry, France.
| | - Samir Messaoudi
- Université Paris-Saclay, CNRS, BioCIS, 92290, Châtenay-Malabry, France.
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17
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Chardet C, Payrastre C, Gerland B, Escudier JM. Convertible and Constrained Nucleotides: The 2'-Deoxyribose 5'-C-Functionalization Approach, a French Touch. Molecules 2021; 26:5925. [PMID: 34641475 PMCID: PMC8512084 DOI: 10.3390/molecules26195925] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2021] [Revised: 09/21/2021] [Accepted: 09/27/2021] [Indexed: 11/17/2022] Open
Abstract
Many strategies have been developed to modulate the biological or biotechnical properties of oligonucleotides by introducing new chemical functionalities or by enhancing their affinity and specificity while restricting their conformational space. Among them, we review our approach consisting of modifications of the 5'-C-position of the nucleoside sugar. This allows the introduction of an additional chemical handle at any position on the nucleotide chain without disturbing the Watson-Crick base-pairing. We show that 5'-C bromo or propargyl convertible nucleotides (CvN) are accessible in pure diastereoisomeric form, either for nucleophilic displacement or for CuAAC conjugation. Alternatively, the 5'-carbon can be connected in a stereo-controlled manner to the phosphate moiety of the nucleotide chain to generate conformationally constrained nucleotides (CNA). These allow the precise control of the sugar/phosphate backbone torsional angles. The consequent modulation of the nucleic acid shape induces outstanding stabilization properties of duplex or hairpin structures in accordance with the preorganization concept. Some biological applications of these distorted oligonucleotides are also described. Effectively, the convertible and the constrained approaches have been merged to create constrained and convertible nucleotides (C2NA) providing unique tools to functionalize and stabilize nucleic acids.
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Affiliation(s)
| | | | - Béatrice Gerland
- Laboratoire de Synthèse et Physico-Chimie de Molécules d′Intérêt Biologique, UMR CNRS 5068, Université Paul Sabatier, 118 Route de Narbonne, CEDEX 9, 31062 Toulouse, France; (C.C.); (C.P.)
| | - Jean-Marc Escudier
- Laboratoire de Synthèse et Physico-Chimie de Molécules d′Intérêt Biologique, UMR CNRS 5068, Université Paul Sabatier, 118 Route de Narbonne, CEDEX 9, 31062 Toulouse, France; (C.C.); (C.P.)
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18
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Shan J, Ling X, Liu J, Wang X, Lu X. DNA-encoded CH functionality via photoredox-mediated hydrogen atom transformation catalysis. Bioorg Med Chem 2021; 42:116234. [PMID: 34098191 DOI: 10.1016/j.bmc.2021.116234] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2021] [Revised: 05/18/2021] [Accepted: 05/20/2021] [Indexed: 01/22/2023]
Abstract
We described a mode of catalytic activation that accomplished the α-alkylation of N-Boc saturated heterocycles with DNA-linked acrylamide via photoredox-mediated hydrogen atom transfer (HAT) catalysis. This C(sp3)-C(sp3) bond formation reaction tolerated five-, six- and seven-membered cyclic substrates, substantially streamline synthetic efforts to functionalize the α-position of heterocycles with native CH functional handle. This photoredox catalyzed CH functionalization proceeded in mild DNA-compatible condition, and suited for the construction of DNA-encoded libraries.
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Affiliation(s)
- Jinming Shan
- State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, 501 Haike Road, Zhang Jiang Hi-Tech Park, Pudong, Shanghai 201203, China
| | - Xing Ling
- State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, 501 Haike Road, Zhang Jiang Hi-Tech Park, Pudong, Shanghai 201203, China; University of Chinese Academy of Sciences, No. 19A Yuquan Road, Beijing 100049, China
| | - JiaXiang Liu
- State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, 501 Haike Road, Zhang Jiang Hi-Tech Park, Pudong, Shanghai 201203, China
| | - Xuan Wang
- State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, 501 Haike Road, Zhang Jiang Hi-Tech Park, Pudong, Shanghai 201203, China; University of Chinese Academy of Sciences, No. 19A Yuquan Road, Beijing 100049, China.
| | - Xiaojie Lu
- State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, 501 Haike Road, Zhang Jiang Hi-Tech Park, Pudong, Shanghai 201203, China; University of Chinese Academy of Sciences, No. 19A Yuquan Road, Beijing 100049, China.
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19
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Feng G, Wang S, Lv J, Luo T, Wu Y, Dong H. Improved Synthesis of 1‐Glycosyl Thioacetates and Its Application in the Synthesis of Thioglucoside Gliflozin Analogues. European J Org Chem 2021. [DOI: 10.1002/ejoc.202100357] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Guang‐Jing Feng
- Key Laboratory of Material Chemistry for Energy Conversion and Storage Ministry of Education, School of Chemistry & Chemical Engineering Huazhong University of Science & Technology Luoyu Road 1037 Wuhan 430074 PR China
| | - Shuang‐Shuang Wang
- Key Laboratory of Material Chemistry for Energy Conversion and Storage Ministry of Education, School of Chemistry & Chemical Engineering Huazhong University of Science & Technology Luoyu Road 1037 Wuhan 430074 PR China
| | - Jian Lv
- Key Laboratory of Material Chemistry for Energy Conversion and Storage Ministry of Education, School of Chemistry & Chemical Engineering Huazhong University of Science & Technology Luoyu Road 1037 Wuhan 430074 PR China
| | - Tao Luo
- Key Laboratory of Material Chemistry for Energy Conversion and Storage Ministry of Education, School of Chemistry & Chemical Engineering Huazhong University of Science & Technology Luoyu Road 1037 Wuhan 430074 PR China
| | - Yuzhou Wu
- Key Laboratory of Material Chemistry for Energy Conversion and Storage Ministry of Education, School of Chemistry & Chemical Engineering Huazhong University of Science & Technology Luoyu Road 1037 Wuhan 430074 PR China
| | - Hai Dong
- Key Laboratory of Material Chemistry for Energy Conversion and Storage Ministry of Education, School of Chemistry & Chemical Engineering Huazhong University of Science & Technology Luoyu Road 1037 Wuhan 430074 PR China
- Hubei Key Laboratory of Bioinorganic Chemistry and Materia Medica Huazhong University of Science & Technology Luoyu Road 1037 Wuhan 430074 PR China
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20
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Wu R, Du T, Sun W, Shaginian A, Gao S, Li J, Wan J, Liu G. Functionalization of DNA-Tagged Alkenes Enabled by Visible-Light-Induced C–H Activation of N-Aryl Tertiary Amines. Org Lett 2021; 23:3486-3490. [DOI: 10.1021/acs.orglett.1c00924] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Rongfeng Wu
- HitGen Inc., Building 6, No. 8 Huigu First East Road, Tianfu International Bio-Town, Shuangliu District, Chengdu 610200, Sichuan, P. R. China
| | - Tian Du
- HitGen Inc., Building 6, No. 8 Huigu First East Road, Tianfu International Bio-Town, Shuangliu District, Chengdu 610200, Sichuan, P. R. China
| | - Wenbo Sun
- HitGen Inc., Building 6, No. 8 Huigu First East Road, Tianfu International Bio-Town, Shuangliu District, Chengdu 610200, Sichuan, P. R. China
| | - Alex Shaginian
- HitGen Inc., Building 6, No. 8 Huigu First East Road, Tianfu International Bio-Town, Shuangliu District, Chengdu 610200, Sichuan, P. R. China
| | - Sen Gao
- HitGen Inc., Building 6, No. 8 Huigu First East Road, Tianfu International Bio-Town, Shuangliu District, Chengdu 610200, Sichuan, P. R. China
| | - Jin Li
- HitGen Inc., Building 6, No. 8 Huigu First East Road, Tianfu International Bio-Town, Shuangliu District, Chengdu 610200, Sichuan, P. R. China
| | - Jinqiao Wan
- HitGen Inc., Building 6, No. 8 Huigu First East Road, Tianfu International Bio-Town, Shuangliu District, Chengdu 610200, Sichuan, P. R. China
| | - Guansai Liu
- HitGen Inc., Building 6, No. 8 Huigu First East Road, Tianfu International Bio-Town, Shuangliu District, Chengdu 610200, Sichuan, P. R. China
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21
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Zhang GL, Gadi MR, Cui X, Liu D, Zhang J, Saikam V, Gibbons C, Wang PG, Li L. Protecting-group-free S-glycosylation towards thioglycosides and thioglycopeptides in water. GREEN CHEMISTRY : AN INTERNATIONAL JOURNAL AND GREEN CHEMISTRY RESOURCE : GC 2021; 23:2907-2912. [PMID: 34497476 PMCID: PMC8423405 DOI: 10.1039/d1gc00098e] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
A facile and green S-glycosylation method has been developed featuring protecting-group-free and proceeding-in-water like enzymatic synthesis. Glycosylation of fluoride donors with thiol sugar acceptors using Ca(OH)2 as a promoter afforded various thioglycosides in good yields with exclusive stereoselectivity. This method also enabled the successful production of S-linked oligosaccharides and S-linked glycopeptides.
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Affiliation(s)
- Gao-Lan Zhang
- Department of Chemistry, Georgia State University, 50 Decatur ST SE, Atlanta, Georgia, 30303, USA
| | - Madhusudhan Reddy Gadi
- Department of Chemistry, Georgia State University, 50 Decatur ST SE, Atlanta, Georgia, 30303, USA
| | - Xikai Cui
- Department of Chemistry, Georgia State University, 50 Decatur ST SE, Atlanta, Georgia, 30303, USA
| | - Ding Liu
- Department of Chemistry, Georgia State University, 50 Decatur ST SE, Atlanta, Georgia, 30303, USA
| | - Jiabin Zhang
- Department of Chemistry, Georgia State University, 50 Decatur ST SE, Atlanta, Georgia, 30303, USA
| | - Varma Saikam
- Department of Chemistry, Georgia State University, 50 Decatur ST SE, Atlanta, Georgia, 30303, USA
| | - Christopher Gibbons
- Department of Chemistry, Georgia State University, 50 Decatur ST SE, Atlanta, Georgia, 30303, USA
| | - Peng G Wang
- Department of Chemistry, Georgia State University, 50 Decatur ST SE, Atlanta, Georgia, 30303, USA
| | - Lei Li
- Department of Chemistry, Georgia State University, 50 Decatur ST SE, Atlanta, Georgia, 30303, USA
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22
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Jbara M, Rodriguez J, Dhanjee HH, Loas A, Buchwald SL, Pentelute BL. Oligonucleotide Bioconjugation with Bifunctional Palladium Reagents. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202103180] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Affiliation(s)
- Muhammad Jbara
- Department of Chemistry Massachusetts Institute of Technology 77 Massachusetts Ave. Cambridge MA 02139 USA
| | - Jacob Rodriguez
- Department of Chemistry Massachusetts Institute of Technology 77 Massachusetts Ave. Cambridge MA 02139 USA
| | - Heemal H. Dhanjee
- Department of Chemistry Massachusetts Institute of Technology 77 Massachusetts Ave. Cambridge MA 02139 USA
| | - Andrei Loas
- Department of Chemistry Massachusetts Institute of Technology 77 Massachusetts Ave. Cambridge MA 02139 USA
| | - Stephen L. Buchwald
- Department of Chemistry Massachusetts Institute of Technology 77 Massachusetts Ave. Cambridge MA 02139 USA
| | - Bradley L. Pentelute
- Department of Chemistry Massachusetts Institute of Technology 77 Massachusetts Ave. Cambridge MA 02139 USA
- The Koch Institute for Integrative Cancer Research Massachusetts Institute of Technology 500 Main Street Cambridge MA 02142 USA
- Center for Environmental Health Sciences Massachusetts Institute of Technology 77 Massachusetts Avenue Cambridge MA 02139 USA
- Broad Institute of MIT and Harvard 415 Main Street Cambridge MA 02142 USA
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23
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Jbara M, Rodriguez J, Dhanjee HH, Loas A, Buchwald SL, Pentelute BL. Oligonucleotide Bioconjugation with Bifunctional Palladium Reagents. Angew Chem Int Ed Engl 2021; 60:12109-12115. [PMID: 33730425 DOI: 10.1002/anie.202103180] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2021] [Indexed: 01/01/2023]
Abstract
Organometallic reagents enable practical strategies for bioconjugation. Innovations in the design of water-soluble ligands and the enhancement of reaction rates have allowed for chemoselective cross-coupling reactions of peptides and proteins to be carried out in water. There are currently no organometallic-based methods for oligonucleotide bioconjugation to other biomolecules. Here we report bifunctional palladium(II)-oxidative addition complexes (OACs) as reagents for high-yielding oligonucleotide bioconjugation reactions. These bifunctional OACs react chemoselectively with amine-modified oligonucleotides to generate the first isolable, bench stable oligonucleotide-palladium(II) OACs. These complexes undergo site-selective C-S arylation with a broad range of native thiol-containing biomolecules at low micromolar concentrations in under one hour. This approach provided oligonucleotide-peptide, oligonucleotide-protein, oligonucleotide-small molecule, and oligonucleotide-oligonucleotide conjugates in >80 % yield and afforded conjugation of multiple copies of oligonucleotides onto a monoclonal antibody.
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Affiliation(s)
- Muhammad Jbara
- Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Ave., Cambridge, MA, 02139, USA
| | - Jacob Rodriguez
- Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Ave., Cambridge, MA, 02139, USA
| | - Heemal H Dhanjee
- Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Ave., Cambridge, MA, 02139, USA
| | - Andrei Loas
- Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Ave., Cambridge, MA, 02139, USA
| | - Stephen L Buchwald
- Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Ave., Cambridge, MA, 02139, USA
| | - Bradley L Pentelute
- Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Ave., Cambridge, MA, 02139, USA.,The Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, 500 Main Street, Cambridge, MA, 02142, USA.,Center for Environmental Health Sciences, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA, 02139, USA.,Broad Institute of MIT and Harvard, 415 Main Street, Cambridge, MA, 02142, USA
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24
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Yang P, Wang X, Li B, Yang Y, Yue J, Suo Y, Tong H, He G, Lu X, Chen G. Streamlined construction of peptide macrocycles via palladium-catalyzed intramolecular S-arylation in solution and on DNA. Chem Sci 2021; 12:5804-5810. [PMID: 34168804 PMCID: PMC8179660 DOI: 10.1039/d1sc00789k] [Citation(s) in RCA: 36] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2021] [Accepted: 03/08/2021] [Indexed: 12/18/2022] Open
Abstract
A highly efficient and versatile method for construction of peptide macrocycles via palladium-catalyzed intramolecular S-arylation of alkyl and aryl thiols with aryl iodides under mild conditions is developed. The method exhibits a broad substrate scope for thiols, aryl iodides and amino acid units. Peptide macrocycles of a wide range of size and composition can be readily assembled in high yield from various easily accessible building blocks. This method has been successfully employed to prepare an 8-million-membered tetrameric cyclic peptide DNA-encoded library (DEL). Preliminary screening of the DEL library against protein p300 identified compounds with single digit micromolar inhibition activity.
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Affiliation(s)
- Peng Yang
- State Key Laboratory and Institute of Elemento-Organic Chemistry, College of Chemistry, Nankai University Tianjin 300071 China
| | - Xuan Wang
- State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences 501 Haike Road, Zhang Jiang Hi-Tech Park, Pudong Shanghai 201203 China
| | - Bo Li
- State Key Laboratory and Institute of Elemento-Organic Chemistry, College of Chemistry, Nankai University Tianjin 300071 China
| | - Yixuan Yang
- State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences 501 Haike Road, Zhang Jiang Hi-Tech Park, Pudong Shanghai 201203 China
| | - Jinfeng Yue
- State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences 501 Haike Road, Zhang Jiang Hi-Tech Park, Pudong Shanghai 201203 China
| | - Yanrui Suo
- State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences 501 Haike Road, Zhang Jiang Hi-Tech Park, Pudong Shanghai 201203 China
| | - Huarong Tong
- State Key Laboratory and Institute of Elemento-Organic Chemistry, College of Chemistry, Nankai University Tianjin 300071 China
| | - Gang He
- State Key Laboratory and Institute of Elemento-Organic Chemistry, College of Chemistry, Nankai University Tianjin 300071 China
| | - Xiaojie Lu
- State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences 501 Haike Road, Zhang Jiang Hi-Tech Park, Pudong Shanghai 201203 China
| | - Gong Chen
- State Key Laboratory and Institute of Elemento-Organic Chemistry, College of Chemistry, Nankai University Tianjin 300071 China
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25
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Ito Y, Hayashi H, Fuchi Y, Hari Y. Post-synthetic modification of oligonucleotides containing 5-mono- and 5-di-fluoromethyluridines. Tetrahedron 2021. [DOI: 10.1016/j.tet.2020.131769] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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26
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Fan Z, Zhao S, Liu T, Shen PX, Cui ZN, Zhuang Z, Shao Q, Chen JS, Ratnayake AS, Flanagan ME, Kölmel DK, Piotrowski DW, Richardson P, Yu JQ. Merging C(sp 3)-H activation with DNA-encoding. Chem Sci 2020; 11:12282-12288. [PMID: 34094436 PMCID: PMC8162953 DOI: 10.1039/d0sc03935g] [Citation(s) in RCA: 45] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022] Open
Abstract
DNA-encoded library (DEL) technology has the potential to dramatically expedite hit identification in drug discovery owing to its ability to perform protein affinity selection with millions or billions of molecules in a few experiments. To expand the molecular diversity of DEL, it is critical to develop different types of DNA-encoded transformations that produce billions of molecules with distinct molecular scaffolds. Sequential functionalization of multiple C–H bonds provides a unique avenue for creating diversity and complexity from simple starting materials. However, the use of water as solvent, the presence of DNA, and the extremely low concentration of DNA-encoded coupling partners (0.001 M) have hampered the development of DNA-encoded C(sp3)–H activation reactions. Herein, we report the realization of palladium-catalyzed C(sp3)–H arylation of aliphatic carboxylic acids, amides and ketones with DNA-encoded aryl iodides in water. Notably, the present method enables the use of alternative sets of monofunctional building blocks, providing a linchpin to facilitate further setup for DELs. Furthermore, the C–H arylation chemistry enabled the on-DNA synthesis of structurally-diverse scaffolds containing enriched C(sp3) character, chiral centers, cyclopropane, cyclobutane, and heterocycles. DNA-compatible C(sp3)–H activation reactions of aliphatic carboxylic acids, amides, and ketones were developed for efficient access to DEL synthesis.![]()
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Affiliation(s)
- Zhoulong Fan
- Department of Chemistry, The Scripps Research Institute 10550 North Torrey Pines Road, La Jolla CA 92037 USA
| | - Shuai Zhao
- Department of Chemistry, The Scripps Research Institute 10550 North Torrey Pines Road, La Jolla CA 92037 USA
| | - Tao Liu
- Department of Chemistry, The Scripps Research Institute 10550 North Torrey Pines Road, La Jolla CA 92037 USA
| | - Peng-Xiang Shen
- Department of Chemistry, The Scripps Research Institute 10550 North Torrey Pines Road, La Jolla CA 92037 USA
| | - Zi-Ning Cui
- Department of Chemistry, The Scripps Research Institute 10550 North Torrey Pines Road, La Jolla CA 92037 USA
| | - Zhe Zhuang
- Department of Chemistry, The Scripps Research Institute 10550 North Torrey Pines Road, La Jolla CA 92037 USA
| | - Qian Shao
- Department of Chemistry, The Scripps Research Institute 10550 North Torrey Pines Road, La Jolla CA 92037 USA
| | - Jason S Chen
- Automated Synthesis Facility, The Scripps Research Institute 10550 North Torrey Pines Road, La Jolla CA 92037 USA
| | - Anokha S Ratnayake
- Pfizer Medicinal Chemistry Eastern Point Road, Groton Connecticut 06340 USA
| | - Mark E Flanagan
- Pfizer Medicinal Chemistry Eastern Point Road, Groton Connecticut 06340 USA
| | - Dominik K Kölmel
- Pfizer Medicinal Chemistry Eastern Point Road, Groton Connecticut 06340 USA
| | - David W Piotrowski
- Pfizer Medicinal Chemistry Eastern Point Road, Groton Connecticut 06340 USA
| | - Paul Richardson
- Pfizer Medicinal Chemistry, 10578 Science Center Drive San Diego CA 09121 USA
| | - Jin-Quan Yu
- Department of Chemistry, The Scripps Research Institute 10550 North Torrey Pines Road, La Jolla CA 92037 USA
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27
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Zhu M, Alami M, Messaoudi S. Room-Temperature Pd-Catalyzed Synthesis of 1-(Hetero)aryl Selenoglycosides. Org Lett 2020; 22:6584-6589. [PMID: 32806176 DOI: 10.1021/acs.orglett.0c02352] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
A general protocol for functionalization of an anomeric selonate anion at room temperature has been reported. By using the PdG3 XantPhos catalyst, the cross-coupling between the in situ-generated glycosyl selenolate and a broad range of (hetero)aryl and alkenyl iodides furnished a series of functionalized selenoglycosides in excellent yields with perfect control of the anomeric configuration.
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Affiliation(s)
- Mingxiang Zhu
- BioCIS, Univ. Paris-Sud, CNRS, University Paris-Saclay, 92290 Châtenay-Malabry, France
| | - Mouad Alami
- BioCIS, Univ. Paris-Sud, CNRS, University Paris-Saclay, 92290 Châtenay-Malabry, France
| | - Samir Messaoudi
- BioCIS, Univ. Paris-Sud, CNRS, University Paris-Saclay, 92290 Châtenay-Malabry, France
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28
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Rodríguez J, Martínez-Calvo M. Transition-Metal-Mediated Modification of Biomolecules. Chemistry 2020; 26:9792-9813. [PMID: 32602145 DOI: 10.1002/chem.202001287] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2020] [Revised: 06/25/2020] [Indexed: 01/15/2023]
Abstract
The site-selective modification of biomolecules has grown spectacularly in recent years. The presence of a large number of functional groups in a biomolecule makes its chemo- and regioselective modification a challenging goal. In this context, transition-metal-mediated reactions are emerging as a powerful tool owing to their unique reactivity and good functional group compatibility, allowing highly efficient and selective bioconjugation reactions that operate under mild conditions. This Minireview focuses on the current state of organometallic chemistry for bioconjugation, highlighting the potential of transition metals for the development of chemoselective and site-specific methods for functionalization of peptides, proteins and nucleic acids. The importance of the selection of ligands attached to the transition metal for conferring the desired chemoselectivity will be highlighted.
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Affiliation(s)
- Jessica Rodríguez
- Laboratoire Hétérochimie Fondamentale et Appliquée, Université Paul Sabatier/CNRS UMR 5069, 118 Route de Narbonne, 31062, Toulouse Cedex 09, France
| | - Miguel Martínez-Calvo
- Centro de Investigaciones Científicas Avanzadas (CICA), AE CICA-INIBIC, Departamento de Química, Facultade de Ciencias, Universidade da Coruña, Campus de Elviña, 15071 A, Coruña, Galicia, Spain
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29
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Ibrahim N, Bonnet P, Brion JD, Peyrat JF, Bignon J, Levaique H, Josselin B, Robert T, Colas P, Bach S, Messaoudi S, Alami M, Hamze A. Identification of a new series of flavopiridol-like structures as kinase inhibitors with high cytotoxic potency. Eur J Med Chem 2020; 199:112355. [PMID: 32402934 DOI: 10.1016/j.ejmech.2020.112355] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2020] [Revised: 04/02/2020] [Accepted: 04/16/2020] [Indexed: 12/13/2022]
Abstract
In this work, unique flavopiridol analogs bearing thiosugars, amino acids and heterocyclic moieties tethered to the flavopiridol via thioether and amine bonds mainly on its C ring have been prepared. The analogs bearing thioether-benzimidazoles as substituents have demonstrated high cytotoxic activity in vitro against up to seven cancer cell lines. Their cytotoxic effects are comparable to those of flavopiridol. The most active compound 13c resulting from a structure-activity relationship (SAR) study and in silico docking showed the best antiproliferative activity and was more efficient than the reference compound. In addition, compound 13c showed significant nanomolar inhibition against CDK9, CDK10, and GSK3β protein kinases.
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Affiliation(s)
- Nada Ibrahim
- BioCIS, Equipe Labellisée Ligue Contre le Cancer, Univ. Paris-Sud, CNRS, University Paris-Saclay, F-92290, Châtenay Malabry, France
| | - Pascal Bonnet
- Institut de Chimie Organique et Analytique (ICOA), UMR7311 Université d'Orléans-CNRS, Rue de Chartres, BP 6759, 45067, Orléans, Cedex 2, France
| | - Jean-Daniel Brion
- BioCIS, Equipe Labellisée Ligue Contre le Cancer, Univ. Paris-Sud, CNRS, University Paris-Saclay, F-92290, Châtenay Malabry, France
| | - Jean-François Peyrat
- BioCIS, Equipe Labellisée Ligue Contre le Cancer, Univ. Paris-Sud, CNRS, University Paris-Saclay, F-92290, Châtenay Malabry, France
| | - Jerome Bignon
- Institut de Chimie des Substances Naturelles, UPR 2301, CNRS, F-91198, Gif sur Yvette, France
| | - Helene Levaique
- Institut de Chimie des Substances Naturelles, UPR 2301, CNRS, F-91198, Gif sur Yvette, France
| | - Béatrice Josselin
- Sorbonne Université, CNRS, UMR8227, Integrative Biology of Marine Models Laboratory (LBI2M), Station Biologique de Roscoff, 29680, Roscoff, France; Sorbonne Université, CNRS, FR2424, Plateforme de criblage KISSf (Kinase Inhibitor Specialized Screening Facility), Station Biologique de Roscoff, 29680, Roscoff, France
| | - Thomas Robert
- Sorbonne Université, CNRS, UMR8227, Integrative Biology of Marine Models Laboratory (LBI2M), Station Biologique de Roscoff, 29680, Roscoff, France; Sorbonne Université, CNRS, FR2424, Plateforme de criblage KISSf (Kinase Inhibitor Specialized Screening Facility), Station Biologique de Roscoff, 29680, Roscoff, France
| | - Pierre Colas
- Sorbonne Université, CNRS, UMR8227, Integrative Biology of Marine Models Laboratory (LBI2M), Station Biologique de Roscoff, 29680, Roscoff, France
| | - Stéphane Bach
- Sorbonne Université, CNRS, UMR8227, Integrative Biology of Marine Models Laboratory (LBI2M), Station Biologique de Roscoff, 29680, Roscoff, France; Sorbonne Université, CNRS, FR2424, Plateforme de criblage KISSf (Kinase Inhibitor Specialized Screening Facility), Station Biologique de Roscoff, 29680, Roscoff, France
| | - Samir Messaoudi
- BioCIS, Equipe Labellisée Ligue Contre le Cancer, Univ. Paris-Sud, CNRS, University Paris-Saclay, F-92290, Châtenay Malabry, France
| | - Mouad Alami
- BioCIS, Equipe Labellisée Ligue Contre le Cancer, Univ. Paris-Sud, CNRS, University Paris-Saclay, F-92290, Châtenay Malabry, France.
| | - Abdallah Hamze
- BioCIS, Equipe Labellisée Ligue Contre le Cancer, Univ. Paris-Sud, CNRS, University Paris-Saclay, F-92290, Châtenay Malabry, France.
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30
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Ito Y, Yamamoto K, Hari Y. Construction of Pyrimidine Bases Bearing Carboxylic Acid Equivalents at the C5 Position by Postsynthetic Modification of Oligonucleotides. ACTA ACUST UNITED AC 2020; 78:e91. [PMID: 31529781 DOI: 10.1002/cpnc.91] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Abstract
This unit describes postsynthetic modification of oligonucleotides (ONs) containing 2'-deoxy-5-trifluoromethyluridine and 2'-deoxy-5-trifluoromethylcytidine. In ONs, the trifluoromethyl group at the C5 position of pyrimidine bases is converted into a variety of carboxylic acid equivalents using alkaline and amine solutions. In addition, treating fully protected and controlled pore glass (CPG)-attached ONs with methylamine and sodium hydroxide aqueous solution results in deprotection of all protecting groups (except the 4,4'-dimethoxytrityl group), cleavage from CPG, and simultaneous conversion of the trifluoromethyl group to afford the corresponding ONs containing 5-substituted pyrimidine bases. © 2019 by John Wiley & Sons, Inc.
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Affiliation(s)
- Yuta Ito
- Faculty of Pharmaceutical Sciences, Tokushima Bunri University, Nishihama, Yamashiro-cho, Tokushima, Japan
| | - Kazuki Yamamoto
- Faculty of Pharmaceutical Sciences, Tokushima Bunri University, Nishihama, Yamashiro-cho, Tokushima, Japan
| | - Yoshiyuki Hari
- Faculty of Pharmaceutical Sciences, Tokushima Bunri University, Nishihama, Yamashiro-cho, Tokushima, Japan
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31
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Zhu M, Alami M, Messaoudi S. Electrochemical nickel-catalyzed Migita cross-coupling of 1-thiosugars with aryl, alkenyl and alkynyl bromides. Chem Commun (Camb) 2020; 56:4464-4467. [DOI: 10.1039/d0cc01126f] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
An efficient electrochemical route towards the synthesis of thioglycosides is reported. This approach involves a S–C cross-coupling from protected and unprotected thiosugars with aryl bromides under base free conditions.
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Affiliation(s)
- Mingxiang Zhu
- BioCIS
- Univ. Paris-Sud
- CNRS
- University Paris-Saclay
- Châtenay-Malabry
| | - Mouad Alami
- BioCIS
- Univ. Paris-Sud
- CNRS
- University Paris-Saclay
- Châtenay-Malabry
| | - Samir Messaoudi
- BioCIS
- Univ. Paris-Sud
- CNRS
- University Paris-Saclay
- Châtenay-Malabry
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32
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Ivancová I, Leone DL, Hocek M. Reactive modifications of DNA nucleobases for labelling, bioconjugations, and cross-linking. Curr Opin Chem Biol 2019; 52:136-144. [DOI: 10.1016/j.cbpa.2019.07.007] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2019] [Revised: 06/26/2019] [Accepted: 07/18/2019] [Indexed: 12/20/2022]
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Verdelet T, Benmahdjoub S, Benmerad B, Alami M, Messaoudi S. Copper-Catalyzed Anomeric O-Arylation of Carbohydrate Derivatives at Room Temperature. J Org Chem 2019; 84:9226-9238. [PMID: 31274301 DOI: 10.1021/acs.joc.9b01218] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Abstract
Direct and practical anomeric O-arylation of sugar lactols with substituted arylboronic acids has been established. Using copper catalysis at room temperature under an air atmosphere, the protocol proved to be general, and a variety of aryl O-glycosides have been prepared in good to excellent yields. Furthermore, this approach was extended successfully to unprotected carbohydrates, including α-mannose, and it was demonstrated here how the interaction between carbohydrates and boronic acids can be combined with copper catalysis to achieve selective anomeric O-arylation.
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Affiliation(s)
- Tristan Verdelet
- BioCIS , Univ. Paris-Sud, CNRS, University Paris-Saclay , 92290 Châtenay-Malabry , France
| | - Sara Benmahdjoub
- Laboratoire de Physico-Chimie des Matériaux et Catalyse, Faculté des Sciences Exactes , Université de Bejaia , 06000 Bejaia , Algeria
| | - Belkacem Benmerad
- Laboratoire de Physico-Chimie des Matériaux et Catalyse, Faculté des Sciences Exactes , Université de Bejaia , 06000 Bejaia , Algeria
| | - Mouad Alami
- BioCIS , Univ. Paris-Sud, CNRS, University Paris-Saclay , 92290 Châtenay-Malabry , France
| | - Samir Messaoudi
- BioCIS , Univ. Paris-Sud, CNRS, University Paris-Saclay , 92290 Châtenay-Malabry , France
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35
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Zhu M, Dagousset G, Alami M, Magnier E, Messaoudi S. Ni/Photoredox-Dual-Catalyzed Functionalization of 1-Thiosugars. Org Lett 2019; 21:5132-5137. [DOI: 10.1021/acs.orglett.9b01730] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Mingxiang Zhu
- BioCIS, Université Paris-Sud, CNRS, University Paris-Saclay, Châtenay-Malabry, France
| | - Guillaume Dagousset
- Institut Lavoisier de Versailles, UMR 8180, Université de Versailles Saint-Quentin, 78035 Cedex Versailles, France
| | - Mouad Alami
- BioCIS, Université Paris-Sud, CNRS, University Paris-Saclay, Châtenay-Malabry, France
| | - Emmanuel Magnier
- Institut Lavoisier de Versailles, UMR 8180, Université de Versailles Saint-Quentin, 78035 Cedex Versailles, France
| | - Samir Messaoudi
- BioCIS, Université Paris-Sud, CNRS, University Paris-Saclay, Châtenay-Malabry, France
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36
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Noikham M, Yotphan S. Copper-Catalyzed Regioselective Direct C-H Thiolation and Thiocyanation of Uracils. European J Org Chem 2019. [DOI: 10.1002/ejoc.201900343] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Affiliation(s)
- Medena Noikham
- Center of Excellence for Innovation in Chemistry (PERCH-CIC); Department of Chemistry, Faculty of Science; Mahidol University; Rama VI Road 10400 Bangkok Thailand
| | - Sirilata Yotphan
- Center of Excellence for Innovation in Chemistry (PERCH-CIC); Department of Chemistry, Faculty of Science; Mahidol University; Rama VI Road 10400 Bangkok Thailand
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37
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Zhang C, Vinogradova EV, Spokoyny AM, Buchwald SL, Pentelute BL. Arylation Chemistry for Bioconjugation. Angew Chem Int Ed Engl 2019; 58:4810-4839. [PMID: 30399206 PMCID: PMC6433541 DOI: 10.1002/anie.201806009] [Citation(s) in RCA: 156] [Impact Index Per Article: 31.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2018] [Indexed: 12/20/2022]
Abstract
Bioconjugation chemistry has been used to prepare modified biomolecules with functions beyond what nature intended. Central to these techniques is the development of highly efficient and selective bioconjugation reactions that operate under mild, biomolecule compatible conditions. Methods that form a nucleophile-sp2 carbon bond show promise for creating bioconjugates with new modifications, sometimes resulting in molecules with unparalleled functions. Here we outline and review sulfur, nitrogen, selenium, oxygen, and carbon arylative bioconjugation strategies and their applications to modify peptides, proteins, sugars, and nucleic acids.
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Affiliation(s)
- Chi Zhang
- Dr. C. Zhang, Dr. E. V. Vinogradova, Prof. Dr. A. M. Spokoyny, Prof. Dr. S. L. Buchwald, Prof. Dr. B. L. Pentelute, Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA, ,
| | - Ekaterina V. Vinogradova
- Dr. C. Zhang, Dr. E. V. Vinogradova, Prof. Dr. A. M. Spokoyny, Prof. Dr. S. L. Buchwald, Prof. Dr. B. L. Pentelute, Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA, ,
- Dr. E. V. Vinogradova, The Skaggs Institute for Chemical Biology and Department of Molecular Medicine, The Scripps Research Institute, La Jolla, CA 92037, USA
| | - Alexander M. Spokoyny
- Dr. C. Zhang, Dr. E. V. Vinogradova, Prof. Dr. A. M. Spokoyny, Prof. Dr. S. L. Buchwald, Prof. Dr. B. L. Pentelute, Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA, ,
- Prof. Dr. A. M. Spokoyny, Department of Chemistry and Biochemistry, University of California, Los Angeles, 607 Charles E. Young Drive East, Los Angeles, CA 90095, USA
| | - Stephen L. Buchwald
- Dr. C. Zhang, Dr. E. V. Vinogradova, Prof. Dr. A. M. Spokoyny, Prof. Dr. S. L. Buchwald, Prof. Dr. B. L. Pentelute, Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA, ,
| | - Bradley L. Pentelute
- Dr. C. Zhang, Dr. E. V. Vinogradova, Prof. Dr. A. M. Spokoyny, Prof. Dr. S. L. Buchwald, Prof. Dr. B. L. Pentelute, Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA, ,
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Zhang C, Vinogradova EV, Spokoyny AM, Buchwald SL, Pentelute BL. Arylierungschemie für die Biokonjugation. Angew Chem Int Ed Engl 2019. [DOI: 10.1002/ange.201806009] [Citation(s) in RCA: 30] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Affiliation(s)
- Chi Zhang
- Department of ChemistryMassachusetts Institute of Technology 77 Massachusetts Avenue Cambridge MA 02139 USA
| | - Ekaterina V. Vinogradova
- Department of ChemistryMassachusetts Institute of Technology 77 Massachusetts Avenue Cambridge MA 02139 USA
- The Skaggs Institute for Chemical Biology and Department of Molecular MedicineThe Scripps Research Institute La Jolla CA 92037 USA
| | - Alexander M. Spokoyny
- Department of ChemistryMassachusetts Institute of Technology 77 Massachusetts Avenue Cambridge MA 02139 USA
- Department of Chemistry and BiochemistryUniversity of California, Los Angeles 607 Charles E. Young Drive East Los Angeles CA 90095 USA
| | - Stephen L. Buchwald
- Department of ChemistryMassachusetts Institute of Technology 77 Massachusetts Avenue Cambridge MA 02139 USA
| | - Bradley L. Pentelute
- Department of ChemistryMassachusetts Institute of Technology 77 Massachusetts Avenue Cambridge MA 02139 USA
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39
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Ito Y, Matsuo M, Yamamoto K, Yamashita W, Osawa T, Hari Y. Post-synthetic modification of oligonucleotides containing 5-trifluoromethylpyrimidine bases. Tetrahedron 2018. [DOI: 10.1016/j.tet.2018.10.006] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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40
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Ibrahim N, Alami M, Messaoudi S. Recent Advances in Transition-Metal-Catalyzed Functionalization of 1-Thiosugars. ASIAN J ORG CHEM 2018. [DOI: 10.1002/ajoc.201800449] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Nada Ibrahim
- BioCIS, Univ. Paris-Sud; CNRS; University Paris-Saclay; 92290 Châtenay-Malabry France
| | - Mouad Alami
- BioCIS, Univ. Paris-Sud; CNRS; University Paris-Saclay; 92290 Châtenay-Malabry France
| | - Samir Messaoudi
- BioCIS, Univ. Paris-Sud; CNRS; University Paris-Saclay; 92290 Châtenay-Malabry France
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41
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Ruff Y, Berst F. Efficient copper-catalyzed amination of DNA-conjugated aryl iodides under mild aqueous conditions. MEDCHEMCOMM 2018; 9:1188-1193. [PMID: 30109007 PMCID: PMC6072498 DOI: 10.1039/c8md00185e] [Citation(s) in RCA: 41] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/04/2018] [Accepted: 05/17/2018] [Indexed: 12/19/2022]
Abstract
Herein, we describe the development of copper-catalyzed cross-coupling of DNA-conjugated aryl iodides with aliphatic amines. This protocol leverages a novel ligand, 2-((2,6-dimethoxyphenyl)amino)-2-oxoacetic acid, to effect the transformation in aqueous DMSO, under mild conditions and in air, making it an ideal candidate for the synthesis of DNA-encoded libraries.
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Affiliation(s)
- Yves Ruff
- Novartis Institutes for BioMedical Research , Novartis Pharma AG , Novartis Campus , 4002 Basel , Switzerland .
| | - Frédéric Berst
- Novartis Institutes for BioMedical Research , Novartis Pharma AG , Novartis Campus , 4002 Basel , Switzerland .
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42
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Benmahdjoub S, Ibrahim N, Benmerad B, Alami M, Messaoudi S. One-Pot Assembly of Unsymmetrical Biaryl Thioglycosides through Chemoselective Palladium-Catalyzed Three-Component Tandem Reaction. Org Lett 2018; 20:4067-4071. [DOI: 10.1021/acs.orglett.8b01624] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Sara Benmahdjoub
- BioCIS, Univ. Paris-Sud, CNRS, University Paris-Saclay, Châtenay-Malabry, France
- Laboratoire de Physico-Chimie des Matériaux et Catalyse, Faculté des Sciences Exactes, Université de Bejaia, 06000 Bejaia, Algeria
| | - Nada Ibrahim
- BioCIS, Univ. Paris-Sud, CNRS, University Paris-Saclay, Châtenay-Malabry, France
| | - Belkacem Benmerad
- Laboratoire de Physico-Chimie des Matériaux et Catalyse, Faculté des Sciences Exactes, Université de Bejaia, 06000 Bejaia, Algeria
| | - Mouad Alami
- BioCIS, Univ. Paris-Sud, CNRS, University Paris-Saclay, Châtenay-Malabry, France
| | - Samir Messaoudi
- BioCIS, Univ. Paris-Sud, CNRS, University Paris-Saclay, Châtenay-Malabry, France
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43
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Redjdal W, Ibrahim N, Benmerad B, Alami M, Messaoudi S. Convergent Synthesis of N,S-bis Glycosylquinolin-2-ones via a Pd-G3-XantPhos Precatalyst Catalysis. Molecules 2018; 23:molecules23030519. [PMID: 29495402 PMCID: PMC6017768 DOI: 10.3390/molecules23030519] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2018] [Revised: 02/08/2018] [Accepted: 02/10/2018] [Indexed: 11/20/2022] Open
Abstract
Buchwald-Hartwig-Migita cross-coupling of 1-thiosugars with α- or β-3-iodo-N-glycosylquinolin-2-ones has been accomplished under mild and operationally simple reaction conditions through the use of a Pd-G3 XantPhos palladacycle precatalyst. This new methodology has been successfully applied to a variety of α- or β-mono-, di-, and poly-thiosugar derivatives to efficiently synthesize a series of α- or β-N,S-bis-glycosyl quinolin-2-ones, which are difficult to synthesize by classical methods.
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Affiliation(s)
- Wafa Redjdal
- Laboratoire de Physico-Chimie des Matériaux et Catalyse, Faculté des Sciences Exactes, Université de Bejaia, 0600 Bejaia, Algeria.
| | - Nada Ibrahim
- BioCIS, Université Paris-Sud, CNRS, University Paris-Saclay, Châtenay-Malabry 92296, France.
| | - Belkacem Benmerad
- Laboratoire de Physico-Chimie des Matériaux et Catalyse, Faculté des Sciences Exactes, Université de Bejaia, 0600 Bejaia, Algeria.
| | - Mouad Alami
- BioCIS, Université Paris-Sud, CNRS, University Paris-Saclay, Châtenay-Malabry 92296, France.
| | - Samir Messaoudi
- BioCIS, Université Paris-Sud, CNRS, University Paris-Saclay, Châtenay-Malabry 92296, France.
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