1
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Svatunek D. Computational Organic Chemistry: The Frontier for Understanding and Designing Bioorthogonal Cycloadditions. Top Curr Chem (Cham) 2024; 382:17. [PMID: 38727989 PMCID: PMC11087259 DOI: 10.1007/s41061-024-00461-0] [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: 11/08/2023] [Accepted: 04/06/2024] [Indexed: 05/13/2024]
Abstract
Computational organic chemistry has become a valuable tool in the field of bioorthogonal chemistry, offering insights and aiding in the progression of this branch of chemistry. In this review, I present an overview of computational work in this field, including an exploration of both the primary computational analysis methods used and their application in the main areas of bioorthogonal chemistry: (3 + 2) and [4 + 2] cycloadditions. In the context of (3 + 2) cycloadditions, detailed studies of electronic effects have informed the evolution of cycloalkyne/1,3-dipole cycloadditions. Through computational techniques, researchers have found ways to adjust the electronic structure via hyperconjugation to enhance reactions without compromising stability. For [4 + 2] cycloadditions, methods such as distortion/interaction analysis and energy decomposition analysis have been beneficial, leading to the development of bioorthogonal reactants with improved reactivity and the creation of orthogonal reaction pairs. To conclude, I touch upon the emerging fields of cheminformatics and machine learning, which promise to play a role in future reaction discovery and optimization.
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Affiliation(s)
- Dennis Svatunek
- Institute of Applied Synthetic Chemistry, Technische Universität Wien (TU Wien), Getreidemarkt 9, 1060, Vienna, Austria.
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2
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Levandowski BJ, Abularrage NS, Graham BJ, Raines RT. Computational study of an oxetane 4 H-pyrazole as a Diels-Alder diene. Tetrahedron Lett 2023; 130:154768. [PMID: 37860707 PMCID: PMC10584014 DOI: 10.1016/j.tetlet.2023.154768] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2023]
Abstract
We combine the effects of spirocyclization and hyperconjugation to increase the Diels-Alder reactivity of the 4H-pyrazole scaffold. A density functional theory (DFT) investigation predicts that 4H-pyrazoles containing an oxetane functionality at the saturated center are extremely reactive despite having a relatively high-lying lowest unoccupied molecular orbital (LUMO) energy.
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Affiliation(s)
- Brian J. Levandowski
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139-4307, USA
| | - Nile S. Abularrage
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139-4307, USA
| | - Brian J. Graham
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139-4307, USA
| | - Ronald T. Raines
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139-4307, USA
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3
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Bristiel A, Cadinot M, Pizzonero M, Taran F, Urban D, Guignard R, Guianvarc'h D. 2'-Modified Thymidines with Bioorthogonal Cyclopropene or Sydnone as Building Blocks for Copper-Free Postsynthetic Functionalization of Chemically Synthesized Oligonucleotides. Bioconjug Chem 2023; 34:1613-1621. [PMID: 37669427 DOI: 10.1021/acs.bioconjchem.3c00284] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/07/2023]
Abstract
The development of facile methods for conjugating relevant probes, ligands, or delivery agents onto oligonucleotides (ONs) is highly desirable both for fundamental studies in chemical biology and for improving the pharmacology of ONs in medicinal chemistry. Numerous efforts have been focused on the introduction of bioorthogonal groups onto phosphoramidite building blocks, allowing the controlled chemical synthesis of reactive ONs for postsynthetic modifications. Among these building blocks, alkyne, cyclooctynes, trans-cyclooctene, and norbornene have been proved to be compatible with automated solid-phase chemistry. Herein, we present the development of novel 2'-functionalized nucleoside phosphoramidite monomers comprising bioorthogonal methylcyclopropene or sydnone moieties and their introduction for the first time to ON solid-phase synthesis. Traceless ON postsynthetic modifications with reactive complementary probes were successfully achieved through either inverse electron-demand Diels-Alder (iEDDA) reactions or strain-promoted sydnone-alkyne cycloaddition (SPSAC). These results expand the set of bioorthogonal phosphoramidite building blocks to generate ONs for postsynthetic labeling.
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Affiliation(s)
- Alexandra Bristiel
- Université Paris-Saclay, CNRS, Institut de Chimie Moléculaire et des Matériaux d'Orsay (ICMMO), UMR 8182, 91405, Orsay, France
- Unité Drug Design Small Molecules, Institut de Recherche et Développement Servier Paris-Saclay, 22 route 128, Gif-sur-Yvette 91190, France
| | - Manon Cadinot
- Unité Drug Design Small Molecules, Institut de Recherche et Développement Servier Paris-Saclay, 22 route 128, Gif-sur-Yvette 91190, France
| | - Mathieu Pizzonero
- Unité Drug Design Small Molecules, Institut de Recherche et Développement Servier Paris-Saclay, 22 route 128, Gif-sur-Yvette 91190, France
| | - Frédéric Taran
- CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SCBM, Université Paris-Saclay, Gif-sur-Yvette 91191, France
| | - Dominique Urban
- Université Paris-Saclay, CNRS, Institut de Chimie Moléculaire et des Matériaux d'Orsay (ICMMO), UMR 8182, 91405, Orsay, France
| | - Raphaël Guignard
- Unité Drug Design Small Molecules, Institut de Recherche et Développement Servier Paris-Saclay, 22 route 128, Gif-sur-Yvette 91190, France
| | - Dominique Guianvarc'h
- Université Paris-Saclay, CNRS, Institut de Chimie Moléculaire et des Matériaux d'Orsay (ICMMO), UMR 8182, 91405, Orsay, France
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4
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Xu W, Yu H, Zhao R, Liang Y. Investigation of mitochondrial targeting ability of sydnones and sydnonimines and mitochondria-targeted delivery of celecoxib. Bioorg Med Chem Lett 2023; 81:129129. [PMID: 36634752 DOI: 10.1016/j.bmcl.2023.129129] [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] [Received: 09/30/2022] [Revised: 11/24/2022] [Accepted: 01/08/2023] [Indexed: 01/11/2023]
Abstract
Mitochondria are considered to be a promising target in cancer diagnosis and therapeutics. Recently, sydnone and sydnonimine, as mesoionic bioorthogonal reagents, have been used in cell labeling and drug delivery. Here we investigated the mitochondrial targeting ability of sydnones and sydnonimines for the first time. Experimental results show that sydnone and sydnonimine themselves have high mitochondrial distribution. However, the introduction of a phenyl group into the C4 position of sydnone dramatically decreases the mitochondrial affinity. In addition, we took advantage of mitochondrial targeting ability and click-and-release reaction of sydnonimine to evaluate anticancer activities of in-mitochondria delivery of celecoxib against HeLa and HepG2 cells, indicating that celecoxib-induced cancer cell death may not involve mitochondria-related pathway.
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Affiliation(s)
- Wenyuan Xu
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, Chemistry and Biomedicine Innovation Center, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China
| | - Hongzhe Yu
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, Chemistry and Biomedicine Innovation Center, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China
| | - Ruohan Zhao
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, Chemistry and Biomedicine Innovation Center, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China
| | - Yong Liang
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, Chemistry and Biomedicine Innovation Center, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China.
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5
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Chinoy ZS, Friscourt F. Expanding the Strain‐Promoted 1,3‐Dipolar Cycloaddition Arsenal for a More Selective Bioorthogonal Labeling in Living Cells. Isr J Chem 2022. [DOI: 10.1002/ijch.202200055] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Zoeisha S. Chinoy
- Institut Européen de Chimie et Biologie Université de Bordeaux 2 rue Robert Escarpit 33607 Pessac France
- Institut des Sciences Moléculaires CNRS UMR5255 33405 Talence France
| | - Frédéric Friscourt
- Institut Européen de Chimie et Biologie Université de Bordeaux 2 rue Robert Escarpit 33607 Pessac France
- Institut des Sciences Moléculaires CNRS UMR5255 33405 Talence France
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6
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Shen X, Zhang C, Lan F, Su Z, Zheng Y, Zheng T, Xiong Q, Xie X, Du G, Zhao X, Hu C, Deng P, Yu Z. Dibenzo[
b
,
f
][1,4,5]chalcogenadiazepine Photoswitches: Conversion of Excitation Energy into Ring Strain. Angew Chem Int Ed Engl 2022; 61:e202209441. [DOI: 10.1002/anie.202209441] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2022] [Indexed: 11/07/2022]
Affiliation(s)
- Xin Shen
- Key Laboratory of Green Chemistry & Technology of Ministry of Education College of Chemistry Sichuan University 29 Wangjiang Road Chengdu 610064 P. R. China
| | - Cefei Zhang
- Key Laboratory of Green Chemistry & Technology of Ministry of Education College of Chemistry Sichuan University 29 Wangjiang Road Chengdu 610064 P. R. China
| | - Fengying Lan
- Key Laboratory of Green Chemistry & Technology of Ministry of Education College of Chemistry Sichuan University 29 Wangjiang Road Chengdu 610064 P. R. China
| | - Zhishan Su
- Key Laboratory of Green Chemistry & Technology of Ministry of Education College of Chemistry Sichuan University 29 Wangjiang Road Chengdu 610064 P. R. China
| | - Yuanqin Zheng
- Key Laboratory of Green Chemistry & Technology of Ministry of Education College of Chemistry Sichuan University 29 Wangjiang Road Chengdu 610064 P. R. China
| | - Tingting Zheng
- Key Laboratory of Green Chemistry & Technology of Ministry of Education College of Chemistry Sichuan University 29 Wangjiang Road Chengdu 610064 P. R. China
| | - Qin Xiong
- Key Laboratory of Green Chemistry & Technology of Ministry of Education College of Chemistry Sichuan University 29 Wangjiang Road Chengdu 610064 P. R. China
| | - Xinyu Xie
- Key Laboratory of Green Chemistry & Technology of Ministry of Education College of Chemistry Sichuan University 29 Wangjiang Road Chengdu 610064 P. R. China
| | - Guangxi Du
- Key Laboratory of Green Chemistry & Technology of Ministry of Education College of Chemistry Sichuan University 29 Wangjiang Road Chengdu 610064 P. R. China
| | - Xiaohu Zhao
- Key Laboratory of Green Chemistry & Technology of Ministry of Education College of Chemistry Sichuan University 29 Wangjiang Road Chengdu 610064 P. R. China
| | - Changwei Hu
- Key Laboratory of Green Chemistry & Technology of Ministry of Education College of Chemistry Sichuan University 29 Wangjiang Road Chengdu 610064 P. R. China
| | - Pengchi Deng
- Analytical & Testing Center Sichuan University 29 Wangjiang Road Chengdu 610064 P. R. China
| | - Zhipeng Yu
- Key Laboratory of Green Chemistry & Technology of Ministry of Education College of Chemistry Sichuan University 29 Wangjiang Road Chengdu 610064 P. R. China
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7
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Romero-Fernández MP, Cintas P, Rojas-Buzo S. Switchable Cycloadditions of Mesoionic Dipoles: Refreshing up a Regioselective Approach to Two Distinctive Heterocycles. J Org Chem 2022; 87:12854-12866. [PMID: 36103345 PMCID: PMC9552231 DOI: 10.1021/acs.joc.2c01444] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/04/2022]
Abstract
![]()
Mesoionic rings are
among the most versatile 1,3-dipoles, as witnessed
recently by their incorporation into bio-orthogonal strategies, and
capable of affording unconventional heterocycles beyond the expected
scope of Huisgen cycloadditions. Herein, we revisit in detail the
reactivity of thiazol-3-ium-4-olates with alkynes, leading to thiophene
and/or pyrid-2-one derivatives. A structural variation at the parent
mesoionic dipole alters sufficiently the steric outcome, thereby favoring
the regioselective formation of a single transient cycloadduct, which
undergoes chemoselective fragmentation to either five- or six-membered
heterocycles. The synthetic protocol benefits largely from microwave
(MW) activation, which enhances reaction rates. The mechanism has
been interrogated with the aid of density functional theory (DFT)
calculations, which sheds light into the origin of the regioselectivity
and points to a predictive formulation of reactivity involving competing
pathways of mesoionic cycloadditions.
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Affiliation(s)
- M. Pilar Romero-Fernández
- Department of Organic and Inorganic Chemistry, Faculty of Sciences, and IACYS-Green Chemistry and Sustainable Development Unit, University of Extremadura, 06006 Badajoz, Spain
| | - Pedro Cintas
- Department of Organic and Inorganic Chemistry, Faculty of Sciences, and IACYS-Green Chemistry and Sustainable Development Unit, University of Extremadura, 06006 Badajoz, Spain
| | - Sergio Rojas-Buzo
- Department of Organic and Inorganic Chemistry, Faculty of Sciences, and IACYS-Green Chemistry and Sustainable Development Unit, University of Extremadura, 06006 Badajoz, Spain
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8
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Shen X, Zhang C, Lan F, Su Z, Zheng Y, Zheng T, Xiong Q, Xie X, Du G, Zhao X, Hu C, Deng P, Yu Z. Dibenzo[b,f][1,4,5]chalcogenadiazepine Photoswitches: Conversion of Excitation Energy into Ring Strain. Angew Chem Int Ed Engl 2022. [DOI: 10.1002/ange.202209441] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Xin Shen
- Sichuan University Department of Chemistry 610000 Chengdu CHINA
| | - Cefei Zhang
- Sichuan University College of Chemistry CHINA
| | - Fengying Lan
- Sichuan University Department of Chemistry CHINA
| | - Zhishan Su
- Sichuan University College of Chemistry CHINA
| | | | | | - Qin Xiong
- Sichuan University Department of Chemistry CHINA
| | - Xinyu Xie
- Sichuan University Department of Chemistry CHINA
| | - Guangxi Du
- Sichuan University Department of Chemistry CHINA
| | - Xiaohu Zhao
- Sichuan University Department of Chemistry CHINA
| | - Changwei Hu
- Sichuan University College of Chemistry CHINA
| | - Pengchi Deng
- Sichuan University Analytical & Testing Center CHINA
| | - Zhipeng Yu
- Sichuan University - Wangjiang Campus: Sichuan University College of Chemistry College of Chemistry29 Wangjianglu, Jiuyanqiao 610064 Chengdu CHINA
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9
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Feng M, Madegard L, Riomet M, Louis M, Champagne PA, Pieters G, Audisio D, Taran F. Selective chlorination of iminosydnones for fast release of amide, sulfonamide and urea-containing drugs. Chem Commun (Camb) 2022; 58:8500-8503. [PMID: 35797662 DOI: 10.1039/d2cc02784d] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Herein, we describe a methodology for iminosydnone chlorination and we demonstrate the high beneficial effect of this modification on the reactivity of these mesoionic dipoles in strain-promoted cycloaddition reactions. Exploiting their reaction with cyclooctynes, we used these new iminosydnones for bioorthogonal release of amide, urea and sulfonamide containing drugs. Notably, drugs containing a terminal amide function were released for the first time with good kinetic constants.
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Affiliation(s)
- Minghao Feng
- CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), Université Paris Saclay, SCBM, 91191 Gif-sur-Yvette, France.
| | - Léa Madegard
- CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), Université Paris Saclay, SCBM, 91191 Gif-sur-Yvette, France.
| | - Margaux Riomet
- CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), Université Paris Saclay, SCBM, 91191 Gif-sur-Yvette, France.
| | - Manon Louis
- CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), Université Paris Saclay, SCBM, 91191 Gif-sur-Yvette, France.
| | - Pier Alexandre Champagne
- Department of Chemistry and Environmental Science, New Jersey Institute of Technology, Newark, NJ, 07102, USA
| | - Grégory Pieters
- CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), Université Paris Saclay, SCBM, 91191 Gif-sur-Yvette, France.
| | - Davide Audisio
- CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), Université Paris Saclay, SCBM, 91191 Gif-sur-Yvette, France.
| | - Frédéric Taran
- CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), Université Paris Saclay, SCBM, 91191 Gif-sur-Yvette, France.
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10
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Chinoy ZS, Moremen KW, Friscourt F. A Clickable Bioorthogonal Sydnone‐Aglycone for the Facile Preparation of a Core 1
O
‐Glycan‐Array. European J Org Chem 2022; 2022:e202200271. [PMID: 36035814 PMCID: PMC9401066 DOI: 10.1002/ejoc.202200271] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2022] [Revised: 04/13/2022] [Indexed: 11/12/2022]
Abstract
Protein‐O‐glycosylation has been shown to be essential for many biological processes. However, determining the exact relationship between O‐glycan structures and their biological activity remains challenging. Here we report that, unlike azides, sydnones can be incorporated as an aglycon into core 1 O‐glycans early‐on in their synthesis since it is compatible with carbohydrate chemistry and enzymatic glycosylations, allowing us to generate a small library of sydnone‐containing core 1 O‐glycans by chemoenzymatic synthesis. The sydnone‐aglycon was then employed for the facile preparation of an O‐glycan array, via bioorthogonal strain‐promoted sydnone‐alkyne cycloaddition click reaction, and in turn was utilized for the high‐throughput screening of O‐glycan‐lectin interactions. This sydnone‐aglycon, particularly adapted for O‐glycomics, is a valuable chemical tool that complements the limited technologies available for investigating O‐glycan structure‐activity relationships.
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Affiliation(s)
- Zoeisha S. Chinoy
- Institut Européen de Chimie et Biologie Université de Bordeaux 2 rue Robert Escarpit 33607 Pessac France
- Institut des Sciences Moléculaires CNRS UMR5255 33405 Talence France
| | - Kelley W. Moremen
- Department of Biochemistry and Molecular Biology University of Georgia Athens GA 30602 USA
- Complex Carbohydrate Research Center University of Georgia Athens GA 30602 USA
| | - Frédéric Friscourt
- Institut Européen de Chimie et Biologie Université de Bordeaux 2 rue Robert Escarpit 33607 Pessac France
- Institut des Sciences Moléculaires CNRS UMR5255 33405 Talence France
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11
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Chiavegatti Neto A, Soares KC, Santos MDS, Aímola TJ, Ferreira AG, Jardim GAM, Tormena CF, Paixão MW, Ferreira MAB. Mechanistic investigation of enolate/stabilized vinylogous carbanion-mediated organocatalytic azide (3 + 2) cycloaddition reactions for the synthesis of 1,2,3-triazoles. Org Biomol Chem 2022; 20:6019-6026. [PMID: 35411906 DOI: 10.1039/d2ob00391k] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Abstract
Herein, we report a fully detailed mechanistic study involving an organocatalyzed 1,3-dipolar cycloaddition via enolate or stabilized vinylogous carbanion intermediates and azide for the synthesis of 1,2,3-triazoles. A detailed investigation of the elementary steps, intermediates, and transition states of the two organocatalyzed metal-free click reactions is supported by DFT calculations and 1H NMR monitoring experiments, providing detailed profiles for both reaction mechanisms. Distortion-interaction activation-strain (DIAS) analysis was also employed to further elucidate the regioselectivity in both reactions.
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Affiliation(s)
- Attilio Chiavegatti Neto
- Department of Chemistry, Federal University of São Carlos - UFSCar, Rodovia Washington Luís, km 235, SP-310, São Carlos, São Paulo, Brazil, 13565-905.
| | - Kelly Cintra Soares
- Department of Chemistry, Federal University of São Carlos - UFSCar, Rodovia Washington Luís, km 235, SP-310, São Carlos, São Paulo, Brazil, 13565-905.
| | - Maiara da Silva Santos
- Department of Chemistry, Federal University of São Carlos - UFSCar, Rodovia Washington Luís, km 235, SP-310, São Carlos, São Paulo, Brazil, 13565-905.
| | - Túlio Jardini Aímola
- Department of Chemistry, Federal University of São Carlos - UFSCar, Rodovia Washington Luís, km 235, SP-310, São Carlos, São Paulo, Brazil, 13565-905.
| | - Antonio Gilberto Ferreira
- Department of Chemistry, Federal University of São Carlos - UFSCar, Rodovia Washington Luís, km 235, SP-310, São Carlos, São Paulo, Brazil, 13565-905.
| | - Guilherme A M Jardim
- Department of Chemistry, Federal University of São Carlos - UFSCar, Rodovia Washington Luís, km 235, SP-310, São Carlos, São Paulo, Brazil, 13565-905.
| | - Cláudio Francisco Tormena
- Institute of Chemistry, University of Campinas (UNICAMP), PO BOX 6154, Campinas, São Paulo CEP 13083-970, Brazil
| | - Márcio Weber Paixão
- Department of Chemistry, Federal University of São Carlos - UFSCar, Rodovia Washington Luís, km 235, SP-310, São Carlos, São Paulo, Brazil, 13565-905.
| | - Marco Antonio Barbosa Ferreira
- Department of Chemistry, Federal University of São Carlos - UFSCar, Rodovia Washington Luís, km 235, SP-310, São Carlos, São Paulo, Brazil, 13565-905.
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12
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Xu W, Shao Z, Tang C, Zhang C, Chen Y, Liang Y. Fluorogenic sydnonimine probes for orthogonal labeling. Org Biomol Chem 2022; 20:5953-5957. [PMID: 35311845 DOI: 10.1039/d2ob00159d] [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
A FRET-based fluorescence turn-on probe is designed, which employs a sydnonimine as the linker to match specific fluorophore and quencher pairs and releases the fluorescence after the "click-and-release" reaction. Furthermore, we realized selective fluorescence labeling by exploiting the mutual orthogonality between sydnonimine-DIBAC and tetrazine-1,3-Cp cycloaddition pairs.
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Affiliation(s)
- Wenyuan Xu
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, Chemistry and Biomedicine Innovation Center, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China.
| | - Zhuzhou Shao
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, Chemistry and Biomedicine Innovation Center, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China.
| | - Cheng Tang
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, Chemistry and Biomedicine Innovation Center, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China.
| | - Chun Zhang
- School of Pharmaceutical Sciences, Jiangnan University, Wuxi 214122, China.
| | - Yinghan Chen
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, Chemistry and Biomedicine Innovation Center, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China.
| | - Yong Liang
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, Chemistry and Biomedicine Innovation Center, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China.
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13
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Chen Y, Zhao R, Tang C, Zhang C, Xu W, Wu L, Wang Y, Ye D, Liang Y. Design and Development of a Bioorthogonal, Visualizable and Mitochondria‐Targeted Hydrogen Sulfide (H
2
S) Delivery System. Angew Chem Int Ed Engl 2022. [DOI: 10.1002/ange.202112734] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Yinghan Chen
- State Key Laboratory of Coordination Chemistry Jiangsu Key Laboratory of Advanced Organic Materials School of Chemistry and Chemical Engineering Chemistry and Biomedicine Innovation Center Nanjing University Nanjing 210023 China
| | - Ruohan Zhao
- State Key Laboratory of Coordination Chemistry Jiangsu Key Laboratory of Advanced Organic Materials School of Chemistry and Chemical Engineering Chemistry and Biomedicine Innovation Center Nanjing University Nanjing 210023 China
| | - Cheng Tang
- State Key Laboratory of Coordination Chemistry Jiangsu Key Laboratory of Advanced Organic Materials School of Chemistry and Chemical Engineering Chemistry and Biomedicine Innovation Center Nanjing University Nanjing 210023 China
| | - Chun Zhang
- State Key Laboratory of Coordination Chemistry Jiangsu Key Laboratory of Advanced Organic Materials School of Chemistry and Chemical Engineering Chemistry and Biomedicine Innovation Center Nanjing University Nanjing 210023 China
| | - Wenyuan Xu
- State Key Laboratory of Coordination Chemistry Jiangsu Key Laboratory of Advanced Organic Materials School of Chemistry and Chemical Engineering Chemistry and Biomedicine Innovation Center Nanjing University Nanjing 210023 China
| | - Luyan Wu
- State Key Laboratory of Analytical Chemistry for Life Science School of Chemistry and Chemical Engineering Chemistry and Biomedicine Innovation Center Nanjing University Nanjing 210023 China
| | - Yuqi Wang
- State Key Laboratory of Analytical Chemistry for Life Science School of Chemistry and Chemical Engineering Chemistry and Biomedicine Innovation Center Nanjing University Nanjing 210023 China
| | - Deju Ye
- State Key Laboratory of Analytical Chemistry for Life Science School of Chemistry and Chemical Engineering Chemistry and Biomedicine Innovation Center Nanjing University Nanjing 210023 China
| | - Yong Liang
- State Key Laboratory of Coordination Chemistry Jiangsu Key Laboratory of Advanced Organic Materials School of Chemistry and Chemical Engineering Chemistry and Biomedicine Innovation Center Nanjing University Nanjing 210023 China
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14
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Krell K, Pfeuffer B, Rönicke F, Chinoy ZS, Favre C, Friscourt F, Wagenknecht HA. Fast and Efficient Postsynthetic DNA Labeling in Cells by Means of Strain-Promoted Sydnone-Alkyne Cycloadditions. Chemistry 2021; 27:16093-16097. [PMID: 34633713 PMCID: PMC9297951 DOI: 10.1002/chem.202103026] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2021] [Indexed: 12/16/2022]
Abstract
Sydnones are highly stable mesoionic 1,3‐dipoles that react with cyclooctynes through strain‐promoted sydnone‐alkyne cycloaddition (SPSAC). Although sydnones have been shown to be valuable bioorthogonal chemical reporters for the labeling of proteins and complex glycans, nucleic acids have not yet been tagged by SPSAC. Evaluation of SPSAC kinetics with model substrates showed fast reactions with cyclooctyne probes (up to k=0.59 M−1 s−1), and two different sydnones were effectively incorporated into both 2’‐deoxyuridines at position 5, and 7‐deaza‐2’‐deoxyadenosines at position 7. These modified nucleosides were synthetically incorporated into single‐stranded DNAs, which were successfully postsynthetically labeled with cyclooctyne probes both in vitro and in cells. These results show that sydnones are versatile bioorthogonal tags and have the premise to become essential tools for tracking DNA and potentially RNA in living cells.
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Affiliation(s)
- Katja Krell
- Institute of Organic Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, 76131, Karlsruhe, Germany
| | - Bastian Pfeuffer
- Institute of Organic Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, 76131, Karlsruhe, Germany
| | - Franziska Rönicke
- Institute of Organic Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, 76131, Karlsruhe, Germany
| | - Zoeisha S Chinoy
- Institut Européen de Chimie et Biologie and ISM CNRS UMR5255, Université de Bordeaux, 2 Rue Robert Escarpit, 33607, Pessac, France
| | - Camille Favre
- Institut Européen de Chimie et Biologie and ISM CNRS UMR5255, Université de Bordeaux, 2 Rue Robert Escarpit, 33607, Pessac, France
| | - Frédéric Friscourt
- Institut Européen de Chimie et Biologie and ISM CNRS UMR5255, Université de Bordeaux, 2 Rue Robert Escarpit, 33607, Pessac, France
| | - Hans-Achim Wagenknecht
- Institute of Organic Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, 76131, Karlsruhe, Germany
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15
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Chen Y, Zhao R, Tang C, Zhang C, Xu W, Wu L, Wang Y, Ye D, Liang Y. Design and Development of a Bioorthogonal, Visualizable and Mitochondria-Targeted Hydrogen Sulfide (H 2 S) Delivery System. Angew Chem Int Ed Engl 2021; 61:e202112734. [PMID: 34806810 DOI: 10.1002/anie.202112734] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2021] [Indexed: 12/27/2022]
Abstract
Hydrogen sulfide (H2 S) is an important endogenous gasotransmitter, but the targeted delivery and real-time feedback of exogenous H2 S are still challenging. With the aid of density functional theory (DFT) calculations, we designed a new 1,3-dithiolium-4-olate (DTO) compound, which can react with a strained alkyne via the 1,3-dipolar cycloaddition and the retro-Diels-Alder reaction to generate carbonyl sulfide (COS) as the precursor of H2 S, and a thiophene derivative with turn-on fluorescence. Moreover, the diphenylamino substituent in DTO greatly increases the mitochondrial targeting of this H2 S delivery system. Such a bioorthogonal click-and-release reaction has integrated three functions in one system for the first time: (1) in situ controllable H2 S release, (2) concomitant fluorescence response, and (3) mitochondria-targeted delivery. In addition, we investigated the mitochondrial membrane potential loss alleviation by using this system in H9c2 cells under oxidative stress.
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Affiliation(s)
- Yinghan Chen
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, School of Chemistry and Chemical Engineering, Chemistry and Biomedicine Innovation Center, Nanjing University, Nanjing, 210023, China
| | - Ruohan Zhao
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, School of Chemistry and Chemical Engineering, Chemistry and Biomedicine Innovation Center, Nanjing University, Nanjing, 210023, China
| | - Cheng Tang
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, School of Chemistry and Chemical Engineering, Chemistry and Biomedicine Innovation Center, Nanjing University, Nanjing, 210023, China
| | - Chun Zhang
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, School of Chemistry and Chemical Engineering, Chemistry and Biomedicine Innovation Center, Nanjing University, Nanjing, 210023, China
| | - Wenyuan Xu
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, School of Chemistry and Chemical Engineering, Chemistry and Biomedicine Innovation Center, Nanjing University, Nanjing, 210023, China
| | - Luyan Wu
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Chemistry and Biomedicine Innovation Center, Nanjing University, Nanjing, 210023, China
| | - Yuqi Wang
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Chemistry and Biomedicine Innovation Center, Nanjing University, Nanjing, 210023, China
| | - Deju Ye
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Chemistry and Biomedicine Innovation Center, Nanjing University, Nanjing, 210023, China
| | - Yong Liang
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, School of Chemistry and Chemical Engineering, Chemistry and Biomedicine Innovation Center, Nanjing University, Nanjing, 210023, China
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16
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Narayanam MK, Lai BT, Loredo JM, Wilson JA, Eliasen AM, LaBerge NA, Nason M, Cantu AL, Luton BK, Xu S, Agnew HD, Murphy JM. Positron Emission Tomography Tracer Design of Targeted Synthetic Peptides via 18F-Sydnone Alkyne Cycloaddition. Bioconjug Chem 2021; 32:2073-2082. [PMID: 34415731 DOI: 10.1021/acs.bioconjchem.1c00379] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
Chemically synthesized, small peptides that bind with high affinity and specificity to CD8-expressing (CD8+) tumor-infiltrating T cells, yet retain the desirable characteristics of small molecules, hold valuable potential for diagnostic molecular imaging of immune response. Here, we report the development of 18F-labeled peptides targeting human CD8α with nanomolar affinity via the strain-promoted sydnone-alkyne cycloaddition with 4-[18F]fluorophenyl sydnone. The 18F-sydnone is produced in one step, in high radiochemical yield, and the peptide labeling proceeds rapidly. A hydrophilic chemical linker results in a tracer with favorable pharmacokinetic properties and improved image contrast, as demonstrated by in vivo PET imaging studies.
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Affiliation(s)
- Maruthi Kumar Narayanam
- Department of Molecular and Medical Pharmacology and Crump Institute for Molecular Imaging, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California 90095, United States
| | - Bert T Lai
- Indi Molecular, Inc., 6162 Bristol Parkway, Culver City, California 90230, United States
| | - Jacquie Malette Loredo
- Indi Molecular, Inc., 6162 Bristol Parkway, Culver City, California 90230, United States
| | - Jeré A Wilson
- Indi Molecular, Inc., 6162 Bristol Parkway, Culver City, California 90230, United States
| | - Anders M Eliasen
- Indi Molecular, Inc., 6162 Bristol Parkway, Culver City, California 90230, United States
| | - Nicole A LaBerge
- Indi Molecular, Inc., 6162 Bristol Parkway, Culver City, California 90230, United States
| | - Malley Nason
- Indi Molecular, Inc., 6162 Bristol Parkway, Culver City, California 90230, United States
| | - Annabelle L Cantu
- Indi Molecular, Inc., 6162 Bristol Parkway, Culver City, California 90230, United States
| | - Breanna K Luton
- Indi Molecular, Inc., 6162 Bristol Parkway, Culver City, California 90230, United States
| | - Shili Xu
- Department of Molecular and Medical Pharmacology and Crump Institute for Molecular Imaging, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California 90095, United States
| | - Heather D Agnew
- Indi Molecular, Inc., 6162 Bristol Parkway, Culver City, California 90230, United States
| | - Jennifer M Murphy
- Department of Molecular and Medical Pharmacology and Crump Institute for Molecular Imaging, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California 90095, United States
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17
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Mummel S, Lederle F, Hübner EG, Namyslo JC, Nieger M, Schmidt A. Sydnone Methides-A Forgotten Class of Mesoionic Compounds for the Generation of Anionic N-Heterocyclic Carbenes. Angew Chem Int Ed Engl 2021; 60:18882-18887. [PMID: 34153173 PMCID: PMC8456854 DOI: 10.1002/anie.202107495] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2021] [Indexed: 12/25/2022]
Abstract
Sydnone methides are described from which only one single example has been mentioned in the literature so far. Their deprotonation gave anions which can be formulated as π-electron rich anionic N-heterocyclic carbenes. Sulfur and selenium adducts were stabilized as their methyl ethers, and mercury, gold as well as rhodium complexes of the sydnone methide carbenes were prepared. Sydnone methide anions also undergo C-C coupling reactions with 1-fluoro-4-iodobenzene under Pd(PPh3 )4 and CuBr catalysis. 77 Se NMR resonance frequencies and 1 JC4-Se as well as 1 JC4-H coupling constants have been determined to gain knowledge about the electronic properties of the anionic N-heterocyclic carbenes. The carbene carbon atom of the sydnone methide anion 3 j resonates at δ=155.2 ppm in 13 C NMR spectroscopy at -40 °C which is extremely shifted upfield in comparison to classical N-heterocyclic carbenes.
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Affiliation(s)
- Sebastian Mummel
- Clausthal University of TechnologyInstitute of Organic ChemistryLeibnizstrasse 6D-38678Clausthal-ZellerfeldGermany
| | - Felix Lederle
- Clausthal University of TechnologyInstitute of Organic ChemistryLeibnizstrasse 6D-38678Clausthal-ZellerfeldGermany
- Fraunhofer Heinrich Hertz Institute HHIFiber Optical Sensor SystemsAm Stollen 19HD-38640GoslarGermany
| | - Eike G. Hübner
- Clausthal University of TechnologyInstitute of Organic ChemistryLeibnizstrasse 6D-38678Clausthal-ZellerfeldGermany
- Fraunhofer Heinrich Hertz Institute HHIFiber Optical Sensor SystemsAm Stollen 19HD-38640GoslarGermany
| | - Jan C. Namyslo
- Clausthal University of TechnologyInstitute of Organic ChemistryLeibnizstrasse 6D-38678Clausthal-ZellerfeldGermany
| | - Martin Nieger
- University of HelsinkiDepartment of ChemistryP.O. Box 55FIN-00014HelsinkiFinland
| | - Andreas Schmidt
- Clausthal University of TechnologyInstitute of Organic ChemistryLeibnizstrasse 6D-38678Clausthal-ZellerfeldGermany
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18
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Mummel S, Lederle F, Hübner EG, Namyslo JC, Nieger M, Schmidt A. Sydnonmethide – fast vergessene Mesoionen als Vorläufermoleküle von anionischen N‐heterocyclischen Carbenen. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202107495] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
Affiliation(s)
- Sebastian Mummel
- Technische Universität Clausthal Institut für Organische Chemie Leibnizstrasse 6 38678 Clausthal-Zellerfeld Deutschland
| | - Felix Lederle
- Technische Universität Clausthal Institut für Organische Chemie Leibnizstrasse 6 38678 Clausthal-Zellerfeld Deutschland
- Fraunhofer Heinrich-Hertz-Institut HHI Faseroptische Sensorsysteme Am Stollen 19H 38640 Goslar Deutschland
| | - Eike G. Hübner
- Technische Universität Clausthal Institut für Organische Chemie Leibnizstrasse 6 38678 Clausthal-Zellerfeld Deutschland
- Fraunhofer Heinrich-Hertz-Institut HHI Faseroptische Sensorsysteme Am Stollen 19H 38640 Goslar Deutschland
| | - Jan C. Namyslo
- Technische Universität Clausthal Institut für Organische Chemie Leibnizstrasse 6 38678 Clausthal-Zellerfeld Deutschland
| | - Martin Nieger
- Universität Helsinki Department für Chemie P.O. Box 55 00014 Helsinki Finnland
| | - Andreas Schmidt
- Technische Universität Clausthal Institut für Organische Chemie Leibnizstrasse 6 38678 Clausthal-Zellerfeld Deutschland
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19
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Hu Y, Schomaker JM. Recent Developments and Strategies for Mutually Orthogonal Bioorthogonal Reactions. Chembiochem 2021; 22:3254-3262. [PMID: 34261195 DOI: 10.1002/cbic.202100164] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2021] [Revised: 07/12/2021] [Indexed: 12/23/2022]
Abstract
Over the past decade, several different metal-free bioorthogonal reactions have been developed to enable simultaneous double-click labeling with minimal-to-no competing cross-reactivities; such transformations are termed 'mutually orthogonal'. More recently, several examples of successful triple ligation strategies have also been described. In this minireview, we discuss selected aspects of the development of orthogonal bioorthogonal reactions over the past decade, including general strategies to drive future innovations to achieve simultaneous, mutually orthogonal click reactions in one pot.
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Affiliation(s)
- Yun Hu
- Department of Chemistry, University of Wisconsin-Madison, 1101 University Avenue, Madison, WI, 53706, USA
| | - Jennifer M Schomaker
- Department of Chemistry, University of Wisconsin-Madison, 1101 University Avenue, Madison, WI, 53706, USA
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20
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Wu X, Deng J, Guo G, Zheng Y, Xiong Q, Zheng T, Zhao X, Yu Z. Spatiotemporal Resolved Live Cell Membrane Tracking through Photo-click Reactions Enriched in Lipid Phase. Chemistry 2021; 27:11957-11965. [PMID: 34057766 DOI: 10.1002/chem.202101653] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2021] [Indexed: 01/04/2023]
Abstract
A set of photo-switchable monopeptides derived from cis-β-dibenzodiazocine-l-alanine (cis-DBDAA) have been designed and synthesized, which are capable of photo-click reacting with diaryltetrazoles or diarylsydnones in a hydrophobic phospholipid bilayer environment. The DBDAA monopeptides include both a hydrophobic tail on C-terminal, providing high affinity toward lipid membrane, and a modularized functional moiety on N-terminal, enabling rapid optimization of the self-assembly strength to form multifunctional supramolecules. With the cis-DBDAA monopeptides photo-switched into trans-configuration, we were able to disrupt the supramolecular assembly through an efficient photo-click reaction across the lipid bilayer of liposomes. We reveal that the performance of the photo-click reactions between the monopeptides and photo-generated nitrile imine intermediates is significantly enhanced by enrichment of both reactants in the hydrophobic membrane lamel of liposomes. Enrichment of the DBDAA monopeptide in lipid phase serves as a convenient method to introduce bioorthogonal chemical handles on live cell membranes, which enables fluorescence labelling of single cell's membrane with high spatiotemporal resolution to facilitate the studies on cell membrane dynamics.
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Affiliation(s)
- Xueting Wu
- Key Laboratory of Green Chemistry and Technology of Ministry of Education, College of Chemistry, Sichuan University, 29 Wangjiang Road, Chengdu, 610064, P. R. China
| | - Jiajie Deng
- Key Laboratory of Green Chemistry and Technology of Ministry of Education, College of Chemistry, Sichuan University, 29 Wangjiang Road, Chengdu, 610064, P. R. China
| | - Guiling Guo
- Key Laboratory of Green Chemistry and Technology of Ministry of Education, College of Chemistry, Sichuan University, 29 Wangjiang Road, Chengdu, 610064, P. R. China
| | - Yuanqin Zheng
- Key Laboratory of Green Chemistry and Technology of Ministry of Education, College of Chemistry, Sichuan University, 29 Wangjiang Road, Chengdu, 610064, P. R. China
| | - Qin Xiong
- Key Laboratory of Green Chemistry and Technology of Ministry of Education, College of Chemistry, Sichuan University, 29 Wangjiang Road, Chengdu, 610064, P. R. China
| | - Tingting Zheng
- Key Laboratory of Green Chemistry and Technology of Ministry of Education, College of Chemistry, Sichuan University, 29 Wangjiang Road, Chengdu, 610064, P. R. China
| | - Xiaohu Zhao
- Key Laboratory of Green Chemistry and Technology of Ministry of Education, College of Chemistry, Sichuan University, 29 Wangjiang Road, Chengdu, 610064, P. R. China
| | - Zhipeng Yu
- Key Laboratory of Green Chemistry and Technology of Ministry of Education, College of Chemistry, Sichuan University, 29 Wangjiang Road, Chengdu, 610064, P. R. China
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21
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Abstract
The merging of click chemistry with discrete photochemical processes has led to the creation of a new class of click reactions, collectively known as photoclick chemistry. These light-triggered click reactions allow the synthesis of diverse organic structures in a rapid and precise manner under mild conditions. Because light offers unparalleled spatiotemporal control over the generation of the reactive intermediates, photoclick chemistry has become an indispensable tool for a wide range of spatially addressable applications including surface functionalization, polymer conjugation and cross-linking, and biomolecular labeling in the native cellular environment. Over the past decade, a growing number of photoclick reactions have been developed, especially those based on the 1,3-dipolar cycloadditions and Diels-Alder reactions owing to their excellent reaction kinetics, selectivity, and biocompatibility. This review summarizes the recent advances in the development of photoclick reactions and their applications in chemical biology and materials science. A particular emphasis is placed on the historical contexts and mechanistic insights into each of the selected reactions. The in-depth discussion presented here should stimulate further development of the field, including the design of new photoactivation modalities, the continuous expansion of λ-orthogonal tandem photoclick chemistry, and the innovative use of these unique tools in bioconjugation and nanomaterial synthesis.
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Affiliation(s)
- Gangam Srikanth Kumar
- Department of Chemistry, State University of New York at Buffalo, Buffalo, New York 14260-3000, United States
| | - Qing Lin
- Department of Chemistry, State University of New York at Buffalo, Buffalo, New York 14260-3000, United States
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22
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Porte K, Riomet M, Figliola C, Audisio D, Taran F. Click and Bio-Orthogonal Reactions with Mesoionic Compounds. Chem Rev 2021; 121:6718-6743. [PMID: 33238101 DOI: 10.1021/acs.chemrev.0c00806] [Citation(s) in RCA: 26] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Click and bio-orthogonal reactions are dominated by cycloaddition reactions in general and 1,3-dipolar cycloadditions in particular. Among the dipoles routinely used for click chemistry, azides, nitrones, isonitriles, and nitrile oxides are the most popular. This review is focused on the emerging click chemistry that uses mesoionic compounds as dipole partners. Mesoionics are a very old family of molecules, but their use as reactants for click and bio-orthogonal chemistry is quite recent. The facility to derivatize these dipoles and to tune their reactivity toward cycloaddition reactions makes mesoionics an attractive opportunity for future click chemistry development. In addition, some compounds from this family are able to undergo click-and-release reactions, finding interesting applications in cells, as well as in animals. This review covers the synthetic access to main mesoionics, their reaction with dipolarophiles, and recent applications in chemical biology and heterocycle synthesis.
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Affiliation(s)
- Karine Porte
- Université Paris-Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SCBM, 91191 Gif-sur-Yvette, France
| | - Margaux Riomet
- Université Paris-Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SCBM, 91191 Gif-sur-Yvette, France
| | - Carlotta Figliola
- Université Paris-Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SCBM, 91191 Gif-sur-Yvette, France
| | - Davide Audisio
- Université Paris-Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SCBM, 91191 Gif-sur-Yvette, France
| | - Frédéric Taran
- Université Paris-Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SCBM, 91191 Gif-sur-Yvette, France
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23
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Roman BI. The Expanding Role of Chemistry in Optimizing Proteins for Human Health Applications. J Med Chem 2021; 64:7179-7188. [PMID: 34014084 DOI: 10.1021/acs.jmedchem.1c00294] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Over the past decades, therapeutics based on biological macromolecules and cells have successfully entered the clinical arena and progressively occupied an increasing share of what once was almost exclusively small molecule territory. This perspective explores the opportunities for chemists at the interface between biologics and small molecule-based products. It provides concrete examples by zooming in on the area of post-translational protein modification. The conclusion is that, rather than diminishing the relevance of chemistry in the pharmaceutical enterprise, the advent of the biologics has provided an additional playing field for synthetic and medicinal chemists, where they can contribute to the efficacy and scope of applicability of biological entities in a collaborative effort to transformatively address unmet medical needs.
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Affiliation(s)
- Bart I Roman
- Research Group SynBioC, Department of Green Chemistry and Technology, Faculty of Bioscience Engineering, Universiteit Gent, Coupure Links 653, 9000 Gent, Belgium.,Cancer Research Institute Ghent (CRIG), Corneel Heymanslaan 10, 9000 Gent, Belgium
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24
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25
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Hu Y, Roberts JM, Kilgore HR, Lani ASM, Raines RT, Schomaker JM. Triple, Mutually Orthogonal Bioorthogonal Pairs through the Design of Electronically Activated Sulfamate-Containing Cycloalkynes. J Am Chem Soc 2020; 142:18826-18835. [PMID: 33085477 PMCID: PMC7891878 DOI: 10.1021/jacs.0c06725] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Interest in mutually exclusive pairs of bioorthogonal labeling reagents continues to drive the design of new compounds that are capable of fast and predictable reactions. The ability to easily modify S-, N-, and O-containing cyclooctynes (SNO-OCTs) enables electronic tuning of various SNO-OCTs to influence their cycloaddition rates with Type I-III dipoles. As opposed to optimizations based on just one specific dipole class, the electrophilicity of the alkynes in SNO-OCTs can be manipulated to achieve divergent reactivities and furnish mutually orthogonal dual ligation systems. Significant reaction rate enhancements of a difluorinated SNO-OCT derivative, as compared to the parent scaffold, were noted, with the second-order rate constant in cycloadditions with diazoacetamides exceeding 5.13 M-1 s-1. Computational and experimental studies were employed to inform the design of triple ligation systems that encompass three orthogonal reactivities. Finally, polar SNO-OCTs are rapidly internalized by mammalian cells and remain functional in the cytosol for live-cell labeling, highlighting their potential for diverse in vitro and in vivo applications.
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Affiliation(s)
- Yun Hu
- Department of Chemistry, University of Wisconsin, Madison, Wisconsin 53706, United States
| | - Jessica M. Roberts
- Department of Chemistry, University of Wisconsin, Madison, Wisconsin 53706, United States
| | - Henry R. Kilgore
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Amirah S. Mat Lani
- Department of Chemistry, University of Wisconsin, Madison, Wisconsin 53706, United States
| | - Ronald T. Raines
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Jennifer M. Schomaker
- Department of Chemistry, University of Wisconsin, Madison, Wisconsin 53706, United States
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26
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Smeenk MLWJ, Agramunt J, Bonger KM. Recent developments in bioorthogonal chemistry and the orthogonality within. Curr Opin Chem Biol 2020; 60:79-88. [PMID: 33152604 DOI: 10.1016/j.cbpa.2020.09.002] [Citation(s) in RCA: 62] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2020] [Revised: 09/07/2020] [Accepted: 09/08/2020] [Indexed: 02/09/2023]
Abstract
The emergence of bioorthogonal reactions has greatly advanced research in the fields of biology and medicine. They are not only valuable for labeling, tracking, and understanding biomolecules within living organisms, but also important for constructing advanced bioengineering and drug delivery systems. As the systems studied are increasingly complex, the simultaneous use of multiple bioorthogonal reactions is equally desirable. In this review, we take a look at the different bioorthogonal reactions that have recently been developed, the methods of cellular incorporation and the strategies to create orthogonality within the bioorthogonal landscape.
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Affiliation(s)
- Mike L W J Smeenk
- Department of Synthetic Organic Chemistry, Institute for Molecules and Materials, Radboud University, Nijmegen, the Netherlands
| | - Jordi Agramunt
- Department of Synthetic Organic Chemistry, Institute for Molecules and Materials, Radboud University, Nijmegen, the Netherlands
| | - Kimberly M Bonger
- Department of Synthetic Organic Chemistry, Institute for Molecules and Materials, Radboud University, Nijmegen, the Netherlands.
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27
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García de la Concepción J, Ávalos M, Jiménez JL, Cintas P, Light ME. A fully diastereoselective oxidation of a mesoionic dipole with triplet molecular oxygen. Org Biomol Chem 2020; 18:6328-6339. [PMID: 32756727 DOI: 10.1039/d0ob01428a] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Oxidations with molecular oxygen are ubiquitous processes in biological systems where cofactor-dependent enzymes activate either oxygen or hydrogen peroxide to induce multichannel pathways. In stark contrast, such slow atmospheric oxidations are seldom harnessed in chemical synthesis and analysis. The present study unveils an unusual aerobic oxidation of a mesoionic dipole leading easily to a more functionalized skeleton. Although the synthetic scope has not been explored, two key considerations emerge from this transformation, as it proceeds with complete diastereoselection and could be successfully extrapolated to structurally related mesoionic chirons without racemization. How this oxidation actually occurs proved to be puzzling from the onset and only high-level computation reveals a cascade transformation, whose results reconcile theory and experiment. Hopefully, the mechanistic insights should help us to understand better the autoxidative reactions of organic molecules.
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Affiliation(s)
- Juan García de la Concepción
- Departamento de Química Orgánica e Inorgánica, Facultad de Ciencias-UEX, and IACYS-Unidad de Química Verde y Desarrollo Sostenible, Avda. Elvas S/N, 06006 Badajoz, Spain.
| | - Martín Ávalos
- Departamento de Química Orgánica e Inorgánica, Facultad de Ciencias-UEX, and IACYS-Unidad de Química Verde y Desarrollo Sostenible, Avda. Elvas S/N, 06006 Badajoz, Spain.
| | - José L Jiménez
- Departamento de Química Orgánica e Inorgánica, Facultad de Ciencias-UEX, and IACYS-Unidad de Química Verde y Desarrollo Sostenible, Avda. Elvas S/N, 06006 Badajoz, Spain.
| | - Pedro Cintas
- Departamento de Química Orgánica e Inorgánica, Facultad de Ciencias-UEX, and IACYS-Unidad de Química Verde y Desarrollo Sostenible, Avda. Elvas S/N, 06006 Badajoz, Spain.
| | - Mark E Light
- Department of Chemistry, Faculty of Natural and Environmental Sciences, University of Southampton, Southampton SO17 1BJ, UK
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28
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Nguyen SS, Prescher JA. Developing bioorthogonal probes to span a spectrum of reactivities. Nat Rev Chem 2020; 4:476-489. [PMID: 34291176 DOI: 10.1038/s41570-020-0205-0] [Citation(s) in RCA: 96] [Impact Index Per Article: 24.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
Bioorthogonal chemistries enable researchers to interrogate biomolecules in living systems. These reactions are highly selective and biocompatible and can be performed in many complex environments. However, like any organic transformation, there is no perfect bioorthogonal reaction. Choosing the "best fit" for a desired application is critical. Correspondingly, there must be a variety of chemistries-spanning a spectrum of rates and other features-to choose from. Over the past few years, significant strides have been made towards not only expanding the number of bioorthogonal chemistries, but also fine-tuning existing reactions for particular applications. In this Review, we highlight recent advances in bioorthogonal reaction development, focusing on how physical organic chemistry principles have guided probe design. The continued expansion of this toolset will provide more precisely tuned reagents for manipulating bonds in distinct environments.
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Affiliation(s)
- Sean S Nguyen
- Departments of Chemistry, University of California, Irvine, California 92697, United States
| | - Jennifer A Prescher
- Departments of Chemistry, University of California, Irvine, California 92697, United States.,Molecular Biology & Biochemistry, University of California, Irvine, California 92697, United States.,Pharmaceutical Sciences, University of California, Irvine, California 92697, United States
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29
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Zhang X, Zhang SQ, Li Q, Xiao F, Yue Z, Hong X, Lei X. Computation-Guided Development of the "Click" ortho-Quinone Methide Cycloaddition with Improved Kinetics. Org Lett 2020; 22:2920-2924. [PMID: 32255637 DOI: 10.1021/acs.orglett.0c00578] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We report here a deep mechanistic study of the "click" ortho-quinone methide (oQM) cycloaddition between ortho-quinolinone quinone methide (oQQM) and thio-vinyl ether (TV), named as TQ-ligation. DFT calculations revealed the unexpected fact that dehydration of oQQM precursors is the rate-determining step of this transformation, and two highly reactive oQQM precursors were predicted. Guided by the calculations, a new "click" oQM cycloaddition which shows significantly improved kinetics and remarkable efficiency on protein labeling was developed.
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Affiliation(s)
- Xiaoyun Zhang
- Beijing National Laboratory for Molecular Sciences, Key Laboratory of Bioorganic Chemistry and Molecular Engineering of Ministry of Education, Department of Chemical Biology, College of Chemistry and Molecular Engineering, Synthetic and Functional Biomolecules Center, and Peking-Tsinghua Center for Life Sciences, Peking University, Beijing 100871, China
| | - Shuo-Qing Zhang
- Department of Chemistry, Zhejiang University, 38 Zheda Road, Hangzhou 310027, China
| | - Qiang Li
- Beijing National Laboratory for Molecular Sciences, Key Laboratory of Bioorganic Chemistry and Molecular Engineering of Ministry of Education, Department of Chemical Biology, College of Chemistry and Molecular Engineering, Synthetic and Functional Biomolecules Center, and Peking-Tsinghua Center for Life Sciences, Peking University, Beijing 100871, China
| | - Fan Xiao
- Beijing National Laboratory for Molecular Sciences, Key Laboratory of Bioorganic Chemistry and Molecular Engineering of Ministry of Education, Department of Chemical Biology, College of Chemistry and Molecular Engineering, Synthetic and Functional Biomolecules Center, and Peking-Tsinghua Center for Life Sciences, Peking University, Beijing 100871, China
| | - Zongwei Yue
- Beijing National Laboratory for Molecular Sciences, Key Laboratory of Bioorganic Chemistry and Molecular Engineering of Ministry of Education, Department of Chemical Biology, College of Chemistry and Molecular Engineering, Synthetic and Functional Biomolecules Center, and Peking-Tsinghua Center for Life Sciences, Peking University, Beijing 100871, China
| | - Xin Hong
- Department of Chemistry, Zhejiang University, 38 Zheda Road, Hangzhou 310027, China
| | - Xiaoguang Lei
- Beijing National Laboratory for Molecular Sciences, Key Laboratory of Bioorganic Chemistry and Molecular Engineering of Ministry of Education, Department of Chemical Biology, College of Chemistry and Molecular Engineering, Synthetic and Functional Biomolecules Center, and Peking-Tsinghua Center for Life Sciences, Peking University, Beijing 100871, China
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30
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Nakajima M, Bilodeau DA, Pezacki JP. Predicting reactivity for bioorthogonal cycloadditions involving nitrones. RSC Adv 2020; 10:29306-29310. [PMID: 35521144 PMCID: PMC9055992 DOI: 10.1039/d0ra05092j] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2020] [Accepted: 07/23/2020] [Indexed: 01/20/2023] Open
Abstract
Nitrones are useful dipoles in both synthesis and in bioorthogonal transformations to report on biological phenomena. In bioorthogonal reactions, nitrones are both small and relatively easy to incorporate into biomolecules, while providing versatility in their ability to harbor different substituents that tune their reactivity. Herein, we examine the reactivities of some common and useful nitrone cycloadditions using density functional theory (DFT) and the distortion/interaction (D/I) model. The data show that relative reactivities can be predicted using these approaches, and useful insights gained further enchancing reactivities of both nitrones and their dipolarophile reaction partners. We find that D/I is a useful guide to understanding and predicting reactivities of cycloadditions involving nitrones. Nitrones are useful dipoles in both synthesis and in bioorthogonal transformations to report on biological phenomena.![]()
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Affiliation(s)
- Masaya Nakajima
- Graduate School of Pharmaceutical Sciences
- Chiba University
- Chuo-ku
- Japan
| | - Didier A. Bilodeau
- Department of Chemistry and Biomolecular Sciences
- University of Ottawa
- Ottawa
- Canada
| | - John Paul Pezacki
- Department of Chemistry and Biomolecular Sciences
- University of Ottawa
- Ottawa
- Canada
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31
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Bettens T, Alonso M, Geerlings P, De Proft F. The hunt for reactive alkynes in bio-orthogonal click reactions: insights from mechanochemical and conceptual DFT calculations. Chem Sci 2019; 11:1431-1439. [PMID: 34123268 PMCID: PMC8148320 DOI: 10.1039/c9sc04507d] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023] Open
Abstract
In our effort to implement the mechanical force used to activate single molecules in mechanochemistry in the context of conceptual density functional theory, we present a theoretical investigation of strained alkynes for rationalizing structural trends as well as the reactivity of cyclic alkynes that are of great importance in in vivo click reactions. The strain on the triple bond in cyclic alkynes is modeled by angular constraints in a 2-butyne fragment and the corresponding bending force is calculated by means of an extended COGEF (constrained geometries simulate external forces) model. In general, the force required to bend the triple bond is smaller with electron-withdrawing groups on the propargylic C-atom, which elegantly results in smaller angles around the triple bond in cyclic alkynes with such substitution pattern. By means of conceptual DFT descriptors, the electrophilic and nucleophilic character of bent triple bonds was investigated revealing moderate activation for small distortions from the linear geometry (0° to 15°) and a drastically more reactive π-space if the triple bond is bent further. This analysis of the intrinsic reactivity of the triple bond is in line with experimental observations, explaining the reactive nature of cyclooctynes and cycloheptynes, whereas larger cyclic systems do not drastically activate the triple bond.
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Affiliation(s)
- Tom Bettens
- Eenheid Algemene Chemie (ALGC), Vrije Universiteit Brussel (VUB) Pleinlaan 2 1050 Brussels Belgium
| | - Mercedes Alonso
- Eenheid Algemene Chemie (ALGC), Vrije Universiteit Brussel (VUB) Pleinlaan 2 1050 Brussels Belgium
| | - Paul Geerlings
- Eenheid Algemene Chemie (ALGC), Vrije Universiteit Brussel (VUB) Pleinlaan 2 1050 Brussels Belgium
| | - Frank De Proft
- Eenheid Algemene Chemie (ALGC), Vrije Universiteit Brussel (VUB) Pleinlaan 2 1050 Brussels Belgium
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32
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Design of a 1,8-naphthalimide-based OFF-ON type bioorthogonal reagent for fluorescent imaging in live cells. CHINESE CHEM LETT 2019. [DOI: 10.1016/j.cclet.2019.06.023] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
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33
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Gimadiev T, Klimchuk O, Nugmanov R, Madzhidov T, Varnek A. Sydnone-alkyne cycloaddition: Which factors are responsible for reaction rate ? J Mol Struct 2019. [DOI: 10.1016/j.molstruc.2019.126897] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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34
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Kamber DN, Nguyen SS, Liu F, Briggs JS, Shih HW, Row RD, Long ZG, Houk KN, Liang Y, Prescher JA. Isomeric triazines exhibit unique profiles of bioorthogonal reactivity. Chem Sci 2019; 10:9109-9114. [PMID: 31908754 PMCID: PMC6910137 DOI: 10.1039/c9sc01427f] [Citation(s) in RCA: 31] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2019] [Accepted: 08/11/2019] [Indexed: 11/29/2022] Open
Abstract
Expanding the scope of bioorthogonal reactivity requires access to new and mutually compatible reagents. We report here that 1,2,4-triazines can be tuned to exhibit unique reaction profiles with biocompatible strained alkenes and alkynes. Computational analyses were used to identify candidate orthogonal reactions, and the predictions were experimentally verified. Notably, 5-substituted triazines, unlike their 6-substituted counterparts, undergo rapid [4 + 2] cycloadditions with a sterically encumbered strained alkyne. This unique, sterically controlled reactivity was exploited for dual bioorthogonal labeling. Mutually orthogonal triazines and cycloaddition chemistries will enable new multi-component imaging applications.
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Affiliation(s)
- David N Kamber
- Department of Chemistry , University of California , Irvine , California 92697 , USA .
| | - Sean S Nguyen
- Department of Chemistry , University of California , Irvine , California 92697 , USA .
| | - Fang Liu
- Department of Chemistry and Biochemistry , University of California , Los Angeles , California 90095 , USA
- State Key Laboratory of Coordination Chemistry , Jiangsu Key Laboratory of Advanced Organic Materials , School of Chemistry and Chemical Engineering , Nanjing University , Nanjing 210023 , China .
| | - Jeffrey S Briggs
- Department of Chemistry , University of California , Irvine , California 92697 , USA .
| | - Hui-Wen Shih
- Department of Chemistry , University of California , Irvine , California 92697 , USA .
| | - R David Row
- Department of Chemistry , University of California , Irvine , California 92697 , USA .
| | - Zane G Long
- Department of Chemistry , University of California , Irvine , California 92697 , USA .
| | - K N Houk
- Department of Chemistry and Biochemistry , University of California , Los Angeles , California 90095 , USA
| | - Yong Liang
- State Key Laboratory of Coordination Chemistry , Jiangsu Key Laboratory of Advanced Organic Materials , School of Chemistry and Chemical Engineering , Nanjing University , Nanjing 210023 , China .
| | - Jennifer A Prescher
- Department of Chemistry , University of California , Irvine , California 92697 , USA .
- Department of Molecular Biology & Biochemistry , University of California , Irvine , California 92697 , USA
- Department of Pharmaceutical Sciences , University of California , Irvine , California 92697 , USA
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35
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Gu H, Ghosh S, Staples RJ, Bane SL. β-Hydroxy-Stabilized Boron-Nitrogen Heterocycles Enable Rapid and Efficient C-Terminal Protein Modification. Bioconjug Chem 2019; 30:2604-2613. [PMID: 31483610 DOI: 10.1021/acs.bioconjchem.9b00534] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
Abstract
Bioorthogonal chemistry has enabled the development of bioconjugates in physiological environments while averting interference from endogenous biomolecules. Reactions between carbonyl-containing molecules and alkoxyamines or hydrazines have experienced a resurgence in popularity in bioorthogonal chemistry owing to advances that allow the reactions to occur under physiological conditions. In particular, ortho-carbonyl-substituted phenylboronic acids (CO-PBAs) exhibit greatly accelerated rates of hydrazone and oxime formation via intramolecular Lewis acid catalysis. Unfortunately, the rate of the reverse reaction is also increased, yielding a kinetically less stable bioconjugate. When the substrate is a hydrazine derivative, an intramolecular reaction between the boronic acid and the hydrazone can lead to the formation of a heterocycle containing a boron-nitrogen bond. We have shown previously that α-amino hydrazides undergo rapid reaction with CO-PBAs to form highly stable, tricyclic products, and that this reaction is orthogonal to the popular azide-alkyne and tetrazine-alkene reactions. In this work, we explore a series of heteroatom-substituted hydrazides for their ability to form tricyclic products with two CO-PBAs, 2-formylphenylboronic acid (2fPBA), and 2-acetylphenylboronic acid (AcPBA). In particular, highly stable products were formed using β-hydroxy hydrazides and 2fPBA. C-Terminal β-hydroxy hydrazide proteins are available using conventional biochemical methods, which alleviates one of the difficulties with applications of bioorthogonal chemical reactions: site-specific incorporation of a reactive group into the biomolecular target. Using sortase-mediated ligation (SML), C-terminal threonine and serine hydrazides were appended to a model eGFP protein in high yield. Subsequent labeling with 2fPBA functionalized probes could be performed quickly and quantitatively at neutral pH using micromolar concentrations of reactants. The SML process was applied directly to an expressed protein in cellular extract, and the C-terminal modified target protein was selectively immobilized using 2fPBA-agarose. Elution from the agarose yielded a highly pure protein that retained the hydrazide functionality. This strategy should be generally applicable for rapid, efficient site-specific protein labeling, protein immobilization, and preparation of highly pure functionalized proteins.
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Affiliation(s)
- Han Gu
- Department of Chemistry , Binghamton University, State University of New York , Binghamton , New York 13902 , United States
| | - Saptarshi Ghosh
- Department of Chemistry , Binghamton University, State University of New York , Binghamton , New York 13902 , United States
| | - Richard J Staples
- Department of Chemistry and Chemical Biology , Michigan State University , East Lansing , Michigan 48824 , United States
| | - Susan L Bane
- Department of Chemistry , Binghamton University, State University of New York , Binghamton , New York 13902 , United States
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36
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Kumar RA, Pattanayak MR, Yen‐Pon E, Eliyan J, Porte K, Bernard S, Riomet M, Thuéry P, Audisio D, Taran F. Strain‐Promoted 1,3‐Dithiolium‐4‐olates–Alkyne Cycloaddition. Angew Chem Int Ed Engl 2019; 58:14544-14548. [DOI: 10.1002/anie.201908052] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2019] [Revised: 07/30/2019] [Indexed: 01/09/2023]
Affiliation(s)
- Ramar Arun Kumar
- Service de Chimie Bio-organique et Marquage (SCBM), CEA/DRF/JOLIOT Université Paris-Saclay F-91191 Gif-sur-Yvette France
- SRM Research Institute Department of Chemistry SRM Institute of Science and Technology, Kattankulathur 603203 Chennai India
| | - Manas R. Pattanayak
- Service de Chimie Bio-organique et Marquage (SCBM), CEA/DRF/JOLIOT Université Paris-Saclay F-91191 Gif-sur-Yvette France
| | - Expédite Yen‐Pon
- Service de Chimie Bio-organique et Marquage (SCBM), CEA/DRF/JOLIOT Université Paris-Saclay F-91191 Gif-sur-Yvette France
| | - Jijy Eliyan
- Service de Chimie Bio-organique et Marquage (SCBM), CEA/DRF/JOLIOT Université Paris-Saclay F-91191 Gif-sur-Yvette France
| | - Karine Porte
- Service de Chimie Bio-organique et Marquage (SCBM), CEA/DRF/JOLIOT Université Paris-Saclay F-91191 Gif-sur-Yvette France
| | - Sabrina Bernard
- Service de Chimie Bio-organique et Marquage (SCBM), CEA/DRF/JOLIOT Université Paris-Saclay F-91191 Gif-sur-Yvette France
| | - Margaux Riomet
- Service de Chimie Bio-organique et Marquage (SCBM), CEA/DRF/JOLIOT Université Paris-Saclay F-91191 Gif-sur-Yvette France
| | - Pierre Thuéry
- NIMBE CEA CNRS Université Paris-Saclay 91191 Gif-sur-Yvette France
| | - Davide Audisio
- Service de Chimie Bio-organique et Marquage (SCBM), CEA/DRF/JOLIOT Université Paris-Saclay F-91191 Gif-sur-Yvette France
| | - Frédéric Taran
- Service de Chimie Bio-organique et Marquage (SCBM), CEA/DRF/JOLIOT Université Paris-Saclay F-91191 Gif-sur-Yvette France
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37
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Kumar RA, Pattanayak MR, Yen‐Pon E, Eliyan J, Porte K, Bernard S, Riomet M, Thuéry P, Audisio D, Taran F. Strain‐Promoted 1,3‐Dithiolium‐4‐olates–Alkyne Cycloaddition. Angew Chem Int Ed Engl 2019. [DOI: 10.1002/ange.201908052] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Affiliation(s)
- Ramar Arun Kumar
- Service de Chimie Bio-organique et Marquage (SCBM), CEA/DRF/JOLIOT Université Paris-Saclay F-91191 Gif-sur-Yvette France
- SRM Research Institute Department of Chemistry SRM Institute of Science and Technology, Kattankulathur 603203 Chennai India
| | - Manas R. Pattanayak
- Service de Chimie Bio-organique et Marquage (SCBM), CEA/DRF/JOLIOT Université Paris-Saclay F-91191 Gif-sur-Yvette France
| | - Expédite Yen‐Pon
- Service de Chimie Bio-organique et Marquage (SCBM), CEA/DRF/JOLIOT Université Paris-Saclay F-91191 Gif-sur-Yvette France
| | - Jijy Eliyan
- Service de Chimie Bio-organique et Marquage (SCBM), CEA/DRF/JOLIOT Université Paris-Saclay F-91191 Gif-sur-Yvette France
| | - Karine Porte
- Service de Chimie Bio-organique et Marquage (SCBM), CEA/DRF/JOLIOT Université Paris-Saclay F-91191 Gif-sur-Yvette France
| | - Sabrina Bernard
- Service de Chimie Bio-organique et Marquage (SCBM), CEA/DRF/JOLIOT Université Paris-Saclay F-91191 Gif-sur-Yvette France
| | - Margaux Riomet
- Service de Chimie Bio-organique et Marquage (SCBM), CEA/DRF/JOLIOT Université Paris-Saclay F-91191 Gif-sur-Yvette France
| | - Pierre Thuéry
- NIMBE CEA CNRS Université Paris-Saclay 91191 Gif-sur-Yvette France
| | - Davide Audisio
- Service de Chimie Bio-organique et Marquage (SCBM), CEA/DRF/JOLIOT Université Paris-Saclay F-91191 Gif-sur-Yvette France
| | - Frédéric Taran
- Service de Chimie Bio-organique et Marquage (SCBM), CEA/DRF/JOLIOT Université Paris-Saclay F-91191 Gif-sur-Yvette France
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38
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Kumar P, Zainul O, Camarda FM, Jiang T, Mannone JA, Huang W, Laughlin ST. Caged Cyclopropenes with Improved Tetrazine Ligation Kinetics. Org Lett 2019; 21:3721-3725. [DOI: 10.1021/acs.orglett.9b01177] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Affiliation(s)
- Pratik Kumar
- Department of Chemistry, Stony Brook University, Stony Brook, New York 11790, United States
| | - Omar Zainul
- Department of Chemistry, Stony Brook University, Stony Brook, New York 11790, United States
| | - Frank M. Camarda
- Department of Chemistry, Stony Brook University, Stony Brook, New York 11790, United States
| | - Ting Jiang
- Department of Chemistry, Stony Brook University, Stony Brook, New York 11790, United States
| | - John A. Mannone
- Department of Chemistry, Stony Brook University, Stony Brook, New York 11790, United States
| | - Wei Huang
- Department of Chemistry, Stony Brook University, Stony Brook, New York 11790, United States
| | - Scott T. Laughlin
- Department of Chemistry, Stony Brook University, Stony Brook, New York 11790, United States
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39
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Chinoy ZS, Bodineau C, Favre C, Moremen KW, Durán RV, Friscourt F. Selective Engineering of Linkage-Specific α2,6-N-Linked Sialoproteins Using Sydnone-Modified Sialic Acid Bioorthogonal Reporters. Angew Chem Int Ed Engl 2019; 58:4281-4285. [PMID: 30706985 PMCID: PMC6450558 DOI: 10.1002/anie.201814266] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2018] [Revised: 01/12/2019] [Indexed: 02/02/2023]
Abstract
The metabolic oligosaccharide engineering (MOE) strategy using unnatural sialic acids has recently enabled the visualization of the sialome in living systems. However, MOE only reports on global sialylation and dissected information regarding subsets of sialosides is missing. Described here is the synthesis and utilization of sialic acids modified with a sydnone reporter for the metabolic labeling of sialoconjugates. The positioning of the reporter on the sugar significantly altered its metabolic fate. Further in vitro enzymatic assays revealed that the 9-modified neuraminic acid is preferentially accepted by the sialyltransferase ST6Gal-I over ST3Gal-IV, leading to the favored incorporation of the reporter into linkage-specific α2,6-N-linked sialoproteins. This sydnone sugar presents the possibility of investigating the roles of specific sialosides.
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Affiliation(s)
- Zoeisha S. Chinoy
- Institut Européen de Chimie et Biologie, Université de Bordeaux, 2 rue Robert Escarpit, 33607 Pessac, France
- Institut de Neurosciences Cognitives et Intégratives d’Aquitaine, CNRS UMR5287, Bordeaux, France
| | - Clément Bodineau
- Institut Européen de Chimie et Biologie, Université de Bordeaux, 2 rue Robert Escarpit, 33607 Pessac, France
- Institut Bergonié, INSERM U1218, Bordeaux, France
| | - Camille Favre
- Institut Européen de Chimie et Biologie, Université de Bordeaux, 2 rue Robert Escarpit, 33607 Pessac, France
- Institut de Neurosciences Cognitives et Intégratives d’Aquitaine, CNRS UMR5287, Bordeaux, France
| | - Kelley W. Moremen
- Department of Biochemistry and Molecular Biology, University of Georgia, Athens, GA USA
- Complex Carbohydrate Research Center, University of Georgia, Athens, GA USA
| | - Raúl V. Durán
- Institut Européen de Chimie et Biologie, Université de Bordeaux, 2 rue Robert Escarpit, 33607 Pessac, France
- Institut Bergonié, INSERM U1218, Bordeaux, France
- Current address: Centro Andaluz de Biología Molecular y Medicina Regenerativa, Consejo Superior de Investigaciones Científicas - Universidad de Sevilla - Universidad Pablo de Olavide, Avda. Américo Vespucio 24, 41092 Seville, Spain
| | - Frédéric Friscourt
- Institut Européen de Chimie et Biologie, Université de Bordeaux, 2 rue Robert Escarpit, 33607 Pessac, France
- Institut de Neurosciences Cognitives et Intégratives d’Aquitaine, CNRS UMR5287, Bordeaux, France
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40
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41
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Selective Engineering of Linkage‐Specific α2,6‐
N
‐Linked Sialoproteins Using Sydnone‐Modified Sialic Acid Bioorthogonal Reporters. Angew Chem Int Ed Engl 2019. [DOI: 10.1002/ange.201814266] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
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42
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Yen-Pon E, Champagne PA, Plougastel L, Gabillet S, Thuéry P, Johnson M, Muller G, Pieters G, Taran F, Houk KN, Audisio D. Sydnone-Based Approach to Heterohelicenes through 1,3-Dipolar-Cycloadditions. J Am Chem Soc 2019; 141:1435-1440. [PMID: 30628450 DOI: 10.1021/jacs.8b11465] [Citation(s) in RCA: 36] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
The first approach to pyrazole-containing helicenes via sydnone-aryne [3 + 2]-cycloaddition is described. An unprecedented regioselectivity in the cycloaddition step toward the more sterically constrained product was observed in the presence of extended aromatic scaffolds. DFT calculations enabled understanding the origin of this unexpected selectivity.
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Affiliation(s)
- Expédite Yen-Pon
- Service de Chimie Bio-organique et Marquage (SCBM), JOLIOT , CEA, Université Paris-Saclay , 91191 Gif-sur-Yvette , France
| | - Pier Alexandre Champagne
- Department of Chemistry and Biochemistry , University of California , Los Angeles , California 90095 , United States
| | - Lucie Plougastel
- Service de Chimie Bio-organique et Marquage (SCBM), JOLIOT , CEA, Université Paris-Saclay , 91191 Gif-sur-Yvette , France
| | - Sandra Gabillet
- Service de Chimie Bio-organique et Marquage (SCBM), JOLIOT , CEA, Université Paris-Saclay , 91191 Gif-sur-Yvette , France
| | - Pierre Thuéry
- NIMBE, CEA, CNRS, Université Paris-Saclay , 91191 Gif-sur-Yvette , France
| | - Mizuki Johnson
- Department of Chemistry , San José State University , San José , California 95192-0101 , United States
| | - Gilles Muller
- Department of Chemistry , San José State University , San José , California 95192-0101 , United States
| | - Grégory Pieters
- Service de Chimie Bio-organique et Marquage (SCBM), JOLIOT , CEA, Université Paris-Saclay , 91191 Gif-sur-Yvette , France
| | - Frédéric Taran
- Service de Chimie Bio-organique et Marquage (SCBM), JOLIOT , CEA, Université Paris-Saclay , 91191 Gif-sur-Yvette , France
| | - K N Houk
- Department of Chemistry and Biochemistry , University of California , Los Angeles , California 90095 , United States
| | - Davide Audisio
- Service de Chimie Bio-organique et Marquage (SCBM), JOLIOT , CEA, Université Paris-Saclay , 91191 Gif-sur-Yvette , France
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43
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Yoshida S, Kuribara T, Ito H, Meguro T, Nishiyama Y, Karaki F, Hatakeyama Y, Koike Y, Kii I, Hosoya T. A facile preparation of functional cycloalkynes via an azide-to-cycloalkyne switching approach. Chem Commun (Camb) 2019; 55:3556-3559. [DOI: 10.1039/c9cc01113g] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
Abstract
Terminal alkyne-selective click conjugation of diynes bearing strained and terminal alkyne moieties with functional azides has been achieved by transient protection of strained alkynes via complexation with copper to easily afford various functional cycloalkynes.
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Affiliation(s)
- Suguru Yoshida
- Laboratory of Chemical Bioscience, Institute of Biomaterials and Bioengineering
- Tokyo Medical and Dental University (TMDU)
- Tokyo 101-0062
- Japan
| | - Tomoko Kuribara
- Laboratory of Chemical Bioscience, Institute of Biomaterials and Bioengineering
- Tokyo Medical and Dental University (TMDU)
- Tokyo 101-0062
- Japan
| | - Harumi Ito
- Laboratory of Chemical Bioscience, Institute of Biomaterials and Bioengineering
- Tokyo Medical and Dental University (TMDU)
- Tokyo 101-0062
- Japan
- Laboratory for Pathophysiological and Health Science
| | - Tomohiro Meguro
- Laboratory of Chemical Bioscience, Institute of Biomaterials and Bioengineering
- Tokyo Medical and Dental University (TMDU)
- Tokyo 101-0062
- Japan
| | - Yoshitake Nishiyama
- Laboratory of Chemical Bioscience, Institute of Biomaterials and Bioengineering
- Tokyo Medical and Dental University (TMDU)
- Tokyo 101-0062
- Japan
| | - Fumika Karaki
- Laboratory of Chemical Bioscience, Institute of Biomaterials and Bioengineering
- Tokyo Medical and Dental University (TMDU)
- Tokyo 101-0062
- Japan
| | - Yasutomo Hatakeyama
- Laboratory of Chemical Bioscience, Institute of Biomaterials and Bioengineering
- Tokyo Medical and Dental University (TMDU)
- Tokyo 101-0062
- Japan
| | - Yuka Koike
- Common Facilities Unit
- Compass to Healthy Life Research Complex Program
- RIKEN Cluster for Science
- Technology and Innovation Hub
- Kobe 650-0047
| | - Isao Kii
- Laboratory for Pathophysiological and Health Science
- RIKEN Center for Biosystems Dynamics Research (BDR)
- Kobe 650-0047
- Japan
- Common Facilities Unit
| | - Takamitsu Hosoya
- Laboratory of Chemical Bioscience, Institute of Biomaterials and Bioengineering
- Tokyo Medical and Dental University (TMDU)
- Tokyo 101-0062
- Japan
- Laboratory for Chemical Biology
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44
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Richard M, Truillet C, Tran VL, Liu H, Porte K, Audisio D, Roche M, Jego B, Cholet S, Fenaille F, Kuhnast B, Taran F, Specklin S. New fluorine-18 pretargeting PET imaging by bioorthogonal chlorosydnone–cycloalkyne click reaction. Chem Commun (Camb) 2019; 55:10400-10403. [DOI: 10.1039/c9cc05486c] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A PET pretargeting approach using strain-promoted sydnone–alkyne cycloaddition.
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Affiliation(s)
- Mylène Richard
- UMR 1023 IMIV
- Service Hospitalier Frédéric Joliot (SHFJ)
- CEA, Inserm
- Université Paris Sud, CNRS
- Université Paris-Saclay
| | - Charles Truillet
- UMR 1023 IMIV
- Service Hospitalier Frédéric Joliot (SHFJ)
- CEA, Inserm
- Université Paris Sud, CNRS
- Université Paris-Saclay
| | - Vu Long Tran
- UMR 1023 IMIV
- Service Hospitalier Frédéric Joliot (SHFJ)
- CEA, Inserm
- Université Paris Sud, CNRS
- Université Paris-Saclay
| | - Hui Liu
- Service de Chimie Bio-organique et Marquage DRF-JOLIOT-SCBM
- CEA, Université Paris-Saclay
- 91191 Gif-sur-Yvette
- France
| | - Karine Porte
- Service de Chimie Bio-organique et Marquage DRF-JOLIOT-SCBM
- CEA, Université Paris-Saclay
- 91191 Gif-sur-Yvette
- France
| | - Davide Audisio
- Service de Chimie Bio-organique et Marquage DRF-JOLIOT-SCBM
- CEA, Université Paris-Saclay
- 91191 Gif-sur-Yvette
- France
| | - Mélanie Roche
- UMR 1023 IMIV
- Service Hospitalier Frédéric Joliot (SHFJ)
- CEA, Inserm
- Université Paris Sud, CNRS
- Université Paris-Saclay
| | - Benoit Jego
- UMR 1023 IMIV
- Service Hospitalier Frédéric Joliot (SHFJ)
- CEA, Inserm
- Université Paris Sud, CNRS
- Université Paris-Saclay
| | - Sophie Cholet
- Service de Pharmacologie et d’Immunoanalyse (SPI)
- CEA/DRF/JOLIOT
- Université Paris Saclay
- F-91191 Gif-sur-Yvette
- France
| | - François Fenaille
- Service de Pharmacologie et d’Immunoanalyse (SPI)
- CEA/DRF/JOLIOT
- Université Paris Saclay
- F-91191 Gif-sur-Yvette
- France
| | - Bertrand Kuhnast
- UMR 1023 IMIV
- Service Hospitalier Frédéric Joliot (SHFJ)
- CEA, Inserm
- Université Paris Sud, CNRS
- Université Paris-Saclay
| | - Frédéric Taran
- Service de Chimie Bio-organique et Marquage DRF-JOLIOT-SCBM
- CEA, Université Paris-Saclay
- 91191 Gif-sur-Yvette
- France
| | - Simon Specklin
- UMR 1023 IMIV
- Service Hospitalier Frédéric Joliot (SHFJ)
- CEA, Inserm
- Université Paris Sud, CNRS
- Université Paris-Saclay
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45
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Zhang X, Wu X, Jiang S, Gao J, Yao Z, Deng J, Zhang L, Yu Z. Photo-accelerated “click” reaction between diarylsydnones and ring-strained alkynes for bioorthogonal ligation. Chem Commun (Camb) 2019; 55:7187-7190. [DOI: 10.1039/c9cc02882j] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A novel photo-click ligation reaction between diarylsydnones and ring-strained alkynes, exhibiting decent bioorthogonality, was established under 405 nm light irradiation.
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Affiliation(s)
- Xiaocui Zhang
- Key Laboratory of Green Chemistry and Technology of Ministry of Education
- College of Chemistry
- Sichuan University
- Chengdu (610064)
- China
| | - Xueting Wu
- Key Laboratory of Green Chemistry and Technology of Ministry of Education
- College of Chemistry
- Sichuan University
- Chengdu (610064)
- China
| | - Shichao Jiang
- Key Laboratory of Green Chemistry and Technology of Ministry of Education
- College of Chemistry
- Sichuan University
- Chengdu (610064)
- China
| | - Jingshuo Gao
- Key Laboratory of Green Chemistry and Technology of Ministry of Education
- College of Chemistry
- Sichuan University
- Chengdu (610064)
- China
| | - Zhuojun Yao
- Key Laboratory of Green Chemistry and Technology of Ministry of Education
- College of Chemistry
- Sichuan University
- Chengdu (610064)
- China
| | - Jiajie Deng
- Key Laboratory of Green Chemistry and Technology of Ministry of Education
- College of Chemistry
- Sichuan University
- Chengdu (610064)
- China
| | - Linmeng Zhang
- Key Laboratory of Green Chemistry and Technology of Ministry of Education
- College of Chemistry
- Sichuan University
- Chengdu (610064)
- China
| | - Zhipeng Yu
- Key Laboratory of Green Chemistry and Technology of Ministry of Education
- College of Chemistry
- Sichuan University
- Chengdu (610064)
- China
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46
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Plougastel L, Pattanayak MR, Riomet M, Bregant S, Sallustrau A, Nothisen M, Wagner A, Audisio D, Taran F. Sydnone-based turn-on fluorogenic probes for no-wash protein labeling and in-cell imaging. Chem Commun (Camb) 2019; 55:4582-4585. [DOI: 10.1039/c9cc01458f] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Fluorogenic sydnone-based turn-on probes allow efficient labeling of proteins and cell imaging through a bioorthogonal strained promoted sydnone–alkyne cycloaddition reaction.
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Affiliation(s)
- Lucie Plougastel
- Service de Chimie Bio-organique et Marquage DRF-JOLIOT-SCBM
- CEA
- Université Paris-Saclay
- 91191 Gif-sur-Yvette
- France
| | - Manas R. Pattanayak
- Service de Chimie Bio-organique et Marquage DRF-JOLIOT-SCBM
- CEA
- Université Paris-Saclay
- 91191 Gif-sur-Yvette
- France
| | - Margaux Riomet
- Service de Chimie Bio-organique et Marquage DRF-JOLIOT-SCBM
- CEA
- Université Paris-Saclay
- 91191 Gif-sur-Yvette
- France
| | - Sarah Bregant
- Service d'Ingénierie Moléculaire des Protéines DRF-JOLIOT-SIMOPRO
- CEA
- Université Paris-Saclay
- 91191 Gif-sur-Yvette
- France
| | - Antoine Sallustrau
- Service de Chimie Bio-organique et Marquage DRF-JOLIOT-SCBM
- CEA
- Université Paris-Saclay
- 91191 Gif-sur-Yvette
- France
| | - Marc Nothisen
- Laboratory of Functional Chemo-Systems UMR 7199 CNRS
- Université de Strasbourg
- Illkirch
- France
| | - Alain Wagner
- Laboratory of Functional Chemo-Systems UMR 7199 CNRS
- Université de Strasbourg
- Illkirch
- France
| | - Davide Audisio
- Service de Chimie Bio-organique et Marquage DRF-JOLIOT-SCBM
- CEA
- Université Paris-Saclay
- 91191 Gif-sur-Yvette
- France
| | - Frédéric Taran
- Service de Chimie Bio-organique et Marquage DRF-JOLIOT-SCBM
- CEA
- Université Paris-Saclay
- 91191 Gif-sur-Yvette
- France
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47
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Shao Z, Liu W, Tao H, Liu F, Zeng R, Champagne PA, Cao Y, Houk KN, Liang Y. Bioorthogonal release of sulfonamides and mutually orthogonal liberation of two drugs. Chem Commun (Camb) 2018; 54:14089-14092. [PMID: 30480281 PMCID: PMC6314811 DOI: 10.1039/c8cc08533a] [Citation(s) in RCA: 41] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
Sulfonamide derivatives have been used in pharmaceutics for decades. Here we report a new approach to release sulfonamides efficiently using a bioorthogonal reaction of sulfonyl sydnonimines and dibenzoazacyclooctyne (DIBAC). The second-order rate constant of the cycloaddition reaction can be up to 0.62 M-1 s-1, and the reactants are highly stable under physiological conditions. Most significantly, we also discovered the mutual orthogonality between the sydnonimine-DIBAC and benzonorbornadiene-tetrazine cycloaddition pairs, which can be used for selective and simultaneous liberation of sulfonamide and primary amine drugs.
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Affiliation(s)
- Zhuzhou Shao
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China.,
| | - Wei Liu
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China.,
| | - Huimin Tao
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China.,
| | - Fang Liu
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China.,
| | - Ruxin Zeng
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China.,
| | - Pier Alexandre Champagne
- Department of Chemistry and Biochemistry, University of California, Los Angeles, California 90095, USA.,
| | - Yang Cao
- Institute of Future Industrial Technologies, Peking University Shenzhen Graduate School, Shenzhen 518055, China
| | - K. N. Houk
- Department of Chemistry and Biochemistry, University of California, Los Angeles, California 90095, USA.,
| | - Yong Liang
- State Key Laboratory of Coordination Chemistry, Jiangsu Key Laboratory of Advanced Organic Materials, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China.,
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48
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Svatunek D, Houszka N, Hamlin TA, Bickelhaupt FM, Mikula H. Chemoselectivity of Tertiary Azides in Strain-Promoted Alkyne-Azide Cycloadditions. Chemistry 2018; 25:754-758. [PMID: 30347481 PMCID: PMC6391941 DOI: 10.1002/chem.201805215] [Citation(s) in RCA: 41] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2018] [Indexed: 12/31/2022]
Abstract
The strain‐promoted alkyne‐azide cycloaddition (SPAAC) is the most commonly employed bioorthogonal reaction with applications in a broad range of fields. Over the years, several different cyclooctyne derivatives have been developed and investigated in regard to their reactivity in SPAAC reactions with azides. However, only a few studies examined the influence of structurally diverse azides on reaction kinetics. Herein, we report our investigations of the reactivity of primary, secondary, and tertiary azides with the cyclooctynes BCN and ADIBO applying experimental and computational methods. All azides show similar reaction rates with the sterically non‐demanding cyclooctyne BCN. However, due to the increased steric demand of the dibenzocyclooctyne ADIBO, the reactivity of tertiary azides drops by several orders of magnitude in comparison to primary and secondary azides. We show that this chemoselective behavior of tertiary azides can be exploited to achieve semiorthogonal dual‐labeling without the need for any catalyst using SPAAC exclusively.
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Affiliation(s)
- Dennis Svatunek
- Institute of Applied Synthetic Chemistry, TU Wien (Vienna University of Technology), Getreidemarkt 9/163, 1060, Vienna, Austria.,Department of Theoretical Chemistry and Amsterdam Center for, Multiscale Modeling (ACMM), Vrije Universiteit Amsterdam, De Boelelaan 1083, 1081, HV, Amsterdam, The Netherlands
| | - Nicole Houszka
- Institute of Applied Synthetic Chemistry, TU Wien (Vienna University of Technology), Getreidemarkt 9/163, 1060, Vienna, Austria
| | - Trevor A Hamlin
- Department of Theoretical Chemistry and Amsterdam Center for, Multiscale Modeling (ACMM), Vrije Universiteit Amsterdam, De Boelelaan 1083, 1081, HV, Amsterdam, The Netherlands
| | - F Matthias Bickelhaupt
- Department of Theoretical Chemistry and Amsterdam Center for, Multiscale Modeling (ACMM), Vrije Universiteit Amsterdam, De Boelelaan 1083, 1081, HV, Amsterdam, The Netherlands.,Institute for Molecules and Materials (IMM), Radboud University, Heyendaalseweg 135, 6525, AJ, Nijmegen, The Netherlands
| | - Hannes Mikula
- Institute of Applied Synthetic Chemistry, TU Wien (Vienna University of Technology), Getreidemarkt 9/163, 1060, Vienna, Austria
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49
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Lee LC, Cheung HM, Liu H, Lo KK. Exploitation of Environment‐Sensitive Luminophores in the Design of Sydnone‐Based Bioorthogonal Imaging Reagents. Chemistry 2018; 24:14064-14068. [DOI: 10.1002/chem.201803452] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2018] [Revised: 07/10/2018] [Indexed: 11/08/2022]
Affiliation(s)
- Lawrence Cho‐Cheung Lee
- Department of ChemistryCity University of Hong Kong Tat Chee Avenue Kowloon, Hong Kong P. R. China
| | - Hugo Man‐Hin Cheung
- Department of ChemistryCity University of Hong Kong Tat Chee Avenue Kowloon, Hong Kong P. R. China
| | - Hua‐Wei Liu
- Department of ChemistryCity University of Hong Kong Tat Chee Avenue Kowloon, Hong Kong P. R. China
| | - Kenneth Kam‐Wing Lo
- Department of ChemistryCity University of Hong Kong Tat Chee Avenue Kowloon, Hong Kong P. R. China
- State Key Laboratory of Millimeter WavesCity University of Hong Kong Tat Chee Avenue Kowloon, Hong Kong P. R. China
- Center of Functional PhotonicsCity University of Hong Kong Tat Chee Avenue Kowloon, Hong Kong P. R. China
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50
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Wu Y, Hu J, Sun C, Cao Y, Li Y, Xie F, Zeng T, Zhou B, Du J, Tang Y. Nature-Inspired Bioorthogonal Reaction: Development of β-Caryophyllene as a Chemical Reporter in Tetrazine Ligation. Bioconjug Chem 2018; 29:2287-2295. [PMID: 29851464 DOI: 10.1021/acs.bioconjchem.8b00283] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
A nature-inspired bioorthogonal reaction has been developed, hinging on an inverse-electron-demand Diels-Alder reaction of tetrazine with β-caryophyllene. Readily accessible from the cheap starting material through a scalable synthesis, the newly developed β-caryophyllene chemical reporter displays appealing reaction kinetics and excellent biocompatibility, which renders it applicable to both in vitro protein labeling and live cell imaging. Moreover, it can be used orthogonally to the strain-promoted alkyne-azide cycloaddition for dual protein labeling. This work not only provides an alternative to the existing bioorthogonal reaction toolbox, but also opens a new avenue to utilize naturally occurring scaffolds as bioorthogonal chemical reporters.
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Affiliation(s)
- Yunfei Wu
- School of Pharmaceutical Sciences, MOE Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology , Tsinghua University , Beijing 100084 , China.,Collaborative Innovation Center for Biotherapy, State Key Laboratory of Biotherapy and Cancer Center, West China Medical School , Sichuan University , Chengdu 610041 , China
| | - Jiulong Hu
- School of Pharmaceutical Sciences, MOE Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology , Tsinghua University , Beijing 100084 , China.,State Key Laboratory of Membrane Biology, School of Life Sciences , Tsinghua University , Beijing 100084 , China
| | - Chen Sun
- State Key Laboratory of Membrane Biology, School of Life Sciences , Tsinghua University , Beijing 100084 , China
| | - Yu Cao
- State Key Laboratory of Membrane Biology, School of Life Sciences , Tsinghua University , Beijing 100084 , China
| | - Yuanhe Li
- School of Pharmaceutical Sciences, MOE Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology , Tsinghua University , Beijing 100084 , China
| | - Fayang Xie
- School of Pharmaceutical Sciences, MOE Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology , Tsinghua University , Beijing 100084 , China
| | - Tianyin Zeng
- School of Pharmaceutical Sciences, MOE Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology , Tsinghua University , Beijing 100084 , China
| | - Bing Zhou
- State Key Laboratory of Membrane Biology, School of Life Sciences , Tsinghua University , Beijing 100084 , China
| | - Juanjuan Du
- School of Pharmaceutical Sciences, MOE Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology , Tsinghua University , Beijing 100084 , China
| | - Yefeng Tang
- School of Pharmaceutical Sciences, MOE Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology , Tsinghua University , Beijing 100084 , China.,Collaborative Innovation Center for Biotherapy, State Key Laboratory of Biotherapy and Cancer Center, West China Medical School , Sichuan University , Chengdu 610041 , China
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