1
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Zhao Y, Tian R, Zhang Q, Jiang L, Wang J, Zhang Y, Sui X. Enhancing the properties of soy protein isolate and dialdehyde starch films for food packaging applications through tannic acid crosslinking. Carbohydr Polym 2024; 332:121903. [PMID: 38431410 DOI: 10.1016/j.carbpol.2024.121903] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2023] [Revised: 01/28/2024] [Accepted: 01/30/2024] [Indexed: 03/05/2024]
Abstract
The utilization of naturally derived biodegradable polymers, including proteins, polysaccharides, and polyphenols, holds significant promise in addressing environmental concerns and reducing reliance on nonrenewable resources. This study aimed to develop films with enhanced UV resistance and antibacterial capabilities by covalently cross-linking soy protein isolate (SPI) with dialdehyde starch (DAS) through the incorporation of tannic acid (TA). The covalent crosslinking of TA with DAS and SPI was shown to establish a stable chemical cross-linking network. The tensile strength of the resulting SPI/DAS/15TA film exhibited a remarkable increase of 208.27 % compared to SPI alone and 52.99 % compared to SPI/DAS film. Notably, the UV absorption range of SPI/DAS/10TA films extended from 200 nm to 389 nm. This augmentation can be attributed to the oxidation of TA's phenolic hydroxyl groups to quinone under alkaline conditions, which then facilitated cross-linking with the SPI chain via Michael addition and Schiff base reactions. Furthermore, the film demonstrated robust antibacterial properties due to the incorporation of TA. Collectively, the observed properties highlight the significant potential of the SPI/DAS/10TA film for applications in food packaging, where its enhanced mechanical strength, UV resistance, and antibacterial characteristics can contribute to improved product preservation and safety.
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Affiliation(s)
- Yuan Zhao
- College of Food Science, Northeast Agricultural University, Harbin 150030, China
| | - Ran Tian
- College of Food Science, Northeast Agricultural University, Harbin 150030, China
| | - Qin Zhang
- College of Food Science, Northeast Agricultural University, Harbin 150030, China
| | - Lianzhou Jiang
- College of Food Science, Northeast Agricultural University, Harbin 150030, China
| | - Jing Wang
- Key Laboratory of Geriatric Nutrition and Health (Beijing Technology and Business University), Ministry of Education, Beijing 100048, China.
| | - Yan Zhang
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, China.
| | - Xiaonan Sui
- College of Food Science, Northeast Agricultural University, Harbin 150030, China.
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2
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Ma J, Sun R, Xia K, Xia Q, Liu Y, Zhang X. Design and Application of Fluorescent Probes to Detect Cellular Physical Microenvironments. Chem Rev 2024; 124:1738-1861. [PMID: 38354333 DOI: 10.1021/acs.chemrev.3c00573] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/16/2024]
Abstract
The microenvironment is indispensable for functionality of various biomacromolecules, subcellular compartments, living cells, and organisms. In particular, physical properties within the biological microenvironment could exert profound effects on both the cellular physiology and pathology, with parameters including the polarity, viscosity, pH, and other relevant factors. There is a significant demand to directly visualize and quantitatively measure the fluctuation in the cellular microenvironment with spatiotemporal resolution. To satisfy this need, analytical methods based on fluorescence probes offer great opportunities due to the facile, sensitive, and dynamic detection that these molecules could enable in varying biological settings from in vitro samples to live animal models. Herein, we focus on various types of small molecule fluorescent probes for the detection and measurement of physical parameters of the microenvironment, including pH, polarity, viscosity, mechanical force, temperature, and electron potential. For each parameter, we primarily describe the chemical mechanisms underlying how physical properties are correlated with changes of various fluorescent signals. This review provides both an overview and a perspective for the development of small molecule fluorescent probes to visualize the dynamic changes in the cellular environment, to expand the knowledge for biological process, and to enrich diagnostic tools for human diseases.
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Affiliation(s)
- Junbao Ma
- Department of Chemistry and Research Center for Industries of the Future, Westlake University, 600 Dunyu Road, Hangzhou 310030, Zhejiang Province, China
- Westlake Laboratory of Life Sciences and Biomedicine, 18 Shilongshan Road, Hangzhou 310024, Zhejiang Province, China
- Institute of Natural Sciences, Westlake Institute for Advanced Study, Hangzhou 310030, Zhejiang Province, China
| | - Rui Sun
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian, Liaoning 116023, China
- University of the Chinese Academy of Sciences, 19 A Yuquan Road, Shijingshan District, Beijing 100049, China
| | - Kaifu Xia
- Department of Chemistry and Research Center for Industries of the Future, Westlake University, 600 Dunyu Road, Hangzhou 310030, Zhejiang Province, China
- Westlake Laboratory of Life Sciences and Biomedicine, 18 Shilongshan Road, Hangzhou 310024, Zhejiang Province, China
- Institute of Natural Sciences, Westlake Institute for Advanced Study, Hangzhou 310030, Zhejiang Province, China
| | - Qiuxuan Xia
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian, Liaoning 116023, China
- University of the Chinese Academy of Sciences, 19 A Yuquan Road, Shijingshan District, Beijing 100049, China
| | - Yu Liu
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian, Liaoning 116023, China
- State Key Laboratory of Medical Proteomics, National Chromatographic R. & A. Center, Chinese Academy of Sciences Dalian Liaoning 116023, China
| | - Xin Zhang
- Department of Chemistry and Research Center for Industries of the Future, Westlake University, 600 Dunyu Road, Hangzhou 310030, Zhejiang Province, China
- Westlake Laboratory of Life Sciences and Biomedicine, 18 Shilongshan Road, Hangzhou 310024, Zhejiang Province, China
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3
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Tan Y, Pierrard F, Frédérick R, Riant O. Enhancing Tsuji-Trost deallylation in living cells with an internal-nucleophile coumarin-based probe. RSC Adv 2024; 14:5492-5498. [PMID: 38352674 PMCID: PMC10862660 DOI: 10.1039/d3ra08938j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2023] [Accepted: 01/31/2024] [Indexed: 02/16/2024] Open
Abstract
In recent years, bioorthogonal uncaging reactions have been developed to proceed efficiently under physiological conditions. However, limited progress has been made in the development of protecting groups combining stability under physiological settings with the ability to be quickly removed via bioorthogonal catalysis. Herein, we present a new water-soluble coumarin-derived probe bearing an internal nucleophilic group capable of promoting Tsuji-Trost deallylation under palladium catalysis. This probe can be cleaved by a bioorthogonal palladium complex at a faster rate than the traditional probe, namely N-Alloc-7-amino-4-methylcoumarin. As the deallylation process proved to be efficient in mammalian cells, we envision that this probe may find applications in chemical biology, bioengineering, and medicine.
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Affiliation(s)
- Yonghua Tan
- Institute of Condensed Matter and Nanosciences (IMCN), Université catholique de Louvain Louvain-la-Neuve 1348 Belgium
- Louvain Drug Research Institute (LDRI), Université catholique de Louvain Brussels B-1200 Belgium
| | - François Pierrard
- Institute of Condensed Matter and Nanosciences (IMCN), Université catholique de Louvain Louvain-la-Neuve 1348 Belgium
- Louvain Drug Research Institute (LDRI), Université catholique de Louvain Brussels B-1200 Belgium
| | - Raphaël Frédérick
- Louvain Drug Research Institute (LDRI), Université catholique de Louvain Brussels B-1200 Belgium
| | - Olivier Riant
- Institute of Condensed Matter and Nanosciences (IMCN), Université catholique de Louvain Louvain-la-Neuve 1348 Belgium
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4
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Liu J, Meng F, Lv J, Yang M, Wu Y, Gao J, Luo J, Li X, Wei G, Yuan Z, Li H. Comprehensive monitoring of mitochondrial viscosity variation during different cell death processes by a NIR mitochondria-targeting fluorescence probe. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2023; 295:122602. [PMID: 36934595 DOI: 10.1016/j.saa.2023.122602] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/05/2023] [Revised: 03/05/2023] [Accepted: 03/06/2023] [Indexed: 06/18/2023]
Abstract
Cell death is a fundamental feature of multicellular organisms, in which mitochondria play crucial roles. Therefore, revealing and monitoring the microenvironment of mitochondria are significant to investigate cell death process. Herein, the mitochondrial viscosity variation behaviors of a series of different cell death processes were monitored with a NIR mitochondria-targeting fluorescence probe FLV. FLV was designed based on a rotatable flavylocyanine fluorophore that presented selective and sensitive NIR fluorescence enhancement response with the increase of environmental viscosity. Fluorescence imaging experiments of living cells incubated with nystatin or under different temperature indicated that FLV was capable of imaging the change of mitochondrial viscosity. Finally, FLV was applied for monitoring the mitochondrial viscosity variation during different cell death processes. It was found that there were obvious mitochondrial viscosity increases during apoptosis, necrosis and autophagy; however, no detectable mitochondrial viscosity variation was observed in ferroptosis process incubated with ferroptosis inducer erastin or RSL3 for 6 h. These results demonstrated that FLV is a viable tool for monitoring the mitochondrial viscosity variation and is likely to be used in the diagnosis of the mitochondrial viscosity-associated cell processes and diseases.
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Affiliation(s)
- Jiaojiao Liu
- College of Pharmacy, Zunyi Medical University, Zunyi, Guizhou 563003, China; Key Laboratory of Basic Pharmacology of Ministry of Education and Joint International Research Laboratory of Ethnomedicine of Ministry of Education, Zunyi Medical University, Zunyi, Guizhou 563000, China; Guizhou International Scientific and Technological Cooperation Base for Medical Photo-Theranostics Technology and Innovative Drug Development, Zunyi, Guizhou 563003, China
| | - Fancheng Meng
- College of Pharmacy, Zunyi Medical University, Zunyi, Guizhou 563003, China; Key Laboratory of Basic Pharmacology of Ministry of Education and Joint International Research Laboratory of Ethnomedicine of Ministry of Education, Zunyi Medical University, Zunyi, Guizhou 563000, China; Guizhou International Scientific and Technological Cooperation Base for Medical Photo-Theranostics Technology and Innovative Drug Development, Zunyi, Guizhou 563003, China
| | - Jiajia Lv
- College of Pharmacy, Zunyi Medical University, Zunyi, Guizhou 563003, China; Key Laboratory of Basic Pharmacology of Ministry of Education and Joint International Research Laboratory of Ethnomedicine of Ministry of Education, Zunyi Medical University, Zunyi, Guizhou 563000, China; Guizhou International Scientific and Technological Cooperation Base for Medical Photo-Theranostics Technology and Innovative Drug Development, Zunyi, Guizhou 563003, China
| | - Mingyan Yang
- College of Pharmacy, Zunyi Medical University, Zunyi, Guizhou 563003, China; Key Laboratory of Basic Pharmacology of Ministry of Education and Joint International Research Laboratory of Ethnomedicine of Ministry of Education, Zunyi Medical University, Zunyi, Guizhou 563000, China; Guizhou International Scientific and Technological Cooperation Base for Medical Photo-Theranostics Technology and Innovative Drug Development, Zunyi, Guizhou 563003, China
| | - Yumei Wu
- College of Pharmacy, Zunyi Medical University, Zunyi, Guizhou 563003, China; Key Laboratory of Basic Pharmacology of Ministry of Education and Joint International Research Laboratory of Ethnomedicine of Ministry of Education, Zunyi Medical University, Zunyi, Guizhou 563000, China; Guizhou International Scientific and Technological Cooperation Base for Medical Photo-Theranostics Technology and Innovative Drug Development, Zunyi, Guizhou 563003, China
| | - Jie Gao
- College of Pharmacy, Zunyi Medical University, Zunyi, Guizhou 563003, China; Key Laboratory of Basic Pharmacology of Ministry of Education and Joint International Research Laboratory of Ethnomedicine of Ministry of Education, Zunyi Medical University, Zunyi, Guizhou 563000, China; Guizhou International Scientific and Technological Cooperation Base for Medical Photo-Theranostics Technology and Innovative Drug Development, Zunyi, Guizhou 563003, China
| | - Junjun Luo
- College of Pharmacy, Zunyi Medical University, Zunyi, Guizhou 563003, China; Key Laboratory of Basic Pharmacology of Ministry of Education and Joint International Research Laboratory of Ethnomedicine of Ministry of Education, Zunyi Medical University, Zunyi, Guizhou 563000, China; Guizhou International Scientific and Technological Cooperation Base for Medical Photo-Theranostics Technology and Innovative Drug Development, Zunyi, Guizhou 563003, China
| | - Xinmin Li
- College of Pharmacy, Zunyi Medical University, Zunyi, Guizhou 563003, China; Key Laboratory of Basic Pharmacology of Ministry of Education and Joint International Research Laboratory of Ethnomedicine of Ministry of Education, Zunyi Medical University, Zunyi, Guizhou 563000, China; Guizhou International Scientific and Technological Cooperation Base for Medical Photo-Theranostics Technology and Innovative Drug Development, Zunyi, Guizhou 563003, China
| | - Gang Wei
- Commonwealth Scientific and Industrial Research Organization Manufacturing, Lindfield, New South Wales 2070, Australia.
| | - Zeli Yuan
- College of Pharmacy, Zunyi Medical University, Zunyi, Guizhou 563003, China; Key Laboratory of Basic Pharmacology of Ministry of Education and Joint International Research Laboratory of Ethnomedicine of Ministry of Education, Zunyi Medical University, Zunyi, Guizhou 563000, China; Guizhou International Scientific and Technological Cooperation Base for Medical Photo-Theranostics Technology and Innovative Drug Development, Zunyi, Guizhou 563003, China.
| | - Hongyu Li
- College of Pharmacy, Zunyi Medical University, Zunyi, Guizhou 563003, China; Key Laboratory of Basic Pharmacology of Ministry of Education and Joint International Research Laboratory of Ethnomedicine of Ministry of Education, Zunyi Medical University, Zunyi, Guizhou 563000, China; Guizhou International Scientific and Technological Cooperation Base for Medical Photo-Theranostics Technology and Innovative Drug Development, Zunyi, Guizhou 563003, China.
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5
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Melsen PRA, Yoshisada R, Jongkees SAK. Opportunities for expanding encoded chemical diversification and improving hit enrichment in mRNA-displayed peptide libraries. Chembiochem 2022; 23:e202100685. [PMID: 35100479 PMCID: PMC9306583 DOI: 10.1002/cbic.202100685] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2021] [Revised: 01/27/2022] [Indexed: 11/07/2022]
Abstract
DNA‐encoded small‐molecule libraries and mRNA displayed peptide libraries both use numerically large pools of oligonucleotide‐tagged molecules to identify potential hits for protein targets. They differ dramatically, however, in the ‘drug‐likeness’ of the molecules that each can be used to discover. We give here an overview of the two techniques, comparing some advantages and disadvantages of each, and suggest areas where particularly mRNA display can benefit from adopting advances developed with DNA‐encoded small molecule libraries. We outline cases where chemical modification of the peptide library has already been used in mRNA display, and survey opportunities to expand this using examples from DNA‐encoded small molecule libraries. We also propose potential opportunities for encoding such reactions within the mRNA/cDNA tag of an mRNA‐displayed peptide library to allow a more diversity‐oriented approach to library modification. Finally, we outline alternate approaches for enriching target‐binding hits from a pooled and tagged library, and close by detailing several examples of how an adjusted mRNA‐display based approach could be used to discover new ‘drug‐like’ modified small peptides.
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Affiliation(s)
- Paddy R A Melsen
- Vrije Universiteit Amsterdam, Department of Chemistry and Pharmaceutical Sciences, NETHERLANDS
| | - Ryoji Yoshisada
- Vrije Universiteit Amsterdam, Department of Chemistry and Pharmaceutical Sciences, NETHERLANDS
| | - Seino A K Jongkees
- Vrije Universiteit Amsterdam, Chemistry and Pharmaceutical Sciences, de Boelelaan 1108, 1081 HZ, Amsterdam, NETHERLANDS
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6
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Jenni S, Renault K, Dejouy G, Debieu S, Laly M, Romieu A. In Situ Synthesis of Phenoxazine Dyes in Water: Application for "Turn‐On" Fluorogenic and Chromogenic Detection of Nitric Oxide. CHEMPHOTOCHEM 2022. [DOI: 10.1002/cptc.202100268] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Sébastien Jenni
- Burgundy Franche-Comté University: Universite Bourgogne Franche-Comte ICMUB - UMR CNRS 6302 FRANCE
| | - Kévin Renault
- Burgundy Franche-Comté University: Universite Bourgogne Franche-Comte ICMUB - UMR CNRS 6302 FRANCE
| | - Garance Dejouy
- Burgundy Franche-Comté University: Universite Bourgogne Franche-Comte ICMUB - UMR CNRS 6302 FRANCE
| | - Sylvain Debieu
- Burgundy Franche-Comté University: Universite Bourgogne Franche-Comte ICMUB - UMR CNRS 6302 FRANCE
| | - Myriam Laly
- Burgundy Franche-Comté University: Universite Bourgogne Franche-Comte ICMUB - UMR CNRS 6302 FRANCE
| | - Anthony Romieu
- University of Burgundy Franche-Comté ICMUB - UMR CNRS 6302 Faculté des Sciences Mirande9, avenue Alain SavaryBP 47870 21078 Dijon FRANCE
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7
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Naowarojna N, Cheng R, Lopez J, Wong C, Qiao L, Liu P. Chemical modifications of proteins and their applications in metalloenzyme studies. Synth Syst Biotechnol 2021; 6:32-49. [PMID: 33665390 PMCID: PMC7897936 DOI: 10.1016/j.synbio.2021.01.001] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2020] [Revised: 12/14/2020] [Accepted: 01/03/2021] [Indexed: 12/21/2022] Open
Abstract
Protein chemical modifications are important tools for elucidating chemical and biological functions of proteins. Several strategies have been developed to implement these modifications, including enzymatic tailoring reactions, unnatural amino acid incorporation using the expanded genetic codes, and recognition-driven transformations. These technologies have been applied in metalloenzyme studies, specifically in dissecting their mechanisms, improving their enzymatic activities, and creating artificial enzymes with non-natural activities. Herein, we summarize some of the recent efforts in these areas with an emphasis on a few metalloenzyme case studies.
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Affiliation(s)
| | | | - Juan Lopez
- Department of Chemistry, Boston University, Boston, MA, 02215, United States
| | - Christina Wong
- Department of Chemistry, Boston University, Boston, MA, 02215, United States
| | - Lu Qiao
- Department of Chemistry, Boston University, Boston, MA, 02215, United States
| | - Pinghua Liu
- Department of Chemistry, Boston University, Boston, MA, 02215, United States
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8
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Li Q, Zhang Y, Wu Z, Huang J, Yue N, Huang L, Zhang X. Tyrosine-EDC Conjugation, an Undesirable Side Effect of the EDC-Catalyzed Carboxyl Labeling Approach. Anal Chem 2021; 93:697-703. [PMID: 33290043 DOI: 10.1021/acs.analchem.0c03487] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Carbodiimide-catalyzed carboxyl and amine conjugation (amidation) has been widely used to protect carboxyl groups. N-(3-(Dimethylamino)propyl)-N'-ethylcarbodiimide (EDC) is the most common carbodiimide reagent in protein chemistry due to its high catalytic efficiency in aqueous media. The reaction has also been applied in different proteomic studies including protein terminomics, glycosylation, and interaction. Herein, we report that the EDC-catalyzed amidation could cause a +155 Da side modification on the tyrosine residue and severely hamper the identification of Tyr-containing peptides. We revealed the extremely low identification rate of Tyr-containing peptides in different published studies employing the EDC-catalyzed amidation. We discovered a +155 Da side modification occurring specifically on Tyr and decoded it as the addition of EDC. Consideration of the side modification in a database search enabled the identification of 13 times more Tyr-containing peptides. Furthermore, we successfully developed an efficient method to remove the side modification. Our results also imply that chemical reactions in proteomic studies should be carefully evaluated prior to their wide applications. Data are available via ProteomeXchange with identifier PXD020042.
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Affiliation(s)
- Qingqing Li
- State Key Laboratory of Genetic Engineering, Department of Biochemistry, School of Life Sciences, Fudan University, Shanghai 200438, China
| | - Yang Zhang
- State Key Laboratory of Genetic Engineering, Department of Biochemistry, School of Life Sciences, Fudan University, Shanghai 200438, China
| | - Zhen Wu
- State Key Laboratory of Genetic Engineering, Department of Biochemistry, School of Life Sciences, Fudan University, Shanghai 200438, China
| | - Jingnan Huang
- State Key Laboratory of Genetic Engineering, Department of Biochemistry, School of Life Sciences, Fudan University, Shanghai 200438, China
| | - Ningning Yue
- State Key Laboratory of Genetic Engineering, Department of Biochemistry, School of Life Sciences, Fudan University, Shanghai 200438, China
| | - Lin Huang
- State Key Laboratory of Genetic Engineering, Department of Biochemistry, School of Life Sciences, Fudan University, Shanghai 200438, China
| | - Xumin Zhang
- State Key Laboratory of Genetic Engineering, Department of Biochemistry, School of Life Sciences, Fudan University, Shanghai 200438, China
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9
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Brewster RC, Klemencic E, Jarvis AG. Palladium in biological media: Can the synthetic chemist's most versatile transition metal become a powerful biological tool? J Inorg Biochem 2020; 215:111317. [PMID: 33310459 DOI: 10.1016/j.jinorgbio.2020.111317] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2020] [Revised: 11/16/2020] [Accepted: 11/16/2020] [Indexed: 12/18/2022]
Abstract
Palladium catalysed reactions are ubiquitous in synthetic organic chemistry in both organic solvents and aqueous buffers. The broad reactivity of palladium catalysis has drawn interest as a means to conduct orthogonal transformations in biological settings. Successful examples have been shown for protein modification, in vivo drug decaging and as palladium-protein biohybrid catalysts for selective catalysis. Biological media represents a challenging environment for palladium chemistry due to the presence of a multitude of chelators, catalyst poisons and a requirement for milder reaction conditions e.g. lower temperatures. This review looks to identify successful examples of palladium-catalysed reactions in the presence of proteins or cells and analyse solutions to help to overcome the challenges of working in biological systems.
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Affiliation(s)
- Richard C Brewster
- EaStCHEM School of Chemistry, Joseph Black Building, David Brewster Rd, University of Edinburgh, Edinburgh EH9 3FJ, United Kingdom
| | - Eva Klemencic
- EaStCHEM School of Chemistry, Joseph Black Building, David Brewster Rd, University of Edinburgh, Edinburgh EH9 3FJ, United Kingdom
| | - Amanda G Jarvis
- EaStCHEM School of Chemistry, Joseph Black Building, David Brewster Rd, University of Edinburgh, Edinburgh EH9 3FJ, United Kingdom.
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10
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Single electron transfer-based peptide/protein bioconjugations driven by biocompatible energy input. Commun Chem 2020; 3:171. [PMID: 36703459 PMCID: PMC9814624 DOI: 10.1038/s42004-020-00413-x] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2020] [Accepted: 10/13/2020] [Indexed: 01/29/2023] Open
Abstract
Bioconjugation reactions play a central facilitating role in engendering modified peptides and proteins. Early progress in this area was inhibited by challenges such as the limited range of substrates and the relatively poor biocompatibility of bioconjugation reagents. However, the recent developments in visible-light induced photoredox catalysis and electrochemical catalysis reactions have permitted significant novel reactivities to be developed in the field of synthetic and bioconjugation chemistry. This perspective describes recent advances in the use of biocompatible energy input for the modification of peptides and proteins mainly, via the single electron transfer (SET) process, as well as key future developments in this area.
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11
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Alvarez Dorta D, Deniaud D, Mével M, Gouin SG. Tyrosine Conjugation Methods for Protein Labelling. Chemistry 2020; 26:14257-14269. [DOI: 10.1002/chem.202001992] [Citation(s) in RCA: 32] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2020] [Revised: 06/09/2020] [Indexed: 12/23/2022]
Affiliation(s)
| | - David Deniaud
- CNRS, CEISAM UMR, 6230 Université de Nantes 44000 Nantes France
| | - Mathieu Mével
- CHU de Nantes, INSERM UMR 1089 Université de Nantes 44200 Nantes France
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12
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Chen ZE, Qi QL, Zhang H. D-π-A-π-D type solvatochromic fluorescence probes based on triphenylamine: Synthesis, photophysical properties and application. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2020; 238:118384. [PMID: 32445979 DOI: 10.1016/j.saa.2020.118384] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/16/2020] [Revised: 04/13/2020] [Accepted: 04/16/2020] [Indexed: 06/11/2023]
Abstract
Two D-π-A-π-D type solvatochromic fluorescence probes (JT1 and JT2) based on triphenylamine have been synthesized. The photophysical and electrochemical properties of these probes as well as their solvatochromic behavior were studied. The Stokes shifts of JT1 and JT2 reach 175 nm (6417.0 cm-1) and 218.6 nm (9916.7 cm-1) in the acetonitrile solution, respectively. There is an excellent linear correlation between the Stokes shifts and the ET (30) solvent polarity values in different solvents. The high responsiveness of JT1 and JT2 to solvent polarity makes them promising candidates for solvatochromic fluorescence probes, especially for the detection of the polarity of non-proton solvents or the content of water in tetrahydrofuran.
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Affiliation(s)
- Zhen-E Chen
- School of Chemistry and Chemical Engineering, Zunyi Normal College, Zunyi 563006, China.
| | - Qiang-Long Qi
- School of Chemistry and Chemical Engineering, Zunyi Normal College, Zunyi 563006, China
| | - Hai Zhang
- School of Chemistry and Chemical Engineering, Zunyi Normal College, Zunyi 563006, China.
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13
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Rodríguez J, Martínez-Calvo M. Transition-Metal-Mediated Modification of Biomolecules. Chemistry 2020; 26:9792-9813. [PMID: 32602145 DOI: 10.1002/chem.202001287] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2020] [Revised: 06/25/2020] [Indexed: 01/15/2023]
Abstract
The site-selective modification of biomolecules has grown spectacularly in recent years. The presence of a large number of functional groups in a biomolecule makes its chemo- and regioselective modification a challenging goal. In this context, transition-metal-mediated reactions are emerging as a powerful tool owing to their unique reactivity and good functional group compatibility, allowing highly efficient and selective bioconjugation reactions that operate under mild conditions. This Minireview focuses on the current state of organometallic chemistry for bioconjugation, highlighting the potential of transition metals for the development of chemoselective and site-specific methods for functionalization of peptides, proteins and nucleic acids. The importance of the selection of ligands attached to the transition metal for conferring the desired chemoselectivity will be highlighted.
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Affiliation(s)
- Jessica Rodríguez
- Laboratoire Hétérochimie Fondamentale et Appliquée, Université Paul Sabatier/CNRS UMR 5069, 118 Route de Narbonne, 31062, Toulouse Cedex 09, France
| | - Miguel Martínez-Calvo
- Centro de Investigaciones Científicas Avanzadas (CICA), AE CICA-INIBIC, Departamento de Química, Facultade de Ciencias, Universidade da Coruña, Campus de Elviña, 15071 A, Coruña, Galicia, Spain
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14
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Song C, Liu K, Wang Z, Ding B, Wang S, Weng Y, Chiang CW, Lei A. Electrochemical oxidation induced selective tyrosine bioconjugation for the modification of biomolecules. Chem Sci 2019; 10:7982-7987. [PMID: 31673320 PMCID: PMC6788519 DOI: 10.1039/c9sc02218j] [Citation(s) in RCA: 64] [Impact Index Per Article: 12.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2019] [Accepted: 07/07/2019] [Indexed: 12/26/2022] Open
Abstract
Directly introducing a beneficial functional group into biomolecules under mild, clean and easy-to-handle conditions is of great importance in the field of chemical biology and pharmacology. Herein, we described an electrochemical strategy to perform the bioconjugation of tyrosine residues with phenothiazine derivatives in a rapid and simple manner. In this electrochemical system, various polypeptides and proteins were successfully labelled with excellent site- and chemo-selectivity, and metals, oxidants or additives were also avoided.
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Affiliation(s)
- Chunlan Song
- College of Chemistry and Molecular Sciences , Institute for Advanced Studies (IAS) , Wuhan University , Wuhan 430072 , P. R. China .
| | - Kun Liu
- College of Chemistry and Molecular Sciences , Institute for Advanced Studies (IAS) , Wuhan University , Wuhan 430072 , P. R. China .
| | - Zhongjie Wang
- College of Chemistry and Molecular Sciences , Institute for Advanced Studies (IAS) , Wuhan University , Wuhan 430072 , P. R. China .
| | - Bo Ding
- College of Chemistry and Molecular Sciences , Institute for Advanced Studies (IAS) , Wuhan University , Wuhan 430072 , P. R. China .
| | - Shengchun Wang
- College of Chemistry and Molecular Sciences , Institute for Advanced Studies (IAS) , Wuhan University , Wuhan 430072 , P. R. China .
| | - Yue Weng
- College of Chemistry and Molecular Sciences , Institute for Advanced Studies (IAS) , Wuhan University , Wuhan 430072 , P. R. China .
- National Synchrotron Radiation Research Center (NSRRC) , Hsinchu Science Park , Hsinchu , Taiwan
| | - Chien-Wei Chiang
- College of Chemistry and Molecular Sciences , Institute for Advanced Studies (IAS) , Wuhan University , Wuhan 430072 , P. R. China .
| | - Aiwen Lei
- College of Chemistry and Molecular Sciences , Institute for Advanced Studies (IAS) , Wuhan University , Wuhan 430072 , P. R. China .
- National Research Center for Carbohydrate Synthesis , Jiangxi Normal University , Nanchang 330022 , P. R. China
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15
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Ohata J, Martin SC, Ball ZT. Metallvermittelte Funktionalisierung natürlicher Peptide und Proteine: Biokonjugation mit Übergangsmetallen. Angew Chem Int Ed Engl 2019. [DOI: 10.1002/ange.201807536] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Affiliation(s)
- Jun Ohata
- Department of Chemistry Rice University 6100 Main Houston TX 77005 USA
| | - Samuel C. Martin
- Department of Chemistry Rice University 6100 Main Houston TX 77005 USA
| | - Zachary T. Ball
- Department of Chemistry Rice University 6100 Main Houston TX 77005 USA
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16
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Ohata J, Martin SC, Ball ZT. Metal‐Mediated Functionalization of Natural Peptides and Proteins: Panning for Bioconjugation Gold. Angew Chem Int Ed Engl 2019; 58:6176-6199. [DOI: 10.1002/anie.201807536] [Citation(s) in RCA: 47] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2018] [Indexed: 01/02/2023]
Affiliation(s)
- Jun Ohata
- Department of Chemistry Rice University 6100 Main Houston TX 77005 USA
| | - Samuel C. Martin
- Department of Chemistry Rice University 6100 Main Houston TX 77005 USA
| | - Zachary T. Ball
- Department of Chemistry Rice University 6100 Main Houston TX 77005 USA
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17
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Alvarez-Dorta D, Thobie-Gautier C, Croyal M, Bouzelha M, Mével M, Deniaud D, Boujtita M, Gouin SG. Electrochemically Promoted Tyrosine-Click-Chemistry for Protein Labeling. J Am Chem Soc 2018; 140:17120-17126. [DOI: 10.1021/jacs.8b09372] [Citation(s) in RCA: 61] [Impact Index Per Article: 10.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Dimitri Alvarez-Dorta
- Chimie Et Interdisciplinarité, Synthèse, Analyse, Modélisation (CEISAM), UMR CNRS 6230, UFR des Sciences et des Techniques, Université de Nantes, 2 rue de la Houssinière, BP 92208, 44322 Nantes Cedex 3, France
| | - Christine Thobie-Gautier
- Chimie Et Interdisciplinarité, Synthèse, Analyse, Modélisation (CEISAM), UMR CNRS 6230, UFR des Sciences et des Techniques, Université de Nantes, 2 rue de la Houssinière, BP 92208, 44322 Nantes Cedex 3, France
| | - Mikael Croyal
- Centre de Recherche en Nutrition Humaine Ouest (CRNHO), West Human Nutrition Research Center, F-44000 Nantes, France
- UMR 1280 PhAN, INRA, F-44000 Nantes, France
| | | | - Mathieu Mével
- INSERM UMR1089, Université de Nantes, CHU de Nantes, France
| | - David Deniaud
- Chimie Et Interdisciplinarité, Synthèse, Analyse, Modélisation (CEISAM), UMR CNRS 6230, UFR des Sciences et des Techniques, Université de Nantes, 2 rue de la Houssinière, BP 92208, 44322 Nantes Cedex 3, France
| | - Mohammed Boujtita
- Chimie Et Interdisciplinarité, Synthèse, Analyse, Modélisation (CEISAM), UMR CNRS 6230, UFR des Sciences et des Techniques, Université de Nantes, 2 rue de la Houssinière, BP 92208, 44322 Nantes Cedex 3, France
| | - Sébastien G. Gouin
- Chimie Et Interdisciplinarité, Synthèse, Analyse, Modélisation (CEISAM), UMR CNRS 6230, UFR des Sciences et des Techniques, Université de Nantes, 2 rue de la Houssinière, BP 92208, 44322 Nantes Cedex 3, France
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18
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Sato S, Tsushima M, Nakamura K, Nakamura H. [Development and Application of Catalytic Tyrosine Modification]. YAKUGAKU ZASSHI 2018; 138:39-46. [PMID: 29311464 DOI: 10.1248/yakushi.17-00186-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
The chemical labeling of proteins with synthetic probes is a key technique used in chemical biology, protein-based therapy, and material science. Much of the chemical labeling of native proteins, however, depends on the labeling of lysine and cysteine residues. While those methods have significantly contributed to native protein labeling, alternative methods that can modify different amino acid residues are still required. Herein we report the development of a novel methodology of tyrosine labeling, inspired by the luminol chemiluminescence reaction. Tyrosine residues are often exposed on a protein's surface and are thus expected to be good targets for protein functionalization. In our studies so far, we have found that 1) hemin oxidatively activates luminol derivatives as a catalyst, 2) N-methyl luminol derivative specifically forms a covalent bond with a tyrosine residue among the 20 kinds of natural amino acid residues, and 3) the efficiency of tyrosine labeling with N-methyl luminol derivative is markedly improved by using horseradish peroxidase (HRP) as a catalyst. We were able to use molecular oxygen as an oxidant under HRP/NADH conditions. By using these methods, the functionalization of purified proteins was carried out. Because N-methyl luminol derivative is an excellent protein labeling reagent that responds to the activation of peroxidase, this new method is expected to open doors to such biological applications as the signal amplification of HRP-conjugated antibodies and the detection of protein association in combination with peroxidase-tag technology.
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Affiliation(s)
- Shinichi Sato
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology
| | - Michihiko Tsushima
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology
| | - Kosuke Nakamura
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology
| | - Hiroyuki Nakamura
- Laboratory for Chemistry and Life Science, Institute of Innovative Research, Tokyo Institute of Technology
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19
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Rouster P, Pavlovic M, Szilagyi I. Immobilization of Superoxide Dismutase on Polyelectrolyte-Functionalized Titania Nanosheets. Chembiochem 2017; 19:404-410. [DOI: 10.1002/cbic.201700502] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2017] [Indexed: 01/06/2023]
Affiliation(s)
- Paul Rouster
- Department of Inorganic and Analytical Chemistry; University of Geneva; 30 Quai Ernest-Ansermet 1205 Geneva Switzerland
| | - Marko Pavlovic
- Department of Inorganic and Analytical Chemistry; University of Geneva; 30 Quai Ernest-Ansermet 1205 Geneva Switzerland
| | - Istvan Szilagyi
- Department of Inorganic and Analytical Chemistry; University of Geneva; 30 Quai Ernest-Ansermet 1205 Geneva Switzerland
- MTA-SZTE Lendület Biocolloids Research Group; Department of Physical Chemistry and Materials Science; University of Szeged; 1 Aradi vértanúk tere 6720 Szeged Hungary
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20
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Jbara M, Maity SK, Brik A. Palladium in der chemischen Synthese und Modifizierung von Proteinen. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201702370] [Citation(s) in RCA: 36] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Muhammad Jbara
- Schulich Faculty of Chemie; Technion - Israel Institute of Technology; Haifa 3200008 Israel
| | - Suman Kumar Maity
- Schulich Faculty of Chemie; Technion - Israel Institute of Technology; Haifa 3200008 Israel
| | - Ashraf Brik
- Schulich Faculty of Chemie; Technion - Israel Institute of Technology; Haifa 3200008 Israel
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21
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Jbara M, Maity SK, Brik A. Palladium in the Chemical Synthesis and Modification of Proteins. Angew Chem Int Ed Engl 2017; 56:10644-10655. [DOI: 10.1002/anie.201702370] [Citation(s) in RCA: 116] [Impact Index Per Article: 16.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2017] [Indexed: 01/24/2023]
Affiliation(s)
- Muhammad Jbara
- Schulich Faculty of Chemistry; Technion-Israel Institute of Technology; Haifa 3200008 Israel
| | - Suman Kumar Maity
- Schulich Faculty of Chemistry; Technion-Israel Institute of Technology; Haifa 3200008 Israel
| | - Ashraf Brik
- Schulich Faculty of Chemistry; Technion-Israel Institute of Technology; Haifa 3200008 Israel
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22
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Abstract
Advances in bioconjugation and native protein modification are appearing at a blistering pace, making it increasingly time consuming for practitioners to identify the best chemical method for modifying a specific amino acid residue in a complex setting. The purpose of this perspective is to provide an informative, graphically rich manual highlighting significant advances in the field over the past decade. This guide will help triage candidate methods for peptide alteration and will serve as a starting point for those seeking to solve long-standing challenges.
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Affiliation(s)
- Justine N. deGruyter
- Department of Chemistry, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, United States
| | - Lara R. Malins
- Department of Chemistry, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, United States
| | - Phil S. Baran
- Department of Chemistry, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, United States
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23
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Sato S, Nakamura K, Nakamura H. Horseradish-Peroxidase-Catalyzed Tyrosine Click Reaction. Chembiochem 2017; 18:475-478. [DOI: 10.1002/cbic.201600649] [Citation(s) in RCA: 31] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2016] [Indexed: 12/20/2022]
Affiliation(s)
- Shinichi Sato
- Laboratory for Chemistry and Life Science; Institute of Innovative Research; Tokyo Institute of Technology; Yokohama 226-8503 Japan
| | - Kosuke Nakamura
- Laboratory for Chemistry and Life Science; Institute of Innovative Research; Tokyo Institute of Technology; Yokohama 226-8503 Japan
| | - Hiroyuki Nakamura
- Laboratory for Chemistry and Life Science; Institute of Innovative Research; Tokyo Institute of Technology; Yokohama 226-8503 Japan
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24
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Bertrand R, Wagner M, Derdau V, Plettenburg O. Mild and Selective Mono-Iodination of Unprotected Peptides as Initial Step for the Synthesis of Bioimaging Probes. Bioconjug Chem 2016; 27:2281-2286. [PMID: 27706941 DOI: 10.1021/acs.bioconjchem.6b00461] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Chemoselective functionalization of peptides and proteins to selectively introduce residues for detection, capture, or specific derivatization is of high interest to the synthetic community. Here we report a new method for the mild and effective mono-iodination of tyrosine residues in fully unprotected peptides. This method is highly chemoselective and compatible with a wide variety of functional groups. The introduced iodine can subsequently serve as a handle for further functionalization such as introduction of fluorescent dyes and thus be used for chemoselective labeling of isolated peptides.
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Affiliation(s)
- Romain Bertrand
- Research & Development, Integrated Drug Discovery, Sanofi-Aventis Deutschland GmbH , 65926 Frankfurt am Main, Germany.,Department of Nuclear Medicine, Radboud UMC , Nijmegen 6525, The Netherlands
| | - Michael Wagner
- Research & Development, Integrated Drug Discovery, Sanofi-Aventis Deutschland GmbH , 65926 Frankfurt am Main, Germany
| | - Volker Derdau
- Research & Development, Integrated Drug Discovery, Sanofi-Aventis Deutschland GmbH , 65926 Frankfurt am Main, Germany
| | - Oliver Plettenburg
- Research & Development, Integrated Drug Discovery, Sanofi-Aventis Deutschland GmbH , 65926 Frankfurt am Main, Germany.,Leibniz Universität Hannover , Schneiderberg 1B, 30167 Hannover, Germany.,Institute of Medicinal Chemistry, Helmholtz Zentrum München, GmbH, German Research Center for Environmental Health , Ingolstädter Landstrasse 1, 85764 Neuherberg, Germany
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25
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Sato S, Nakamura K, Nakamura H. Tyrosine-Specific Chemical Modification with in Situ Hemin-Activated Luminol Derivatives. ACS Chem Biol 2015; 10:2633-40. [PMID: 26356088 DOI: 10.1021/acschembio.5b00440] [Citation(s) in RCA: 57] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Tyrosine-specific chemical modification was achieved using in situ hemin-activated luminol derivatives. Tyrosine residues in peptide and protein were modified effectively with N-methylated luminol derivatives under oxidative conditions in the presence of hemin and H2O2. Both single and double modifications of the tyrosine residue occurred in the reaction of angiotensin II with N-methylated luminol derivative 9. Tyrosine-specific chemical modification of the model protein bovine serum albumin (BSA) revealed that the surface-exposed tyrosine residues were selectively modified with 9. We succeeded in the functionalization of several proteins using azide-conjugated compound 18 using alkyne-conjugated probes by copper(I)-catalyzed azide-alkyne cycloaddition (CuAAC) or dibenzocyclooctyne (DBCO)-mediated copper-free click chemistry. This tyrosine-specific modification was orthogonal to conventional lysine modification by N-hydroxysuccinimide (NHS) ester, and dual functionalization by fluorescence modification of tyrosine residues and PEG modification of lysine residues was achieved without affecting the modification efficiency.
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Affiliation(s)
- Shinichi Sato
- Chemical Resources Laboratory, Tokyo Institute of Technology, Yokohama 226-8503, Japan
| | - Kosuke Nakamura
- Chemical Resources Laboratory, Tokyo Institute of Technology, Yokohama 226-8503, Japan
| | - Hiroyuki Nakamura
- Chemical Resources Laboratory, Tokyo Institute of Technology, Yokohama 226-8503, Japan
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26
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Affiliation(s)
- Omar Boutureira
- Departament de Química Analítica i Química Orgànica, Universitat Rovira i Virgili , C/Marcel·lí Domingo s/n, 43007 Tarragona, Spain
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27
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Rosita G, Manuel C, Franco M, Cinzia N, Donatella F, Emiliano L, Luca M, Roberta G. Permethrin and its metabolites affect Cu/Zn superoxide conformation: fluorescence and in silico evidences. MOLECULAR BIOSYSTEMS 2015; 11:208-17. [DOI: 10.1039/c4mb00491d] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Permethrin and its metabolites affect the structure and activity of Cu/Zn superoxide dismutase (SOD), as it results from intrinsic fluorescence, 8-ANS fluorescence techniques and in silico studies.
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Affiliation(s)
- Gabbianelli Rosita
- Scuola del Farmaco e dei Prodotti della Salute Università di Camerino
- Via Gentile III da Varano
- Camerino
- Italy
| | - Carloni Manuel
- Scuola del Farmaco e dei Prodotti della Salute Università di Camerino
- Via Gentile III da Varano
- Camerino
- Italy
| | - Marmocchi Franco
- Scuola del Farmaco e dei Prodotti della Salute Università di Camerino
- Via Gentile III da Varano
- Camerino
- Italy
| | - Nasuti Cinzia
- Scuola del Farmaco e dei Prodotti della Salute Università di Camerino
- Via Gentile III da Varano
- Camerino
- Italy
| | - Fedeli Donatella
- Scuola del Farmaco e dei Prodotti della Salute Università di Camerino
- Via Gentile III da Varano
- Camerino
- Italy
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28
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Jones LH, Narayanan A, Hett EC. Understanding and applying tyrosine biochemical diversity. MOLECULAR BIOSYSTEMS 2014; 10:952-69. [PMID: 24623162 DOI: 10.1039/c4mb00018h] [Citation(s) in RCA: 55] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
This review highlights some of the recent advances made in our understanding of the diversity of tyrosine biochemistry and shows how this has inspired novel applications in numerous areas of molecular design and synthesis, including chemical biology and bioconjugation. The pathophysiological implications of tyrosine biochemistry will be presented from a molecular perspective and the opportunities for therapeutic intervention explored.
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Affiliation(s)
- Lyn H Jones
- Pfizer R&D, Chemical Biology Group, BioTherapeutics Chemistry, WorldWide Medicinal Chemistry, 200 Cambridge Park Drive, Cambridge, MA 02140, USA.
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29
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McKay CS, Finn MG. Click chemistry in complex mixtures: bioorthogonal bioconjugation. CHEMISTRY & BIOLOGY 2014; 21:1075-101. [PMID: 25237856 PMCID: PMC4331201 DOI: 10.1016/j.chembiol.2014.09.002] [Citation(s) in RCA: 551] [Impact Index Per Article: 55.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/21/2014] [Revised: 09/01/2014] [Accepted: 09/02/2014] [Indexed: 01/18/2023]
Abstract
The selective chemical modification of biological molecules drives a good portion of modern drug development and fundamental biological research. While a few early examples of reactions that engage amine and thiol groups on proteins helped establish the value of such processes, the development of reactions that avoid most biological molecules so as to achieve selectivity in desired bond-forming events has revolutionized the field. We provide an update on recent developments in bioorthogonal chemistry that highlights key advances in reaction rates, biocompatibility, and applications. While not exhaustive, we hope this summary allows the reader to appreciate the rich continuing development of good chemistry that operates in the biological setting.
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Affiliation(s)
- Craig S McKay
- School of Chemistry & Biochemistry, Georgia Institute of Technology, Atlanta, GA 30332, USA
| | - M G Finn
- School of Chemistry & Biochemistry, Georgia Institute of Technology, Atlanta, GA 30332, USA.
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30
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Yang Z, Cao J, He Y, Yang JH, Kim T, Peng X, Kim JS. Macro-/micro-environment-sensitive chemosensing and biological imaging. Chem Soc Rev 2014; 43:4563-601. [DOI: 10.1039/c4cs00051j] [Citation(s) in RCA: 604] [Impact Index Per Article: 60.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
We have summarized the research progress on fluorescent sensors responsive to environmental factors, including local viscosity, polarity, temperature, hypoxia and pH.
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Affiliation(s)
- Zhigang Yang
- Department of Chemistry
- Korea University
- Seoul 136-701, Korea
- Key Laboratory of Sensor Analysis of Tumor Marker Ministry of Education
- College of Chemistry and Molecular Engineering
| | - Jianfang Cao
- State Key Laboratory of Fine Chemicals
- Dalian University of Technology
- Dalian 116024, China
| | - Yanxia He
- Department of Chemistry
- Korea University
- Seoul 136-701, Korea
- Key Laboratory of Sensor Analysis of Tumor Marker Ministry of Education
- College of Chemistry and Molecular Engineering
| | - Jung Ho Yang
- Department of Chemistry
- Korea University
- Seoul 136-701, Korea
| | - Taeyoung Kim
- Department of Chemistry
- Korea University
- Seoul 136-701, Korea
| | - Xiaojun Peng
- State Key Laboratory of Fine Chemicals
- Dalian University of Technology
- Dalian 116024, China
| | - Jong Seung Kim
- Department of Chemistry
- Korea University
- Seoul 136-701, Korea
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31
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Cserép GB, Herner A, Wolfbeis OS, Kele P. Tyrosine specific sequential labeling of proteins. Bioorg Med Chem Lett 2013; 23:5776-8. [DOI: 10.1016/j.bmcl.2013.09.002] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2013] [Revised: 08/30/2013] [Accepted: 09/03/2013] [Indexed: 01/23/2023]
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32
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Ilizaliturri-Flores I, Correa-Basurto J, Benítez-Cardoza CG, Zamorano-Carrillo A. A study of the structural properties and thermal stability of human Bcl-2 by molecular dynamics simulations. J Biomol Struct Dyn 2013; 32:1707-19. [PMID: 24028527 DOI: 10.1080/07391102.2013.833858] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Abstract
The anti-apoptotic B-cell lymphoma 2 (Bcl-2) protein interacts with several proteins that regulate the apoptotic properties of cells. In this research, we conduct several all-atom molecular dynamics (MD) simulations under high-temperature unfolding conditions, from 400 to 800 K, for 25 ns. These simulations were performed using a model of an engineered Bcl-2 human protein (Bcl-2-Δ22Σ3), which lacks 22 C-terminal residues of the transmembrane domain. The aim of this study is to gain insight into the structural behavior of Bcl-2-Δ22Σ3 by mapping the conformational movements involved in Bcl-2 stability and its biological function. To build a Bcl-2-Δ22Σ3 three-dimensional model, the protein core was built by homology modeling and the flexible loop domain (FLD, residues 33-91) by ab initio methods. Further, the entire protein model was refined by MD simulations. Afterwards, the production MD simulations showed that the FLD at 400 and 500 K has several conformations reaching into the protein core, whereas at 600 K some of the alpha-helices were lost. At 800 K, the Bcl-2 core is destabilized suggesting a possible mechanism for protein unfolding, where the alpha helices 1 and 6 were the most stable, and a reduction in the number of hydrogen bonds initially occurs. In conclusion, the structural changes and the internal protein interactions suggest that the core and the FLD are crucial components of Bcl-2 in its function of regulate ng access to the recognition sites of kinases and caspases.
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Affiliation(s)
- Ian Ilizaliturri-Flores
- a Laboratorio de Investigación Bioquímica, Doctorado en Ciencias en Biotecnología , ENMH, Instituto Politécnico Nacional , Guillermo Massieu Helguera #239 Fracc. "La Escalera" Ticoman, C.P. 07320, D.F. México , Mexico
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33
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Yuan L, Lin W, Zheng K, He L, Huang W. Far-red to near infrared analyte-responsive fluorescent probes based on organic fluorophore platforms for fluorescence imaging. Chem Soc Rev 2013; 42:622-61. [DOI: 10.1039/c2cs35313j] [Citation(s) in RCA: 1456] [Impact Index Per Article: 132.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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34
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Herner A, Nikić I, Kállay M, Lemke EA, Kele P. A new family of bioorthogonally applicable fluorogenic labels. Org Biomol Chem 2013; 11:3297-306. [DOI: 10.1039/c3ob40296g] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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35
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Uchiyama S, Kimura K, Gota C, Okabe K, Kawamoto K, Inada N, Yoshihara T, Tobita S. Environment-Sensitive Fluorophores with Benzothiadiazole and Benzoselenadiazole Structures as Candidate Components of a Fluorescent Polymeric Thermometer. Chemistry 2012; 18:9552-63. [DOI: 10.1002/chem.201200597] [Citation(s) in RCA: 73] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2012] [Indexed: 12/17/2022]
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36
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Brightly fluorescent purple and blue labels for amines and proteins. Bioorg Med Chem Lett 2011; 21:5538-42. [DOI: 10.1016/j.bmcl.2011.06.133] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2011] [Revised: 06/20/2011] [Accepted: 06/20/2011] [Indexed: 11/19/2022]
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37
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Popp BV, Ball ZT. Proximity-driven metallopeptide catalysis: Remarkable side-chain scope enables modification of the Fos bZip domain. Chem Sci 2011. [DOI: 10.1039/c0sc00564a] [Citation(s) in RCA: 76] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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38
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Link M, Li X, Kleim J, Wolfbeis OS. Click Chemistry Based Method for the Preparation of Maleinimide-Type Thiol-Reactive Labels. European J Org Chem 2010. [DOI: 10.1002/ejoc.201001085] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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Baslé E, Joubert N, Pucheault M. Protein chemical modification on endogenous amino acids. ACTA ACUST UNITED AC 2010; 17:213-27. [PMID: 20338513 DOI: 10.1016/j.chembiol.2010.02.008] [Citation(s) in RCA: 301] [Impact Index Per Article: 21.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2009] [Revised: 01/29/2010] [Accepted: 02/11/2010] [Indexed: 12/15/2022]
Abstract
Chemical modification of protein is an arduous but fruitful task. Many chemical methods have been developed for such purpose by carefully balancing reactivity and selectivity. Now both chemists and biologists have in hand an arsenal of tools from which they can select a relevant reaction to tackle their problems. This review focuses on the various chemical transformations available for selective modification of proteins. It also provides a brief overview of some of their main applications, including detection of protein interactions, preparation of bioconjugates, and protein microarrays.
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Affiliation(s)
- Emmanuel Baslé
- Molecular Chemistry and Photonic, UMR 6510 CPM, Centre National de la Recherche Scientifique, Université de Rennes1, 263 Avenue du Général Leclerc, 35042 Rennes cedex, France
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Jia J, Chen W, Ma H, Wang K, Zhao C. Use of a rhodamine-based bifunctional probe in N-terminal specific labeling of Thermomyces lanuginosus xylanase. MOLECULAR BIOSYSTEMS 2010; 6:1829-33. [DOI: 10.1039/c005223j] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
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