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Gao M, Lu S, Xu B. C-H functionalization enabled by multiple isocyanides. Chem Soc Rev 2024; 53:10147-10170. [PMID: 39228343 DOI: 10.1039/d4cs00028e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/05/2024]
Abstract
Past decades have witnessed significant advance of isocyanides as a class of versatile organic synthons as well as their broad applications in multi-component reactions (MCRs) and other tandem reactions. Reactions involving multiple isocyanides allow the construction of molecules with further diversification and complexity, while C-H functionalization emphasizes the advantages of high atom economy, broad substrate availability and great synthetic efficiency. This promising synergistic strategy of C-H functionalization involving multiple isocyanides provides a variety of valuable synthetic methods for organic chemists' toolbox and offers considerable potential in pharmaceutical chemistry and materials science as well. The present review outlines in detail various reaction types of C-H functionalization enabled by multiple isocyanides, and the relevant mechanistic rationale is discussed.
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Affiliation(s)
- Mingchun Gao
- Department of Chemistry, Affiliated Nantong Hospital of Shanghai University (The Sixth People's Hospital of Nantong), Shanghai Engineering Research Center of Organ Repair, Innovative Drug Research Center, School of Medicine, Shanghai University, Shanghai 200444, China.
| | - Shaohang Lu
- Department of Chemistry, Affiliated Nantong Hospital of Shanghai University (The Sixth People's Hospital of Nantong), Shanghai Engineering Research Center of Organ Repair, Innovative Drug Research Center, School of Medicine, Shanghai University, Shanghai 200444, China.
| | - Bin Xu
- Department of Chemistry, Affiliated Nantong Hospital of Shanghai University (The Sixth People's Hospital of Nantong), Shanghai Engineering Research Center of Organ Repair, Innovative Drug Research Center, School of Medicine, Shanghai University, Shanghai 200444, China.
- State Key Laboratory of Organometallic Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, Shanghai 200032, China
- Joint International Research Laboratory of Biomaterials and Biotechnology in Organ Repair (Ministry of Education), Shanghai University, Shanghai 200444, China
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2
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Neves AR, Godinho S, Gonçalves C, Gomes AS, Almeida JR, Pinto M, Sousa E, Correia-da-Silva M. A Chemical Toolbox to Unveil Synthetic Nature-Inspired Antifouling (NIAF) Compounds. Mar Drugs 2024; 22:416. [PMID: 39330297 PMCID: PMC11433177 DOI: 10.3390/md22090416] [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: 08/02/2024] [Revised: 09/08/2024] [Accepted: 09/09/2024] [Indexed: 09/28/2024] Open
Abstract
The current scenario of antifouling (AF) strategies to prevent the natural process of marine biofouling is based in the use of antifouling paints containing different active ingredients, believed to be harmful to the marine environment. Compounds called booster biocides are being used with copper as an alternative to the traditionally used tributyltin (TBT); however, some of them were recently found to accumulate in coastal waters at levels that are deleterious for marine organisms. More ecological alternatives were pursued, some of them based on the marine organism mechanisms' production of specialized metabolites with AF activity. However, despite the investment in research on AF natural products and their synthetic analogues, many studies showed that natural AF alternatives do not perform as well as the traditional metal-based ones. In the search for AF agents with better performance and to understand which molecular motifs were responsible for the AF activity of natural compounds, synthetic analogues were produced and investigated for structure-AF activity relationship studies. This review is a comprehensive compilation of AF compounds synthesized in the last two decades with highlights on the data concerning their structure-activity relationship, providing a chemical toolbox for researchers to develop efficient nature-inspired AF agents.
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Affiliation(s)
- Ana Rita Neves
- Laboratory of Organic and Pharmaceutical Chemistry, Department of Chemical Sciences, Faculty of Pharmacy, University of Porto, Rua Jorge Viterbo Ferreira, 228, 4050-313 Porto, Portugal
- CIIMAR-Centro Interdisciplinar de Investigação Marinha e Ambiental, Terminal de Cruzeiros do Porto de Leixões, 4450-208 Matosinhos, Portugal
| | - Sara Godinho
- Laboratory of Organic and Pharmaceutical Chemistry, Department of Chemical Sciences, Faculty of Pharmacy, University of Porto, Rua Jorge Viterbo Ferreira, 228, 4050-313 Porto, Portugal
- CIIMAR-Centro Interdisciplinar de Investigação Marinha e Ambiental, Terminal de Cruzeiros do Porto de Leixões, 4450-208 Matosinhos, Portugal
| | - Catarina Gonçalves
- CIIMAR-Centro Interdisciplinar de Investigação Marinha e Ambiental, Terminal de Cruzeiros do Porto de Leixões, 4450-208 Matosinhos, Portugal
| | - Ana Sara Gomes
- CIIMAR-Centro Interdisciplinar de Investigação Marinha e Ambiental, Terminal de Cruzeiros do Porto de Leixões, 4450-208 Matosinhos, Portugal
| | - Joana R Almeida
- CIIMAR-Centro Interdisciplinar de Investigação Marinha e Ambiental, Terminal de Cruzeiros do Porto de Leixões, 4450-208 Matosinhos, Portugal
| | - Madalena Pinto
- Laboratory of Organic and Pharmaceutical Chemistry, Department of Chemical Sciences, Faculty of Pharmacy, University of Porto, Rua Jorge Viterbo Ferreira, 228, 4050-313 Porto, Portugal
- CIIMAR-Centro Interdisciplinar de Investigação Marinha e Ambiental, Terminal de Cruzeiros do Porto de Leixões, 4450-208 Matosinhos, Portugal
| | - Emília Sousa
- Laboratory of Organic and Pharmaceutical Chemistry, Department of Chemical Sciences, Faculty of Pharmacy, University of Porto, Rua Jorge Viterbo Ferreira, 228, 4050-313 Porto, Portugal
- CIIMAR-Centro Interdisciplinar de Investigação Marinha e Ambiental, Terminal de Cruzeiros do Porto de Leixões, 4450-208 Matosinhos, Portugal
| | - Marta Correia-da-Silva
- Laboratory of Organic and Pharmaceutical Chemistry, Department of Chemical Sciences, Faculty of Pharmacy, University of Porto, Rua Jorge Viterbo Ferreira, 228, 4050-313 Porto, Portugal
- CIIMAR-Centro Interdisciplinar de Investigação Marinha e Ambiental, Terminal de Cruzeiros do Porto de Leixões, 4450-208 Matosinhos, Portugal
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3
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Zhao J, Zhang T, Xu H, Hou SL, Ren FY, Han J, Zhao B. CO-Free Aminocarbonylation of Terminal Alkynes Catalyzed by Synergistic Effect From Metal-Organic Frameworks. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2024:e2405308. [PMID: 39234812 DOI: 10.1002/advs.202405308] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/15/2024] [Revised: 08/13/2024] [Indexed: 09/06/2024]
Abstract
Incorporation of CO into substrates to construct high-value carbonyl compounds is an intensive industrial carbonylation procedure, however, high toxicity and wide explosion limits (12.5-74.0 vol% in air) of CO limit its application in industrial production. The development of a CO-free catalytic system for carbonylation is one of ideal methods, but full of challenge. Herein, this study reports the CO-free aminocarbonylation conversion of terminal alkynes synergistically catalyzed by a unique Co(ІІ)/Ag(І) metal-organic framework (MOF), in which the combination of isocyanides and O2 is employed as safe and green source of aminocarbonyl. This reaction has broad substrate applicability in terminal alkyne and isocyanides components with 100% atom economy. The bimetal MOF catalyst can be recycled at least five times without substantial loss of catalytic activities. Mechanistic investigations demonstrate that the synergistic effect between Ag(I) and Co(II) sites can efficiently activate terminal alkyne and isocyanides, respectively. Free radical capture experiments, FT-IR analysis and theoretical explorations further reveal that terminal alkynes and isocyanides can be catalytically transformed into an anionic intermediate through heterolysis pathways. This work provides secure and practical access to carbonylation as well as a new approach to aminocarbonylation of terminal alkynes.
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Affiliation(s)
- Jian Zhao
- Department of Chemistry, Key Laboratory of Advanced Energy Materials Chemistry, Renewable Energy Conversion and Storage Center (RECAST), Nankai University, Tianjin, 300071, P. R. China
| | - Tianze Zhang
- Department of Chemistry, Key Laboratory of Advanced Energy Materials Chemistry, Renewable Energy Conversion and Storage Center (RECAST), Nankai University, Tianjin, 300071, P. R. China
| | - Hang Xu
- Department of Chemistry, Key Laboratory of Advanced Energy Materials Chemistry, Renewable Energy Conversion and Storage Center (RECAST), Nankai University, Tianjin, 300071, P. R. China
| | - Sheng-Li Hou
- Department of Chemistry, Key Laboratory of Advanced Energy Materials Chemistry, Renewable Energy Conversion and Storage Center (RECAST), Nankai University, Tianjin, 300071, P. R. China
| | - Fang-Yu Ren
- Department of Chemistry, Key Laboratory of Advanced Energy Materials Chemistry, Renewable Energy Conversion and Storage Center (RECAST), Nankai University, Tianjin, 300071, P. R. China
| | - Jie Han
- Department of Chemistry, Key Laboratory of Advanced Energy Materials Chemistry, Renewable Energy Conversion and Storage Center (RECAST), Nankai University, Tianjin, 300071, P. R. China
| | - Bin Zhao
- Department of Chemistry, Key Laboratory of Advanced Energy Materials Chemistry, Renewable Energy Conversion and Storage Center (RECAST), Nankai University, Tianjin, 300071, P. R. China
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4
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Rissi DV, Ijaz M, Baschien C. Comparative Genomics of Fungi in Nectriaceae Reveals Their Environmental Adaptation and Conservation Strategies. J Fungi (Basel) 2024; 10:632. [PMID: 39330392 PMCID: PMC11433043 DOI: 10.3390/jof10090632] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2024] [Revised: 08/27/2024] [Accepted: 08/29/2024] [Indexed: 09/28/2024] Open
Abstract
This study presents the first genome assembly of the freshwater saprobe fungus Neonectria lugdunensis and a comprehensive phylogenomics analysis of the Nectriaceae family, examining genomic traits according to fungal lifestyles. The Nectriaceae family, one of the largest in Hypocreales, includes fungi with significant ecological roles and economic importance as plant pathogens, endophytes, and saprobes. The phylogenomics analysis identified 2684 single-copy orthologs, providing a robust evolutionary framework for the Nectriaceae family. We analyzed the genomic characteristics of 17 Nectriaceae genomes, focusing on their carbohydrate-active enzymes (CAZymes), biosynthetic gene clusters (BGCs), and adaptations to environmental temperatures. Our results highlight the adaptation mechanisms of N. lugdunensis, emphasizing its capabilities for plant litter degradation and enzyme activity in varying temperatures. The comparative genomics of different Nectriaceae lifestyles revealed significant differences in genome size, gene content, repetitive elements, and secondary metabolite production. Endophytes exhibited larger genomes, more effector proteins, and BGCs, while plant pathogens had higher thermo-adapted protein counts, suggesting greater resilience to global warming. In contrast, the freshwater saprobe shows less adaptation to warmer temperatures and is important for conservation goals. This study underscores the importance of understanding fungal genomic adaptations to predict ecosystem impacts and conservation targets in the face of climate change.
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Affiliation(s)
- Daniel Vasconcelos Rissi
- Leibniz Institute-DSMZ, German Collection of Microorganisms and Cell Cultures, 38124 Braunschweig, Germany
| | - Maham Ijaz
- Leibniz Institute-DSMZ, German Collection of Microorganisms and Cell Cultures, 38124 Braunschweig, Germany
| | - Christiane Baschien
- Leibniz Institute-DSMZ, German Collection of Microorganisms and Cell Cultures, 38124 Braunschweig, Germany
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5
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Chen J, Zhang L, Wang Z, Liu L, Tu L, Zhang Y, Chen Y, Han W. De Novo Synthesis of α-Ketoamides via Pd/TBD Synergistic Catalysis. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2024; 11:e2404266. [PMID: 38986026 PMCID: PMC11425860 DOI: 10.1002/advs.202404266] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/22/2024] [Revised: 06/17/2024] [Indexed: 07/12/2024]
Abstract
Precisely controlling the product selectivity of a reaction is an important objective in organic synthesis. α-Ketoamides are vital intermediates in chemical transformations and privileged motifs in numerous drugs, natural products, and biologically active molecules. The selective synthesis of α-ketoamides from feedstock chemicals in a safe and operationally simple manner under mild conditions is a long-standing catalysis challenge. Herein, an unprecedented TBD-switched Pd-catalyzed double isocyanide insertion reaction for assembling ketoamides in aqueous DMSO from (hetero)aryl halides and pseudohalides under mild conditions is reported. The effectiveness and utility of this protocol are demonstrated by its diverse substrate scope (93 examples), the ability to late-stage modify pharmaceuticals, scalability to large-scale synthesis, and the synthesis of pharmaceutically active molecules. Mechanistic studies indicate that TBD is a key ligand that modulates the Pd-catalyzed double isocyanide insertion process, thereby selectively providing the desired α-ketoamides in a unique manner. In addition, the imidoylpalladium(II) complex and α-ketoimine amide are successfully isolated and determined by X-ray analysis, confirming that they are probable intermediates in the catalytic pathway.
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Affiliation(s)
- Jia‐He Chen
- Key Laboratory of Biocatalysis & Chiral Drug Synthesis of Guizhou ProvinceGeneric Drug Research Center of Guizhou ProvinceGreen Pharmaceuticals Engineering Research Center of Guizhou ProvinceSchool of Pharmacy, Zunyi Medical UniversityNo. 6 West Xuefu Rd.Zunyi563006China
| | - Li‐Ren Zhang
- Key Laboratory of Biocatalysis & Chiral Drug Synthesis of Guizhou ProvinceGeneric Drug Research Center of Guizhou ProvinceGreen Pharmaceuticals Engineering Research Center of Guizhou ProvinceSchool of Pharmacy, Zunyi Medical UniversityNo. 6 West Xuefu Rd.Zunyi563006China
| | - Zhang‐Yang Wang
- Key Laboratory of Biocatalysis & Chiral Drug Synthesis of Guizhou ProvinceGeneric Drug Research Center of Guizhou ProvinceGreen Pharmaceuticals Engineering Research Center of Guizhou ProvinceSchool of Pharmacy, Zunyi Medical UniversityNo. 6 West Xuefu Rd.Zunyi563006China
| | - Lu‐Jie Liu
- Key Laboratory of Biocatalysis & Chiral Drug Synthesis of Guizhou ProvinceGeneric Drug Research Center of Guizhou ProvinceGreen Pharmaceuticals Engineering Research Center of Guizhou ProvinceSchool of Pharmacy, Zunyi Medical UniversityNo. 6 West Xuefu Rd.Zunyi563006China
| | - Li‐Ping Tu
- Key Laboratory of Biocatalysis & Chiral Drug Synthesis of Guizhou ProvinceGeneric Drug Research Center of Guizhou ProvinceGreen Pharmaceuticals Engineering Research Center of Guizhou ProvinceSchool of Pharmacy, Zunyi Medical UniversityNo. 6 West Xuefu Rd.Zunyi563006China
| | - Yun Zhang
- Key Laboratory of Biocatalysis & Chiral Drug Synthesis of Guizhou ProvinceGeneric Drug Research Center of Guizhou ProvinceGreen Pharmaceuticals Engineering Research Center of Guizhou ProvinceSchool of Pharmacy, Zunyi Medical UniversityNo. 6 West Xuefu Rd.Zunyi563006China
- Key Laboratory of Basic Pharmacology of Ministry of Education and Joint International Research Laboratory of Ethnomedicine of Ministry of EducationZunyi Medical UniversityNo. 6 West Xuefu Rd.Zunyi563006China
| | - Yong‐Zheng Chen
- Key Laboratory of Biocatalysis & Chiral Drug Synthesis of Guizhou ProvinceGeneric Drug Research Center of Guizhou ProvinceGreen Pharmaceuticals Engineering Research Center of Guizhou ProvinceSchool of Pharmacy, Zunyi Medical UniversityNo. 6 West Xuefu Rd.Zunyi563006China
- Key Laboratory of Basic Pharmacology of Ministry of Education and Joint International Research Laboratory of Ethnomedicine of Ministry of EducationZunyi Medical UniversityNo. 6 West Xuefu Rd.Zunyi563006China
| | - Wen‐Yong Han
- Key Laboratory of Biocatalysis & Chiral Drug Synthesis of Guizhou ProvinceGeneric Drug Research Center of Guizhou ProvinceGreen Pharmaceuticals Engineering Research Center of Guizhou ProvinceSchool of Pharmacy, Zunyi Medical UniversityNo. 6 West Xuefu Rd.Zunyi563006China
- Key Laboratory of Basic Pharmacology of Ministry of Education and Joint International Research Laboratory of Ethnomedicine of Ministry of EducationZunyi Medical UniversityNo. 6 West Xuefu Rd.Zunyi563006China
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6
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Jia K, Sun H, Zhou Y, Zhang W. Biosynthesis of isonitrile lipopeptides. Curr Opin Chem Biol 2024; 81:102470. [PMID: 38788523 PMCID: PMC11323250 DOI: 10.1016/j.cbpa.2024.102470] [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: 02/28/2024] [Revised: 04/25/2024] [Accepted: 05/02/2024] [Indexed: 05/26/2024]
Abstract
Isonitrile lipopeptides discovered from Actinobacteria have attracted wide attention due to their fascinating biosynthetic pathways and relevance to the virulence of many human pathogens including Mycobacterium tuberculosis. Specifically, the identification of the new class of isonitrile-forming enzymes that belong to non-heme iron (II) and α-ketoglutarate dependent dioxygenases has intrigued several research groups to investigate their catalytic mechanism. Here we summarize the recent studies on the biosynthesis of isonitrile lipopeptides from Streptomyces and Mycobacterium. The latest research on the core and tailoring enzymes involved in the pathway as well as the isonitrile metabolic enzymes are discussed in this review.
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Affiliation(s)
- Kaimin Jia
- Department of Chemical and Biomolecular Engineering, University of California Berkeley, Berkeley, CA 94720, United States; California Institute for Quantitative Biosciences, University of California Berkeley, Berkeley, CA 94720, United States
| | - Helen Sun
- Department of Chemical and Biomolecular Engineering, University of California Berkeley, Berkeley, CA 94720, United States
| | - Yiyan Zhou
- Department of Molecular and Cell Biology, University of California Berkeley, Berkeley, CA 94720, United States
| | - Wenjun Zhang
- Department of Chemical and Biomolecular Engineering, University of California Berkeley, Berkeley, CA 94720, United States; California Institute for Quantitative Biosciences, University of California Berkeley, Berkeley, CA 94720, United States.
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7
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Geißler A, Junca H, Kany AM, Daumann LJ, Hirsch AKH, Pieper DH, Sieber SA. Isocyanides inhibit bacterial pathogens by covalent targeting of essential metabolic enzymes. Chem Sci 2024; 15:11946-11955. [PMID: 39092115 PMCID: PMC11290450 DOI: 10.1039/d4sc01940g] [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: 03/22/2024] [Accepted: 06/23/2024] [Indexed: 08/04/2024] Open
Abstract
Isonitrile natural products, also known as isocyanides, demonstrate potent antimicrobial activities, yet our understanding of their molecular targets remains limited. Here, we focus on the so far neglected group of monoisonitriles to gain further insights into their antimicrobial mode of action (MoA). Screening a focused monoisonitrile library revealed a potent S. aureus growth inhibitor with a different MoA compared to previously described isonitrile antibiotics. Chemical proteomics via competitive cysteine reactivity profiling, uncovered covalent modifications of two essential metabolic enzymes involved in the fatty acid biosynthetic process (FabF) and the hexosamine pathway (GlmS) at their active site cysteines. In-depth studies with the recombinant enzymes demonstrated concentration-dependent labeling, covalent binding to the catalytic site and corresponding functional inhibition by the isocyanide. Thermal proteome profiling and full proteome studies of compound-treated S. aureus further highlighted the destabilization and dysregulation of proteins related to the targeted pathways. Cytotoxicity and the inhibition of cytochrome P450 enzymes require optimization of the hit molecule prior to therapeutic application. The here described novel, covalent isocyanide MoA highlights the versatility of the functional group, making it a useful tool and out-of-the-box starting point for the development of innovative antibiotics.
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Affiliation(s)
- Alexandra Geißler
- Center for Functional Protein Assemblies, Department of Bioscience, TUM School of Natural Sciences, Technical University of Munich Ernst-Otto-Fischer-Straße 8 85748 Garching Germany
| | - Howard Junca
- Microbial Interactions and Processes Research Group, Helmholtz Centre for Infection Research Inhoffenstraße 7 38124 Braunschweig Germany
| | - Andreas M Kany
- Helmholtz Institute for Pharmaceutical Research Saarland (HIPS) - Helmholtz Centre for Infection Research (HZI) Campus E8.1 66123 Saarbrücken Germany
- Deutsches Zentrum für Infektionsforschung (DZIF) e.V. 38124 Braunschweig Germany
| | - Lena J Daumann
- Chair of Bioinorganic Chemistry, Heinrich-Heine-Universität Düsseldorf Universitätsstraße 1 40225 Düsseldorf Germany
| | - Anna K H Hirsch
- Helmholtz Institute for Pharmaceutical Research Saarland (HIPS) - Helmholtz Centre for Infection Research (HZI) Campus E8.1 66123 Saarbrücken Germany
- Saarland University, Department of Pharmacy 66123 Saarbrücken Germany
- Deutsches Zentrum für Infektionsforschung (DZIF) e.V. 38124 Braunschweig Germany
| | - Dietmar H Pieper
- Microbial Interactions and Processes Research Group, Helmholtz Centre for Infection Research Inhoffenstraße 7 38124 Braunschweig Germany
| | - Stephan A Sieber
- Center for Functional Protein Assemblies, Department of Bioscience, TUM School of Natural Sciences, Technical University of Munich Ernst-Otto-Fischer-Straße 8 85748 Garching Germany
- Helmholtz Institute for Pharmaceutical Research Saarland (HIPS) - Helmholtz Centre for Infection Research (HZI) Campus E8.1 66123 Saarbrücken Germany
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8
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Pawlak M, Pobłocki K, Drzeżdżon J, Gawdzik B, Jacewicz D. "Isocyanates and isocyanides - life-threatening toxins or essential compounds?". THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 934:173250. [PMID: 38761928 DOI: 10.1016/j.scitotenv.2024.173250] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/24/2023] [Revised: 04/14/2024] [Accepted: 05/12/2024] [Indexed: 05/20/2024]
Abstract
Isocyanides and isocyanates are some of the most reactive compounds in organic chemistry, making them perceived as compounds with high potential for use in both the laboratory and industry. With their high reactivity also comes several disadvantages, most notably their potentially high toxicity. The following article is a collection of information on the toxic effects of the isocyanide group on the human body and the environment. Information on the mechanism of how these harmful substances affect living tissues and the environment, worldwide information on how to protect against these chemicals, current regulations, and exposure limits for specific countries is compiled. The latest research on the application uses of isocyanates and isocyanides is also outlined, as well as the latest safer and greener methods and techniques to work with these compounds. Additionally, the presented article can serve as a brief guide to the organic toxicity of a group of isocyanates and isocyanates.
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Affiliation(s)
- Marta Pawlak
- Faculty of Chemistry, Department of Environmental Technology, University of Gdansk, Wita Stwosza 63, Gdansk, Poland.
| | - Kacper Pobłocki
- Faculty of Chemistry, Department of Environmental Technology, University of Gdansk, Wita Stwosza 63, Gdansk, Poland
| | - Joanna Drzeżdżon
- Faculty of Chemistry, Department of Environmental Technology, University of Gdansk, Wita Stwosza 63, Gdansk, Poland
| | - Barbara Gawdzik
- Institute of Chemistry, Jan Kochanowski University, Uniwersytecka 7, 25-406 Kielce, Poland
| | - Dagmara Jacewicz
- Faculty of Chemistry, Department of Environmental Technology, University of Gdansk, Wita Stwosza 63, Gdansk, Poland.
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9
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Del Rio Flores A, Zhai R, Zhang W. Isonitrile biosynthesis by non-heme iron(II)-dependent oxidases/decarboxylases. Methods Enzymol 2024; 704:143-172. [PMID: 39300646 PMCID: PMC11424024 DOI: 10.1016/bs.mie.2024.06.002] [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] [Indexed: 09/22/2024]
Abstract
The isonitrile group is a compact, electron-rich moiety coveted for its commonplace as a building block and bioorthogonal functionality in synthetic chemistry and chemical biology. Hundreds of natural products containing an isonitrile group with intriguing bioactive properties have been isolated from diverse organisms. Our recent discovery of a conserved biosynthetic gene cluster in some Actinobacteria species highlighted a novel enzymatic pathway to isonitrile formation involving a non-heme iron(II) and α-ketoglutarate-dependent dioxygenase. Here, we focus this chapter on recent advances in understanding and probing the biosynthetic machinery for isonitrile synthesis by non-heme iron(II) and α-ketoglutarate-dependent dioxygenases. We will begin by describing how to harness isonitrile enzymatic machinery through heterologous expression, purification, synthetic strategies, and in vitro biochemical/kinetic characterization. We will then describe a generalizable strategy to probe the mechanism for isonitrile formation by combining various spectroscopic methods. The chapter will also cover strategies to study other enzyme homologs by implementing coupled assays using biosynthetic pathway enzymes. We will conclude this chapter by addressing current challenges and future directions in understanding and engineering isonitrile synthesis.
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Affiliation(s)
- Antonio Del Rio Flores
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, CA, United States
| | - Rui Zhai
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, CA, United States
| | - Wenjun Zhang
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, CA, United States.
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10
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Brunelli F, Russo C, Giustiniano M, Tron GC. Exploiting the Different Nucleophilicity of the Isocyano Group: A Strategy for the Isocyanide Functionalization. J Org Chem 2024; 89:5833-5840. [PMID: 38581396 DOI: 10.1021/acs.joc.3c02529] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/08/2024]
Abstract
By exploiting the different nucleophilicity of aromatic and aliphatic isocyanides, we selectively react aliphatic isocyano groups while preserving aromatic ones in Passerini and Ugi multicomponent reactions. This simple approach allows the synthesis of α-acyloxy carboxamides or α-acylamino carboxamides possessing one or two isocyanide groups, which are challenging to achieve through traditional formylation and dehydration protocols. These analogues have the potential to serve as valuable building blocks with diverse applications.
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Affiliation(s)
- Francesca Brunelli
- Dipartimento di Scienze del Farmaco, Università del Piemonte Orientale, Largo Donegani 2, 28100 Novara, Italy
| | - Camilla Russo
- Dipartimento di Farmacia, Università degli Studi Federico II, Via D. Montesano 49, 80131 Napoli, Italy
| | - Mariateresa Giustiniano
- Dipartimento di Farmacia, Università degli Studi Federico II, Via D. Montesano 49, 80131 Napoli, Italy
| | - Gian Cesare Tron
- Dipartimento di Scienze del Farmaco, Università del Piemonte Orientale, Largo Donegani 2, 28100 Novara, Italy
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11
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Chen TY, Chen J, Ruszczycky MW, Hilovsky D, Hostetler T, Liu X, Zhou J, Chang WC. Variation in biosynthesis and metal-binding properties of isonitrile-containing peptides produced by Mycobacteria versus Streptomyces. ACS Catal 2024; 14:4975-4983. [PMID: 38895101 PMCID: PMC11185824 DOI: 10.1021/acscatal.4c00645] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/21/2024]
Abstract
A number of bacteria are known to produce isonitrile-containing peptides (INPs) that facilitate metal transport and are important for cell survival; however, considerable structural variation is observed among INPs depending on the producing organism. While non-heme iron 2-oxoglutarate dependent isonitrilases catalyze isonitrile formation, how the natural variation in INP structure is controlled and its implications for INP bioactivity remain open questions. Herein, total chemical synthesis is utilized with X-Ray crystallographic analysis of mycobacterial isonitrilases to provide a structural model of substrate specificity that explains the longer alkyl chains observed in mycobacterial versus Streptomyces INPs. Moreover, proton NMR titration experiments demonstrate that INPs regardless of alkyl chain length are specific for binding copper instead of zinc. These results suggest that isonitrilases may act as gatekeepers in modulating the observed biological distribution of INP structures and this distribution may be primarily related to differing metal transport requirements among the producing strains.
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Affiliation(s)
- Tzu-Yu Chen
- Department of Chemistry, North Carolina State University, Raleigh, NC 27695, United States
| | - Jinfeng Chen
- State Key Laboratory of Bio-organic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, Shanghai 200032, China
| | - Mark W Ruszczycky
- Division of Chemical Biology and Medicinal Chemistry, College of Pharmacy, The University of Texas at Austin, Austin, Texas 78712, United States
| | - Dalton Hilovsky
- Department of Molecular and Structural Biochemistry, North Carolina State University, Raleigh, NC 27695, United States
| | - Tyler Hostetler
- Department of Chemistry, North Carolina State University, Raleigh, NC 27695, United States
| | - Xiaojing Liu
- Department of Molecular and Structural Biochemistry, North Carolina State University, Raleigh, NC 27695, United States
| | - Jiahai Zhou
- Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, China
| | - Wei-Chen Chang
- Department of Chemistry, North Carolina State University, Raleigh, NC 27695, United States
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12
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Matsuda K, Maruyama H, Imachi K, Ikeda H, Wakimoto T. Actinobacterial chalkophores: the biosynthesis of hazimycins. J Antibiot (Tokyo) 2024; 77:228-237. [PMID: 38378905 DOI: 10.1038/s41429-024-00706-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2023] [Revised: 01/18/2024] [Accepted: 01/22/2024] [Indexed: 02/22/2024]
Abstract
Copper is a transition metal element with significant effects on the morphological development and secondary metabolism of actinobacteria. In some microorganisms, copper-binding natural products are employed to modulate copper homeostasis, although their significance in actinobacteria remains largely unknown. Here, we identified the biosynthetic genes of the diisocyanide natural product hazimycin in Kitasatospora purpeofusca HV058, through gene knock-out and heterologous expression. Biochemical analyses revealed that hazimycin A specifically binds to copper, which diminishes its antimicrobial activity. The presence of a set of putative importer/exporter genes surrounding the biosynthetic genes suggested that hazimycin is a chalkophore that modulates the intracellular copper level. A bioinformatic survey of homologous gene cassettes, as well as the identification of two previously unknown hazimycin-producing Streptomyces strains, indicated that the isocyanide-based mechanism of copper homeostasis is prevalent in actinobacteria.
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Affiliation(s)
- Kenichi Matsuda
- Faculty of Pharmaceutical Sciences, Hokkaido University, Kita 12, Nishi 6, Kita-ku, Sapporo, 060-0812, Japan.
| | - Hiroto Maruyama
- Faculty of Pharmaceutical Sciences, Hokkaido University, Kita 12, Nishi 6, Kita-ku, Sapporo, 060-0812, Japan
| | - Kumiko Imachi
- Faculty of Pharmaceutical Sciences, Hokkaido University, Kita 12, Nishi 6, Kita-ku, Sapporo, 060-0812, Japan
| | - Haruo Ikeda
- Technology Research Association for Next generation natural products chemistry, 2-4-7 Aomi, Koto-ku, Tokyo, 135-0064, Japan
| | - Toshiyuki Wakimoto
- Faculty of Pharmaceutical Sciences, Hokkaido University, Kita 12, Nishi 6, Kita-ku, Sapporo, 060-0812, Japan.
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13
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Smith N, Dasgupta M, Wych DC, Dolamore C, Sierra RG, Lisova S, Marchany-Rivera D, Cohen AE, Boutet S, Hunter MS, Kupitz C, Poitevin F, Moss FR, Mittan-Moreau DW, Brewster AS, Sauter NK, Young ID, Wolff AM, Tiwari VK, Kumar N, Berkowitz DB, Hadt RG, Thompson MC, Follmer AH, Wall ME, Wilson MA. Changes in an enzyme ensemble during catalysis observed by high-resolution XFEL crystallography. SCIENCE ADVANCES 2024; 10:eadk7201. [PMID: 38536910 PMCID: PMC10971408 DOI: 10.1126/sciadv.adk7201] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/06/2023] [Accepted: 02/21/2024] [Indexed: 04/01/2024]
Abstract
Enzymes populate ensembles of structures necessary for catalysis that are difficult to experimentally characterize. We use time-resolved mix-and-inject serial crystallography at an x-ray free electron laser to observe catalysis in a designed mutant isocyanide hydratase (ICH) enzyme that enhances sampling of important minor conformations. The active site exists in a mixture of conformations, and formation of the thioimidate intermediate selects for catalytically competent substates. The influence of cysteine ionization on the ICH ensemble is validated by determining structures of the enzyme at multiple pH values. Large molecular dynamics simulations in crystallo and time-resolved electron density maps show that Asp17 ionizes during catalysis and causes conformational changes that propagate across the dimer, permitting water to enter the active site for intermediate hydrolysis. ICH exhibits a tight coupling between ionization of active site residues and catalysis-activated protein motions, exemplifying a mechanism of electrostatic control of enzyme dynamics.
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Affiliation(s)
- Nathan Smith
- Department of Biochemistry and Redox Biology Center, University of Nebraska-Lincoln, Lincoln, NE 68588, USA
| | - Medhanjali Dasgupta
- Department of Biochemistry and Redox Biology Center, University of Nebraska-Lincoln, Lincoln, NE 68588, USA
| | - David C. Wych
- Computer, Computational, and Statistical Sciences Division, Los Alamos National Laboratory, Los Alamos, NM 875405, USA
- Center for Nonlinear Studies, Los Alamos National Laboratory, Los Alamos, NM 87545, USA
| | - Cole Dolamore
- Department of Biochemistry and Redox Biology Center, University of Nebraska-Lincoln, Lincoln, NE 68588, USA
| | - Raymond G. Sierra
- Linac Coherent Light Source, SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA 94025, USA
| | - Stella Lisova
- Linac Coherent Light Source, SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA 94025, USA
| | - Darya Marchany-Rivera
- Stanford Synchrotron Radiation Lightsource, SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA 94025, USA
| | - Aina E. Cohen
- Stanford Synchrotron Radiation Lightsource, SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA 94025, USA
| | - Sébastien Boutet
- Linac Coherent Light Source, SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA 94025, USA
| | - Mark S. Hunter
- Linac Coherent Light Source, SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA 94025, USA
| | - Christopher Kupitz
- Linac Coherent Light Source, SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA 94025, USA
| | - Frédéric Poitevin
- Linac Coherent Light Source, SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA 94025, USA
| | - Frank R. Moss
- Linac Coherent Light Source, SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA 94025, USA
| | - David W. Mittan-Moreau
- Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
| | - Aaron S. Brewster
- Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
| | - Nicholas K. Sauter
- Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
| | - Iris D. Young
- Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
| | - Alexander M. Wolff
- Department of Chemistry and Biochemistry, University of California, Merced, CA 95340, USA
| | - Virendra K. Tiwari
- Department of Chemistry, University of Nebraska-Lincoln, Lincoln, NE 68588, USA
| | - Nivesh Kumar
- Department of Chemistry, University of Nebraska-Lincoln, Lincoln, NE 68588, USA
| | - David B. Berkowitz
- Department of Chemistry, University of Nebraska-Lincoln, Lincoln, NE 68588, USA
| | - Ryan G. Hadt
- Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, CA 91125, USA
| | - Michael C. Thompson
- Department of Chemistry and Biochemistry, University of California, Merced, CA 95340, USA
| | - Alec H. Follmer
- Department of Chemistry, University of California-Irvine, Irvine, CA 92697, USA
| | - Michael E. Wall
- Computer, Computational, and Statistical Sciences Division, Los Alamos National Laboratory, Los Alamos, NM 875405, USA
| | - Mark A. Wilson
- Department of Biochemistry and Redox Biology Center, University of Nebraska-Lincoln, Lincoln, NE 68588, USA
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14
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Quirós I, Martín M, Gomez-Mendoza M, Cabrera-Afonso MJ, Liras M, Fernández I, Nóvoa L, Tortosa M. Isonitriles as Alkyl Radical Precursors in Visible Light Mediated Hydro- and Deuterodeamination Reactions. Angew Chem Int Ed Engl 2024; 63:e202317683. [PMID: 38150265 DOI: 10.1002/anie.202317683] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2023] [Revised: 12/20/2023] [Accepted: 12/27/2023] [Indexed: 12/28/2023]
Abstract
Herein, we report the use of isonitriles as alkyl radical precursors in light-mediated hydro- and deuterodeamination reactions. The reaction is scalable, shows broad functional group compatibility and potential to be used in late-stage functionalization. Importantly, the method is general for Cα -primary, Cα -secondary and Cα -tertiary alkyl isonitriles. For most examples, high yields were obtained through direct visible-light irradiation of the isonitrile in the presence of a silyl radical precursor. Interestingly, in the presence of an organic photocatalyst (4CzIPN) a dramatic acceleration was observed. In-depth mechanistic studies using UV/Vis absorption, steady-state and time-resolved photoluminescence, and transient absorption spectroscopy suggest that the excited state of 4CzIPN can engage in a single-electron transfer with the isonitrile.
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Affiliation(s)
- Irene Quirós
- Organic Chemistry Department, Universidad Autónoma de Madrid (UAM), Avda. Francisco Tomás y Valiente 7, Cantoblanco, 28049, Madrid, Spain
| | - María Martín
- Organic Chemistry Department, Universidad Autónoma de Madrid (UAM), Avda. Francisco Tomás y Valiente 7, Cantoblanco, 28049, Madrid, Spain
| | - Miguel Gomez-Mendoza
- Photoactivated Processes Unit, IMDEA Energy, Av. Ramón de la Sagra 3, Móstoles, 28935, Madrid, Spain
| | - María Jesús Cabrera-Afonso
- Organic Chemistry Department, Universidad Autónoma de Madrid (UAM), Avda. Francisco Tomás y Valiente 7, Cantoblanco, 28049, Madrid, Spain
| | - Marta Liras
- Photoactivated Processes Unit, IMDEA Energy, Av. Ramón de la Sagra 3, Móstoles, 28935, Madrid, Spain
| | - Israel Fernández
- Department of Organic Chemistry, Faculty of Chemistry, Complutense University of Madrid, 28040, Madrid, Spain
- Center of Innovation in Advanced Chemistry (ORFEO-CINQA), Spain
| | - Luis Nóvoa
- Organic Chemistry Department, Universidad Autónoma de Madrid (UAM), Avda. Francisco Tomás y Valiente 7, Cantoblanco, 28049, Madrid, Spain
| | - Mariola Tortosa
- Organic Chemistry Department, Universidad Autónoma de Madrid (UAM), Avda. Francisco Tomás y Valiente 7, Cantoblanco, 28049, Madrid, Spain
- Institute for Advanced Research in Chemical Sciences (IAdChem), Universidad Autónoma de Madrid (UAM), Avda. Francisco Tomás y Valiente 7, Cantoblanco, 28049, Madrid, Spain
- Center of Innovation in Advanced Chemistry (ORFEO-CINQA), Spain
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15
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Adhikary KK, Verpoort F, Heynderickx PM. Theoretical investigation of nucleophilic substitution reaction of phenyl carbonyl isothiocyanates with pyridines in gas and polar aprotic solvent. Phys Chem Chem Phys 2024; 26:3168-3183. [PMID: 38192244 DOI: 10.1039/d3cp04272c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2024]
Abstract
This study focuses on the mutual interaction of substituents in the nucleophile and substrate - cross interaction constant, ρXY, in the uncatalyzed aminolysis by substituting pyridine with phenyl carbonyl isothiocyanate. The mechanism was found to be a stepwise process with a rate-limiting breakdown of the -NCS leaving group. This stepwise reaction mechanism considers the cross-interaction constant (CIC) with rate-limiting breakdown of tetrahedral intermediate in gas and solvent phases. The corresponding Hammett coefficients are related to the substituents associated with (1) the nucleophiles (X), ρX (-1.93 to -6.54 for the gas phase and 10.5 to 18.9 in the solvent model), and with (2) the substituents associated with the phenyl ring of the substrate (Y), ρY (0.41-3.48 for the gas phase and 1.83 to -10.70 for the solvent model). It also includes the Brønsted coefficient with X, βX (0.11-1.52 for the gas phase and -2.57 to 3.96 for the solvent model), and CIC values, ρXY (0.69 for the gas phase and 0.87 for the solvent model). In this work, the NBO analysis, reaction potential, reaction electronic flux (REF), dual descriptor, and the structure-energy relationships were considered in interpreting the mechanistic criteria.
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Affiliation(s)
- Keshab Kumar Adhikary
- Center for Environmental and Energy Research (CEER) - Engineering of Materials via Catalysis and Characterization, Ghent University Global Campus, 119-5 Songdomunhwa-Ro, Yeonsu-Gu, Incheon, 406-840, South Korea.
| | - Francis Verpoort
- Laboratory of Organometallics, Catalysis and Ordered Materials, State Key Laboratory of Advanced Technology for Materials Synthesis and Processing, Wuhan University of Technology, Wuhan 430070, P. R. China
- National Research Tomsk Polytechnic University, Lenin Avenue 30, 634050 Tomsk, Russian Federation
| | - Philippe M Heynderickx
- Center for Environmental and Energy Research (CEER) - Engineering of Materials via Catalysis and Characterization, Ghent University Global Campus, 119-5 Songdomunhwa-Ro, Yeonsu-Gu, Incheon, 406-840, South Korea.
- Department of Green Chemistry and Technology, Faculty of Bioscience Engineering, Ghent University, Coupure Links 653, Ghent, B-9000, Belgium
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16
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Chatziorfanou E, Romero AR, Chouchane L, Dömling A. Crystal Clear: Decoding Isocyanide Intermolecular Interactions through Crystallography. J Org Chem 2024; 89:957-974. [PMID: 38175810 PMCID: PMC10804414 DOI: 10.1021/acs.joc.3c02038] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2023] [Revised: 11/13/2023] [Accepted: 12/12/2023] [Indexed: 01/06/2024]
Abstract
The isocyanide group is the chameleon among the functional groups in organic chemistry. Unlike other multiatom functional groups, where the electrophilic and nucleophilic moieties are typically separated, isocyanides combine both functionalities in the terminal carbon. This unique feature can be rationalized using the frontier orbital concept and has significant implications for its intermolecular interactions and the reactivity of the functional group. In this study, we perform a Cambridge Crystallographic Database-supported analysis of isocyanide intramolecular interactions to investigate the intramolecular interactions of isocyanides in the solid state, excluding isocyanide-metal complexes. We discuss examples of different interaction classes, including the isocyanide as a hydrogen bond acceptor (RNC···HX), halogen bonding (RNC···X), and interactions involving the isocyanide and carbon atoms (RNC···C). The latter interaction serves as an intriguing illustration of a Bürgi-Dunitz trajectory and represents a crucial experimental detail in the well-known multicomponent reactions such as the Ugi- and Passerini-type mechanisms. Understanding the spectrum of intramolecular interactions that isocyanides can undergo holds significant implications in fields such as medicinal chemistry, materials science, and asymmetric catalysis.
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Affiliation(s)
- Eleftheria Chatziorfanou
- Innovative
Chemistry Group, Institute of Molecular and Translational Medicine,
Faculty of Medicine and Dentistry and Czech Advanced Technology and
Research Institute, Palacky University in
Olomouc, Olomouc 779 00, Czech Republic
| | - Atilio Reyes Romero
- Genetic
Intelligence Laboratory, Weill Cornell Medicine-Qatar, Qatar Foundation, P.O.
Box 24144, Doha, Qatar
- Department of Microbiology and Immunology, Weill Cornell Medicine, New York 10021, United States
- Department
of Genetic Medicine, Weill Cornell Medicine, New York 10021, United States
| | - Lotfi Chouchane
- Genetic
Intelligence Laboratory, Weill Cornell Medicine-Qatar, Qatar Foundation, P.O.
Box 24144, Doha, Qatar
- Department of Microbiology and Immunology, Weill Cornell Medicine, New York 10021, United States
- Department
of Genetic Medicine, Weill Cornell Medicine, New York 10021, United States
| | - Alexander Dömling
- Innovative
Chemistry Group, Institute of Molecular and Translational Medicine,
Faculty of Medicine and Dentistry and Czech Advanced Technology and
Research Institute, Palacky University in
Olomouc, Olomouc 779 00, Czech Republic
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17
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Larghi EL, Bracca ABJ, Simonetti SO, Kaufman TS. Recent developments in the total synthesis of natural products using the Ugi multicomponent reactions as the key strategy. Org Biomol Chem 2024; 22:429-465. [PMID: 38126459 DOI: 10.1039/d3ob01837g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2023]
Abstract
The total syntheses of selected natural products using different versions of the Ugi multicomponent reaction is reviewed on a case-by-case basis. The revision covers the period 2008-2023 and includes detailed descriptions of the synthetic sequences, the use of state-of-the-art chemical reagents and strategies, as well as the advantages and limitations of the transformation and some remedial solutions. Relevant data on the isolation and bioactivity of the different natural targets are also briefly provided. The examples clearly evidence the strategic importance of this transformation and its key role in the modern natural products synthetic chemistry toolbox. This methodology proved to be a valuable means for easily building molecular complexity and efficiently delivering step-economic syntheses even of intricate structures, with a promising future.
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Affiliation(s)
- Enrique L Larghi
- Instituto de Química Rosario (IQUIR, CONICET-UNR) and Facultad de Ciencias Bioquímicas y Farmacéuticas - Universidad Nacional de Rosario, Suipacha 531 (2000), Rosario, Argentina.
| | - Andrea B J Bracca
- Instituto de Química Rosario (IQUIR, CONICET-UNR) and Facultad de Ciencias Bioquímicas y Farmacéuticas - Universidad Nacional de Rosario, Suipacha 531 (2000), Rosario, Argentina.
| | - Sebastián O Simonetti
- Instituto de Química Rosario (IQUIR, CONICET-UNR) and Facultad de Ciencias Bioquímicas y Farmacéuticas - Universidad Nacional de Rosario, Suipacha 531 (2000), Rosario, Argentina.
| | - Teodoro S Kaufman
- Instituto de Química Rosario (IQUIR, CONICET-UNR) and Facultad de Ciencias Bioquímicas y Farmacéuticas - Universidad Nacional de Rosario, Suipacha 531 (2000), Rosario, Argentina.
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18
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Alexander LT, Durairaj J, Kryshtafovych A, Abriata LA, Bayo Y, Bhabha G, Breyton C, Caulton SG, Chen J, Degroux S, Ekiert DC, Erlandsen BS, Freddolino PL, Gilzer D, Greening C, Grimes JM, Grinter R, Gurusaran M, Hartmann MD, Hitchman CJ, Keown JR, Kropp A, Kursula P, Lovering AL, Lemaitre B, Lia A, Liu S, Logotheti M, Lu S, Markússon S, Miller MD, Minasov G, Niemann HH, Opazo F, Phillips GN, Davies OR, Rommelaere S, Rosas‐Lemus M, Roversi P, Satchell K, Smith N, Wilson MA, Wu K, Xia X, Xiao H, Zhang W, Zhou ZH, Fidelis K, Topf M, Moult J, Schwede T. Protein target highlights in CASP15: Analysis of models by structure providers. Proteins 2023; 91:1571-1599. [PMID: 37493353 PMCID: PMC10792529 DOI: 10.1002/prot.26545] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2023] [Accepted: 06/15/2023] [Indexed: 07/27/2023]
Abstract
We present an in-depth analysis of selected CASP15 targets, focusing on their biological and functional significance. The authors of the structures identify and discuss key protein features and evaluate how effectively these aspects were captured in the submitted predictions. While the overall ability to predict three-dimensional protein structures continues to impress, reproducing uncommon features not previously observed in experimental structures is still a challenge. Furthermore, instances with conformational flexibility and large multimeric complexes highlight the need for novel scoring strategies to better emphasize biologically relevant structural regions. Looking ahead, closer integration of computational and experimental techniques will play a key role in determining the next challenges to be unraveled in the field of structural molecular biology.
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Affiliation(s)
- Leila T. Alexander
- BiozentrumUniversity of BaselBaselSwitzerland
- Computational Structural BiologySIB Swiss Institute of BioinformaticsBaselSwitzerland
| | - Janani Durairaj
- BiozentrumUniversity of BaselBaselSwitzerland
- Computational Structural BiologySIB Swiss Institute of BioinformaticsBaselSwitzerland
| | | | - Luciano A. Abriata
- School of Life SciencesÉcole Polytechnique Fédérale de LausanneLausanneSwitzerland
| | - Yusupha Bayo
- Department of BiosciencesUniversity of MilanoMilanItaly
- IBBA‐CNR Unit of MilanoInstitute of Agricultural Biology and BiotechnologyMilanItaly
| | - Gira Bhabha
- Department of Cell BiologyNew York University School of MedicineNew YorkNew YorkUSA
| | | | | | - James Chen
- Department of Cell BiologyNew York University School of MedicineNew YorkNew YorkUSA
| | | | - Damian C. Ekiert
- Department of Cell BiologyNew York University School of MedicineNew YorkNew YorkUSA
- Department of MicrobiologyNew York University School of MedicineNew YorkNew YorkUSA
| | - Benedikte S. Erlandsen
- Wellcome Centre for Cell BiologyInstitute of Cell Biology, University of EdinburghEdinburghUK
| | - Peter L. Freddolino
- Department of Biological Chemistry, Computational Medicine and BioinformaticsUniversity of MichiganAnn ArborMichiganUSA
| | - Dominic Gilzer
- Department of ChemistryBielefeld UniversityBielefeldGermany
| | - Chris Greening
- Department of Microbiology, Biomedicine Discovery InstituteMonash UniversityClaytonVictoriaAustralia
- Securing Antarctica's Environmental FutureMonash UniversityClaytonVictoriaAustralia
- Centre to Impact AMRMonash UniversityClaytonVictoriaAustralia
- ARC Research Hub for Carbon Utilisation and RecyclingMonash UniversityClaytonVictoriaAustralia
| | - Jonathan M. Grimes
- Division of Structural Biology, Wellcome Centre for Human GeneticsUniversity of OxfordOxfordUK
| | - Rhys Grinter
- Department of Microbiology, Biomedicine Discovery InstituteMonash UniversityClaytonVictoriaAustralia
- Centre for Electron Microscopy of Membrane ProteinsMonash Institute of Pharmaceutical SciencesParkvilleVictoriaAustralia
| | - Manickam Gurusaran
- Wellcome Centre for Cell BiologyInstitute of Cell Biology, University of EdinburghEdinburghUK
| | - Marcus D. Hartmann
- Max Planck Institute for BiologyTübingenGermany
- Interfaculty Institute of Biochemistry, University of TübingenTübingenGermany
| | - Charlie J. Hitchman
- Department of Molecular and Cell Biology, Leicester Institute of Structural and Chemical BiologyUniversity of LeicesterLeicesterUK
| | - Jeremy R. Keown
- Division of Structural Biology, Wellcome Centre for Human GeneticsUniversity of OxfordOxfordUK
| | - Ashleigh Kropp
- Department of Microbiology, Biomedicine Discovery InstituteMonash UniversityClaytonVictoriaAustralia
| | - Petri Kursula
- Department of BiomedicineUniversity of BergenBergenNorway
- Faculty of Biochemistry and Molecular Medicine & Biocenter OuluUniversity of OuluOuluFinland
| | | | - Bruno Lemaitre
- School of Life SciencesÉcole Polytechnique Fédérale de LausanneLausanneSwitzerland
| | - Andrea Lia
- Department of Molecular and Cell Biology, Leicester Institute of Structural and Chemical BiologyUniversity of LeicesterLeicesterUK
- ISPA‐CNR Unit of LecceInstitute of Sciences of Food ProductionLecceItaly
| | - Shiheng Liu
- Department of Microbiology, Immunology, and Molecular GeneticsUniversity of CaliforniaLos AngelesCaliforniaUSA
- California NanoSystems InstituteUniversity of CaliforniaLos AngelesCaliforniaUSA
| | - Maria Logotheti
- Max Planck Institute for BiologyTübingenGermany
- Interfaculty Institute of Biochemistry, University of TübingenTübingenGermany
- Present address:
Institute of BiochemistryUniversity of GreifswaldGreifswaldGermany
| | - Shuze Lu
- Lanzhou University School of Life SciencesLanzhouChina
| | | | | | - George Minasov
- Department of Microbiology‐ImmunologyNorthwestern Feinberg School of MedicineChicagoIllinoisUSA
| | | | - Felipe Opazo
- NanoTag Biotechnologies GmbHGöttingenGermany
- Institute of Neuro‐ and Sensory PhysiologyUniversity of Göttingen Medical CenterGöttingenGermany
- Center for Biostructural Imaging of Neurodegeneration (BIN)University of Göttingen Medical CenterGöttingenGermany
| | - George N. Phillips
- Department of BiosciencesRice UniversityHoustonTexasUSA
- Department of ChemistryRice UniversityHoustonTexasUSA
| | - Owen R. Davies
- Wellcome Centre for Cell BiologyInstitute of Cell Biology, University of EdinburghEdinburghUK
| | - Samuel Rommelaere
- School of Life SciencesÉcole Polytechnique Fédérale de LausanneLausanneSwitzerland
| | - Monica Rosas‐Lemus
- Department of Microbiology‐ImmunologyNorthwestern Feinberg School of MedicineChicagoIllinoisUSA
- Present address:
Department of Molecular Genetics and MicrobiologyUniversity of New MexicoAlbuquerqueNew MexicoUSA
| | - Pietro Roversi
- IBBA‐CNR Unit of MilanoInstitute of Agricultural Biology and BiotechnologyMilanItaly
- Department of Molecular and Cell Biology, Leicester Institute of Structural and Chemical BiologyUniversity of LeicesterLeicesterUK
| | - Karla Satchell
- Department of Microbiology‐ImmunologyNorthwestern Feinberg School of MedicineChicagoIllinoisUSA
| | - Nathan Smith
- Department of Biochemistry and the Redox Biology CenterUniversity of NebraskaLincolnNebraskaUSA
| | - Mark A. Wilson
- Department of Biochemistry and the Redox Biology CenterUniversity of NebraskaLincolnNebraskaUSA
| | - Kuan‐Lin Wu
- Department of ChemistryRice UniversityHoustonTexasUSA
| | - Xian Xia
- Department of Microbiology, Immunology, and Molecular GeneticsUniversity of CaliforniaLos AngelesCaliforniaUSA
- California NanoSystems InstituteUniversity of CaliforniaLos AngelesCaliforniaUSA
| | - Han Xiao
- Department of BiosciencesRice UniversityHoustonTexasUSA
- Department of ChemistryRice UniversityHoustonTexasUSA
- Department of BioengineeringRice UniversityHoustonTexasUSA
| | - Wenhua Zhang
- Lanzhou University School of Life SciencesLanzhouChina
| | - Z. Hong Zhou
- Department of Microbiology, Immunology, and Molecular GeneticsUniversity of CaliforniaLos AngelesCaliforniaUSA
- California NanoSystems InstituteUniversity of CaliforniaLos AngelesCaliforniaUSA
| | | | - Maya Topf
- University Medical Center Hamburg‐Eppendorf (UKE)HamburgGermany
- Centre for Structural Systems BiologyLeibniz‐Institut für Virologie (LIV)HamburgGermany
| | - John Moult
- Department of Cell Biology and Molecular Genetics, Institute for Bioscience and Biotechnology ResearchUniversity of MarylandRockvilleMarylandUSA
| | - Torsten Schwede
- BiozentrumUniversity of BaselBaselSwitzerland
- Computational Structural BiologySIB Swiss Institute of BioinformaticsBaselSwitzerland
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19
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Chahine Z, Abel S, Hollin T, Chung JH, Barnes GL, Daub ME, Renard I, Choi JY, Pratap V, Pal A, Alba-Argomaniz M, Banks CAS, Kirkwood J, Saraf A, Camino I, Castaneda P, Cuevas MC, De Mercado-Arnanz J, Fernandez-Alvaro E, Garcia-Perez A, Ibarz N, Viera-Morilla S, Prudhomme J, Joyner CJ, Bei AK, Florens L, Ben Mamoun C, Vanderwal CD, Le Roch KG. A Potent Kalihinol Analogue Disrupts Apicoplast Function and Vesicular Trafficking in P. falciparum Malaria. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.11.21.568162. [PMID: 38045341 PMCID: PMC10690269 DOI: 10.1101/2023.11.21.568162] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/05/2023]
Abstract
Here we report the discovery of MED6-189, a new analogue of the kalihinol family of isocyanoterpene (ICT) natural products. MED6-189 is effective against drug-sensitive and -resistant P. falciparum strains blocking both intraerythrocytic asexual replication and sexual differentiation. This compound was also effective against P. knowlesi and P. cynomolgi. In vivo efficacy studies using a humanized mouse model of malaria confirms strong efficacy of the compound in animals with no apparent hemolytic activity or apparent toxicity. Complementary chemical biology, molecular biology, genomics and cell biological analyses revealed that MED6-189 primarily targets the parasite apicoplast and acts by inhibiting lipid biogenesis and cellular trafficking. Genetic analyses in P. falciparum revealed that a mutation in PfSec13, which encodes a component of the parasite secretory machinery, reduced susceptibility to the drug. The high potency of MED6-189 in vitro and in vivo, its broad range of efficacy, excellent therapeutic profile, and unique mode of action make it an excellent addition to the antimalarial drug pipeline.
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Affiliation(s)
- Z Chahine
- Department of Molecular, Cell and Systems Biology, University of California Riverside, CA, USA
| | - S Abel
- Department of Molecular, Cell and Systems Biology, University of California Riverside, CA, USA
| | - T Hollin
- Department of Molecular, Cell and Systems Biology, University of California Riverside, CA, USA
| | - JH Chung
- Department of Chemistry, University of California, Irvine, California, 92617, USA
| | - GL Barnes
- Department of Chemistry, University of California, Irvine, California, 92617, USA
| | - ME Daub
- Department of Chemistry, University of California, Irvine, California, 92617, USA
| | - I Renard
- Department of Internal Medicine, Section of Infectious Diseases, Yale School of Medicine, New Haven, Connecticut, USA
| | - JY Choi
- Department of Internal Medicine, Section of Infectious Diseases, Yale School of Medicine, New Haven, Connecticut, USA
| | - V Pratap
- Department of Internal Medicine, Section of Infectious Diseases, Yale School of Medicine, New Haven, Connecticut, USA
| | - A Pal
- Department of Internal Medicine, Section of Infectious Diseases, Yale School of Medicine, New Haven, Connecticut, USA
| | - M Alba-Argomaniz
- Department of Infectious Diseases, College of Veterinary Medicine, University of Georgia, Athens, GA, United States
- Center for Tropical and Emerging Global Diseases, University of Georgia, Athens, GA, United States
- Center for Vaccines and Immunology, University of Georgia, Athens, GA, United States
| | - CAS Banks
- Stowers Institute for Medical Research, 1000 E. 50th Street, Kansas City, MO 64110, USA
| | - J Kirkwood
- Metabolomics Core Facility, University of California, Riverside, CA 92521, USA
| | - A Saraf
- Stowers Institute for Medical Research, 1000 E. 50th Street, Kansas City, MO 64110, USA
| | - I Camino
- GSK, C/ Severo Ochoa, 2 PTM, 28760 Tres Cantos (Madrid), Spain
| | - P Castaneda
- GSK, C/ Severo Ochoa, 2 PTM, 28760 Tres Cantos (Madrid), Spain
| | - MC Cuevas
- GSK, C/ Severo Ochoa, 2 PTM, 28760 Tres Cantos (Madrid), Spain
| | | | | | - A Garcia-Perez
- GSK, C/ Severo Ochoa, 2 PTM, 28760 Tres Cantos (Madrid), Spain
| | - N Ibarz
- GSK, C/ Severo Ochoa, 2 PTM, 28760 Tres Cantos (Madrid), Spain
| | - S Viera-Morilla
- GSK, C/ Severo Ochoa, 2 PTM, 28760 Tres Cantos (Madrid), Spain
| | - J Prudhomme
- Department of Molecular, Cell and Systems Biology, University of California Riverside, CA, USA
| | - CJ Joyner
- Department of Infectious Diseases, College of Veterinary Medicine, University of Georgia, Athens, GA, United States
- Center for Tropical and Emerging Global Diseases, University of Georgia, Athens, GA, United States
- Center for Vaccines and Immunology, University of Georgia, Athens, GA, United States
| | - AK Bei
- Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, Connecticut, USA
| | - L Florens
- Stowers Institute for Medical Research, 1000 E. 50th Street, Kansas City, MO 64110, USA
| | - C Ben Mamoun
- Department of Internal Medicine, Section of Infectious Diseases, Yale School of Medicine, New Haven, Connecticut, USA
| | - CD Vanderwal
- Department of Chemistry, University of California, Irvine, California, 92617, USA
| | - KG Le Roch
- Department of Molecular, Cell and Systems Biology, University of California Riverside, CA, USA
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20
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Cai W, Huang Y. Metal Free Dötz-Type Aminobenzannulation Reaction via 1,1-Dipoles Cross-Coupling. Angew Chem Int Ed Engl 2023; 62:e202310133. [PMID: 37610557 DOI: 10.1002/anie.202310133] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2023] [Revised: 08/22/2023] [Accepted: 08/23/2023] [Indexed: 08/24/2023]
Abstract
Aryl amines are of constant interest in organic synthesis owing to their ubiquity in natural products, pharmaceuticals, and organic materials. However, C-H amination or pre-functionalization frequently results in uncontrollable site selectivity, over activation and the generation of inseparable mixtures of regio-isomers. Here we present a novel metal free Dötz-type aminobenzannulation reaction that circumvents the selectivity issues inherent in aromatic chemistry, as well as the use of stoichiometric unstable organolithium reagents and toxic chromium complexes. The concept of utilizing readily available isocyanides and Morita-Baylis-Hillman (MBH) carbonates to achieve 1,1-dipoles cross-coupling to construct ketenimine is the key to success, which has been experimentally and computationally verified. The tandem 6π-electrocyclization/aromatization process offers a versatile method for synthesizing functionalized anilines, fused aryl amines and fused heteroaryl amines.
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Affiliation(s)
- Wei Cai
- State Key Laboratory and Institute of Elemento-Organic Chemistry, College of Chemistry, Nankai University, Tianjin, 300071, China
| | - You Huang
- State Key Laboratory and Institute of Elemento-Organic Chemistry, College of Chemistry, Nankai University, Tianjin, 300071, China
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21
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Meng X, O'Hare D, Ladame S. Surface immobilization strategies for the development of electrochemical nucleic acid sensors. Biosens Bioelectron 2023; 237:115440. [PMID: 37406480 DOI: 10.1016/j.bios.2023.115440] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2022] [Revised: 05/20/2023] [Accepted: 05/27/2023] [Indexed: 07/07/2023]
Abstract
Following the recent pandemic and with the emergence of cell-free nucleic acids in liquid biopsies as promising biomarkers for a broad range of pathologies, there is an increasing demand for a new generation of nucleic acid tests, with a particular focus on cost-effective, highly sensitive and specific biosensors. Easily miniaturized electrochemical sensors show the greatest promise and most typically rely on the chemical functionalization of conductive materials or electrodes with sequence-specific hybridization probes made of standard oligonucleotides (DNA or RNA) or synthetic analogues (e.g. Peptide Nucleic Acids or PNAs). The robustness of such sensors is mostly influenced by the ability to control the density and orientation of the probe at the surface of the electrode, making the chemistry used for this immobilization a key parameter. This exhaustive review will cover the various strategies to immobilize nucleic acid probes onto different solid electrode materials. Both physical and chemical immobilization techniques will be presented. Their applicability to specific electrode materials and surfaces will also be discussed as well as strategies for passivation of the electrode surface as a way of preventing electrode fouling and reducing nonspecific binding.
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Affiliation(s)
- Xiaotong Meng
- Department of Bioengineering, Imperial College London, London, SW7 2AZ, UK. https://in.linkedin.com/https://www.linkedin.com/profile/view?id=xiaotong-meng-888IC
| | - Danny O'Hare
- Department of Bioengineering, Imperial College London, London, SW7 2AZ, UK.
| | - Sylvain Ladame
- Department of Bioengineering, Imperial College London, London, SW7 2AZ, UK.
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22
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Zhang S, Wang Y, Huang H, Cao D. A Strategy for Controlling the Polymerizations of Thiyl Radical Propagation by RAFT Agents. Angew Chem Int Ed Engl 2023; 62:e202308524. [PMID: 37478164 DOI: 10.1002/anie.202308524] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2023] [Revised: 07/21/2023] [Accepted: 07/21/2023] [Indexed: 07/23/2023]
Abstract
The ability to extend the polymerizations of thiyl radical propagation to be regulated by existing controlled methods would be highly desirable, yet remained very challenging to achieve because the thiyl radicals still cannot be reversibly controlled by these methods. In this article, we reported a novel strategy that could enable the radical ring-opening polymerization of macrocyclic allylic sulfides, wherein propagating specie is thiyl radical, to be controlled by reversible addition-fragmentation chain transfer (RAFT) agents. The key to the success of this strategy is the propagating thiyl radical can undergo desulfurization with isocyanide and generate a stabilized alkyl radical for reversible control. Systematic optimization of the reaction conditions allowed good control over the polymerization, leading to the formation of polymers with well-defined architectures, exemplified by the radical block copolymerization of macrocyclic allylic sulfides and vinyl monomers and the incorporation of sequence-defined segments into the polymer backbone. This work represents a significant step toward directly enabling the polymerizations of heteroatom-centered radical propagation to be regulated by existing reversible-deactivation radical polymerization techniques.
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Affiliation(s)
- Shuai Zhang
- State Key Laboratory of Luminescent Materials and Devices, School of Chemistry and Chemical Engineering, South China University of Technology, Guangzhou, 510640, China
- School of Materials Science and Engineering, Sun Yat-Sen University, Guangzhou, 510006, China
| | - Yongjin Wang
- School of Materials Science and Engineering, Sun Yat-Sen University, Guangzhou, 510006, China
| | - Hanchu Huang
- School of Materials Science and Engineering, Sun Yat-Sen University, Guangzhou, 510006, China
| | - Derong Cao
- State Key Laboratory of Luminescent Materials and Devices, School of Chemistry and Chemical Engineering, South China University of Technology, Guangzhou, 510640, China
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23
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Richard AM, Wong NR, Harris K, Sundar R, Scott EE, Pochapsky TC. Selective steroidogenic cytochrome P450 haem iron ligation by steroid-derived isonitriles. Commun Chem 2023; 6:183. [PMID: 37660137 PMCID: PMC10475101 DOI: 10.1038/s42004-023-00994-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2023] [Accepted: 08/23/2023] [Indexed: 09/04/2023] Open
Abstract
Alkyl isonitriles, R-NC, have previously been shown to ligate the heme (haem) iron of cytochromes P450 in both accessible oxidation states (ferrous, Fe2+, and ferric, Fe3+). Herein, the preparation of four steroid-derived isonitriles and their interactions with several P450s, including the steroidogenic CYP17A1 and CYP106A2, as well as the more promiscuous drug metabolizers CYP3A4 and CYP2D6, is described. It was found that successful ligation of the heme iron by the isonitrile functionality for a given P450 depends on both the position and stereochemistry of the isonitrile on the steroid skeleton. Spectral studies indicate that isonitrile ligation of the ferric heme is stable upon reduction to the ferrous form, with reoxidation resulting in the original complex. A crystallographic structure of CYP17A1 with an isonitrile derived from pregnanalone further confirmed the interaction and identified the absolute stereochemistry of the bound species.
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Affiliation(s)
- Alaina M Richard
- Chemical Biology Program, University of Michigan, Ann Arbor, 48109, MI, USA
| | - Nathan R Wong
- Dept. of Biochemistry, Brandeis University, 415 South St., Waltham, 02454-9110, MA, USA
| | - Kurt Harris
- Department of Medicinal Chemistry, University of Michigan, 428 Church St., Ann Arbor, 48109-1065, MI, USA
| | - Reethy Sundar
- Dept. of Biochemistry, Brandeis University, 415 South St., Waltham, 02454-9110, MA, USA
| | - Emily E Scott
- Chemical Biology Program, University of Michigan, Ann Arbor, 48109, MI, USA
- Department of Medicinal Chemistry, University of Michigan, 428 Church St., Ann Arbor, 48109-1065, MI, USA
- Departments of Pharmacology and Biological Chemistry, University of Michigan, Ann Arbor, 48109, MI, USA
| | - Thomas C Pochapsky
- Dept. of Biochemistry, Brandeis University, 415 South St., Waltham, 02454-9110, MA, USA.
- Dept. of Chemistry and Rosenstiel Basic Medical Sciences Research Center, Brandeis University, 415 South St, Waltham, 02454-9110, MA, USA.
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24
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Chen D, Li J, Zhang X, Liu G, Wang X, Liu Y, Liu X, Shan Y. Rapid Access to Fused Tetracyclic N-Heterocycles via Amino-to-Alkyl 1,5-Palladium Migration Coupled with Intramolecular C(sp 3)-C(sp 2) Coupling. Org Lett 2023; 25:6272-6277. [PMID: 37607048 DOI: 10.1021/acs.orglett.3c02034] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/24/2023]
Abstract
An unprecedented route for the preparation of fused tetracyclic N-heterocycles is presented through the palladium-catalyzed cyclization of isocyanides with alkyne-tethered aryl iodides. In this transformation, a novel amino-to-alkyl 1,5-palladium migration/intramolecular C(sp3)-C(sp2) coupling sequence was observed first. More importantly, isocyanide exhibited three roles, serving simultaneously as a C1 synthon, a C1N1 synthon, and the donor of C(sp3) for C(sp3)-C(sp2) coupling, and the reaction was the sole successful example that achieved C(sp3)-H activation of isocyanide.
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Affiliation(s)
- Dianpeng Chen
- Chemistry and Chemical Engineering, Qufu Normal University, Qufu 273165, Shandong, China
| | - Jianming Li
- Chemistry and Chemical Engineering, Qufu Normal University, Qufu 273165, Shandong, China
| | - Xiuhua Zhang
- Chemistry and Chemical Engineering, Qufu Normal University, Qufu 273165, Shandong, China
| | - Gongle Liu
- Chemistry and Chemical Engineering, Qufu Normal University, Qufu 273165, Shandong, China
| | - Xin Wang
- Chemistry and Chemical Engineering, Qufu Normal University, Qufu 273165, Shandong, China
| | - Yongwei Liu
- Chemistry and Chemical Engineering, Qufu Normal University, Qufu 273165, Shandong, China
| | - Xuan Liu
- Chemistry and Chemical Engineering, Qufu Normal University, Qufu 273165, Shandong, China
| | - Yingying Shan
- Chemistry and Chemical Engineering, Qufu Normal University, Qufu 273165, Shandong, China
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25
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Lin H, Pan Y, Fu J, Yi Y, Tang H, Pan Y, Yu W, Wang X. Palladium-Catalyzed Tandem C(sp 3)-H Insertion Cyclization of 2-(2-Vinylarene)acetonitriles with Isocyanides to Access Naphthalen-2-amines. J Org Chem 2023; 88:12409-12420. [PMID: 37578069 DOI: 10.1021/acs.joc.3c01142] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/15/2023]
Abstract
A Pd-catalyzed cyclization reaction of 2-(2-vinylarene)acetonitriles and isocyanides has been documented. Various naphthalen-2-amines were obtained in moderate to good yields under mild conditions. The in vitro cytotoxicity of all products was evaluated by MTT assay against seven human cancer cell lines. The results indicated that compounds 3ea, 3ma, and 3ob exhibited effective anticancer activities against the tested cancer cells.
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Affiliation(s)
- Huishu Lin
- Guangxi Key Laboratory of Green Processing of Sugar Resources, College of Biological and Chemical Engineering, Guangxi University of Science and Technology, Liuzhou 545006, P. R. China
| | - Yongzhou Pan
- State Key Laboratory for Chemistry and Molecular Engineering of Medicinal Resources, School of Chemistry and Pharmaceutical Sciences of Guangxi Normal University, Guilin 541004, P. R. China
| | - Jinping Fu
- Guangxi Key Laboratory of Green Processing of Sugar Resources, College of Biological and Chemical Engineering, Guangxi University of Science and Technology, Liuzhou 545006, P. R. China
| | - Yi Yi
- Guangxi Key Laboratory of Green Processing of Sugar Resources, College of Biological and Chemical Engineering, Guangxi University of Science and Technology, Liuzhou 545006, P. R. China
| | - Haitao Tang
- State Key Laboratory for Chemistry and Molecular Engineering of Medicinal Resources, School of Chemistry and Pharmaceutical Sciences of Guangxi Normal University, Guilin 541004, P. R. China
| | - Yingming Pan
- State Key Laboratory for Chemistry and Molecular Engineering of Medicinal Resources, School of Chemistry and Pharmaceutical Sciences of Guangxi Normal University, Guilin 541004, P. R. China
| | - Wanguo Yu
- Guangxi Key Laboratory of Green Processing of Sugar Resources, College of Biological and Chemical Engineering, Guangxi University of Science and Technology, Liuzhou 545006, P. R. China
| | - Xu Wang
- Guangxi Key Laboratory of Green Processing of Sugar Resources, College of Biological and Chemical Engineering, Guangxi University of Science and Technology, Liuzhou 545006, P. R. China
- State Key Laboratory for Chemistry and Molecular Engineering of Medicinal Resources, School of Chemistry and Pharmaceutical Sciences of Guangxi Normal University, Guilin 541004, P. R. China
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26
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Chen D, Li J, Liu G, Zhang X, Wang X, Liu Y, Liu X, Liu X, Li Y, Shan Y. Accessing indole-isoindole derivatives via palladium-catalyzed [3+2] cyclization of isocyanides with alkynyl imines. Chem Commun (Camb) 2023; 59:10540-10543. [PMID: 37566103 DOI: 10.1039/d3cc02654j] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/12/2023]
Abstract
A facile protocol for the preparation of indole-isoindole derivatives was developed and proceeds via a palladium-catalyzed [3+2] cyclization of isocyanides with alkynyl imines. In this transformation, the palladium catalyst has a triple role, serving simultaneously as a π acid, a transition-metal catalyst and a hydride ion donor, thus enabling the dual function of isocyanide both as a C1 synthon for cyanation and a C1N1 synthon for imidoylation. Significantly, the reaction is the sole successful example for accessing indole-isoindole derivatives, and will open up new avenues to assemble unique N-heterocycle frameworks. Furthermore, the synthetic value of this protocol is demonstrated in the late-stage modification of physiologically active molecules and in the construction of aggregation-induced emission compounds.
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Affiliation(s)
- Dianpeng Chen
- School of Chemistry and Chemical Engineering, Qufu Normal University, Qufu 273165, Shandong, China.
| | - Jianming Li
- School of Chemistry and Chemical Engineering, Qufu Normal University, Qufu 273165, Shandong, China.
| | - Gongle Liu
- School of Chemistry and Chemical Engineering, Qufu Normal University, Qufu 273165, Shandong, China.
| | - Xiuhua Zhang
- School of Chemistry and Chemical Engineering, Qufu Normal University, Qufu 273165, Shandong, China.
| | - Xin Wang
- School of Chemistry and Chemical Engineering, Qufu Normal University, Qufu 273165, Shandong, China.
| | - Yongwei Liu
- School of Chemistry and Chemical Engineering, Qufu Normal University, Qufu 273165, Shandong, China.
| | - Xuan Liu
- School of Chemistry and Chemical Engineering, Qufu Normal University, Qufu 273165, Shandong, China.
| | - Xinghai Liu
- School of Chemistry and Chemical Engineering, Qufu Normal University, Qufu 273165, Shandong, China.
| | - Yongqin Li
- School of Chemistry and Chemical Engineering, Qufu Normal University, Qufu 273165, Shandong, China.
| | - Yingying Shan
- School of Chemistry and Chemical Engineering, Qufu Normal University, Qufu 273165, Shandong, China.
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27
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Smith N, Dasgupta M, Wych DC, Dolamore C, Sierra RG, Lisova S, Marchany-Rivera D, Cohen AE, Boutet S, Hunter MS, Kupitz C, Poitevin F, Moss FR, Brewster AS, Sauter NK, Young ID, Wolff AM, Tiwari VK, Kumar N, Berkowitz DB, Hadt RG, Thompson MC, Follmer AH, Wall ME, Wilson MA. Changes in an Enzyme Ensemble During Catalysis Observed by High Resolution XFEL Crystallography. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.08.15.553460. [PMID: 37645800 PMCID: PMC10462001 DOI: 10.1101/2023.08.15.553460] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 08/31/2023]
Abstract
Enzymes populate ensembles of structures with intrinsically different catalytic proficiencies that are difficult to experimentally characterize. We use time-resolved mix-and-inject serial crystallography (MISC) at an X-ray free electron laser (XFEL) to observe catalysis in a designed mutant (G150T) isocyanide hydratase (ICH) enzyme that enhances sampling of important minor conformations. The active site exists in a mixture of conformations and formation of the thioimidate catalytic intermediate selects for catalytically competent substates. A prior proposal for active site cysteine charge-coupled conformational changes in ICH is validated by determining structures of the enzyme over a range of pH values. A combination of large molecular dynamics simulations of the enzyme in crystallo and time-resolved electron density maps shows that ionization of the general acid Asp17 during catalysis causes additional conformational changes that propagate across the dimer interface, connecting the two active sites. These ionization-linked changes in the ICH conformational ensemble permit water to enter the active site in a location that is poised for intermediate hydrolysis. ICH exhibits a tight coupling between ionization of active site residues and catalysis-activated protein motions, exemplifying a mechanism of electrostatic control of enzyme dynamics.
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Affiliation(s)
- Nathan Smith
- Department of Biochemistry and Redox Biology Center, University of Nebraska-Lincoln, Lincoln, NE, 68588
| | - Medhanjali Dasgupta
- Department of Biochemistry and Redox Biology Center, University of Nebraska-Lincoln, Lincoln, NE, 68588
| | - David C. Wych
- Computer, Computational, and Statistical Sciences Division, Los Alamos National Laboratory, Los Alamos, NM 875405
- Center for Nonlinear Studies, Los Alamos National Laboratory, Los Alamos, NM 87545
| | - Cole Dolamore
- Department of Biochemistry and Redox Biology Center, University of Nebraska-Lincoln, Lincoln, NE, 68588
| | - Raymond G. Sierra
- Linac Coherent Light Source, SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA 94025
| | - Stella Lisova
- Linac Coherent Light Source, SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA 94025
| | - Darya Marchany-Rivera
- Stanford Synchrotron Radiation Lightsource, SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA 94025
| | - Aina E. Cohen
- Stanford Synchrotron Radiation Lightsource, SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA 94025
| | - Sébastien Boutet
- Linac Coherent Light Source, SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA 94025
| | - Mark S. Hunter
- Linac Coherent Light Source, SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA 94025
| | - Christopher Kupitz
- Linac Coherent Light Source, SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA 94025
| | - Frédéric Poitevin
- Linac Coherent Light Source, SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA 94025
| | - Frank R. Moss
- Linac Coherent Light Source, SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA 94025
| | - Aaron S. Brewster
- Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720
| | - Nicholas K. Sauter
- Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720
| | - Iris D. Young
- Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720
| | - Alexander M. Wolff
- Department of Chemistry and Biochemistry, University of California, Merced, CA, 93540
| | - Virendra K. Tiwari
- Department of Chemistry, University of Nebraska-Lincoln, Lincoln, NE, 68588
| | - Nivesh Kumar
- Department of Chemistry, University of Nebraska-Lincoln, Lincoln, NE, 68588
| | - David B. Berkowitz
- Department of Chemistry, University of Nebraska-Lincoln, Lincoln, NE, 68588
| | - Ryan G. Hadt
- Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, CA USA
| | - Michael C. Thompson
- Department of Chemistry and Biochemistry, University of California, Merced, CA, 93540
| | - Alec H. Follmer
- Department of Chemistry, University of California-Irvine, Irvine, CA 92697
| | - Michael E. Wall
- Computer, Computational, and Statistical Sciences Division, Los Alamos National Laboratory, Los Alamos, NM 875405
| | - Mark A. Wilson
- Department of Biochemistry and Redox Biology Center, University of Nebraska-Lincoln, Lincoln, NE, 68588
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28
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Nickles GR, Oestereicher B, Keller NP, Drott M. Mining for a new class of fungal natural products: the evolution, diversity, and distribution of isocyanide synthase biosynthetic gene clusters. Nucleic Acids Res 2023; 51:7220-7235. [PMID: 37427794 PMCID: PMC10415135 DOI: 10.1093/nar/gkad573] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2023] [Revised: 06/16/2023] [Accepted: 07/06/2023] [Indexed: 07/11/2023] Open
Abstract
The products of non-canonical isocyanide synthase (ICS) biosynthetic gene clusters (BGCs) mediate pathogenesis, microbial competition, and metal-homeostasis through metal-associated chemistry. We sought to enable research into this class of compounds by characterizing the biosynthetic potential and evolutionary history of these BGCs across the Fungal Kingdom. We amalgamated a pipeline of tools to predict BGCs based on shared promoter motifs and located 3800 ICS BGCs in 3300 genomes, making ICS BGCs the fifth largest class of specialized metabolites compared to canonical classes found by antiSMASH. ICS BGCs are not evenly distributed across fungi, with evidence of gene-family expansions in several Ascomycete families. We show that the ICS dit1/2 gene cluster family (GCF), which was prior only studied in yeast, is present in ∼30% of all Ascomycetes. The dit variety ICS exhibits greater similarity to bacterial ICS than other fungal ICS, suggesting a potential convergence of the ICS backbone domain. The evolutionary origins of the dit GCF in Ascomycota are ancient and these genes are diversifying in some lineages. Our results create a roadmap for future research into ICS BGCs. We developed a website (https://isocyanides.fungi.wisc.edu/) that facilitates the exploration and downloading of all identified fungal ICS BGCs and GCFs.
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Affiliation(s)
- Grant R Nickles
- Department of Medical Microbiology and Immunology, University of Wisconsin—Madison, Madison, WI 53706, USA
| | | | - Nancy P Keller
- Department of Medical Microbiology and Immunology, University of Wisconsin—Madison, Madison, WI 53706, USA
- Department of Plant Pathology, University of Wisconsin—Madison, Madison, WI 53706, USA
| | - Milton T Drott
- USDA-ARS Cereal Disease Lab (CDL), St. Paul, MN 55108, USA
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29
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Evans MJ, Anker MD, McMullin CL, Coles MP. Controlled reductive C-C coupling of isocyanides promoted by an aluminyl anion. Chem Sci 2023; 14:6278-6288. [PMID: 37325153 PMCID: PMC10266456 DOI: 10.1039/d3sc01387a] [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: 03/15/2023] [Accepted: 05/12/2023] [Indexed: 06/17/2023] Open
Abstract
We report the reaction of the potassium aluminyl, K[Al(NON)] ([NON]2- = [O(SiMe2NDipp)2]2-, Dipp = 2,6-iPr2C6H3) with a series of isocyanide substrates (R-NC). In the case of tBu-NC, degradation of the isocyanide was observed generating an isomeric mixture of the corresponding aluminium cyanido-κC and -κN compounds, K[Al(NON)(H)(CN)]/K[Al(NON)(H)(NC)]. The reaction with 2,6-dimethylphenyl isocyanide (Dmp-NC), gave a C3-homologation product, which in addition to C-C bond formation showed dearomatisation of one of the aromatic substituents. In contrast, using adamantyl isocyanide Ad-NC allowed both the C2- and C3-homologation products to be isolated, allowing a degree of control to be exercised over the chain growth process. These data also show that the reaction proceeds through a stepwise addition, supported in this study by the synthesis of the mixed [(Ad-NC)2(Dmp-NC)]2- product. Computational analysis of the bonding within the homologised products confirm a high degree of multiple bond character in the exocyclic ketenimine units of the C2- and C3-products. In addition, the mechanism of chain growth was investigated, identifying different possible pathways leading to the observed products, and highlighting the importance of the potassium cation in formation of the initial C2-chain.
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Affiliation(s)
- Matthew J Evans
- School of Chemical and Physical Sciences, Victoria University of Wellington P. O. Box 600 Wellington New Zealand
| | - Mathew D Anker
- School of Chemical and Physical Sciences, Victoria University of Wellington P. O. Box 600 Wellington New Zealand
| | | | - Martyn P Coles
- School of Chemical and Physical Sciences, Victoria University of Wellington P. O. Box 600 Wellington New Zealand
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30
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Kopcsik E, Mucsi Z, Kontra B, Vanyorek L, Váradi C, Viskolcz B, Nagy M. Preparation and Optical Study of 1-Formamido-5-Isocyanonaphthalene, the Hydrolysis Product of the Potent Antifungal 1,5-Diisocyanonaphthalene. Int J Mol Sci 2023; 24:ijms24097780. [PMID: 37175485 PMCID: PMC10177923 DOI: 10.3390/ijms24097780] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2023] [Revised: 04/18/2023] [Accepted: 04/22/2023] [Indexed: 05/15/2023] Open
Abstract
Aromatic isocyanides have gained a lot of attention lately as promising antifungal and anticancer drugs, as well as high-performance fluorescent analytical probes for the detection of toxic metals, such as mercury, even in vivo. Since this topic is relatively new and aromatic isocyanides possess unique photophysical properties, the understanding of structure-behavior relationships and the preparation of novel potentially biologically active derivatives are of paramount importance. Here, we report the photophysical characterization of 1,5-diisocyanonaphthalene (DIN) backed by quantum chemical calculations. It was discovered that DIN undergoes hydrolysis in certain solvents in the presence of oxonium ions. By the careful control of the reaction conditions for the first time, the nonsymmetric product 1-formamido-5-isocyanonaphthalene (ICNF) could be prepared. Contrary to expectations, the monoformamido derivative showed a significant solvatochromic behavior with a ~50 nm range from hexane to water. This behavior was explained by the enhanced H-bond-forming ability of the formamide group. The significance of the hydrolysis reaction is that the isocyano group is converted to formamide in living organisms. Therefore, ICNF could be a potential drug (for example, antifungal) and the reaction can be used as a model for the preparation of other nonsymmetric formamido-isocyanoarenes. In contrast to its relative 1-amino-5-iscyanonaphthalene (ICAN), ICNF is highly fluorescent in water, enabling the development of a fluorescent turnoff probe.
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Affiliation(s)
- Erika Kopcsik
- Institute of Chemistry, University of Miskolc, Miskolc-Egyetemváros, 3515 Miskolc, Hungary
| | - Zoltán Mucsi
- Advanced Materials and Intelligent Technologies Higher Education and Industrial Cooperation Centre, University of Miskolc, Miskolc-Egyetemváros, 3515 Miskolc, Hungary
- Department of Chemistry, Brain Vision Center, Liliom utca 43-45, 1094 Budapest, Hungary
| | - Bence Kontra
- Department of Chemistry, Brain Vision Center, Liliom utca 43-45, 1094 Budapest, Hungary
- Department of Organic Chemistry, Semmelweis University, Hőgyes Endre utca 7, 1092 Budapest, Hungary
| | - László Vanyorek
- Institute of Chemistry, University of Miskolc, Miskolc-Egyetemváros, 3515 Miskolc, Hungary
| | - Csaba Váradi
- Advanced Materials and Intelligent Technologies Higher Education and Industrial Cooperation Centre, University of Miskolc, Miskolc-Egyetemváros, 3515 Miskolc, Hungary
| | - Béla Viskolcz
- Institute of Chemistry, University of Miskolc, Miskolc-Egyetemváros, 3515 Miskolc, Hungary
- Advanced Materials and Intelligent Technologies Higher Education and Industrial Cooperation Centre, University of Miskolc, Miskolc-Egyetemváros, 3515 Miskolc, Hungary
| | - Miklós Nagy
- Institute of Chemistry, University of Miskolc, Miskolc-Egyetemváros, 3515 Miskolc, Hungary
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31
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Nickles GR, Oestereicher B, Keller NP, Drott MT. Mining for a New Class of Fungal Natural Products: The Evolution, Diversity, and Distribution of Isocyanide Synthase Biosynthetic Gene Clusters. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.04.17.537281. [PMID: 37131656 PMCID: PMC10153163 DOI: 10.1101/2023.04.17.537281] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/04/2023]
Abstract
The products of non-canonical isocyanide synthase (ICS) biosynthetic gene clusters (BGCs) have notable bioactivities that mediate pathogenesis, microbial competition, and metal-homeostasis through metal-associated chemistry. We sought to enable research into this class of compounds by characterizing the biosynthetic potential and evolutionary history of these BGCs across the Fungal Kingdom. We developed the first genome-mining pipeline to identify ICS BGCs, locating 3,800 ICS BGCs in 3,300 genomes. Genes in these clusters share promoter motifs and are maintained in contiguous groupings by natural selection. ICS BGCs are not evenly distributed across fungi, with evidence of gene-family expansions in several Ascomycete families. We show that the ICS dit1 / 2 gene cluster family (GCF), which was thought to only exist in yeast, is present in ∼30% of all Ascomycetes, including many filamentous fungi. The evolutionary history of the dit GCF is marked by deep divergences and phylogenetic incompatibilities that raise questions about convergent evolution and suggest selection or horizontal gene transfers have shaped the evolution of this cluster in some yeast and dimorphic fungi. Our results create a roadmap for future research into ICS BGCs. We developed a website ( www.isocyanides.fungi.wisc.edu ) that facilitates the exploration, filtering, and downloading of all identified fungal ICS BGCs and GCFs.
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Affiliation(s)
- Grant R. Nickles
- Department of Medical Microbiology and Immunology, University of Wisconsin—Madison, Madison, WI 53706, USA
| | | | - Nancy P. Keller
- Department of Medical Microbiology and Immunology, University of Wisconsin—Madison, Madison, WI 53706, USA
- Department of Plant Pathology, University of Wisconsin—Madison, Madison, WI 53706, USA
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32
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Chen X, Marek I. Highly Diastereoselective Preparation of Tertiary Alkyl Isonitriles by Stereoinvertive Nucleophilic Substitution at a Nonclassical Carbocation. Org Lett 2023; 25:2285-2288. [PMID: 36976777 PMCID: PMC10088034 DOI: 10.1021/acs.orglett.3c00583] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2023] [Indexed: 03/29/2023]
Abstract
A highly efficient SnCl4-catalyzed nucleophilic isocyanation of cyclopropyl ethers has been developed. The reaction proceeds at the quaternary carbon stereocenter of the cyclopropane with a complete inversion of configuration, providing a new avenue for the construction of synthetically challenging tertiary alkyl isonitriles with high diastereopurity. The diversity of the incorporated isocyanide group has been demonstrated by the transformation of tertiary alkyl isonitriles into the corresponding tertiary alkyl amines, amides, and cyclic ketoimines.
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Affiliation(s)
- Xu Chen
- Schulich Faculty of Chemistry and Resnick
Sustainability Center for Catalysis, Technion
- Israel Institute of Technology, Technion City, Haifa 3200009, Israel
| | - Ilan Marek
- Schulich Faculty of Chemistry and Resnick
Sustainability Center for Catalysis, Technion
- Israel Institute of Technology, Technion City, Haifa 3200009, Israel
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33
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Schäfer RJB, Wilson K, Biedermann M, Moore BS, Sieber S, Wennemers H. Identification of Isonitrile-Containing Natural Products in Complex Biological Matrices through Ligation with Chlorooximes. Chemistry 2023; 29:e202203277. [PMID: 36331430 PMCID: PMC9892309 DOI: 10.1002/chem.202203277] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2022] [Revised: 10/30/2022] [Accepted: 10/31/2022] [Indexed: 11/06/2022]
Abstract
Isonitrile-containing natural products have garnered attention for their manifold bioactivities but are difficult to detect and isolate due to the chemical lability of the isonitrile functional group. Here, we used the isonitrile-chlorooxime ligation (INC) in a reactivity-based screening (RBS) protocol for the detection and isolation of alkaloid and terpene isonitriles in the cyanobacterium Fischerella ambigua and a marine sponge of the order Bubarida, respectively. A trifunctional probe bearing a chlorooxime moiety, a UV active aromatic moiety, and a bromine label facilitated the chemoselective reaction with isonitriles, UV-Vis spectroscopic detection, and mass spectrometric analysis. The INC-based RBS allowed for the detection, isolation, and structural elucidation of isonitriles in microgram quantities.
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Affiliation(s)
- Rebecca J. B. Schäfer
- Laboratory of Organic Chemistry, ETH Zürich, Vladimir-Prelog-Weg 3, 8093 Zürich, Switzerland,Scripps Institution of Oceanography, University of California, San Diego, La Jolla, CA, USA
| | - Kayla Wilson
- Scripps Institution of Oceanography, University of California, San Diego, La Jolla, CA, USA
| | - Maurice Biedermann
- Laboratory of Organic Chemistry, ETH Zürich, Vladimir-Prelog-Weg 3, 8093 Zürich, Switzerland
| | - Bradley S. Moore
- Scripps Institution of Oceanography, University of California, San Diego, La Jolla, CA, USA,Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California at San Diego, La Jolla, California, 92093, United States
| | - Simon Sieber
- University of Zurich, Winterthurerstrasse 190, 8057 Zurich, Switzerland
| | - Helma Wennemers
- Laboratory of Organic Chemistry, ETH Zürich, Vladimir-Prelog-Weg 3, 8093 Zürich, Switzerland
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34
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Brunelli F, Ceresa C, Aprile S, Coppo L, Castiglioni B, Bosetti M, Fracchia L, Tron GC. Isocyanides in med chem: A scaffold hopping approach for the identification of novel 4-isocyanophenylamides as potent antibacterial agents against methicillin-resistant Staphylococcusaureus. Eur J Med Chem 2023; 246:114950. [PMID: 36462437 DOI: 10.1016/j.ejmech.2022.114950] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2022] [Revised: 11/16/2022] [Accepted: 11/20/2022] [Indexed: 11/27/2022]
Abstract
We describe the rational use of the neglected isocyano moiety as pharmacophoric group for the design of novel 4-isocyanophenylamides as antibacterial agents. This class of novel compounds showed to be highly effective against methicillin resistant Staphylococcus aureus strains. In particular, from an extensive screening, we identified compound 42 as lead compound. It has shown a potent antimicrobial activity, an additive effect with most antibiotics currently in use, the ability not to induce the formation of resistant strains after ten passages, and the ability to block the biofilm formation. A nontoxic profile on mammalian cells and a proper metabolic stability on human liver microsome complete the picture of this new weapon against methicillin resistant Staphylococcus aureus infections.
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Affiliation(s)
- Francesca Brunelli
- Dipartimento di Scienze del Farmaco, Università degli Studi del Piemonte Orientale "A. Avogadro", Largo Donegani 2, 28100, Novara, Italy
| | - Chiara Ceresa
- Dipartimento di Scienze del Farmaco, Università degli Studi del Piemonte Orientale "A. Avogadro", Largo Donegani 2, 28100, Novara, Italy
| | - Silvio Aprile
- Dipartimento di Scienze del Farmaco, Università degli Studi del Piemonte Orientale "A. Avogadro", Largo Donegani 2, 28100, Novara, Italy
| | - Lorenza Coppo
- Dipartimento di Scienze del Farmaco, Università degli Studi del Piemonte Orientale "A. Avogadro", Largo Donegani 2, 28100, Novara, Italy
| | - Beatrice Castiglioni
- Dipartimento di Scienze del Farmaco, Università degli Studi del Piemonte Orientale "A. Avogadro", Largo Donegani 2, 28100, Novara, Italy
| | - Michela Bosetti
- Dipartimento di Scienze del Farmaco, Università degli Studi del Piemonte Orientale "A. Avogadro", Largo Donegani 2, 28100, Novara, Italy
| | - Letizia Fracchia
- Dipartimento di Scienze del Farmaco, Università degli Studi del Piemonte Orientale "A. Avogadro", Largo Donegani 2, 28100, Novara, Italy.
| | - Gian Cesare Tron
- Dipartimento di Scienze del Farmaco, Università degli Studi del Piemonte Orientale "A. Avogadro", Largo Donegani 2, 28100, Novara, Italy.
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35
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Gu Q, Cheng Z, Qiu X, Zeng X. Recent Advances in the Electrochemical Functionalization of Isocyanides. CHEM REC 2023; 23:e202200177. [PMID: 36126178 DOI: 10.1002/tcr.202200177] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2022] [Revised: 08/30/2022] [Indexed: 01/21/2023]
Abstract
Isocyanides are well-known as efficient CO surrogates and C1 synthons in modern organic synthesis. Although tremendous efforts have been devoted to fully exploiting the reactivity of isocyanides, these transformations are primarily limited by their utilization of stoichiometric toxic chemical oxidants. With the recent resurgence of organic electrochemistry, which has considerably laid dormant over the past several decades, electrolysis has been identified as a green and powerful tool to enrich structural diversity by solely utilizing electric current as clean and inherently safe redox equivalents of stoichiometric chemical oxidants. In this regard, the unique reactivity of isocyanides has been studied in numerous electrochemical transformations. This review comprehensively highlights the most relevant progress in electrochemical strategies towards the functionalization of isocyanides up until June of 2022, with a focus on reaction outcomes and mechanisms.
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Affiliation(s)
- Qingyun Gu
- School of Pharmacy, Nantong University, Nantong, 226001, PR China
| | - Zhenfeng Cheng
- School of Pharmacy, Nantong University, Nantong, 226001, PR China
| | - Xiaodong Qiu
- School of Pharmacy, Nantong University, Nantong, 226001, PR China
| | - Xiaobao Zeng
- School of Pharmacy, Nantong University, Nantong, 226001, PR China
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36
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Tian H, Holyoke CW, Fleming FF. Stereoselective Synthesis of ( E)- and ( Z)-Isocyanoalkenes. Org Lett 2022; 24:8657-8661. [PMID: 36399331 DOI: 10.1021/acs.orglett.2c03461] [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: 11/19/2022]
Abstract
(E)- and (Z)-isocyanoalkenes were selectively synthesized via the sequential cross coupling of vinyl iodides with formamide, followed by dehydration. The optimal catalyst, generated in situ from CuII and trans-N,N'-dimethyl-1,2-cyclohexanediamine, rapidly coupled (E)- or (Z)-vinyl iodides with formamide, which minimized the isomerization of the resultant vinyl formamide. The method efficiently provided a range of acyclic, carbocyclic, and heterocyclic isocyanoalkenes; the versatility is illustrated with the selective, stereodivergent syntheses of the diastereomeric isocyanoalkene antibiotics, B371 and E-B371.
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Affiliation(s)
- Huan Tian
- Department of Chemistry, Drexel University, 3141 Chestnut Street, Philadelphia, Pennsylvania 19104, United States
| | - Caleb W Holyoke
- Department of Chemistry, Drexel University, 3141 Chestnut Street, Philadelphia, Pennsylvania 19104, United States
| | - Fraser F Fleming
- Department of Chemistry, Drexel University, 3141 Chestnut Street, Philadelphia, Pennsylvania 19104, United States
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37
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Du W, Zheng Y, Wang X, Lei J, Wang H, Tian X, Zou S, Bloino J, Gou Q, Caminati W, Grabow JU. Scissor-like Face to Face π-π Stacking: A Surprising Preference Induced by the Isocyano Group in the Self-Assembled Dimer of Phenyl Isocyanide. J Phys Chem Lett 2022; 13:9934-9940. [PMID: 36259781 DOI: 10.1021/acs.jpclett.2c02807] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
Phenyl isocyanide has been chosen as a prototype to probe the π-π interaction modulated by the -NC group, which has a chameleonic nature with two main resonance forms showing a triple bond and being carbenoid. The rotational spectroscopic investigation complemented with theoretical analyses indicates that the phenyl isocyanide dimer has a scissor-like configuration controlled by dispersive forces along with the formation of π-π stacking. This is the first rotational spectroscopic evidence, to the best of our knowledge, that the mono-substitution by an -NC group on benzene can activate the meta position in forming noncovalent interactions. This work also provides experimental evidence on the importance of substituent effects in modulating π-π stacked structures, as well as practical proof of a biased interaction behavior of isocyanide-substituted aromatic molecules.
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Affiliation(s)
- Weiping Du
- Department of Chemistry, School of Chemistry and Chemical Engineering, Chongqing University, Shapingba, Chongqing 401331, China
| | - Yang Zheng
- Department of Chemistry, School of Chemistry and Chemical Engineering, Chongqing University, Shapingba, Chongqing 401331, China
| | - Xiujuan Wang
- Department of Chemistry, School of Chemistry and Chemical Engineering, Chongqing University, Shapingba, Chongqing 401331, China
| | - Juncheng Lei
- Department of Chemistry, School of Chemistry and Chemical Engineering, Chongqing University, Shapingba, Chongqing 401331, China
| | - Hao Wang
- Department of Chemistry, School of Chemistry and Chemical Engineering, Chongqing University, Shapingba, Chongqing 401331, China
| | - Xiao Tian
- Department of Chemistry, School of Chemistry and Chemical Engineering, Chongqing University, Shapingba, Chongqing 401331, China
| | - Siyu Zou
- Department of Chemistry, School of Chemistry and Chemical Engineering, Chongqing University, Shapingba, Chongqing 401331, China
| | - Julien Bloino
- Scuola Normale Superiore, Piazza dei Cavalieri 7, 56126 Pisa, Italy
| | - Qian Gou
- Department of Chemistry, School of Chemistry and Chemical Engineering, Chongqing University, Shapingba, Chongqing 401331, China
| | - Walther Caminati
- Dipartimento di Chimica "G. Ciamician", Università di Bologna, I-40126 Bologna, Italy
| | - Jens-Uwe Grabow
- Institut für Physikalische Chemie & Elektrochemie, Leibniz Universität Hannover, 30167 Hannover, Germany
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38
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Zhang XG, Zhong JH. Correlating the orbital overlap area and vibrational frequency shift of an isocyanide moiety adsorbed on Pt and Pd covered Au(111) surfaces. Phys Chem Chem Phys 2022; 24:23301-23308. [PMID: 36165277 DOI: 10.1039/d2cp03444a] [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
Orbital interactions between adsorbed molecules and the underlying metal surfaces play critical roles in a wide range of surface and interfacial processes. Establishing a correlation between an experimental observable (e.g., vibrational frequency shift of the adsorbed molecule) and the orbital interactions is of vital importance. Herein, theoretical calculations are used to investigate the vibrational frequency shift of phenyl isocyanide molecules as a probe molecule adsorbed on mono- and bi-layer Pt and Pd covered Au(111) surfaces and Pd2Au4 and Pt2Au4 clusters. By analyzing the density of states (DOS) of the adsorption system, we show that the orbital overlap area of d electronic DOS with a molecular σ or π* orbital, particularly their ratio (Rd-σ/d-π*), can be a meaningful descriptor to explain the frequency shift of the CN moiety. This hypothesis has been verified by simulations for phenyl isocyanide with electron donating NH2- and withdrawing CF3- substituent groups, formonitrile and carbon monoxide. Quasi-linear dependence of the frequency shift on Rd-σ/d-π* is observed for both the red and blue shift regions. Our findings build up on previous notions of electronic interactions, which will provide a more quantitative and solid footing to understand and analyze the frequency shift of adsorbed molecules on metal surfaces and the related electronic interactions and catalytic properties.
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Affiliation(s)
- Xia-Guang Zhang
- Key Laboratory of Green Chemical Media and Reactions, Ministry of Education, Collaborative Innovation Center of Henan Province for Green Manufacturing of Fine Chemicals, College of Chemistry and Chemical Engineering, Henan Normal University, Xinxiang 453007, China.
| | - Jin-Hui Zhong
- Department of Materials Science and Engineering, Southern University of Science and Technology, Shenzhen, 518055, China.
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39
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Verpekin VV, Chudin OS, Kondrasenko AA, Burmakina GV, Vasiliev AD, Zimonin DV, Rubaylo AI. Chemistry of vinylidene complexes—XXVII—new µ-vinylidene MnPt complexes with platinum-coordinated 1-adamantyl isocyanide ligand: spectroscopic, structural and electrochemical study. TRANSIT METAL CHEM 2022. [DOI: 10.1007/s11243-022-00511-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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40
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Cuccu F, Basoccu F, Fattuoni C, Porcheddu A. N-Formylsaccharin: A Sweet(able) Formylating Agent in Mechanochemistry. Molecules 2022; 27:5450. [PMID: 36080215 PMCID: PMC9457594 DOI: 10.3390/molecules27175450] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2022] [Revised: 08/19/2022] [Accepted: 08/21/2022] [Indexed: 11/17/2022] Open
Abstract
The acylation of amines has always attracted a deep interest as a synthetic route due to its high versatility in organic chemistry and biochemical processes. The purpose of this article is to present a mechanochemical acylation procedure based on the use of acyl-saccharin derivatives, namely N-formylsaccharin, N-acetylsaccharin, and N-propionylsaccharin. This protocol furnishes a valuable solvent-free alternative to the existing processes and aims to be highly beneficial in multi-step procedures due to its rapid and user-friendly workup.
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Affiliation(s)
| | | | - Claudia Fattuoni
- Department of Chemical and Geological Sciences, University of Cagliari, 09124 Monserrato, Italy
| | - Andrea Porcheddu
- Department of Chemical and Geological Sciences, University of Cagliari, 09124 Monserrato, Italy
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41
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Shirsath SR, More DA, Muthukrishnan M. Metal‐Free Aminocarbonylation of p‐Quinone Methides with Isocyanides: Synthesis of Sterically Hindered α‐Arylated Acetamides. Chem Asian J 2022; 17:e202200642. [DOI: 10.1002/asia.202200642] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2022] [Revised: 08/18/2022] [Indexed: 11/08/2022]
Affiliation(s)
- Sachin R Shirsath
- CSIR-National Chemical Laboratory: National Chemical Laboratory CSIR Division of Organic Chemistry INDIA
| | - Devidas A More
- CSIR-National Chemical Laboratory: National Chemical Laboratory CSIR Division of Organic Chemistry INDIA
| | - M Muthukrishnan
- CSIR-National Chemical Laboratory: National Chemical Laboratory CSIR Organic Chemistry Dr. HomiBhabha Road 411008 Pune INDIA
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42
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Hooshmand SE, Yazdani H, Hulme C. Six‐Component Reactions and Beyond: The Nuts and Bolts. European J Org Chem 2022. [DOI: 10.1002/ejoc.202200569] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
| | - Hossein Yazdani
- Independent researcher Independent Researcher Tehran IRAN (ISLAMIC REPUBLIC OF)
| | - Christopher Hulme
- The University of Arizona Department of Chemistry and Biochemistry Tucson UNITED STATES
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43
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Mukhopadhyay S, Patro AG, Vadavi RS, Nembenna S. Coordination chemistry of main group metals with organic isocyanides. Eur J Inorg Chem 2022. [DOI: 10.1002/ejic.202200469] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Sayantan Mukhopadhyay
- National Institute of Science Education and Research Schoool of Chemical Sciences INDIA
| | - A Ganesh Patro
- National Institute of Science Education and Research School of Chemical Sciences INDIA
| | - Ramesh S. Vadavi
- National Institute of Science Education and Research School of Chemical Sciences INDIA
| | - Sharanappa Nembenna
- National Institute of Science Education and Research (NISER) School of Chemical Sciences Jatni CampusNISER, BhubaneswarINDIA 752050 Bhubaneswar INDIA
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44
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Cankařová N, Nemec I, Krchnak V. <i>p</i>‐TSA‐Mediated Four‐Component Reaction: One‐Step Access to Mesoionic 1<i>H</i>‐Imidazol‐3‐ium‐4‐olates, Direct NHC Precursors. Adv Synth Catal 2022. [DOI: 10.1002/adsc.202200398] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
| | - Ivan Nemec
- Palacky University Olomouc Faculty of Science CZECH REPUBLIC
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45
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Shen SM, Yang Q, Zang Y, Li J, Liu X, Guo YW. Anti-inflammatory aromadendrane- and cadinane-type sesquiterpenoids from the South China Sea sponge Acanthella cavernosa. Beilstein J Org Chem 2022; 18:916-925. [PMID: 35957756 PMCID: PMC9344550 DOI: 10.3762/bjoc.18.91] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2022] [Accepted: 07/14/2022] [Indexed: 11/23/2022] Open
Abstract
One new aromadendrane-type sesquiterpenoid, namely ximaocavernosin P [(+)-1], and three new cadinane-type sesquiterpenoids, namely (+)-maninsigin D [(+)-4], (+)- and (−)-ximaocavernosin Q [(+)- and (−)-5], together with five related known ones [2, 3, (−)-4, 6, and 7], were isolated from the Hainan sponge Acanthella cavernosa. Compounds 4 and 5 were isolated as racemic forms, which were further separated to the corresponding enantiomers [(+)-4/(−)-4 and (+)-5/(−)-5], respectively, by using chiral-phase HPLC. The structures of new compounds were elucidated by extensive spectroscopic analysis and comparison with the reported data. In addition, the absolute configuration of optically pure (+)-1 and 2 were determined by time-dependent density functional theory/electronic circular dichroism (TDDFT-ECD) calculations or X-ray diffraction analysis. A plausible biosynthetic pathway of these sesquiterpenoids and their internal correlation were proposed and discussed. In an in vitro bioassay, (+)-aristolone (3) exhibited promising anti-inflammatory activity by the inhibition of LPS-induced TNF-α and CCL2 release in RAW 264.7 macrophages.
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Affiliation(s)
- Shou-Mao Shen
- School of Chinese Materia Medica, Nanjing University of Chinese Medicine, Nanjing 210023, China
- State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China
| | - Qing Yang
- State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China
- School of Pharmaceutical Science, Nanchang University, Nanchang 330006, China
| | - Yi Zang
- State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China
| | - Jia Li
- State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China
- Shandong Laboratory of Yantai Drug Discovery, Bohai Rim Advanced Research Institute for Drug Discovery, Yantai, Shandong 264117, China
- Open Studio for Druggability Research of Marine Natural Products, Pilot National Laboratory for Marine Science and Technology, Qingdao, China
| | - Xueting Liu
- State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai 200237, China
| | - Yue-Wei Guo
- School of Chinese Materia Medica, Nanjing University of Chinese Medicine, Nanjing 210023, China
- State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China
- Shandong Laboratory of Yantai Drug Discovery, Bohai Rim Advanced Research Institute for Drug Discovery, Yantai, Shandong 264117, China
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46
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Wang H, Zhang L, Chen R, Liu Super vision Q, Liu J, Yu J, Liu P, Duan J, Wang J. Surface Morphology Properties and Antifouling Activity of Bi2WO6/Boron-grafted Polyurethane Composite Coatings Realized via Multiple Synergy. J Colloid Interface Sci 2022; 626:815-823. [DOI: 10.1016/j.jcis.2022.06.180] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2022] [Revised: 06/29/2022] [Accepted: 06/30/2022] [Indexed: 10/31/2022]
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47
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Han Q, Wang Q, Wu H, Ge X, Gao A, Bai Y, Gao S, Wang G, Cao X. Novel Naphthalimide‐Based Self‐Assembly Systems with Different Terminal Groups for Sensitive Detection of Thionyl Chloride and Oxalyl Chloride in Two Modes. ChemistrySelect 2022. [DOI: 10.1002/slct.202200298] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Qingqing Han
- College of Chemistry and Chemical Engineering Henan Province Key Laboratory of Utilization of Non-Metallic Mineral in the South of Henan and Green catalysis and synthesis key laboratory of Xinyang city Xinyang Normal University Xinyang 464000
| | - Qingqing Wang
- College of Chemistry and Chemical Engineering Henan Province Key Laboratory of Utilization of Non-Metallic Mineral in the South of Henan and Green catalysis and synthesis key laboratory of Xinyang city Xinyang Normal University Xinyang 464000
| | - Huijuan Wu
- College of Chemistry and Chemical Engineering Henan Province Key Laboratory of Utilization of Non-Metallic Mineral in the South of Henan and Green catalysis and synthesis key laboratory of Xinyang city Xinyang Normal University Xinyang 464000
| | - Xuefei Ge
- College of Chemistry and Chemical Engineering Henan Province Key Laboratory of Utilization of Non-Metallic Mineral in the South of Henan and Green catalysis and synthesis key laboratory of Xinyang city Xinyang Normal University Xinyang 464000
| | - Aiping Gao
- College of Chemistry and Chemical Engineering Henan Province Key Laboratory of Utilization of Non-Metallic Mineral in the South of Henan and Green catalysis and synthesis key laboratory of Xinyang city Xinyang Normal University Xinyang 464000
| | - Yifan Bai
- College of Chemistry and Chemical Engineering Henan Province Key Laboratory of Utilization of Non-Metallic Mineral in the South of Henan and Green catalysis and synthesis key laboratory of Xinyang city Xinyang Normal University Xinyang 464000
| | - Siyu Gao
- College of Chemistry and Chemical Engineering Henan Province Key Laboratory of Utilization of Non-Metallic Mineral in the South of Henan and Green catalysis and synthesis key laboratory of Xinyang city Xinyang Normal University Xinyang 464000
| | - Guixia Wang
- College of Chemistry and Chemical Engineering Henan Key Laboratory of Function-Oriented Porous Materials Luoyang Normal University Luoyang 471934 China
| | - Xinhua Cao
- College of Chemistry and Chemical Engineering Henan Province Key Laboratory of Utilization of Non-Metallic Mineral in the South of Henan and Green catalysis and synthesis key laboratory of Xinyang city Xinyang Normal University Xinyang 464000
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48
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Vanga M, Noonikara-Poyil A, Wu J, Dias HVR. Carbonyl and Isocyanide Complexes of Copper and Silver Supported by Fluorinated Poly(pyridyl)borates. Organometallics 2022. [DOI: 10.1021/acs.organomet.2c00134] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Affiliation(s)
- Mukundam Vanga
- Department of Chemistry and Biochemistry, The University of Texas at Arlington, Arlington, Texas 76019, United States
| | - Anurag Noonikara-Poyil
- Department of Chemistry and Biochemistry, The University of Texas at Arlington, Arlington, Texas 76019, United States
| | - Jiang Wu
- Department of Chemistry and Biochemistry, The University of Texas at Arlington, Arlington, Texas 76019, United States
| | - H. V. Rasika Dias
- Department of Chemistry and Biochemistry, The University of Texas at Arlington, Arlington, Texas 76019, United States
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49
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Del Rio Flores A, Kastner DW, Du Y, Narayanamoorthy M, Shen Y, Cai W, Vennelakanti V, Zill NA, Dell LB, Zhai R, Kulik HJ, Zhang W. Probing the Mechanism of Isonitrile Formation by a Non-Heme Iron(II)-Dependent Oxidase/Decarboxylase. J Am Chem Soc 2022; 144:5893-5901. [PMID: 35254829 PMCID: PMC8986608 DOI: 10.1021/jacs.1c12891] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
The isonitrile moiety is an electron-rich functionality that decorates various bioactive natural products isolated from diverse kingdoms of life. Isonitrile biosynthesis was restricted for over a decade to isonitrile synthases, a family of enzymes catalyzing a condensation reaction between l-Trp/l-Tyr and ribulose-5-phosphate. The discovery of ScoE, a non-heme iron(II) and α-ketoglutarate-dependent dioxygenase, demonstrated an alternative pathway employed by nature for isonitrile installation. Biochemical, crystallographic, and computational investigations of ScoE have previously been reported, yet the isonitrile formation mechanism remains obscure. In the present work, we employed in vitro biochemistry, chemical synthesis, spectroscopy techniques, and computational simulations that enabled us to propose a plausible molecular mechanism for isonitrile formation. Our findings demonstrate that the ScoE reaction initiates with C5 hydroxylation of (R)-3-((carboxymethyl)amino)butanoic acid to generate 1, which undergoes dehydration, presumably mediated by Tyr96 to synthesize 2 in a trans configuration. (R)-3-isocyanobutanoic acid is finally generated through radical-based decarboxylation of 2, instead of the common hydroxylation pathway employed by this enzyme superfamily.
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Affiliation(s)
- Antonio Del Rio Flores
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, California, United States 94720
| | - David W. Kastner
- Department of Bioengineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States 02139
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States 02139
| | - Yongle Du
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, California, United States 94720
| | - Maanasa Narayanamoorthy
- Department of Chemistry, University of California, Berkeley, California, United States 94720
| | - Yuanbo Shen
- Department of Chemistry, University of California, Berkeley, California, United States 94720
| | - Wenlong Cai
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, California, United States 94720
| | - Vyshnavi Vennelakanti
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States 02139
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States 02139
| | - Nicholas A. Zill
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, California, United States 94720
| | - Luisa B. Dell
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, California, United States 94720
| | - Rui Zhai
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, California, United States 94720
| | - Heather J. Kulik
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States 02139
| | - Wenjun Zhang
- Department of Chemical and Biomolecular Engineering, University of California, Berkeley, California, United States 94720
- Chan Zuckerberg Biohub, San Francisco, California, United States 94158
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50
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Chen TY, Zheng Z, Zhang X, Chen J, Cha L, Tang Y, Guo Y, Zhou J, Wang B, Liu HW, Chang WC. Deciphering the Reaction Pathway of Mononuclear Iron Enzyme-Catalyzed N≡C Triple Bond Formation in Isocyanide Lipopeptide and Polyketide Biosynthesis. ACS Catal 2022; 12:2270-2279. [PMID: 35992736 PMCID: PMC9390461 DOI: 10.1021/acscatal.1c04869] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Despite the diversity of reactions catalyzed by 2-oxoglutarate-dependent nonheme iron (Fe/2OG) enzymes identified in recent years, only a limited number of these enzymes have been investigated in mechanistic detail. In particular, several Fe/2OG-dependent enzymes capable of catalyzing isocyanide formation have been reported. While the glycine moiety has been identified as a biosynthon for the isocyanide group, how the actual conversion is effected remains obscure. To elucidate the catalytic mechanism, we characterized two previously unidentified (AecA and AmcA) along with two known (ScoE and SfaA) Fe/2OG-dependent enzymes that catalyze N≡C triple bond installation using synthesized substrate analogues and potential intermediates. Our results indicate that isocyanide formation likely entails a two-step sequence involving an imine intermediate that undergoes decarboxylation-assisted desaturation to yield the isocyanide product. Results obtained from the in vitro experiments are further supported by mutagenesis, the product-bound enzyme structure, and in silico analysis.
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Affiliation(s)
| | | | | | - Jinfeng Chen
- State Key Laboratory of Bio-Organic and Natural Products Chemistry, Center for Excellence in Molecular Synthesis, Shanghai Institute of Organic Chemistry, University of Chinese Academy of Sciences, Shanghai 200032, China
| | - Lide Cha
- Department of Chemistry, North Carolina State University, Raleigh, North Carolina 27695, United States
| | - Yijie Tang
- Department of Chemistry, Carnegie Mellon University, Pittsburgh, Pennsylvania 15213, United States
| | - Yisong Guo
- Department of Chemistry, Carnegie Mellon University, Pittsburgh, Pennsylvania 15213, United States
| | - Jiahai Zhou
- State Key Laboratory of Bio-Organic and Natural Products Chemistry, Center for Excellence in Molecular Synthesis, Shanghai Institute of Organic Chemistry, University of Chinese Academy of Sciences, Shanghai 200032, China; CAS Key Laboratory of Quantitative Engineering Biology, Shenzhen Institute of Synthetic Biology, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, China
| | - Binju Wang
- State Key Laboratory of Physical Chemistry of Solid Surfaces and Fujian Provincial Key Laboratory of Theoretical and Computational Chemistry, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005, China
| | - Hung-wen Liu
- Department of Chemistry, The University of Texas at Austin, Austin, Texas 78712, United States; Division of Chemical Biology & Medicinal Chemistry, College of Pharmacy, The University of Texas at Austin, Austin, Texas 78712, United States
| | - Wei-chen Chang
- Department of Chemistry, North Carolina State University, Raleigh, North Carolina 27695, United States
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