1
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Fernández E, Miret-Casals L, Madder A, Gevaert K. Cell Surface Biotinylation Using Furan Cross-Linking Chemistry. Methods Mol Biol 2023; 2718:11-21. [PMID: 37665452 DOI: 10.1007/978-1-0716-3457-8_2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/05/2023]
Abstract
A detailed study of the cellular surfaceome poses major challenges for mass spectrometry analysis. Surface proteins are low abundant compared to intracellular proteins, and their inefficient extraction in aqueous medium leads to their aggregation and precipitation. To tackle such problems, surface biotinylation is frequently used to tag surface proteins with biotin, allowing for their enrichment, leading to a more sensitive mapping of surface proteomes. We here detail a new surface biotinylation protocol based on furan-biotin affinity purification to enrich plasma membrane proteins for proteomics. This protocol involves biotinylation of cell surface membrane proteins on viable cells, followed by affinity enrichment using streptavidin beads, trypsin digestion, peptide cleanup, and LC-MS/MS analysis.
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Affiliation(s)
- Esperanza Fernández
- VIB Center for Medical Biotechnology, Ghent, Belgium
- Department of Biomolecular Medicine, Ghent University, Ghent, Belgium
| | - Laia Miret-Casals
- Organic and Biomimetic Chemistry Research Group, Department of Organic and Macromolecular Chemistry, Ghent University, Ghent, Belgium
| | - Annemieke Madder
- Organic and Biomimetic Chemistry Research Group, Department of Organic and Macromolecular Chemistry, Ghent University, Ghent, Belgium
| | - Kris Gevaert
- VIB Center for Medical Biotechnology, Ghent, Belgium.
- Department of Biomolecular Medicine, Ghent University, Ghent, Belgium.
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2
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Miret-Casals L, Vannecke W, Hoogewijs K, Arauz-Garofalo G, Gay M, Díaz-Lobo M, Vilaseca M, Ampe C, Van Troys M, Madder A. Furan warheads for covalent trapping of weak protein-protein interactions: cross-linking of thymosin β4 to actin. Chem Commun (Camb) 2021; 57:6054-6057. [PMID: 34036992 DOI: 10.1039/d1cc01731d] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
We describe furan as a triggerable 'warhead' for site-specific cross-linking using the actin and thymosin β4 (Tβ4)-complex as model of a weak and dynamic protein-protein interaction (PPI) with known 3D structure and with application potential in disease contexts. The identified cross-linked residues demonstrate that lysine is a target for the furan warhead. The presented in vitro validation of covalently acting 'furan-armed' Tβ4-variants provides initial proof to further exploit furan-technology for covalent drug design targeting lysines.
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Affiliation(s)
- Laia Miret-Casals
- Organic and Biomimetic Chemistry Research Group, Department of Organic and Macromolecular Chemistry, Faculty of Science, Ghent University, Krijgslaan 281 S4, Ghent B-9000, Belgium.
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3
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De Geyter E, Antonatou E, Kalaitzakis D, Smolen S, Iyer A, Tack L, Ongenae E, Vassilikogiannakis G, Madder A. 5-Hydroxy-pyrrolone based building blocks as maleimide alternatives for protein bioconjugation and single-site multi-functionalization. Chem Sci 2021; 12:5246-5252. [PMID: 34163760 PMCID: PMC8179572 DOI: 10.1039/d0sc05881e] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2020] [Accepted: 02/15/2021] [Indexed: 11/23/2022] Open
Abstract
Recent dramatic expansion in potential uses of protein conjugates has fueled the development of a wide range of protein modification methods; however, the desirable single-site multi-functionalization of proteins has remained a particularly intransigent challenge. Herein, we present the application of 5-hydroxy-1,5-dihydro-2H-pyrrol-2-ones (5HP2Os) as advantageous alternatives to widely used maleimides for the chemo- and site-selective labeling of cysteine residues within proteins. A variety of 5HP2O building blocks have been synthesized using a one-pot photooxidation reaction starting from simple and readily accessible furans and using visible light and oxygen. These novel reagents display excellent cysteine selectivity and also yield thiol conjugates with superior stability. 5HP2O building blocks offer a unique opportunity to introduce multiple new functionalities into a protein at a single site and in a single step, thus, significantly enhancing the resultant conjugate's properties.
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Affiliation(s)
- Ewout De Geyter
- Organic and Biomimetic Chemistry Research Group OBCR, Department of Organic and Macromolecular Chemistry, Faculty of Sciences, Ghent University Krijgslaan 281 S4 9000 Ghent Belgium
| | - Eirini Antonatou
- Organic and Biomimetic Chemistry Research Group OBCR, Department of Organic and Macromolecular Chemistry, Faculty of Sciences, Ghent University Krijgslaan 281 S4 9000 Ghent Belgium
| | - Dimitris Kalaitzakis
- Department of Chemistry, University of Crete Vasilika Vouton 71003 Iraklion Crete Greece
| | - Sabina Smolen
- Organic and Biomimetic Chemistry Research Group OBCR, Department of Organic and Macromolecular Chemistry, Faculty of Sciences, Ghent University Krijgslaan 281 S4 9000 Ghent Belgium
| | - Abhishek Iyer
- Organic and Biomimetic Chemistry Research Group OBCR, Department of Organic and Macromolecular Chemistry, Faculty of Sciences, Ghent University Krijgslaan 281 S4 9000 Ghent Belgium
| | - Laure Tack
- Organic and Biomimetic Chemistry Research Group OBCR, Department of Organic and Macromolecular Chemistry, Faculty of Sciences, Ghent University Krijgslaan 281 S4 9000 Ghent Belgium
| | - Emiel Ongenae
- Organic and Biomimetic Chemistry Research Group OBCR, Department of Organic and Macromolecular Chemistry, Faculty of Sciences, Ghent University Krijgslaan 281 S4 9000 Ghent Belgium
| | | | - Annemieke Madder
- Organic and Biomimetic Chemistry Research Group OBCR, Department of Organic and Macromolecular Chemistry, Faculty of Sciences, Ghent University Krijgslaan 281 S4 9000 Ghent Belgium
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4
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Kalaitzakis D, Bosveli A, Sfakianaki K, Montagnon T, Vassilikogiannakis G. Multi-Photocatalyst Cascades: Merging Singlet Oxygen Photooxygenations with Photoredox Catalysis for the Synthesis of Alkaloid Frameworks. Angew Chem Int Ed Engl 2021; 60:4335-4341. [PMID: 33119205 DOI: 10.1002/anie.202012379] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2020] [Revised: 10/02/2020] [Indexed: 12/13/2022]
Abstract
The development of photocascades that rapidly transform simple and readily accessible furan substrates into polycyclic alkaloid frameworks or erythrina natural products is described. Each of the sequences developed makes use of photocatalyzed energy transfer processes, which generate singlet oxygen, to set up the substrates for the second photocatalyzed reaction, wherein electron transfer generates carbon-centered radicals for the cyclizations that give the final complex frameworks. A chemical switch has been developed that can "switch off" one photocatalyst; thus, allowing a second photocatalyst to take over control of the sequence. As a corollary, this strategy represents the first time it has been possible to use multiple photocatalysts in photocascades, and, as such, it expands significantly the reactions that can be included in such cascades and the order in which they can be initiated.
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Affiliation(s)
- Dimitris Kalaitzakis
- Department of Chemistry, University of Crete, Vasilika Vouton, 71003, Iraklion, Crete, Greece
| | - Artemis Bosveli
- Department of Chemistry, University of Crete, Vasilika Vouton, 71003, Iraklion, Crete, Greece
| | - Kalliopi Sfakianaki
- Department of Chemistry, University of Crete, Vasilika Vouton, 71003, Iraklion, Crete, Greece
| | - Tamsyn Montagnon
- Department of Chemistry, University of Crete, Vasilika Vouton, 71003, Iraklion, Crete, Greece
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5
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Kalaitzakis D, Bosveli A, Sfakianaki K, Montagnon T, Vassilikogiannakis G. Multi‐Photocatalyst Cascades: Merging Singlet Oxygen Photooxygenations with Photoredox Catalysis for the Synthesis of Alkaloid Frameworks. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202012379] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Dimitris Kalaitzakis
- Department of Chemistry University of Crete Vasilika Vouton 71003 Iraklion Crete Greece
| | - Artemis Bosveli
- Department of Chemistry University of Crete Vasilika Vouton 71003 Iraklion Crete Greece
| | - Kalliopi Sfakianaki
- Department of Chemistry University of Crete Vasilika Vouton 71003 Iraklion Crete Greece
| | - Tamsyn Montagnon
- Department of Chemistry University of Crete Vasilika Vouton 71003 Iraklion Crete Greece
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6
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Koo B, Yoo H, Choi HJ, Kim M, Kim C, Kim KT. Visible Light Photochemical Reactions for Nucleic Acid-Based Technologies. Molecules 2021; 26:556. [PMID: 33494512 PMCID: PMC7865461 DOI: 10.3390/molecules26030556] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2020] [Revised: 01/18/2021] [Accepted: 01/18/2021] [Indexed: 12/16/2022] Open
Abstract
The expanding scope of chemical reactions applied to nucleic acids has diversified the design of nucleic acid-based technologies that are essential to medicinal chemistry and chemical biology. Among chemical reactions, visible light photochemical reaction is considered a promising tool that can be used for the manipulations of nucleic acids owing to its advantages, such as mild reaction conditions and ease of the reaction process. Of late, inspired by the development of visible light-absorbing molecules and photocatalysts, visible light-driven photochemical reactions have been used to conduct various molecular manipulations, such as the cleavage or ligation of nucleic acids and other molecules as well as the synthesis of functional molecules. In this review, we describe the recent developments (from 2010) in visible light photochemical reactions involving nucleic acids and their applications in the design of nucleic acid-based technologies including DNA photocleaving, DNA photoligation, nucleic acid sensors, the release of functional molecules, and DNA-encoded libraries.
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Affiliation(s)
| | | | | | - Min Kim
- Department of Chemistry, Chungbuk National University, Cheongju 28644, Korea; (B.K.); (H.Y.); (H.J.C.)
| | - Cheoljae Kim
- Department of Chemistry, Chungbuk National University, Cheongju 28644, Korea; (B.K.); (H.Y.); (H.J.C.)
| | - Ki Tae Kim
- Department of Chemistry, Chungbuk National University, Cheongju 28644, Korea; (B.K.); (H.Y.); (H.J.C.)
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7
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Truong VX, Barner-Kowollik C. Red-Light Driven Photocatalytic Oxime Ligation for Bioorthogonal Hydrogel Design. ACS Macro Lett 2021; 10:78-83. [PMID: 35548995 DOI: 10.1021/acsmacrolett.0c00767] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
Light-mediated polymer cross-linking is frequently employed for the preparation of hydrogels for biomedical applications. However, most photopolymerization processes require activation by UV light or short wavelength visible light, which are highly absorbed by skin and tissue, limiting their uses in transdermal initiation. Herein, we introduce red light-enabled oxime ligation by the in situ photogeneration of aldehydes, which rapidly react with hydroxylamines. We demonstrate efficient polymer cross-linking behind a dermal tissue model by red light initiation. Optimization of the photopolymerization conditions allows for 3D encapsulation of human foreskin fibroblasts with good cell viability postencapsulation.
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Affiliation(s)
- Vinh X. Truong
- School of Chemistry and Physics, Queensland University of Technology, Brisbane, Queensland 4000, Australia
- Centre for Materials Science, School of Chemistry and Physics, Queensland University of Technology (QUT), Brisbane 4000, Australia
| | - Christopher Barner-Kowollik
- School of Chemistry and Physics, Queensland University of Technology, Brisbane, Queensland 4000, Australia
- Centre for Materials Science, School of Chemistry and Physics, Queensland University of Technology (QUT), Brisbane 4000, Australia
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8
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Manicardi A, Cadoni E, Madder A. Visible-light triggered templated ligation on surface using furan-modified PNAs. Chem Sci 2020; 11:11729-11739. [PMID: 34094412 PMCID: PMC8162948 DOI: 10.1039/d0sc04875e] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2020] [Accepted: 10/02/2020] [Indexed: 12/25/2022] Open
Abstract
Oligonucleotide-templated reactions are frequently exploited for target detection in biosensors and for the construction of DNA-based materials and probes in nanotechnology. However, the translation of the specifically used template chemistry from solution to surfaces, with the final aim of achieving highly selective high-throughput systems, has been difficult to reach and therefore, poorly explored. Here, we show the first example of a visible light-triggered templated ligation on a surface, employing furan-modified peptide nucleic acids (PNAs). Tailored photo-oxidation of the pro-reactive furan moiety is ensured by the simultaneous introduction of a weak photosensitizer as well as a nucleophilic moiety in the reacting PNA strand. This allows one to ensure a localized production of singlet oxygen for furan activation, which is not affected by probe dilution or reducing conditions. Simple white light irradiation in combination with target-induced proximity between reactive functionalities upon recognition of a short 22mer DNA or RNA sequence that functions as a template, allows sensitive detection of nucleic acid targets in a 96 well plate format.
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Affiliation(s)
- Alex Manicardi
- Organic and Biomimetic Chemistry Research Group, Department of Organic and Macromolecular Chemistry, Ghent University Krijgslaan 281-S4 9000 Gent Belgium
| | - Enrico Cadoni
- Organic and Biomimetic Chemistry Research Group, Department of Organic and Macromolecular Chemistry, Ghent University Krijgslaan 281-S4 9000 Gent Belgium
| | - Annemieke Madder
- Organic and Biomimetic Chemistry Research Group, Department of Organic and Macromolecular Chemistry, Ghent University Krijgslaan 281-S4 9000 Gent Belgium
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9
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Kalaitzakis D, Sofiadis M, Tsopanakis V, Montagnon T, Vassilikogiannakis G. Merging singlet-oxygen induced furan oxidations with organocatalysis: synthesis of enantiopure cyclopentanones and hydrindanes. Org Biomol Chem 2020; 18:2817-2822. [DOI: 10.1039/d0ob00468e] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
A general, flexible and highly effective method for the regio-, diastereo- & enantioselective one-pot synthesis of important carbocycles, namely, enantiopure cyclopentanones and their hydrindane congeners is presented.
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10
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Furan Cross-Linking Technology for Investigating GPCR-Ligand Interactions. Methods Mol Biol 2019. [PMID: 30969412 DOI: 10.1007/978-1-4939-9121-1_5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register]
Abstract
Interactions between G protein-coupled receptors and their ligands hold extensive potential for drug discovery. Studying these interactions poses technical problems due to their transient nature and the inherent difficulties when working with G protein-coupled receptors (GPCR) that are only functional in a membrane setting. Here, we describe the use of a furan-based chemical cross-linking methodology to achieve selective covalent coupling between a furan-modified peptide ligand and its native GPCR present on the surface of living cells under normal cell culture conditions. This methodology relies on the oxidation of the furan moiety, which can be achieved by either addition of an external oxidation signal or by the reactive oxygen species produced by the cell. The cross-linked ligand-GPCR complex is subsequently detected by Western blotting based on the biotin label that is incorporated in the peptide ligand.
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11
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Decoene KW, Vannecke W, Passioura T, Suga H, Madder A. Pyrrole-Mediated Peptide Cyclization Identified through Genetically Reprogrammed Peptide Synthesis. Biomedicines 2018; 6:biomedicines6040099. [PMID: 30380792 PMCID: PMC6315747 DOI: 10.3390/biomedicines6040099] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2018] [Revised: 10/23/2018] [Accepted: 10/24/2018] [Indexed: 12/11/2022] Open
Abstract
Flexible in vitro translation (FIT) was used as a screening method to uncover a new methodology for peptide constraining based on the attack of a nucleophilic side-chain functionality onto an oxidized furylalanine side chain. A set of template peptides, each containing furylalanine as furan-modified amino acid and a nucleophilic residue (Cys, His, Lys, Arg, Ser, or Tyr), was produced through FIT. The translation mixtures were treated with N-bromosuccinimide (NBS) to achieve selective furan oxidation and subsequent MALDI analysis demonstrated Lys and Ser as promising residues for cyclisation. Solid-phase peptide synthesis (SPPS) was used to synthesize suitable amounts of material for further in-depth analysis and characterisation. It was found that in the case of the peptide containing lysine next to a furylalanine residue, a one-pot oxidation and reduction reaction leads to the generation of a cyclic peptide featuring a pyrrole moiety as cyclisation motif, resulting from the attack of the lysine side chain onto the oxidized furylalanine side chain. Structural evidence was provided via NMR and the generality of the methodology was explored. We hereby expand the scope of our previously developed furan-based peptide labeling and crosslinking strategy.
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Affiliation(s)
- Klaas W Decoene
- Department of Organic and Macromolecular Chemistry, Ghent University, Krijgslaan 281 S4, 9000 Ghent, Belgium.
| | - Willem Vannecke
- Department of Organic and Macromolecular Chemistry, Ghent University, Krijgslaan 281 S4, 9000 Ghent, Belgium.
| | - Toby Passioura
- Department of Chemistry, Graduate School of Science, The University of Tokyo, 7-3-1 Bunkyo-ku, Tokyo 113-0033, Japan.
| | - Hiroaki Suga
- Department of Chemistry, Graduate School of Science, The University of Tokyo, 7-3-1 Bunkyo-ku, Tokyo 113-0033, Japan.
| | - Annemieke Madder
- Department of Organic and Macromolecular Chemistry, Ghent University, Krijgslaan 281 S4, 9000 Ghent, Belgium.
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12
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Christiaens M, Hullaert J, Van Hecke K, Laplace D, Winne JM. Stereoselective and Modular Assembly Method for Heterocycle-Fused Daucane Sesquiterpenoids. Chemistry 2018; 24:13783-13787. [DOI: 10.1002/chem.201803248] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2018] [Indexed: 01/31/2023]
Affiliation(s)
- Mien Christiaens
- Department of Organic and Macromolecular Chemistry; Ghent University; Krijgslaan 281 S4 Gent 9000 Belgium
| | - Jan Hullaert
- Department of Organic and Macromolecular Chemistry; Ghent University; Krijgslaan 281 S4 Gent 9000 Belgium
| | - Kristof Van Hecke
- Department of Chemistry; Ghent University; Krijgslaan 281 S3 Gent 9000 Belgium
| | - Duchan Laplace
- Department of Organic and Macromolecular Chemistry; Ghent University; Krijgslaan 281 S4 Gent 9000 Belgium
| | - Johan M. Winne
- Department of Organic and Macromolecular Chemistry; Ghent University; Krijgslaan 281 S4 Gent 9000 Belgium
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13
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Pibiri I, Buscemi S, Palumbo Piccionello A, Pace A. Photochemically Produced Singlet Oxygen: Applications and Perspectives. CHEMPHOTOCHEM 2018. [DOI: 10.1002/cptc.201800076] [Citation(s) in RCA: 60] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Affiliation(s)
- Ivana Pibiri
- Dipartimento di Scienze e Tecnologie Biologiche Chimiche e Farmaceutiche - STEBICEF; Università degli Studi di Palermo; Viale delle Scienze, Edificio 17 - 90128 Palermo Italy
| | - Silvestre Buscemi
- Dipartimento di Scienze e Tecnologie Biologiche Chimiche e Farmaceutiche - STEBICEF; Università degli Studi di Palermo; Viale delle Scienze, Edificio 17 - 90128 Palermo Italy
| | - Antonio Palumbo Piccionello
- Dipartimento di Scienze e Tecnologie Biologiche Chimiche e Farmaceutiche - STEBICEF; Università degli Studi di Palermo; Viale delle Scienze, Edificio 17 - 90128 Palermo Italy
| | - Andrea Pace
- Dipartimento di Scienze e Tecnologie Biologiche Chimiche e Farmaceutiche - STEBICEF; Università degli Studi di Palermo; Viale delle Scienze, Edificio 17 - 90128 Palermo Italy
- Dipartimento di Scienze per l'Innovazione Tecnologica; Istituto EuroMediterraneo di Scienza e Tecnologia - IEMEST; Via Michele Miraglia, 20 - 90139 - Palermo Italy
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14
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Antonatou E, Verleysen Y, Madder A. Singlet oxygen-mediated one-pot chemoselective peptide-peptide ligation. Org Biomol Chem 2018; 15:8140-8144. [PMID: 28914947 DOI: 10.1039/c7ob02245j] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
We here describe a furan oxidation based site-specific chemical ligation approach using unprotected peptide segments. This approach involves two steps: after photooxidation of a furan-containing peptide, ligation is achieved by reaction of the unmasked keto-enal with C- or N-terminal α-nucleophilic moieties of the second peptide such as hydrazine or hydrazide to form a pyridazinium or pyrrolidinone linkage respectively.
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Affiliation(s)
- Eirini Antonatou
- Department of Organic and Macromolecular Chemistry, Ghent University, Krijgslaan 281 S4, 9000 Gent, Belgium.
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15
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Van Lysebetten D, Felissati S, Antonatou E, Carrette LLG, Espeel P, Focquet E, Du Prez FE, Madder A. A Thiolactone Strategy for Straightforward Synthesis of Disulfide-Linked Side-Chain-to-Tail Cyclic Peptides Featuring an N-Terminal Modification Handle. Chembiochem 2018; 19:641-646. [PMID: 29314620 DOI: 10.1002/cbic.201700323] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2017] [Revised: 12/03/2017] [Indexed: 01/12/2023]
Abstract
The development of straightforward and versatile peptide cyclisation methods is highly desired to meet the demand for more stable peptide-based drugs. Herein, a new method for the synthesis of side-chain-to-tail cyclic peptides with the simultaneous introduction of an N-terminal handle, based on the introduction of an N-terminal thiolactone building block, is described. A primary amine liberates a homocysteine analogue from the thiolactone building block, which further enables cyclisation of the peptide through disulfide-bond formation with a C-terminal cysteamine. Postcyclisation modification can be achieved by using small bifunctional amines. Alternatively, the synthesis of lipopeptides is demonstrated through direct thiolactone opening with long-chain alkyl amines.
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Affiliation(s)
- Dorien Van Lysebetten
- Department of Organic and Macromolecular Chemistry, Ghent University, Krijgslaan 281 S4, 9000, Ghent, Belgium
| | - Stefania Felissati
- Department of Organic and Macromolecular Chemistry, Ghent University, Krijgslaan 281 S4, 9000, Ghent, Belgium
| | - Eirini Antonatou
- Department of Organic and Macromolecular Chemistry, Ghent University, Krijgslaan 281 S4, 9000, Ghent, Belgium
| | - Lieselot L G Carrette
- Department of Organic and Macromolecular Chemistry, Ghent University, Krijgslaan 281 S4, 9000, Ghent, Belgium.,Current address: Dept. of Molecular Biology/, Massachusetts General Hospital, Simches Research Center, 185 Cambridge Street, Boston, MA, 02114, USA.,Center of Medical Genetics, Ghent University, Medical Research Building, De Pintelaan 185, 9000, Ghent, Belgium
| | - Pieter Espeel
- Department of Organic and Macromolecular Chemistry, Ghent University, Krijgslaan 281 S4, 9000, Ghent, Belgium
| | - Evelien Focquet
- Department of Organic and Macromolecular Chemistry, Ghent University, Krijgslaan 281 S4, 9000, Ghent, Belgium
| | - Filip E Du Prez
- Department of Organic and Macromolecular Chemistry, Ghent University, Krijgslaan 281 S4, 9000, Ghent, Belgium
| | - Annemieke Madder
- Department of Organic and Macromolecular Chemistry, Ghent University, Krijgslaan 281 S4, 9000, Ghent, Belgium
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16
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Ioannou GI, Montagnon T, Kalaitzakis D, Pergantis SA, Vassilikogiannakis G. Synthesis of cyclopent-2-enones from furans using a nebulizer-based continuous flow photoreactor. Org Biomol Chem 2018; 15:10151-10155. [PMID: 29177328 DOI: 10.1039/c7ob02557b] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
Abstract
A series of hydroxycyclopent-2-enones and methoxycyclopent-2-enones have been synthesized in a single operation from simple furan substrates using an innovative continuous flow nebulizer system (NebPhotOX). Photooxygenation of the furan substrates takes place in an aerosol within the NebPhotOX system.
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Affiliation(s)
- Georgios I Ioannou
- Department of Chemistry, University of Crete, 71003 Iraklion, Crete, Greece.
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17
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Vannecke W, Ampe C, Van Troys M, Beltramo M, Madder A. Cross-Linking Furan-Modified Kisspeptin-10 to the KISS Receptor. ACS Chem Biol 2017; 12:2191-2200. [PMID: 28714670 DOI: 10.1021/acschembio.7b00396] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Chemical cross-linking is well-established for investigating protein-protein interactions. Traditionally, photo cross-linking is used but is associated with problems of selectivity and UV toxicity in a biological context. We here describe, with live cells and under normal growth conditions, selective cross-linking of a furan-modified peptide ligand to its membrane-presented receptor with zero toxicity, high efficiency, and spatio-specificity. Furan-modified kisspeptin-10 is covalently coupled to its glycosylated membrane receptor, GPR54(KISS1R). This newly expands the applicability of furan-mediated cross-linking not only to protein-protein cross-linking but also to cross-linking in situ. Moreover, in our earlier reports on nucleic acid interstrand cross-linking, furan activation required external triggers of oxidation (via addition of N-bromo succinimide or singlet oxygen). In contrast, we here show, for multiple cell lines, the spontaneous endogenous oxidation of the furan moiety with concurrent selective cross-link formation. We propose that reactive oxygen species produced by NADPH oxidase (NOX) enzymes form the cellular source establishing furan oxidation.
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Affiliation(s)
- Willem Vannecke
- Organic
and Biomimetic Chemistry Research Group, Ghent University, Krijgslaan
281 S4, B-9000 Ghent, Belgium
- Department
of Biochemistry, Faculty of Medicine and Health Sciences, Ghent University, B-9000 Ghent, Belgium
| | - Christophe Ampe
- Department
of Biochemistry, Faculty of Medicine and Health Sciences, Ghent University, B-9000 Ghent, Belgium
| | - Marleen Van Troys
- Department
of Biochemistry, Faculty of Medicine and Health Sciences, Ghent University, B-9000 Ghent, Belgium
| | - Massimiliano Beltramo
- Equipe
Neuroendocrinologie Moleculaire de la Reproduction, Physiologie de
la Reproduction et des Comportements, Centre INRA Val de Loire, 37380 Nouzilly, France
| | - Annemieke Madder
- Organic
and Biomimetic Chemistry Research Group, Ghent University, Krijgslaan
281 S4, B-9000 Ghent, Belgium
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18
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Beghein E, Gettemans J. Nanobody Technology: A Versatile Toolkit for Microscopic Imaging, Protein-Protein Interaction Analysis, and Protein Function Exploration. Front Immunol 2017; 8:771. [PMID: 28725224 PMCID: PMC5495861 DOI: 10.3389/fimmu.2017.00771] [Citation(s) in RCA: 126] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2017] [Accepted: 06/16/2017] [Indexed: 01/05/2023] Open
Abstract
Over the last two decades, nanobodies or single-domain antibodies have found their way in research, diagnostics, and therapy. These antigen-binding fragments, derived from Camelid heavy chain only antibodies, possess remarkable characteristics that favor their use over conventional antibodies or fragments thereof, in selected areas of research. In this review, we assess the current status of nanobodies as research tools in diverse aspects of fundamental research. We discuss the use of nanobodies as detection reagents in fluorescence microscopy and focus on recent advances in super-resolution microscopy. Second, application of nanobody technology in investigating protein–protein interactions is reviewed, with emphasis on possible uses in mass spectrometry. Finally, we discuss the potential value of nanobodies in studying protein function, and we focus on their recently reported application in targeted protein degradation. Throughout the review, we highlight state-of-the-art engineering strategies that could expand nanobody versatility and we suggest future applications of the technology in the selected areas of fundamental research.
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Affiliation(s)
- Els Beghein
- Nanobody Laboratory, Department of Biochemistry, Faculty of Medicine and Health Sciences, Ghent University, Ghent, Belgium
| | - Jan Gettemans
- Nanobody Laboratory, Department of Biochemistry, Faculty of Medicine and Health Sciences, Ghent University, Ghent, Belgium
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19
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Mojarrad AG, Zakavi S. Photocatalytic Activity of the Molecular Complexes of meso
-Tetraarylporphyrins with Lewis Acids for the Oxidation of Olefins: Significant Effects of Lewis Acids and meso
Substituents. Eur J Inorg Chem 2017. [DOI: 10.1002/ejic.201700264] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Affiliation(s)
- Aida G. Mojarrad
- Institute for Advanced Studies in Basic Sciences (IASBS); 45137-66731 Zanjan Iran
| | - Saeed Zakavi
- Institute for Advanced Studies in Basic Sciences (IASBS); 45137-66731 Zanjan Iran
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20
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Montagnon T, Kalaitzakis D, Sofiadis M, Vassilikogiannakis G. Chemoselective photooxygenations of furans bearing unprotected amines: their use in alkaloid synthesis. Org Biomol Chem 2016; 14:8636-8640. [DOI: 10.1039/c6ob01689h] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Unprotected amines can be included in furan-containing substrates without disrupting the reactions of singlet oxygen with the furan nuclei; progress towards protecting group-free synthesis of alkaloids.
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Affiliation(s)
- T. Montagnon
- Department of Chemistry
- University of Crete
- 71003 Iraklion
- Greece
| | - D. Kalaitzakis
- Department of Chemistry
- University of Crete
- 71003 Iraklion
- Greece
| | - M. Sofiadis
- Department of Chemistry
- University of Crete
- 71003 Iraklion
- Greece
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