1
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Mirloup A, Berthomé Y, Riché S, Wagner P, Hanser F, Laurent A, Iturrioz X, Llorens-Cortes C, Karpenko J, Bonnet D. Alared: Solvatochromic and Fluorogenic Red Amino Acid for Ratiometric Live-Cell Imaging of Bioactive Peptides. Chemistry 2024; 30:e202401296. [PMID: 38641990 DOI: 10.1002/chem.202401296] [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: 04/11/2024] [Accepted: 04/17/2024] [Indexed: 04/21/2024]
Abstract
To fill the need for environmentally sensitive fluorescent unnatural amino acids able to operate in the red region of the spectrum, we have designed and synthesized Alared, a red solvatochromic and fluorogenic amino acid derived from the Nile Red chromophore. The new unnatural amino acid can be easily integrated into bioactive peptides using classical solid-phase peptide synthesis. The fluorescence quantum yield and the emission maximum of Alared-labeled peptides vary in a broad range depending on the peptide's environment, making Alared a powerful reporter of biomolecular interactions. Due to its red-shifted absorption and emission spectra, Alared-labeled peptides could be followed in living cells with minimal interference from cellular autofluorescence. Using ratiometric fluorescence microscopy, we were able to track the fate of the Alared-labeled peptide agonists of the apelin G protein-coupled receptor upon receptor activation and internalization. Due to its color-shifting environmentally sensitive emission, Alared allowed for distinguishing the fractions of peptides that are specifically bound to the receptor or unspecifically bound to different cellular membranes.
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Affiliation(s)
- Antoine Mirloup
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| | - Yann Berthomé
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| | - Stéphanie Riché
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| | - Patrick Wagner
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| | - Fabien Hanser
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| | - Arthur Laurent
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| | - Xavier Iturrioz
- Université Paris Saclay, CEA, INRAE, Medicines and Technologies for Health Department, SIMoS, F-91190, Gif-sur-Yvette, France
| | - Catherine Llorens-Cortes
- Université Paris Saclay, CEA, INRAE, Medicines and Technologies for Health Department, SIMoS, F-91190, Gif-sur-Yvette, France
- Laboratory of Central Neuropeptides in the Regulation of Body Fluid Homeostasis and Cardiovascular Functions, College de France, INSERM U1050/CNRS UMR7241, 11 Place Marcelin Berthelot, 75005, Paris, France
| | - Julie Karpenko
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| | - Dominique Bonnet
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
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2
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Hillman A, Hyland SN, Wodzanowski KA, Moore DL, Ratna S, Jemas A, Sandles LMD, Chaya T, Ghosh A, Fox JM, Grimes CL. Minimalist Tetrazine N-Acetyl Muramic Acid Probes for Rapid and Efficient Labeling of Commensal and Pathogenic Peptidoglycans in Living Bacterial Culture and During Macrophage Invasion. J Am Chem Soc 2024; 146:6817-6829. [PMID: 38427023 PMCID: PMC10941766 DOI: 10.1021/jacs.3c13644] [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: 12/04/2023] [Revised: 02/13/2024] [Accepted: 02/14/2024] [Indexed: 03/02/2024]
Abstract
N-Acetyl muramic acid (NAM) probes containing alkyne or azide groups are commonly used to investigate aspects of cell wall synthesis because of their small size and ability to incorporate into bacterial peptidoglycan (PG). However, copper-catalyzed alkyne-azide cycloaddition (CuAAC) reactions are not compatible with live cells, and strain-promoted alkyne-azide cycloaddition (SPAAC) reaction rates are modest and, therefore, not as desirable for tracking the temporal alterations of bacterial cell growth, remodeling, and division. Alternatively, the tetrazine-trans-cyclooctene ligation (Tz-TCO), which is the fastest known bioorthogonal reaction and not cytotoxic, allows for rapid live-cell labeling of PG at biologically relevant time scales and concentrations. Previous work to increase reaction kinetics on the PG surface by using tetrazine probes was limited because of low incorporation of the probe. Described here are new approaches to construct a minimalist tetrazine (Tz)-NAM probe utilizing recent advancements in asymmetric tetrazine synthesis. This minimalist Tz-NAM probe was successfully incorporated into pathogenic and commensal bacterial PG where fixed and rapid live-cell, no-wash labeling was successful in both free bacterial cultures and in coculture with human macrophages. Overall, this probe allows for expeditious labeling of bacterial PG, thereby making it an exceptional tool for monitoring PG biosynthesis for the development of new antibiotic screens. The versatility and selectivity of this probe will allow for real-time interrogation of the interactions of bacterial pathogens in a human host and will serve a broader utility for studying glycans in multiple complex biological systems.
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Affiliation(s)
- Ashlyn
S. Hillman
- Department
of Chemistry and Biochemistry, University
of Delaware, Newark, Delaware 19716, United States
| | - Stephen N. Hyland
- Department
of Chemistry and Biochemistry, University
of Delaware, Newark, Delaware 19716, United States
| | - Kimberly A. Wodzanowski
- Department
of Chemistry and Biochemistry, University
of Delaware, Newark, Delaware 19716, United States
| | - DeVonte L. Moore
- Department
of Chemistry and Biochemistry, University
of Delaware, Newark, Delaware 19716, United States
| | - Sushanta Ratna
- Department
of Chemistry and Biochemistry, University
of Delaware, Newark, Delaware 19716, United States
| | - Andrew Jemas
- Department
of Chemistry and Biochemistry, University
of Delaware, Newark, Delaware 19716, United States
| | - Liam-Michael D. Sandles
- Department
of Chemistry and Biochemistry, University
of Delaware, Newark, Delaware 19716, United States
| | - Timothy Chaya
- Department
of Plant and Soil Sciences, University of
Delaware, Newark, Delaware 19716, United States
| | - Arit Ghosh
- Delaware
Biotechnology Institute, UDEL Flow Cytometry Core, University of Delaware, Newark, Delaware 19716, United States
| | - Joseph M. Fox
- Department
of Chemistry and Biochemistry, University
of Delaware, Newark, Delaware 19716, United States
- Department
of Materials Science and Engineering, University
of Delaware, Newark, Delaware 19716, United States
| | - Catherine L. Grimes
- Department
of Chemistry and Biochemistry, University
of Delaware, Newark, Delaware 19716, United States
- Department
of Biological Sciences, University of Delaware, Newark, Delaware 19716, United States
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3
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Kyrychenko A, Ladokhin AS. Fluorescent Probes and Quenchers in Studies of Protein Folding and Protein-Lipid Interactions. CHEM REC 2024; 24:e202300232. [PMID: 37695081 PMCID: PMC11113672 DOI: 10.1002/tcr.202300232] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2023] [Revised: 08/20/2023] [Indexed: 09/12/2023]
Abstract
Fluorescence spectroscopy provides numerous methodological tools for structural and functional studies of biological macromolecules and their complexes. All fluorescence-based approaches require either existence of an intrinsic probe or an introduction of an extrinsic one. Moreover, studies of complex systems often require an additional introduction of a specific quencher molecule acting in combination with a fluorophore to provide structural or thermodynamic information. Here, we review the fundamentals and summarize the latest progress in applications of different classes of fluorescent probes and their specific quenchers, aimed at studies of protein folding and protein-membrane interactions. Specifically, we discuss various environment-sensitive dyes, FRET probes, probes for short-distance measurements, and several probe-quencher pairs for studies of membrane penetration of proteins and peptides. The goals of this review are: (a) to familiarize the readership with the general concept that complex biological systems often require both a probe and a quencher to decipher mechanistic details of functioning and (b) to provide example of the immediate applications of the described methods.
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Affiliation(s)
- Alexander Kyrychenko
- Institute of Chemistry and School of Chemistry, V. N. Karazin Kharkiv National University, 4 Svobody sq., Kharkiv, 61022, Ukraine
| | - Alexey S Ladokhin
- Department of Biochemistry and Molecular Biology, The University of Kansas Medical Center, 3901 Rainbow Boulevard, Kansas City, KS, 66160, United States
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4
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Di Giorgio E, Ferino A, Huang W, Simonetti S, Xodo L, De Marco R. Dual-targeting peptides@PMO, a mimetic to the pro-apoptotic protein Smac/DIABLO for selective activation of apoptosis in cancer cells. Front Pharmacol 2023; 14:1237478. [PMID: 37711175 PMCID: PMC10497945 DOI: 10.3389/fphar.2023.1237478] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2023] [Accepted: 08/07/2023] [Indexed: 09/16/2023] Open
Abstract
The refractoriness of tumor cells to apoptosis represents the main mechanism of resistance to chemotherapy. Smac/DIABLO mimetics proved to be effective in overcoming cancer-acquired resistance to apoptosis as a consequence of overexpression of the anti-apoptotic proteins XIAP, cIAP1, and cIAP2. In this work, we describe a dual-targeting peptide capable of selectively activating apoptosis in cancer cells. The complex consists of a fluorescent periodic mesoporous organosilica nanoparticle that carries the short sequences of Smac/DIABLO bound to the αvβ3-integrin ligand. The dual-targeting peptide @PMO shows significantly higher toxicity in αvβ3-positive HeLa cells with respect to αvβ3-negative Ht29 cells. @PMO exhibited synergistic effects in combination with oxaliplatin in a panel of αvβ3-positive cancer cells, while its toxicity is overcome by XIAP overexpression or integrin β3 silencing. The successful uptake of the molecule by αvβ3-positive cells makes @PMO promising for the re-sensitization to apoptosis of many cancer types.
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Affiliation(s)
| | | | - Weizhe Huang
- Department of Agricultural, Food, Environmental and Animal Sciences (Di4A), University of Udine, Udine, Italy
| | - Sigrid Simonetti
- Department of Agricultural, Food, Environmental and Animal Sciences (Di4A), University of Udine, Udine, Italy
| | - Luigi Xodo
- Department of Medicine, University of Udine, Udine, Italy
| | - Rossella De Marco
- Department of Agricultural, Food, Environmental and Animal Sciences (Di4A), University of Udine, Udine, Italy
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5
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McGrory R, Morgan DC, Jamieson AG, Sutherland A. Rotamer-Controlled Dual Emissive α-Amino Acids. Org Lett 2023; 25:5844-5849. [PMID: 37506290 PMCID: PMC10425982 DOI: 10.1021/acs.orglett.3c02112] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2023] [Indexed: 07/30/2023]
Abstract
The synthesis and photoluminescent properties of novel α-amino acids are described in which the biaryl benzotriazinone-containing chromophores were found to display dual emission fluorescence via locally excited (LE) and twisted intramolecular charge transfer (TICT) states. The intensity of each emission band could be controlled by the electronics and position of the substituents, and this led to the design of a 2-methoxyphenyl analogue that, due to twisting, displayed bright TICT fluorescence, solvatochromism, and pH sensitivity.
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Affiliation(s)
- Rochelle McGrory
- School
of Chemistry, The Joseph Black Building, University of Glasgow, Glasgow G12 8QQ, United
Kingdom
| | - Danielle C. Morgan
- School
of Chemistry, Advanced Research Centre, University of Glasgow, Glasgow G11 6EW, United
Kingdom
| | - Andrew G. Jamieson
- School
of Chemistry, Advanced Research Centre, University of Glasgow, Glasgow G11 6EW, United
Kingdom
| | - Andrew Sutherland
- School
of Chemistry, The Joseph Black Building, University of Glasgow, Glasgow G12 8QQ, United
Kingdom
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6
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The Journey of 1-Keto-1,2,3,4-Tetrahydrocarbazole Based Fluorophores: From Inception to Implementation. J Fluoresc 2022; 32:2023-2052. [PMID: 35829843 DOI: 10.1007/s10895-022-03004-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2022] [Accepted: 07/01/2022] [Indexed: 10/17/2022]
Abstract
Carbazole is a unique template associated with several biological activities. It is due to the diverse and versatile biological properties of carbazole derivatives that they are of immense interest to the research community. 1-keto-1,2,3,4-tetrahydrocarbazoles are important synthetic intermediates to obtain carbazole derivatives. Several members of this family emit fluorescence on photoexcitation. In the context of biochemical and biophysical research, designing and characterising small molecule environment sensitive fluorophores is extremely significant. This article aims to be a state of the art review with synthetic and photophysical details of a variety of fluorophores based on 1-keto-1,2,3,4-tetrahydrocarbazole skeleton.
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7
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Kong NR, Liu H, Che J, Jones LH. Physicochemistry of Cereblon Modulating Drugs Determines Pharmacokinetics and Disposition. ACS Med Chem Lett 2021; 12:1861-1865. [PMID: 34795877 DOI: 10.1021/acsmedchemlett.1c00475] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2021] [Accepted: 10/05/2021] [Indexed: 12/12/2022] Open
Abstract
Immunomodulatory drugs (IMiDs) thalidomide, lenalidomide, and pomalidomide engage cereblon and mediate a protein interface with neosubstrates such as zinc finger transcription factors promoting their polyubiquitination and degradation. The IMiDs have garnered considerable excitement in drug discovery, leading to exploration of targeted protein degradation strategies. Although the molecular modes-of-action of the IMiDs and related degraders have been the subject of intense research, their pharmacokinetics and disposition have been relatively understudied. Here, we assess the effects of physicochemistry of the IMiDs, the phthalimide EM-12, and the candidate drug CC-220 (iberdomide) on lipophilicity, solubility, metabolism, permeability, intracellular bioavailability, and cell-based potency. The insights yielded in this study will enable the rational property-based design and development of targeted protein degraders in the future.
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Affiliation(s)
- Nikki R. Kong
- Center for Protein Degradation, Dana-Farber Cancer Institute, 360 Longwood Avenue, Boston, Massachusetts 02215, United States
| | - Hu Liu
- Center for Protein Degradation, Dana-Farber Cancer Institute, 360 Longwood Avenue, Boston, Massachusetts 02215, United States
| | - Jianwei Che
- Center for Protein Degradation, Dana-Farber Cancer Institute, 360 Longwood Avenue, Boston, Massachusetts 02215, United States
| | - Lyn H. Jones
- Center for Protein Degradation, Dana-Farber Cancer Institute, 360 Longwood Avenue, Boston, Massachusetts 02215, United States
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8
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Noden M, Taylor SD. Enantioselective Synthesis and Application of Small and Environmentally Sensitive Fluorescent Amino Acids for Probing Biological Interactions. J Org Chem 2021; 86:11407-11418. [PMID: 34387500 DOI: 10.1021/acs.joc.1c00907] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Environmentally sensitive fluorescent amino acids (FlAAs) have been used extensively to probe biological interactions. However, most of these amino acids are large and do not resemble amino acid side chains. Here, we report the enantioselective synthesis of two small and environmentally sensitive fluorescent amino acids bearing 7-dialkylaminocoumarin side chains by alkylation of a Ni(II) glycine Schiff base complex. These amino acids exhibit a large increase in fluorescence as environment polarity decreases. One of these FLAAs was incorporated into a highly active analog of the cyclic lipopeptide antibiotic paenibacterin by Fmoc solid-phase peptide synthesis via a new and very efficient route. This peptide was used to probe the interaction of the antibiotic with model liposomes, lipopolysaccharides, and live bacteria.
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Affiliation(s)
- Michael Noden
- Department of Chemistry, University of Waterloo, 200 University Avenue West, Waterloo, Ontario N2L 3G1, Canada
| | - Scott D Taylor
- Department of Chemistry, University of Waterloo, 200 University Avenue West, Waterloo, Ontario N2L 3G1, Canada
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9
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Larsen JB, Taebnia N, Dolatshahi-Pirouz A, Eriksen AZ, Hjørringgaard C, Kristensen K, Larsen NW, Larsen NB, Marie R, Mündler AK, Parhamifar L, Urquhart AJ, Weller A, Mortensen KI, Flyvbjerg H, Andresen TL. Imaging therapeutic peptide transport across intestinal barriers. RSC Chem Biol 2021; 2:1115-1143. [PMID: 34458827 PMCID: PMC8341777 DOI: 10.1039/d1cb00024a] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2021] [Accepted: 06/09/2021] [Indexed: 12/14/2022] Open
Abstract
Oral delivery is a highly preferred method for drug administration due to high patient compliance. However, oral administration is intrinsically challenging for pharmacologically interesting drug classes, in particular pharmaceutical peptides, due to the biological barriers associated with the gastrointestinal tract. In this review, we start by summarizing the pharmacological performance of several clinically relevant orally administrated therapeutic peptides, highlighting their low bioavailabilities. Thus, there is a strong need to increase the transport of peptide drugs across the intestinal barrier to realize future treatment needs and further development in the field. Currently, progress is hampered by a lack of understanding of transport mechanisms that govern intestinal absorption and transport of peptide drugs, including the effects of the permeability enhancers commonly used to mediate uptake. We describe how, for the past decades, mechanistic insights have predominantly been gained using functional assays with end-point read-out capabilities, which only allow indirect study of peptide transport mechanisms. We then focus on fluorescence imaging that, on the other hand, provides opportunities to directly visualize and thus follow peptide transport at high spatiotemporal resolution. Consequently, it may provide new and detailed mechanistic understanding of the interplay between the physicochemical properties of peptides and cellular processes; an interplay that determines the efficiency of transport. We review current methodology and state of the art in the field of fluorescence imaging to study intestinal barrier transport of peptides, and provide a comprehensive overview of the imaging-compatible in vitro, ex vivo, and in vivo platforms that currently are being developed to accelerate this emerging field of research.
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Affiliation(s)
- Jannik Bruun Larsen
- Center for Intestinal Absorption and Transport of Biopharmaceuticals, Department of Health Technology, Technical University of Denmark DK-2800, Kgs. Lyngby Denmark
| | - Nayere Taebnia
- Center for Intestinal Absorption and Transport of Biopharmaceuticals, Department of Health Technology, Technical University of Denmark DK-2800, Kgs. Lyngby Denmark
| | - Alireza Dolatshahi-Pirouz
- Center for Intestinal Absorption and Transport of Biopharmaceuticals, Department of Health Technology, Technical University of Denmark DK-2800, Kgs. Lyngby Denmark
| | - Anne Zebitz Eriksen
- Center for Intestinal Absorption and Transport of Biopharmaceuticals, Department of Health Technology, Technical University of Denmark DK-2800, Kgs. Lyngby Denmark
| | - Claudia Hjørringgaard
- Center for Intestinal Absorption and Transport of Biopharmaceuticals, Department of Health Technology, Technical University of Denmark DK-2800, Kgs. Lyngby Denmark
| | - Kasper Kristensen
- Center for Intestinal Absorption and Transport of Biopharmaceuticals, Department of Health Technology, Technical University of Denmark DK-2800, Kgs. Lyngby Denmark
| | - Nanna Wichmann Larsen
- Center for Intestinal Absorption and Transport of Biopharmaceuticals, Department of Health Technology, Technical University of Denmark DK-2800, Kgs. Lyngby Denmark
| | - Niels Bent Larsen
- Center for Intestinal Absorption and Transport of Biopharmaceuticals, Department of Health Technology, Technical University of Denmark DK-2800, Kgs. Lyngby Denmark
| | - Rodolphe Marie
- Center for Intestinal Absorption and Transport of Biopharmaceuticals, Department of Health Technology, Technical University of Denmark DK-2800, Kgs. Lyngby Denmark
| | - Ann-Kathrin Mündler
- Center for Intestinal Absorption and Transport of Biopharmaceuticals, Department of Health Technology, Technical University of Denmark DK-2800, Kgs. Lyngby Denmark
| | - Ladan Parhamifar
- Center for Intestinal Absorption and Transport of Biopharmaceuticals, Department of Health Technology, Technical University of Denmark DK-2800, Kgs. Lyngby Denmark
| | - Andrew James Urquhart
- Center for Intestinal Absorption and Transport of Biopharmaceuticals, Department of Health Technology, Technical University of Denmark DK-2800, Kgs. Lyngby Denmark
| | - Arjen Weller
- Center for Intestinal Absorption and Transport of Biopharmaceuticals, Department of Health Technology, Technical University of Denmark DK-2800, Kgs. Lyngby Denmark
| | - Kim I Mortensen
- Center for Intestinal Absorption and Transport of Biopharmaceuticals, Department of Health Technology, Technical University of Denmark DK-2800, Kgs. Lyngby Denmark
| | - Henrik Flyvbjerg
- Center for Intestinal Absorption and Transport of Biopharmaceuticals, Department of Health Technology, Technical University of Denmark DK-2800, Kgs. Lyngby Denmark
| | - Thomas Lars Andresen
- Center for Intestinal Absorption and Transport of Biopharmaceuticals, Department of Health Technology, Technical University of Denmark DK-2800, Kgs. Lyngby Denmark
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10
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Pajk S, Knez D, Košak U, Zorović M, Brazzolotto X, Coquelle N, Nachon F, Colletier JP, Živin M, Stojan J, Gobec S. Development of potent reversible selective inhibitors of butyrylcholinesterase as fluorescent probes. J Enzyme Inhib Med Chem 2020; 35:498-505. [PMID: 31914836 PMCID: PMC6968640 DOI: 10.1080/14756366.2019.1710502] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2019] [Revised: 12/19/2019] [Accepted: 12/25/2019] [Indexed: 12/14/2022] Open
Abstract
Brain butyrylcholinesterase (BChE) is an attractive target for drugs designed for the treatment of Alzheimer's disease (AD) in its advanced stages. It also potentially represents a biomarker for progression of this disease. Based on the crystal structure of previously described highly potent, reversible, and selective BChE inhibitors, we have developed the fluorescent probes that are selective towards human BChE. The most promising probes also maintain their inhibition of BChE in the low nanomolar range with high selectivity over acetylcholinesterase. Kinetic studies of probes reveal a reversible mixed inhibition mechanism, with binding of these fluorescent probes to both the free and acylated enzyme. Probes show environment-sensitive emission, and additionally, one of them also shows significant enhancement of fluorescence intensity upon binding to the active site of BChE. Finally, the crystal structures of probes in complex with human BChE are reported, which offer an excellent base for further development of this library of compounds.
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Affiliation(s)
- Stane Pajk
- Faculty of Pharmacy, University of Ljubljana, Ljubljana, Slovenia
| | - Damijan Knez
- Faculty of Pharmacy, University of Ljubljana, Ljubljana, Slovenia
| | - Urban Košak
- Faculty of Pharmacy, University of Ljubljana, Ljubljana, Slovenia
| | - Maja Zorović
- Faculty of Medicine, Institute of Pathological Physiology, University of Ljubljana, Ljubljana, Slovenia
| | - Xavier Brazzolotto
- Département de Toxicologie et Risques Chimiques, Institut de Recherche Biomédicale des Armées, Brétigny sur Orge, France
| | | | - Florian Nachon
- Département de Toxicologie et Risques Chimiques, Institut de Recherche Biomédicale des Armées, Brétigny sur Orge, France
| | | | - Marko Živin
- Faculty of Medicine, Institute of Pathological Physiology, University of Ljubljana, Ljubljana, Slovenia
| | - Jure Stojan
- Faculty of Medicine, Institute of Biochemistry, University of Ljubljana, Ljubljana, Slovenia
| | - Stanislav Gobec
- Faculty of Pharmacy, University of Ljubljana, Ljubljana, Slovenia
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11
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Wu Y, Tam WS, Chau HF, Kaur S, Thor W, Aik WS, Chan WL, Zweckstetter M, Wong KL. Solid-phase fluorescent BODIPY-peptide synthesis via in situ dipyrrin construction. Chem Sci 2020; 11:11266-11273. [PMID: 34094367 PMCID: PMC8162834 DOI: 10.1039/d0sc04849f] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2020] [Accepted: 09/23/2020] [Indexed: 12/28/2022] Open
Abstract
Traditional fluorescent peptide chemical syntheses hinge on the use of limited fluorescent/dye-taggable unnatural amino acids and entail multiple costly purifications. Here we describe a facile and efficient protocol for in situ construction of dipyrrins on the N-terminus with 20 natural and five unnatural amino acids and the lysine's side chain of selected peptides/peptide drugs through Fmoc-based solid-phase peptide synthesis. The new strategy enables the direct formation of boron-dipyrromethene (BODIPY)-peptide conjugates from simple aldehyde and pyrrole derivatives without pre-functionalization, and only requires a single-time chromatographic purification at the final stage. As a model study, synthesized EBNA1-targeting BODIPY1-Pep4 demonstrates intact selectivity in vitro, responsive fluorescence enhancement, and higher light cytotoxicity due to the photo-generation of cytotoxic singlet oxygen. This work offers a novel practical synthetic platform for fluorescent peptides for multifaceted biomedical applications.
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Affiliation(s)
- Yue Wu
- Department of Chemistry, Hong Kong Baptist University Kowloon Hong Kong SAR China
| | - Wing-Sze Tam
- Department of Chemistry, Hong Kong Baptist University Kowloon Hong Kong SAR China
| | - Ho-Fai Chau
- Department of Chemistry, Hong Kong Baptist University Kowloon Hong Kong SAR China
| | - Simranjeet Kaur
- Department of Chemistry, Hong Kong Baptist University Kowloon Hong Kong SAR China
| | - Waygen Thor
- Department of Chemistry, Hong Kong Baptist University Kowloon Hong Kong SAR China
| | - Wei Shen Aik
- Department of Chemistry, Hong Kong Baptist University Kowloon Hong Kong SAR China
| | - Wai-Lun Chan
- Department of Chemistry, Hong Kong Baptist University Kowloon Hong Kong SAR China
- Department for NMR-based Structural Biology, Max Planck Institute for Biophysical Chemistry Am Fassberg 11 37077 Göttingen Germany
- German Center for Neurodegenerative Diseases (DZNE) Von-Siebold-Str. 3a 37075 Göttingen Germany
| | - Markus Zweckstetter
- Department for NMR-based Structural Biology, Max Planck Institute for Biophysical Chemistry Am Fassberg 11 37077 Göttingen Germany
- German Center for Neurodegenerative Diseases (DZNE) Von-Siebold-Str. 3a 37075 Göttingen Germany
| | - Ka-Leung Wong
- Department of Chemistry, Hong Kong Baptist University Kowloon Hong Kong SAR China
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12
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Roniboss A, Chanda K, Motilal Balamurali M. Investigation on Photophysical, Solvatochromism and Biological Significance of Substituted 2
H
‐Indazole Derivatives. ChemistrySelect 2020. [DOI: 10.1002/slct.202001477] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Affiliation(s)
- Anthonisamy Roniboss
- Chemistry Division, School of Advanced Sciences Vellore Institute of Technology, Chennai Campus Chennai 600127, Tamilnadu India
| | - Kaushik Chanda
- Department of Chemistry School of Advanced Sciences, Vellore Institute of Technology Vellore 632014, Tamilnadu India
| | - Musuvathi Motilal Balamurali
- Chemistry Division, School of Advanced Sciences Vellore Institute of Technology, Chennai Campus Chennai 600127, Tamilnadu India
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13
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Fluorescent amino acids as versatile building blocks for chemical biology. Nat Rev Chem 2020; 4:275-290. [PMID: 37127957 DOI: 10.1038/s41570-020-0186-z] [Citation(s) in RCA: 91] [Impact Index Per Article: 22.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 04/14/2020] [Indexed: 12/13/2022]
Abstract
Fluorophores have transformed the way we study biological systems, enabling non-invasive studies in cells and intact organisms, which increase our understanding of complex processes at the molecular level. Fluorescent amino acids have become an essential chemical tool because they can be used to construct fluorescent macromolecules, such as peptides and proteins, without disrupting their native biomolecular properties. Fluorescent and fluorogenic amino acids with unique photophysical properties have been designed for tracking protein-protein interactions in situ or imaging nanoscopic events in real time with high spatial resolution. In this Review, we discuss advances in the design and synthesis of fluorescent amino acids and how they have contributed to the field of chemical biology in the past 10 years. Important areas of research that we review include novel methodologies to synthesize building blocks with tunable spectral properties, their integration into peptide and protein scaffolds using site-specific genetic encoding and bioorthogonal approaches, and their application to design novel artificial proteins, as well as to investigate biological processes in cells by means of optical imaging.
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14
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Tarbe M, Miles JJ, Edwards ESJ, Miles KM, Sewell AK, Baker BM, Quideau S. Synthesis and Biological Evaluation of Hapten-Clicked Analogues of The Antigenic Peptide Melan-A/MART-1 26(27L)-35. ChemMedChem 2020; 15:799-807. [PMID: 32162475 PMCID: PMC7473458 DOI: 10.1002/cmdc.202000038] [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: 01/22/2020] [Revised: 03/03/2020] [Indexed: 11/12/2022]
Abstract
A click-chemistry-based approach was implemented to prepare peptidomimetics designed in silico and made from aromatic azides and a propargylated GIGI-mimicking platform derived from the altered Melan-A/MART-126(27L)-35 antigenic peptide ELAGIGILTV. The CuI -catalyzed Huisgen cycloaddition was carried out on solid support to generate rapidly a first series of peptidomimetics, which were evaluated for their capacity to dock at the interface between the major histocompatibility complex class-I (MHC-I) human leucocyte antigen (HLA)-A2 and T-cell receptors (TCRs). Despite being a weak HLA-A2 ligand, one of these 11 first synthetic compounds bearing a p-nitrobenzyl-triazole side chain was recognized by the receptor proteins of Melan-A/MART-1-specific T-cells. After modification of the N and C termini of this agonist, which was intended to enhance HLA-A2 binding, one of the resulting seven additional compounds triggered significant T-cell responses. Thus, these results highlight the capacity of naturally circulating human TCRs that are specific for the native Melan-A/MART-126-35 peptide to cross-react with peptidomimetics bearing organic motifs structurally different from the native central amino acids.
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Affiliation(s)
- Marion Tarbe
- Université de Bordeaux, ISM (CNRS-UMR 5255), 351 cours de la Libération, 33405, Talence Cedex, France
| | - John J Miles
- Australian Institute of Tropical Health and Medicine, James Cook University, Cairns, QLD 4878, Australia
| | - Emily S J Edwards
- Division of Infection and Immunity, Cardiff University School of Medicine, Cardiff, CF14 4XN, UK
- Department of Immunology and Pathology, Central Clinical School, Monash University, Level 6, 89 Commercial Road, Melbourne, Victoria, 3004, Australia
| | - Kim M Miles
- Division of Infection and Immunity, Cardiff University School of Medicine, Cardiff, CF14 4XN, UK
| | - Andrew K Sewell
- Division of Infection and Immunity, Cardiff University School of Medicine, Cardiff, CF14 4XN, UK
| | - Brian M Baker
- Department of Chemistry & Biochemistry, University of Notre Dame, 251 Nieuwland Science Hall, Notre Dame, IN 46556, USA
| | - Stéphane Quideau
- Université de Bordeaux, ISM (CNRS-UMR 5255), 351 cours de la Libération, 33405, Talence Cedex, France
- Institut Universitaire de France, 1 rue Descartes, 75231, Paris Cedex 05, France
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15
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Wörner S, Rönicke F, Ulrich AS, Wagenknecht H. 4-Aminophthalimide Amino Acids as Small and Environment-Sensitive Fluorescent Probes for Transmembrane Peptides. Chembiochem 2020; 21:618-622. [PMID: 31432615 PMCID: PMC7079057 DOI: 10.1002/cbic.201900520] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2019] [Indexed: 12/15/2022]
Abstract
Fluorescence probing of transmembrane (TM) peptides is needed to complement state-of-the art methods-mainly oriented circular dichroism and solid-state NMR spectroscopy-and to allow imaging in living cells. Three new amino acids incorporating the solvatofluorescent 4-aminophthalimide in their side chains were synthesized in order to examine the local polarity in the α-helical TM fragment of the human epidermal growth factor receptor. It was possible to distinguish their locations, either in the hydrophobic core of the lipid bilayer or at the membrane surface, by fluorescence readout, including blue shift and increased quantum yield. An important feature is the small size of the 4-aminophthalimide chromophore. It makes one of the new amino acids approximately isosteric to tryptophan, typically used as a very small fluorescent amino acid in peptides and proteins. In contrast to the only weakly fluorescent indole system in tryptophan, the 4-aminophthalimide moiety produces a significantly more informative fluorescence readout and is selectively excited outside the biopolymer absorption range.
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Affiliation(s)
- Samantha Wörner
- Karlsruhe Institute of Technology (KIT)Institute of Organic ChemistryFritz-Haber-Weg 676131KarlsruheGermany
| | - Franziska Rönicke
- Karlsruhe Institute of Technology (KIT)Institute of Organic ChemistryFritz-Haber-Weg 676131KarlsruheGermany
| | - Anne S. Ulrich
- Karlsruhe Institute of Technology (KIT)IBG-2 and Institute of Organic ChemistryFritz-Haber-Weg 676131KarlsruheGermany
| | - Hans‐Achim Wagenknecht
- Karlsruhe Institute of Technology (KIT)Institute of Organic ChemistryFritz-Haber-Weg 676131KarlsruheGermany
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16
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Yokoo H, Kagechika H, Ohsaki A, Hirano T. A Polarity‐Sensitive Fluorescent Amino Acid and its Incorporation into Peptides for the Ratiometric Detection of Biomolecular Interactions. Chempluschem 2019; 84:1716-1719. [DOI: 10.1002/cplu.201900489] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2019] [Revised: 10/04/2019] [Indexed: 12/27/2022]
Affiliation(s)
- Hidetomo Yokoo
- Institute of Biomaterials and BioengineeringTokyo Medical and Dental University (TMDU) 2-3-10 Kanda-Surugadai, Chiyoda-ku Tokyo 101-0062 Japan
| | - Hiroyuki Kagechika
- Institute of Biomaterials and BioengineeringTokyo Medical and Dental University (TMDU) 2-3-10 Kanda-Surugadai, Chiyoda-ku Tokyo 101-0062 Japan
| | - Ayumi Ohsaki
- College of Humanities and SciencesNihon University 3-25-40 Sakurajosui, Setagaya-ku Tokyo 156-8550 Japan
| | - Tomoya Hirano
- Osaka University of Pharmaceutical Sciences 4-20-1 Nasahara, Takatsuki Osaka 569-1094 Japan
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17
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Bell JD, Morgan TEF, Buijs N, Harkiss AH, Wellaway CR, Sutherland A. Synthesis and Photophysical Properties of Benzotriazole-Derived Unnatural α-Amino Acids. J Org Chem 2019; 84:10436-10448. [DOI: 10.1021/acs.joc.9b01685] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Jonathan D. Bell
- WestCHEM, School of Chemistry, The Joseph Black Building, University of Glasgow, Glasgow G12 8QQ, U.K
| | - Timaeus E. F. Morgan
- WestCHEM, School of Chemistry, The Joseph Black Building, University of Glasgow, Glasgow G12 8QQ, U.K
| | - Ned Buijs
- WestCHEM, School of Chemistry, The Joseph Black Building, University of Glasgow, Glasgow G12 8QQ, U.K
| | - Alexander H. Harkiss
- WestCHEM, School of Chemistry, The Joseph Black Building, University of Glasgow, Glasgow G12 8QQ, U.K
| | - Christopher R. Wellaway
- Medicinal Chemistry, GlaxoSmithKline Medicines Research Centre, Gunnels Wood Road, Stevenage SG1 2NY, U.K
| | - Andrew Sutherland
- WestCHEM, School of Chemistry, The Joseph Black Building, University of Glasgow, Glasgow G12 8QQ, U.K
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18
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Nadeem M, Bhatti MH, Yunus U, Mehmood M, Asif HM, Mehboob S, Flörke U. Synthesis and characterization of unique new lithium, sodium and potassium coordination polymers. Inorganica Chim Acta 2018. [DOI: 10.1016/j.ica.2018.04.045] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
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19
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Customized tuning of aggregation-induced emission of a napthalimide dye by surfactants and cyclodextrin. J Colloid Interface Sci 2017; 499:46-53. [DOI: 10.1016/j.jcis.2017.03.097] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2017] [Revised: 03/22/2017] [Accepted: 03/22/2017] [Indexed: 11/20/2022]
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20
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Mendive-Tapia L, Subiros-Funosas R, Zhao C, Albericio F, Read ND, Lavilla R, Vendrell M. Preparation of a Trp-BODIPY fluorogenic amino acid to label peptides for enhanced live-cell fluorescence imaging. Nat Protoc 2017; 12:1588-1619. [PMID: 28703788 DOI: 10.1038/nprot.2017.048] [Citation(s) in RCA: 53] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
Fluorescent peptides are valuable tools for live-cell imaging because of the high specificity of peptide sequences for their biomolecular targets. When preparing fluorescent versions of peptides, labels must be introduced at appropriate positions in the sequences to provide suitable reporters while avoiding any impairment of the molecular recognition properties of the peptides. This protocol describes the preparation of the tryptophan (Trp)-based fluorogenic amino acid Fmoc-Trp(C2-BODIPY)-OH and its incorporation into peptides for live-cell fluorescence imaging-an approach that is applicable to most peptide sequences. Fmoc-Trp(C2-BODIPY)-OH contains a BODIPY (4,4-difluoro-4-bora-3a,4a-diaza-s-indacene) fluorogenic core, which works as an environmentally sensitive fluorophore, showing high fluorescence in lipophilic conditions. It is attached to Trp via a spacer-free C-C linkage, resulting in a labeled amino acid that can mimic the molecular interactions of Trp, enabling wash-free imaging. This protocol covers the chemical synthesis of the fluorogenic amino acid Fmoc-Trp(C2-BODIPY)-OH (3-4 d), the preparation of the labeled antimicrobial peptide BODIPY-cPAF26 by solid-phase synthesis (6-7 d) and its spectral and biological characterization as a live-cell imaging probe for different fungal pathogens. As an example, we include a procedure for using BODIPY-cPAF26 for wash-free imaging of fungal pathogens, including real-time visualization of Aspergillus fumigatus (5 d for culturing, 1-2 d for imaging).
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Affiliation(s)
- Lorena Mendive-Tapia
- Department of Inorganic and Organic Chemistry, University of Barcelona, Barcelona, Spain
| | - Ramon Subiros-Funosas
- Medical Research Council/University of Edinburgh Centre for Inflammation Research, The University of Edinburgh, Edinburgh, UK
| | - Can Zhao
- Manchester Fungal Infection Group, Division of Infection, Immunity and Respiratory Medicine, University of Manchester, Manchester, UK
| | - Fernando Albericio
- Department of Inorganic and Organic Chemistry, University of Barcelona, Barcelona, Spain.,Networking Centre on Bioengineering, Biomaterials and Nanomedicine (CIBER-BBN), Barcelona, Spain
| | - Nick D Read
- Manchester Fungal Infection Group, Division of Infection, Immunity and Respiratory Medicine, University of Manchester, Manchester, UK
| | - Rodolfo Lavilla
- Networking Centre on Bioengineering, Biomaterials and Nanomedicine (CIBER-BBN), Barcelona, Spain.,Laboratory of Organic Chemistry, Faculty of Pharmacy, University of Barcelona, Barcelona, Spain
| | - Marc Vendrell
- Medical Research Council/University of Edinburgh Centre for Inflammation Research, The University of Edinburgh, Edinburgh, UK
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21
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Tamer Ö, Bhatti MH, Yunus U, Avcı D, Atalay Y, Nadeem M, Shah SR, Helliwell M. Structural, spectroscopic, nonlinear optical and electronic properties of calcium N-phthaloylglycinate: A combined experimental and theoretical study. J Mol Struct 2016. [DOI: 10.1016/j.molstruc.2016.06.084] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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22
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Merkel M, Dehmel L, Ernsting NP, Wagenknecht HA. An Isosteric and Fluorescent DNA Base Pair Consisting of 4-aminophthalimide and 2,4-diaminopyrimidine as C-Nucleosides. Angew Chem Int Ed Engl 2016; 56:384-388. [DOI: 10.1002/anie.201608712] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2016] [Revised: 10/05/2016] [Indexed: 12/28/2022]
Affiliation(s)
- Marcus Merkel
- Institut für Organische Chemie; Karlsruher Institut für Technologie (KIT); Fritz-Haber-Weg 6 76131 Karlsruhe Germany
| | - Lars Dehmel
- Humboldt Universität zu Berlin; Department Chemie; Brook-Taylor-Str. 2 12489 Berlin Germany
| | - Nikolaus P. Ernsting
- Humboldt Universität zu Berlin; Department Chemie; Brook-Taylor-Str. 2 12489 Berlin Germany
| | - Hans-Achim Wagenknecht
- Institut für Organische Chemie; Karlsruher Institut für Technologie (KIT); Fritz-Haber-Weg 6 76131 Karlsruhe Germany
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23
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Merkel M, Dehmel L, Ernsting NP, Wagenknecht H. Ein isosteres und fluoreszierendes DNA‐Basenpaar aus 4‐Aminophthalimid und 2,4‐Diaminopyrimidin als C‐Nucleoside. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201608712] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Affiliation(s)
- Marcus Merkel
- Institut für Organische Chemie Karlsruher Institut für Technologie (KIT) Fritz-Haber-Weg 6 76131 Karlsruhe Deutschland
| | - Lars Dehmel
- Humboldt-Universität zu Berlin Department Chemie Brook-Taylor-Straße 2 12489 Berlin Deutschland
| | - Nikolaus P. Ernsting
- Humboldt-Universität zu Berlin Department Chemie Brook-Taylor-Straße 2 12489 Berlin Deutschland
| | - Hans‐Achim Wagenknecht
- Institut für Organische Chemie Karlsruher Institut für Technologie (KIT) Fritz-Haber-Weg 6 76131 Karlsruhe Deutschland
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24
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Wang W, Zhu L, Hirano Y, Kariminavargani M, Tada S, Zhang G, Uzawa T, Zhang D, Hirose T, Taiji M, Ito Y. Fluorogenic Enhancement of an in Vitro-Selected Peptide Ligand by Replacement of a Fluorescent Group. Anal Chem 2016; 88:7991-7. [DOI: 10.1021/acs.analchem.6b01032] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Affiliation(s)
- Wei Wang
- High
Magnetic Field Laboratory, Chinese Academy of Sciences, Hefei, Anhui 230031, P. R. China
- Nano
Medical Engineering Laboratory, RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
| | - Liping Zhu
- Nano
Medical Engineering Laboratory, RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
| | - Yoshinori Hirano
- Laboratory
for Computational Molecular Design, Computational Biology Research
Core, RIKEN Quantitative Biology Center, 2F, QBiC Building B, 6-2-4 Furuedai, Suita, Osaka 565-0874, Japan
| | - Marziyeh Kariminavargani
- Nano
Medical Engineering Laboratory, RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
- Graduate
School of Science and Engineering, Saitama University, 255 Shimo-Okubo, Sakura-ku, Saitama 338-8570, Japan
| | - Seiichi Tada
- Emergent
Bioengineering
Materials Research Team, RIKEN Center for Emergent Matter Science, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
| | - Guanxin Zhang
- Key
Laboratory of Organic Solids, Beijing National Laboratory of Molecular
Science, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, P. R. China
| | - Takanori Uzawa
- Nano
Medical Engineering Laboratory, RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
- Emergent
Bioengineering
Materials Research Team, RIKEN Center for Emergent Matter Science, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
| | - Deqing Zhang
- Key
Laboratory of Organic Solids, Beijing National Laboratory of Molecular
Science, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, P. R. China
| | - Takuji Hirose
- Graduate
School of Science and Engineering, Saitama University, 255 Shimo-Okubo, Sakura-ku, Saitama 338-8570, Japan
| | - Makoto Taiji
- Laboratory
for Computational Molecular Design, Computational Biology Research
Core, RIKEN Quantitative Biology Center, 2F, QBiC Building B, 6-2-4 Furuedai, Suita, Osaka 565-0874, Japan
| | - Yoshihiro Ito
- Nano
Medical Engineering Laboratory, RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
- Emergent
Bioengineering
Materials Research Team, RIKEN Center for Emergent Matter Science, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
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25
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Mallick S, Pal K, Koner AL. Probing microenvironment of micelle and albumin using diethyl 6-(dimethylamino)naphthalene-2,3-dicarboxylate: An electroneutral solvatochromic fluorescent probe. J Colloid Interface Sci 2016; 467:81-89. [DOI: 10.1016/j.jcis.2015.12.022] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2015] [Revised: 12/08/2015] [Accepted: 12/11/2015] [Indexed: 11/15/2022]
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26
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Harkiss AH, Sutherland A. Recent advances in the synthesis and application of fluorescent α-amino acids. Org Biomol Chem 2016; 14:8911-8921. [DOI: 10.1039/c6ob01715k] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
The design and synthesis of new fluorescent α-amino acids as well as their application in imaging of biological systems has been reviewed.
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Affiliation(s)
- Alexander H. Harkiss
- WestCHEM
- School of Chemistry
- The Joseph Black Building
- University of Glasgow
- Glasgow G12 8QQ
| | - Andrew Sutherland
- WestCHEM
- School of Chemistry
- The Joseph Black Building
- University of Glasgow
- Glasgow G12 8QQ
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27
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Mallick S, Chandra F, Koner AL. A ratiometric fluorescent probe for detection of biogenic primary amines with nanomolar sensitivity. Analyst 2016; 141:827-31. [DOI: 10.1039/c5an01911g] [Citation(s) in RCA: 43] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
An ultrasensitive ratiometric fluorescent sensor made of an N,N-dimethylaminonaphthalene anhydride moiety for detection of aliphatic primary amines is reported.
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Affiliation(s)
- Suman Mallick
- Department of Chemistry
- Indian Institute of Science Education and Research (IISER)
- Bhopal-462066
- India
| | - Falguni Chandra
- Department of Chemistry
- Indian Institute of Science Education and Research (IISER)
- Bhopal-462066
- India
| | - Apurba L. Koner
- Department of Chemistry
- Indian Institute of Science Education and Research (IISER)
- Bhopal-462066
- India
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28
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Dehmel L, Berndt F, Weinberger M, Sajadi M, Ioffe I, Wagenknecht HA, Ernsting NP. Isosteric and fluorescent DNA base pair formed by 4-amino-phthalimide and 2,4-diaminopyrimidine: melting, structure, and THz polar solvation dynamics. Phys Chem Chem Phys 2016; 18:6813-20. [DOI: 10.1039/c5cp06972f] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
An artificial base pair in duplex DNA, formed by 2,4-diaminopyrimidine and fluorescent 4-aminophthalimide C-nucleosides, is characterized spectroscopically, for use in femtosecond solvation dynamics.
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Affiliation(s)
- L. Dehmel
- Department of Chemistry
- Humboldt-Universität zu Berlin
- 12489 Berlin
- Germany
| | - F. Berndt
- Department of Chemistry
- Humboldt-Universität zu Berlin
- 12489 Berlin
- Germany
| | - M. Weinberger
- Institute of Organic Chemistry
- Karlsruhe Institute of Technology (KIT)
- 76131 Karlsruhe
- Germany
| | - M. Sajadi
- Department of Chemistry
- Humboldt-Universität zu Berlin
- 12489 Berlin
- Germany
| | - I. Ioffe
- Department of Chemistry
- Lomonosov Moscow State University
- Moscow
- Russia
| | - H.-A. Wagenknecht
- Institute of Organic Chemistry
- Karlsruhe Institute of Technology (KIT)
- 76131 Karlsruhe
- Germany
| | - N. P. Ernsting
- Department of Chemistry
- Humboldt-Universität zu Berlin
- 12489 Berlin
- Germany
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29
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Kampmann SS, Skelton BW, Yeoh GC, Abraham LJ, Lengkeek NA, Stubbs KA, Heath CH, Stewart SG. The synthesis and fluorescence profile of novel thalidomide analogues. Tetrahedron 2015. [DOI: 10.1016/j.tet.2015.08.036] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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30
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Pazos E, Mascareñas JL, Vázquez ME. Identification of Cyclin A Binders with a Fluorescent Peptide Sensor. Methods Mol Biol 2015; 1336:67-83. [PMID: 26231709 DOI: 10.1007/978-1-4939-2926-9_7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/22/2023]
Abstract
A peptide sensor that integrates the 4-dimethylaminophthalimide (4-DMAP) fluorophore in a short cyclin A binding sequence displays a large fluorescence emission increase upon interacting with the cyclin A Binding Groove (CBG). Competitive displacement assays of this probe allow the straightforward identification of peptides that interact with the CBG, which could potentially block the recognition of CDK/cyclin A kinase substrates.
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Affiliation(s)
- Elena Pazos
- Centro Singular de Investigación en Química Biolóxica e Materiais Moleculares (CIQUS), Departamento de Química Orgánica, Universidade de Santiago de Compostela, C/ Jenaro de la Fuente s/n, Campus Vida, 15782, Santiago de Compostela, Spain
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31
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Niso M, Riganti C, Pati ML, Ghigo D, Berardi F, Abate C. Novel and Selective Fluorescent σ2 -Receptor Ligand with a 3,4-Dihydroisoquinolin-1-one Scaffold: A Tool to Study σ2 Receptors in Living Cells. Chembiochem 2015; 16:1078-83. [PMID: 25757101 DOI: 10.1002/cbic.201402712] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2014] [Indexed: 11/11/2022]
Abstract
Although sigma-2 (σ2 ) receptors are still enigmatic proteins, they are promising targets for tumor treatment and diagnosis. With the aim of clarifying their role in oncology, we developed a σ2 -selective fluorescent tracer (compound 5) as a specific tool to study σ2 receptors. By using flow cytometry with 5, we performed competition binding studies on three different cell lines where we also detected the content of the σ2 receptors, avoiding the inconvenient use of radioligands. Comparison with a previously developed mixed σ1 /σ2 fluorescent tracer (1) also allowed for the detection of σ1 receptors within these cells. Results obtained by flow cytometry with tracers 1 and 5 were confirmed by standard methods (western blot for σ1 , and Scatchard analysis for σ2 receptors). Thus, we have produced powerful new tools for research on the σ whose reliability and adaptability to a number of fluorescence techniques will be useful to elucidate the roles of σ receptors in oncology.
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Affiliation(s)
- Mauro Niso
- Dipartimento di Farmacia-Scienze del Farmaco, Via Orabona, 4. 70125 Bari (Italy)
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32
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Yang CT, Han J, Gu M, Liu J, Li Y, Huang Z, Yu HZ, Hu S, Wang X. Fluorescent recognition of uranyl ions by a phosphorylated cyclic peptide. Chem Commun (Camb) 2015; 51:11769-72. [DOI: 10.1039/c5cc04112k] [Citation(s) in RCA: 46] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Abstract
Fluorescent recognition of uranyl ions was achieved using a phosphorylated cyclic peptide, which can be used as a fluorescent sensor.
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Affiliation(s)
- Chu-Ting Yang
- Institute of Nuclear Physics and Chemistry
- China Academy of Engineering Physics
- Mianyang
- P. R. China
| | - Jun Han
- Institute of Nuclear Physics and Chemistry
- China Academy of Engineering Physics
- Mianyang
- P. R. China
| | - Mei Gu
- Institute of Nuclear Physics and Chemistry
- China Academy of Engineering Physics
- Mianyang
- P. R. China
| | - Jun Liu
- Institute of Nuclear Physics and Chemistry
- China Academy of Engineering Physics
- Mianyang
- P. R. China
| | - Yi Li
- Institute of Nuclear Physics and Chemistry
- China Academy of Engineering Physics
- Mianyang
- P. R. China
| | - Zeng Huang
- Institute of Nuclear Physics and Chemistry
- China Academy of Engineering Physics
- Mianyang
- P. R. China
| | - Hai-Zhu Yu
- Department of Chemistry and Center for Atomic Engineering of Advanced Materials
- Anhui University
- Hefei
- P. R. China
| | - Sheng Hu
- Institute of Nuclear Physics and Chemistry
- China Academy of Engineering Physics
- Mianyang
- P. R. China
| | - Xiaolin Wang
- Institute of Nuclear Physics and Chemistry
- China Academy of Engineering Physics
- Mianyang
- P. R. China
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33
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Mitra AK, Ghosh S, Sarangi MK, Sau A, Saha C, Basu S. Influence of microheterogeneity on the solution phase photophysics of a newly synthesised, environment sensitive fluorophore 2-((7,8-dimethyl-1-oxo-2,3,4,9-tetrahydro-1H-carbazol-6-yl)oxy)acetic acid and its tagged derivative. J Photochem Photobiol A Chem 2015. [DOI: 10.1016/j.jphotochem.2014.09.009] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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34
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Sholokh M, Zamotaiev OM, Das R, Postupalenko VY, Richert L, Dujardin D, Zaporozhets OA, Pivovarenko VG, Klymchenko AS, Mély Y. Fluorescent Amino Acid Undergoing Excited State Intramolecular Proton Transfer for Site-Specific Probing and Imaging of Peptide Interactions. J Phys Chem B 2014; 119:2585-95. [DOI: 10.1021/jp508748e] [Citation(s) in RCA: 47] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Affiliation(s)
- Marianna Sholokh
- Laboratoire de
Biophotonique et Pharmacologie, UMR 7213 CNRS, Université de
Strasbourg, Faculté de Pharmacie, 74, Route du Rhin, 67401 Illkirch Cedex, France
- Department
of Chemistry, Kyiv National Taras Shevchenko University, 01033 Kyiv, Ukraine
| | | | - Ranjan Das
- Department
of Chemistry, West Bengal State University, Barasat, Kolkata 700126, West Bengal, India
| | - Viktoriia Y. Postupalenko
- Laboratoire de
Biophotonique et Pharmacologie, UMR 7213 CNRS, Université de
Strasbourg, Faculté de Pharmacie, 74, Route du Rhin, 67401 Illkirch Cedex, France
| | - Ludovic Richert
- Laboratoire de
Biophotonique et Pharmacologie, UMR 7213 CNRS, Université de
Strasbourg, Faculté de Pharmacie, 74, Route du Rhin, 67401 Illkirch Cedex, France
| | - Denis Dujardin
- Laboratoire de
Biophotonique et Pharmacologie, UMR 7213 CNRS, Université de
Strasbourg, Faculté de Pharmacie, 74, Route du Rhin, 67401 Illkirch Cedex, France
| | - Olga A. Zaporozhets
- Department
of Chemistry, Kyiv National Taras Shevchenko University, 01033 Kyiv, Ukraine
| | - Vasyl G. Pivovarenko
- Department
of Chemistry, Kyiv National Taras Shevchenko University, 01033 Kyiv, Ukraine
| | - Andrey S. Klymchenko
- Laboratoire de
Biophotonique et Pharmacologie, UMR 7213 CNRS, Université de
Strasbourg, Faculté de Pharmacie, 74, Route du Rhin, 67401 Illkirch Cedex, France
| | - Yves Mély
- Laboratoire de
Biophotonique et Pharmacologie, UMR 7213 CNRS, Université de
Strasbourg, Faculté de Pharmacie, 74, Route du Rhin, 67401 Illkirch Cedex, France
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35
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Nath JK, Baruah JB. Solvatoemissive dual fluorescence of N-(pyridylmethyl)-3-nitro-1,8-naphthalimides. J Fluoresc 2014; 24:649-55. [DOI: 10.1007/s10895-014-1353-8] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2013] [Accepted: 01/27/2014] [Indexed: 10/25/2022]
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36
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Kindahl T, Chorell E. Efficient one-step synthesis of 4-amino substituted phthalimides and evaluation of their potential as fluorescent probes. Org Biomol Chem 2014; 12:4461-70. [DOI: 10.1039/c4ob00342j] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Tomas Kindahl
- Department of Chemistry, Umeå University, SE-90187 Umeå, Sweden.
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37
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Yang Z, Cao J, He Y, Yang JH, Kim T, Peng X, Kim JS. Macro-/micro-environment-sensitive chemosensing and biological imaging. Chem Soc Rev 2014; 43:4563-601. [DOI: 10.1039/c4cs00051j] [Citation(s) in RCA: 604] [Impact Index Per Article: 60.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
We have summarized the research progress on fluorescent sensors responsive to environmental factors, including local viscosity, polarity, temperature, hypoxia and pH.
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Affiliation(s)
- Zhigang Yang
- Department of Chemistry
- Korea University
- Seoul 136-701, Korea
- Key Laboratory of Sensor Analysis of Tumor Marker Ministry of Education
- College of Chemistry and Molecular Engineering
| | - Jianfang Cao
- State Key Laboratory of Fine Chemicals
- Dalian University of Technology
- Dalian 116024, China
| | - Yanxia He
- Department of Chemistry
- Korea University
- Seoul 136-701, Korea
- Key Laboratory of Sensor Analysis of Tumor Marker Ministry of Education
- College of Chemistry and Molecular Engineering
| | - Jung Ho Yang
- Department of Chemistry
- Korea University
- Seoul 136-701, Korea
| | - Taeyoung Kim
- Department of Chemistry
- Korea University
- Seoul 136-701, Korea
| | - Xiaojun Peng
- State Key Laboratory of Fine Chemicals
- Dalian University of Technology
- Dalian 116024, China
| | - Jong Seung Kim
- Department of Chemistry
- Korea University
- Seoul 136-701, Korea
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38
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Zamotaiev OM, Postupalenko VY, Shvadchak VV, Pivovarenko VG, Klymchenko AS, Mély Y. Monitoring penetratin interactions with lipid membranes and cell internalization using a new hydration-sensitive fluorescent probe. Org Biomol Chem 2014; 12:7036-44. [DOI: 10.1039/c4ob01242a] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
A new hydration-sensitive fluorescent label attached to the N-terminus of a cell-penetrating peptide allows visualization of the nanoscopic environment of its internalization pathway.
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Affiliation(s)
- Oleksandr M. Zamotaiev
- Laboratoire de Biophotonique et Pharmacologie
- UMR 7213 du CNRS
- Université de Strasbourg
- Faculté de Pharmacie
- 67401 Illkirch, France
| | - Viktoriia Y. Postupalenko
- Laboratoire de Biophotonique et Pharmacologie
- UMR 7213 du CNRS
- Université de Strasbourg
- Faculté de Pharmacie
- 67401 Illkirch, France
| | - Volodymyr V. Shvadchak
- Laboratoire de Biophotonique et Pharmacologie
- UMR 7213 du CNRS
- Université de Strasbourg
- Faculté de Pharmacie
- 67401 Illkirch, France
| | - Vasyl G. Pivovarenko
- Laboratoire de Biophotonique et Pharmacologie
- UMR 7213 du CNRS
- Université de Strasbourg
- Faculté de Pharmacie
- 67401 Illkirch, France
| | - Andrey S. Klymchenko
- Laboratoire de Biophotonique et Pharmacologie
- UMR 7213 du CNRS
- Université de Strasbourg
- Faculté de Pharmacie
- 67401 Illkirch, France
| | - Yves Mély
- Laboratoire de Biophotonique et Pharmacologie
- UMR 7213 du CNRS
- Université de Strasbourg
- Faculté de Pharmacie
- 67401 Illkirch, France
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39
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Krueger AT, Imperiali B. Fluorescent Amino Acids: Modular Building Blocks for the Assembly of New Tools for Chemical Biology. Chembiochem 2013; 14:788-99. [DOI: 10.1002/cbic.201300079] [Citation(s) in RCA: 71] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2013] [Indexed: 12/16/2022]
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40
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Murase T, Yoshihara T, Yamada K, Tobita S. Fluorescent Peptides Labeled with Environment-Sensitive 7-Aminocoumarins and Their Interactions with Lipid Bilayer Membranes and Living Cells. BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN 2013. [DOI: 10.1246/bcsj.20120314] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Tokiko Murase
- Department of Chemistry and Chemical Biology, Gunma University
| | | | - Keiichi Yamada
- Department of Chemistry and Chemical Biology, Gunma University
| | - Seiji Tobita
- Department of Chemistry and Chemical Biology, Gunma University
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41
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Sainlos M, Iskenderian-Epps WS, Olivier NB, Choquet D, Imperiali B. Caged Mono- and Divalent Ligands for Light-Assisted Disruption of PDZ Domain-Mediated Interactions. J Am Chem Soc 2013; 135:4580-3. [DOI: 10.1021/ja309870q] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Matthieu Sainlos
- Departments of Chemistry and
Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
- University of Bordeaux, IINS, CNRS, UMR 5297, F-33000 Bordeaux, France
- CNRS, IINS, UMR 5297,
F-33000 Bordeaux, France
| | - Wendy S. Iskenderian-Epps
- Departments of Chemistry and
Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Nelson B. Olivier
- Departments of Chemistry and
Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Daniel Choquet
- University of Bordeaux, IINS, CNRS, UMR 5297, F-33000 Bordeaux, France
- CNRS, IINS, UMR 5297,
F-33000 Bordeaux, France
| | - Barbara Imperiali
- Departments of Chemistry and
Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
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42
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Weinberger M, Berndt F, Mahrwald R, Ernsting NP, Wagenknecht HA. Synthesis of 4-Aminophthalimide and 2,4-Diaminopyrimidine C-Nucleosides as Isosteric Fluorescent DNA Base Substitutes. J Org Chem 2013; 78:2589-99. [DOI: 10.1021/jo302768f] [Citation(s) in RCA: 40] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Michael Weinberger
- Department of Chemistry, Karlsruhe Institute of Technology, Fritz-Haber-Weg
6, Campus Süd, Geb. 30.42, 76131 Karlsruhe, Germany
| | - Falko Berndt
- Institute of Chemistry, Humboldt University Berlin, Brook-Taylor-Strasse 2,
12489 Berlin, Germany
| | - Rainer Mahrwald
- Institute of Chemistry, Humboldt University Berlin, Brook-Taylor-Strasse 2,
12489 Berlin, Germany
| | - Nikolaus P. Ernsting
- Institute of Chemistry, Humboldt University Berlin, Brook-Taylor-Strasse 2,
12489 Berlin, Germany
| | - Hans-Achim Wagenknecht
- Department of Chemistry, Karlsruhe Institute of Technology, Fritz-Haber-Weg
6, Campus Süd, Geb. 30.42, 76131 Karlsruhe, Germany
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43
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Klymchenko AS, Mely Y. Fluorescent environment-sensitive dyes as reporters of biomolecular interactions. PROGRESS IN MOLECULAR BIOLOGY AND TRANSLATIONAL SCIENCE 2013; 113:35-58. [PMID: 23244788 DOI: 10.1016/b978-0-12-386932-6.00002-8] [Citation(s) in RCA: 73] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Monitoring biomolecular interactions is a fundamental issue in biosensing, with numerous applications ranging from biological research to clinical diagnostics. Fluorescent dyes capable of changing their color and brightness in response to changes of their environment properties, the so-called environment-sensitive dyes, have recently emerged as reporters of these interactions. The most well established of these are dyes that undergo excited-state charge transfer showing red shift of their single emission band with increase in the solvent polarity. The other promising class are dyes of the 3-hydroxychromone family that undergo excited-state intramolecular proton transfer and show solvent-sensitive dual emission. Examples of existing solvatochromic dyes and their biosensing applications are given, with particular focus on the 3-hydroxychromones. It is shown that solvatochromic dyes are powerful tools for monitoring conformation changes of proteins and their interactions with nucleic acids, proteins, and lipid membranes.
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Affiliation(s)
- Andrey S Klymchenko
- Laboratoire de Biophotonique et Pharmacologie, UMR 7213 CNRS, Université de Strasbourg, Faculté de Pharmacie, Illkirch Cedex, France
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44
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Socher E, Imperiali B. FRET-capture: a sensitive method for the detection of dynamic protein interactions. Chembiochem 2012; 14:53-7. [PMID: 23239458 DOI: 10.1002/cbic.201200700] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2012] [Indexed: 01/14/2023]
Abstract
Caught in the act: The FRET-Capture approach exploits a bound solvatochromic fluorophore, 4-N,N-dimethylamino-1,8-naphthalimide, as a FRET donor in both inter- and intramolecular energy transfer. A unique feature of this method is the additional level of signal selectivity as the FRET signal is only turned on when the donor is specifically bound to the protein of interest, eliminating high background and false positive signals.
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Affiliation(s)
- Elke Socher
- Department of Biology and Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA
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45
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Strizhak AV, Postupalenko VY, Shvadchak VV, Morellet N, Guittet E, Pivovarenko VG, Klymchenko AS, Mély Y. Two-color fluorescent l-amino acid mimic of tryptophan for probing peptide-nucleic acid complexes. Bioconjug Chem 2012; 23:2434-43. [PMID: 23153224 DOI: 10.1021/bc300464u] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Non-natural amino acids are important tools for site-selective probing of peptide properties and interactions. Here, for the first time a fluorescent l-amino acid, exhibiting excited-state intramolecular proton transfer (ESIPT) and hydration-sensitive dual emission, was synthesized. It is an analogue of l-tryptophan bearing a slightly larger 2-(2-furyl)-3-hydroxychromone aromatic moiety instead of indole. This new amino acid was incorporated through solid-phase synthesis into NC(11-55), the zinc finger domain of the HIV-1 nucleocapsid protein, that exhibits potent nucleic acid chaperone properties. It was substituted for the Trp37 and Ala30 residues, located in the distal finger motif and the linker between the fingers of NC(11-55), respectively. Though the highly conserved Trp37 residue plays a key role in NC(11-55) structure and activity, its substitution for the new fluorescent analogue preserved the folding, the nucleic acid binding and chaperone activity of the peptide, indicating that the new amino acid can conservatively substitute Trp residues. In the presence of oligonucleotides, the Trp37-substituted peptide, but not the Ala30 variant, showed strong changes of the dual emission corresponding to local dehydration. The results are in line with NMR data, suggesting that the fluorescent amino acid interacts similarly to Trp37 with the nucleobases and is thus screened from water. Due to the exceptional sensitivity of its ESIPT fluorophore to hydration in highly polar environment, the new amino acid appears as a promising tool for substituting Trp residues and site-selectively investigating peptide-nucleic acid complexes.
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Affiliation(s)
- Aleksandr V Strizhak
- Laboratoire de Biophotonique et Pharmacologie, UMR 7213 CNRS, Université de Strasbourg, Faculté de Pharmacie, 67401 Illkirch, France
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46
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Uchiyama S, Kimura K, Gota C, Okabe K, Kawamoto K, Inada N, Yoshihara T, Tobita S. Environment-Sensitive Fluorophores with Benzothiadiazole and Benzoselenadiazole Structures as Candidate Components of a Fluorescent Polymeric Thermometer. Chemistry 2012; 18:9552-63. [DOI: 10.1002/chem.201200597] [Citation(s) in RCA: 73] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2012] [Indexed: 12/17/2022]
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47
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Baathulaa K, Xu Y, Qian X. Short and scalable synthesis of an anhydride precursor of the environment-sensitive fluorophore 6-dimethylaminonaphthalimide. Nat Protoc 2011; 6:1990-7. [DOI: 10.1038/nprot.2011.415] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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48
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Goguen BN, Loving GS, Imperiali B. Development of a fluorogenic sensor for activated Cdc42. Bioorg Med Chem Lett 2011; 21:5058-61. [PMID: 21549598 DOI: 10.1016/j.bmcl.2011.04.051] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2011] [Revised: 04/08/2011] [Accepted: 04/12/2011] [Indexed: 11/30/2022]
Abstract
Cdc42, a member of the Rho GTPase family, is a fundamental regulator of the actin cytoskeleton during cell migration. To generate a sensor for Cdc42 activation, we employed a multi-pronged approach, utilizing cysteine labeling and expressed protein ligation, to incorporate the environment sensitive fluorophore 4-N,N-dimethylamino-1,8-naphthalimide (4-DMN) into the GTPase binding domain of the WASP protein. These constructs bind only the active, GTP-bound conformation of Cdc42 to produce a fluorescence signal. Studies with a panel of five sensor analogs revealed a derivative that exhibits a 32-fold increase in fluorescence intensity in the presence of activated Cdc42 compared to incubation with the inactive GDP-bound form of the protein. We demonstrate that this sensor can be exploited to monitor Cdc42 nucleotide exchange and GTPase activity in a continuous, fluorescence assay.
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Affiliation(s)
- Brenda N Goguen
- Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA
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49
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Pazos E, Pérez M, Gutiérrez-de-Terán H, Orzáez M, Guevara T, Mascareñas JL, Vázquez ME. Rational design of a cyclin A fluorescent peptide sensor. Org Biomol Chem 2011; 9:7629-32. [DOI: 10.1039/c1ob06009k] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
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50
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Sainlos M, Tigaret C, Poujol C, Olivier NB, Bard L, Breillat C, Thiolon K, Choquet D, Imperiali B. Biomimetic divalent ligands for the acute disruption of synaptic AMPAR stabilization. Nat Chem Biol 2010; 7:81-91. [DOI: 10.1038/nchembio.498] [Citation(s) in RCA: 95] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2010] [Accepted: 11/08/2010] [Indexed: 11/09/2022]
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