251
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Detection of protease activity in cells and animals. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2015; 1864:130-42. [PMID: 25960278 DOI: 10.1016/j.bbapap.2015.04.029] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/27/2015] [Revised: 04/21/2015] [Accepted: 04/28/2015] [Indexed: 01/05/2023]
Abstract
Proteases are involved in a wide variety of biologically and medically important events. They are entangled in a complex network of processes that regulate their activity, which makes their study intriguing, but challenging. For comprehensive understanding of protease biology and effective drug discovery, it is therefore essential to study proteases in models that are close to their complex native environments such as live cells or whole organisms. Protease activity can be detected by reporter substrates and activity-based probes, but not all of these reagents are suitable for intracellular or in vivo use. This review focuses on the detection of proteases in cells and in vivo. We summarize the use of probes and substrates as molecular tools, discuss strategies to deliver these tools inside cells, and describe sophisticated read-out techniques such as mass spectrometry and various imaging applications. This article is part of a Special Issue entitled: Physiological Enzymology and Protein Functions.
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252
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Selvakumar K, Motiei L, Margulies D. Enzyme-Artificial Enzyme Interactions as a Means for Discriminating among Structurally Similar Isozymes. J Am Chem Soc 2015; 137:4892-5. [PMID: 25819325 DOI: 10.1021/jacs.5b02496] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
We describe the design and function of an artificial enzyme-linked receptor (ELR) that can bind different members of the glutathione-S-transferase (GST) enzyme family. The artificial enzyme-enzyme interactions distinctly affect the catalytic activity of the natural enzymes, the biomimetic, or both, enabling the system to discriminate among structurally similar GST isozymes.
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Affiliation(s)
| | - Leila Motiei
- Department of Organic Chemistry, The Weizmann Institute of Science, Rehovot, Israel 76100
| | - David Margulies
- Department of Organic Chemistry, The Weizmann Institute of Science, Rehovot, Israel 76100
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253
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Slooter MD, Bierau K, Chan AB, Löwik CWGM. Near infrared fluorescence imaging for early detection, monitoring and improved intervention of diseases involving the joint. Connect Tissue Res 2015; 56:153-60. [PMID: 25689091 DOI: 10.3109/03008207.2015.1012586] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Abstract
Joints consist of different tissues, such as bone, cartilage and synovium, which are at risk for multiple diseases. The current imaging modalities, such as magnetic resonance imaging, Doppler ultrasound, X-ray, computed tomography and arthroscopy, lack the ability to detect disease activity before the onset of anatomical and significant irreversible damage. Optical in vivo imaging has recently been introduced as a novel imaging tool to study the joint and has the potential to image all kinds of biological processes. This tool is already exploited in (pre)clinical studies of rheumatoid arthritis, osteoarthritis and cancer. The technique uses fluorescent dyes conjugated to targeting moieties that recognize biomarkers of the disease. This review will focus on these new imaging techniques and especially where Near Infrared (NIR) fluorescence imaging has been used to visualize diseases of the joint. NIR fluorescent imaging is a promising technique which will soon complement established radiological, ultrasound and MRI imaging in the clinical management of patients with respect to early disease detection, monitoring and improved intervention.
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254
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Garenne T, Saidi A, Gilmore BF, Niemiec E, Roy V, Agrofoglio LA, Kasabova M, Lecaille F, Lalmanach G. Active site labeling of cysteine cathepsins by a straightforward diazomethylketone probe derived from the N-terminus of human cystatin C. Biochem Biophys Res Commun 2015; 460:250-4. [PMID: 25778864 DOI: 10.1016/j.bbrc.2015.03.020] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2015] [Accepted: 03/04/2015] [Indexed: 12/20/2022]
Abstract
We designed a straightforward biotinylated probe using the N-terminal substrate-like region of the inhibitory site of human cystatin C as a scaffold, linked to the thiol-specific reagent diazomethylketone group as a covalent warhead (i.e. Biot-(PEG)₂-Ahx-LeuValGly-DMK). The irreversible activity-based probe bound readily to cysteine cathepsins B, L, S and K. Moreover affinity labeling is sensitive since active cathepsins were detected in the nM range using an ExtrAvidin-peroxidase conjugate for disclosure. Biot-(PEG)₂-Ahx-LeuValGly-DMK allowed a slightly more pronounced labeling for cathepsin S with a compelling second-order rate constant for association (kass = 2,320,000 M(-1) s(-1)). Labeling of the active site is dose-dependent as observed using 6-cyclohexylamine-4-piperazinyl-1,3,5-triazine-2-carbonitrile, as competitive inhibitor of cathepsins. Finally we showed that Biot-(PEG)₂-Ahx-LeuValGly-DMK may be a simple and convenient tool to label secreted and intracellular active cathepsins using a myelomonocytic cell line (THP-1 cells) as model.
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Affiliation(s)
- Thibaut Garenne
- INSERM UMR 1100 «Pathologies Pulmonaires: Protéolyse et Aérosolthérapie», Equipe «Mécanismes Protéolytiques dans l'Inflammation»/Centre d'Etude des Pathologies Respiratoires (CEPR), Université François Rabelais, Faculté de Médecine, Tours, France
| | - Ahlame Saidi
- INSERM UMR 1100 «Pathologies Pulmonaires: Protéolyse et Aérosolthérapie», Equipe «Mécanismes Protéolytiques dans l'Inflammation»/Centre d'Etude des Pathologies Respiratoires (CEPR), Université François Rabelais, Faculté de Médecine, Tours, France
| | - Brendan F Gilmore
- Queen's University Belfast, School of Pharmacy, McClay Research Centre, Belfast, United Kingdom
| | - Elżbieta Niemiec
- Université d'Orléans, CNRS UMR 7311, Institut de Chimie Organique et Analytique (ICOA), Orléans, France
| | - Vincent Roy
- Université d'Orléans, CNRS UMR 7311, Institut de Chimie Organique et Analytique (ICOA), Orléans, France
| | - Luigi A Agrofoglio
- Université d'Orléans, CNRS UMR 7311, Institut de Chimie Organique et Analytique (ICOA), Orléans, France
| | - Mariana Kasabova
- INSERM UMR 1100 «Pathologies Pulmonaires: Protéolyse et Aérosolthérapie», Equipe «Mécanismes Protéolytiques dans l'Inflammation»/Centre d'Etude des Pathologies Respiratoires (CEPR), Université François Rabelais, Faculté de Médecine, Tours, France
| | - Fabien Lecaille
- INSERM UMR 1100 «Pathologies Pulmonaires: Protéolyse et Aérosolthérapie», Equipe «Mécanismes Protéolytiques dans l'Inflammation»/Centre d'Etude des Pathologies Respiratoires (CEPR), Université François Rabelais, Faculté de Médecine, Tours, France
| | - Gilles Lalmanach
- INSERM UMR 1100 «Pathologies Pulmonaires: Protéolyse et Aérosolthérapie», Equipe «Mécanismes Protéolytiques dans l'Inflammation»/Centre d'Etude des Pathologies Respiratoires (CEPR), Université François Rabelais, Faculté de Médecine, Tours, France.
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255
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Priestman MA, Wang Q, Jernigan FE, Chowdhury R, Schmidt M, Lawrence DS. Multicolor monitoring of the proteasome's catalytic signature. ACS Chem Biol 2015; 10:433-40. [PMID: 25347733 PMCID: PMC4340355 DOI: 10.1021/cb5007322] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
![]()
The proteasome, a validated anticancer
target, participates in
an array of biochemical activities, which range from the proteolysis
of defective proteins to antigen presentation. We report the preparation
of biochemically and photophysically distinct green, red, and far-red
real-time sensors designed to simultaneously monitor the proteasome’s
chymotrypsin-, trypsin-, and caspase-like activities, respectively.
These sensors were employed to assess the effect of simultaneous multiple
active site catalysis on the kinetic properties of the individual
subunits. Furthermore, we have found that the catalytic signature
of the proteasome varies depending on the source, cell type, and disease
state. Trypsin-like activity is more pronounced in yeast than in mammals,
whereas chymotrypsin-like activity is the only activity detectable
in B-cells (unlike other mammalian cells). Furthermore, chymotrypsin-like
activity is more prominent in transformed B cells relative to their
counterparts from healthy donors.
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Affiliation(s)
- Melanie A. Priestman
- Department
of Chemistry, Division of Chemical Biology and Medicinal Chemistry,
and Department of Pharmacology, University of North Carolina, Chapel Hill, North Carolina 27599, United States
| | - Qunzhao Wang
- Department
of Chemistry, Division of Chemical Biology and Medicinal Chemistry,
and Department of Pharmacology, University of North Carolina, Chapel Hill, North Carolina 27599, United States
| | - Finith E. Jernigan
- Department
of Chemistry, Division of Chemical Biology and Medicinal Chemistry,
and Department of Pharmacology, University of North Carolina, Chapel Hill, North Carolina 27599, United States
| | - Ruma Chowdhury
- Department
of Biochemistry, Albert Einstein College of Medicine, Bronx, New York 10461, United States
| | - Marion Schmidt
- Department
of Biochemistry, Albert Einstein College of Medicine, Bronx, New York 10461, United States
| | - David S. Lawrence
- Department
of Chemistry, Division of Chemical Biology and Medicinal Chemistry,
and Department of Pharmacology, University of North Carolina, Chapel Hill, North Carolina 27599, United States
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256
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Segal E, Prestwood TR, van der Linden WA, Carmi Y, Bhattacharya N, Withana N, Verdoes M, Habtezion A, Engleman EG, Bogyo M. Detection of intestinal cancer by local, topical application of a quenched fluorescence probe for cysteine cathepsins. ACTA ACUST UNITED AC 2015; 22:148-58. [PMID: 25579207 DOI: 10.1016/j.chembiol.2014.11.008] [Citation(s) in RCA: 66] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2014] [Revised: 11/06/2014] [Accepted: 11/12/2014] [Indexed: 12/20/2022]
Abstract
Early detection of colonic polyps can prevent up to 90% of colorectal cancer deaths. Conventional colonoscopy readily detects the majority of premalignant lesions, which exhibit raised morphology. However, lesions that are flat and depressed are often undetected using this method. Therefore, there is a need for molecular-based contrast agents to improve detection rates over conventional colonoscopy. We evaluated a quenched fluorescent activity-based probe (qABP; BMV109) that targets multiple cysteine cathepsins that are overexpressed in intestinal dysplasia in a genetic model of spontaneous intestinal polyp formation and in a chemically induced model of colorectal carcinoma. We found that the qABP selectively targets cysteine cathepsins, resulting in high sensitivity and specificity for intestinal tumors in mice and humans. Additionally, the qABP can be administered by either intravenous injection or by local delivery to the colon, making it a highly valuable tool for improved detection of colorectal lesions using fluorescence-guided colonoscopy.
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Affiliation(s)
- Ehud Segal
- Department of Pathology, Stanford University School of Medicine, 300 Pasteur Drive, Stanford, CA 94305, USA
| | - Tyler R Prestwood
- Department of Pathology, Stanford University School of Medicine, 300 Pasteur Drive, Stanford, CA 94305, USA
| | - Wouter A van der Linden
- Department of Pathology, Stanford University School of Medicine, 300 Pasteur Drive, Stanford, CA 94305, USA
| | - Yaron Carmi
- Department of Pathology, Stanford University School of Medicine, 300 Pasteur Drive, Stanford, CA 94305, USA
| | - Nupur Bhattacharya
- Department of Pathology, Stanford University School of Medicine, 300 Pasteur Drive, Stanford, CA 94305, USA
| | - Nimali Withana
- Department of Pathology, Stanford University School of Medicine, 300 Pasteur Drive, Stanford, CA 94305, USA
| | - Martijn Verdoes
- Department of Pathology, Stanford University School of Medicine, 300 Pasteur Drive, Stanford, CA 94305, USA
| | - Aida Habtezion
- Department of Medicine, Stanford University School of Medicine, 300 Pasteur Drive, Stanford, CA 94305, USA
| | - Edgar G Engleman
- Department of Pathology, Stanford University School of Medicine, 300 Pasteur Drive, Stanford, CA 94305, USA
| | - Matthew Bogyo
- Department of Pathology, Stanford University School of Medicine, 300 Pasteur Drive, Stanford, CA 94305, USA; Department of Microbiology and Immunology, Stanford University School of Medicine, 300 Pasteur Drive, Stanford, CA 94305, USA.
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257
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Carvalho LAR, Ruivo EFP, Lucas SD, Moreira R. Activity-based probes as molecular tools for biomarker discovery. MEDCHEMCOMM 2015. [DOI: 10.1039/c4md00417e] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Activity-based protein profiling has emerged as an exceptional tool for biomarker discovery and validation.
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Affiliation(s)
- L. A. R. Carvalho
- Research Institute for Medicines (iMed.ULisboa)
- Faculty of Pharmacy
- Universidade de Lisboa. Av. Prof. Gama Pinto
- 1649-003 Lisboa
- Portugal
| | - E. F. P. Ruivo
- Research Institute for Medicines (iMed.ULisboa)
- Faculty of Pharmacy
- Universidade de Lisboa. Av. Prof. Gama Pinto
- 1649-003 Lisboa
- Portugal
| | - S. D. Lucas
- Research Institute for Medicines (iMed.ULisboa)
- Faculty of Pharmacy
- Universidade de Lisboa. Av. Prof. Gama Pinto
- 1649-003 Lisboa
- Portugal
| | - R. Moreira
- Research Institute for Medicines (iMed.ULisboa)
- Faculty of Pharmacy
- Universidade de Lisboa. Av. Prof. Gama Pinto
- 1649-003 Lisboa
- Portugal
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258
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Willems LI, Overkleeft HS, van Kasteren SI. Current developments in activity-based protein profiling. Bioconjug Chem 2014; 25:1181-91. [PMID: 24946272 DOI: 10.1021/bc500208y] [Citation(s) in RCA: 105] [Impact Index Per Article: 10.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
Activity-based protein profiling (ABPP) has emerged as a powerful strategy to study the activity of enzymes in complex proteomes. The aim of ABPP is to selectively visualize only the active forms of particular enzymes using chemical probes termed activity-based probes (ABPs). These probes are directed to the active site of a particular target protein (or protein family) where they react in a mechanism-based manner with an active site residue. This results in the selective labeling of only the catalytically active form of the enzyme, usually in a covalent manner. Besides the monitoring of a specific enzymatic activity, ABPP strategies have also been used to identify and characterize (unknown) protein functions, to study up- and down-regulation of enzymatic activity in various disease states, to discover and evaluate putative new enzyme inhibitors, and to identify the protein targets of covalently binding natural products. In this Topical Review we will provide a brief overview of some of the recent developments in the field of ABPP.
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Affiliation(s)
- Lianne I Willems
- Leiden University , Leiden Institute of Chemistry, Gorlaeus Laboratories, Einsteinweg 55, 2333 CC Leiden, The Netherlands
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