Activity-Based Proteomics Methods and Protocols
This volume focuses on explorative activity-based proteomics, biomedical applications of activity-based proteomics, and chemical strategies in activity-based proteomics providing a concise overview of activity-based protein profiling. Written in the highl
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Herman S. Overkleeft Bogdan I. Florea Editors
Activity-Based Proteomics Methods and Protocols
METHODS
IN
MOLECULAR BIOLOGY
Series Editor John M. Walker School of Life and Medical Sciences University of Hertfordshire Hatfield, Hertfordshire, AL10 9AB, UK
For further volumes: http://www.springer.com/series/7651
Activity-Based Proteomics Methods and Protocols Edited by
Herman S. Overkleeft and Bogdan I. Florea Bio-Organic Synthesis Group, Leiden Institute of Chemistry, Leiden University, Leiden, The Netherlands
Editors Herman S. Overkleeft Bio-Organic Synthesis Group Leiden Institute of Chemistry Leiden University Leiden, The Netherlands
Bogdan I. Florea Bio-Organic Synthesis Group Leiden Institute of Chemistry Leiden University Leiden, The Netherlands
ISSN 1064-3745 ISSN 1940-6029 (electronic) Methods in Molecular Biology ISBN 978-1-4939-6437-6 ISBN 978-1-4939-6439-0 (eBook) DOI 10.1007/978-1-4939-6439-0 Library of Congress Control Number: 2016952643 © Springer Science+Business Media New York 2017 This work is subject to copyright. All rights are reserved by the Publisher, whether the whole or part of the material is concerned, specifically the rights of translation, reprinting, reuse of illustrations, recitation, broadcasting, reproduction on microfilms or in any other physical way, and transmission or information storage and retrieval, electronic adaptation, computer software, or by similar or dissimilar methodology now known or hereafter developed. The use of general descriptive names, registered names, trademarks, service marks, etc. in this publication does not imply, even in the absence of a specific statement, that such names are exempt from the relevant protective laws and regulations and therefore free for general use. The publisher, the authors and the editors are safe to assume that the advice and information in this book are believed to be true and accurate at the date of publication. Neither the publisher nor the authors or the editors give a warranty, express or implied, with respect to the material contained herein or for any errors or omissions that may have been made. Printed on acid-free paper This Humana Press imprint is published by Springer Nature The registered company is Springer Science+Business Media LLC New York
Preface Activity-based protein profiling has emerged in the past decades as an attractive strategy to at once simplify a proteome by selecting for a specific protein subset and providing functional data, in that proteins are selected based on their functioning, and not their mere expression. In a typical activity-based protein profiling experiment, a covalent and irreversible enzyme inhibitor is equipped with a visualization/identification tag (fluorophore, biotin) for analysis and enrichment by means of gel-based assays, affinity purification followed by mass spectrometry analysis, or a combination of the two. Covalent and irreversible inhibition can be affected by alkylation or acylation of an enzyme active site-residing nucleophile with an appropriate electrophilic
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