Activity-based probes for the ubiquitin conjugation-deconjugation machinery: new chemistries, new tools, and new insights

Quantitative Chemical Proteomic Profiling of Ubiquitin Specific Proteases in Intact Cancer Cells

(2016) Jennifer A. Ward et al.   ACS Chemical Biology

How Chemical Synthesis of Ubiquitin Conjugates Helps To Understand Ubiquitin Signal Transduction

(2016) Dharjath S. Hameed et al.   BIOCONJUGATE CHEMISTRY

Substrate specificity of the ubiquitin and Ubl proteases

(2016) Judith A Ronau et al.   CELL RESEARCH

Ubiquitin signaling in immune responses

(2016) Hongbo Hu et al.   CELL RESEARCH

Facile synthesis of covalent probes to capture enzymatic intermediates during E1 enzyme catalysis

(2016) Heeseon An et al.   CHEMICAL COMMUNICATIONS

Chemical and semisynthetic approaches to study and target deubiquitinases

(2016) Pushparathinam Gopinath et al.   CHEMICAL SOCIETY REVIEWS

Synthetic and semi-synthetic strategies to study ubiquitin signaling

(2016) Gabriëlle BA van Tilburg et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Pharmacological activation of wild-type p53 in the therapy of leukemia

(2016) Kensuke Kojima et al.   EXPERIMENTAL HEMATOLOGY

Cereblon and its downstream substrates as molecular targets of immunomodulatory drugs

(2016) Takumi Ito et al.   INTERNATIONAL JOURNAL OF HEMATOLOGY

Usp9X Is Required for Lymphocyte Activation and Homeostasis through Its Control of ZAP70 Ubiquitination and PKCβ Kinase Activity

(2016) Edwina Naik et al.   JOURNAL OF IMMUNOLOGY

Selenocysteine as a Latent Bioorthogonal Electrophilic Probe for Deubiquitylating Enzymes

(2016) Samuel D. Whedon et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Recognition of Lys48-Linked Di-ubiquitin and Deubiquitinating Activities of the SARS Coronavirus Papain-like Protease

(2016) Miklós Békés et al.   MOLECULAR CELL

MINDY-1 Is a Member of an Evolutionarily Conserved and Structurally Distinct New Family of Deubiquitinating Enzymes

(2016) Syed Arif Abdul Rehman et al.   MOLECULAR CELL

The Molecular Basis for Ubiquitin and Ubiquitin-like Specificities in Bacterial Effector Proteases

(2016) Jonathan N. Pruneda et al.   MOLECULAR CELL

Molecular basis of Lys11-polyubiquitin specificity in the deubiquitinase Cezanne

(2016) Tycho E. T. Mevissen et al.   NATURE

Probes of ubiquitin E3 ligases enable systematic dissection of parkin activation

(2016) Kuan-Chuan Pao et al.   Nature Chemical Biology

A cascading activity-based probe sequentially targets E1–E2–E3 ubiquitin enzymes

(2016) Monique P C Mulder et al.   Nature Chemical Biology

The proteasome deubiquitinase inhibitor VLX1570 shows selectivity for ubiquitin-specific protease-14 and induces apoptosis of multiple myeloma cells

(2016) Xin Wang et al.   Scientific Reports

Orthogonal Thiol Functionalization at a Single Atomic Center for Profiling Transthiolation Activity of E1 Activating Enzymes

(2015) Mathew Stanley et al.   ACS Chemical Biology

DUBs, the regulation of cell identity and disease

(2015) Johanna Heideker et al.   BIOCHEMICAL JOURNAL

SARS hCoV papain-like protease is a unique Lys48linkage-specific di-distributive deubiquitinating enzyme

(2015) Miklós Békés et al.   BIOCHEMICAL JOURNAL

Synthesis and Evaluation of Derivatives of the Proteasome Deubiquitinase Inhibitor b-AP15

(2015) Xin Wang et al.   Chemical Biology & Drug Design

Promises and Challenges of Smac Mimetics as Cancer Therapeutics

(2015) S. Fulda   CLINICAL CANCER RESEARCH

Expanding the ubiquitin code through post-translational modification

(2015) L. Herhaus et al.   EMBO REPORTS

Deubiquitinases (DUBs) and DUB inhibitors: a patent review

(2015) Pershang Farshi et al.   EXPERT OPINION ON THERAPEUTIC PATENTS

Regulation of Met1-linked polyubiquitin signalling by the deubiquitinase OTULIN

(2015) Paul R. Elliott et al.   FEBS Journal

Linear ubiquitination in immunity

(2015) Yutaka Shimizu et al.   IMMUNOLOGICAL REVIEWS

Deubiquitinase inhibition as a cancer therapeutic strategy

(2015) Padraig D'Arcy et al.   PHARMACOLOGY & THERAPEUTICS

Structural basis of substrate recognition by a bacterial deubiquitinase important for dynamics of phagosome ubiquitination

(2015) Michael J. Sheedlo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An inhibitor of ubiquitin conjugation and aggresome formation

(2015) Heeseon An et al.   Chemical Science

Activity-Based Proteomic Profiling of Deubiquitinating Enzymes in Salmonella-Infected Macrophages Leads to Identification of Putative Function of UCH-L5 in Inflammasome Regulation

(2015) Evangel Kummari et al.   PLoS One

The de novo synthesis of ubiquitin: identification of deubiquitinases acting on ubiquitin precursors

(2015) Cláudia P. Grou et al.   Scientific Reports

Activity-Based Profiling of Proteases

(2014) Laura E. Sanman et al.   Annual Review of Biochemistry

Prokaryotic Ubiquitin-Like Protein Modification

(2014) Julie A. Maupin-Furlow   Annual Review of Microbiology

A Native Chemical Ligation Handle that Enables the Synthesis of Advanced Activity-Based Probes: Diubiquitin as a Case Study

(2014) Monique P. C. Mulder et al.   CHEMBIOCHEM

Inhibiting the Deubiquitinating Enzymes (DUBs)

(2014) Chudi Ndubaku et al.   JOURNAL OF MEDICINAL CHEMISTRY

New insights into ubiquitin E3 ligase mechanism

(2014) Christopher E Berndsen et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Toward understanding ubiquitin-modifying enzymes: from pharmacological targeting to proteomics

(2014) Jennie R. Lill et al.   TRENDS IN PHARMACOLOGICAL SCIENCES

Screening of DUB activity and specificity by MALDI-TOF mass spectrometry

(2014) Maria Stella Ritorto et al.   Nature Communications

Propargyl Amides as Irreversible Inhibitors of Cysteine Proteases-A Lesson on the Biological Reactivity of Alkynes

(2013) Christoph Arkona et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Mammalian HECT ubiquitin-protein ligases: Biological and pathophysiological aspects

(2013) Martin Scheffner et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH

Covalent inhibition of SUMO and ubiquitin-specific cysteine proteases by an in situ thiol–alkyne addition

(2013) Stefanie Sommer et al.   BIOORGANIC & MEDICINAL CHEMISTRY

Chemical strategies to understand the language of ubiquitin signaling

(2013) Caroline E. Weller et al.   BIOPOLYMERS

OTU Deubiquitinases Reveal Mechanisms of Linkage Specificity and Enable Ubiquitin Chain Restriction Analysis

(2013) Tycho E.T. Mevissen et al.   CELL

OTULIN Antagonizes LUBAC Signaling by Specifically Hydrolyzing Met1-Linked Polyubiquitin

(2013) Kirstin Keusekotten et al.   CELL

Catch-and-Release Probes Applied to Semi-Intact Cells Reveal Ubiquitin-Specific Protease Expression inChlamydia trachomatisInfection

(2013) Jasper H. L. Claessen et al.   CHEMBIOCHEM

Activity-based diubiquitin probes for elucidating the linkage specificity of deubiquitinating enzymes

(2013) Guorui Li et al.   CHEMICAL COMMUNICATIONS

Deubiquitinating Enzyme Specificity for Ubiquitin Chain Topology Profiled by Di-Ubiquitin Activity Probes

(2013) Joanna F. McGouran et al.   CHEMISTRY & BIOLOGY

Development of Activity-Based Probes for Ubiquitin and Ubiquitin-like Protein Signaling Pathways

(2013) Heeseon An et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Coupling Protein Engineering with Probe Design To Inhibit and Image Matrix Metalloproteinases with Controlled Specificity

(2013) Montse Morell et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

On Terminal Alkynes That Can React with Active-Site Cysteine Nucleophiles in Proteases

(2013) Reggy Ekkebus et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Deubiquitination of Tip60 by USP7 Determines the Activity of the p53-Dependent Apoptotic Pathway

(2013) Ashraf Dar et al.   MOLECULAR AND CELLULAR BIOLOGY

Dehydroalanine-Based Diubiquitin Activity Probes

(2013) Najat Haj-Yahya et al.   ORGANIC LETTERS

A Strategy for Modulation of Enzymes in the Ubiquitin System

(2013) A. Ernst et al.   SCIENCE

Early adipogenesis is regulated through USP7-mediated deubiquitination of the histone acetyltransferase TIP60

(2013) Yuan Gao et al.   Nature Communications

Reversible inactivation of deubiquitinases by reactive oxygen species in vitro and in cells

(2013) Jin-Gu Lee et al.   Nature Communications

Detection of ubiquitin–proteasome enzymatic activities in cells: Application of activity-based probes to inhibitor development

(2012) Holger B. Kramer et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH

Profiling Ubiquitin Linkage Specificities of Deubiquitinating Enzymes with Branched Ubiquitin Isopeptide Probes

(2012) Alexander Iphöfer et al.   CHEMBIOCHEM

Ubiquitin-Based Probes Prepared by Total Synthesis To Profile the Activity of Deubiquitinating Enzymes

(2012) Annemieke de Jong et al.   CHEMBIOCHEM

Discovery of Specific Inhibitors of Human USP7/HAUSP Deubiquitinating Enzyme

(2012) Céline Reverdy et al.   CHEMISTRY & BIOLOGY

Deubiquitinases Regulate the Activity of Caspase-1 and Interleukin-1β Secretion via Assembly of the Inflammasome

(2012) Gloria Lopez-Castejon et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A Simple and Effective Cleavable Linker for Chemical Proteomics Applications

(2012) Yinliang Yang et al.   MOLECULAR & CELLULAR PROTEOMICS

Deubiquitination of NLRP3 by BRCC3 Critically Regulates Inflammasome Activity

(2012) Bénédicte F. Py et al.   MOLECULAR CELL

Conformational stabilization of ubiquitin yields potent and selective inhibitors of USP7

(2012) Yingnan Zhang et al.   Nature Chemical Biology

Fluorescence-based active site probes for profiling deubiquitinating enzymes

(2012) Joanna F. McGouran et al.   ORGANIC & BIOMOLECULAR CHEMISTRY

Deubiquitinases as a Signaling Target of Oxidative Stress

(2012) Xiomaris M. Cotto-Rios et al.   Cell Reports

A General Chemical Ligation Approach Towards Isopeptide-Linked Ubiquitin and Ubiquitin-Like Assay Reagents

(2011) Paul P. Geurink et al.   CHEMBIOCHEM

Glycine Fluoromethylketones as SENP-Specific Activity Based Probes

(2011) Cristian Dobrotă et al.   CHEMBIOCHEM

Activity-Based Chemical Proteomics Accelerates Inhibitor Development for Deubiquitylating Enzymes

(2011) Mikael Altun et al.   CHEMISTRY & BIOLOGY

Development of Small Molecule Inhibitors and Probes of Human SUMO Deconjugating Proteases

(2011) Victoria E. Albrow et al.   CHEMISTRY & BIOLOGY

Inhibition of proteasome deubiquitinating activity as a new cancer therapy

(2011) Pádraig D'Arcy et al.   NATURE MEDICINE

Characterisation of the Trichinella spiralis Deubiquitinating Enzyme, TsUCH37, an Evolutionarily Conserved Proteasome Interaction Partner

(2011) Rhiannon R. White et al.   PLoS Neglected Tropical Diseases

A screen for deubiquitinating enzymes involved in the G2/M checkpoint identifies USP50 as a regulator of HSP90-dependent Wee1 stability

(2010) Bernadette Aressy et al.   CELL CYCLE

Designed Semisynthetic Protein Inhibitors of Ub/Ubl E1 Activating Enzymes

(2010) Xuequan Lu et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Trimming of Ubiquitin Chains by Proteasome-associated Deubiquitinating Enzymes

(2010) Min Jae Lee et al.   MOLECULAR & CELLULAR PROTEOMICS

Active site remodelling accompanies thioester bond formation in the SUMO E1

(2010) Shaun K. Olsen et al.   NATURE

Ubiquitin C-Terminal Electrophiles Are Activity-Based Probes for Identification and Mechanistic Study of Ubiquitin Conjugating Machinery

(2009) Kerry Routenberg Love et al.   ACS Chemical Biology

The emerging complexity of protein ubiquitination

(2009) David Komander   BIOCHEMICAL SOCIETY TRANSACTIONS

Evidence for Bidentate Substrate Binding as the Basis for the K48 Linkage Specificity of Otubain 1

(2009) Tao Wang et al.   JOURNAL OF MOLECULAR BIOLOGY

An inhibitor of NEDD8-activating enzyme as a new approach to treat cancer

(2009) Teresa A. Soucy et al.   NATURE

Breaking the chains: structure and function of the deubiquitinases

(2009) David Komander et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Activity-Based Protein Profiling: From Enzyme Chemistry to Proteomic Chemistry

(2008) Benjamin F. Cravatt et al.   Annual Review of Biochemistry

Atypical ubiquitin chains: new molecular signals. ‘Protein Modifications: Beyond the Usual Suspects’ Review Series

(2008) Fumiyo Ikeda et al.   EMBO REPORTS

Induction of the lysosomal apoptosis pathway by inhibitors of the ubiquitin-proteasome system

(2008) Maria Berndtsson et al.   INTERNATIONAL JOURNAL OF CANCER

Ubiquitin-Like Protein Involved in the Proteasome Pathway of Mycobacterium tuberculosis

(2008) M. J. Pearce et al.   SCIENCE