Literature DB >> 24594637

Activity-based proteomic and metabolomic approaches for understanding metabolism.

Devon Hunerdosse1, Daniel K Nomura2.   

Abstract

There are an increasing number of human pathologies that have been associated with altered metabolism, including obesity, diabetes, atherosclerosis, cancer, and neurodegenerative diseases. Most attention on metabolism has been focused on well-understood metabolic pathways and has largely ignored most of the biochemical pathways that operate in (patho)physiological settings, in part because of the vast landscape of uncharacterized and undiscovered metabolic pathways. One technology that has arisen to meet this challenge is activity-based protein profiling (ABPP) that uses activity-based chemical probes to broadly assess the functional states of both characterized and uncharacterized enzymes. This review will focus on how ABPP, coupled with inhibitor discovery platforms and functional metabolomic technologies, have led to discoveries that have expanded our knowledge of metabolism in health and disease.
Copyright © 2014 Elsevier Ltd. All rights reserved.

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Year:  2014        PMID: 24594637      PMCID: PMC4112020          DOI: 10.1016/j.copbio.2014.02.001

Source DB:  PubMed          Journal:  Curr Opin Biotechnol        ISSN: 0958-1669            Impact factor:   9.740


  69 in total

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Review 2.  Mechanism-based profiling of enzyme families.

Authors:  Michael J Evans; Benjamin F Cravatt
Journal:  Chem Rev       Date:  2006-08       Impact factor: 60.622

3.  Discovery metabolite profiling--forging functional connections between the proteome and metabolome.

Authors:  Alan Saghatelian; Benjamin F Cravatt
Journal:  Life Sci       Date:  2005-08-19       Impact factor: 5.037

4.  Too many roads not taken.

Authors:  Aled M Edwards; Ruth Isserlin; Gary D Bader; Stephen V Frye; Timothy M Willson; Frank H Yu
Journal:  Nature       Date:  2011-02-10       Impact factor: 49.962

5.  Discovery of PF-04457845: A Highly Potent, Orally Bioavailable, and Selective Urea FAAH Inhibitor.

Authors:  Douglas S Johnson; Cory Stiff; Scott E Lazerwith; Suzanne R Kesten; Lorraine K Fay; Mark Morris; David Beidler; Marya B Liimatta; Sarah E Smith; David T Dudley; Nalini Sadagopan; Shobha N Bhattachar; Stephen J Kesten; Tyzoon K Nomanbhoy; Benjamin F Cravatt; Kay Ahn
Journal:  ACS Med Chem Lett       Date:  2011-02-10       Impact factor: 4.345

6.  Monoacylglycerol lipase exerts dual control over endocannabinoid and fatty acid pathways to support prostate cancer.

Authors:  Daniel K Nomura; Donald P Lombardi; Jae Won Chang; Sherry Niessen; Anna M Ward; Jonathan Z Long; Heather H Hoover; Benjamin F Cravatt
Journal:  Chem Biol       Date:  2011-07-29

7.  Discovering disease-associated enzymes by proteome reactivity profiling.

Authors:  Katherine T Barglow; Benjamin F Cravatt
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Review 8.  Functional imaging of proteases: recent advances in the design and application of substrate-based and activity-based probes.

Authors:  Laura E Edgington; Martijn Verdoes; Matthew Bogyo
Journal:  Curr Opin Chem Biol       Date:  2011-11-16       Impact factor: 8.822

9.  Blockade of endocannabinoid-degrading enzymes attenuates neuropathic pain.

Authors:  S G Kinsey; J Z Long; S T O'Neal; R A Abdullah; J L Poklis; D L Boger; B F Cravatt; A H Lichtman
Journal:  J Pharmacol Exp Ther       Date:  2009-06-05       Impact factor: 4.030

10.  Oncometabolite 2-hydroxyglutarate is a competitive inhibitor of α-ketoglutarate-dependent dioxygenases.

Authors:  Wei Xu; Hui Yang; Ying Liu; Ying Yang; Ping Wang; Se-Hee Kim; Shinsuke Ito; Chen Yang; Pu Wang; Meng-Tao Xiao; Li-xia Liu; Wen-qing Jiang; Jing Liu; Jin-ye Zhang; Bin Wang; Stephen Frye; Yi Zhang; Yan-hui Xu; Qun-ying Lei; Kun-Liang Guan; Shi-min Zhao; Yue Xiong
Journal:  Cancer Cell       Date:  2011-01-18       Impact factor: 38.585

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  11 in total

1.  Fluorescent Mechanism-Based Probe for Aerobic Flavin-Dependent Enzyme Activity.

Authors:  Ian P McCulloch; James J La Clair; Matt J Jaremko; Michael D Burkart
Journal:  Chembiochem       Date:  2016-08-05       Impact factor: 3.164

2.  A strategy for dual inhibition of the proteasome and fatty acid synthase with belactosin C-orlistat hybrids.

Authors:  Mingzhao Zhu; Wayne D Harshbarger; Omar Robles; Joanna Krysiak; Kenneth G Hull; Sung Wook Cho; Robyn D Richardson; Yanyan Yang; Andres Garcia; Lindsey Spiegelman; Bianca Ramirez; Christopher T Wilson; Ju Anne Yau; James T Moore; Caitlen B Walker; James C Sacchettini; Wenshe R Liu; Stephan A Sieber; Jeffrey W Smith; Daniel Romo
Journal:  Bioorg Med Chem       Date:  2017-01-19       Impact factor: 3.641

3.  Spatially Resolved Plant Metabolomics: Some Potentials and Limitations of Laser-Ablation Electrospray Ionization Mass Spectrometry Metabolite Imaging.

Authors:  Desalegn W Etalo; Ric C H De Vos; Matthieu H A J Joosten; Robert D Hall
Journal:  Plant Physiol       Date:  2015-09-21       Impact factor: 8.340

Review 4.  Future of environmental research in the age of epigenomics and exposomics.

Authors:  Nina Holland
Journal:  Rev Environ Health       Date:  2017-03-01       Impact factor: 3.458

5.  Chemical genetics screening reveals KIAA1363 as a cytokine-lowering target.

Authors:  Devon M Hunerdosse; Patrick J Morris; David K Miyamoto; Karl J Fisher; Leslie A Bateman; Jonathan R Ghazaleh; Sharon Zhong; Daniel K Nomura
Journal:  ACS Chem Biol       Date:  2014-11-05       Impact factor: 5.100

6.  Targets Fishing and Identification of Calenduloside E as Hsp90AB1: Design, Synthesis, and Evaluation of Clickable Activity-Based Probe.

Authors:  Shan Wang; Yu Tian; Jing-Yi Zhang; Hui-Bo Xu; Ping Zhou; Min Wang; Sen-Bao Lu; Yun Luo; Min Wang; Gui-Bo Sun; Xu-Dong Xu; Xiao-Bo Sun
Journal:  Front Pharmacol       Date:  2018-05-23       Impact factor: 5.810

Review 7.  Interrogating Plant-Microbe Interactions with Chemical Tools: Click Chemistry Reagents for Metabolic Labeling and Activity-Based Probes.

Authors:  Vivian S Lin
Journal:  Molecules       Date:  2021-01-05       Impact factor: 4.411

Review 8.  Advancing understanding of microbial bioenergy conversion processes by activity-based protein profiling.

Authors:  Yun Liu; James K Fredrickson; Natalie C Sadler; Premchendar Nandhikonda; Richard D Smith; Aaron T Wright
Journal:  Biotechnol Biofuels       Date:  2015-09-25       Impact factor: 6.040

9.  Activity-based protein profiling of rice (Oryza sativa L.) bran serine hydrolases.

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Journal:  Sci Rep       Date:  2020-09-16       Impact factor: 4.379

10.  A Toolbox for Diverse Oxyfunctionalisation of Monoterpenes.

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Journal:  Sci Rep       Date:  2018-09-26       Impact factor: 4.379

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