Activity-based proteomic and metabolomic approaches for understanding metabolism

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.

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

“…As an untargeted approach to gain a broad overview of the complexity of plant metabolic composition, the technology has, in a short time, made significant inroads into helping expand our knowledge of plant biochemistry (Kueger et al, 2012;Etalo et al, 2013;Hunerdosse and Nomura, 2014;Meret et al, 2014). Typically, rich metabolomics data sets already provide us with a valuable means to generate hypotheses relating to plant metabolism, which then become the focus of further, more direct investigation (Quanbeck et al, 2012).…”

Chemical Methods for Probing Virus–Host Proteomic Interactions

“…109 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 mock infected cells. HCMV is known to stimulate glucose uptake in fibroblasts, 113 although the precise effects on intracellular carbon metabolism was not known.…”

Virtual screening: An in silico tool for interlacing the chemical universe with the proteome

“…The direct methods use a molecule of interest as tool to identify and isolate a target based on binding affinity and interaction [57]. They include wet-lab chemical proteomics approaches like affinity chromatography and activity-based profiling (reviewed in [6,58]) and in silico IVS (see below). A general trend is that activity-based profiling is becoming predominant over target-based wet-lab approaches [59].…”