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Proteomics

Proteomics

A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
Proteomics is the study of proteomes' function. It involves the large-scale systematic study of the proteome to denote the protein complement expressed by a genome. Scientist Mark Wilkins coined the term...

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Updated: Dec 12, 2025

Detection of Protein Ubiquitination Sites by Peptide Enrichment and Mass Spectrometry

Detection of Protein Ubiquitination Sites by Peptide Enrichment and Mass Spectrometry

Published on: March 23, 2020

Protein engineering for selective proteomics.

Katarzyna Radziwon¹, Amy M Weeks¹

¹Department of Biochemistry, University of Wisconsin-Madison, Madison, WI, 53706, USA.

Current Opinion in Chemical Biology

|August 10, 2020

Summary

This summary is machine-generated.

Engineered proteins offer new ways to study protein subpopulations, improving our understanding of cell functions and responses. These tools enable detailed mapping of the proteome for biological research.

Keywords:

Bioorthogonal chemistry Enzymatic capture Post-translational modifications Protein engineering Proteomics Proximity tagging

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Area of Science:

Proteomics
Molecular Biology
Biochemistry

Background:

Living systems utilize functionally distinct protein subpopulations for rapid responses.
Analyzing these subproteomes is challenging due to spatial and abundance limitations.
Engineered proteins offer precise molecular recognition and genetic targetability for selective proteomics.

Purpose of the Study:

To review recent advancements in engineered proteins for selective subproteome analysis.
To highlight applications in studying post-translational modifications, protein complexes, subcellular localization, and cell types.
To discuss challenges and future directions for integrating engineered protein tools in systems-level proteomics.

Main Methods:

Focus on engineered protein tools for selective proteomics.
Review of new developments in protein engineering strategies.
Discussion of applications across various subproteome scales.

Main Results:

Engineered proteins are effective tools for selective analysis of transient and low-abundance protein species.
Advancements allow for detailed mapping of post-translational modifications, protein complexes, subcellular compartments, and cell types.
Integration of these tools promises unprecedented depth and detail in proteome mapping.

Conclusions:

Engineered proteins are crucial for advancing selective proteomics.
Further integration of these tools will enhance systems-level understanding of proteomes.
Future opportunities lie in applying these tools across diverse subproteome scales for comprehensive mapping.