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. 2024 Sep;15(3):545-559.
doi: 10.1007/s42485-024-00156-6. Epub 2024 Jun 28.

Progress in mass spectrometry approaches to profiling protein-protein interactions in the studies of the innate immune system

Doeun Kim  1 , Aleksandra Nita-Lazar  1
Affiliations

Progress in mass spectrometry approaches to profiling protein-protein interactions in the studies of the innate immune system

Doeun Kim et al. J Proteins Proteom. 2024 Sep.

Abstract

Understanding protein-protein interactions (PPIs) is pivotal for deciphering the intricacies of biological processes. Dysregulation of PPIs underlies a spectrum of diseases, including cancer, neurodegenerative disorders, and autoimmune conditions, highlighting the imperative of investigating these interactions for therapeutic advancements. This review delves into the realm of mass spectrometry-based techniques for elucidating PPIs and their profound implications in biological research. Mass spectrometry in the PPI research field not only facilitates the evaluation of protein-protein interaction modulators but also discovers unclear molecular mechanisms and sheds light on both on- and off-target effects, thus aiding in drug development. Our discussion navigates through six pivotal techniques: affinity purification mass spectrometry (AP-MS), proximity labeling mass spectrometry (PL-MS), cross-linking mass spectrometry (XL-MS), size exclusion chromatography coupled with mass spectrometry (SEC-MS), limited proteolysis-coupled mass spectrometry (LiP-MS), and thermal proteome profiling (TPP).

Keywords: Affinity purification mass spectrometry (AP-MS); Cross-linking mass spectrometry (XL-MS); Limited proteolysis-coupled mass spectrometry (LiP-MS); Protein–protein interactions; Proximity labeling mass spectrometry (PL-MS); Size exclusion chromatography coupled with mass spectrometry (SEC-MS); Thermal proteome profiling (TPP).

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Conflict of interest statement

Declarations Conflict of interest The authors declare no competing interests.

Figures

Fig. 1
Fig. 1
Overview of mass spectrometry-based techniques for protein–protein interactions (PPIs) study
Fig. 2
Fig. 2
Workflows for affinity purification mass spectrometry (AP-MS), proximity labeling mass spectrometry (PL-MS), and cross-linking mass spectrometry (XL-MS)
Fig. 3
Fig. 3
Workflows for size exclusion chromatography coupled with mass spectrometry (SEC-MS), limited proteolysis-coupled mass spectrometry (LiP-MS) and thermal proteome profiling (TPP)
See this image and copyright information in PMC

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