Identification and Quantification of Affinity-Purified Proteins with MaxQuant, Followed by the Discrimination of Nonspecific Interactions with the CRAPome Interface

Lee, Pey Yee; Low, Teck Yew

doi:10.1007/978-1-0716-3327-4_25

Cited by 2 publications

(1 citation statement)

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“…Affinity purification coupled mass spectrometry (AP-MS) stands as a formidable technology in systems biology, transforming the landscape of PPI discovery. This method harnesses mass spectrometry (MS) to enable biochemical techniques, such as affinity purification and chemical cross-linking, providing invaluable insights into proteome-wide interactions across diverse biological systems [120]. In the AP-MS workflow, the protein of interest is genetically fused to a specific tag, allowing for its identification through an affinity column designed for tag association or a specialised antibody [94].…”

Section: Affinity Purification Coupled Mass Spectrometrymentioning

confidence: 99%

Uncovering domain motif interactions using high‐throughput protein–protein interaction detection methods

Idrees,

Paudel,

Sadaf

et al. 2024

FEBS Letters

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Protein–protein interactions (PPIs) are often mediated by short linear motifs (SLiMs) in one protein and domain in another, known as domain–motif interactions (DMIs). During the past decade, SLiMs have been studied to find their role in cellular functions such as post‐translational modifications, regulatory processes, protein scaffolding, cell cycle progression, cell adhesion, cell signalling and substrate selection for proteasomal degradation. This review provides a comprehensive overview of the current PPI detection techniques and resources, focusing on their relevance to capturing interactions mediated by SLiMs. We also address the challenges associated with capturing DMIs. Moreover, a case study analysing the BioGrid database as a source of DMI prediction revealed significant known DMI enrichment in different PPI detection methods. Overall, it can be said that current high‐throughput PPI detection methods can be a reliable source for predicting DMIs.

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Section: Affinity Purification Coupled Mass Spectrometrymentioning

confidence: 99%