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Related Concept Videos

The Proteasome02:18

The Proteasome

Eukaryotic cells can degrade proteins through several pathways. One of the most important amongst these is the ubiquitin-proteasome pathway. It helps the cell eliminate the misfolded, damaged, or unwarranted cytoplasmic proteins in a highly specific manner.
In this pathway, the target proteins are first tagged with small proteins called ubiquitin. A series of enzymes carry out the ubiquitination of the target proteins - E1 (ubiquitin-activating enzyme), E2 (ubiquitin-conjugating enzyme), and E3...
The Proteasome01:13

The Proteasome

Eukaryotic cells can degrade proteins through several pathways. One of the most important among these is the ubiquitin-proteasome pathway. It helps the cell eliminate the misfolded, damaged, or unwarranted cytoplasmic proteins in a highly specific manner.
In this pathway, the target proteins are first tagged with small proteins called ubiquitin. This involves participation of a series of enzymes including— E1 (ubiquitin-activating enzyme), E2 (ubiquitin-conjugating enzyme), and E3 (ubiquitin...
The Proteasome02:18

The Proteasome

Eukaryotic cells can degrade proteins through several pathways. One of the most important amongst these is the ubiquitin-proteasome pathway. It helps the cell eliminate the misfolded, damaged, or unwarranted cytoplasmic proteins in a highly specific manner.
In this pathway, the target proteins are first tagged with small proteins called ubiquitin. A series of enzymes carry out the ubiquitination of the target proteins - E1 (ubiquitin-activating enzyme), E2 (ubiquitin-conjugating enzyme), and E3...
Proteins: From Genes to Degradation02:11

Proteins: From Genes to Degradation

Within a biological system, the DNA encodes the RNA, and the nucleotide sequence in the RNA further defines the amino acid sequence in the protein. This is referred to as “The Central Dogma of Molecular Biology” - a term coined by Francis Crick.  Central dogma is a firm principle in biology that defines the flow of genetic information within any life form. The two fundamental steps in central dogma are - transcription and translation.
Transcription is the synthesis of RNA molecules by RNA...
Proteins: From Genes to Degradation02:11

Proteins: From Genes to Degradation

Within a biological system, the DNA encodes the RNA, and the nucleotide sequence in the RNA further defines the amino acid sequence in the protein. This is referred to as “The Central Dogma of Molecular Biology” - a term coined by Francis Crick.  Central dogma is a firm principle in biology that defines the flow of genetic information within any life form. The two fundamental steps in central dogma are - transcription and translation.
Transcription is the synthesis of RNA molecules by RNA...
The Proteasome Structure01:17

The Proteasome Structure

The ubiquitin-proteasome pathway is a well-known mechanism utilized by eukaryotic cells to remove cytoplasmic proteins that are misfolded, damaged, or no longer needed. In this pathway, the protein that needs to be eliminated undergoes a process called ubiquitination, where a chain of ubiquitin molecules is attached to the 48th lysine residue of the target protein. This ubiquitin modification helps the proteasome distinguish between a target protein and a healthy protein.
The proteasome is an...

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High-Throughput Cellular Profiling of Targeted Protein Degradation Compounds Using HiBiT CRISPR Cell Lines
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High-Throughput Cellular Profiling of Targeted Protein Degradation Compounds Using HiBiT CRISPR Cell Lines

Published on: November 9, 2020

MS-driven protease substrate degradomics.

Francis Impens1, Niklaas Colaert, Kenny Helsens

  • 1Department of Medical Protein Research, VIB, Ghent, Belgium.

Proteomics
|January 9, 2010
PubMed
Summary
This summary is machine-generated.

Proteolytic processing, crucial for cell function, is increasingly studied using mass spectrometry (MS)-driven proteomics. This review covers promising techniques and bioinformatics challenges for analyzing protease substrates.

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Last Updated: Jun 17, 2026

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The Determination of Protease Specificity in Mouse Tissue Extracts by MALDI-TOF Mass Spectrometry: Manipulating PH to Cause Specificity Changes
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Published on: May 25, 2018

Area of Science:

  • Biochemistry
  • Cell Biology
  • Proteomics

Background:

  • Proteolytic processing plays a key role in signal propagation and cellular differentiation.
  • Irreversible protein cleavage marks committed steps in cellular functions.
  • Recent advancements have significantly improved the characterization of protease substrates.

Purpose of the Study:

  • To review promising mass spectrometry (MS)-driven proteomics techniques for characterizing protease substrates.
  • To discuss the bioinformatics challenges associated with qualitative MS-driven degradome studies.

Main Methods:

  • Shotgun proteomics techniques.
  • Targeted proteomics techniques.
  • Mass spectrometry (MS)-driven approaches for degradome analysis.

Main Results:

  • Detailed characterization of protease substrates has become a rapidly advancing area.
  • MS-driven proteomics offers powerful tools for identifying protein cleavage sites.
  • Bioinformatics tools are essential for interpreting complex degradome data.

Conclusions:

  • Protease substrate identification is vital for understanding cellular processes.
  • MS-driven proteomics techniques are revolutionizing the study of proteolytic processing.
  • Addressing bioinformatics challenges is key to advancing degradome research.