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Related Concept Videos

Peptide Identification Using Tandem Mass Spectrometry01:33

Peptide Identification Using Tandem Mass Spectrometry

Tandem mass spectrometry, also known as MS/MS or MS2, is an analytical technique that employs two mass analyzers. Essentially it is a series of mass spectrometers that helps isolate a particular biomolecule and then helps study its chemical properties.
This technique helps gather information regarding the protein from which the peptide was obtained and to study the peptides’ amino acid sequence. Identifying peptides from a complex mixture is an important component of the growing field of...
Protein Families02:47

Protein Families

Protein families are groups of homologous proteins; that is, they have similarities in amino acid sequences and three-dimensional structures. Protein families usually occur because of gene duplication, where an additional copy of a gene is inserted into the genome of an organism.   Mutations that change the amino acids but still allow the protein to be properly synthesized, will lead to new protein family members.   If these new proteins contain similar amino acids in key locations, protein...

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Related Experiment Video

Updated: May 11, 2026

Detection of Protein Ubiquitination Sites by Peptide Enrichment and Mass Spectrometry
11:54

Detection of Protein Ubiquitination Sites by Peptide Enrichment and Mass Spectrometry

Published on: March 23, 2020

PIUS: peptide identification by unbiased search.

Eduardo P Costa1, Gerben Menschaert, Walter Luyten

  • 1Department of Computer Science, KU Leuven, Celestijnenlaan 200A, B-3001 Heverlee, Belgium. eduardo.costa@cs.kuleuven.be

Bioinformatics (Oxford, England)
|May 28, 2013
PubMed
Summary

We developed PIUS, a novel tool for identifying natural peptides using tandem mass spectrometry and whole genome analysis. PIUS expands the search space for peptide discovery beyond traditional proteomics methods.

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Last Updated: May 11, 2026

Detection of Protein Ubiquitination Sites by Peptide Enrichment and Mass Spectrometry
11:54

Detection of Protein Ubiquitination Sites by Peptide Enrichment and Mass Spectrometry

Published on: March 23, 2020

Computational Prediction of Amino Acid Preferences of Potentially Multispecific Peptide-Binding Domains Involved in Protein-Protein Interactions
06:50

Computational Prediction of Amino Acid Preferences of Potentially Multispecific Peptide-Binding Domains Involved in Protein-Protein Interactions

Published on: January 26, 2024

Area of Science:

  • Biochemistry
  • Bioinformatics
  • Genomics

Background:

  • Tandem mass spectrometry is crucial for peptide identification.
  • Genome-wide analysis offers a broader scope for discovering novel peptides.
  • Existing peptidomics tools have limitations in search space and application.

Purpose of the Study:

  • To introduce PIUS, a new computational tool for peptide identification.
  • To enable natural peptide discovery directly from complete genome sequences.
  • To overcome limitations of current peptidomics approaches.

Main Methods:

  • PIUS analyzes the six-frame translation of a complete genome.
  • It processes tandem mass spectrometry data for peptide matching.
  • The tool is designed for natural peptide identification, not solely proteomics.

Main Results:

  • PIUS identifies peptides by searching an extensive genomic sequence space.
  • It offers a distinct approach compared to methods relying on de novo reconstructions.
  • The tool facilitates broader natural peptide discovery.

Conclusions:

  • PIUS provides a powerful new method for identifying natural peptides from genomic data.
  • Its expanded search space and focus on natural peptides advance the field of peptidomics.
  • The tool is freely available for research use.