Pep2Graph: A standalone tool to analyse proteolytic cleavages by proteases from gel-based mass spectrometry data.

Peptide Hydrolases / metabolism Proteolysis Proteomics / methods Tandem Mass Spectrometry / methods Proteins / metabolism Endopeptidases / metabolism
PROTOMAP peptides peptograph proteases

Journal

Proteomics
ISSN: 1615-9861
Titre abrégé: Proteomics
Pays: Germany
ID NLM: 101092707

Informations de publication

Date de publication:
11 2022
Historique:
revised: 14 07 2022
received: 11 04 2022
accepted: 28 07 2022
pubmed: 5 8 2022
medline: 25 11 2022
entrez: 4 8 2022
Statut: ppublish

Résumé

Proteases are enzymes that regulate substrates via proteolytic activation and coordinate essential cellular functions including DNA replication, DNA transcription, cell proliferation, differentiation, migration and apoptosis. However, techniques to identify proteolytic events in a high-throughput manner is limited. PROtein TOpography and Migration Analysis Platform (PROTOMAP) is a technique that relies on mass spectrometry-based proteomics to globally identify the shifts in the in-gel migration of proteins and their corresponding fragments that are obtained by proteolysis. However, user-friendly software tool to analyse the proteomic data to identify proteolytic events is needed. Here, we report Pep2Graph, a user-friendly standalone tool that integrates peptide sequence information from in-gel proteomics and presents the data as two-dimensional peptographs with in-gel migration, sequence coverage and MS/MS spectra counts. Pep2Graph (http://www.mathivananlab.org/Pep2Graph) allows users to utilize in-gel proteomics data to study proteolytic events that may play a significant role in normal physiology and pathology.

Identifiants

DOI: 10.1002/pmic.202200147 PMID: 35924633
pubmed: 35924633
doi: 10.1002/pmic.202200147
doi:

Substances chimiques

Peptide Hydrolases EC 3.4.-
Proteins 0
Endopeptidases EC 3.4.-

Types de publication

Journal Article Research Support, Non-U.S. Gov't

Langues

eng

Sous-ensembles de citation

IM

Pagination

e2200147

Informations de copyright

© 2022 The Authors. Proteomics published by Wiley-VCH GmbH.

Références

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Auteurs

Sriram Gummadi (S)

Department of Biochemistry, La Trobe Institute for Molecular Sciences, La Trobe University, Melbourne, Victoria, Australia.

Taeyoung Kang (T)

Department of Biochemistry, La Trobe Institute for Molecular Sciences, La Trobe University, Melbourne, Victoria, Australia.

Pamali Fonseka (P)

Department of Biochemistry, La Trobe Institute for Molecular Sciences, La Trobe University, Melbourne, Victoria, Australia.

Sai V Chitti (SV)

Department of Biochemistry, La Trobe Institute for Molecular Sciences, La Trobe University, Melbourne, Victoria, Australia.

Ching-Seng Ang (CS)

The Bio21 Molecular Science and Biotechnology Institute, The University of Melbourne, Parkville, Victoria, Australia.

Suresh Mathivanan (S)

Department of Biochemistry, La Trobe Institute for Molecular Sciences, La Trobe University, Melbourne, Victoria, Australia.
ORCID: 0000-0002-7290-5795

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Classifications MeSH

questionsmedicales.fr › Enzymes et coenzymes › Enzymes › Hydrolases › Peptide hydrolases › Pep2Graph: A standalone tool to analyse...
questionsmedicales.fr › Métabolisme › Protéolyse › Pep2Graph: A standalone tool to analyse...
questionsmedicales.fr › Disciplines des sciences naturelles › Chimie › Biochimie › Protéomique › Pep2Graph: A standalone tool to analyse...
questionsmedicales.fr › Techniques d'investigation › Techniques de chimie analytique › Spectrométrie de masse › Spectrométrie de masse en tandem › Pep2Graph: A standalone tool to analyse...
questionsmedicales.fr › Acides aminés, peptides et protéines › Protéines › Pep2Graph: A standalone tool to analyse...
questionsmedicales.fr › Enzymes et coenzymes › Enzymes › Hydrolases › Peptide hydrolases › Endopeptidases › Pep2Graph: A standalone tool to analyse...