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The Roles of Post-translational Modifications in the Context of Protein Interaction Networks

Among other effects, post-translational modifications (PTMs) have been shown to exert their function via the modulation of protein-protein interactions. For twelve different main PTM-types and associated subtypes and across 9 diverse species, we investigated whether particular PTM-types are associat...

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Autores principales: Duan, Guangyou, Walther, Dirk
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2015
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4333291/
https://www.ncbi.nlm.nih.gov/pubmed/25692714
http://dx.doi.org/10.1371/journal.pcbi.1004049
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author Duan, Guangyou
Walther, Dirk
author_facet Duan, Guangyou
Walther, Dirk
author_sort Duan, Guangyou
collection PubMed
description Among other effects, post-translational modifications (PTMs) have been shown to exert their function via the modulation of protein-protein interactions. For twelve different main PTM-types and associated subtypes and across 9 diverse species, we investigated whether particular PTM-types are associated with proteins with specific and possibly “strategic” placements in the network of all protein interactions by determining informative network-theoretic properties. Proteins undergoing a PTM were observed to engage in more interactions and positioned in more central locations than non-PTM proteins. Among the twelve considered PTM-types, phosphorylated proteins were identified most consistently as being situated in central network locations and with the broadest interaction spectrum to proteins carrying other PTM-types, while glycosylated proteins are preferentially located at the network periphery. For the human interactome, proteins undergoing sumoylation or proteolytic cleavage were found with the most characteristic network properties. PTM-type-specific protein interaction network (PIN) properties can be rationalized with regard to the function of the respective PTM-carrying proteins. For example, glycosylation sites were found enriched in proteins with plasma membrane localizations and transporter or receptor activity, which generally have fewer interacting partners. The involvement in disease processes of human proteins undergoing PTMs was also found associated with characteristic PIN properties. By integrating global protein interaction networks and specific PTMs, our study offers a novel approach to unraveling the role of PTMs in cellular processes.
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spelling pubmed-43332912015-02-24 The Roles of Post-translational Modifications in the Context of Protein Interaction Networks Duan, Guangyou Walther, Dirk PLoS Comput Biol Research Article Among other effects, post-translational modifications (PTMs) have been shown to exert their function via the modulation of protein-protein interactions. For twelve different main PTM-types and associated subtypes and across 9 diverse species, we investigated whether particular PTM-types are associated with proteins with specific and possibly “strategic” placements in the network of all protein interactions by determining informative network-theoretic properties. Proteins undergoing a PTM were observed to engage in more interactions and positioned in more central locations than non-PTM proteins. Among the twelve considered PTM-types, phosphorylated proteins were identified most consistently as being situated in central network locations and with the broadest interaction spectrum to proteins carrying other PTM-types, while glycosylated proteins are preferentially located at the network periphery. For the human interactome, proteins undergoing sumoylation or proteolytic cleavage were found with the most characteristic network properties. PTM-type-specific protein interaction network (PIN) properties can be rationalized with regard to the function of the respective PTM-carrying proteins. For example, glycosylation sites were found enriched in proteins with plasma membrane localizations and transporter or receptor activity, which generally have fewer interacting partners. The involvement in disease processes of human proteins undergoing PTMs was also found associated with characteristic PIN properties. By integrating global protein interaction networks and specific PTMs, our study offers a novel approach to unraveling the role of PTMs in cellular processes. Public Library of Science 2015-02-18 /pmc/articles/PMC4333291/ /pubmed/25692714 http://dx.doi.org/10.1371/journal.pcbi.1004049 Text en © 2015 Duan, Walther http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited.
spellingShingle Research Article
Duan, Guangyou
Walther, Dirk
The Roles of Post-translational Modifications in the Context of Protein Interaction Networks
title The Roles of Post-translational Modifications in the Context of Protein Interaction Networks
title_full The Roles of Post-translational Modifications in the Context of Protein Interaction Networks
title_fullStr The Roles of Post-translational Modifications in the Context of Protein Interaction Networks
title_full_unstemmed The Roles of Post-translational Modifications in the Context of Protein Interaction Networks
title_short The Roles of Post-translational Modifications in the Context of Protein Interaction Networks
title_sort roles of post-translational modifications in the context of protein interaction networks
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4333291/
https://www.ncbi.nlm.nih.gov/pubmed/25692714
http://dx.doi.org/10.1371/journal.pcbi.1004049
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