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Issue 3, 2012
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Promiscuous domains: facilitating stability of the yeast proteinprotein interaction network

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Abstract

Domain–domain interactions are a critical type of the mechanisms mediating proteinprotein interactions (PPIs). For a given protein domain, its ability to combine with distinct domains is usually referred to as promiscuity or versatility. Interestingly, a previous study has reported that a domain's promiscuity may reflect its ability to interact with other domains in human proteins. In this work, promiscuous domains were first identified from the yeast genome. Then, we sought to determine what roles promiscuous domains might play in the PPI network. Mapping the promiscuous domains onto the proteins in this network revealed that, consistent with the previous knowledge, the hub proteins were significantly enriched with promiscuous domains. We also found that the set of hub proteins were not the same set as those proteins with promiscuous domains, although there was some overlap. Analysis of the topological properties of this yeast PPI network showed that the characteristic path length of the network increased significantly after deleting proteins with promiscuous domains. This indicated that communication between two proteins was longer and the network stability decreased. These observations suggested that, as the hub proteins, proteins with promiscuous domains might play a role in maintaining network stability. In addition, functional analysis revealed that proteins with promiscuous domains mainly participated in the “Folding, Sorting, and Degradation” and “Replication and Repair” biological pathways, and that they significantly execute key molecular functions, such as “nucleoside-triphosphatase activity (GO:0017111).”

Graphical abstract: Promiscuous domains: facilitating stability of the yeast protein–protein interaction network

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Publication details

The article was received on 08 Sep 2011, accepted on 18 Nov 2011 and first published on 14 Dec 2011


Article type: Paper
DOI: 10.1039/C1MB05364G
Citation: Mol. BioSyst., 2012,8, 766-771
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    Promiscuous domains: facilitating stability of the yeast proteinprotein interaction network

    E. Pang, T. Tan and K. Lin, Mol. BioSyst., 2012, 8, 766
    DOI: 10.1039/C1MB05364G

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