Comparative interactomics analysis of protein family interaction networks using PSIMAP (protein structural interactome map)

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Title
Comparative interactomics analysis of protein family interaction networks using PSIMAP (protein structural interactome map)
Author(s)
D Park; S Lee; D Bolser; M Schroeder; M Lappe; D Oh; Jong Bhak
Bibliographic Citation
Bioinformatics, vol. 21, no. 15, pp. 3234-3240
Publication Year
2005
Abstract
Motivation: Many genomes have been completely sequenced. However, detecting and analyzing their protein-protein interactions by experimental methods such as co-immunoprecipitation, tandem affinity purification and Y2H is not as fast as genome sequencing. Therefore, a computational prediction method based on the known protein structural interactions will be useful to analyze large-scale protein-protein interaction rules within and among complete genomes. Results: We confirmed that all the predicted protein family interactomes (the full set of protein family interactions within a proteome) of 146 species are scale-free networks, and they share a small core network comprising 36 protein families related to indispensable cellular functions. We found two fundamental differences among prokaryotic and eukaryotic interactomes: (1) eukarya had significantly more hub families than archaea and bacteria and (2) certain special hub families determined the topology of the eukaryotic interactomes. Our comparative analysis suggests that a very small number of expansive protein families led to the evolution of interactomes and seemed tohave played a key role in species diversification.
ISSN
1367-4803
Publisher
Oxford Univ Press
DOI
http://dx.doi.org/10.1093/bioinformatics/bti512
Type
Article
Appears in Collections:
1. Journal Articles > Journal Articles
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