|Title||Comparative interactomics analysis of protein family interaction networks using PSIMAP (protein structural interactome map).|
|Publication Type||Journal Article|
|Year of Publication||2005|
|Authors||Park, D, Lee, S, Bolser, D, Schroeder, M, Lappe, M, Oh, D, Bhak, J|
|Date Published||2005 Aug 01|
|Keywords||Algorithms, Chromosome Mapping, Protein Interaction Mapping, Proteome, Sequence Alignment, Sequence Analysis, Protein, Signal Transduction, Software, Structure-Activity Relationship|
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 to have played a key role in species diversification.SUPPLEMENTARY INFORMATION: http://interactomics.org.