@article {18505562,
	title = {Prediction of enzyme function by combining sequence similarity and protein interactions},
	journal = {BMC Bioinformatics},
	volume = {9},
	year = {2008},
	note = {Espadaler, Jordi Eswar, Narayanan Querol, Enrique Aviles, Francesc X Sali, Andrej Marti-Renom, Marc A Oliva, Baldomero GM54762/GM/NIGMS NIH HHS/United States GM71790/GM/NIGMS NIH HHS/United States GM74929/GM/NIGMS NIH HHS/United States GM74945/GM/NIGMS NIH HHS/United States Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov{\textquoteright}t England BMC bioinformatics BMC Bioinformatics. 2008 May 27;9:249.},
	pages = {249},
	abstract = {BACKGROUND: A number of studies have used protein interaction data alone for protein function prediction. Here, we introduce a computational approach for annotation of enzymes, based on the observation that similar protein sequences are more likely to perform the same function if they share similar interacting partners. RESULTS: The method has been tested against the PSI-BLAST program using a set of 3,890 protein sequences from which interaction data was available. For protein sequences that align with at least 40\% sequence identity to a known enzyme, the specificity of our method in predicting the first three EC digits increased from 80\% to 90\% at 80\% coverage when compared to PSI-BLAST. CONCLUSION: Our method can also be used in proteins for which homologous sequences with known interacting partners can be detected. Thus, our method could increase 10\% the specificity of genome-wide enzyme predictions based on sequence matching by PSI-BLAST alone.},
	keywords = {Amino Acid *Software Structure-Activity Relationship Substrate Specificity/genetics, Amino Acid Sequence/physiology Databases, Automated Predictive Value of Tests Protein Interaction Mapping Proteins/analysis/metabolism Sequence Alignment Sequence Analysis, Protein *Sequence Homology, Protein Enzymes/analysis/*metabolism Fuzzy Logic Pattern Recognition},
	url = {http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve\&db=PubMed\&dopt=Citation\&list_uids=18505562},
	author = {Espadaler, J. and Eswar, N. and Querol, E. and Aviles, F. X. and Sali, A. and M. A. Marti-Renom and Oliva, B.}
}
