Detecting protein function and protein-protein interactions from genome sequences.
A computational method is proposed for inferring protein interactions from genome sequences on the basis of the observation that some pairs of interacting proteins have homologs in another organism fused into a single protein chain. Searching sequences from many genomes revealed 6809 such putative protein-protein interactions in Escherichia coli and 45,502 in yeast. Many members of these pairs were confirmed as functionally related; computational filtering further enriches for interactions. Some proteins have links to several other proteins; these coupled links appear to represent functional interactions such as complexes or pathways. Experimentally confirmed interacting pairs are documented in a Database of Interacting Proteins.
Marcotte
E M
EM
UCLA-Department of Energy Laboratory of Structural Biology and Molecular Medicine, University of California at Los Angeles, Los Angeles, CA 90095-1570, USA.
Pellegrini
M
M
Ng
H L
HL
Rice
D W
DW
Yeates
T O
TO
Eisenberg
D
D
D000595:Amino Acid Sequence; D001426:Bacterial Proteins / Q000737:chemistry / Q000235:genetics / Q000378:metabolism / Q000502:physiology; D001665:Binding Sites; D019295:Computational Biology; D016208:Databases, Factual; D004926:Escherichia coli / Q000235:genetics; D019143:Evolution, Molecular; D005656:Fungal Proteins / Q000737:chemistry / Q000235:genetics / Q000378:metabolism; D016678:Genome; D016680:Genome, Bacterial; D016681:Genome, Fungal; D006801:Humans; D008954:Models, Biological; D011506:Proteins / Q000737:chemistry / Q000235:genetics / Q000378:metabolism / Q000502:physiology*; D017386:Sequence Homology, Amino Acid; D012689:Sequence Homology, Nucleic Acid; D013816:Thermodynamics
D001426:Bacterial Proteins; D005656:Fungal Proteins; D011506:Proteins