Inferring protein domain interactions from databases of interacting proteins.
We describe domain pair exclusion analysis (DPEA), a method for inferring domain interactions from databases of interacting proteins. DPEA features a log odds score, Eij, reflecting confidence that domains i and j interact. We analyzed 177,233 potential domain interactions underlying 26,032 protein interactions. In total, 3,005 high-confidence domain interactions were inferred, and were evaluated using known domain interactions in the Protein Data Bank. DPEA may prove useful in guiding experiment-based discovery of previously unrecognized domain interactions.
Riley
Robert
R
Department of Human Genetics, David Geffen School of Medicine, University of California Los Angeles, CA 90095, USA. riley@mbi.ucla.edu
Lee
Christopher
C
Sabatti
Chiara
C
Eisenberg
David
D
D000818:Animals; D030562:Databases, Protein; D020962:Heterotrimeric GTP-Binding Proteins / Q000737:chemistry / Q000378:metabolism; D006801:Humans; D008958:Models, Molecular; D011485:Protein Binding; D025941:Protein Interaction Mapping; D017434:Protein Structure, Tertiary; D011506:Proteins / Q000737:chemistry* / Q000378:metabolism*; D016283:Proto-Oncogene Proteins p21(ras) / Q000737:chemistry / Q000378:metabolism
D011506:Proteins; D020962:Heterotrimeric GTP-Binding Proteins; D016283:Proto-Oncogene Proteins p21(ras)