A protein complex network of Drosophila melanogaster.
Determining the composition of protein complexes is an essential step toward understanding the cell as an integrated system. Using coaffinity purification coupled to mass spectrometry analysis, we examined protein associations involving nearly 5,000 individual, FLAG-HA epitope-tagged Drosophila proteins. Stringent analysis of these data, based on a statistical framework designed to define individual protein-protein interactions, led to the generation of a Drosophila protein interaction map (DPiM) encompassing 556 protein complexes. The high quality of the DPiM and its usefulness as a paradigm for metazoan proteomes are apparent from the recovery of many known complexes, significant enrichment for shared functional attributes, and validation in human cells. The DPiM defines potential novel members for several important protein complexes and assigns functional links to 586 protein-coding genes lacking previous experimental annotation. The DPiM represents, to our knowledge, the largest metazoan protein complex map and provides a valuable resource for analysis of protein complex evolution.
Department of Cell Biology, Harvard Medical School, Boston, MA 02115, USA.
K G
KG
Guruharsha
Jean-François
JF
Rual
Bo
B
Zhai
Julian
J
Mintseris
Pujita
P
Vaidya
Namita
N
Vaidya
Chapman
C
Beekman
Christina
C
Wong
David Y
DY
Rhee
Odise
O
Cenaj
Emily
E
McKillip
Saumini
S
Shah
Mark
M
Stapleton
Kenneth H
KH
Wan
Charles
C
Yu
Bayan
B
Parsa
Joseph W
JW
Carlson
Xiao
X
Chen
Bhaveen
B
Kapadia
K
K
VijayRaghavan
Steven P
SP
Gygi
Susan E
SE
Celniker
Robert A
RA
Obar
Spyros
S
Artavanis-Tsakonas
D000818:Animals; D029721:Drosophila Proteins / Q000235:genetics / Q000378:metabolism*; D004331:Drosophila melanogaster / Q000378:metabolism*; D046988:Proteasome Endopeptidase Complex / Q000378:metabolism; D025941:Protein Interaction Mapping; D040901:Proteomics; D050600:SNARE Proteins / Q000378:metabolism
D029721:Drosophila Proteins; D050600:SNARE Proteins; D046988:Proteasome Endopeptidase Complex