Proteome survey reveals modularity of the yeast cell machinery.
Protein complexes are key molecular entities that integrate multiple gene products to perform cellular functions. Here we report the first genome-wide screen for complexes in an organism, budding yeast, using affinity purification and mass spectrometry. Through systematic tagging of open reading frames (ORFs), the majority of complexes were purified several times, suggesting screen saturation. The richness of the data set enabled a de novo characterization of the composition and organization of the cellular machinery. The ensemble of cellular proteins partitions into 491 complexes, of which 257 are novel, that differentially combine with additional attachment proteins or protein modules to enable a diversification of potential functions. Support for this modular organization of the proteome comes from integration with available data on expression, localization, function, evolutionary conservation, protein structure and binary interactions. This study provides the largest collection of physically determined eukaryotic cellular machines so far and a platform for biological data integration and modelling.
Gavin
Anne-Claude
AC
Cellzome AG, Meyerhofstrasse 1, 69117 Heidelberg, Germany.
Aloy
Patrick
P
Grandi
Paola
P
Krause
Roland
R
Boesche
Markus
M
Marzioch
Martina
M
Rau
Christina
C
Jensen
Lars Juhl
LJ
Bastuck
Sonja
S
Dümpelfeld
Birgit
B
Edelmann
Angela
A
Heurtier
Marie-Anne
MA
Hoffman
Verena
V
Hoefert
Christian
C
Klein
Karin
K
Hudak
Manuela
M
Michon
Anne-Marie
AM
Schelder
Malgorzata
M
Schirle
Markus
M
Remor
Marita
M
Rudi
Tatjana
T
Hooper
Sean
S
Bauer
Andreas
A
Bouwmeester
Tewis
T
Casari
Georg
G
Drewes
Gerard
G
Neubauer
Gitte
G
Rick
Jens M
JM
Kuster
Bernhard
B
Bork
Peer
P
Russell
Robert B
RB
Superti-Furga
Giulio
G
D016681:Genome, Fungal; D046912:Multiprotein Complexes / Q000737:chemistry / Q000235:genetics / Q000378:metabolism; D016366:Open Reading Frames / Q000235:genetics; D010641:Phenotype; D020543:Proteome / Q000737:chemistry / Q000235:genetics / Q000378:metabolism*; D040901:Proteomics; D012441:Saccharomyces cerevisiae / Q000166:cytology* / Q000235:genetics / Q000378:metabolism*; D029701:Saccharomyces cerevisiae Proteins / Q000737:chemistry / Q000235:genetics / Q000378:metabolism*
D046912:Multiprotein Complexes; D020543:Proteome; D029701:Saccharomyces cerevisiae Proteins