The elusive yeast interactome

Table 1 Comparison of two projects aimed at determining the number of protein complexes in S. cerevisiae

	Gavin et al. [1]	Krogan et al. [2]
Number of proteins TAP-targeted	6,466	?
TAP fusion expression/purification attempts	3,206	4,562
Successful purifications	?	2,357*
Proteins with more than zero partners	1,993	?
Distinct proteins identified	2,760	4,087 (2,708 in core set)
'Distinct' complexes identified^†	491	547
Average number of proteins per complex	3.1 (core proteins)	4.9

*At least one protein was identified in each of these purifications; 1,613 baits were successfully analyzed using SDS-PAGE and matrix-assisted laser desorption ionization mass spectrometry (MALDI) and 2,001 baits by liquid chromatography followed by tandem mass spectrometry (LC-MS/MS); 1,257 purifications were successful using both, 356 using only MALDI and 744 using only LC-MS/MS. ^†Note that these are not necessarily distinct physical complexes but computationally derived complexes. A question mark indicates that a number for this was not given in the article.

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