Architecture of the S. cerevisiae SAGA transcription coactivator complex

(Note: With the exception of the correction of typographical or spelling errors that could be a source of ambiguity, letters and reports are not edited. The original formatting of letters and referee reports may not be reflected in this compilation.) Thank you for submitting your manuscript "Architecture of the S. cerevisiae SAGA transcription coactivator complex" for consideration to the EMBO Journal. We have now received comments of three expert referees that you will find pasted below. I am pleased to inform you that all of the referees find your results of interest and importance. Pending adequate addressing of a limited number of specific concerns, we shall therefore be happy to consider a revised version of your manuscript further for publication in The EBMO Journal. The referees' comments appear constructive and self-explanatory, and I will not repeat them in detail here. In terms of additional experimental work, referee #1 suggests to use a more conservative/minimal Sgf73 N-terminal mutation to more specifically assess the selective effect of the absence of the DUB module independently of interfering with the core of the SAGA complex. Moreover, referees #1 and #2 (and referee #3 in more general terms) concur that the description and quality assessment of crosslinks, including minimum requirements for cross-link identification, peptide length and maximum mass errors for MS1 and MS2 etc., should be very clearly listed. Referee #3 most clearly articulates which experimental and technical parameters should be mentioned or reconsidered. This pertains also to the unexpected low number of crosslinks with the DUB module subunits, for which referee #1 requests quantifications of Ubp8, Sgf11 and Sus1 in the starting material to rule out more trivial explanations. Finally, while we feel that trying to potentially reconcile differences between the previous and the current models, as suggested by referee #2's insightful comments, will likely make the manuscript