title: High-definition macromolecular composition of yeast RNA-processing complexes.
abstract: A remarkably large collection of evolutionarily conserved proteins has been implicated in processing of noncoding RNAs and biogenesis of ribonucleoproteins. To better define the physical and functional relationships among these proteins and their cognate RNAs, we performed 165 highly stringent affinity purifications of known or predicted RNA-related proteins from Saccharomyces cerevisiae. We systematically identified and estimated the relative abundance of stably associated polypeptides and RNA species using a combination of gel densitometry, protein mass spectrometry, and oligonucleotide microarray hybridization. Ninety-two discrete proteins or protein complexes were identified comprising 489 different polypeptides, many associated with one or more specific RNA molecules. Some of the pre-rRNA-processing complexes that were obtained are discrete sub-complexes of those previously described. Among these, we identified the IPI complex required for proper processing of the ITS2 region of the ribosomal RNA primary transcript. This study provides a high-resolution overview of the modular topology of noncoding RNA-processing machinery.
authors.affiliation: Banting and Best Department of Medical Research, University of Toronto, 112 College Street, Toronto, Ontario M5G 1L6, Canada.
authors.forename: Nevan J
authors.initials: NJ
authors.lastname: Krogan
authors.forename: Wen-Tao
authors.initials: WT
authors.lastname: Peng
authors.forename: Gerard
authors.initials: G
authors.lastname: Cagney
authors.forename: Mark D
authors.initials: MD
authors.lastname: Robinson
authors.forename: Robin
authors.initials: R
authors.lastname: Haw
authors.forename: Gouqing
authors.initials: G
authors.lastname: Zhong
authors.forename: Xinghua
authors.initials: X
authors.lastname: Guo
authors.forename: Xin
authors.initials: X
authors.lastname: Zhang
authors.forename: Veronica
authors.initials: V
authors.lastname: Canadien
authors.forename: Dawn P
authors.initials: DP
authors.lastname: Richards
authors.forename: Bryan K
authors.initials: BK
authors.lastname: Beattie
authors.forename: Atanas
authors.initials: A
authors.lastname: Lalev
authors.forename: Wen
authors.initials: W
authors.lastname: Zhang
authors.forename: Armaity P
authors.initials: AP
authors.lastname: Davierwala
authors.forename: Sanie
authors.initials: S
authors.lastname: Mnaimneh
authors.forename: Andrei
authors.initials: A
authors.lastname: Starostine
authors.forename: Aaron P
authors.initials: AP
authors.lastname: Tikuisis
authors.forename: Jorg
authors.initials: J
authors.lastname: Grigull
authors.forename: Nira
authors.initials: N
authors.lastname: Datta
authors.forename: James E
authors.initials: JE
authors.lastname: Bray
authors.forename: Timothy R
authors.initials: TR
authors.lastname: Hughes
authors.forename: Andrew
authors.initials: A
authors.lastname: Emili
authors.forename: Jack F
authors.initials: JF
authors.lastname: Greenblatt
mesh_terms: D000595:Amino Acid Sequence; D015152:Blotting, Northern; D005656:Fungal Proteins / Q000737:chemistry; D013058:Mass Spectrometry; D008954:Models, Biological; D008969:Molecular Sequence Data; D020411:Oligonucleotide Array Sequence Analysis; D011401:Promoter Regions, Genetic; D012313:RNA / Q000737:chemistry* / Q000378:metabolism; D012323:RNA Processing, Post-Transcriptional; D012335:RNA, Ribosomal / Q000378:metabolism; D012441:Saccharomyces cerevisiae / Q000235:genetics* / Q000502:physiology; D017386:Sequence Homology, Amino Acid; D013997:Time Factors
chemical_list: D005656:Fungal Proteins; D012335:RNA, Ribosomal; D012313:RNA