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DataSet Summary

  • HostingRepository: PRIDE
  • AnnounceDate: 2018-03-14
  • AnnouncementXML: Submission_2018-05-23_02:01:24.xml
  • DigitalObjectIdentifier:
  • ReviewLevel: Peer-reviewed dataset
  • DatasetOrigin: Original data
  • RepositorySupport: Unsupported dataset by repository
  • PrimarySubmitter: Cosmin Saveanu
  • Title: Quantitative proteomics of affinity purified yeast NMD complexes
  • Description: Nonsense-mediated mRNA decay (NMD) is a major translation-dependent RNA degradation pathway required for embryo development and telomere maintenance. Core NMD factors Upf1, Upf2 and Upf3 are conserved from yeast to mammals but a model of the NMD machinery compatible with all eukaryotes is not yet available. We performed the first large-scale quantitative characterization of yeast NMD complexes through affinity purification and mass-spectrometry with 7 different NMD-related factors, with or without Rnase, in strains deleted or not for NMD genes. This extensive characterization of NMD complexes identified two distinct complexes associated with Upf1: Detector (Upf1/2/3) and Effector. Effector contained, in addition to Upf1, the mRNA decapping enzyme and two potential equivalents of mammalian Smg6/5/7: Nmd4 and Ebs1. Like the Smg proteins, Nmd4 and Ebs1 were required for efficient NMD. Our results suggest that the core eukaryotic NMD machinery is conserved across species and operates through successive Upf1-bound Detector and Effector complexes.
  • SpeciesList: scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
  • ModificationList: acetylated residue
  • Instrument: LTQ Orbitrap Velos

Dataset History

VersionDatetimeStatusChangeLog Entry
02017-07-31 06:54:57ID requested
12018-03-12 05:47:45announced
22018-03-14 01:30:22announcedUpdated project metadata.
32018-05-23 02:01:25announcedUpdated project metadata.

Publication List

  1. 10.1101/266833;

Keyword List

  1. curator keyword: Biological
  2. submitter keyword: LC-MS/MS, yeast, TAP, affinity purification, label-free, MaxQuant, LTQ-Orbitrap Velos

Contact List

    Alain Jacquier
    • contact affiliation: Genetics of Macromolecular Interactions Genomes and Genetics Department 25-28 rue du docteur Roux 75015 Paris, FRANCE
    • contact email: alain.jacquier@pasteur.fr
    • lab head:
    Cosmin Saveanu
    • contact affiliation: Institut Pasteur, Paris, France
    • contact email: cosmin.saveanu@pasteur.fr
    • dataset submitter:

Full Dataset Link List

  1. Dataset FTP location
  2. PRIDE project URI
Repository Record List

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