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PXD006707

DataSet Summary

  • HostingRepository: PRIDE
  • AnnounceDate: 2017-10-11
  • AnnouncementXML: Submission_2017-11-08_04:32:53.xml
  • DigitalObjectIdentifier:
  • ReviewLevel: Peer-reviewed dataset
  • DatasetOrigin: Original data
  • RepositorySupport: Unsupported dataset by repository
  • PrimarySubmitter: Mykhaylo Debelyy
  • Title: Mass spectrometric analysis of membrane protein topology
  • Description: Here we made an attempt to obtain partial structural information on the topology of multispan integral membrane proteins of yeast by isolating organellar membranes, removing peripheral membrane proteins at pH 11.5 and introducing chemical crosslinks between vicinal amino acids either using homo- or hetero-bifunctional crosslinkers. Proteins were digested with specific proteases and the products analysed by mass spectrometry. Dedicated software tools were used together with filtering steps optimized to remove false positive crosslinks. In proteins of known structure, crosslinks were found only between loops residing on the same side of the membrane. As may be expected, crosslinks were mainly found in very abundant proteins. Our approach seems to hold to promise to yield low resolution topological information for naturally very abundant or strongly overexpressed proteins with relatively little effort.
  • SpeciesList: scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
  • ModificationList: iodoacetic acid derivatized residue; iodoacetamide derivatized residue
  • Instrument: Q Exactive

Dataset History

VersionDatetimeStatusChangeLog Entry
02017-06-13 23:39:57ID requested
12017-10-11 08:48:45announced
22017-11-08 04:32:54announcedUpdated publication reference for PubMed record(s): 29073188.

Publication List

  1. Debelyy MO, Waridel P, Quadroni M, Schneiter R, Conzelmann A, Chemical crosslinking and mass spectrometry to elucidate the topology of integral membrane proteins. PLoS One, 12(10):e0186840(2017) [pubmed]

Keyword List

  1. curator keyword: Biological
  2. submitter keyword: BS3, EDC, multispan proteins, transmembrane domains, pLink

Contact List

    Andreas Conzelmann
    • contact affiliation: Division of Biochemistry, Department of Biology, University of Fribourg, Fribourg, Switzerland
    • contact email: andreas.conzelmann@unifr.ch
    • lab head:
    Mykhaylo Debelyy
    • contact affiliation: Lab.: 0.313; Division of Biochemistry, Department of Biology, Faculty of Science, University of Fribourg, Chemin du Musée 10, CH-1700, Fribourg, Switzerland; Tel.: +41263008660
    • contact email: mykhaylo.debelyy@unifr.ch
    • dataset submitter:

Full Dataset Link List

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