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PXD006707

PXD006707 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleMass spectrometric analysis of membrane protein topology
DescriptionHere 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.
HostingRepositoryPRIDE
AnnounceDate2017-10-11
AnnouncementXMLSubmission_2017-11-08_04:32:53.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterMykhaylo Debelyy
SpeciesList scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationListiodoacetic acid derivatized residue; iodoacetamide derivatized residue
InstrumentQ Exactive
Dataset History
RevisionDatetimeStatusChangeLog 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
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
curator keyword: Biological
submitter keyword: BS3, EDC, multispan proteins, transmembrane domains, pLink
Contact List
Andreas Conzelmann
contact affiliationDivision of Biochemistry, Department of Biology, University of Fribourg, Fribourg, Switzerland
contact emailandreas.conzelmann@unifr.ch
lab head
Mykhaylo Debelyy
contact affiliationLab.: 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 emailmykhaylo.debelyy@unifr.ch
dataset submitter
Full Dataset Link List
Dataset FTP location
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PRIDE project URI
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