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PXD047979

PXD047979 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleSuper-resolution proximity labeling method with enhanced direct identification of biotinylation sites
DescriptionPromiscuous labeling enzymes, such as APEX2 or TurboID, are commonly used in in situ biotinylation studies of subcellular proteomes or protein-protein interactions. Although the conventional approach of enriching biotinylated proteins is widely implemented, in-depth identification of specific biotinylation sites remains challenging, and current approaches are technically demanding with low yields. A novel method to systematically identify specific biotinylation sites for LC-MS analysis followed by proximity labeling showed excellent performance compared with that of related approaches in terms of identification depth with high enrichment power. The systematic identification of biotinylation sites enabled a simpler and more efficient experimental design to identify subcellular localized proteins within membranous organelles. Applying this method to the processing body (PB), a non-membranous organelle, successfully allowed unbiased identification of PB core proteins, including novel candidates. We anticipate that our newly developed method will replace the conventional method for identifying biotinylated proteins labeled by promiscuous labeling enzymes.
HostingRepositoryPRIDE
AnnounceDate2024-10-22
AnnouncementXMLSubmission_2024-10-22_06:41:01.406.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterSanghee Shin
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListbiotinylated residue
InstrumentOrbitrap Fusion Lumos
Dataset History
RevisionDatetimeStatusChangeLog Entry
02023-12-19 21:07:58ID requested
12024-05-22 02:09:30announced
22024-10-22 06:41:07announced2024-10-22: Updated project metadata.
Publication List
Shin S, Lee SY, Kang MG, Jang DG, Kim J, Rhee HW, Kim JS, Super-resolution proximity labeling with enhanced direct identification of biotinylation sites. Commun Biol, 7(1):554(2024) [pubmed]
10.1038/s42003-024-06112-w;
Keyword List
submitter keyword: biotinylation site, APEX2, TurboID, LC-MS, membrane protein topology, BioID,Proximity labeling
Contact List
Jong-Seo Kim
contact affiliationSchool of Biological Sciences, Seoul National University, Seoul 08826, Korea
contact emailjongseokim@snu.ac.kr
lab head
Sanghee Shin
contact affiliationSeoul National University
contact emailsunnyshin54@gmail.com
dataset submitter
Full Dataset Link List
Dataset FTP location
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PRIDE project URI
Repository Record List
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