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PXD053713

PXD053713 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleQuantification and site-specific analysis of co-occupied N- and O-glycopeptides
DescriptionProtein glycosylation is a complex post-translational modification that is generally classified as N- or O-linked. Site-specific analysis of glycopeptides is accomplished with a variety of fragmentation methods, depending on the type of glycosylation being investigated and the instrumentation available. For instance, collisional dissociation methods are frequently used for N-glycoproteomic analysis with the assumption that one N-sequon exists per tryptic peptide. Alternatively, electron-based methods are indispensable for O-glycosite localization. However, the presence of simultaneously N- and O-glycosylated peptides could suggest the necessity of electron-based fragmentation methods for N-glycoproteomics, which is not commonly performed. Thus, we quantified the prevalence of N- and O-glycopeptides in mucins and other glycoproteins. A much higher frequency of co-occupancy within mucins was detected whereas only a negligible occurrence occurred within non-mucin glycoproteins. This was demonstrated from analyses of recombinant and/or purified proteins, as well as more complex samples. Where co-occupancy occurred, O-glycosites were frequently localized to the Ser/Thr within the N-sequon. Additionally, we found that O-glycans in close proximity to the occupied Asn were predominantly unelaborated core 1 structures, while those further away were more extended. Overall, we demonstrate electron-based methods are required for robust site-specific analysis of mucins, wherein co-occupancy is more prevalent. Conversely, collisional methods are generally sufficient for analyses of other types of glycoproteins.
HostingRepositoryPRIDE
AnnounceDate2024-10-22
AnnouncementXMLSubmission_2024-10-22_12:28:23.357.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterJoann Chongsaritsinsuk
SpeciesList scientific name: Homo sp.; NCBI TaxID: 2813599;
ModificationListcomplex glycosylation; deamidated residue; iodoacetamide derivatized residue
InstrumentOrbitrap Eclipse
Dataset History
RevisionDatetimeStatusChangeLog Entry
02024-07-06 12:37:23ID requested
12024-10-22 12:28:23announced
Publication List
10.1101/2024.07.06.602348;
Keyword List
submitter keyword: glycoproteomics, fragmentation, co-occupancy, mucins, O-glycosylation, N-glycosylation
Contact List
Stacy A.
contact affiliationYale University Department of Chemistry
contact emailstacy.malaker@yale.edu
lab head
Joann Chongsaritsinsuk
contact affiliationYale University
contact emailjoann.chongsaritsinsuk@yale.edu
dataset submitter
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Dataset FTP location
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