PXD009801

PXD009801 is an original dataset announced via ProteomeXchange.

Title	The nature and extent of contributions by defective ribosome products to the HLA peptidome
Description	MHC class I peptides are products of endogenous cellular protein degradation. Their prompt presentation, after rapid degradation of their newly synthesized source proteins, is needed to alert the immune system during pathogen infection. A possible source for such rapidly degrading proteins can be defective ribosome products (DRiPs), which include polypeptides produced as part of the pioneer round of translation, premature translation termination, and proteins failing to fold properly or to assemble into their multisubunit protein complexes. However, the identities and relative contribution to the MHC peptidome of these mature or newly synthesized and rapidly degraded cellular proteins is not well understood. To clarify these issues, we used dynamic stable isotope labeling by amino acids in cell culture to define the relative rates of synthesis of the HLA class I peptidomes and the source proteomes of three cultured human hematopoietic cell lines. Large numbers of HLA class I peptides were observed to be derived from DRiPs, defined here as HLA peptides that shift from their light to heavy isotope forms, faster than their source proteins. Specific groups of proteins, such as ribosomal and T-complex protein 1 (TCP-1), contributed a disproportionately large number of DRiPs to the HLA peptidomes. Furthermore, no significant preference was observed for HLA peptides derived from the amino terminal regions of the proteins, suggesting that the contribution of products of premature translation termination was minimal. Thus, the most likely sources of DRiPs-derived HLA peptides are full-sized, misassembled, and surplus subunits of large protein complexes.
HostingRepository	PRIDE
AnnounceDate	2018-05-17
AnnouncementXML	Submission_2018-05-17_05:52:44.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Arie Admon
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive; LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2018-05-16 06:49:44	ID requested
⏵ 1	2018-05-17 05:52:45	announced

Bourdetsky D, Schmelzer CE, Admon A, The nature and extent of contributions by defective ribosome products to the HLA peptidome. Proc Natl Acad Sci U S A, 111(16):E1591-9(2014) [pubmed]

curator keyword: Biological, Biomedical

submitter keyword: DRiPome, immunopeptidome, dynamic SILAC

Arie Admon
contact affiliation	Deprtment of Biology, Technion - Israel Institue of Technology, Haifa, Israel
contact email	admon@technion.ac.il
lab head
Arie Admon
contact affiliation	Biology
contact email	admon@tx.technion.ac.il
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD009801
     1. Label: PRIDE project
     2. Name: The nature and extent of contributions by defective ribosome products to the HLA peptidome