PXD005084

PXD005084 is an original dataset announced via ProteomeXchange.

Title	HLA-I peptidomes and phosphopeptidomes (B*40, B*27, B*07, B*39)
Description	As aberrant phosphorylation is a hallmark of tumor cells, the display of tumor-specific phosphopeptides by Human Leukocyte Antigen (HLA) class I molecules can be exploited in the treatment of cancer by T-cell-based immunotherapy. Yet, the characterization and prediction of HLA-I phospholigands is challenging as the molecular determinants of the presentation of such post-translationally modified peptides are not fully understood. Here, we employed a peptidomic workflow to identify phosphorylated ligands associated with HLA-B*40, -B*27, -B*39 and -B*07. Remarkably, these phosphopeptides showed similar molecular features. Besides the specific anchor motifs imposed by the binding groove of each allotype, the predominance of phosphorylation at peptide position 4 (P4) became strikingly evident, as was the enrichment of basic residues at P1. This molecular understanding of the presentation of phosphopeptides by HLA-B molecules can help in predicting tumor-specific neo-antigens that arise from aberrant phosphorylation in cancer cells.
HostingRepository	PRIDE
AnnounceDate	2017-10-24
AnnouncementXML	Submission_2017-10-24_02:37:44.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Miguel Marcilla
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	phosphorylated residue
Instrument	LTQ Orbitrap Velos; Orbitrap Fusion ETD; TripleTOF 5600

Revision	Datetime	Status	ChangeLog Entry
0	2016-10-03 02:20:29	ID requested
1	2016-12-12 14:38:26	announced
⏵ 2	2017-10-24 02:37:46	announced	Updated project metadata.

Alp, í, zar A, Marino F, Ramos-Fern, á, ndez A, Lombard, í, a M, Jeko A, Pazos F, Paradela A, Santiago C, Heck AJ, Marcilla M, A Molecular Basis for the Presentation of Phosphorylated Peptides by HLA-B Antigens. Mol Cell Proteomics, 16(2):181-193(2017) [pubmed]

ProteomeXchange project tag: PRIME-XS Project

curator keyword: Biological, Biomedical

submitter keyword: HLA, MHC, peptidome, phosphopeptidome

Alberto Paradela
contact affiliation	Proteomics Unit. Spanish National Biotechnology Centre (CNB-CSC). Madrid. Spain.
contact email	alberto.paradela@cnb.csic.es
lab head
Miguel Marcilla
contact affiliation	Proteomics Unit - Dpt. of Macromolecular Structures - Spanish National Biotechnolgy Centre (CNB-CSIC)
contact email	mmarcilla@cnb.csic.es
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2016/12/PXD005084

PRIDE project URI

• PRIDE
  1. PXD005084
     1. Label: PRIDE project
     2. Name: HLA-I peptidomes and phosphopeptidomes (B*40, B*27, B*07, B*39)