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dc.contributor.author | Martin-Galiano, Antonio Javier | |
dc.contributor.author | Lopez, Daniel | |
dc.date.accessioned | 2019-11-25T12:43:32Z | |
dc.date.available | 2019-11-25T12:43:32Z | |
dc.date.issued | 2019 | |
dc.identifier.citation | PLoS One. 2019 Jan 15;14(1):e0210583. | es_ES |
dc.identifier.issn | 1932-6203 | es_ES |
dc.identifier.uri | http://hdl.handle.net/20.500.12105/8692 | |
dc.description.abstract | The transporter associated with antigen processing (TAP) is a key element of the major histocompatibility complex (MHC) class I antigen processing and presentation pathway. Nonfunctional TAP complexes impair the translocation of cytosol-derived proteolytic peptides to the endoplasmic reticulum lumen. This drastic reduction in the available peptide repertoire leads to a significant decrease in MHC class I cell surface expression. Using mass spectrometry, different studies have analyzed the cellular MHC class I ligandome from TAP-deficient cells, but the analysis of the parental proteins, the source of these ligands, still deserves an in-depth analysis. In the present report, several bioinformatics protocols were applied to investigate the nature of parental proteins for the previously identified TAP-independent MHC class I ligands. Antigen processing in TAP-deficient cells mainly focused on small, abundant or highly integral transmembrane proteins of the cellular proteome. This process involved abundant proteins of the central RNA metabolism. In addition, TAP-independent ligands were preferentially cleaved from the N- and C-terminal ends with respect to the central regions of the parental proteins. The abundance of glycine, proline and aromatic residues in the C-terminal sequences from TAP-independently processed proteins allows the accessibility and specificity required for the proteolytic activities that generates the TAP-independent ligandome. This limited proteolytic activity towards a set of preferred proteins in a TAP-negative environment would therefore suffice to promote the survival of TAP-deficient individuals. | es_ES |
dc.description.sponsorship | This work was supported by the Spanish Ministry of Economy (MINECO/FEDER) grant SAF2014-58052 and Acción Estratégica en Salud 2019 to DL. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript | es_ES |
dc.language.iso | eng | es_ES |
dc.publisher | Public Library of Science (PLOS) | es_ES |
dc.type.hasVersion | VoR | es_ES |
dc.rights.uri | http://creativecommons.org/licenses/by/4.0/ | * |
dc.subject.mesh | ATP-Binding Cassette Transporters | es_ES |
dc.subject.mesh | Antigen Presentation | es_ES |
dc.subject.mesh | Antigen-Presenting Cells | es_ES |
dc.subject.mesh | CD8-Positive T-Lymphocytes | es_ES |
dc.subject.mesh | Computational Biology | es_ES |
dc.subject.mesh | Endoplasmic Reticulum | es_ES |
dc.subject.mesh | Histocompatibility Antigens Class I | es_ES |
dc.subject.mesh | Humans | es_ES |
dc.subject.mesh | Ligands | es_ES |
dc.subject.mesh | Peptides | es_ES |
dc.subject.mesh | Protein Transport | es_ES |
dc.subject.mesh | Proteomics | es_ES |
dc.title | Computational characterization of the peptidome in transporter associated with antigen processing (TAP)-deficient cells | es_ES |
dc.type | journal article | es_ES |
dc.rights.license | Atribución 4.0 Internacional | * |
dc.identifier.pubmedID | 30645615 | es_ES |
dc.format.volume | 14 | es_ES |
dc.format.number | 1 | es_ES |
dc.format.page | e0210583 | es_ES |
dc.identifier.doi | 10.1371/journal.pone.0210583 | es_ES |
dc.contributor.funder | Ministerio de Economía y Competitividad (España) | |
dc.contributor.funder | Unión Europea. Fondo Europeo de Desarrollo Regional (FEDER/ERDF) | |
dc.description.peerreviewed | Sí | es_ES |
dc.identifier.e-issn | 1932-6203 | es_ES |
dc.relation.publisherversion | https://doi.org/10.1371/journal.pone.0210583 | es_ES |
dc.identifier.journal | PloS one | es_ES |
dc.repisalud.centro | ISCIII::Centro Nacional de Microbiología::Unidades Comunes Científico-Técnicas (UCCT)::Unidad de Bioinformática | es_ES |
dc.repisalud.institucion | ISCIII | es_ES |
dc.relation.projectID | info:eu-repo/grantAgreement/ES/SAF2014-58052 | es_ES |
dc.rights.accessRights | open access | es_ES |