title: A comprehensive analysis of constitutive naturally processed and presented HLA-C*04:01 (Cw4)-specific peptides.
abstract: The human B lymphoblastoid cell line C1R is widely regarded as human leukocyte antigen-A (HLA-A)/HLA-B negative and is therefore frequently exploited as a recipient cell line to study HLA class I functions. However, the normal levels of HLA-C*04:01 often hamper the investigation of introduced HLA class I allomorphs, which is particularly evident in sensitive applications such as mass spectrometry. Here we describe the comprehensive analysis of endogenous HLA-C*04:01 ligands expressed on the surface of C1R cells to (i) define a large sequence dataset of HLA-C*04:01 ligands, to (ii) refine the HLA-C*04:01 peptide-binding motif and (iii) to provide a resource that allows discrimination between peptides bound to introduced HLA class I subtypes and to the endogenous HLA-C*04:01 molecules.
authors.affiliation: Department of Biochemistry and Molecular Biology, Monash University, Clayton, 3800, Victoria, Australia.
authors.forename: R B
authors.initials: RB
authors.lastname: Schittenhelm
authors.forename: N L
authors.initials: NL
authors.lastname: Dudek
authors.forename: N P
authors.initials: NP
authors.lastname: Croft
authors.forename: S H
authors.initials: SH
authors.lastname: Ramarathinam
authors.forename: A W
authors.initials: AW
authors.lastname: Purcell
mesh_terms: D000595:Amino Acid Sequence; D017951:Antigen Presentation / Q000276:immunology*; D030562:Databases, Protein; D000939:Epitopes / Q000276:immunology; D015236:HLA-C Antigens / Q000737:chemistry / Q000235:genetics* / Q000276:immunology*; D006801:Humans; D008969:Molecular Sequence Data; D010455:Peptides / Q000737:chemistry / Q000276:immunology*
chemical_list: D000939:Epitopes; D015236:HLA-C Antigens; C039966:HLA-C*04 antigen; D010455:Peptides
keywords: C1R cells; HLA-B*35:03; HLA-C*04:01; HLA-Cw4; antigen presentation; immunopeptidome; mass spectrometry