{"display":true,"structure":{"allele":{"alpha":{"identifier":"ipd-imgt:HLA35266","locus":"hla-a","match_type":"histo:exact","name":"HLA-A*02:01","slug":"hla_a_02_01","species_stem":"hla"},"beta":{}},"assemblies":{"1":{"assembly_name":"5isz_1","chains":["A","B","C","D","E"],"downloaded_at":"2022-11-09T14:42:06.801482"}},"assembly_count":null,"assigned_chains":{"beta2m":{"chains":["B"],"match_type":"histo:assign_chains","score":0.99,"sequence":"QRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKDWSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM"},"class_i_alpha":{"chains":["A"],"match_type":"histo:assign_chains","score":1.0,"sequence":"GSHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGPEYWDGETRKVKAHSQTHRVDLGTLRGYYNQSEAGSHTVQRMYGCDVGSDWRFLRGYHQYAYDGKDYIALKEDLRSWTAADMAAQTTKHKWEAAHVAEQLRAYLEGTCVEWLRRYLENGKETLQRTDAPKTHMTHHAVSDHEATLRCWALSFYPAEITLTWQRDGEDQTQDTELVETRPAGDGTFQKWAAVVVPSGQEQRYTCHVQHEGLPKPLTLRWE"},"peptide":{"chains":["C"],"match_type":"histo:classify_peptide","sequence":"GILGFVFTL"},"tcr_alpha":{"chains":["D"],"match_type":"stcrdab","sequence":"LNVEQSPQSLHVQEGDSTNFTCSFPSSNFYALHWYRWETAKSPEALFVMTLNGDEKKKGRISATLNTKEGYSYLYIKGSQPEDSATYLCAFDTNAGKSTFGDGTTLTVKPNIQNPDPAVYQLRDSASSAKSVCLFTDFDSQTNVSQSKDDVYITDKCVLDMRSMDFKSNSAVAWSNKSDFACANAFNNSIIPEDTFFPSP","subgroup":"TRAV24"},"tcr_beta":{"chains":["E"],"match_type":"stcrdab","sequence":"IGGITQSPKYLFRKEGQNVTLSCEQNLNHDAMYWYRQDPGQGLRLIYYSQIVNDFQKGDIAAGYSVSREKKESFPLTVTSAQKNPTAFYLCASSIFGQREQYFGPGTRLTVTEDLKNVFPPEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHSGVCTDPQPLKEQPALNDSRYALSSRLRVSATFWQNPRNHFRCQVQFYGLSENDEWTQDRAKPVTQIVSAEAWGRA","subgroup":"TRBV19"}},"chronology":{"deposition_date":"2016-03-15","deposition_year":2016,"release_date":"2017-03-01","release_year":2017,"revision_date":"2019-12-11","revision_year":2019},"class":"class_i","classical":true,"complex_type":"class_i_with_peptide_and_alpha_beta_tcr","components":["class_i_alpha","beta2m","peptide","tcr_alpha","tcr_beta"],"experimental_method":"X-ray diffraction","facets":{},"ligands":[],"locus":"hla-a","manually_edited":{},"missing_residues":[],"page_title":"5ISZ | HLA-A*02:01 presenting \"GILGFVFTL\" to Alpha/Beta T cell receptor","pdb_code":"5isz","pdb_title":"Crystal structure of ls01-TCR/m1-hla-a*02 complex","peptide":{"C":{"actual_length":9,"actual_sequence":"GILGFVFTL","chain_id":"C","features":["correct_sequence_and_length"],"full_length":9,"full_sequence":"GILGFVFTL"}},"peptide_length":9,"peptide_length_name":"nonamer","peptide_neighbours":{"1":{"neighbours":[{"position":171,"residue":"TYR"},{"position":164,"residue":"CYS"},{"position":167,"residue":"TRP"},{"position":163,"residue":"THR"},{"position":63,"residue":"GLU"},{"position":33,"residue":"PHE"},{"position":5,"residue":"MET"},{"position":7,"residue":"TYR"},{"position":99,"residue":"TYR"},{"position":159,"residue":"TYR"},{"position":59,"residue":"TYR"}],"position":1,"residue":"GLY"},"2":{"neighbours":[{"position":70,"residue":"HIS"},{"position":159,"residue":"TYR"},{"position":66,"residue":"LYS"},{"position":9,"residue":"PHE"},{"position":45,"residue":"MET"},{"position":99,"residue":"TYR"},{"position":63,"residue":"GLU"},{"position":67,"residue":"VAL"},{"position":34,"residue":"VAL"},{"position":7,"residue":"TYR"}],"position":2,"residue":"ILE"},"3":{"neighbours":[{"position":156,"residue":"LEU"},{"position":70,"residue":"HIS"},{"position":99,"residue":"TYR"},{"position":159,"residue":"TYR"},{"position":66,"residue":"LYS"},{"position":160,"residue":"LEU"},{"position":114,"residue":"HIS"},{"position":9,"residue":"PHE"},{"position":97,"residue":"ARG"}],"position":3,"residue":"LEU"},"4":{"neighbours":[{"position":70,"residue":"HIS"},{"position":159,"residue":"TYR"},{"position":66,"residue":"LYS"}],"position":4,"residue":"GLY"},"5":{"neighbours":[{"position":156,"residue":"LEU"},{"position":70,"residue":"HIS"},{"position":152,"residue":"VAL"},{"position":158,"residue":"ALA"},{"position":159,"residue":"TYR"},{"position":155,"residue":"GLN"},{"position":97,"residue":"ARG"}],"position":5,"residue":"PHE"},"6":{"neighbours":[{"position":73,"residue":"THR"},{"position":66,"residue":"LYS"},{"position":97,"residue":"ARG"},{"position":69,"residue":"ALA"},{"position":70,"residue":"HIS"}],"position":6,"residue":"VAL"},"7":{"neighbours":[{"position":152,"residue":"VAL"},{"position":73,"residue":"THR"},{"position":114,"residue":"HIS"},{"position":77,"residue":"ASP"},{"position":116,"residue":"TYR"},{"position":97,"residue":"ARG"},{"position":147,"residue":"TRP"},{"position":156,"residue":"LEU"},{"position":133,"residue":"TRP"},{"position":74,"residue":"HIS"}],"position":7,"residue":"PHE"},"8":{"neighbours":[{"position":73,"residue":"THR"},{"position":77,"residue":"ASP"},{"position":80,"residue":"THR"},{"position":143,"residue":"THR"},{"position":146,"residue":"LYS"},{"position":147,"residue":"TRP"},{"position":76,"residue":"VAL"}],"position":8,"residue":"THR"},"9":{"neighbours":[{"position":123,"residue":"TYR"},{"position":124,"residue":"ILE"},{"position":74,"residue":"HIS"},{"position":73,"residue":"THR"},{"position":84,"residue":"TYR"},{"position":142,"residue":"THR"},{"position":77,"residue":"ASP"},{"position":80,"residue":"THR"},{"position":116,"residue":"TYR"},{"position":143,"residue":"THR"},{"position":146,"residue":"LYS"},{"position":81,"residue":"LEU"},{"position":147,"residue":"TRP"},{"position":95,"residue":"VAL"}],"position":9,"residue":"LEU"}},"peptide_sequence":"GILGFVFTL","pockets":{"a":{"a159":{"number":159,"one_letter":"Y","three_letter":"TYR"},"a163":{"number":163,"one_letter":"T","three_letter":"THR"},"a167":{"number":167,"one_letter":"W","three_letter":"TRP"},"a171":{"number":171,"one_letter":"Y","three_letter":"TYR"},"a5":{"number":5,"one_letter":"M","three_letter":"MET"},"a59":{"number":59,"one_letter":"Y","three_letter":"TYR"},"a63":{"number":63,"one_letter":"E","three_letter":"GLU"},"a66":{"number":66,"one_letter":"K","three_letter":"LYS"},"a7":{"number":7,"one_letter":"Y","three_letter":"TYR"}},"b":{"a24":{"number":24,"one_letter":"A","three_letter":"ALA"},"a34":{"number":34,"one_letter":"V","three_letter":"VAL"},"a45":{"number":45,"one_letter":"M","three_letter":"MET"},"a63":{"number":63,"one_letter":"E","three_letter":"GLU"},"a66":{"number":66,"one_letter":"K","three_letter":"LYS"},"a67":{"number":67,"one_letter":"V","three_letter":"VAL"},"a7":{"number":7,"one_letter":"Y","three_letter":"TYR"},"a70":{"number":70,"one_letter":"H","three_letter":"HIS"},"a9":{"number":9,"one_letter":"F","three_letter":"PHE"},"a99":{"number":99,"one_letter":"Y","three_letter":"TYR"}},"c":{"a70":{"number":70,"one_letter":"H","three_letter":"HIS"},"a73":{"number":73,"one_letter":"T","three_letter":"THR"},"a74":{"number":74,"one_letter":"H","three_letter":"HIS"},"a9":{"number":9,"one_letter":"F","three_letter":"PHE"},"a97":{"number":97,"one_letter":"R","three_letter":"ARG"}},"d":{"a114":{"number":114,"one_letter":"H","three_letter":"HIS"},"a155":{"number":155,"one_letter":"Q","three_letter":"GLN"},"a156":{"number":156,"one_letter":"L","three_letter":"LEU"},"a159":{"number":159,"one_letter":"Y","three_letter":"TYR"},"a160":{"number":160,"one_letter":"L","three_letter":"LEU"},"a99":{"number":99,"one_letter":"Y","three_letter":"TYR"}},"e":{"a114":{"number":114,"one_letter":"H","three_letter":"HIS"},"a147":{"number":147,"one_letter":"W","three_letter":"TRP"},"a152":{"number":152,"one_letter":"V","three_letter":"VAL"},"a156":{"number":156,"one_letter":"L","three_letter":"LEU"},"a97":{"number":97,"one_letter":"R","three_letter":"ARG"}},"f":{"a116":{"number":116,"one_letter":"Y","three_letter":"TYR"},"a123":{"number":123,"one_letter":"Y","three_letter":"TYR"},"a143":{"number":143,"one_letter":"T","three_letter":"THR"},"a146":{"number":146,"one_letter":"K","three_letter":"LYS"},"a147":{"number":147,"one_letter":"W","three_letter":"TRP"},"a77":{"number":77,"one_letter":"D","three_letter":"ASP"},"a80":{"number":80,"one_letter":"T","three_letter":"THR"},"a81":{"number":81,"one_letter":"L","three_letter":"LEU"},"a84":{"number":84,"one_letter":"Y","three_letter":"TYR"},"a95":{"number":95,"one_letter":"V","three_letter":"VAL"}}},"publication":{"abstract":"A keystone of antiviral immunity is CD8<sup>+</sup> T cell recognition of viral peptides bound to MHC-I proteins. The recognition modes of individual T cell receptors (TCRs) have been studied in some detail, but the role of TCR variation in providing a robust response to viral antigens is unclear. The influenza M1 epitope is an immunodominant target of CD8<sup>+</sup> T cells that help to control influenza in HLA-A2<sup>+</sup> individuals. Here we show that CD8<sup>+</sup> T cells use many distinct TCRs to recognize HLA-A2-M1, which enables the use of different structural solutions to the problem of specifically recognizing a relatively featureless peptide antigen. The vast majority of responding TCRs target a small cleft between HLA-A2 and the bound M1 peptide. These broad repertoires lead to plasticity in antigen recognition and protection against T cell clonal loss and viral escape.","bibjson":{"author":[{"initials":"I","lastname":"Song","name":"Song I"},{"initials":"A","lastname":"Gil","name":"Gil A"},{"initials":"R","lastname":"Mishra","name":"Mishra R"},{"initials":"D","lastname":"Ghersi","name":"Ghersi D"},{"initials":"LK","lastname":"Selin","name":"Selin LK"},{"initials":"LJ","lastname":"Stern","name":"Stern LJ"}],"identifier":[{"id":"10.1038/nsmb.3383","type":"doi"},{"id":"28250417","type":"pubmed"}],"issue":[null],"journal":{"iso_abbreviation":"Nat. Struct. Mol. Biol.","name":""},"pages":[null],"title":"Broad TCR repertoire and diverse structural solutions for recognition of an immunodominant CD8(+) T cell epitope.","type":"article","url":"https://www.nature.com/articles/nsmb.3383","volume":[null],"year":[2017]},"in_pmc":"N","in_pmce":"Y","open_access":"Y"},"resolution":"2.06","same_as":{"pdbe":{"url":"https://www.ebi.ac.uk/pdbe/entry/pdb/5isz"},"rcsb":{"url":"https://www.rcsb.org/structure/5isz"},"stcrdab":{"url":"http://opig.stats.ox.ac.uk/webapps/stcrdab/StrViewer?pdb=5isz"}},"species":{"common_name":"Human","match_type":"histo:assign_species","scientific_name":"Homo sapiens","slug":"homo_sapiens"},"tcr":{"alpha":{"chains":["D"],"subgroup":"TRAV24"},"beta":{"chains":["E"],"subgroup":"TRBV19"},"mhc_type":"class_i","pdb_code":"5isz"},"title":"HLA-A*02:01 presenting \"GILGFVFTL\" to Alpha/Beta T cell receptor at 2.06&#8491; resolution","unique_chain_count":5}}