{"display":true,"structure":{"allele":{"alpha":{"identifier":"ipd-imgt:HLA35228","locus":"hla-b","match_type":"histo:exact","name":"HLA-B*15:01","slug":"hla_b_15_01","species_stem":"hla"},"beta":{}},"assemblies":{"1":{"assembly_name":"3are_1","chains":["A","B","C","D","E","F"],"downloaded_at":"2022-11-09T14:45:14.523717"}},"assembly_count":null,"assigned_chains":{"beta2m":{"chains":["B"],"match_type":"histo:assign_chains","score":1.0,"sequence":"IQKTPQIQVYSRHPPENGKPNILNCYVTQFHPPHIEIQMLKNGKKIPKVEMSDMSFSKDWSFYILAHTEFTPTETDTYACRVKHASMAEPKTVYWDRDM"},"cd1d":{"chains":["A"],"match_type":"histo:assign_chains","score":1.0,"sequence":"SEAQQKNYTFRCLQMSSFANRSWSRTDSVVWLGDLQTHRWSNDSATISFTKPWSQGKLSNQQWEKLQHMFQVYRVSFTRDIQELVKMMSPKEDYPIEIQLSAGCEMYPGNASESFLHVAFQGKYVVRFWGTSWQTVPGAPSWLDLPIKVLNADQGTSATVQMLLNDTCPLFVRGLLEAGKSDLEKQEKPVAWLSSVPSSAHGHRQLVCHVSGFYPKPVWVMWMRGDQEQQGTHRGDFLPNADETWYLQATLDVEAGEEAGLACRVKHSSLGGQDIILYWGSLHHILDAQKMVWNHRHHHHHH"},"tcr_alpha":{"chains":["C"],"match_type":"stcrdab","sequence":"TQVEQSPQSLVVRQGENSVLQCNYSVTPDNHLRWFKQDTGKGLVSLTVLVDQKDKTSNGRYSATLDKDAKHSTLHITATLLDDTATYICVVGDRGSALGRLHFGAGTQLIVIPDIQNPDPAVYQLRDSKSSDKSVCLFTDFDSQTNVSQSKDSDVYITDKCVLDMRSMDFKSNSAVAWSNKSDFACANAFNNSIIPEDTFFPSPESS","subgroup":"TRAV11"},"tcr_beta":{"chains":["D"],"match_type":"stcrdab","sequence":"EAAVTQSPRNKVAVTGGKVTLSCNQTNNHNNMYWYRQDTGHGLRLIHYSYGAGSTEKGDIPDGYKASRPSQENFSLILELATPSQTSVYFCASGDAGGNYAEQFFGPGTRLTVLEDLKNVFPPEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHSGVCTDPQPLKEQPALNDSRYALSSRLRVSATFWQNPRNHFRCQVQFYGLSENDEWTQDRAKPVTQIVSAEAWGRAD","subgroup":"TRBV13"}},"chronology":{"deposition_date":"2010-11-27","deposition_year":2010,"release_date":"2011-03-30","release_year":2011,"revision_date":"2020-07-29","revision_year":2020},"class":"class_i","classical":false,"complex_type":"cd1d_with_nkt_alpha_beta_tcr","components":["cd1d","beta2m","tcr_alpha","tcr_beta"],"experimental_method":"X-ray diffraction","facets":{},"ligands":[],"locus":"hla-b","manually_edited":{},"missing_residues":[],"page_title":"3ARE | Non-classical MHC Class I molecule CD1d with Natural Killer Alpha/Beta T cell receptor","pdb_code":"3are","pdb_title":"Ternary crystal structure of the mouse nkt TCR-CD1d-4'deoxy-alpha-galactosylceramide","peptide":{"actual_sequence":null,"epitope_info":{},"features":[],"full_sequence":null,"gap_info":{},"gapped_sequence":null,"length":{"numeric":null,"text":null},"unnatural_amino_acids":[]},"publication":{"abstract":"Natural killer T (NKT) cells respond to a variety of CD1d-restricted antigens (Ags), although the basis for Ag discrimination by the NKT cell receptor (TCR) is unclear. Here we have described NKT TCR fine specificity against several closely related Ags, termed altered glycolipid ligands (AGLs), which differentially stimulate NKT cells. The structures of five ternary complexes all revealed similar docking. Acyl chain modifications did not affect the interaction, but reduced NKT cell proliferation, indicating an affect on Ag processing or presentation. Conversely, truncation of the phytosphingosine chain caused an induced fit mode of TCR binding that affected TCR affinity. Modifications in the glycosyl head group had a direct impact on the TCR interaction and associated cellular response, with ligand potency reflecting the t(1/2) life of the interaction. Accordingly, we have provided a molecular basis for understanding how modifications in AGLs can result in striking alterations in the cellular response of NKT cells.","bibjson":{"author":[{"initials":"KS","lastname":"Wun","name":"Wun KS"},{"initials":"G","lastname":"Cameron","name":"Cameron G"},{"initials":"O","lastname":"Patel","name":"Patel O"},{"initials":"SS","lastname":"Pang","name":"Pang SS"},{"initials":"DG","lastname":"Pellicci","name":"Pellicci DG"},{"initials":"LC","lastname":"Sullivan","name":"Sullivan LC"},{"initials":"S","lastname":"Keshipeddy","name":"Keshipeddy S"},{"initials":"MH","lastname":"Young","name":"Young MH"},{"initials":"AP","lastname":"Uldrich","name":"Uldrich AP"},{"initials":"MS","lastname":"Thakur","name":"Thakur MS"},{"initials":"SK","lastname":"Richardson","name":"Richardson SK"},{"initials":"AR","lastname":"Howell","name":"Howell AR"},{"initials":"PA","lastname":"Illarionov","name":"Illarionov PA"},{"initials":"AG","lastname":"Brooks","name":"Brooks AG"},{"initials":"GS","lastname":"Besra","name":"Besra GS"},{"initials":"J","lastname":"McCluskey","name":"McCluskey J"},{"initials":"L","lastname":"Gapin","name":"Gapin L"},{"initials":"SA","lastname":"Porcelli","name":"Porcelli SA"},{"initials":"DI","lastname":"Godfrey","name":"Godfrey DI"},{"initials":"J","lastname":"Rossjohn","name":"Rossjohn J"}],"identifier":[{"id":"10.1016/j.immuni.2011.02.001","type":"doi"},{"id":"21376639","type":"pubmed"}],"issue":["3"],"journal":{"iso_abbreviation":"Immunity","name":""},"pages":["327-39"],"title":"A molecular basis for the exquisite CD1d-restricted antigen specificity and functional responses of natural killer T cells.","type":"article","url":"https://www.sciencedirect.com/science/article/abs/pii/S1074761311000392","volume":["34"],"year":[2011]},"in_pmc":"Y","in_pmce":"Y","open_access":"N"},"resolution":"2.80","same_as":{"pdbe":{"url":"https://www.ebi.ac.uk/pdbe/entry/pdb/3are"},"rcsb":{"url":"https://www.rcsb.org/structure/3are"},"stcrdab":{"url":"http://opig.stats.ox.ac.uk/webapps/stcrdab/StrViewer?pdb=3are"}},"species":{"common_name":"Mouse","match_type":"histo:assign_species","scientific_name":"Mus musculus","slug":"mus_musculus"},"tcr":{"alpha":{"chains":["C"],"subgroup":"TRAV11"},"beta":{"chains":["D"],"subgroup":"TRBV13"},"pdb_code":"3are"},"title":"Non-classical MHC Class I molecule CD1d with Natural Killer Alpha/Beta T cell receptor at 2.80Å resolution","unique_chain_count":4}}