{"display":true,"structure":{"allele":{"alpha":{"identifier":"ipd-imgt:HLA34790","locus":"hla-a","match_type":"histo:exact","name":"HLA-A*24:02","slug":"hla_a_24_02","species_stem":"hla"},"beta":{}},"assemblies":{"1":{"assembly_name":"3tn0_1","chains":["A","B","C","D","E"],"downloaded_at":"2022-11-09T14:29:33.332745"}},"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":"2011-09-01","deposition_year":2011,"release_date":"2011-12-14","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-a","manually_edited":{},"missing_residues":[],"page_title":"3TN0 | Non-classical MHC Class I molecule CD1d with Natural Killer Alpha/Beta T cell receptor","pdb_code":"3tn0","pdb_title":"Structure of mouse va14vb8.2nkt TCR-mouse CD1d-a-c-galactosylceramide complex","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":"NKT cells respond to a variety of CD1d-restricted glycolipid Ags that are structurally related to the prototypic Ag \u03b1-galactosylceramide (\u03b1-GalCer). A modified analog of \u03b1-GalCer with a carbon-based glycosidic linkage (\u03b1-C-GalCer) has generated great interest because of its apparent ability to promote prolonged, Th1-biased immune responses. In this study, we report the activation of spleen NKT cells to \u03b1-C-GalCer, and related C-glycoside ligands, is weaker than that of \u03b1-GalCer. Furthermore, the V\u03b28.2 and V\u03b27 NKT TCR affinity for CD1d-\u03b1-C-GalCer, and some related analogs, is \u223c10-fold lower than that for the NKT TCR-CD1d-\u03b1-GalCer interaction. Nevertheless, the crystal structure of the V\u03b28.2 NKT TCR-CD1d-\u03b1-C-GalCer complex is similar to that of the corresponding NKT TCR-CD1d-\u03b1-GalCer complex, although subtle differences at the interface provide a basis for understanding the lower affinity of the NKT TCR-CD1d-\u03b1-C-GalCer interaction. Our findings support the concept that for CD1d-restricted NKT cells, altered glycolipid ligands can promote markedly different responses while adopting similar TCR-docking topologies.","bibjson":{"author":[{"initials":"O","lastname":"Patel","name":"Patel O"},{"initials":"G","lastname":"Cameron","name":"Cameron G"},{"initials":"DG","lastname":"Pellicci","name":"Pellicci DG"},{"initials":"Z","lastname":"Liu","name":"Liu Z"},{"initials":"HS","lastname":"Byun","name":"Byun HS"},{"initials":"T","lastname":"Beddoe","name":"Beddoe T"},{"initials":"J","lastname":"McCluskey","name":"McCluskey J"},{"initials":"RW","lastname":"Franck","name":"Franck RW"},{"initials":"AR","lastname":"Casta\u00f1o","name":"Casta\u00f1o AR"},{"initials":"Y","lastname":"Harrak","name":"Harrak Y"},{"initials":"A","lastname":"Llebaria","name":"Llebaria A"},{"initials":"R","lastname":"Bittman","name":"Bittman R"},{"initials":"SA","lastname":"Porcelli","name":"Porcelli SA"},{"initials":"DI","lastname":"Godfrey","name":"Godfrey DI"},{"initials":"J","lastname":"Rossjohn","name":"Rossjohn J"}],"identifier":[{"id":"10.4049/jimmunol.1100794","type":"doi"},{"id":"21964029","type":"pubmed"}],"issue":["9"],"journal":{"iso_abbreviation":"J. Immunol.","name":""},"pages":["4705-13"],"title":"NKT TCR recognition of CD1d-\ufffd\ufffd-C-galactosylceramide.","type":"article","url":"http://www.jimmunol.org/lookup/doi/10.4049/jimmunol.1100794","volume":["187"],"year":[2011]},"in_pmc":"Y","in_pmce":"Y","open_access":"N"},"resolution":"3.20","same_as":{"pdbe":{"url":"https://www.ebi.ac.uk/pdbe/entry/pdb/3tn0"},"rcsb":{"url":"https://www.rcsb.org/structure/3tn0"},"stcrdab":{"url":"http://opig.stats.ox.ac.uk/webapps/stcrdab/StrViewer?pdb=3tn0"}},"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":"3tn0"},"title":"Non-classical MHC Class I molecule CD1d with Natural Killer Alpha/Beta T cell receptor at 3.20Å resolution","unique_chain_count":4}}