{"display":true,"structure":{"allele":{"alpha":{"identifier":"uniprot:P01899","locus":"h2-d","match_type":"histo:exact","name":"H2-Db","slug":"h2_db","species_stem":"H2"},"beta":{}},"assemblies":{"1":{"assembly_name":"1n3n_1","chains":["A","B","I"],"downloaded_at":"2022-11-09T14:37:40.299665"},"2":{"assembly_name":"1n3n_2","chains":["G","H","L"],"downloaded_at":"2022-11-09T14:37:40.727276"},"3":{"assembly_name":"1n3n_3","chains":["E","F","K"],"downloaded_at":"2022-11-09T14:37:41.089660"},"4":{"assembly_name":"1n3n_4","chains":["C","D","J"],"downloaded_at":"2022-11-09T14:37:41.387660"}},"assembly_count":null,"assigned_chains":{"beta2m":{"chains":["B","D","F","H"],"match_type":"histo:assign_chains","score":1.0,"sequence":"IQKTPQIQVYSRHPPENGKPNILNCYVTQFHPPHIEIQMLKNGKKIPKVEMSDMSFSKDWSFYILAHTEFTPTETDTYACRVKHDSMAEPKTVYWDRDM"},"class_i_alpha":{"chains":["A","C","E","G"],"match_type":"histo:assign_chains","score":0.99,"sequence":"GPHSMRYFETAVSRPGLEEPRYISVGYVDNKEFVRFDSDAENPRYEPRAPWMEQEGPEYWERETQKAKGQEQWFRVSLRNLLGYYNQSAGGSHTLQQMSGCDLGSDWRLLRGYLQFAYEGRDYIALNEDLKTWTAADMAAQITRRKWEQSGAAEHYKAYLEGECVEWLHRYLKNGNATLLRTDSPKAHVTHHPRSKGEVTLRCWALGFYPADITLTWQLNGEELTQDMELVETRPAGDGTFQKWASVVVPLGKEQNYTCRVYHEGLPEPLTLRWEPPPST"},"peptide":{"chains":["I","J","K","L"],"match_type":"histo:classify_peptide","sequence":"SALQNAASIA"}},"chronology":{"deposition_date":"2002-10-29","deposition_year":2002,"release_date":"2003-05-27","release_year":2003,"revision_date":"2011-07-13","revision_year":2011},"class":"class_i","classical":true,"complex_type":"class_i_with_peptide","components":["class_i_alpha","beta2m","peptide"],"experimental_method":"X-ray diffraction","facets":{},"ligands":[],"locus":"h2-d","manually_edited":{},"missing_residues":[],"page_title":"1N3N | H2-Db binding \"SALQNAASIA\"","pdb_code":"1n3n","pdb_title":"Crystal structure of a mycobacterial hsp60 epitope with the murine Class I MHC molecule h-2db","peptide":{"I":{"actual_length":10,"actual_sequence":"SALQNAASIA","chain_id":"I","features":["correct_sequence_and_length"],"full_length":10,"full_sequence":"SALQNAASIA"},"J":{"actual_length":10,"actual_sequence":"SALQNAASIA","chain_id":"J","features":["correct_sequence_and_length"],"full_length":10,"full_sequence":"SALQNAASIA"},"K":{"actual_length":10,"actual_sequence":"SALQNAASIA","chain_id":"K","features":["correct_sequence_and_length"],"full_length":10,"full_sequence":"SALQNAASIA"},"L":{"actual_length":10,"actual_sequence":"SALQNAASIA","chain_id":"L","features":["correct_sequence_and_length"],"full_length":10,"full_sequence":"SALQNAASIA"}},"peptide_length":10,"peptide_length_name":"decamer","peptide_neighbours":{"1":{"neighbours":[{"position":159,"residue":"TYR"},{"position":59,"residue":"TYR"},{"position":63,"residue":"GLU"},{"position":66,"residue":"LYS"},{"position":167,"residue":"TRP"},{"position":171,"residue":"TYR"},{"position":7,"residue":"TYR"},{"position":5,"residue":"MET"},{"position":163,"residue":"GLU"}],"position":1,"residue":"SER"},"10":{"neighbours":[{"position":84,"residue":"TYR"},{"position":143,"residue":"THR"},{"position":147,"residue":"TRP"},{"position":123,"residue":"TYR"},{"position":73,"residue":"TRP"},{"position":80,"residue":"ASN"},{"position":146,"residue":"LYS"},{"position":81,"residue":"LEU"},{"position":77,"residue":"SER"}],"position":10,"residue":"ALA"},"2":{"neighbours":[{"position":163,"residue":"GLU"},{"position":7,"residue":"TYR"},{"position":159,"residue":"TYR"},{"position":63,"residue":"GLU"},{"position":66,"residue":"LYS"},{"position":45,"residue":"TYR"}],"position":2,"residue":"ALA"},"3":{"neighbours":[{"position":155,"residue":"HIS"},{"position":97,"residue":"GLN"},{"position":9,"residue":"GLU"},{"position":156,"residue":"TYR"},{"position":7,"residue":"TYR"},{"position":159,"residue":"TYR"},{"position":66,"residue":"LYS"},{"position":114,"residue":"LEU"},{"position":70,"residue":"GLN"},{"position":99,"residue":"SER"}],"position":3,"residue":"LEU"},"4":{"neighbours":[{"position":156,"residue":"TYR"},{"position":66,"residue":"LYS"},{"position":163,"residue":"GLU"},{"position":70,"residue":"GLN"},{"position":155,"residue":"HIS"}],"position":4,"residue":"GLN"},"5":{"neighbours":[{"position":155,"residue":"HIS"},{"position":97,"residue":"GLN"},{"position":9,"residue":"GLU"},{"position":156,"residue":"TYR"},{"position":74,"residue":"PHE"},{"position":73,"residue":"TRP"},{"position":116,"residue":"PHE"},{"position":70,"residue":"GLN"}],"position":5,"residue":"ASN"},"6":{"neighbours":[{"position":73,"residue":"TRP"},{"position":152,"residue":"ALA"},{"position":155,"residue":"HIS"},{"position":156,"residue":"TYR"}],"position":6,"residue":"ALA"},"7":{"neighbours":[{"position":73,"residue":"TRP"}],"position":7,"residue":"ALA"},"8":{"neighbours":[{"position":152,"residue":"ALA"},{"position":147,"residue":"TRP"},{"position":150,"residue":"SER"},{"position":156,"residue":"TYR"},{"position":73,"residue":"TRP"},{"position":146,"residue":"LYS"}],"position":8,"residue":"SER"},"9":{"neighbours":[{"position":76,"residue":"VAL"},{"position":73,"residue":"TRP"},{"position":77,"residue":"SER"},{"position":80,"residue":"ASN"},{"position":146,"residue":"LYS"},{"position":143,"residue":"THR"},{"position":147,"residue":"TRP"}],"position":9,"residue":"ILE"}},"peptide_sequence":"SALQNAASIA","pockets":{"a":{"a159":{"number":159,"one_letter":"Y","three_letter":"TYR"},"a163":{"number":163,"one_letter":"E","three_letter":"GLU"},"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":"S","three_letter":"SER"},"a34":{"number":34,"one_letter":"V","three_letter":"VAL"},"a45":{"number":45,"one_letter":"Y","three_letter":"TYR"},"a63":{"number":63,"one_letter":"E","three_letter":"GLU"},"a66":{"number":66,"one_letter":"K","three_letter":"LYS"},"a67":{"number":67,"one_letter":"A","three_letter":"ALA"},"a7":{"number":7,"one_letter":"Y","three_letter":"TYR"},"a70":{"number":70,"one_letter":"Q","three_letter":"GLN"},"a9":{"number":9,"one_letter":"E","three_letter":"GLU"},"a99":{"number":99,"one_letter":"S","three_letter":"SER"}},"c":{"a70":{"number":70,"one_letter":"Q","three_letter":"GLN"},"a73":{"number":73,"one_letter":"W","three_letter":"TRP"},"a74":{"number":74,"one_letter":"F","three_letter":"PHE"},"a9":{"number":9,"one_letter":"E","three_letter":"GLU"},"a97":{"number":97,"one_letter":"Q","three_letter":"GLN"}},"d":{"a114":{"number":114,"one_letter":"L","three_letter":"LEU"},"a155":{"number":155,"one_letter":"H","three_letter":"HIS"},"a156":{"number":156,"one_letter":"Y","three_letter":"TYR"},"a159":{"number":159,"one_letter":"Y","three_letter":"TYR"},"a160":{"number":160,"one_letter":"L","three_letter":"LEU"},"a99":{"number":99,"one_letter":"S","three_letter":"SER"}},"e":{"a114":{"number":114,"one_letter":"L","three_letter":"LEU"},"a147":{"number":147,"one_letter":"W","three_letter":"TRP"},"a152":{"number":152,"one_letter":"A","three_letter":"ALA"},"a156":{"number":156,"one_letter":"Y","three_letter":"TYR"},"a97":{"number":97,"one_letter":"Q","three_letter":"GLN"}},"f":{"a116":{"number":116,"one_letter":"F","three_letter":"PHE"},"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":"S","three_letter":"SER"},"a80":{"number":80,"one_letter":"N","three_letter":"ASN"},"a81":{"number":81,"one_letter":"L","three_letter":"LEU"},"a84":{"number":84,"one_letter":"Y","three_letter":"TYR"},"a95":{"number":95,"one_letter":"L","three_letter":"LEU"}}},"publication":{"abstract":"The decameric peptide SALQNAASIA from the Mycobacterium bovis heat shock protein (hsp) 60 is recognized by the murine T-cell receptor UZ-3-4 in complex with the murine class I major histocompatibility complex molecule H-2D(b). This T-cell receptor cross-reacts with the H-2D(b)-bound non-homologous decameric peptide KDIGNIISDA from the murine hsp60, but does not recognize the nonameric mycobacterial peptide SALQNAASI. Cross-recognition of the KDIGNIISDA/H-2D(b) complex induces autoimmune pathology in immunodeficient mice. We solved the X-ray crystal structure of the SALQNAASIA/H-2D(b) complex at 3.0 A resolution, and we modelled the KDIGNIISDA and SALQNAASI peptides in the H-2D(b) binding site. The structural analysis of the H-2D(b)-bound hsp60 epitopes offers insight into T-cell receptor cross-reactivity.","bibjson":{"author":[{"initials":"C","lastname":"Ciatto","name":"Ciatto C"},{"initials":"G","lastname":"Capitani","name":"Capitani G"},{"initials":"AC","lastname":"Tissot","name":"Tissot AC"},{"initials":"F","lastname":"Pecorari","name":"Pecorari F"},{"initials":"A","lastname":"Pl\u00fcckthun","name":"Pl\u00fcckthun A"},{"initials":"MG","lastname":"Gr\u00fctter","name":"Gr\u00fctter MG"}],"identifier":[{"id":"10.1016/s0014-5793(03)00325-9","type":"doi"},{"id":"12753896","type":"pubmed"}],"issue":["1-3"],"journal":{"iso_abbreviation":"FEBS Lett.","name":""},"pages":["11-5"],"title":"Structural analysis of mycobacterial and murine hsp60 epitopes in complex with the class I MHC molecule H-2Db.","type":"article","url":"http://doi.wiley.com/10.1016/S0014-5793%2803%2900325-9","volume":["543"],"year":[2003]},"in_pmc":"N","in_pmce":"N","open_access":"N"},"resolution":"3.00","same_as":{"pdbe":{"url":"https://www.ebi.ac.uk/pdbe/entry/pdb/1n3n"},"rcsb":{"url":"https://www.rcsb.org/structure/1n3n"}},"species":{"common_name":"Mouse","match_type":"histo:assign_species","scientific_name":"Mus musculus","slug":"mus_musculus"},"tcr":null,"title":"H2-Db binding \"SALQNAASIA\" at 3.00Å resolution","unique_chain_count":3}}