{"display":true,"structure":{"allele":{"alpha":{"identifier":"ipd-mhc:RT108344","locus":"rano-a","match_type":"histo:exact","name":"Rano-A*av1","slug":"rano_a_av1","species_stem":"Rano"},"beta":{}},"assemblies":{"1":{"assembly_name":"1ed3_1","chains":["A","B","C"],"downloaded_at":"2022-11-09T14:45:49.507486"},"2":{"assembly_name":"1ed3_2","chains":["D","E","F"],"downloaded_at":"2022-11-09T14:45:49.959462"}},"assembly_count":null,"assigned_chains":{"beta2m":{"chains":["B","E"],"match_type":"histo:assign_chains","score":1.0,"sequence":"IQKTPQIQVYSRHPPENGKPNFLNCYVSQFHPPQIEIELLKNGKKIPNIEMSDLSFSKDWSFYILAHTEFTPTETDVYACRVKHVTLKEPKTVTWDRDM"},"class_i_alpha":{"chains":["A","D"],"match_type":"histo:assign_chains","score":1.0,"sequence":"GSHSLRYFYTAVSRPGLGEPRFIAVGYVDDTEFVRFDSDAENPRMEPRARWMEREGPEYWEQQTRIAKEWEQIYRVDLRTLRGYYNQSEGGSHTIQEMYGCDVGSDGSLLRGYRQDAYDGRDYIALNEDLKTWTAADFAAQITRNKWERARYAERLRAYLEGTCVEWLSRYLELGKETLLRSDPPEAHVTLHPRPEGDVTLRCWALGFYPADITLTWQLNGEDLTQDMELVETRPAGDGTFQKWASVVVPLGKEQNYTCRVEHEGLPKPLSQRWE"},"peptide":{"chains":["C","F"],"match_type":"histo:classify_peptide","sequence":"ILFPSSERLISNR"}},"chronology":{"deposition_date":"2000-01-26","deposition_year":2000,"release_date":"2001-02-28","release_year":2001,"revision_date":"2018-01-24","revision_year":2018},"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":"rano-a","manually_edited":{},"missing_residues":[],"page_title":"1ED3 | Rano-A*av1 binding \"ILFPSSERLISNR\"","pdb_code":"1ed3","pdb_title":"Crystal structure of rat minor histocompatibility antigen complex rt1-aa/mtf-e.","peptide":{"C":{"actual_length":13,"actual_sequence":"ILFPSSERLISNR","chain_id":"C","features":["correct_sequence_and_length"],"full_length":13,"full_sequence":"ILFPSSERLISNR"},"F":{"actual_length":13,"actual_sequence":"ILFPSSERLISNR","chain_id":"F","features":["correct_sequence_and_length"],"full_length":13,"full_sequence":"ILFPSSERLISNR"}},"peptide_length":13,"peptide_length_name":"tridecamer","peptide_neighbours":{"1":{"neighbours":[{"position":59,"residue":"TYR"},{"position":7,"residue":"TYR"},{"position":63,"residue":"GLN"},{"position":171,"residue":"TYR"},{"position":5,"residue":"LEU"},{"position":163,"residue":"THR"},{"position":167,"residue":"TRP"},{"position":62,"residue":"GLN"},{"position":159,"residue":"TYR"}],"position":1,"residue":"ILE"},"10":{"neighbours":[{"position":66,"residue":"ILE"},{"position":69,"residue":"GLU"},{"position":152,"residue":"TYR"},{"position":155,"residue":"ARG"},{"position":73,"residue":"ILE"},{"position":70,"residue":"TRP"}],"position":10,"residue":"ILE"},"11":{"neighbours":[{"position":152,"residue":"TYR"},{"position":155,"residue":"ARG"},{"position":77,"residue":"ASP"},{"position":73,"residue":"ILE"},{"position":147,"residue":"TRP"},{"position":150,"residue":"ALA"}],"position":11,"residue":"SER"},"12":{"neighbours":[{"position":77,"residue":"ASP"},{"position":73,"residue":"ILE"},{"position":76,"residue":"VAL"},{"position":146,"residue":"LYS"},{"position":143,"residue":"THR"},{"position":147,"residue":"TRP"}],"position":12,"residue":"ASN"},"13":{"neighbours":[{"position":116,"residue":"ASP"},{"position":81,"residue":"LEU"},{"position":147,"residue":"TRP"},{"position":74,"residue":"TYR"},{"position":123,"residue":"TYR"},{"position":114,"residue":"ARG"},{"position":80,"residue":"THR"},{"position":84,"residue":"TYR"},{"position":77,"residue":"ASP"},{"position":95,"residue":"ILE"},{"position":146,"residue":"LYS"},{"position":143,"residue":"THR"},{"position":97,"residue":"GLU"}],"position":13,"residue":"ARG"},"2":{"neighbours":[{"position":63,"residue":"GLN"},{"position":66,"residue":"ILE"},{"position":159,"residue":"TYR"},{"position":163,"residue":"THR"},{"position":67,"residue":"ALA"},{"position":70,"residue":"TRP"},{"position":9,"residue":"TYR"},{"position":7,"residue":"TYR"},{"position":45,"residue":"MET"},{"position":99,"residue":"TYR"},{"position":24,"residue":"ALA"}],"position":2,"residue":"LEU"},"3":{"neighbours":[{"position":156,"residue":"LEU"},{"position":152,"residue":"TYR"},{"position":155,"residue":"ARG"},{"position":159,"residue":"TYR"},{"position":70,"residue":"TRP"},{"position":9,"residue":"TYR"},{"position":7,"residue":"TYR"},{"position":99,"residue":"TYR"}],"position":3,"residue":"PHE"},"4":{"neighbours":[{"position":69,"residue":"GLU"},{"position":70,"residue":"TRP"},{"position":9,"residue":"TYR"},{"position":66,"residue":"ILE"}],"position":4,"residue":"PRO"},"5":{"neighbours":[{"position":163,"residue":"THR"},{"position":62,"residue":"GLN"},{"position":66,"residue":"ILE"}],"position":5,"residue":"SER"},"6":{"neighbours":[{"position":62,"residue":"GLN"},{"position":69,"residue":"GLU"},{"position":66,"residue":"ILE"}],"position":6,"residue":"SER"},"7":{"neighbours":[{"position":65,"residue":"ARG"},{"position":62,"residue":"GLN"},{"position":66,"residue":"ILE"},{"position":69,"residue":"GLU"}],"position":7,"residue":"GLU"},"8":{"neighbours":[{"position":69,"residue":"GLU"}],"position":8,"residue":"ARG"},"9":{"neighbours":[{"position":69,"residue":"GLU"},{"position":152,"residue":"TYR"},{"position":155,"residue":"ARG"}],"position":9,"residue":"LEU"}},"peptide_sequence":"ILFPSSERLISNR","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":"L","three_letter":"LEU"},"a59":{"number":59,"one_letter":"Y","three_letter":"TYR"},"a63":{"number":63,"one_letter":"Q","three_letter":"GLN"},"a66":{"number":66,"one_letter":"I","three_letter":"ILE"},"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":"Q","three_letter":"GLN"},"a66":{"number":66,"one_letter":"I","three_letter":"ILE"},"a67":{"number":67,"one_letter":"A","three_letter":"ALA"},"a7":{"number":7,"one_letter":"Y","three_letter":"TYR"},"a70":{"number":70,"one_letter":"W","three_letter":"TRP"},"a9":{"number":9,"one_letter":"Y","three_letter":"TYR"},"a99":{"number":99,"one_letter":"Y","three_letter":"TYR"}},"c":{"a70":{"number":70,"one_letter":"W","three_letter":"TRP"},"a73":{"number":73,"one_letter":"I","three_letter":"ILE"},"a74":{"number":74,"one_letter":"Y","three_letter":"TYR"},"a9":{"number":9,"one_letter":"Y","three_letter":"TYR"},"a97":{"number":97,"one_letter":"E","three_letter":"GLU"}},"d":{"a114":{"number":114,"one_letter":"R","three_letter":"ARG"},"a155":{"number":155,"one_letter":"R","three_letter":"ARG"},"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":"R","three_letter":"ARG"},"a147":{"number":147,"one_letter":"W","three_letter":"TRP"},"a152":{"number":152,"one_letter":"Y","three_letter":"TYR"},"a156":{"number":156,"one_letter":"L","three_letter":"LEU"},"a97":{"number":97,"one_letter":"E","three_letter":"GLU"}},"f":{"a116":{"number":116,"one_letter":"D","three_letter":"ASP"},"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":"I","three_letter":"ILE"}}},"publication":{"abstract":"The rat MHC class Ia molecule RT1-Aa has the unusual capacity to bind long peptides ending in arginine, such as MTF-E, a thirteen-residue, maternally transmitted minor histocompatibility antigen. The antigenic structure of MTF-E was unpredictable due to its extraordinary length and two arginines that could serve as potential anchor residues. The crystal structure of RT1-Aa-MTF-E at 2.55 A shows that both peptide termini are anchored, as in other class I molecules, but the central residues in two independent pMHC complexes adopt completely different bulged conformations based on local environment. The MTF-E epitope is fully exposed within the putative T cell receptor (TCR) footprint. The flexibility demonstrated by the MTF-E structures illustrates how different TCRs may be raised against chemically identical, but structurally dissimilar, pMHC complexes.","bibjson":{"author":[{"initials":"JA","lastname":"Speir","name":"Speir JA"},{"initials":"J","lastname":"Stevens","name":"Stevens J"},{"initials":"E","lastname":"Joly","name":"Joly E"},{"initials":"GW","lastname":"Butcher","name":"Butcher GW"},{"initials":"IA","lastname":"Wilson","name":"Wilson IA"}],"identifier":[{"id":"10.1016/s1074-7613(01)00091-7","type":"doi"},{"id":"11163232","type":"pubmed"}],"issue":["1"],"journal":{"iso_abbreviation":"Immunity","name":""},"pages":["81-92"],"title":"Two different, highly exposed, bulged structures for an unusually long peptide bound to rat MHC class I RT1-Aa.","type":"article","url":"https://www.sciencedirect.com/science/article/abs/pii/S1074761301000917","volume":["14"],"year":[2001]},"in_pmc":"N","in_pmce":"N","open_access":"N"},"resolution":"2.55","same_as":{"pdbe":{"url":"https://www.ebi.ac.uk/pdbe/entry/pdb/1ed3"},"rcsb":{"url":"https://www.rcsb.org/structure/1ed3"}},"species":{"common_name":"Norway Rat","match_type":"histo:assign_species","scientific_name":"Rattus norvegicus","slug":"rattus_norvegicus"},"tcr":null,"title":"Rano-A*av1 binding \"ILFPSSERLISNR\" at 2.55&#8491; resolution","unique_chain_count":3}}
