{"display":true,"structure":{"allele":{"alpha":{"identifier":"ipd-imgt:HLA35266","locus":"hla-a","match_type":"histo:fuzzy","name":"HLA-A*02:01","slug":"hla_a_02_01","species_stem":"hla"},"beta":{}},"assemblies":{"1":{"assembly_name":"3gsx_1","chains":["A","B","P"],"downloaded_at":"2022-11-09T14:36:57.187894"}},"assembly_count":null,"assigned_chains":{"beta2m":{"chains":["B"],"match_type":"histo:assign_chains","score":0.99,"sequence":"MIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKDWSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM"},"class_i_alpha":{"chains":["A"],"match_type":"histo:assign_chains","score":0.99,"sequence":"GSHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGPEYWDGETRKVKAHSQTHRVDLGTLRGYYNQSEAGSHTVQRMYGCDVGSDWRFLRGYHQYAYDGKDYIALKEDLRSWTAADMAAQTTKHKWEAAHVAEQLRAYLEGTCVEWLRRYLENGKETLQRTDAPKTHMTHHAVSDHEATLRCWALSFYPAEITLTWQRDGEDQTQDTELVETRPAGDGTFQKWVAVVVPSGQEQRYTCHVQHEGLPKPLTLRW"},"peptide":{"chains":["P"],"match_type":"histo:classify_peptide","sequence":"NLVPMVAVV"}},"chronology":{"deposition_date":"2009-03-27","deposition_year":2009,"release_date":"2009-08-04","release_year":2009,"revision_date":"2021-10-13","revision_year":2021},"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":"hla-a","manually_edited":{},"missing_residues":[],"page_title":"3GSX | HLA-A*02:01 binding \"NLVPMVAVV\"","pdb_code":"3gsx","pdb_title":"Crystal structure of the binary complex between hla-a2 and hcmv nlv-t8v peptide variant","peptide":{"P":{"actual_length":9,"actual_sequence":"NLVPMVAVV","chain_id":"P","features":["correct_sequence_and_length"],"full_length":9,"full_sequence":"NLVPMVAVV"}},"peptide_length":9,"peptide_length_name":"nonamer","peptide_neighbours":{"1":{"neighbours":[{"position":167,"residue":"TRP"},{"position":33,"residue":"PHE"},{"position":171,"residue":"TYR"},{"position":59,"residue":"TYR"},{"position":7,"residue":"TYR"},{"position":159,"residue":"TYR"},{"position":163,"residue":"THR"},{"position":63,"residue":"GLU"},{"position":66,"residue":"LYS"},{"position":5,"residue":"MET"}],"position":1,"residue":"ASN"},"2":{"neighbours":[{"position":159,"residue":"TYR"},{"position":70,"residue":"HIS"},{"position":63,"residue":"GLU"},{"position":66,"residue":"LYS"},{"position":45,"residue":"MET"},{"position":67,"residue":"VAL"},{"position":9,"residue":"PHE"},{"position":99,"residue":"TYR"},{"position":7,"residue":"TYR"}],"position":2,"residue":"LEU"},"3":{"neighbours":[{"position":159,"residue":"TYR"},{"position":66,"residue":"LYS"},{"position":156,"residue":"LEU"},{"position":70,"residue":"HIS"},{"position":99,"residue":"TYR"}],"position":3,"residue":"VAL"},"4":{"neighbours":[{"position":66,"residue":"LYS"},{"position":159,"residue":"TYR"}],"position":4,"residue":"PRO"},"5":{"neighbours":[{"position":155,"residue":"GLN"}],"position":5,"residue":"MET"},"6":{"neighbours":[{"position":70,"residue":"HIS"},{"position":69,"residue":"ALA"},{"position":73,"residue":"THR"},{"position":97,"residue":"ARG"}],"position":6,"residue":"VAL"},"7":{"neighbours":[{"position":77,"residue":"ASP"},{"position":152,"residue":"VAL"},{"position":97,"residue":"ARG"},{"position":73,"residue":"THR"},{"position":147,"residue":"TRP"}],"position":7,"residue":"ALA"},"8":{"neighbours":[{"position":77,"residue":"ASP"},{"position":143,"residue":"THR"},{"position":146,"residue":"LYS"},{"position":76,"residue":"VAL"},{"position":73,"residue":"THR"},{"position":147,"residue":"TRP"}],"position":8,"residue":"VAL"},"9":{"neighbours":[{"position":77,"residue":"ASP"},{"position":143,"residue":"THR"},{"position":80,"residue":"THR"},{"position":146,"residue":"LYS"},{"position":84,"residue":"TYR"},{"position":123,"residue":"TYR"},{"position":81,"residue":"LEU"},{"position":147,"residue":"TRP"},{"position":116,"residue":"TYR"}],"position":9,"residue":"VAL"}},"peptide_sequence":"NLVPMVAVV","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":"Protective T cell responses elicited along chronic human CMV (HCMV) infections are sometimes dominated by CD8 T cell clones bearing highly related or identical public TCR in unrelated individuals. To understand the principles that guide emergence of these public T cell responses, we have performed structural, biophysical, and functional analyses of an immunodominant public TCR (RA14) directed against a major HLA-A*0201-restricted HCMV Ag (pp65(495-503)) and selected in vivo from a diverse repertoire after chronic stimulations. Unlike the two immunodominant public TCRs crystallized so far, which focused on one peptide hotspot, the HCMV-specific RA14 TCR interacts with the full array of available peptide residues. The conservation of some peptide-MHC complex-contacting amino acids by lower-affinity TCRs suggests a shared TCR-peptide-MHC complex docking mode and supports an Ag-driven selection of optimal TCRs. Therefore, the emergence of a public TCR of an oligoclonal Ag-specific response after repeated viral stimulations is based on a receptor displaying a high structural complementarity with the entire peptide and focusing on three peptide hotspots. This highlights key parameters underlying the selection of a protective T cell response against HCMV infection, which remains a major health issue in patients undergoing bone marrow transplantation.","bibjson":{"author":[{"initials":"S","lastname":"Gras","name":"Gras S"},{"initials":"X","lastname":"Saulquin","name":"Saulquin X"},{"initials":"JB","lastname":"Reiser","name":"Reiser JB"},{"initials":"E","lastname":"Debeaupuis","name":"Debeaupuis E"},{"initials":"K","lastname":"Echasserieau","name":"Echasserieau K"},{"initials":"A","lastname":"Kissenpfennig","name":"Kissenpfennig A"},{"initials":"F","lastname":"Legoux","name":"Legoux F"},{"initials":"A","lastname":"Chouquet","name":"Chouquet A"},{"initials":"M","lastname":"Le Gorrec","name":"Le Gorrec M"},{"initials":"P","lastname":"Machillot","name":"Machillot P"},{"initials":"B","lastname":"Neveu","name":"Neveu B"},{"initials":"N","lastname":"Thielens","name":"Thielens N"},{"initials":"B","lastname":"Malissen","name":"Malissen B"},{"initials":"M","lastname":"Bonneville","name":"Bonneville M"},{"initials":"D","lastname":"Housset","name":"Housset D"}],"identifier":[{"id":"10.4049/jimmunol.0900556","type":"doi"},{"id":"19542454","type":"pubmed"}],"issue":["1"],"journal":{"iso_abbreviation":"J. Immunol.","name":""},"pages":["430-7"],"title":"Structural bases for the affinity-driven selection of a public TCR against a dominant human cytomegalovirus epitope.","type":"article","url":"http://www.jimmunol.org/lookup/doi/10.4049/jimmunol.0900556","volume":["183"],"year":[2009]},"in_pmc":"N","in_pmce":"N","open_access":"N"},"resolution":"2.10","same_as":{"pdbe":{"url":"https://www.ebi.ac.uk/pdbe/entry/pdb/3gsx"},"rcsb":{"url":"https://www.rcsb.org/structure/3gsx"}},"species":{"common_name":"Human","match_type":"histo:assign_species","scientific_name":"Homo sapiens","slug":"homo_sapiens"},"tcr":null,"title":"HLA-A*02:01 binding \"NLVPMVAVV\" at 2.10Å resolution","unique_chain_count":3}}