{"display":true,"structure":{"allele":{"alpha":{"identifier":"uniprot:P01899","locus":"h2-d","match_type":"histo:fuzzy","name":"H2-Db","slug":"h2_db","species_stem":"H2"},"beta":{}},"assemblies":{"1":{"assembly_name":"5l2k_1","chains":["A","B","D","E"],"downloaded_at":"2022-11-09T14:30:36.563884"}},"assembly_count":null,"assigned_chains":{"beta2m":{"chains":["B"],"match_type":"histo:assign_chains","score":0.99,"sequence":"IQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKDWSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRD"},"cd1b":{"chains":["A"],"match_type":"histo:assign_chains","score":0.97,"sequence":"HAFQGPTSFHVIQTSSFTNSTWAQTQGSGWLDDLQIHGWDSDSGTAIFLKPWSKGNFSDKEVAELEEIFRVYIFGFAREVQDFAGDFQMKYPFEIQGIAGCELHSGGAIVSFLRGALGGLDFLSVKNASCVPSPEGGSRAQKFCALIIQYQGIMETVRALLYETCPRYLLGVLNAGKADLQRQVKPEAWLSSGPSPGPGRLQLVCHVSGFYPKPVWVMWMRGEQEQQGTQLGDILPNANWTWYLRATLDVADGEAAGLSCRVKHSSLEGQDIILYWRGSGLNDIFEAQKIEWHEHHHHHH"},"tcr_alpha":{"chains":["D"],"match_type":"stcrdab","sequence":"GQNIDQPTEMTATEGAIVQINCTYQTSGFNGLFWYQQHAGEAPTFLSYNVLDGLEEKGRFSSFLSRSKGYSYLLLKELQMKDSASYLCAVRNTGGFKTIFGAGTRLFVKANIQNPDPAVYQLRDSKSSDKSVCLFTDFDSQTNVSQSKDSDVYITDKCVLDMRSMDFKSNSAVAWSNKSDFACANAFNNSIIPEDTFFPSPESS","subgroup":"TRAV1"},"tcr_beta":{"chains":["E"],"match_type":"stcrdab","sequence":"NAGVTQTPKFRVLKTGQSMTLLCAQDMNHEYMYWYRQDPGMGLRLIHYSVGEGTTAKGEVPDGYNVSRLKKQNFLLGLESAAPSQTSVYFCASSPRLAGDEQFFGPGTRLTVLEDLKNVFPPEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHSGVCTDPQPLKEQPALNDSRYALSSRLRVSATFWQNPRNHFRCQVQFYGLSENDEWTQDRAKPVTQIVSAEAWGRAD","subgroup":"TRBV6"}},"chronology":{"deposition_date":"2016-08-02","deposition_year":2016,"release_date":"2016-11-16","release_year":2016,"revision_date":"2020-07-29","revision_year":2020},"class":"class_i","classical":false,"complex_type":"cd1b_with_nkt_alpha_beta_tcr","components":["cd1b","beta2m","tcr_alpha","tcr_beta"],"experimental_method":"X-ray diffraction","facets":{},"ligands":[],"locus":"h2-d","manually_edited":{},"missing_residues":[],"page_title":"5L2K | Non-classical MHC Class I molecule CD1b with Natural Killer Alpha/Beta T cell receptor","pdb_code":"5l2k","pdb_title":"Crystal structure of gem42 TCR-CD1b-gmm 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":"CD1 proteins present microbial lipids to T cells. Germline-encoded mycolyl lipid-reactive (GEM) T cells with conserved \u03b1\u03b2 T cell receptors (TCRs) recognize CD1b presenting mycobacterial mycolates. As the molecular basis underpinning TCR recognition of CD1b remains unknown, here we determine the structure of a GEM TCR bound to CD1b presenting glucose-6-O-monomycolate (GMM). The GEM TCR docks centrally above CD1b, whereby the conserved TCR \u03b1-chain extensively contacts CD1b and GMM. Through mutagenesis and study of T cells from tuberculosis patients, we identify a consensus CD1b footprint of TCRs present among GEM T cells. Using both the TCR \u03b1- and \u03b2-chains as tweezers to surround and grip the glucose moiety of GMM, GEM TCRs create a highly specific mechanism for recognizing this mycobacterial glycolipid.","bibjson":{"author":[{"initials":"S","lastname":"Gras","name":"Gras S"},{"initials":"I","lastname":"Van Rhijn","name":"Van Rhijn I"},{"initials":"A","lastname":"Shahine","name":"Shahine A"},{"initials":"TY","lastname":"Cheng","name":"Cheng TY"},{"initials":"M","lastname":"Bhati","name":"Bhati M"},{"initials":"LL","lastname":"Tan","name":"Tan LL"},{"initials":"H","lastname":"Halim","name":"Halim H"},{"initials":"KD","lastname":"Tuttle","name":"Tuttle KD"},{"initials":"L","lastname":"Gapin","name":"Gapin L"},{"initials":"J","lastname":"Le Nours","name":"Le Nours J"},{"initials":"DB","lastname":"Moody","name":"Moody DB"},{"initials":"J","lastname":"Rossjohn","name":"Rossjohn J"}],"identifier":[{"id":"10.1038/ncomms13257","type":"doi"},{"id":"27807341","type":"pubmed"}],"issue":[null],"journal":{"iso_abbreviation":"Nat Commun","name":""},"pages":["13257"],"title":"T cell receptor recognition of CD1b presenting a mycobacterial glycolipid.","type":"article","url":"http://www.nature.com/articles/ncomms13257","volume":["7"],"year":[2016]},"in_pmc":"N","in_pmce":"Y","open_access":"Y"},"resolution":"3.20","same_as":{"pdbe":{"url":"https://www.ebi.ac.uk/pdbe/entry/pdb/5l2k"},"rcsb":{"url":"https://www.rcsb.org/structure/5l2k"},"stcrdab":{"url":"http://opig.stats.ox.ac.uk/webapps/stcrdab/StrViewer?pdb=5l2k"}},"species":{"common_name":"Human","match_type":"histo:assign_species","scientific_name":"Homo sapiens","slug":"homo_sapiens"},"tcr":{"alpha":{"chains":["D"],"subgroup":"TRAV1"},"beta":{"chains":["E"],"subgroup":"TRBV6"},"pdb_code":"5l2k"},"title":"Non-classical MHC Class I molecule CD1b with Natural Killer Alpha/Beta T cell receptor at 3.20Å resolution","unique_chain_count":4}}