Table 1.
Patient TCRs with predicted SARS-CoV-2-specificity, as determined by GLIPH2 clustering with known HLA-A*02:01-restricted SARS-CoV-2-specific TCRs.
| SARS-CoV-2 specificity group | Motif | TRBV | TRBJ | CDR3β | TRAV | TRAJ | CDR3α | Patient | Clone |
|---|---|---|---|---|---|---|---|---|---|
| Group 1 | QNTG | TRBV6-6 | TRBJ2-2 | CASSMARAQNTGELFF | TRAV25 | TRAJ35 | CAGSIGFGNVLHC | Pt-2 | 20 |
| QNTG | TRBV25-1 | TRBJ2-2 | CASRDSQNTGELFF | TRAV12-2 | TRAJ42 | CAVNSYGGSQGNLIF | Pt-8 | 1059 | |
| Group 3 | DIE | TRBV11-2 | TRBJ2-5 | CASSLADIERETQYF | TRAV2 | TRAJ15 | CAVRDQAGTALIF | Pt-8 | 1420 |
| DIE | TRBV28 | TRBJ2-1 | CASIRDIEINEQFF | TRAV12-1 | TRAJ15 | CVVFNQAGTALIF | Pt-8 | 2740 | |
| Group 6 | DLNT | TRBV5-5 | TRBJ1-1 | CASKRDLNTEAFF | TRAV1-1 | TRAJ34 | CAALLGPDKLIF | Pt-8 | 1310 |
| DLNT | TRBV19 | TRBJ2-2 | CASDRGDLNTGELFF | TRAV12-2 | TRAJ10 | CAVRLTGGGNKLTF | Pt-8 | 2520 | |
| DLNT | TRBV11-2 | TRBJ2-2 | CASSSDLNTGELFF | TRAV9-2 | TRAJ28 | CALYSGAGSYQLTF | Pt-8 | 2718 | |
| Group 38 | SPD_E | TRBV7-6 | TRBJ2-1 | CASSPDNEQFF | TRAV20 | TRAJ5 | CAVQAATGRRALTF | Pt-4 | 375 |
| Group 44 | SDLD | TRBV6-4 | TRBJ2-6 | CASSDLDRAGANVLTF | TRAV3 | TRAJ31 | CAVRDKPRLMF | Pt-2 | 723 |
| SDLD | TRBV10-3 | TRBJ2-5 | CAISDLDRGILETQYF | TRAV8-1 | TRAJ26 | CAVKTYGQNFVF | Pt-4 | 1849 | |
| Group 48 | EQNT | TRBV3-1 | TRBJ1-1 | CASSQEQNTEAFF | TRAV8-3 | TRAJ28 | CAVGAPGAGSYQLTF | Pt-8 | 3180 |
| Group 59 | DEVA | TRBV24-1 | TRBJ2-2 | CATSDEVAVGELFF | TRAV8-6 | TRAJ42 | CAARRSQGNLIF | Pt-8 | 2090 |
| DEVA | TRBV4-1 | TRBJ2-2 | CASSQDEVASGELFF | TRAV3 | TRAJ35 | CAVSPAALGFGNVLHC | Pt-8 | 2652 | |
| Group 61 | SLD_E | TRBV13 | TRBJ2-7 | CASSLDWEQYF | TRAV26-1 | TRAJ13 | CIVRHSGGYQKVTF | Pt-2 | 8 |
| SLD_E | TRBV12-4 | TRBJ1-1 | CASSLDTEAFF | TRAV6 | TRAJ15 | CAPGWAGTALIF | Pt-8 | 922 | |
| Group 79 | S_ANTGE | TRBV5-4 | TRBJ2-2 | CASSYANTGELFF | TRAV39 | TRAJ33 | CAVGVDSNYQLIW | Pt-4 | 1104 |
| Group 82 | S_GTGHQP | TRBV15 | TRBJ1-5 | CATSKGTGHQPQHF | TRAV12-1 | TRAJ20 | CVVRGSNDYKLSF | Pt-8 | 827 |
| Group 98 | SIIG | TRBV19 | TRBJ1-5 | CASSIIGNQPQHF | TRAV26-2 | TRAJ53 | CILNSGGSNYKLTF | Pt-2 | 547 |
| SIIG | TRBV16 | TRBJ2-5 | CASSQSIIGGTETQYF | TRAV5 | TRAJ30 | CAEKGDKIIF | Pt-4 | 949 | |
| Group 102 | SKGN | TRBV6-6 | TRBJ1-5 | CASSYSKGNQPQHF | TRAV26-2 | TRAJ48 | CILSRNFGNEKLTF | Pt-4 | 1445 |
| SKGN | TRBV10-3 | TRBJ1-3 | CAISESKGNTIYF | TRAV10 | TRAJ26 | CVVSADNYGQNFVF | Pt-8 | 1621 | |
| Group 166 | SLGTG_D | TRBV7-9 | TRBJ1-2 | CASSLGTGDDDTF | TRAV16 | TRAJ33 | CALLGDSNYQLIW | Pt-8 | 418 |
| Group 181 | SDGTS_E | TRBV10-3 | TRBJ2-7 | CAISDGTSYEQYF | TRAV25 | TRAJ53 | CAGPGVSSGGSNYKLTF | Pt-8 | 3305 |
| Group 192 | SGGTG_QP | TRBV2 | TRBJ1-5 | CASSGGTGGQPQHF | TRAV12-1 | TRAJ26 | CVVNSDYGQNFVF | Pt-8 | 1429 |
| Group 202 | SFLAGG_TGE | TRBV5-6 | TRBJ2-2 | CASSFLAGGQTGELFF | TRAV8-1 | TRAJ9 | CAVNKNTGGFKTIF | Pt-8 | 1869 |
| Group 247 | SD_YG | TRBV5-1 | TRBJ1-2 | CASSDDYGYTF | TRAV8-1 | TRAJ7 | CAVNAQGNNRLAF | Pt-2 | 1898 |
| Group 259 | SY_NTGE | TRBV5-4 | TRBJ2-2 | CASSYANTGELFF | TRAV39 | TRAJ33 | CAVGVDSNYQLIW | Pt-4 | 1104 |
| Group 279 | _YANTGE | TRBV5-4 | TRBJ2-2 | CASSYANTGELFF | TRAV39 | TRAJ33 | CAVGVDSNYQLIW | Pt-4 | 1104 |
| Group 284 | QQAN | TRBV3-1 | TRBJ1-1 | CASSQQANTEAFF | TRAV8-6 | TRAJ56 | CAVTYTGANSKLTF | Pt-8 | 3280 |
| Group 285 | S_TNTGE | TRBV6-5 | TRBJ2-2 | CASSGTNTGELFF | TRAV29/DV5 | TRAJ40 | CAASSSGTYKYIF | Pt-2 | 782 |
| Group 288 | DLNS | TRBV12-3 | TRBJ1-3 | CAGGGDLNSGNTIYF | TRAV12-1 | TRAJ41 | CVGNSGYALNF | Pt-8 | 480 |
| Group 302 | _TENTGE | TRBV30 | TRBJ2-2 | CALTTENTGELFF | TRAV12-1 | TRAJ44 | CVVNKITGTASKLTF | Pt-8 | 3701 |
| Group 385 | SPLAGG_TGE | TRBV13 | TRBJ2-2 | CASSPLAGGTTGELFF | TRAV14/DV4 | TRAJ53 | CAMREGGNSGGSNYKLTF | Pt-8 | 1808 |
| Group 428 | _GTNTGE | TRBV6-5 | TRBJ2-2 | CASSGTNTGELFF | TRAV29/DV5 | TRAJ40 | CAASSSGTYKYIF | Pt-2 | 782 |
| Group 533 | SPDS_ | TRBV6-6 | TRBJ1-6 | CASSPDSPLHF | TRAV19 | TRAJ21 | CALSEARNFNKFYF | Pt-8 | 3176 |
| Group 540 | S_GTSNE | TRBV27 | TRBJ2-1 | CASSFGTSNEQFF | TRAV5 | TRAJ18 | CAETLAGGSTLGRLYF | Pt-8 | 448 |
| Group 580 | SL_VE | TRBV20-1 | TRBJ2-7 | CSGSLGVEQYF | TRAV8-1 | TRAJ23 | CAVNFYNQGGKLIF | Pt-8 | 610 |
| Group 618 | RD_DT | TRBV5-5 | TRBJ2-3 | CASRDADTQYF | TRAV12-1 | TRAJ8 | CVVNTGFQKLVF | Pt-8 | 2922 |
| Group 664 | SG_NTGE | TRBV6-5 | TRBJ2-2 | CASSGTNTGELFF | TRAV29/DV5 | TRAJ40 | CAASSSGTYKYIF | Pt-2 | 782 |