TABLE 2.
Variation in T-cell epitopes in EBNA3 genesa
| Gene | Epitope | HLA allele | Codons | No. of type 1 sequences with conserved epitope/total | Variation type 1 (no. of sequences) | No. of type 2 sequences with conserved epitope/total | Variation type 2 (no. of sequences) |
|---|---|---|---|---|---|---|---|
| EBNA3A | RRFPLDLR | B27.05 | 95–102 | 67/67 | 0/16 | R1Y (16) | |
| QAKWRLQTL | B8 | 158–166 | 67/67 | 0/16 | QVKWRMTTL (16) | ||
| AYSSWMYSY | A30 | 176–184 | 65/67 | S3I (1), Y2F (1) | 16/16 | ||
| RYSIFFDY | A24 | 246–253 | 66/67 | R1C (1) | 0/16 | R1C (16) | |
| FLRGRAYGL | B8 | 325–333 | 61/67 | L9I (3), L2F (1), A6V (1), F1L (1) | 0/16 | F1L,L9Q (16) | |
| KRPPIFIRR | B27.05 | 378–386 | 67/67 | 0/16 | K1R,I7L (16) | ||
| RPPIFIRRL | B7 | 379–387 | 67/67 | 0/16 | I6L (16) | ||
| RRLHRLLLMR | B27.05 | 386–395 | 67/67 | 16/16 | |||
| HLAAQGMAY | ND | 450–458 | 65/67 | A3E (1), M7K (1) | 0/16 | H——– (16) | |
| YPLHEQHGM | B35 | 458–466 | 22/67 | P2T (20), H7R (11), H4K (9), P2S (2), M9T (1), P2T (1), P2R (1) | 0/16 | -PLHQQHSM (16) | |
| VSSDGRVAC | A29 | 491–499 | 44/67 | R6Q (11), D4E (10), S2F (2) | 0/16 | VPKDGRGAC (16) | |
| VPAPAGPIV | B7 | 502–510 | 67/67 | 0/16 | P4L (16) | ||
| SVRDRLARL | A2 | 596–604 | 67/67 | 16/16 | |||
| RLRAEAQVK | A3 | 603–611 | 67/67 | 0/16 | V8A,K9R (16) | ||
| VQPPQLTQV | B46 | 617–625 | 33/67 | P4T (32), L6V(1), V1E,Q2K (1) | 0/16 | P4T (16) | |
| EBNA3B | HRCQAIRKK | B27.05 | 154–157 | 64/64 | 0/16 | K8Q (16) | |
| TYSAGIVQI | A24 | 217–225 | 63/64 | I9L (1) | 0/16 | I9L (16) | |
| RRARSLSAERY | B27.02 | 244–254 | 64/64 | 16/16 | |||
| VSFIEFVGW | B58 | 279–287 | 64/64 | 0/16 | S2A,I4V (16) | ||
| AVFDRKSDAK | A11 | 399–408 | 44/64 | A1S,V2L (8), D4N (4), A1S (3), A1P,V2L (2), A1S,V2F (2), A1P (1) | 0/16 | SVFYRKPDTK (16) | |
| IVTDFSVIK | A11 | 416–424 | 37/64 | K9N (13), V2L (9), K9R (1), V2L,K9R (4), | 0/16 | F5L,V7I (16) | |
| AVLLHEESM | B35 | 488–496 | 43/64 | A1T (21), | 0/16 | RVILHGPPT (16) | |
| VEITPYKPTW | B44 | 657–666 | 39/64 | I3L (23), Y6D,K7E (2), | ND, gap | AG876 has VEPTFYQSTW | |
| EBNA3C | EGGVGWRHW | B44 | 163–171 | 65/66 | R7- (1) | 16/16 | |
| LRGKWQRRYR | B27.05 | 249–258 | 57/66 | R7K (9) | 0/16 | Y9F (16) | |
| RRIYDLIEL | B27.0204.05 | 258–266 | 51/66 | R2K (15) | 0/16 | Y4F (16) | |
| EENLLDFVRF | B44 | 281–290 | 66/66 | 15/16 | R9H (1) | ||
| LLDFVRFMGV | A2 | 284–293 | 66/66 | 15/16 | V6H (1) | ||
| LDFVRFMGV | B37 | 286–293 | 66/66 | 15/16 | R5H (1) | ||
| KEHVIQNAF | B44 | 335–343 | 57/66 | E2D (5), H3Q (4) | 0/16 | H3Q,N7K (16) | |
| FRKAQIQGL | B27.05 | 343–351 | 49/66 | I6L (13), I6 M (4) | 0/16 | R2L,I6R (16) | |
| QPRAPIRPI | B7 | 881–889 | 65/66 | R3P (1) | 16/16 |
a
ND, not determined. Bold type indicates conservation in all samples.