TABLE 1.
HLA class I-associated peptides derived from the HIVconsv immunogenb
| Sequence | Length (aa) | Position(s) in HXB2 (aa) | Positions in HIVconsv (aa) | Presence of exact match in LANL-HSD | NetMHC binding affinity (nM) | HLA allele | PEAKS score (−10logP) | Sample collection time(s) (h) |
|---|---|---|---|---|---|---|---|---|
| YKRWIILGLNK | 11 | Gag 262–272 | 58–68 | No | 11,608 | A*03:01 | 15.30 | 1.5 |
| KRWIILGLNK | 10 | Gag 263–272 | 59–68 | Yes | 6,379 | A*03:01 | 16.35 | 2.5 |
| IYKRWIILGLNK | 12 | Gag 261–272 | 57–68 | No | 1,472 | A*03:01 | 15.32 | 3.5 |
| IILGLNK | 7 | Gag 266–272 | 62–68 | No | NA | A*03:01 | 14.82 | 2.5, 3.5 |
| FPISPIETVPVKL | 13 | Pol 155–167 | 194–206 | No | 163 (WB) | B*07:02 | 56.52 | 3.5, 6 |
| SPIETVPVKL | 10 | Pol 158–167 | 197–206 | Yes | 191 (WB) | B*07:02 | 41.33 | 2.5, 3.5, 6 |
| AIFQSSMTK | 9 | Pol 313–321 | 351–360 | Yes | 20 (SB) | A*03:01 | 47.95 | 2.5, 3.5, 6 |
| RKGGIGGYSAG | 11 | Pol 902–912 | 663–673 | Yes | 20,750 | B*07:02 | 14.82 | 6 |
| RTWKSLVK | 8 | Vif 19–26 | 412–419 | No | 39 (SB) | A*03:01 | 28.89 | 6 |
| KIWPS-RWKPKa | 10 | Gag/Pol | 131–140 | NA | 71 (WB) | A*03:01 | 19.25 | 6 |
| KLTP-WVPAHKa | 10 | Env/Pol | 518–527 | NA | 19 (SB) | A*03:01 | 40.52 | 6 |
a
Peptides spanning a junction (-) between two conserved regions in the HIVconsv immunogen, thus creating a novel epitope not present on HIV-1-infected cells.
b
LANL-HSD, Los Alamos National Laboratory HIV Sequence Database; SB, strong binder; WB, weak binder; NA, not applicable; −10logP, negative decadic logarithm of P, the probability that the identification is a random event.