TABLE 3.
Peptides recognized after seroconversion and corresponding viral sequences in P63 and LSC63
| Peptide and status of poola | Patient | Sequenceb | Protein (position in HXB2) | SFC/106 PBMC | HLA restrictionc |
|---|---|---|---|---|---|
| Pool was recognized | |||||
| PW10 | PIQKETWETW | Pol RT (392-401) | 105 | A32 | |
| P63 | --------A- | ||||
| LSC63 | --------A- | ||||
| KI15 | KRKGGIGGYSAGERI | Pol INT (186-196) | 164 | NA | |
| P63 | -------R------- | ||||
| LSC63 | --------------- | ||||
| GI15 | GIGGYSAGERIVDII | Pol INT (190-204) | 102 | NA | |
| P63 | ---R----------- | ||||
| LSC63 | ----------I---- | ||||
| CF15 | CNTSVITQACPKISF | Env gp120 (196-210) | 215 | NA | |
| P63 | ------------V-- | ||||
| LSC63 | ------------V-- | ||||
| YL10 | YCAPAGFAIL* | Env gp120 (218-226) | 274 | Cw1 | |
| P63 | ---------- | ||||
| LSC63 | ---------- | ||||
| KQ15 | KFSGKGSCKNVSTVQ | Env gp120 (232-246) | 276 | NA | |
| P63 | T-N-T-P-T------ | ||||
| LSC63 | --N-T-A-T------ | ||||
| Pool was not recognized | |||||
| KK10 | KRWIILGLNK | Gag p24 (131-140) | 1,264 | B27 | |
| P63 | ---------- | ||||
| LSC63 | ---------- | ||||
| GC15 | GNFRNQRKIVKCFNC | Gag p7 (4-18) | 57 | NA | |
| P63 | --------T------ | ||||
| LSC63 | --------NI----- | ||||
| HG11 | HFPRIWLHGLG* | Vpr (33-43) | 72 | NA | |
| P63 | ----P------ | ||||
| LSC63 | ----P------ | ||||
| RV11 | RIGCRHSRIGV | Vpr (73-83) | 75 | NA | |
| P63 | -L--------I | ||||
| LSC63 | ----H-----I | ||||
| RW9 | RIKQIINMW | Env gp120 (419-427) | 73 | A32 | |
| P63 | -----V--- | ||||
| LSC63 | --------- | ||||
| IP11 | IVNRVRQGYSP* | Env gp41 (193-203) | 1,152 | NA | |
| P63 | ----------- | ||||
| LSC63 | ----------- | ||||
| GY10 | GRRGWEVLKY | Env gp41 (275-284) | 1,543 | B27 | |
| P63 | ---------- | ||||
| LSC63 | ------I--I |
Peptides were located or were not located in pools that were recognized before seroconversion of LSC63.
Viral sequences refer to the consensus sequences of P63 obtained at day −148 from the seroconversion of LSC63 and the consensus sequences of LSC63 obtained at day 24 from his seroconversion. −, amino acids in the viral sequences identical to the amino acid in the corresponding test peptides; those different from the test peptides are singled out. Peptides labeled with an asterisk have corresponding viral sequences in P63 and LSC63 that differ within the 5-amino-acid flanking regions.
Peptides with HLA restriction listed are optimally defined epitopes. NA, not applicable.