Table 3.
T cell responses to Network pool epitopes.
| Peptide | Peptide source | Sequence | % match M group | % match CRF01 | Protein | Start position | End Position | Total Respond | HLA+/Total | #Respond/HLA+ | HLA associations |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Env.1 | Afferent | LWDQSLKPCVKLTPLCVTLKC | gp160 | 111 | 131 | 3/10 | 3/3 | ||||
| E1a | Epitope | KLTPLCVTL | 82.9 | 85.8 | gp160 | 121 | 129 | 3/10 | 3/3 | 3/7 | A*02, A*0201 |
| Env.2 | Afferent | QCTHGIRPVVSTQLLLNGSLA | gp160 | 246 | 266 | 2/10 | 0/2 | ||||
| E2a | Epitope | RPVVSTQLLL | 30.1 | 91.8 | gp160 | 252 | 261 | 2/10 | 0/2 | 0/0 | B*07, B*08, B*35, B*3501 |
| Env.3 | Afferent | GGDPEIVTHSFNCGGEFFYCN | gp160 | 366 | 386 | 4/10 | 2/4 | ||||
| E3a | Epitope | PEIVTHS | 39 | 0 | gp160 | 369 | 375 | 4/10 | 2/4 | 2/7 | A*02 |
| E3b | Epitope | HSFNCGGEFFY | 2.7 | 0.19 | gp160 | 374 | 384 | 4/10 | 0/4 | 0/2 | A*03, A*29, B*08, B*15, B*1516, B*63, C*04, C*0401, C*0407 |
| Env.4 | Afferent | LLRAIEAQQHLLQLTVWGTKQ | gp160 | 555 | 575 | 5/10 | 5/5 | ||||
| E4a | Epitope | LLRAIEAQQHL | 41.4 | 54.3 | gp160 | 555 | 565 | 5/10 | 5/5 | 5/9 | A*11, B*1501, B*51, B*5101, B*15, B*51, B*57, B*58, B*63, C*03, C*0304, C*12, C*15, C*03, C*08 |
| Nef.1 | Afferent | GYFPDWQCYTPGPGVRYPLTF | Nef | 119 | 139 | 4/10 | 0/4 | ||||
| N1a | Epitope | YFPDWQCYTP | 1.2 | 0.2 | Nef | 120 | 129 | 1/10 | 0/1 | 0/7 | A*01, A*29, A*2902, A*3002, B*58, B*3501, B*37, B*3701, B*51, B*5401, B*57, B*5701, B*5801, B*63, C*06 |
| N1b | Epitope | YTPGPGVRY | 28.1 | 10.7 | Nef | 127 | 135 | 4/10 | 0/4 | 2/6 | A*24, B*07, B*08, B*57, B*58, B*63 |
| Nef.2 | Afferent | VRYPLTFGWCFKLVPVEPDLV | Nef | 133 | 153 | 4/10 | 3/4 | ||||
| N2a | Epitope | RYPLTFGWCF | 61.7 | 0.2 | Nef | 134 | 143 | 4/10 | 3/4 | 3/8 | A*11, A*2301, A*2402, A*33, B*27, B*35, B*53 |
| N2b | Epitope | PLTFGWCFKLV | 43.6 | 0.2 | Nef | 136 | 146 | 4/10 | 3/4 | 3/7 | A*02, A*0201, B*1517, B*57, B*63 |
| Pol.17 | Afferent | YWQATWIPEWEFVNTPPLVKL | Pol | 560 | 580 | 4/10 | 3/4 | ||||
| P17a* | Epitope | FVNTPPLVK | 93.1 | 96.9 | Pol | 571 | 579 | 4/10 | 3/4 | 3/7 | A*02, A*11, A*1101 |
| Pol.22 | Afferent | ILVAVHVASGYIEAEVIPAET | Pol | 788 | 808 | 7/10 | 1/7 | ||||
| P22a* | Epitope | GYIEAEVIPAET | 84.9 | 96 | Pol | 797 | 808 | 4/10 | 1/4 | 1/1 | A*2402, B*4002 |
| P22b* | Epitope | HVASGYIEA | 79.8 | 97.2 | Pol | 793 | 801 | 7/10 | 0/7 | 0/0 | B*5401 |
| Pol.4 | Afferent | GPKVKQWPLTEEKIKAL | Pol | 173 | 189 | 5/10 | 0/5 | ||||
| P2b* | Epitope | GPKVKQWPLT | 82.9 | 90.46 | Pol | 173 | 182 | 5/10 | 0/5 | 0/0 | B*07, B*08, B*0801, B*4202 |
| Pol.5 | Afferent | RKLVDFRELNKRTQDFWEVQL | Pol | 227 | 247 | 4/10 | 2/4 | ||||
| P5a* | Epitope | KLVDFRELNK | 97.3 | 96.3 | Pol | 228 | 237 | 4/10 | 2/4 | 2/5 | A*03, A*0301, B*08, A*34, A*29, B*40 |
| Pol.8 | Afferent | NNETPGIRYQYNVLPQGWKGS | Pol | 291 | 311 | 4/10 | 1/4 | ||||
| P8a* | Epitope | NNETPGIRYQY | 83.9 | 92.1 | Pol | 291 | 301 | 4/10 | 0/4 | 0/0 | B*18, B*1801 |
| P8b* | Epitope | TPGIRYQYNVL | 87.1 | 92.6 | Pol | 294 | 304 | 2/10 | 1/2 | 1/7 | A*02, B*1401, B*4202 |
| Pol.9 | Afferent | NVLPQGWKGSPAIFQ | Pol | 302 | 316 | 2/10 | 0/2 | ||||
| P9a* | Epitope | LPQGWKGSPAI | 94.5 | 92.6 | Pol | 304 | 314 | 2/10 | 0/2 | 0/0 | B*3910, B*5101, B*5401 |
| Pol.31 | Afferent | RKYTAFTIPSINNETPGIRYQ | Pol | 280 | 300 | 5/10 | 3/5 | ||||
| P31a | Epitope | KYTAFTIPSI | 55.3 | 67.7 | Pol | 281 | 290 | 5/10 | 3/5 | 3/7 | A*02, A*0201, A*0205, A*0217, B*51, B*5101 |
| Pol.32 | Afferent | FTIPSINNETPGIRYQYNVLP | Pol | 285 | 305 | 7/10 | 0/7 | ||||
| P32a | Epitope | NETPGIRYQYNVL | 83.8 | 92.6 | Pol | 292 | 304 | 5/10 | 0/5 | 0/0 | B*18, B*1801, B*1401, B*4202 |
| P32b | Epitope | NETPGIRYQY | 84.7 | 85.8 | Pol | 292 | 301 | 4/10 | 0/4 | 0/0 | B*18 |
| P32c | Epitope | IRYQYNVL | 88.9 | 93.5 | Pol | 297 | 304 | 6/10 | 0/6 | 0/0 | B*1401 |
| Pol.33 | Afferent | ETWETWWTEYWQATWIPEQEF | Pol | 551 | 571 | 3/10 | 0/3 | ||||
| P33a | Epitope | TWETWWTEYW | 16.7 | 23.4 | Pol | 552 | 561 | 3/10 | 0/3 | 0/2 | B*44, B*49 |
| Pol.34 | Afferent | QATWIPEWEFVNTPPLVKLWY | Pol | 562 | 582 | 4/10 | 2/4 | ||||
| P34a | Epitope | FVNTPPLVK | repeat | Pol | 571 | 579 | 4/10 | 2/4 | 2/7 | A*02, A*11, A*1101 | |
| Pol.35 | Afferent | KEALLDTGADDTVLEEMNLPG | Pol | 76 | 96 | 4/10 | 3/4 | ||||
| P35a | Epitope | LLDTGADDTVL | 94.5 | 97.9 | Pol | 79 | 89 | 4/10 | 3/4 | 3/7 | A*02, A*0201 |
| Pol.36 | Afferent | PTPVNIIGRNLLTQIGCTLNF | Pol | 135 | 155 | 3/10 | 2/3 | ||||
| P36a | Epitope | TQIGCTLNF | 53.1 | 67.4 | Pol | 147 | 155 | 3/10 | 2/3 | 2/6 | B*1501, B*1503, B*62, C*03 |
| Gag.15 | Afferent | WVKVVEEKGFNPEVIPMFSAL | Gag | 155 | 175 | 4/10 | 3/4 | ||||
| G15a | Epitope | EEKGFNPEV | 18.01 | 97.3 | Gag | 160 | 168 | 2/10 | 0/2 | 0/2 | B*44, B*4415, B*4501 |
| G15b | Epitope | KGFNPEVIPMF | 16.3 | 97 | Gag | 162 | 172 | 4/10 | 0/4 | 0/1 | A*01, A*0201, B*08, B*0801, B*57, B*5701, B*5703, B*63 |
| G15c | Epitope | EVIPMFSAL | 58.7 | 95.5 | Gag | 167 | 175 | 4/10 | 3/4 | 3/8 | A*0206, A*26, A*2601, A*2602, A*2603, C*01, C*0102, C*02, C*03 |
| Gag.16 | Afferent | PEVIPMFSALSEGATPQDLNM | Gag | 166 | 186 | 5/10 | 5/5 | ||||
| G15c* | Epitope | EVIPMFSAL | repeat | Gag | 167 | 175 | 4/10 | 3/4 | 3/8 | A*0206, A*26, A*2601, A*2602, A*2603, C*01, C*0102, C*02, C*03 | |
| G16a | Epitope | SEGATPQDL | 86.7 | 95.2 | Gag | 176 | 184 | 4/10 | 0/4 | 0/4 | B*4001, B*4403 |
| G16b | Epitope | LSEGATPQDL | 86.5 | 95.2 | Gag | 175 | 184 | 3/10 | 1/3 | 1/6 | B*40, B*4001, B*42, B*44, B*4403, B*60, B*61 |
| Gag.17 | Afferent | EGATPQDLNMMLNIVGGHQAA | Gag | 177 | 197 | 7/10 | 6/7 | ||||
| G17a | Epitope | NIVGGHQAA | 26.5 | 95.05 | Gag | 189 | 197 | 5/10 | 2/5 | 2/2 | A*0206 |
| G17b | Epitope | ATPQDLNMMLNIV | 23.8 | 94.5 | Gag | 179 | 191 | 5/10 | 0/5 | 0/0 | B*07, B*08, B*08101, B*14, B*4202, B*53, B*5301 |
| G17c | Epitope | TPQDLNMMLNIV | 24.3 | 95.3 | Gag | 180 | 191 | 2/10 | 0/2 | 0/0 | B*07, B*08,101, B*14, B*4202, B*53, B*5301 |
| G17d | Epitope | ATPQDLNMML | 24.7 | 94.1 | Gag | 179 | 188 | 7/10 | 0/7 | 0/0 | B*07, B*08101, B*14, B*4202, B*53, B*5301 |
| G17e | Epitope | DLNTMMNIVG | 25.6 | 96.6 | Gag | 183 | 192 | 4/10 | 3/4 | 3/7 | A*02, B*14 |
| Gag.21 | Afferent | GPIPPGQMREPRGSDIAGTTS | Gag | 221 | 241 | 6/10 | 1/6 | ||||
| G21a | Epitope | MREPRGSDI | 70.7 | 76.3 | Gag | 228 | 236 | 5/10 | 1/5 | 1/3 | C*0602, C*0701 |
| G21b | Epitope | GPIPPGQM | 19.5 | 71.6 | Gag | 221 | 228 | 4/10 | 0/4 | 0/0 | B*35 |
| G21c | Epitope | GQMREPRGSDI | 70.6 | 76.1 | Gag | 226 | 236 | 3/10 | 0/3 | 0/3 | B*13 |
| Gag.22 | Afferent | RGSDIAGTTSTLQEQIGWMTN | Gag | 232 | 252 | 8/10 | 7/8 | ||||
| G22a | Epitope | TTSTLQEQI | 69.8 | 75 | Gag | 239 | 247 | 3/10 | 2/3 | 2/6 | B*5801 |
| G22b | Epitope | STLQEQIGW | 36.8 | 68.9 | Gag | 241 | 249 | 6/10 | 5/6 | 5/6 | B*5801 |
| G22c | Epitope | TSTLQEQIGWM | 36.5 | 68.6 | Gag | 240 | 250 | 7/10 | 7/7 | 7/10 | A*02, B*08, B*0801, B*57, B*5701 |
| Gag.27 | Afferent | QGPKEPFRDYVDRFYKTLRAE | Gag | 287 | 307 | 7/10 | 6/7 | ||||
| G27a | Epitope | FRDYVDRFY | 51.6 | 95.5 | Gag | 293 | 301 | 5/10 | 1/5 | 1/3 | C*0602, C*0701 |
| G27b | Epitope | RDYVDRFYK | 50.5 | 95.5 | Gag | 294 | 302 | 3/10 | 1/3 | 1/3 | A*1101 |
| G27c | Epitope | EPFRDYVDRF | 96.1 | 96.9 | Gag | 291 | 300 | 4/10 | 3/4 | 3/7 | A*02, A*0201 |
| G27d | Epitope | EPFRDYVDRFY | 50.7 | 94.8 | Gag | 291 | 301 | 4/10 | 3/4 | 3/7 | A*0101, A*02, A*0201 |
| G27e | Epitope | YVDRFYKTL | 48.7 | 96.2 | Gag | 296 | 304 | 4/10 | 4/4 | 4/10 | A*02, A*26, A*2601, B*15, B*1503, B*1510, B*70, C*03, C*0303, C*04 |
| Gag.32 | Afferent | TLEEMMTACQGVGGPSHKARV | Gag | 342 | 362 | 5/10 | 4/5 | ||||
| G32a | Epitope | EMMTACQGV | 95.5 | 98.2 | Gag | 345 | 353 | 3/10 | 2/3 | 2/7 | A*02, A*0201, A*0206 |
| G32b | Epitope | ACQGVGGPSHK | 47.3 | 92.8 | Gag | 349 | 359 | 3/10 | 1/3 | 1/3 | A*0201, A*11, A*1101, A*1103 |
| G32c | Epitope | GVGGPSHKAR | 47.3 | 92.3 | Gag | 352 | 361 | 3/10 | 0/3 | 0/3 | A*11 |