Table 2 HLA class II predicted epitopes of HCV genotype 5a and their antigenicity prediction score, number of allele and conservation (in percentages) in different genotypes
From: Prediction of T-cell epitopes of hepatitis C virus genotype 5a
Position | Epitope sequence | No of allele | Antigenecity score | Genotype 1a | Genotype 1b | Genotype 2 | Genotype 3 | Genotype 4 | Genotype 6 |
|---|---|---|---|---|---|---|---|---|---|
E1 | |||||||||
320 | WDMMMNWSP | 10 | 1.3610 | WDMMMNWSP (99) | WDMMMNWSP (97) | Â | WDMMMNWSP (97) | WDMMMNWSP (93) | WDMMMNWSP (93) |
E2 | |||||||||
507 | YCFTPSPVV | 6 | 1.2112 | YCFTPSPVV (93) | YCFTPSPVV (98) | YCFTPSPVV (88) | YCFTPSPVV (100) | YCFTPSPVV (91) | YCFTPSPVV (91) |
509 | FTPSPVVVG | 17 | 1.3553 | FTPSPVVVG (94) | FTPSPVVVG (98) | FTPSPVVVG (88) | FTPSPVVVG (100) | FTPSPVVVG (89) | FTPSPVVVG (73) |
665 | LLHTTTQWA | 5 | 0.6616 | LLLSTTQWQ (100) | Â | Â | LLHSTTELA (73) | LLLSTTQWQ (73) | Â |
666 | LHTTTQWAI | 25 | 0.5863 | LLTTTQWQI (100) | Â | Â | LHSTTELAI (73) | Â | Â |
692 | LHQNIVDTQ | 6 | 0.8564 | LHQNIVDVQ (100) | LHQNIVDVQ (73) | LHQNIVDVQ (95) | LHQNIVDVQ (100) | LHQNIVDVQ (87) | Â |
739 | LLVCQAEAA | 22 | 0.5506 | LLISQAEAA (100) | LLIAQAEAA (72) | Â | LMISQAEAA (73) | Â | Â |
P7 | |||||||||
803 | LPHRALALD | 7 | 0.6966 | LPQRAYALD (100) | LPPRAYAMD (86) | Â | Â | Â | Â |
NS2 | |||||||||
860 | WVPPLQVRG | 7 | 1.1998 | WVPPLNVRG (100) | Â | Â | WVPPLLARG (82) | Â | Â |
861 | VPPLQVRGG | 25 | 1.4312 | VPPLNVRGG (100) | Â | Â | Â | Â | Â |
864 | LQVRGGRDA | 20 | 0.6368 | LNVRGGRDA (100) | LNVRGGRDA (86) | Â | Â | Â | Â |
880 | FHPALGFEI | 19 | 1.4374 | VHPALVFDI (99) | Â | Â | Â | Â | Â |
892 | LLGILGPLY | 14 | 0.5940 | LLAVLGPLW (100) | Â | Â | LIAVLGPLY (82) | Â | Â |
895 | ILGPLYLLQ | 5 | 0.8264 | VLGPLWVLQ (99) | Â | Â | VLGPLYLIQ (88) | Â | Â |
938 | LLHLGRLTG | 25 | 0.5554 | Â | Â | Â | Â | Â | Â |
964 | LRDLAVATE | 9 | 1.0497 | LRDLAVAVE (100) | LRDLAVAVE (93) | LRDLAVAVE (85) | LKDLAVATE (73) | Â | LRDLAVAVE (93) |
997 | LAGLPVSAR | 11 | 0.9120 | INGLPVSAR (100) | Â | Â | LCGLPVSAR (100) | Â | Â |
1025 | LLAPITAYA | 22 | 0.5253 | LLAPITAYA (99) | Â | Â | LLAPITAYA (79) | LLAPITAYA (89) | Â |
NS3 | |||||||||
1047 | LTGRDKNEA | 22 | 1.5633 | LTGRDKNQV (100) | LTGRDKNQV (93) | Â | LTGRDKNVV (90) | Â | Â |
1131 | 15 | 0.7569 | YLVTRHADV (99) | YLVTRHADV (99) | YLVTRNADV (97) | Â | Â | Â | |
1152 | LLSPRPISY | 5 | 2.2999 | LLSPRPISY (99) | LLSPRPVSY (73) | LLSPRPLST (89) | Â | Â | Â |
1153 | LSPRPISYL | 5 | 1.3109 | LSPRPISYL (99) | LSPRPVSYL (73) | LSPRPLSTL (89) | Â | Â | Â |
1253 | VLNPSVAAT | 14 | 1.2489 | VLNPSVAAT (100) | VLNPSVAAT (100) | VLNPSVAAT (97) | VLNPSVAAT (100) | VLNPSVAAT (96) | VLNPSVAAT (89) |
1254 | LNPSVAATL | 6 | 0.9169 | LNPSVAATL (100) | LNPSVAATL (100) | LNPSVAATL (98) | LNPSVAATL (100) | LNPSVAATL (95) | LNPSVAATL (89) |
1258 | VAATLGFGA | 11 | 1.2617 | VAATLGFGA (90) | VAATLGFGA (85) | VAATLGFGA(98) | Â | Â | Â |
1262 | 14 | 0.8784 | LGFGAYMSK (87) | LGFGAYMSK (82) | LGFGAYMSK(78) | Â | Â | Â | |
1264 | FGAYMSKAY | 14 | 0.6561 | FGAYMSKAH (100) | FGAYMSKAH (82) | Â | Â | Â | Â |
1327 | LGIGTVLDQ | 42 | 0.5607 | LGIGTVLDQ (97) | LGIGTVLDQ (88) | LGIGTVLDQ (98) | LGIGTVLDQ (100) | LGIGTVLDQ (93) | LGIGTVLDQ (96) |
1373 | IPFYGRAIP | 16 | 0.5679 | IPFYGKAIP (100) | IPFYGKAIP (93) | IPFYGKAIP (81) | Â | Â | Â |
1375 | FYGRAIPLA | 22 | 1.0280 | FYGKAIPLE (100) | FYGKAIPIE (81) | Â | Â | Â | FYGKAIPLE (71) |
1392 | IFCHSKKKC | 22 | 1.5437 | IFCHSKKKC (93) | IFCHSKKKC (94) | IFCHSKKKC (95) | IFCHSKKKC (88) | IFCHSKKKC (80) | IFCHSKKKC (93) |
1415 | VAYYRGLDV | 21 | 0.8250 | VAYYRGLDV (98) | VAYYRGLDV (96) | VAYYRGLDV (92) | VAYYRGLDV (79) | VAYYRGLDV (91) | VAFYRGVDV (89) |
1418 | YRGLDVAVI | 51 | 1.0522 | YRGLDVSVI (100) | YRGLDVSVI (97) | YRGLDVSVI (84) | YRGLDVSVI (85) | YRGLDVSVI (91) | YRGVDVSVI (67) |
1482 | VSRSQRRGR | 12 | 2.0649 | VSRTQRRGR (100) | VSRSQRRGR (93) | VSRSQRRGR (96) | VSRSQRRGR (97) | VSRSQRRGR (98) | VSRSQRRGR (73) |
1561 | VFTGLTNID | 9 | 1.1689 | VFTGLTHID (100) | VFTGLTHID (96) | VFTGLTHID (98) | VFTGLTHID (97) | Â | VFTGLTHID (89) |
1583 | FPYLVAYQA | 24 | 0.6584 | Â | FPYLVAYQA (85) | Â | Â | Â | FAYLVAYQA (78) |
1585 | 17 | 0.5020 | YLVAYQATV (99) | YLVAYQATV (85) | YLTAYQATV (70) | Â | YLVAYQATV (87) | YLVAYQATV (91) | |
1586 | LVAYQATVC | 28 | 0.6052 | LVAYQATVC (99) | LVAYQATVC (85) | Â | Â | LVAYQATVC (82) | LVAYQATVC (91) |
1631 | VQNEITLTH | 35 | 1.1979 | VQNEVTLTH (100) | Â | Â | Â | VQNEVTLTH (80) | Â |
1641 | ITKYIMACM | 8 | 0.6964 | VTKYIMTCM (100) | Â | VTKYIATCM (94) | Â | ITKYIMACM (75) | ITKYIMTCM (87) |
1645 | IMACMSADL | 22 | 0.8406 | IMTCMSADL (100) | IMACMSADL (82) | IATCMQADL (99) | IMACMSADL (70) | IMACMSADL (93) | IMTCMSADL (87) |
NS4B | |||||||||
1733 | LGLIGTAGQ | 43 | 1.2450 | Â | Â | Â | Â | Â | Â |
1765 | MWNFVSGIQ | 18 | 1.2300 | MWNFISGIQ (100) | MWNFISGIQ (95) | MWNFISGIQ (96) | MWNFVSGIQ (100) | MWNFISGIQ (87) | Â |
1766 | WNFVSGIQY | 22 | 0.6246 | WNFISGIQY (100) | WNFISGIQY (95) | WNFISGIQY (96) | WNFVSGIQY (100) | WNFISGIQY (87) | WNFVSGIQY (91) |
1791 | MSFTAAVTS | 8 | 0.7414 | MAFTAAVTS (100) | MAFTASITS (88) | MAFSAALTS (93) | MAFTASVTS (92) | MSFTAAVTS (93) | Â |
1812 | LGGWVASQI | 16 | 0.608 | LGGWVAAQL (100) | LGGWVAAQL (95) | Â | LGGWVATHL (88) | LGGWVASQI (96) | Â |
1849 | IDILAGYGA | 9 | 0.7525 | VDILAGYGA (100) | VDILAGYGA (97) | Â | LDILAGYGA (79) | VDILAGYGA (84) | Â |
1863 | LVAFKIMCG | 47 | 1.0160 | LVAFKIMSG (100) | Â | LVAFKIMSG (95) | LVAFKIMGG (100) | VVTFKIMSG (89) | LVAFKIMSG (84) |
1879 | LVNLLPSIL | 51 | 0.7592 | LVNLLPAIL (100) | LVNLLPAIL (90) | Â | MVNLLPAIL (92) | LVNLLPAIL (73) | Â |
1880 | VNLLPSILC | 51 | 0.9874 | VNLLPAILS (100) | VNLLPAILS (92) | Â | VNLLPAILS (94) | VNLLPAILS (89) | VNLLPALLS (82) |
1883 | LPSILCPGA | 6 | 0.7104 | LPAILSPGA (100) | LPAILSPGA (99) | LPAILSPGA (74) | LPAILSPGA (100) | LPAILSPGA (89) | LPALLSPGA (84) |
1886 | ILCPGALVV | 9 | 0.9365 | ILSPGALVV (100) | ILSPGALVV (99) | ILSPGALVV (98) | ILSPGALVV (100) | ILSPGALVV (91) | LLSPGALVV (89) |
1892 | LVVGVICAA | 30 | 0.7097 | LVVGVVCAA (100) | LVVGVVCAA (98) | LVVGVICAA (97) | LVVGVICAA (94) | LVVGVVCAA (89) | LVVGVVCAA (93) |
1893 | VVGVICAAV | 50 | 0.9530 | VVGVVCAAI (100) | VVGVVCAAI (96) | VVGVICAAI (98) | VVGVICAAI (85) | VVGVVCAAI (91) | VVGVVCAAI (76) |
1896 | VICAAVLRR | 35 | 0.9887 | VVCAAILRR (100) | VVCAAILRR (95) | VICAAILRR (97) | VICAAILRR (85) | VVCAAILRR (91) | VVCAAILRR (76) |
1897 | ICAAVLRRH | 12 | 1.2316 | VCAAILRRH (100) | VCAAILRRH (97) | ICAAILRRH (97) | ICAAILRRH (85) | VCAAILRRH (89) | Â |
1916 | MNRLIAFAS | 48 | 0.5291 | MNRLIAFAS (100) | MNRLIAFAS (99) | MNRLIAFAS (99) | MNRLIAFAS (100) | MNRLIAFAS (93) | MNRLIAFAS (96) |
1919 | LIAFASRGN | 24 | 2.0235 | LIAFASRGN (100) | LIAFASRGN (99) | LIAFASRGN (98) | LIAFASRGN (100) | LIAFASRGN (93) | LIAFASRGN (96) |
1922 | FASRGNHVS | 18 | 1.2938 | FASRGNHVS (100) | FASRGNHVS (98) | FASRGNHVA (97) | FASRGNHVS (94) | FASRGNHVS (82) | FASRGNHVS (93) |
NS5A | |||||||||
1994 | WLQAKLLPQ | 33 | 1.1603 | WLKAKLMPQ (100) | WLQSKLLPR (84) | Â | Â | Â | Â |
2101 | YITGVTQDN | 6 | 1.1358 | YVTGMTTDN (100) | Â | Â | Â | Â | Â |
2105 | VTQDNLKCP | 6 | 1.0178 | MTTDNLKCP (100) | Â | Â | Â | Â | Â |
2237 | MGGNITRVE | 20 | 1.2656 | MGGNITRVE (92) | MGGNITRVE (96) | Â | MGSNITRVE (91) | Â | Â |
2285 | LPVWARPGY | 9 | 0.6143 | LPIWARPDY (100) | Â | Â | Â | Â | LPIWARPDY (78) |
NS5B | |||||||||
2422 | MSYSWTGAL | 9 | 0.5749 | MSYSWTGAL (76) | MSYTWTGAL (94) | MSYSWTGAL (97) | MSYSWTGAL (85) | MSYSWTGAL (91) | Â |
2451 | LRHHNLVYS | 40 | 1.2321 | LRHHNLVYS (89) | LRHHNMVYA (86) | Â | LRHHNLVYS (97) | Â | Â |
2523 | YGAKEVRSL | 24 | 1.1739 | YGAKDVRCH (100) | YGAKDVRNL (85) | FGAKEVRSL (92) | YSAKDVRSL (76) | Â | Â |
2559 | MAKNEVFAV | 18 | 0.8466 | MAKNEVFCV (100) | MAKNEVFCV (81) | MAKNEVFCV (65) | MAKNEVFCV (85) | Â | MAKNEVFCV (96) |
2564 | VFAVEPSKG | 10 | 0.7925 | VFCVQPEKG (100) | VFCVQPEKG (89) | Â | Â | Â | Â |
2637 | FSYDTRCFD | 11 | 15808 | FSYDTRCFD (99) | Â | FSYDTRCFD (95) | FSYDTRCFD (100) | FSYDTRCFD (93) | FSYDTRCFD (87) |
2660 | YQSCDLQPE | 11 | 1.3802 | YQCCDLDPQ (100) | YQCCDLAPE (94) | Â | Â | Â | Â |
2696 | YRRCRASGV | 41 | 1.2642 | YRRCRASGV (99) | YRRCRASGV (99) | YRRCRASGV (98) | YRRCRASGV (97) | Â | Â |
2778 | YDLELVTSC | 6 | 1.0923 | YDLELITSC (100) | YDLELITSC (96) | YDLELITSC (98) | YDLELITSC (91) | Â | YDLELITSC (96) |
2850 | FSVLQSQEQ | 21 | 0.8451 | Â | FSILLAQEQ (84) | Â | Â | FSILQSQEA (78) | Â |
2871 | VYSVTPLDL | 29 | 2.0113 | CYSIEPLDL (100) | CYSIEPLDL (75) | Â | TYSVTPLDL (91) | TYSITPLDL (87) | Â |
2883 | IQRLHGLSA | 50 | 0.4322 | IQRLHGLSA (98) | IQRLHGLSA (72) | IQYLAGLST (93) | IERLHGLSA (79) | IQRLHGLSA (75) | IQRLHGMAA (96) |
2889 | LSAFSLHSY#[40] | 6 | 0.6007 | LSAFSLHSY (99) | LSAFSLHSY (97) | Â | Â | LSAFTLHGY (80) | MAAFSLHGY (89) |