Table 5.
Binding affinity scores (as percentages) of Class II published epitopes and their variants were determined by the ProPred prediction program to common DRB1* alleles prevalent in the South African population
| Epitope: | Sequence | HCV Genotype specificity | DRB1*0101 | *0102 | *0301 | *0401 | *0701 | *1101 | *1301 | *1501 |
|---|---|---|---|---|---|---|---|---|---|---|
|
Core17–42 |
RRPQDVKFPGGGQIVGGVYLLPRRGP |
1, 2, 5 & 3var& 6var |
|
|
|
|
|
|
|
|
| |
VYLLPRRGP |
1, 2, 4, 5, 6 |
0.0% |
0.0% |
18.0% |
0.0% |
0.0% |
16.0% |
48.0% |
18.0% |
| |
VGGVYLLPR |
1, 2, 4, 5, 6 |
0.0% |
0.0% |
17.0% |
0.0% |
9.0% |
9.0% |
10.0% |
20.0% |
|
NS31248–1261 |
GYKVLVLNPSVAAT |
1, 2, 4, 5, 6 |
|
|
|
|
|
|
|
|
| |
LVLNPSVAA |
1, 2, 3, 4, 5, 6 |
37.0% |
54.0% |
36.0% |
47.0% |
28.0% |
17.0% |
34.0% |
39.0% |
| |
YKVLVLNPS |
1, 2, 4, 5, 6 |
5.0% |
0.0% |
0.0% |
30.0% |
9.0% |
31.0% |
27.0% |
17.0% |
|
NS4B1781–1800 |
LPGNPAIASLMAFTAAVTSP |
1a, 4var |
|
|
|
|
|
|
|
|
| |
LPGNPAVAS |
2,3, 5, 6 |
0.0% |
2.0% |
0.0% |
4.0% |
0.0% |
0.0% |
9.0% |
0.0% |
| |
LPGNPAIAS |
1, 4 |
0.0% |
0.7% |
15.0% |
4.0% |
0.0% |
2.4% |
0.0% |
7.0% |
| |
IASLMAFTA |
1 |
7.0% |
23.0% |
0.0% |
0.0% |
4.0% |
0.0% |
14.0% |
21.0% |
|
NS4B1801–1820 |
LTTSQTLLFNILGGWVAAQL |
1a, 1bvar, |
|
|
|
|
|
|
|
|
| |
LFNILGGWV |
1, 4, 5 |
0.0% |
0.0% |
16.0% |
0.0% |
24.0% |
0.0% |
16.0% |
28.0% |
| |
FNILGGWVA |
1, 4, 5 |
47.0% |
47.0% |
0.0% |
2.0% |
16.0% |
28.0% |
16.0% |
31.0% |
| |
ILGGWVASQ |
4, 5 |
0.0% |
0.0% |
28.0% |
0.0% |
0.0% |
2.4% |
8.0% |
0.0% |
| |
LGGWVASQI |
4, 5 |
0.0% |
0.0% |
0.0% |
0.0% |
21.0% |
0.0% |
13.0% |
21.0% |
|
NS5B2571–2590 |
KGGRKPARLIVFPDLGVRVC |
1, 2var& 6var |
|
|
|
|
|
|
|
|
| |
VFPDLGVRV |
1 |
0.0% |
0.0% |
34.0% |
0.0% |
0.0% |
0.0% |
0.0% |
0.0% |
| |
VYPDLGVRV |
3, 5 |
0.0% |
0.0% |
35.0% |
0.0% |
14.0% |
0.0% |
0.0% |
19.0% |
| |
IVYPDLGVR |
3, 5 |
0.0% |
0.0% |
28.0% |
0.0% |
0.0% |
0.0% |
7.0% |
0.0% |
| |
LIVYPDLGV |
3, 5 |
0.0% |
0.0% |
0.0% |
0.0% |
12.0% |
0.0% |
3.0% |
60.0% |
|
NS5B2661–2680 |
QCCDLDPQARVAIKSLTERL |
5var |
|
|
|
|
|
|
|
|
| |
LAPEARQAI |
1b |
0.0% |
0.0% |
8.0% |
0.0% |
11.0% |
0.0% |
4.5% |
11.0% |
| |
LDPQARVAI |
5 |
0.0% |
0.0% |
8.0% |
0.0% |
0.0% |
0.0% |
0.0% |
0.0% |
| LQPEARAAI | 5var | 0.0% | 0.0% | 22.0% | 0.0% | 12.0% | 1.0% | 22.0% | 26.0% |