Protein | Amino acid | 3a Peptide sequence* | Patients | 1b Peptide sequence | Outcome | Defining CD4:CD8 T cell subsets |
E2 | 610–625 | LTPRCMVDYPYRLWHY | 109 | LTPRCLVDYPYRLWHY | SR | NA |
696–712 | LIHLHQNIVDVQYLYGV | 568 | LIHLHQNIVDVQYLYGI | SR | CD8† | |
702–719 | NIVDVQYLYGVGSGMVGW | 861 | NIVDVQYLYGVGSAFVSF | SR | CD8† | |
NS3 protease | 1198–1213 | KALQFIPVETLSTQAR | 626 | KAVDFVPVESMETTMR | SR | CD4 |
1288–1305 | GNRTVTTGAKLTYSTYGK | 109 | GVRTITTGAPVTYSTYGK | SR | NA | |
NS3 helicase | 1423–1440 | AYYRGLDVSVIPTAGDVV | 884 | AYYRGLDVSVIPTIGDVV | SR | CD4 |
NS4b | 1805–1822 | TSPLTTNQTMFFNILGGW | 806 | TSPLTTQSTLLFNILGGW | SR | NA |
NS5b | 2548–2565 | NQIRSVWEDLLEDTTTPI | 113 | NHIHSVWKDLLEDTVTPI | SR | CD4 |
2603–2618 | KRALYDVIQKLSIETM | 884 | KMALYDVVSTLPQVVM | SR | CD4 | |
2893–2908 | IIERLHGLSAFTLHSY | 113 | IIERLHGLSAFSLHSY | SR | CD4 |
↵* Genoype 3a peptide sequence identified as T cell targets in patients with resolved infection. Sequence differences from genotype-1b peptides is shown in bold.
↵† CD4:CD8 T cell subset analysis assessed using ICS assays.
CD4:CD8 T cell subset analysis was assessed using PBMC in IFN-γ ELISpot assays following CD8 depletion.
ICS, intracellular cytokine stains; IFN, interferon; PBMC, peripheral blood mononuclear cells.