Table 2.
Peptide sequence and similarity level changes among different HCV isolate genotypes
| HCV type | Peptide 1 | Peptide 2 | Peptide 3 | |||
|---|---|---|---|---|---|---|
| 1a | HRMAWDMMMN | (1) | LFYHHKFNS | (2) | RPYCWHYPP | (0) |
| 1a (H) | HRMAWNMMMN | (1) | LFYQHKFNS | (16) | RPYCWHYPP | (0) |
| 2a (JFH-1) | HRMAWDMMMN | (1) | LFYTNRFNS | (16) | RPYCWHYPP | (0) |
| 2a (HC-J6) | HRMAWDMMMN | (1) | LFYTHSFNS | (14) | RPYCWHYPP | (0) |
| 1b (Taiwan) | HRMAWDMMMN | (1) | LFYAHRFNA | (6) | RPYCWHYAP | (2) |
| 1b (BK) | HRMAWDMMMN | (1) | LFYTHSFNS | (14) | RPYCWHYPP | (0) |
| 1b (Con1) | HRMAWDMMMN | (1) | LFYVHKFNS | (10) | RPYCWHYAP | (2) |
| 1b (Japanese) | HRMAWDMMMN | (1) | LFYAHRFNA | (6) | RPYCWHYAP | (2) |
| 1b (HC-JT) | HRMAWDMMMN | (1) | LFYAHKFNS | (12) | RPYCWHYAP | (2) |
| 2b (HC-J8) | HRMAWDMMLS | (1) | LFYTHKFNS | (14) | RPYCWHYPP | (0) |
| 2b (JPUT971017) | QRMAWDMMLN | (2) | LFYANKFNS | (10) | RPYCWHYPP | (0) |
| HCV type | Peptide 4 | Peptide 5 | Peptide 6 | |||
|---|---|---|---|---|---|---|
| 1a | NWFGCTWMN | (1) | VYTFYGMWP | (1) | WDQMWKCLI | (0) |
| 1a (H) | NWFGCTWMN | (1) | VYALYGMWP | (18) | WDQMRKCLI | (15) |
| 2a (JFH-1) | SWFGCTWMN | (2) | TYCLTGLWP | (25) | WDAMWKCLA | (6) |
| 2a (HC-J6) | SWFGCTWMN | (2) | TYSLTGLWS | (79) | WDVMWKCLT | (0) |
| 1b (Taiwan) | NWFGCTWMN | (1) | AYALYGVWP | (19) | WDQMWKCLT | (0) |
| 1b (BK) | NWFGCTWMN | (1) | TYALYGVWP | (20) | WDQMWKCLI | (0) |
| 1b (Con1) | NWFGCTWMN | (1) | AYALYGVWP | (19) | WDQMWKCLI | (0) |
| 1b (Japanese) | NWFGCTWMN | (1) | AYALYGVWP | (19) | WDQMWKCLI | (0) |
| 1b (HC-JT) | NWFGCTWMN | (1) | AYALYGVWP | (19) | WDQMWKCLI | (0) |
| 2b (HC-J8) | AWFGCTWMN | (1) | TYSVLGLWS | (83) | WDVMWKCLT | (0) |
| 2b (JPUT971017) | AWFGCTWMN | (1) | TYSVLGLWS | (83) | WDVMWKCLT | (0) |
| HCV type | Peptide 7 | Peptide 8 | Peptide 9 | |||
|---|---|---|---|---|---|---|
| 1a | WAKHMWNFI | (0) | TCRNMWSGT | (0) | YDTRCFDST | (2) |
| 1a (H) | WAKHMWNFI | (0) | TCKNMWSGT | (0) | YDTRCFDST | (2) |
| 2a (JFH-1) | WARHMWNFI | (0) | TCMNTWQGT | (6) | YDTRCFDST | (2) |
| 2a (HC-J6) | WAKHMWNFI | (0) | TCMNIWQGT | (1) | YDTRCFDST | (2) |
| 1b (Taiwan) | WANDMWNFI | (0) | TCSNTWHGT | (6) | YDTRCFDST | (2) |
| 1b (BK) | WAKHMWNFI | (0) | TCSNTWHGT | (6) | YDTRCFDST | (2) |
| 1b (Con1) | WAKHMWNFI | (0) | TCSNTWHGT | (6) | YDTRCFDST | (2) |
| 1b (Japanese) | WAKHMWNFI | (0) | TCSNTWHGT | (6) | YDTRCFDST | (2) |
| 1b (HC-JT) | WAKHMWNFI | (0) | TCSNTWHGT | (6) | YDTRCFDST | (2) |
| 2b (HC-J8) | WAKHMWNFI | (0) | TCLNLWQGT | (12) | YDTRCFDST | (2) |
| 2b(JPUT971017) | WARHMWNFI | (0) | TCLNMWQGT | (1) | YDTRCFDST | (2) |
Accession numbers of HCV genotypes are given under “Materials and methods”. The peptide sequences numbered from 1 to 9 are aligned with the corresponding peptide portions present in the different HCV genotypes. Sequences are reported with changed amino acid bold underlined. Peptide similarity level (as total number of pentamer matches between the peptide and human proteome) in parentheses