Identified class 2 epitopes in membrane, nucleocapsid, and spike proteins and predicted HLA restrictions
| . | . | . | . | . | . | . | . | . | . | . |
|---|---|---|---|---|---|---|---|---|---|---|
| Peptide sequence . | Amino acid location . | Subject . | HLA-DRB1 . | HLA-DRB3 . | HLA-DRB4 . | HLA-DRB5 . | HLA-DQA1 . | HLA-DQB1 . | HLA-DPA1 . | HLA-DPB1 . |
| Membrane | ||||||||||
| LRGHLRIAGHHLGRC | 144-159 | 6 | 07:01, 11:04 | 02:02 | 01:03 | 02:01, 05:01 | 03:01, 03:03 | 01:03, 02:01 | 03:01, 03:03 | |
| 10 | 07:01, 11:01 | 02:02 | 01:01 | 02:01, 05:01 | 02:02, 03:01 | 01:03, 03:01 | 04:01, 11:01 | |||
| 13 | 11:04, 15:02 | 02:02 | 01:01, 01:03 | 01:02 | 01:03, 05:01 | 03:01, 06:01 | 01:03, 02:01 | 02:01, 14:01 | ||
| 18 | 11:04, 15:01 | 02:02 | 01:02, 05:01 | 03:01, 06:02 | 01:03, 02:01 | 04:01, 14:01 | ||||
| LRIAGHHLGRCDIKD | 148-163 | 6 | 07:01, 11:04 | 02:02 | 01:03 | 02:01, 05:01 | 03:01, 03:03 | 01:03, 02:01 | 03:01, 03:03 | |
| 13 | 11:04, 15:02 | 02:02 | 01:01, 01:03 | 01:02 | 01:03, 05:01 | 03:01, 06:01 | 01:03, 02:01 | 02:01, 14:01 | ||
| SRTLSYYKLGASQRV | 173-188 | 10 | 07:01, 11:01 | 02:02 | 01:01 | 02:01, 05:01 | 02:02, 03:01 | 01:03, 03:01 | 04:01, 11:01 | |
| 13 | 11:04, 15:02 | 02:02 | 01:01, 01:03 | 01:02 | 01:03, 05:01 | 03:01, 06:01 | 01:03, 02:01 | 02:01, 14:01 | ||
| 17 | 12:01, 15:01 | 02:02 | 01:01 | 01:01 | 01:02, 05:01 | 03:01, 05:01 | 01:03, 01:03 | 02:01, 04:01 | ||
| 18 | 11:04, 15:01 | 02:02 | 01:02, 05:01 | 03:01, 06:02 | 01:03, 02:01 | 04:01, 14:01 | ||||
| 21 | 03:02, 16:02 | 01:62 | 01:01, 01:03 | 02:02 | 01:02, 04:01 | 04:02, 05:02 | 02:02, 02:02 | 01:01, 01:01 | ||
| 23 | 01:01, 03:01 | 01:01 | 01:01, 01:03 | 01:01, 05:01 | 02:01, 05:01 | 01:03, 01:03 | 02:01, 02:01 | |||
| SYYKLGASQRVAGDS | 177-192 | 10 | 07:01, 11:01 | 02:02 | 01:01 | 02:01, 05:01 | 02:02, 03:01 | 01:03, 03:01 | 04:01, 11:01 | |
| 17 | 12:01, 15:01 | 02:02 | 01:01 | 01:01 | 01:02, 05:01 | 03:01, 05:01 | 01:03, 01:03 | 02:01, 04:01 | ||
| 21 | 03:02, 16:02 | 01:62 | 01:01, 01:03 | 02:02 | 01:02, 04:01 | 04:02, 05:02 | 02:02, 02:02 | 01:01, 01:01 | ||
| 23 | 01:01, 03:01 | 01:01 | 01:01, 01:03 | 01:01, 05:01 | 02:01, 05:01 | 01:03, 01:03 | 02:01, 02:01 | |||
| LGASQRVAGDSGFAA | 181-195 | 23 | 01:01, 03:01 | 01:01 | 01:01, 01:03 | 01:01, 05:01 | 02:01, 05:01 | 01:03, 01:03 | 02:01, 02:01 | |
| Nucleocapsid | ||||||||||
| KPRQKRTATKAYNVT | 257-271 | 24 | 04:01, 07:01 | 01:01 | 01:03 | 03:01, 05;05 | 03:01, 03:02 | 02:01, 02:01 | 14:01, 14:01 | |
| AFFGMSRIGMEVTPS | 313-327 | 18 | 11:04, 15:01 | 02:02 | 01:02, 05:01 | 03:01, 06:02 | 01:03, 02:01 | 04:01, 14:01 | ||
| Spike | ||||||||||
| PFFSNVTWFHAIHVS | 57-71 | 8 | 03:01, 13:01 | 01:01 | 01:03 | 01:03, 05:01 | 02:01, 06:03 | 01:03, 01:03 | 04:01, 04:01 | |
| NVTWFHAIHVSGTNG | 61-75 | 8 | 03:01, 13:01 | 01:01 | 01:03 | 01:03, 05:01 | 02:01, 06:03 | 01:03, 01:03 | 04:01, 04:01 | |
| SKHTPINLVRDLPQG | 205-219 | 37 | 03:01, 04:01 | 01:01 | 01:03 | 03:01, 05:01 | 02:01, 03:02 | 01:03, 01:03 | 02:01, 03:01 | |
| PINLVRDLPQGFSAL | 209-223 | 21 | 03:02, 16:02 | 01:62 | 01:01, 01:03 | 01:02, 04:01 | 04:02, 05:02 | 02:02, 02:02 | 01:01, 01:01 | |
| 37 | 03:01, 04:01 | 01:01 | 01:03 | 03:01, 05:01 | 02:01, 03:02 | 01:03, 01:03 | 02:01, 03:01 | |||
| YNYLYRLFRKSNLKP | 449-463 | 37 | 03:01, 04:01 | 01:01 | 01:03 | 03:01, 05:01 | 02:01, 03:02 | 01:03, 01:03 | 02:01, 03:01 |
| . | . | . | . | . | . | . | . | . | . | . |
|---|---|---|---|---|---|---|---|---|---|---|
| Peptide sequence . | Amino acid location . | Subject . | HLA-DRB1 . | HLA-DRB3 . | HLA-DRB4 . | HLA-DRB5 . | HLA-DQA1 . | HLA-DQB1 . | HLA-DPA1 . | HLA-DPB1 . |
| Membrane | ||||||||||
| LRGHLRIAGHHLGRC | 144-159 | 6 | 07:01, 11:04 | 02:02 | 01:03 | 02:01, 05:01 | 03:01, 03:03 | 01:03, 02:01 | 03:01, 03:03 | |
| 10 | 07:01, 11:01 | 02:02 | 01:01 | 02:01, 05:01 | 02:02, 03:01 | 01:03, 03:01 | 04:01, 11:01 | |||
| 13 | 11:04, 15:02 | 02:02 | 01:01, 01:03 | 01:02 | 01:03, 05:01 | 03:01, 06:01 | 01:03, 02:01 | 02:01, 14:01 | ||
| 18 | 11:04, 15:01 | 02:02 | 01:02, 05:01 | 03:01, 06:02 | 01:03, 02:01 | 04:01, 14:01 | ||||
| LRIAGHHLGRCDIKD | 148-163 | 6 | 07:01, 11:04 | 02:02 | 01:03 | 02:01, 05:01 | 03:01, 03:03 | 01:03, 02:01 | 03:01, 03:03 | |
| 13 | 11:04, 15:02 | 02:02 | 01:01, 01:03 | 01:02 | 01:03, 05:01 | 03:01, 06:01 | 01:03, 02:01 | 02:01, 14:01 | ||
| SRTLSYYKLGASQRV | 173-188 | 10 | 07:01, 11:01 | 02:02 | 01:01 | 02:01, 05:01 | 02:02, 03:01 | 01:03, 03:01 | 04:01, 11:01 | |
| 13 | 11:04, 15:02 | 02:02 | 01:01, 01:03 | 01:02 | 01:03, 05:01 | 03:01, 06:01 | 01:03, 02:01 | 02:01, 14:01 | ||
| 17 | 12:01, 15:01 | 02:02 | 01:01 | 01:01 | 01:02, 05:01 | 03:01, 05:01 | 01:03, 01:03 | 02:01, 04:01 | ||
| 18 | 11:04, 15:01 | 02:02 | 01:02, 05:01 | 03:01, 06:02 | 01:03, 02:01 | 04:01, 14:01 | ||||
| 21 | 03:02, 16:02 | 01:62 | 01:01, 01:03 | 02:02 | 01:02, 04:01 | 04:02, 05:02 | 02:02, 02:02 | 01:01, 01:01 | ||
| 23 | 01:01, 03:01 | 01:01 | 01:01, 01:03 | 01:01, 05:01 | 02:01, 05:01 | 01:03, 01:03 | 02:01, 02:01 | |||
| SYYKLGASQRVAGDS | 177-192 | 10 | 07:01, 11:01 | 02:02 | 01:01 | 02:01, 05:01 | 02:02, 03:01 | 01:03, 03:01 | 04:01, 11:01 | |
| 17 | 12:01, 15:01 | 02:02 | 01:01 | 01:01 | 01:02, 05:01 | 03:01, 05:01 | 01:03, 01:03 | 02:01, 04:01 | ||
| 21 | 03:02, 16:02 | 01:62 | 01:01, 01:03 | 02:02 | 01:02, 04:01 | 04:02, 05:02 | 02:02, 02:02 | 01:01, 01:01 | ||
| 23 | 01:01, 03:01 | 01:01 | 01:01, 01:03 | 01:01, 05:01 | 02:01, 05:01 | 01:03, 01:03 | 02:01, 02:01 | |||
| LGASQRVAGDSGFAA | 181-195 | 23 | 01:01, 03:01 | 01:01 | 01:01, 01:03 | 01:01, 05:01 | 02:01, 05:01 | 01:03, 01:03 | 02:01, 02:01 | |
| Nucleocapsid | ||||||||||
| KPRQKRTATKAYNVT | 257-271 | 24 | 04:01, 07:01 | 01:01 | 01:03 | 03:01, 05;05 | 03:01, 03:02 | 02:01, 02:01 | 14:01, 14:01 | |
| AFFGMSRIGMEVTPS | 313-327 | 18 | 11:04, 15:01 | 02:02 | 01:02, 05:01 | 03:01, 06:02 | 01:03, 02:01 | 04:01, 14:01 | ||
| Spike | ||||||||||
| PFFSNVTWFHAIHVS | 57-71 | 8 | 03:01, 13:01 | 01:01 | 01:03 | 01:03, 05:01 | 02:01, 06:03 | 01:03, 01:03 | 04:01, 04:01 | |
| NVTWFHAIHVSGTNG | 61-75 | 8 | 03:01, 13:01 | 01:01 | 01:03 | 01:03, 05:01 | 02:01, 06:03 | 01:03, 01:03 | 04:01, 04:01 | |
| SKHTPINLVRDLPQG | 205-219 | 37 | 03:01, 04:01 | 01:01 | 01:03 | 03:01, 05:01 | 02:01, 03:02 | 01:03, 01:03 | 02:01, 03:01 | |
| PINLVRDLPQGFSAL | 209-223 | 21 | 03:02, 16:02 | 01:62 | 01:01, 01:03 | 01:02, 04:01 | 04:02, 05:02 | 02:02, 02:02 | 01:01, 01:01 | |
| 37 | 03:01, 04:01 | 01:01 | 01:03 | 03:01, 05:01 | 02:01, 03:02 | 01:03, 01:03 | 02:01, 03:01 | |||
| YNYLYRLFRKSNLKP | 449-463 | 37 | 03:01, 04:01 | 01:01 | 01:03 | 03:01, 05:01 | 02:01, 03:02 | 01:03, 01:03 | 02:01, 03:01 |
Boldface type indicates a strong binder (< 2); italic type indicates a weak binder (2-10).