Table 2.
Characterization of HLA-B*35;01-restricted self peptides presented during active infection
| Protein | Peptide sequencesa | Prior Reportsb | Interferon Responsivec | Cnd | DPIe | # Hitsf | Oncogene statusg | VACVh |
|---|---|---|---|---|---|---|---|---|
| AHSA1 | SPEELYRVF | 3.6857 | 1,3 | 4 | ||||
| AIM1 | LPDNSLKVF | 4 | 2.2947 | 3 | 2 | candidate | KVF7DGYi | |
| APEH | VPFKQGMEY | 1 | 2 | |||||
| ARHGEF18 | LPSGVGPEY | 1 | 2.3883 | 1 | 2 | |||
| ARPC4 | KPVEGYDISF | 3.4382 | 3 | 4 | ||||
| ATP5F1 | VPVPPLPEY | 1 | 2.4713 | 3 | 7 | |||
| ATP6V1B2 | HPIPDLTGY | 2 | 1 | 2 | ||||
| BLMH | KPLFNMEDKI | 2.1907 | 1 | 1 | ||||
| CANX | APPSSPKVTY | 1 | 2.5506 | 3 | 1 | |||
| CAPN1 | LPIKDGKLVF | 2.2217 | 3 | 1 | ||||
| CCT4 | HPTIISESF | [1] | 2.2973 | 1 | 2 | H1Y;I5F;S8T | ||
| CTNNA1 | NPVQALSEF | 2.6248 | 1 | 3 | ||||
| DDOST | FPDKPITQY | 1 | 2.8022 | 1,2 | 7 | |||
| DDX21 | SPPKDVESY | 2.4713 | 3 | 2 | ||||
| DDX50 | SPPQDVESY | 2.8877 | 2,3 | 5 | ||||
| DEK | FPFEKGSVQY | 2 | 2.6723 | 1,3 | 3 | known | ||
| DNAJC13 | LPVARFLKY | 1 | 2.0127 | 3 | 1 | |||
| EEF1G | FPAGKVPAF | 2.6279 | 1,3 | 5 | ||||
| EEF2 | LPSPVTAQKY | 3 | 3 | 4 | ||||
| LPVNESFGF | 2.275 | 1 | 3 | |||||
| EFHD2 | NPYTEFKEF | 2.7636 | 3 | 1 | ||||
| ERH | NPNSPSITY | [2] | 3.0901 | 1,2,3 | 15 | |||
| FH | MPTPVIKAF | 2 | 2.8021 | 1 | 6 | known* | ||
| FLNA | VPASLPVEF | 2 | 2.0951 | 3 | 2 | candidate | ||
| GLS | DPRLKECMDM | 16 | 2.1995 | 1 | 1 | |||
| GOT2 | LPIGGLAEF | 2.1101 | 1 | 5 | ||||
| HDGF | FPYEESKEKF | 1 | 3 | 5 | ||||
| HPRT1 | IPDKFVVGY | 3.1871 | 1,3 | 7 | ||||
| HSPA8 | IPTKQTQTF | 1 | 2.4455 | 3 | 2 | TQ6NF K4R;Q5K; Q7R |
||
| QPGVLIQVY | 2.2033 | 3 | 1 | |||||
| ILF2 | KPAPDETSF | 2.1768 | 1 | 1 | ||||
| ISOC1 | IPVIVTEQY | 1 | 2.4097 | 1 | 2 | |||
| LGALS3 | FPFESGKPF | 2.2508 | 1 | 1 | ||||
| LTA4H | VPYEKGFAL | 4 | 2.4068 | 3 | 3 | |||
| MPI | RPVEEIVTF | 1 | 2.4651 | 3 | 4 | candidate | ||
| MTHFD1 | TPVPGGVGPM | 1 | 2.5411 | 1 | 3 | |||
| MYO1C | APVGGHILSY | 2.3905 | 3 | 2 | ||||
| MYO1G | DPIGGHIHSY | 2.6728 | 3 | 4 | ||||
| NARG1 | TPLEEAIKF | 2.0495 | 1 | 1 | candidate | |||
| NDUFS2 | LPYFDRLDY | 2.1946 | 3 | 1 | ||||
| NIT2 | IPEEDAGKLY | 2.7275 | 1 | 1 | ||||
| NONO | RPSGKGIVEF | 1 | 2.4937 | 2,3 | 7 | |||
| NUP210 | FPAPAKAVVY | 7 | 2.0796 | 3 | 2 | known | ||
| PABPC1 | VPNPVINPY | 2 | 3.4778 | 1,2 | 2 | candidate | ||
| PDCD6IP | FPQPPQQSY | 2.1958 | 1 | 1 | candidate | |||
| PLEC1 | LPTEEQRVY | 2.171 | 3 | 2 | ||||
| PPA2 | EPMNPIKQY | 2.9655 | 3 | 1 | ||||
| PRPF8 | SPIPFPPLSY | 2 | 2.7818 | 1,3 | 17 | |||
| PSMD7 | LPINHQIIY | 2.6684 | 3 | 2 | candidate | |||
| RAD23A | FPVAGQKLIY | 2.7215 | 3 | 2 | ||||
| RAD23B | FPEGLVIQAY | 1 | 2.2462 | 1 | 1 | |||
| RPL15 | RPVPKGATY | 3 | 2.725 | 3 | 2 | |||
| RPN1 | APDELHYTY | 2.1773 | 1,3 | 2 | ||||
| SFRS2IP | LPADVQNYY | 2.6707 | 1 | 2 | known | |||
| SLC25A6 | IPKEQGVLSF | 7 | 2.2361 | 1 | 1 | |||
| SPTBN1 | YPNVNIHNF | 1 | 2.5082 | 3 | 2 | |||
| SRRM2 | SPRVPLSAY | 2.2579 | 3 | 2 | ||||
| STIP1 | NPFNMPNLY | 2.2604 | 1 | 1 | ||||
| SYNCRIP | DPYYGYEDF | 1 | 3.1554 | 3 | 3 | candidate | ||
| SYTL3 | RPDGTLNSF | 2.1761 | 1 | 1 | G4S;T5E; F9S | |||
| TMOD3 | IPIPTLKDF | 1 | 2.6011 | 1 | 3 | |||
| TMPO | TPFKGGTLF | 2 | 2.7071 | 1,3 | 8 | |||
| FPEISTRPPL | 2.6193 | 3 | 6 | |||||
| TOP2A | LPVKGFRSY | 2 | 2.2794 | 1 | 1 | |||
| TUBB3 | YPDRIMNTF | 1 | 2.6326 | 3 | 1 | |||
| UBE2L3 | YPFKPPKITF | 2.0431 | 1 | 1 | ||||
| VCP | YPVEHPDKF | 2.9714 | 1 | 4 |
Potential peptides were determined to be derived from proteins encoded by the HeLa genome.
Prior reports according to immune epitope data base (IEDB; www.iedb.org); blank, this study
Number of entries reporting type I interferon responsiveness for the protein
Correlation coefficient represents the number of peak identities determined between the theoretically and experimentally derived spectra for a given parent ion normalized to the charge state of the peptide
Days post infection of HeLa cultures with VACV at which the peptide was identified
Total number of times a given peptide sequence was identified by mass spectrometry
Peptides derived from proteins that represent known or potential oncogenes
indicates mutated self peptide
Amino acid substitutions compared with VACV proteome. Only amino acid substitutions from sequences >66% identical are annotated. Blank, no significant homology
Amino acid changes for homologous VACV epitopes; blank, no significant homology