Table 1.
Characterization of HLA-B*35;01-restricted VACV-derived determinants presented during active infection
| VACCC ORFa | Sequence | Prior reportsb | Cnc | DPId | #Hitse | Functionf | Temporal Expg | VARVh | MONPV | ECTV |
|---|---|---|---|---|---|---|---|---|---|---|
| A4L83-91 | VPTATPAPI | [1] | 1.5598 | 1,3 | 10 | S | E/L | NSH | NSH | NSH |
| A8R25-34 | TPMIKENSGF | 1.717 | 1 | 3 | T | I/E | S8I | |||
| A10L111-119 | NPIINTHSF | [2] | 1.5417 | 3 | 1 | S | L | S8N | ||
| A10L457-465 | FPRKDKSIM | 1.5653 | 3 | 1 | S | L | ||||
| A10L853-862 | RPKILSMINY | 1.8534 | 1 | 7 | S | L | ||||
| A11R298-306 | SPVLNIVLF | 1.5163 | 1 | 7 | O | L | ||||
| A16L250-259 | YPKSNSGDKY | [2] | 1.8503 | 1 | 3 | S | L | |||
| A17L91-100 | LPLTSLVITY | [2] | 2.9936 | 1,3 | 8 | S | L | |||
| A18R52-61 | SPSVKTSLVF | 1.505 | 3 | 1 | T | E | S3C | |||
| A18R237-245 | TPRPANRIY | 1.6559 | 1,3 | 2 | T | E | A5S | |||
| A20R4-12 | LPVIFLPIF | 1.9299 | 3 | 2 | R | E | NSH | NSH | ||
| A20R162-170 | IPKYLEIEI | [1] | 1.8813 | 1 | 1 | R | E | K3N | K3N | |
| A21L99-107 | IPGFARSCY | 1.5227 | 3 | 1 | S | L | A5T | I1L;A5V | ||
| A24R663-671 | FPAEFRDGY | 1.9133 | 1,3 | 2 | T | E | ||||
| A24R1002-1010 | KPYASKVFF | [1] | 1.924 | 3 | 1 | T | E | A4E | ||
| A32L1103-1111 | IPISDYTGY | 2.0188 | 1,3 | 10 | T | E | ||||
| A37R129-138 | IPSKRLVTSF | 1.6865 | 1 | 1 | U | I/E | NSH | NSH | ||
| A37R240-248 | VPIKEQILY | 2.2542 | 1 | 1 | U | I/E | NSH | V1L | NSH | |
| A39R394-403 | MPQMKKILKM | 1.9143 | 1 | 1 | E/V | L | NSH | NSH | M1I;Q3R | |
| A44L326-335 | SPIFDVDVAF | 1.5898 | 1 | 1 | E/V | I/E | NSH | |||
| A51R94-102 | TPTGVYNYF | 1.6732 | 1 | 1 | U | E | ||||
| A55R213-221 | SPQVIKSLY | 1.838 | 1,3 | 4 | E/V | E | NSH | NSH | ||
| B3R39-48 | IPSTVKTNLY | [2] | 1.8943 | 1 | 2 | U | I/E | I1M | ||
| B8R70-78 | FPKNDFVSF | [1] ; [2] | 2.237 | 1 | 2 | E/V | E | K3N | ||
| B8R104-112 | PPTVTLTEY | 1.6996 | 3 | 1 | E/V | E | T5R | |||
| B8R158-167 | EPVTYDIDDY | [1] | 1.5432 | 3 | 1 | E/V | E | D6N | T4I | |
| B9R10-19 | FPSIIYSMSI | 1.5804 | 3 | 1 | U | E/L | NSH | NSH | ||
| B12R52-60 | KPLLSEIRF | 1.7458 | 1 | 1 | U | I/E | I4M;R8N | K1R | ||
| B16R4-12 | LPVIFLSIF | 1.5123 | 1 | 1 | E/V | L | NSH | S7P | NSH | |
| B16R52-61 | NPTQSDSGIY | 1.5403 | 1 | 1 | E/V | L | S5T | |||
| B16R76-84 | IPIDNGSNM | 1.6 | 1 | 4 | E/V | L | G6C;S7N | P2Q | S7N | |
| B17L181-190 | APLPGNVLVY | [1] | 1.8017 | 1,3 | 5 | U | E | L3Y | NSH | |
| C2L337-345 | LPNLITPRY | 2.4458 | 3 | 2 | E/V | E | ||||
| C9L130-138 | IPTCSNIQY | 1.5769 | 1,2,3 | 3 | U | E/L | NSH | NSH | ||
| D1R475-483 | VPIKFIAEF | 1.5121 | 1 | 1 | T | E | ||||
| D4Rl81-189 | HPAARDRQF | 1.6429 | 3 | 1 | R | E | R7H | R7H | ||
| D4R186-194 | SPVTTIVGY | 1.7325 | 1,3 | 6 | R | E | ||||
| D8L160-169 | LPSKLDYFTY | [1] | 1.8428 | 3 | 1 | S | L | T9K | K4T | K4T |
| D11L185-194 | TPIVNSVQEF | 1.6056 | 1,3 | 5 | T | L | I3V | |||
| D11L506-514 | MPTVDEDLF | 1.606 | 1 | 1 | T | L | ||||
| D12L34-43 | LPSLEYGANY | [2] | 1.6592 | 3 | 3 | T | E | |||
| D13L160-168 | TPFDVEDTF | [2] | 2.2957 | 1 | 8 | 0 | L | |||
| E1L10-18 | FPNITLKII | [2] | 1.9468 | 1,3 | 5 | T | E | F1L | F1L | |
| E3L117-125 | NPVTVINEY | 2.2336 | 1,2,3 | 21 | E/V | I/E | V5I | V5I | ||
| E8R233-241 | DPVLMFLLF | 1.736 | 3 | 2 | S | E/L | ||||
| E9L488-496 | LPQSMVFEY | 1.5988 | 3 | 2 | R | E | ||||
| E9L526-534 | FPYEGGKVF | [1] | 1.8446 | 3 | 2 | R | E | |||
| F1L162-170 | NPVKTIKMF | 1.7642 | 3 | 2 | U | E | K4E | K4E | K4E | |
| F2L26-35 | SPGAAGYDLY | [1] | 1.5367 | 1,2,3 | 4 | R | E | G3Y | NSH | |
| F3L435-443 | YPRDNPELI | 1.5905 | 3 | 1 | E/V | E | P2Q | |||
| G2R1-9 | MPFRDLILF | 2.2046 | 1 | 6 | T | E | ||||
| G9R69-77 | GPGGLSALL | [1] | 1.5564 | 3 | 1 | S | L | G4N | ||
| H1L133-142 | SPMLYFLYVY | 1.6313 | 3 | 2 | T | E/L | ||||
| H2R141-150 | DPSAQQFCQY | 1.585 | 3 | 2 | S | L | ||||
| H4L636-645 | EPTDASLKNF | 1.8267 | 3 | 1 | T | L | N9Q | E1K | ||
| H6R156-164 | SPDEIVIKF | 1.7386 | 3 | 3 | T | E/L | E4K | |||
| I1L53-62 | IPVDLVKSSF | [2] | 2.9981 | 1,3 | 3 | S | L | |||
| I4L670-678 | LPEDIKRVY | 2.1136 | 3 | 1 | R | E | ||||
| I6L159-167 | IPMSIISFF | [3] | 1.6008 | 1,3 | 5 | U | E/L | M3I | ||
| I7L153-161 | NPKVVKMKI | 1.5407 | 3 | 1 | S | L | ||||
| I12L15-23 | SPEDDLTDF | 1.6251 | 3 | 1 | U | N/A | P2Q | |||
| J6R177-185 | WPLLEIHQY | 2.5974 | 1 | 1 | T | E | ||||
| L3L291-299 | VPKEDYYFI | 2.2064 | 1 | 1 | T | L | ||||
| L4R37-45 | FPRSMLSIF | [1] ; [4] | 1.9615 | 1 | 1 | T | L | |||
| L5R10-18 | NPVFIEPTF | 1.6253 | 3 | 2 | S | L | ||||
| N2L147-155 | KPVYSYVLY | 1.5179 | 1,3 | 3 | 0 | I/E | V3I | V3I | ||
| O1L4-12 | YPEFARKAL | 1.543 | 1 | 2 | U | I/E | ||||
| O1L549-557 | IPITDSLSF | 1.6041 | 1,3 | 2 | U | I/E | D5E |
Open reading frames (ORF) and location of epitopes are defined based on Copenhagen reference strain (VACCC, ID 10249)
Prior reports according to immune epitope data base (IEDB; www.iedb.org); blank, this study
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
Protein function according to ([5]); S, structural (virion membrane and core); T, transcription; E/V, evasion/virulence; O, other; U, unknown; P, pseudogenes
Temporality of expression (shortened) according to ([6]): IE, immediate early; E; early; E/L, early/late; L, late; N/A, unidentified
Peptide homologies were identified using Netblast (blastcl3 at www.ncbi.nlm.nih.gov) using the following taxonomy id: VARV, variola virus, 10255; ECTV, ectromelia virus, 12643; MONPV, monkeypox virus, 10244
Amino acid changes for homologous poxviral epitopes; NSH, no significant homology; blank, conserved sequences with 100 % homology