Table 1.
Structural proteins of CIV identified by LC-MS/MS with 2 or more distinct peptides.. The ORFs are ordered by the mass of the encoded proteins (column 3).
| ORF | NCBI accession No | Mol. mass (kDa) | Protein coverage (% by amino acids) | Peptide hits on first rank | Relative abundancea (% peak area) | Predicted domains/function |
|---|---|---|---|---|---|---|
| 443R | AAK82303 | 237.22 | 8.10 | 15 | 0.30 | |
| 295L | AAK82156 | 156.42 | 24.70 | 43 | 0.22 | Bipartite nuclear localization signal |
| 179R | AAB94478 | 137.93 | 14.70 | 24 | 0.06 | CAP10, Putative lipopolysaccharide-modifying enzyme, tyrosine protein kinase |
| 022L | AAD48148 | 135.34 | 32.20 | 34 | 0.20 | Putative nucleoside triphosphatase I; DEXDc; DEAD-like helicase superfamily |
| 261R | AAK82122 | 129.06 | 2.70 | 30 | 2.20 | Potential repetitive protein |
| 209R | AAK82071 | 118.34 | 39.20 | 52 | 0.69 | Serine/threonine protein kinase |
| 396L | AAK82256 | 111.28 | 21.90 | 29 | 0.16 | Potential repetitive protein |
| 268L | AAK82129 | 83.22 | 46.10 | 74 | 2.06 | |
| 149L | AAB94464 | 76.41 | 36.60 | 72 | 0.91 | |
| 232R | AAK82093 | 75.56 | 49.00 | 75 | 1.63 | DNA polymerase (viral) N terminal domain, 2-cysteine adaptor domain, OTU like cysteine protease |
| 439L | AAK82299 | 63.45 | 12.10 | 8 | 0.02 | Protein kinase domain |
| 361L | AAK82221 | 60.58 | 50.70 | 55 | 1.06 | Peptidase_C1A_CathepsinB |
| 380R | AAK82240 | 59.91 | 54.50 | 73 | 2.05 | S_TKc, Serine or threonine-specific kinase subfamily |
| 213R | AAK82075 | 58.42 | 29.70 | 22 | 0.16 | Putative peptidoglycan bound protein |
| 118L | AAB94444 | 55.29 | 55.10 | 65 | 1.77 | Putative envelope protein |
| 198R | AAK82060 | 52.15 | 42.60 | 26 | 0.32 | |
| 274L | AAK82135 | 51.29 | 63.20 | 157 | 17.97 | Major capsid protein |
| 229L | AAK82090 | 50.64 | 22.30 | 15 | 0.25 | |
| 337L | AAK82199 | 46.13 | 27.20 | 25 | 0.21 | Poxvirus protein of unknown function |
| 159L | AAB94468 | 45.76 | 34.90 | 58 | 3.98 | |
| 329R | AAK82190 | 42.74 | 28.80 | 16 | 0.29 | |
| 219L | AAK82081 | 34.64 | 19.00 | 5 | 0.01 | |
| 142R | AAB94459 | 33.64 | 33.60 | 16 | 0.25 | dsRNA-specific ribonuclease |
| 457L | AAK82317 | 33.13 | 25.90 | 47 | 2.97 | |
| 155L | AAB94465 | 29.81 | 39.20 | 23 | 0.40 | |
| 401R | AAK82261 | 28.23 | 25.50 | 11 | 0.04 | HMG-box superfamily of DNA-binding proteins |
| 117L | AAB94443 | 27.45 | 29.70 | 43 | 0.93 | |
| 415R | AAK82275 | 26.66 | 63.20 | 70 | 1.34 | |
| 309L | AAK82170 | 24.83 | 70.00 | 12 | 0.10 | |
| 422L | AAK82282 | 22.73 | 49.50 | 19 | 0.20 | Cydia pomonella granulovirus ORF34 |
| 378R | AAK82238 | 22.21 | 47.70 | 12 | 0.10 | 2-cysteine adaptor domain |
| 355R | AAK82216 | 22.01 | 52.70 | 10 | 0.02 | Catalytic domain of ctd-like phosphatases |
| 234R | AAK82095 | 21.09 | 62.70 | 63 | 3.07 | |
| 111R | AAB94438 | 20.01 | 35.40 | 9 | 0.05 | |
| 096L | AAB94430 | 19.69 | 33.30 | 11 | 0.05 | Fasciclin domain |
| 374R | AAK82234 | 19.12 | 22.40 | 3 | 0.00 | Bat coronavirus spike protein |
| 325L | AAK82186 | 18.91 | 24.50 | 5 | 0.08 | |
| 203L | AAK82065 | 18.53 | 18.80 | 7 | 0.02 | |
| 084L | AAB94426 | 18.40 | 25.50 | 15 | 0.04 | |
| 061R | AAB94416 | 17.91 | 31.60 | 17 | 0.01 | Lysosome associate membrane glycoproteins |
| 123R | AAB94448 | 16.38 | 7.70 | 3 | 0.00 | Dual specificity phosphatases |
| 453L | AAK82313 | 15.91 | 26.10 | 12 | 0.05 | Protein disulfide isomerase |
| 034Rb | AAK81969 | 14.63 | 16.40 | 5 | 0.03 | |
| 366R | AAK82226 | 13.66 | 17.50 | 2 | 0.01 | |
| 138R | AAB94455 | 13.03 | 16.70 | 7 | 0.02 | |
| 312R | AAK82173 | 10.60 | 20.70 | 3 | 0.01 |
a
The relative abundance was calculated by Bioworks as % peak area over all peaks (including contaminants observed) shown after applying the following filter settings: ΔCn > 0.08, Xcorr > 1.5 for charge state 2+, Xcorr > 3.3 for charge state 3+ and Xcorr > 3.5 for charge state 4+, Sf > 0.6.
b
This protein was identified in the 34–43 kDa gel piece.