Table 5.
Summary of proteomics data from the reduction and differential Cys-labelling of 2B4 cells with GILT reductase. The modified Cys residues are indicated by residue number (@ followed by residue number in peptide) and whether the modification detected was MPB itself or a hydrolysis derivative (indicated by +H2O). Protein probability scores from iProphet meta-searches are shown and where applicable weighted spectral index counts (WSC) are shown for the reduced and control samples, respectively. The percentage sequence coverage indicates the percentage of the protein sequence observed. Cys denotes the modified Cysteine number in the protein sequence inclusive of the signal peptides.
| IPI accession | gene | protein description | protein identification probability | % sequence coverage | WSC control | WSC TCEP reduced | maleimide-modified peptide | modification | Cys |
|---|---|---|---|---|---|---|---|---|---|
| IPI00381630 | Adam17 | ADAM17 | 1 | 11.6 | GILT only | ||||
| IPI00108001 | Cd2 | CD2 | 1 | 20.3 | GILT only | CEAINPVSK | MPB@1 | 180 | |
| IPI00119703 | Cd244 | CD244, 2B4 | 1 | 22.1 | GILT only | ||||
| IPI00223769 | Cd44 | CD44 | 1 | 11.5 | 2 | 8 | |||
| IPI00124830 | Cd47 | CD47 | 1 | 15.7 | 1 | 10 | TAFNTDQGSACSYEEEK | MPB+H2O@11 | 142 |
| IPI00380293 | Cd96 | CD96 | 1 | 6.8 | GILT only | ||||
| IPI00121627 | Clptm1 | cleft lip and palate transmembrane protein 1 homologue | 1 | 20.9 | 1 | 21 | |||
| IPI00138061 | Cr1l | complement regulatory protein Crry | 1 | 11.6 | GILT only | ||||
| IPI00111286 | Creld2 | cysteine-rich with EGF-like domain protein 2 | 1 | 14 | GILT only | ||||
| IPI00420148 | Env | GP160 | 1 | 43.1 | 12.98 | 152.94 | THQALCNTTQK | MPB@6 | 368 |
| EECCFYADHTGVVR | MPB+H2O@4 | 533 | |||||||
| CNPLVLEFTDAGK | MPB+H2O@1 | 181 | |||||||
| CNPLVLEFTDAGKK | MPB@1 | 181 | |||||||
| TFDFYVCPGHTVPTGCGGPR | MPB@7 | 109 | |||||||
| EGGLCAALKEECCFYADHTGVVR | MPB+H2O@12 | 533 | |||||||
| WGCETTGQAYWKPSSSWDLISLK | MPB@3 | 131 | |||||||
| LTLSEVTGQGLCVGAVPK | MPB+H2O@12 | 356 | |||||||
| IPI00112072 | H13 | minor histocompatibility antigen H13 | 1 | 27 | 3.96 | 38.57 | HAQPALLYLVPACIGFPVLVALAK | MPB@13 | 326 |
| IPI00126300 | H2-D1 | H-2 class I histocompatibility antigen, D-K alpha chain | 1 | 26.2 | GILT only | ||||
| IPI00114492 | H2-K1 | H-2 class I histocompatibility antigen, K-B alpha chain | 1 | 32.5 | GILT only | ||||
| IPI00129526 | Hsp90b1 | endoplasmin | 1 | 58.4 | 27.94 | 152.98 | |||
| IPI00323357 | Hspa8 | heat shock cognate 71 kDa protein | 1 | 52.8 | 2.99 | 50.69 | |||
| IPI00880839 | Hspa9 | stress-70 protein | 1 | 67.7 | 5 | 256 | GAVVGIDLGTTNSCVAVMEGK | MPB+H2O@14 | 66 |
| CELSSSVQTDINLPYLTMDASGPK | MPB+H2O@1 | 317 | |||||||
| MEEFKDQLPADECNK | MPB@13 | 608 | |||||||
| AKCELSSSVQTDINLPYLTMDASGPK | MPB+H2O@3 | 317 | |||||||
| DQLPADECNK | MPB@8 | 608 | |||||||
| AKCELSSSVQTDINLPYLTMDASGPK | MPB@3 | 317 | |||||||
| IPI00990499 | Ifi30 | gamma-interferon-inducible lysosomal thiol reductase | 1 | 35.5 | GILT only | VSLYYESLCGACR | MPB+H2O@9 | 69 | |
| IPI00129679 | Ifngr1 | CD119, interferon gamma receptor 1 | 1 | 5 | GILT only | ||||
| IPI00119612 | Il2rg | CD132, cytokine receptor common gamma chain | 1 | GILT only | CLQYLVQYR | MPB@1 | 163 | ||
| IPI00120155 | Il6st | CD130, interleukin-6 receptor subunit beta | 1 | 10.8 | GILT only | ||||
| IPI00318012 | Itfg1 | T cell immunomodulatory protein | 1 | 11.1 | GILT only | ||||
| IPI00120245 | Itgav | integrin alpha-V | 1 | 6.9 | 2 | 6 | |||
| IPI00132474 | Itgb1 | integrin beta-1 | 1 | 39.8 | GILT only | ||||
| IPI00266264 | Itgb3 | integrin beta-3 | 0.9991 | 2.4 | GILT only | ||||
| IPI00134549 | Lamp2 | lysosome-associated membrane glycoprotein 2 | 1 | 18.8 | GILT only | NLSFWDAPLGSSYMCNK | MPB+H2O@15 | 336 | |
| IPI00785217 | Ldlr | low-density lipoprotein receptor | 1 | 41.2 | 7.93 | 69.38 | TTEDELHICR | MPB+H2O@9 | 843 |
| IPI00119809 | Lgals3bp | galectin-3-binding protein | 1 | 32.4 | 3 | 20 | |||
| IPI00761657 | Lgals8 | galectin-8 | 1 | 21.2 | GILT only | ||||
| IPI00114396 | Lgals9 | galectin-9 | 1 | 54 | 7 | 65 | GMPFELCFLVQR | MPB+H2O@7 | 101 |
| VPYHLVDTIAVSGCLK | MPB+H2O@14 | 138 | |||||||
| IPI00223987 | Lnpep | leucyl–cystinyl aminopeptidase | 1 | 61.2 | 11 | 309 | SAFPCFDEPAFK | MPB@5 | 305 |
| LPTAIIPLCYELSLHPNLTSMTFR | MPB+H2O@9 | 175 | |||||||
| IPI00121600 | Lrp8 | low-density lipoprotein receptor-related protein 8 | 1 | 26.5 | GILT only | ||||
| IPI00129646 | Ly9 | CD229, LY-9 | 1 | 37.7 | 8 | 42 | DAEIEHIIWNCPPK | MPB+H2O@11 | 82 |
| IPI00108844 | M6pr | CD222, cation-independent mannose-6-phosphate receptor | 1 | 39.9 | GILT only | ||||
| IPI00467908 | Notch2 | NOTCH-2 | 1 | 2.6 | 1 | 6 | |||
| IPI00125890 | Pdcd1 | CD279, PD-1 | 1 | 24 | 2 | 16 | |||
| IPI00230108 | Pdia3 | PDI-A3 | 1 | 33.3 | 6 | 29 | |||
| IPI00271951 | Pdia4 | PDI-A4 | 1 | 13.1 | GILT only | ||||
| IPI00316976 | Ptprcap | CD45-associated protein | 1 | 20.3 | GILT only | CQAEQTR | MPB@1 | 133 | |
| IPI00406609 | Ptprj | CD148 | 1 | 4.5 | GILT only | ||||
| IPI00177179 | Pvr | CD155, poliovirus receptor | 1 | 12.7 | GILT only | ||||
| IPI00116921 | Scarb1 | CD36L1, SCARB-1 | 0.9995 | 7.9 | GILT only | ||||
| IPI00127447 | Scarb2 | CD36L2, SCARB-2 | 1 | 47.3 | GILT only | DEVLYLFPSDLCR | MPB+H2O@12 | 274 | |
| IPI00318993 | Sell | CD62L, L-selectin | 1 | 9.8 | GILT only | ||||
| IPI00464135 | Sema4b | semaphorin-4B | 1 | 7.3 | GILT only | ||||
| IPI00890869 | Sema4c | semaphorin-4C | 1 | 6.5 | GILT only | ||||
| IPI00315758 | Slc11a2 | divalent cation transporter 1 | 1 | 10.2 | GILT only | LGVVTGLHLAEVCHR | MPB+H2O@13 | 137 | |
| IPI00273801 | Slc39a10 | zinc transporter ZIP10 | 1 | 10.2 | GILT only | ||||
| IPI00123428 | Slc39a14 | zinc transporter ZIP14 | 1 | 45.7 | GILT only | ||||
| IPI00469000 | Slc39a6 | zinc transporter ZIP6 | 1 | 10.1 | GILT only | ||||
| IPI00114641 | Slc3a2 | CD98, 4F2 heavy chain | 1 | 68.8 | 38 | 194 | |||
| IPI00129395 | Slc7a5 | 4F2 light chain | 1 | 19.3 | 0.5 | 15.5 | |||
| IPI00124700 | Tfrc | CD71, transferrin receptor protein | 1 | 59.1 | 30 | 179 | |||
| IPI00114457 | Tgfb1 | transforming growth factor beta-1 | 1 | 35.6 | GILT only | ||||
| IPI00109727 | Thy1 | CD90, Thy-1 | 1 | 31.5 | GILT only | ||||
| IPI00121341 | Tmx1 | thioredoxin-related transmembrane protein 1 | 1 | 29.8 | 1 | 13 | FIITALPSIYHCK | MPB+H2O@12 | 106 |
| IPI00122738 | Trbv5 | T cell receptor beta chain V region | 0.9998 | 20.5 | GILT only | ||||
| IPI00378224 | Txndc15 | thioredoxin domain-containing protein 15 | 1 | 16.9 | GILT only | ||||
| IPI00122547 | Vdac2 | voltage-dependent anion-selective channel protein 2 | 1 | 32.9 | 3 | 7.99 |