Table II. Nuclear proteins identified by LC-MS/MS demonstrating ≥2-fold change in abundance in response to IBV infection.
Notes on protein function were obtained from annotations in the UniProt database. G6P, glucose-6-phosphate; LDH, lactate dehydrogenase; pol, polymerase; PG, phosphoglycerate.
| Protein ID | Name | Ratio | Peptides | Sequence coverage | FPR | Function |
|---|---|---|---|---|---|---|
| % | ||||||
| Proteins present in increased abundance in IBV-infected cells | ||||||
| IPI00816452 | Myosin VI | 90.4 | 7 | 1.2 | 0.010476 | Motor protein, p53-responsive, enhances RNA pol II transcription |
| IPI00646779 | Tubulin β-6 chain | 10.8 | 5 | 8.7 | 1.21 × 10−41 | Major constituent of microtubules |
| IPI00171438 | TXNDC5 | 3.9 | 2 | 6 | 0.001762 | Thioredoxin activity |
| IPI00658097 | HMGN1 | 2.8 | 5 | 18.1 | 2.60 × 10−14 | Nucleosome binding |
| IPI00293845 | RIF1 | 2.0 | 2 | 0.4 | 0.003549 | Cell cycle, peak expression in late G2/S phase |
| Proteins present in decreased abundance in IBV-infected cells | ||||||
| IPI00414676 | HSP90-β | 2.0 | 6 | 11.5 | 4.66 × 10−72 | Chaperone, stress response |
| IPI00219757 | GSTP1-1 | 2.0 | 1 | 18.1 | 0.004648 | Antiapoptotic, glutathione conjugation |
| IPI00295386 | CBR1 | 2.0 | 3 | 6.1 | 2.29 × 10−23 | Catalyzes the reduction of a range of carbonyl compounds |
| IPI00184848 | ABCB11 | 2.0 | 1 | 1.3 | 2.58 × 10−61 | ATP-dependent export of bile salts and sodium |
| IPI00479186 | PKM2 | 2.0 | 9 | 17.9 | 7.24 × 10−97 | ATP generation |
| IPI00887678 | LOC654188 | 2.0 | 6 | 13 | 2.23 × 10−10 | Peptidyl-prolyl isomerase activity |
| IPI00376344 | Myosin Ib | 2.0 | 5 | 6.4 | 6.81 × 10−76 | Motor protein, cell migration and vesicular transport |
| IPI00375531 | NDK A | 2.0 | 3 | 7.9 | 1.73 × 10−6 | Nucleoside triphosphate synthesis, cell cycle |
| IPI00843975 | Ezrin | 2.0 | 6 | 15 | 9.31 × 10−71 | A determinant of cell shape |
| IPI00333770 | Zizimin-3 | 2.0 | 2 | 0.6 | 1.04 × 10−5 | Potential guanine nucleotide exchange factor |
| IPI00554481 | 4F2hc | 2.0 | 7 | 8.9 | 1.16 × 10−93 | Animo acid transport, required for cell growth |
| IPI00747849 | ATP1B1 | 2.1 | 2 | 4.6 | 0.001511 | Ion transport |
| IPI00105407 | AKR1B10 | 2.1 | 2 | 12 | 4.27 × 10−24 | Acts as all-trans-retinaldehyde reductase |
| IPI00413641 | Aldose reductase | 2.1 | 2 | 5.7 | 0.000461 | NADPH-dependent reduction of carbonyl-containing compounds |
| IPI00219675 | p21-Rac1 | 2.1 | 3 | 13.3 | 0.005477 | Small GTPase; roles in cell polarization, cell migration |
| IPI00910781 | G6P isomerase | 2.2 | 5 | 4.6 | 4.60 × 10−32 | Carbohydrate degradation |
| IPI00219365 | Moesin | 2.2 | 3 | 12.8 | 5.74 × 10−59 | Plasma membrane structure |
| IPI00910979 | Pyruvate kinase | 2.3 | 2 | 22.1 | 1.44 × 10−164 | Pyruvate kinase |
| IPI00219217 | LDH B-chain | 2.3 | 3 | 9.9 | 3.67 × 10−16 | l-Lactate dehydrogenase activity |
| IPI00297477 | U2 snRNP A | 2.3 | 2 | 9.4 | 0.003467 | mRNA splicing via the spliceosome |
| IPI00465248 | α-Enolase | 2.4 | 9 | 27.9 | 8.17 × 10−102 | Glycolysis, growth control, hypoxia tolerance |
| IPI00216298 | Thioredoxin | 2.4 | 2 | 10.5 | 0.004965 | Participates in redox reactions, cell motion, and proliferation |
| IPI00218914 | Retinal dehydrogenase 1 | 2.5 | 12 | 20 | 1.44 × 10−12 | Cofactor and retinol metabolism |
| IPI00010896 | CLIC1 | 2.5 | 3 | 15.8 | 1.28 × 10−10 | Chloride ion channel activity, pH-dependent |
| IPI00003269 | κ-Actin | 2.5 | 1 | 19.1 | 5.94 × 10−47 | Cell motility, cytoskeleton |
| IPI00453476 | PG mutase | 2.5 | 6 | 12.6 | 1.56 × 10−12 | Glycolysis, phosphoglycerate mutase |
| IPI00169383 | Phosphoglycerate kinase 1 | 2.6 | 4 | 5.8 | 0.00015 | Glycolysis, primer recognition protein |
| IPI00032826 | Hsc70-interacting protein | 2.6 | 6 | 3.5 | 0.005148 | Chaperone |
| IPI00795918 | NCAM-1 | 2.7 | 6 | 5.2 | 0.002325 | Cell adhesion |
| IPI00643920 | Transketolase | 2.8 | 4 | 5.5 | 4.12 × 10−15 | Connects the pentose phosphate pathway to glycolysis |
| IPI00299024 | BSAP1 | 2.9 | 2 | 35.2 | 2.38 × 10−43 | Cell growth/projection |
| IPI00219301 | MARCKS | 2.9 | 1 | 4.5 | 0.000205 | Cytoskeleton, actin binding |
| IPI00219219 | Galectin-1 | 3.1 | 1 | 34.8 | 8.32 × 10−63 | Apoptosis, cell differentiation, cell proliferation |
| IPI00216691 | Profilin-1 | 3.2 | 2 | 34.3 | 1.09 × 10−8 | Modulates actin polymerization |
| IPI00217466 | Histone H1c | 4.5 | 1 | 19.5 | 8.35 × 10−100 | Nucleosome formation and structure |