Table 2 Overview of regulated proteins and associated pathways in RSV infection
Pathway/ Protein | Swiss Prot # | Gene Name | ln (R) | R | PLGS Score | fr# | r | pep # | % cov |
|---|---|---|---|---|---|---|---|---|---|
JAK/STAT | Â | Â | Â | Â | Â | Â | Â | Â | Â |
   GRB23 | P62993 | growth factor receptor-bound protein 2 | 0.25 | 1.28 | 432.2 | 17 | a | 13 | 71.0 |
   ERK1¹ | P27361 | extracellular signal-regulated kinase 1 | RSV | RSV | 326.1 | 21 | e | 9 | 33.8 |
   ERK2¹ | P28482 | etracellular signal-regulated kinase 2 | 0.36 | 1.43 | 390.6 | 24 | a | 18 | 54.4 |
   PIK3R22 | O00459 | phosphoinositide-3-kinase, regulatory subunit 2 (beta) | mock | mock | 758.6 | 19 | a | 23 | 45.2 |
Regulation of eIF4 and p70S6K (includes protein # 1,2,3) | |||||||||
   EIF1AX | P47813 | eukaryotic translation initiation factor 1A, X-linked | -0.43 | 0.65 | 346.6 | 10 | a | 3 | 27.8 |
   EIF1AY | O14602 | eukaryotic translation initiation factor 1A, Y-linked | -0.37 | 0.69 | 367.2 | 10 | a | 7 | 47.2 |
   EIF2B2 | P49770 | eukaryotic translation initiation factor 2B, subunit 2 beta | -0.35 | 0.70 | 476.2 | 19 | a | 12 | 45.9 |
   EIF3C7 | Q99613 | eukaryotic translation initiation factor 3, subunit C | RSV | RSV | 268.6 | 15 | e | 5 | 6.4 |
   EIF3E7 | P60228 | eukaryotic translation initiation factor 3, subunit E | -0.40 | 0.67 | 462.1 | 15 | a | 12 | 40.2 |
   EIF4E4 | P06730 | eukaryotic translation initiation factor 4E | -0.48 | 0.62 | 176.0 | 17 | b | 5 | 31.3 |
   ITGA55 | P08648 | integrin, alpha 5 | 0.37 | 1.45 | 678.2 | 4 | a | 9 | 10.9 |
   PP2R2B6 | Q00005 | protein phosphatase 2, regulatory subunit B, beta | mock | mock | 441.0 | 19 | a | 7 | 22.3 |
   RPS67 | P62753 | ribosomal protein S6 | RSV | RSV | 176.7 | 17 | d | 5 | 23.3 |
ERK/MAPK (includes protein # 1,2,3,4,5,6) | |||||||||
   CRKL | P46109 | Crk-like protein | mock | mock | 308.7 | 19 | a | 9 | 45.5 |
   PAK19 | Q13153 | p21 protein (Cdc42/Rac)-activated kinase 1 | -0.31 | 0.73 | 641.9 | 17 | a | 9 | 26.6 |
   PPP1R14B | Q96C90 | protein phosphatase 1, regulatory (inhibitor) subunit 14B | -0.59 | 0.55 | 270.7 | 7 | a | 4 | 38.1 |
   RAC18 | P63000 | ras-related C3 botulinum toxin substrate 1 | -0.32 | 0.73 | 163.5 | 21 | b | 3 | 24.0 |
   RAC2 | P15153 | ras-related C3 botulinum toxin substrate 2 | mock | mock | 149.9 | 21 | a | 4 | 31.8 |
mTOR (includes protein # 1,2,4,6,7,8) | |||||||||
   AKT1S1 | Q96B36 | AKT1 substrate 1 (proline-rich) | -0.29 | 0.75 | 163.9 | 4 | a | 4 | 20.7 |
   PLD3 | Q8IV08 | phospholipase D family, member 3 | mock | mock | 222.5 | 22 | a | 9 | 19.6 |
   RHOJ | Q9H4E5 | ras homolog gene family, member J | -0.38 | 0.68 | 150.9 | 21 | b | 3 | 22.9 |
AKT (includes protein # 1,2,3,4,5,6) | |||||||||
   CTNNB1 | P35222 | catenin (cadherin-associated protein), beta 1 | RSV | RSV | 507.3 | 17 | e | 12 | 22.3 |
   HLA-B10 | P30484 | major histocompatibility complex, class I, B | -0.38 | 0.68 | 465.8 | 20 | b | 5 | 16.6 |
RAC (includes protein # 1,2,5,8,9) | |||||||||
   ARPC512 | O15511 | actin related protein 2/3 complex, subunit 5 | 0.27 | 1.31 | 333.6 | 14 | a | 6 | 41.7 |
   ARPC5L12 | Q9BPX5 | actin related protein 2/3 complex, subunit 5-like | 0.31 | 1.36 | 261.0 | 19 | a | 7 | 66.0 |
   IQGAP1 | P46940 | IQ motif containing GTPase activating protein 1 | mock | mock | 1092.7 | 15 | a | 41 | 39.2 |
RAN | |||||||||
   CSE1L | P55060 | chromosome segregation 1-like protein (exportin 2) | mock | mock | 559.9 | 20 | a | 17 | 29.6 |
   IPO5 | O00410 | importin 5 | RSV | RSV | 168.6 | 7 | e | 8 | 9.2 |
Clathrin mediated Endocytosis (includes protein # 2,3,5,8,12) | |||||||||
   CTTN | Q14247 | cortactin | mock | mock | 356.7 | 12 | a | 24 | 42.9 |
   PPP3CA | Q08209 | protein phosphatase 3, catalytic subunit, alpha isozyme | -0.30 | 0.74 | 357.0 | 17 | a | 8 | 19.8 |
   SH3GLB1 | Q9Y371 | SH3-domain GRB2-like endophilin B1 | mock | mock | 349.2 | 15 | a | 3 | 9.9 |
   TSG101 | Q99816 | tumor susceptibility gene 101 | mock | mock | 271.2 | 19 | a | 6 | 17.4 |
Protein Ubiquitination (includes protein # 10) | |||||||||
   B2M | P61769 | beta-2-microglobulin | 0.56 | 1.75 | 352.1 | 21 | a | 3 | 37.8 |
   BAG1 | Q99933 | BCL2-associated athanogene | mock | mock | 515.4 | 10 | a | 14 | 47.8 |
   DNAJA1 | P31689 | DnaJ (Hsp40) homolog, subfamily A, member 1 | RSV | RSV | 233.5 | 24 | d | 13 | 36.8 |
   DNAJB11 | Q9UBS4 | DnaJ (Hsp40) homolog, subfamily B, member 11 | 0.25 | 1.28 | 601.3 | 19 | a | 12 | 43.0 |
   HLA-C | Q95604 | major histocompatibility complex, class I, C | -0.35 | 0.70 | 390.6 | 20 | b | 7 | 30.9 |
   PSMC5 | P62195 | proteasome 26S subunit, ATPase, 5 | RSV | RSV | 355.9 | 24 | d | 15 | 42.6 |
   PSMD5 | Q16401 | proteasome 26S subunit, non-ATPase, 5 | -0.32 | 0.73 | 1246.8 | 12 | a | 26 | 41.4 |
   SKP1 | P63208 | S-phase kinase-associated protein 1 | -0.32 | 0.73 | 999.1 | 4 | a | 9 | 46.6 |
   TCEB1 | Q15369 | transcription elongation factor B (SIII), pp 1 (elongin C) | -0.29 | 0.75 | 630.9 | 5 | a | 7 | 66.1 |
   TCEB2 | Q15370 | transcription elongation factor B (SIII), pp 2 (elongin B) | RSV | RSV | 163.7 | 5 | d | 8 | 89.8 |
   UBE2F | Q969M7 | ubiquitin-conjugating enzyme E2F | RSV | RSV | 118.4 | 22 | e | 4 | 22.2 |
   UBE2G2 | P60604 | ubiquitin-conjugating enzyme E2G 2 | mock | mock | 120.4 | 5 | b | 3 | 27.9 |
   USP11 | P51784 | ubiquitin specific peptidase 11 | -0.32 | 0.73 | 643.5 | 10 | a | 30 | 49.2 |
Interferon | |||||||||
   IFIT3 | O14879 | Interferon-induced protein with tetratricopeptide repeats 3 | 1.09 | 2.97 | 441.8 | 10 | b | 14 | 48.2 |
Glycolysis | |||||||||
   ACSS211 | Q9NR19 | acyl-CoA synthetase short-chain family member 2 | mock | mock | 277.5 | 21 | a | 8 | 17.1 |
   ALDH1A1 | P00352 | aldehyde dehydrogenase 1 family, member A1 | RSV | RSV | 370.0 | 17 | d | 7 | 30.5 |
   ALDH1A2 | O94788 | aldehyde dehydrogenase 1 family, member A2 | RSV | RSV | 281.6 | 17 | d | 9 | 31.5 |
   ALDH1A3 | P47895 | aldehyde dehydrogenase 1 family, member A3 | RSV | RSV | 396.4 | 23 | d | 15 | 49.6 |
   GALK113 | P51570 | galactokinase 1 | -0.31 | 0.73 | 1066.4 | 19 | a | 17 | 55.6 |
   PKLR | P30613 | pyruvate kinase, liver and RBC | RSV | RSV | 515.0 | 17 | d | 7 | 16.6 |
One Carbon Pool by Folate | |||||||||
   GCSH | P23434 | glycine cleavage system protein H | mock | mock | 189.5 | 4 | a | 3 | 25.4 |
   MTHFD1 | P11586 | methylenetetrahydrofolate dehydrogenase (NADP+ dep.) 1 | mock | mock | 695.6 | 24 | a | 27 | 39.3 |
   MTR | Q99707 | 5-methyltetrahydrofolate-homocysteine methyltransferase | mock | mock | 1141.5 | 14 | b | 35 | 36.5 |
   TYMS | P04818 | thymidylate synthetase | -0.26 | 0.77 | 338.3 | 24 | a | 12 | 38.3 |
Aminosugars Metabolism (includes protein # 13) | |||||||||
   GFPT2 | O94808 | glutamine-fructose-6-phosphate transaminase 2 | RSV | RSV | 654.1 | 23 | d | 16 | 33.4 |
   HEXA | P06865 | hexosaminidase A (alpha polypeptide) | -0.37 | 0.69 | 160.6 | 7 | a | 8 | 14.4 |
   HEXB | P07686 | hexosaminidase B (beta polypeptide) | mock | mock | 265.4 | 22 | a | 10 | 16.7 |
   NAGK | Q9UJ70 | N-acetylglucosamine kinase | -0.55 | 0.58 | 324.8 | 17 | a | 12 | 52.9 |
   PDE12 | Q6L8Q7 | phosphodiesterase 12 | RSV | RSV | 310.9 | 17 | d | 13 | 26.3 |
Aminoacyl tRNA Biosynthesis | |||||||||
   FARSA | Q9Y285 | phenylalanyl-tRNA synthetase, alpha subunit | RSV | RSV | 243.5 | 24 | d | 12 | 29.5 |
   KARS | Q15046 | lysyl-tRNA synthetase | -0.28 | 0.76 | 651.6 | 7 | a | 24 | 38.4 |
   SARS2 | Q9NP81 | seryl-tRNA synthetase 2, mitochondrial | 0.57 | 1.77 | 626.4 | 23 | a | 22 | 51.0 |
Gluthathion Metabolism (includes protein # 11) | |||||||||
   GCLM | P48507 | glutamate-cysteine ligase, modifier subunit | -0.54 | 0.58 | 398.5 | 16 | a | 7 | 32.8 |
   GSTM2 | P28161 | glutathione S-transferase mu 2 | RSV | RSV | 222.9 | 12 | e | 10 | 43.6 |
   GSTM3 | P21266 | glutathione S-transferase mu 3 | -0.25 | 0.78 | 372.1 | 12 | a | 13 | 61.3 |
   GSTO1 | P78417 | glutathione S-transferase omega 1 | -0.4 | 0.67 | 645.9 | 19 | a | 16 | 67.2 |
OTHER | |||||||||
   XRN2 | Q9H0D6 | 5'-3' exoribonuclease 2 | RSV | RSV | 532.2 | 17 | e | 17 | 24.7 |