Table 1.
List of proteins that are up- or down-regulated in BKPyV-infected samples identified from both SILAC nuclear proteomic analyses.
| Gene names | Accession Number | Protein Name | Mean Z-Score | Infected/Uninfected Ratio | Predicted Cellular Localization | Protein Type |
|---|---|---|---|---|---|---|
| Upregulated Proteins | ||||||
| ATAD2 | Q6PL18 | ATPase family, AAA domain containing 2 | 3.604 | 8.061 | Nucleus | Enzyme |
| AURKB | Q96GD4 | Aurora Kinase B | 3.222 | 7.351 | Nucleus | Kinase |
| CCNA2 | P20248 | Cyclin A2 | 3.531 | 8.585 | Nucleus | Other |
| CCNB1 | P14635 | Cyclin B1 | 4.532 | 14.949 | Cytoplasm | Kinase |
| CDK1 | P06493 | Cyclin-dependent Kinase 1 | 3.043 | 7.704 | Nucleus | Kinase |
| CENPF | P49454 | Centromere protein F, 350/400kDa | 3.014 | 6.421 | Nucleus | Other |
| CEP55 | Q53EZ4 | Centrosomal protein 55kDa | 3.953 | 9.579 | Cytoplasm | Other |
| DNMT1 | P26358 | DNA (cytosine-5-)-methyltransferase 1 | 3.214 | 6.431 | Nucleus | Enzyme |
| ECT2 | Q9H8V3 | Epithelial cell transforming 2 | 2.544 | 4.558 | Cytoplasm | Other |
| FANCD2 | Q9BXW9 | Fanconi anemia, complementation group D2 | 3.146 | 6.430 | Nucleus | Other |
| FEN1 | P39748 | Flap structure-specific endonuclease 1 | 4.264 | 11.486 | Nucleus | Enzyme |
| HELLS | Q9NRZ9 | Helicase, lymphoid-specific | 2.854 | 5.345 | Nucleus | Enzyme |
| HMGB1 | P09429 | High mobility group box 1 | 4.923 | 16.341 | Nucleus | Other |
| HMGB2 | P26583 | High mobility group box 2 | 4.120 | 11.174 | Nucleus | Transcription |
| HMGB3 | O15347 | High mobility group box 3 | 2.673 | 5.375 | Nucleus | Other |
| IQGAP3 | Q86VI3 | IQ motif containing GTPase activating protein 3 | 4.205 | 13.936 | Plasma Membrane | Other |
| KIF20A | O95235 | Kinesin family member 20A | 4.113 | 10.313 | Cytoplasm | Transporter |
| KIF20B | Q96Q89 | Kinesin family member 20B | 3.000 | 6.030 | Nucleus | Enzyme |
| KIF22 | Q14807 | Kinesin family member 22 | 3.704 | 8.280 | Nucleus | Other |
| KIF2C | Q99661 | Kinesin family member 2C | 3.553 | 7.674 | Nucleus | Other |
| KIF4A | O95239 | Kinesin family member 4A | 3.229 | 6.528 | Nucleus | Other |
| KIFC1 | Q9BW19 | Kinesin family member C1 | 3.826 | 9.350 | Nucleus | Enzyme |
| KPNA2 | P52292 | Karyopherin alpha 2 (RAG cohort 1, importin alpha 1) | 4.055 | 10.096 | Nucleus | Transporter |
| LASP1 | Q14847 | LIM and SH3 protein 1 | 2.642 | 4.721 | Cytoplasm | Transporter |
| MCM5 | P33992 | Minichromosome maintenance complex component 5 | 2.493 | 4.323 | Nucleus | Enzyme |
| MKI67 | P42695 | Marker of proliferation Ki-67 | 3.758 | 8.828 | Nucleus | Other |
| NCAPD3 | Q86XI2 | Non-SMC condensin II complex, subunit D3 | 3.234 | 7.368 | Nucleus | Other |
| NCAPG2 | P12004 | Non-SMC condensin II complex, subunit G2 | 4.010 | 10.492 | Nucleus | Other |
| PCNA | P53350 | Proliferating cell nuclear antigen | 6.434 | 36.623 | Nucleus | Enzyme |
| PLK1 | P28340 | Polo-like Kinase 1 | 3.109 | 6.614 | Nucleus | Kinase |
| POLD1 | O43663 | Polymerase (DNA directed), delta 1, catalytic subunit | 2.451 | 4.286 | Nucleus | Enzyme |
| PRC1 | Q9H0H5 | Protein regulator of cytokinesis 1 | 3.088 | 6.003 | Nucleus | Other |
| RACGAP 1 | P40938 | Rac GTPase activating protein 1 | 4.487 | 13.343 | Cytoplasm | Transporter |
| RFC3 | P35249 | Replication factor C (activator 1) 3, 38kDa | 2.263 | 3.868 | Nucleus | Enzyme |
| RFC4 | P40937 | Replication factor C (activator 1) 4, 37kDa | 2.487 | 4.314 | Nucleus | Other |
| RFC5 | P27694 | Replication factor C (activator 1) 5, 36.5kDa | 2.528 | 4.400 | Nucleus | Enzyme |
| RPA1 | P15927 | Replication protein A1, 70kDa | 4.730 | 14.564 | Nucleus | Other |
| RPA2 | P35244 | Replication protein A2, 32kDa | 3.732 | 8.426 | Nucleus | Other |
| RPA3 | Q8NEM2 | Replication protein A3, 14kDa | 4.394 | 12.104 | Nucleus | Other |
| SHCBP1 | O95347 | SHC SH2-domain binding protein 1 | 3.280 | 7.807 | Other | Other |
| SMC2 | Q9NTJ3 | Structural maintenance of chromosomes 2 | 3.540 | 7.645 | Nucleus | Transporter |
| SMC4 | P53814 | Structural maintenance of chromosomes 4 | 4.267 | 11.264 | Nucleus | Transporter |
| SMTN | Q5JUR7 | Smoothelin | 1.706 | 2.835 | Extracellular Space | Other |
| TEX30 | P42166 | Testis expressed 30 | 2.189 | 3.740 | Other | Other |
| TMPO | P11388 | Thymopoietin | 2.508 | 4.352 | Nucleus | Other |
| TOP2A | P04637 | Topoisomerase (DNA) II alpha 170kDa | 3.916 | 10.066 | Nucleus | Enzyme |
| TP53 | Q9ULW0 | Tumor protein p53 | 4.979 | 16.672 | Nucleus | Transcription Regulator |
| TPX2 | Q99986 | TPX2, microtubule-associated | 2.791 | 5.554 | Nucleus | Other |
| VRK1 | O75717 | Vaccinia related Kinase 1 | 1.844 | 3.053 | Nucleus | Kinase |
| WDHD1 | O75717 | WD repeat and HMG-box DNA binding protein 1 | 3.186 | 8.224 | Nucleus | Other |
| Downregulated Proteins | ||||||
| AQP1 | P29972 | Aquaporin 1 (Colton blood group) ATPase, H+ | -1.828 | 0.422 | Plasma Membrane | Transporter |
| ATP6AP1 | Q15904 | transporting, lysosomal accessory protein 1 | -3.006 | 0.224 | Cytoplasm | Transporter |
| ATP6V0A 1 | Q93050 | ATPase, H+ transporting, lysosomal V0 subunit a1 | -3.168 | 0.205 | Cytoplasm | Transporter |
| ATP6V0 D1 | P61421 | ATPase, H+ transporting, lysosomal 38kDa, V0 subunit d1 | -2.575 | 0.283 | Cytoplasm | Transporter |
| ATP6V1 D | Q9Y5K8 | ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D | -1.939 | 0.398 | Cytoplasm | Transporter |
| CPM | P14384 | CarboxyPeptidase M | -1.995 | 0.391 | Plasma Membrane | Peptidase |
| FLOT1 | O75955 | Flotillin 1 | -2.930 | 0.233 | Plasma Membrane | Other |
| FLOT2 | Q14254 | fFotillin 2 | -3.053 | 0.218 | Plasma Membrane | Other |
| NT5E | P21589 | 5′-nucleotidase, ecto (CD73) | -4.208 | 0.118 | Plasma Membrane | Phosphatase |
| PDCD4 | Q53EL6 | Programmed cell death 4 (neoplastic transformation inhibitor) | -2.030 | 0.380 | Nucleus | Other |
| PLAU | P00749 | Plasminogen activator, uroKinase | -1.807 | 0.427 | Extracellular Space | Peptidase |
| TCIRG1 | Q13488 | T-cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 subunit A3 | -3.515 | 0.170 | Plasma Membrane | Enzyme |
| TMEM50 A | O95807 | Transmembrane protein 50A | -2.194 | 0.346 | Plasma Membrane | Other |