TABLE 2.
List of 75 K15-interacting proteins identified by LC-MS/MS after lytic reactivationa
| Gene(s) | Protein(s) | Log2 FE, expt 1 | Log2 FE, expt 2 |
|---|---|---|---|
| PSMD11 | 26S proteasome non-ATPase regulatory subunit 11 | 7.7 | 2.5 |
| PSMC1 | 26S protease regulatory subunit 4 | 2.1 | 2.6 |
| SEPT2 | Septin-2 | 4.0 | 3.0 |
| DBN1 | Drebrin | 6.6 | 5.0 |
| SEPT9 | Septin-9 | 4.9 | 3.4 |
| LIMA1 | LIM domain and actin-binding protein 1 | 5.2 | 6.6 |
| CTTN | Src substrate cortactin | 7.5 | 8.6 |
| HADHA | Trifunctional enzyme subunit alpha, mitochondrial; long-chain enoyl-CoA hydratase; long chain 3-hydroxyacyl-CoA dehydrogenase | 2.4 | 2.9 |
| MYO1B | Unconventional myosin-Ib | 5.4 | 5.6 |
| ARF4, ARF5 | ADP-ribosylation factor 4, ADP-ribosylation factor 5 | 2.9 | 3.2 |
| MYO1C | Unconventional myosin-Ic | 3.4 | 4.6 |
| TMOD3 | Tropomodulin-3 | 3.1 | 5.3 |
| BASP1 | Brain acid soluble protein 1 | 7.1 | 5.8 |
| KPRP | Keratinocyte proline-rich protein | 3.0 | 4.3 |
| CLTA | Clathrin light chain A | 6.5 | 9.0 |
| G3BP2 | Ras GTPase-activating protein-binding protein 2 | 3.8 | 4.1 |
| GNB1, GNB2,GNB4 | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1, guanine nucleotide-binding protein subunit beta-2, guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-4 | 7.3 | 3.8 |
| CKAP4 | Cytoskeleton-associated protein 4 | 3.9 | 5.4 |
| DLST | Dihydrolipoyllysine residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex, mitochondrial | 5.3 | 4.5 |
| PPP1R12A | Protein phosphatase 1 regulatory subunit 12A | 2.9 | 7.2 |
| AP2B1 | AP-2 complex subunit beta | 8.0 | 4.3 |
| RBM14 | RNA-binding protein 14 | 4.5 | 2.4 |
| DNAJB11 | DnaJ homologue subfamily B member 11 | 2.9 | 2.1 |
| ACTR2 | Actin-related protein 2 | 7.3 | 8.1 |
| PDHA1 | Pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial | 3.3 | 4.7 |
| HADHB | Trifunctional enzyme subunit beta, mitochondrial, 3-ketoacyl-CoA thiolase | 2.3 | 4.1 |
| FXR1, FXR2 | Fragile X mental retardation syndrome-related protein 1, fragile X mental retardation syndrome-related protein 2 | 4.1 | 3.2 |
| ACTR3 | Actin-related protein 3 | 7.6 | 5.0 |
| ARPC4 | Actin-related protein 2/3 complex subunit 4 | 7.2 | 8.7 |
| RAI14 | Ankycorbin | 6.1 | 6.0 |
| VAT1 | Synaptic vesicle membrane protein VAT-1 homologue | 3.2 | 3.0 |
| MYO1D | Unconventional myosin-Id | 5.7 | 4.8 |
| H1F0 | Histone H1.0, N-terminally processed | 7.7 | 4.7 |
| MRPS27 | 28S ribosomal protein S27, mitochondrial | 2.1 | 2.8 |
| PAWR | PRKC apoptosis WT1 regulator protein | 6.1 | 6.0 |
| GSN | Gelsolin | 5.9 | 4.7 |
| SVIL | Supervillin | 5.0 | 4.2 |
| AP2A1 | AP-2 complex subunit alpha-1 | 5.5 | 3.9 |
| AP2A2 | AP-2 complex subunit alpha-2 | 6.4 | 6.1 |
| PIK3C2A | Phosphatidylinositol 4-phosphate 3-kinase C2 domain-containing subunit alpha | 6.9 | 6.6 |
| PICALM | Phosphatidylinositol-binding clathrin assembly protein | 8.2 | 5.0 |
| ACOT9 | Acyl-coenzyme A thioesterase 9, mitochondrial | 6.5 | 5.7 |
| FLOT1 | Flotillin-1 | 6.3 | 4.6 |
| ARPC3 | Actin-related protein 2/3 complex subunit 3 | 3.7 | 7.6 |
| DECR1 | 2,4-Dienoyl-CoA reductase, mitochondrial | 6.8 | 4.2 |
| HSDL2 | Hydroxysteroid dehydrogenase-like protein 2 | 3.8 | 3.4 |
| FHL2 | Four-and-a-half LIM domains protein 2 | 7.1 | 5.4 |
| CYR61 | Protein CYR61 | 5.0 | 5.3 |
| REPS1 | RalBP1-associated Eps domain-containing protein 1 | 5.0 | 3.6 |
| RABEP1 | Rab GTPase-binding effector protein 1 | 5.0 | 7.7 |
| DAB2 | Disabled homologue 2 | 7.9 | 5.9 |
| LEPRE1 | Prolyl 3-hydroxylase 1 | 2.0 | 2.3 |
| SNX9 | Sorting nexin, sorting nexin-9 | 5.7 | 4.5 |
| FRYL | Protein furry homologue-like | 3.9 | 3.2 |
| ARPC5 | Actin-related protein 2/3 complex subunit 5 | 5.2 | 3.0 |
| STOM | Erythrocyte band 7 integral membrane protein | 2.7 | 4.4 |
| CD59 | CD59 glycoprotein | 2.8 | 5.6 |
| MYL3, MYL1 | Myosin light chain 3; myosin light chain 1/3, skeletal muscle isoform | 6.3 | 3.4 |
| IKBIP | Inhibitor of nuclear factor κB kinase-interacting protein | 2.6 | 3.3 |
| PBDC1 | Protein PBDC1 | 3.5 | 2.8 |
| GIPC1 | PDZ domain-containing protein GIPC1 | 3.1 | 6.3 |
| SCCPDH | Saccharopine dehydrogenase-like oxidoreductase | 4.5 | 4.4 |
| NAA50 | N-Alpha-acetyltransferase 50 | 2.5 | 3.8 |
| TGM2 | Protein-glutamine gamma-glutamyltransferase 2 | 5.0 | 3.8 |
| FGF2 | Fibroblast growth factor, fibroblast growth factor 2 | 2.5 | 7.5 |
| FECH | Ferrochelatase, mitochondrial | 6.5 | 6.0 |
| ISG15 | Ubiquitin-like protein ISG15 | 6.4 | 4.8 |
| ARPC5L | Actin-related protein 2/3 complex subunit 5-like protein | 5.1 | 2.5 |
| MME | Neprilysin | 4.2 | 5.7 |
| CD109 | CD109 antigen | 5.6 | 5.2 |
| SQRDL | Sulfide:quinone oxidoreductase, mitochondrial | 4.2 | 4.0 |
| FCHO2 | F-BAR domain-only protein 2 | 2.7 | 2.7 |
| MX2 | Interferon-induced GTP-binding protein Mx2 | 6.1 | 5.3 |
| SERPINE1 | Plasminogen activator inhibitor 1 | 7.1 | 4.4 |
| ANGPT2 | Angiopoietin-2 | 3.4 | 5.4 |
a
The pK15-interacting proteins identified from cells treated with a reactivation cocktail (RTA plus SB) was processed similarly to those in Table 1, and the resulting list of proteins is shown here. Proteins annotated to be involved in the endocytic pathway by using the DAVID bioinformatics tool are in boldface type. FE, fold enrichment.