Table 1. High-ranking trafficome hits (scoring cutoff of ≥8; see main text for scoring details) involved in trafficking and cytoskeleton biology (see S1 Table for more details on individual host factors).
| Gene symbol | Full name1 | Localization2 |
|---|---|---|
| Small GTPases and interacting proteins | ||
| Arf family | ||
| ARL1 | ADP-ribosylation factor-like GTPase 1 | Golgi |
| Rab family | ||
| RAB1A | RAB1A, member RAS oncogene family | ER, Golgi, EE |
| RAB11A | RAB11A, member RAS oncogene family | RE, vesicle, PM |
| Ras family | ||
| RHOB | ras homolog family member B | nucleus, LE, PM |
| RHOT1 | ras homolog family member T1 | mitochondrion OM |
| Interacting proteins | ||
| G3BP2 | G3BP stress granule assembly factor 2 | cytoplasm |
| RAB3GAP2 | RAB3 GTPase activating non-catalytic protein subunit 2 | cytoplasm |
| Vesicle coats and adaptors | ||
| BBSome | ||
| BBS4 | Bardet-Biedl syndrome 4 | CS/MTOC |
| Clathrin coats | ||
| AGFG1 | ArfGAP with FG repeats 1 | nucleus, vesicle |
| AP2A1 | adaptor related protein complex 2 subunit alpha 1 | CCV, PM |
| AP3D1 | adaptor-related protein complex 3 subunit delta 1 | CCV, Golgi |
| CLTA/B | clathrin light chain A and B | CCV |
| CLTC | clathrin heavy chain | CCV |
| GGA3 | Golgi-associated, gamma adaptin ear containing, ARF binding protein 3 | Golgi, endosome |
| SYNRG | synergin gamma | Golgi |
| COP-I | ||
| ARCN1 | archain 1 | Golgi, vesicle |
| COPA/B1/B2/G1 | COPI coat complex subunit alpha, beta 1, beta 2, and gamma | Golgi, vesicle |
| TMED10 | transmembrane p24 trafficking protein 10 | ER, Golgi, vesicle |
| COP-II | ||
| SEC24D | SEC24 homolog D, COPII coat complex component | ER, Golgi, vesicle |
| Retromer | ||
| VPS35 | VPS35 retromer complex component | EE, LE |
| Tethering factors | ||
| Exocyst complex | ||
| EXOC5 | exocyst complex component 5 | cytoplasm |
| TRAPPIII complex | ||
| TRAPPC8 | trafficking protein particle complex 8 | Golgi |
| SNAREs | ||
| Qa-SNAREs | ||
| STX5 | syntaxin 5 | Golgi |
| STX7 | syntaxin 7 | EE, LE |
| Qb,c-SNAREs | ||
| SNAP23 | synaptosome associated protein 23 | PM |
| R-SNAREs | ||
| SEC22B | SEC22 homolog B, vesicle trafficking protein (gene/pseudogene) | ER, Golgi |
| VAMP7 | vesicle associated membrane protein 7 | ER, Golgi, LE/ lysosome, vesicle, PM |
| Interacting proteins | ||
| NAPA | NSF attachment protein alpha | membrane |
| STXBP2 | syntaxin binding protein 2 | PM |
| Cytoskeleton and motor proteins | ||
| Kinesins | ||
| KIF1A/B/C | kinesin family member 1A, B, and C | CS |
| Dyneins | ||
| DYNC1H1 | dynein cytoplasmic 1 heavy chain 1 | CS |
| Microtubule-associated proteins | ||
| CEP57 | centrosomal protein 57 | CS/MTOC, nucleus |
| MAP1A | microtubule associated protein 1A | CS |
| Myosins | ||
| MYH10 | myosin heavy chain 10 | CS |
| Actin filament membrane linkers | ||
| ANK3 | ankyrin 3 | CS |
| FLNA | filamin A | CS |
| ESCRT complexes | ||
| Adaptors | ||
| HGS | hepatocyte growth factor-regulated tyrosine kinase substrate | EE, MVB |
| AAA ATPase | ||
| VPS4A/B | vacuolar protein sorting 4 homolog A and B | MVB |
| Miscellaneous | ||
| ERGIC1 | endoplasmic reticulum-golgi intermediate compartment 1 | ER, Golgi |
| SNX15 | sorting nexin 15 | vesicle |
| SORT1 | sortilin 1 | nucleus, ER, Golgi, endo-/lysosome |
| VCP | valosin containing protein | nucleus, ER |
1 according to NCBI Gene
2 subcellular localization according to UniProt; CCV = clathrin-coated vesicle, CS = cytoskeleton, EE = early endosome, ER = endoplasmic reticulum, LE = late endosome, MTOC = microtubule-organizing center, MVB = multivesicular body, OM = outer membrane, PM = plasma membrane, RE = recycling endosome