KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Mouse monoclonal anti-GFP | Clontech Laboratories, Inc. | Cat#632381; RRID: AB_2313808 |
| Mouse monoclonal anti-HA | Thermo Fisher Scientific | Cat#32-6700; RRID: AB_2533092 |
| Rabbit polyclonal anti-Myc | Genscript | Cat#A00172; RRID: AB_914457 |
| Rabbit polyclonal anti-Cdc48 | Neal et al., 2018 | N/A |
| Mouse monoclonal anti-PGK | Thermo Fisher Scientific | Cat#459250; RRID: AB_2569747 |
| Mouse monoclonal anti-Ubiquitin | Richard Gardner: University of Washington | N/A |
| Rabbit polyclonal anti-Derlin-1 | Abclonal | A8508; RRID: AB_2769151 |
| Mouse anti-GAPDH | BIO-RAD | Cat#MCA4740; RRID:AB_2107457 |
| Rabbit anti-CFTR | Antibodies Distribution Program | N/A |
| Bacterial and virus strains | ||
| Escherichia coli Top10 Competent Cells | ThermoFisher Scientific | Cat#C404010 |
| Chemicals, peptides, and recombinant proteins | ||
| MG132 (benzyloxycarbonyl-Leu-Leu-aldehyde) | Sigma-Aldrich | 474787; CAS: 133407-82-6 |
| Cycloheximide | Sigma-Aldrich | C7698; CAS: 66-819 |
| Protein A Sepharose | GE Healthcare | 17-0780-01 |
| Usp2core | LifeSensors | DB501 |
| AQUApure Tetra-Ub Chains (K48-linked) | R&D Systems | UC-210B |
| DpnI restriction enzyme | New England Biolabs | R0176L |
| High Fidelity Phusion polymerase | New England Biolabs | M0530L |
| PCR Clean-Up System | Promega | A9282 |
| Ampicillin | Biopioneer | C0029 |
| Nourseothricin | Neta Scientific, Inc | RPI-N51200-1.0 |
| G418 | Biopioneer | C0050 |
| Lipofectamine® LTX (Invitrogen) | ThermoFisher Scientific | A12621 |
| GFP-Trap agarose | ChromoTek | gta-20 |
| Myc-Trap agarose | ChromoTek | yta-20 |
| Geranylgeranyl pyrophosphate ammonium salt | Millipore Sigma | G6025 |
| 3,3-Dithio- bis-(sulfosuccinimidyl) propionate (DSP) | Millipore Sigma | 322133 |
| Protein A-Sepharose | Millipore Sigma | GE17-0780-01 |
| DIOC6 (3,3′-Dihexyloxacarbocyanine Iodide) | ThermoFisher Scientific | D273 |
| Critical commercial assays | ||
| GeneMorph II Random Mutagenesis Kit | Agilent Technologies | 200550 |
| Experimental models: Cell lines | ||
| Human: HEK293 cell line | ATCC | |
| Experimental models: Organisms/strains | ||
| Saccharomyces cerevisiae BY4741 | GE Dharmacon | Cat#YSC1048 |
| Saccharomyces cerevisiae S288C | This study | N/A |
| Additional yeast strains used: refer to Table S2 | This study | |
| Recombinant DNA | ||
| Plasmids used: refer to Table S1 | This study | N/A |
| pRABBIT IgG IRES-EmGFP Positive Control Vecto | ThermoFisher Scientific | A39243 |
| Software and algorithms | ||
| Prism 7 for Mac | GraphPad Software | https://www.graphpad.com/scientific-software/prism/ |
| ImageJ | NIH | https://imagej.nih.gov/ij/ |
| FlowJo | Vashistha et al., 2016 | https://www.fiowjo.com/solutions/fiowjo |
| BD Accuri C6 | BD Accuri | Cat #653122 |
| PyMOL | Schrodinger,LLC | https://pymol.org/2/ |
| Protein Data Bank | RCSB PDB | https://www.rcsb.org/ |