KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Mouse monoclonal anti-GFP | Roche | Cat. #11814460001; PRID: AB_390913 |
| Mouse monoclonal anti-His | Invitrogen | Cat. #MA1–21315; PRID: AB_557403 |
| Mouse monoclonal anti-ubiquitin | Sigma-Aldrich | Cat. #MAB1510; PRID: AB_2180556 |
| Rabbit polyclonal anti-Cdc48 (S. cerevisiae) | As One International Inc | Cat. #62–303 |
| Chemicals, Peptides, and Recombinant Proteins | ||
| Paraquat | Sigma-Aldrich | Cat. #856177 |
| Dihydroethidium (DHE) | Invitrogen | Cat. #D11347 |
| Zymolyase 20T | Seikagaku Corporation | Cat. #120491 |
| Trichloroethanol (TCE) | Sigma-Aldrich | Cat. #T54801 |
| PowerUp SYBR Green Master Mix | Applied Biosystems | Cat. # A25741 |
| N-ethylmaleimide (NEM) | Sigma-Aldrich | Cat. #E3876 |
| Proteinase K | Sigma-Aldrich | Cat. #P2308 |
| Critical Commercial Assays | ||
| RNeasy Mini Kit | QIAGEN | Cat. #74106 |
| HisPur Ni-NTA Magnetic Beads | Thermo Scientific | Cat. #88831 |
| OxyBlot Protein Oxidation Detection Kit | Sigma-Aldrich | Cat. #S7150 |
| TURBO DNA-free Kit | Ambion | Cat. #AM1907M |
| SuperScript IV First-Strand Synthesis System | Invitrogen | Cat. #18091050 |
| Deposited Data | ||
| RNA-seq raw and analyzed data | This paper | GEO: GSE150804 |
| Experimental Models: Organisms/Strains | ||
| See Table S3 | ||
| Oligonucleotides | ||
| See Table S3 | ||
| Recombinant DNA | ||
| pFA6a-6xGly-His-tag-H IS3MX6 | Funakoshi and Hochstrasser, 2009 | Addgene plasmid # 20762 |
| pFA6-GFP-bleMX6 | Gadaleta et al., 2013 | Addgene plasmid # 33141 |
| pFA6a-link-GFPEnvy-SpHis5 | Slubowski et al., 2015 | Addgene plasmid # 60782 |
| pFA6a-kanMX6 | Bähler et al., 1998 | Addgene plasmid # 39296 |
| HO-poly-KanMX4-HO | Voth et al., 2001 | Addgene plasmid # 51662 |
| pOM12 | Gauss et al., 2005 | Euroscarf plasmid # P30387 |
| pOM13 | Gauss et al., 2005 | Euroscarf plasmid # P30388 |
| p416-TEF | Mumberg et al., 1995 | ATCC #87368 |
| Software and Algorithms | ||
| FunSpec | Robinson et al., 2002 | http://funspec.med.utoronto.ca/ |
| REVIGO | Supek et al., 2011 | http://revigo.irb.hr/ |
| GraphPad Prism7 | GraphPad | https://www.graphpad.com/scientific-software/prism/ |
| Volocity 5.5 | Quorum Technologies | https://www.quorumtechnologies.com/volocity/volocity-downloads/legacy |