KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Rabbit polyclonal anti-GFP | Abcam | Cat# ab290; RRID: AB_303395 |
| Rabbit polyclonal anti-Rpn1 | Dan Finley | N/A |
| Rabbit polyclonal anti-Rpn5 | Dan Finley (Shi et al., 2016) | N/A |
| Rabbit polyclonal anti-Rpn8 | Dan Finley | N/A |
| Rabbit polyclonal anti-Rpn12 | Dan Finley | N/A |
| Mouse anti-IgG kappa binding protein-HRP | Santa Cruz Biotechnology | Cat# sc-516102; RRID: AB_2687626 |
| Mouse monoclonal anti-rabbit IgG-HRP | Santa Cruz Biotechnology | Cat# sc-2357; RRID: AB_628497 |
| Mouse monoclonal anti-Pgk1 | Invitrogen | Cat# 459250; RRID: AB_2532235 |
| Mouse monoclonal anti-FLAG | Sigma-Aldrich | Cat# F1804; RRID AB_262044 |
| Chemicals, Peptides, and Recombinant Proteins | ||
| heavy [13C6/15N2] L-lysine | Cambridge Isotope laboratories, Inc. | CNLM-291-H-PK |
| Drop-out Mix Minus Lysine w/o Yeast Nitrogen Base | US Biological | Cat# D9515B |
| Critical Commercial Assays | ||
| SuperSignal West Pico | SuperSignal West Pico Thermo Fisher Scientific Cat# 34580 | SuperSignal West Pico Thermo Fisher Scientific Cat# 34580 |
| SuperSignal West Dura | SuperSignal West Dura Thermo Fisher Scientific Cat# 34076 | SuperSignal West Dura Thermo Fisher Scientific Cat# 34076 |
| Deposited Data | ||
| Mass spectrometry proteomics data | Proteomics Identifications Database (PRIDE) repository | PRIDE: PXD008706 |
| Experimental Models: Yeast strains (Saccharomyces cerevisiae) | ||
| BY4743 | Dharmacon | N/A |
| BY4741 | Dharmacon | N/A |
| BY4741; pep4Δ::kanMX | Dharmacon | N/A |
| BY4741; CHS3-TEV-6xGly-3xFLAG::hphMX | This study | N/A |
| BY4741; pep4Δ::kanMX CHS3-TEV-6xGly-3xFLAG::hphMX | This study | N/A |
| BY4741; FCY2-TEV-6xGly-3xFLAG::hphMX | This study | N/A |
| BY4741; pep4Δ::kanMX FCY2-TEV-6xGly-3xFLAG::hphMX | This study | N/A |
| BY4741; CPR4-TEV-6xGly-3xFLAG::hphMX | This study | N/A |
| BY4741; pep4Δ::kanMX CPR4-TEV-6xGly-3xFLAG::hphMX | This study | N/A |
| Recombinant DNA | ||
| Plasmid: pTF272 (TEV-6xGly-3xFLAG) | Tim Formosa | Addgene #44083 |
| Software and Algorithms | ||
| MaxQuant (version 1.5.2.8) | (Tyanova et al., 2016) | https://www.maxquant.org/ |
| Perseus (version 1.5.1.7) | (Tyanova and Cox, 2018) | https://maxquant.net/perseus/ |
| TreeView | (Saldanha, 2004) | N/A |