| DUB | Deubiquitinating enzyme |
| JAMM | JAB1/MPN/Mov34 metalloenzymes |
| AMSH | Associated molecule with the SH3 domain of STAM |
| AMSH-LP | AMSH-like protein |
| BRCA1 | Breast cancer susceptibility protein 1 |
| BRCC36 | BRCA1-BRCA2-containing complex subunit 36 |
| Rpn11 | Regulatory particle non-ATPase 11 |
| CSN | COP9 signalosome |
| SUMO | Small ubiquitin-like modifier |
| NEDD8 | Neuronal precursor cell-expressed developmentally downregulated protein 8 |
| USP | Ubiquitin-specific peptidase |
| OTU | Ovarian tumor protease |
| MINDYs | Motif interacting with ubiquitin-containing novel DUB family |
| UCH | Ubiquitin C-terminal hydroxylase |
| MJD | Machado-Josephin domain protease |
| ZUP1 | Zinc finger-containing ubiquitin peptidase 1 |
| ZnF | Zinc finger domain |
| UIM | Ubiquitin-interacting motif |
| UBA | Ubiquitin-associated domain |
| eIF3h | Eukaryotic translation initiation factor 3 subunit H |
| MYSM1 | Myb-like, SWIRM, and MPN domains 1 protein |
| MPN | Mpr1/Pad1 N-terminal |
| SH3 | Src-homology domain 3 |
| STAM | Signal transducing adapter molecule |
| ESCRT | Endosomal sorting complexes required for transport |
| EGFR | Epidermal growth factor receptor |
| GPCR | G protein-coupled receptor |
| NALP | NACHT, LRR and PYD domains-containing protein |
| SBM | SH3 binding motif |
| CHMP | Charged multivesicular body proteins |
| MIM | MIT-interacting motif |
| MIT | Microtubule interacting and transport |
| UIM | Ubiquitin-interacting motif |
| VHS | Vps27/Hrs/STAM |
| ASC | Apoptosis-associated speck-like protein containing a caspase recruitment domain |
| SHMT2 | Serine hydroxymethyltransferase 2 |
| JAK2 | Janus kinase 2 |
| PLP | Pyridoxal-5′-phosphate |
| DSB | DNA double-strand breaks |
| HR | Homologous recombination |
| NHEJ | Non-homologous end joining |
| CP | Core particle |
| RPs | Regulatory particles |
| Mitf | Microphthalmia-associated transcription factor |
| CRLs | Cullin-RING E3 ubiquitin ligases |
| PD-L1 | Programmed death-ligand 1 |
| MYC | Myelocytomatosis oncogene |