DUB Portal
Venn diagram showing overlaps between DUB Portal and FamPlex entries for DUBs

Deubiquitinating enzymes (DUBs) are proteases that remove ubiqutin conjugates from proteins, thereby regulating protein turnover. However, the majority of substrates and pathways regulated by DUBs remain unknown, impeding efforts to prioritize specific proteins for research and drug-development.

On this DUB portal, we provide the integration and analysis of publicly available resources as well as newly collected transcriptomic data following DUB knockout or inhibition to facilitate the exploration of DUB function in oncology.

Each DUB is listed with the number of papers in PubMed, the number of INDRA statements about deubiquitinating substrates, the number of INDRA statements total (including upstream and downstream processes beyond deubiquitination), and the and the fraction of cell lines in the DepMap that are strongly dependent on each DUB (i.e., cancer cell proliferation is strongly impacted by DUB knockout). Blank values in the "Dependent Cell Lines" column means the DUB was not knocked out in the DepMap dataset. Additionally, we list the Gene Ontology (GO) term most strongly enriched in the top seven co-dependent genes for each DUB and the corresponding p-values. Finally, the "DGEA" column contains the number of differentially expressed genes 96 hours following knockout of the particular DUB in MDAMB231 cells as measured by high-throughput RNAseq. Blank values in "DGEA" refer to DUBs that were not knockout out in the RNAseq experiment. Click on an individual DUB name for more details and additional data and analysis.

DUB DUB Name DUB Family # Papers # DUB Stmts. # Other Stmts. Dependent Cell Lines # Sig. ORA Gene Sets (DepMap) DGEA # Sig. GSEA Gene Sets (DGEA)
ATXN3 ataxin 3 MJD 664 16 626 1.0% 0
ATXN3L ataxin 3 like MJD 6 1 22 0.0% 0
BAP1 BRCA1 associated protein 1 UCHL 1094 18 356 76.0% 4 10
BRCC3 BRCA1/BRCA2-containing complex subunit 3 JAMM 65 22 174 0.0% 2 1
COPS5 COP9 signalosome subunit 5 JAMM 310 17 551 100.0% 7 52 4
COPS6 COP9 signalosome subunit 6 JAMM 33 5 144 100.0% 0
CYLD CYLD lysine 63 deubiquitinase USP 635 70 782 5.0% 41 28 259
EIF3F eukaryotic translation initiation factor 3 subunit F JAMM 73 2 141 98.0% 21
EIF3H eukaryotic translation initiation factor 3 subunit H JAMM 55 0 107 96.0% 16
JOSD1 Josephin domain containing 1 MJD 6 0 95 9.0% 0 0
JOSD2 Josephin domain containing 2 MJD 3 0 42 0 0
MINDY1 MINDY lysine 48 deubiquitinase 1 MINDY 3 0 79 23.0% 0
MINDY2 MINDY lysine 48 deubiquitinase 2 MINDY 3 0 77 49.0% 0
MINDY3 MINDY lysine 48 deubiquitinase 3 MINDY 0 0 70 0
MINDY4 MINDY lysine 48 deubiquitinase 4 MINDY 1 0 30 0
MINDY4B MINDY family member 4B MINDY 0 0 0 0
MPND MPN domain containing JAMM 11 0 29 5.0% 0 0
MYSM1 Myb like, SWIRM and MPN domains 1 JAMM 45 1 107 0 0
OTUB1 OTU deubiquitinase, ubiquitin aldehyde binding 1 OTU 94 21 274 3.0% 11 0
OTUB2 OTU deubiquitinase, ubiquitin aldehyde binding 2 OTU 18 8 146 0 0
OTUD1 OTU deubiquitinase 1 OTU 16 5 157 0 0
OTUD3 OTU deubiquitinase 3 OTU 15 2 81 1.0% 0
OTUD4 OTU deubiquitinase 4 OTU 20 1 183 0 0
OTUD5 OTU deubiquitinase 5 OTU 11 11 108 48.0% 11 2
OTUD6A OTU deubiquitinase 6A OTU 1 0 28 0.0% 0
OTUD6B OTU deubiquitinase 6B OTU 16 1 42 1.0% 0 9
OTUD7A OTU deubiquitinase 7A OTU 14 14 33 0 2
OTUD7B OTU deubiquitinase 7B OTU 52 15 250 0 0
OTULIN OTU deubiquitinase with linear linkage specificity OTU 67 4 134 1.0% 0
OTULINL OTU deubiquitinase with linear linkage specificity like OTU 1 0 102 0.1% 0
PAN2 poly(A) specific ribonuclease subunit PAN2 USP 99 1 140 7.0% 0 0
PRPF8 pre-mRNA processing factor 8 JAMM 111 0 111 100.0% 14 106
PSMD14 proteasome 26S subunit, non-ATPase 14 62 11 185 100.0% 57 839 913
PSMD7 proteasome 26S subunit, non-ATPase 7 Proteasome 25 0 138 100.0% 6
STAMBP STAM binding protein JAMM 58 15 244 32.0% 4 1
STAMBPL1 STAM binding protein like 1 JAMM 19 3 119 0 0
TNFAIP3 TNF alpha induced protein 3 OTU 1218 8 595 1.0% 17 36 159
UCHL1 ubiquitin C-terminal hydrolase L1 UCHL 1994 19 688 0 11
UCHL3 ubiquitin C-terminal hydrolase L3 UCHL 127 9 183 1.0% 33 77 393
UCHL5 ubiquitin C-terminal hydrolase L5 UCHL 138 21 229 50.0% 8 3
USP1 ubiquitin specific peptidase 1 USP 180 28 350 14.0% 7 0
USP10 ubiquitin specific peptidase 10 USP 134 34 265 69.0% 0 1
USP11 ubiquitin specific peptidase 11 USP 64 38 191 0 0
USP12 ubiquitin specific peptidase 12 USP 43 11 136 0 1
USP13 ubiquitin specific peptidase 13 USP 44 19 241 1.0% 0 2
USP14 ubiquitin specific peptidase 14 USP 232 21 376 9.0% 1 2
USP15 ubiquitin specific peptidase 15 USP 114 54 384 1.0% 1 2
USP16 ubiquitin specific peptidase 16 USP 45 2 114 1.0% 0 10
USP17L1 ubiquitin specific peptidase 17 like family member 1 USP 0 0 3 0
USP17L2 ubiquitin specific peptidase 17 like family member 2 USP 37 19 106 0 0
USP18 ubiquitin specific peptidase 18 USP 229 10 422 16.0% 7 9
USP19 ubiquitin specific peptidase 19 USP 47 8 99 34.0% 0 10
USP2 ubiquitin specific peptidase 2 USP 179 21 326 1.0% 0 14
USP20 ubiquitin specific peptidase 20 USP 36 15 80 0 14
USP21 ubiquitin specific peptidase 21 USP 50 4 43 3.0% 0 1
USP22 ubiquitin specific peptidase 22 USP 152 26 383 1.0% 22 2
USP24 ubiquitin specific peptidase 24 USP 27 6 154 4.0% 0 10
USP25 ubiquitin specific peptidase 25 USP 57 40 293 0 0
USP26 ubiquitin specific peptidase 26 USP 47 4 54 0 2
USP27X ubiquitin specific peptidase 27 X-linked USP 11 8 45 0 1
USP28 ubiquitin specific peptidase 28 USP 83 19 234 1.0% 62 9
USP29 ubiquitin specific peptidase 29 USP 33 1 29 0 9
USP3 ubiquitin specific peptidase 3 USP 45 7 153 0.0% 0 15
USP30 ubiquitin specific peptidase 30 USP 38 3 64 0.0% 0 3
USP31 ubiquitin specific peptidase 31 USP 9 0 71 0 5
USP32 ubiquitin specific peptidase 32 USP 16 0 92 2.0% 10 0
USP33 ubiquitin specific peptidase 33 USP 48 18 119 1.0% 0 0
USP34 ubiquitin specific peptidase 34 USP 37 5 114 1.0% 0 11
USP35 ubiquitin specific peptidase 35 USP 13 4 49 6.0% 2 0
USP36 ubiquitin specific peptidase 36 USP 32 8 103 100.0% 2 3
USP37 ubiquitin specific peptidase 37 USP 31 13 182 80.0% 3 2
USP38 ubiquitin specific peptidase 38 USP 13 0 65 2.0% 47 3
USP39 ubiquitin specific peptidase 39 USP 41 2 80 67.0% 0 10
USP4 ubiquitin specific peptidase 4 USP 131 42 236 6.0% 0 1
USP40 ubiquitin specific peptidase 40 USP 12 0 43 0 0
USP41 ubiquitin specific peptidase 41 USP 2 0 14 0
USP42 ubiquitin specific peptidase 42 USP 18 2 87 1.0% 10 0
USP43 ubiquitin specific peptidase 43 USP 3 0 46 0 0
USP44 ubiquitin specific peptidase 44 USP 36 10 105 1.0% 0 0
USP45 ubiquitin specific peptidase 45 USP 97 3 68 0 0
USP46 ubiquitin specific peptidase 46 USP 40 14 152 0 6
USP47 ubiquitin specific peptidase 47 USP 31 4 132 0.0% 0 0
USP48 ubiquitin specific peptidase 48 USP 28 4 166 1.0% 0 1
USP49 ubiquitin specific peptidase 49 USP 16 5 113 0 0
USP5 ubiquitin specific peptidase 5 USP 87 10 225 100.0% 4 1
USP50 ubiquitin specific peptidase 50 USP 7 4 15 2.0% 0 2
USP51 ubiquitin specific peptidase 51 USP 11 5 51 0.0% 1 0
USP53 ubiquitin specific peptidase 53 USP 6 1 111 2.0% 2 0
USP54 ubiquitin specific peptidase 54 USP 7 0 56 0 0
USP6 ubiquitin specific peptidase 6 USP 152 2 81 14.0% 0 11
USP7 ubiquitin specific peptidase 7 USP 469 102 575 81.0% 47 16
USP8 ubiquitin specific peptidase 8 USP 196 61 260 98.0% 18 69 359
USP9X ubiquitin specific peptidase 9 X-linked USP 259 57 597 92.0% 3 2
USP9Y ubiquitin specific peptidase 9 Y-linked USP 82 0 17 0 2
USPL1 ubiquitin specific peptidase like 1 USP 5 0 74 99.0% 4 813 113
VCPIP1 valosin containing protein interacting protein 1 OTU 5 3 93 35.0% 3 0
YOD1 YOD1 deubiquitinase OTU 34 8 283 0 21 155
ZRANB1 zinc finger RANBP2-type containing 1 OTU 11 5 146 2.0% 0 30 327
ZUP1 zinc finger containing ubiquitin peptidase 1 5 18 142 0