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1. Oxidoreductases
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2. Transferases
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3. Hydrolases
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3.1 Acting on ester bonds
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3.2 Glycosylases
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3.3 Acting on ether bonds
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3.4 Acting on peptide bonds (peptidases)
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3.4.11 Aminopeptidases
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3.4.13 Dipeptidases
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3.4.14 Dipeptidyl-peptidases and tripeptidyl-peptidases
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3.4.15 Peptidyl-dipeptidases
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3.4.16 Serine-type carboxypeptidases
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3.4.17 Metallocarboxypeptidases
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3.4.18 Cysteine-type carboxypeptidases
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3.4.19 Omega peptidases
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3.4.19.1 acylaminoacyl-peptidase
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3.4.19.2 peptidyl-glycinamidase
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3.4.19.3 pyroglutamyl-peptidase I
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3.4.19.5 beta-aspartyl-peptidase
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3.4.19.6 pyroglutamyl-peptidase II
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3.4.19.7 N-formylmethionyl-peptidase
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3.4.19.9 folate gamma-glutamyl hydrolase
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3.4.19.11 gamma-D-glutamyl-meso-diaminopimelate peptidase
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3.4.19.12 ubiquitinyl hydrolase 1
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100017737 FAM63A; family with sequence similarity 63 member A
100027277 FAM63B; family with sequence similarity 63 member B
100012187 UCHL3; ubiquitin C-terminal hydrolase L3
100019909 UCHL5; ubiquitin C-terminal hydrolase L5
100015629 UCHL1; ubiquitin C-terminal hydrolase L1
100030960 BAP1; BRCA1 associated protein 1
100014031 CYLD; CYLD lysine 63 deubiquitinase
100016172 ubiquitin thioesterase OTUB1
100017339 OTUB2; OTU deubiquitinase, ubiquitin aldehyde binding 2
100017232 USP22; ubiquitin specific peptidase 22
100031700 USP1; ubiquitin specific peptidase 1
100024409 USP2; ubiquitin specific peptidase 2
100030401 USP49; ubiquitin specific peptidase 49
100017189 USP44; ubiquitin specific peptidase 44
100021067 USP4; ubiquitin specific peptidase 4
100017905 USP11; ubiquitin specific peptidase 11
100013861 USP13; ubiquitin specific peptidase 13 (isopeptidase T-3)
100016245 USP5; ubiquitin specific peptidase 5
100619043 USP32; ubiquitin specific peptidase 32
100018496 USP7; ubiquitin specific peptidase 7
100026038 USP8; ubiquitin specific peptidase 8
100017331 USP9X; ubiquitin specific peptidase 9, X-linked
100032405 USP24; ubiquitin specific peptidase 24
100023556 USP10; ubiquitin specific peptidase 10
100619289 ubiquitin carboxyl-terminal hydrolase 10-like
100018316 USP46; ubiquitin specific peptidase 46
100024908 USP12; ubiquitin specific peptidase 12
100017337 ubiquitin carboxyl-terminal hydrolase 12-like
100013535 USP14; ubiquitin specific peptidase 14
100020701 USP45; ubiquitin specific peptidase 45
100020904 USP16; ubiquitin specific peptidase 16
100617573 ubiquitin carboxyl-terminal hydrolase 16-like
100022228 USP18; ubiquitin specific peptidase 18
100020891 USP19; ubiquitin specific peptidase 19
100013034 USP20; ubiquitin specific peptidase 20
100013612 USP25; ubiquitin specific peptidase 25
100011373 USP37; ubiquitin specific peptidase 37
100023987 USP30; ubiquitin specific peptidase 30
100027645 USP31; ubiquitin specific peptidase 31
100033319 USP34; ubiquitin specific peptidase 34
100017939 USP35; ubiquitin specific peptidase 35
100019234 USP38; ubiquitin specific peptidase 38
100026585 USP36; ubiquitin specific peptidase 36
100027137 USP42; ubiquitin specific peptidase 42
100618373 USP43; ubiquitin specific peptidase 43
100030068 USP47; ubiquitin specific peptidase 47
100023231 USP48; ubiquitin specific peptidase 48
100025842 TNFAIP3; TNF alpha induced protein 3
100021938 OTUD7A; OTU deubiquitinase 7A
100014166 OTUD7B; OTU deubiquitinase 7B
100029187 VCPIP1; valosin containing protein interacting protein 1
100009838 ZRANB1; zinc finger RANBP2-type containing 1
100023713 STAMBP; STAM binding protein
100021302 STAMBPL1; AMSH-like protease
100025361 USP40; ubiquitin specific peptidase 40
100016993 USP3; ubiquitin specific peptidase 3
100025496 OTUD1; OTU deubiquitinase 1
100027507 OTUD3; OTU deubiquitinase 3
100026510 OTUD4; OTU deubiquitinase 4
100010912 JOSD1; Josephin domain containing 1
100029512 OTUD6B; OTU domain containing 6B
100026622 IFNAR1; interferon alpha and beta receptor subunit 1
100020448 OTULIN; OTU deubiquitinase with linear linkage specificity
100032176 USP28; ubiquitin specific peptidase 28
100012616 USP15; ubiquitin specific peptidase 15
100028924 USP21; ubiquitin specific peptidase 21
100020615 FAM188A; family with sequence similarity 188 member A
103095783 FAM188B; family with sequence similarity 188 member B
103095369 protein FAM188B-like
103106102 protein FAM188B2
100020033 DESI2; desumoylating isopeptidase 2
103093231 desumoylating isopeptidase 2-like
100029965 ZUFSP; zinc finger with UFM1 specific peptidase domain
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K01309 MINDY1_2; ubiquitin carboxyl-terminal hydrolase MINDY-1/2 [EC:3.4.19.12]
K01309 MINDY1_2; ubiquitin carboxyl-terminal hydrolase MINDY-1/2 [EC:3.4.19.12]
K05609 UCHL3; ubiquitin carboxyl-terminal hydrolase L3 [EC:3.4.19.12]
K05610 UCHL5; ubiquitin carboxyl-terminal hydrolase L5 [EC:3.4.19.12]
K05611 UCHL1; ubiquitin carboxyl-terminal hydrolase L1 [EC:3.4.19.12]
K08588 BAP1; ubiquitin carboxyl-terminal hydrolase BAP1 [EC:3.4.19.12]
K08601 CYLD; ubiquitin carboxyl-terminal hydrolase CYLD [EC:3.4.19.12]
K09602 OTUB1; ubiquitin thioesterase protein OTUB1 [EC:3.4.19.12]
K09603 OTUB2; ubiquitin thioesterase protein OTUB2 [EC:3.4.19.12]
K11366 USP22_27_51; ubiquitin carboxyl-terminal hydrolase 22/27/51 [EC:3.4.19.12]
K11832 USP1; ubiquitin carboxyl-terminal hydrolase 1 [EC:3.4.19.12]
K11833 USP2; ubiquitin carboxyl-terminal hydrolase 2 [EC:3.4.19.12]
K11834 USP44_49; ubiquitin carboxyl-terminal hydrolase 44/49 [EC:3.4.19.12]
K11834 USP44_49; ubiquitin carboxyl-terminal hydrolase 44/49 [EC:3.4.19.12]
K11835 USP4_11; ubiquitin carboxyl-terminal hydrolase 4/11 [EC:3.4.19.12]
K11835 USP4_11; ubiquitin carboxyl-terminal hydrolase 4/11 [EC:3.4.19.12]
K11836 USP5_13; ubiquitin carboxyl-terminal hydrolase 5/13 [EC:3.4.19.12]
K11836 USP5_13; ubiquitin carboxyl-terminal hydrolase 5/13 [EC:3.4.19.12]
K11837 USP6_32; ubiquitin carboxyl-terminal hydrolase 6/32 [EC:3.4.19.12]
K11838 USP7; ubiquitin carboxyl-terminal hydrolase 7 [EC:3.4.19.12]
K11839 USP8; ubiquitin carboxyl-terminal hydrolase 8 [EC:3.4.19.12]
K11840 USP9_24; ubiquitin carboxyl-terminal hydrolase 9/24 [EC:3.4.19.12]
K11840 USP9_24; ubiquitin carboxyl-terminal hydrolase 9/24 [EC:3.4.19.12]
K11841 USP10; ubiquitin carboxyl-terminal hydrolase 10 [EC:3.4.19.12]
K11841 USP10; ubiquitin carboxyl-terminal hydrolase 10 [EC:3.4.19.12]
K11842 USP12_46; ubiquitin carboxyl-terminal hydrolase 12/46 [EC:3.4.19.12]
K11842 USP12_46; ubiquitin carboxyl-terminal hydrolase 12/46 [EC:3.4.19.12]
K11842 USP12_46; ubiquitin carboxyl-terminal hydrolase 12/46 [EC:3.4.19.12]
K11843 USP14; ubiquitin carboxyl-terminal hydrolase 14 [EC:3.4.19.12]
K11844 USP16_45; ubiquitin carboxyl-terminal hydrolase 16/45 [EC:3.4.19.12]
K11844 USP16_45; ubiquitin carboxyl-terminal hydrolase 16/45 [EC:3.4.19.12]
K11844 USP16_45; ubiquitin carboxyl-terminal hydrolase 16/45 [EC:3.4.19.12]
K11846 USP18_41; ubiquitin carboxyl-terminal hydrolase 18/41 [EC:3.4.19.12]
K11847 USP19; ubiquitin carboxyl-terminal hydrolase 19 [EC:3.4.19.12]
K11848 USP20_33; ubiquitin carboxyl-terminal hydrolase 20/33 [EC:3.4.19.12]
K11849 USP25; ubiquitin carboxyl-terminal hydrolase 25 [EC:3.4.19.12]
K11850 USP26_29_37; ubiquitin carboxyl-terminal hydrolase 26/29/37 [EC:3.4.19.12]
K11851 USP30; ubiquitin carboxyl-terminal hydrolase 30 [EC:3.4.19.12]
K11852 USP31; ubiquitin carboxyl-terminal hydrolase 31 [EC:3.4.19.12]
K11853 USP34; ubiquitin carboxyl-terminal hydrolase 34 [EC:3.4.19.12]
K11854 USP35_38; ubiquitin carboxyl-terminal hydrolase 35/38 [EC:3.4.19.12]
K11854 USP35_38; ubiquitin carboxyl-terminal hydrolase 35/38 [EC:3.4.19.12]
K11855 USP36_42; ubiquitin carboxyl-terminal hydrolase 36/42 [EC:3.4.19.12]
K11855 USP36_42; ubiquitin carboxyl-terminal hydrolase 36/42 [EC:3.4.19.12]
K11856 USP43; ubiquitin carboxyl-terminal hydrolase 43 [EC:3.4.19.12]
K11857 USP47; ubiquitin carboxyl-terminal hydrolase 47 [EC:3.4.19.12]
K11858 USP48; ubiquitin carboxyl-terminal hydrolase 48 [EC:3.4.19.12]
K11859 TNFAIP3; tumor necrosis factor, alpha-induced protein 3 [EC:3.4.19.12]
K11860 OTUD7A_B; OTU domain-containing protein 7 [EC:3.4.19.12]
K11860 OTUD7A_B; OTU domain-containing protein 7 [EC:3.4.19.12]
K11861 VCPIP1; deubiquitinating protein VCIP135 [EC:3.4.19.12]
K11862 ZRANB1; ubiquitin thioesterase ZRANB1 [EC:3.4.19.12]
K11866 STAMBP; STAM-binding protein [EC:3.4.19.12]
K11867 STAMBPL1; AMSH-like protease [EC:3.4.19.12]
K11869 USP40; ubiquitin carboxyl-terminal hydrolase 40 [EC:3.4.19.12]
K11986 USP3; ubiquitin carboxyl-terminal hydrolase 3 [EC:3.4.19.12]
K13716 OTUD1; OTU domain-containing protein 1 [EC:3.4.19.12]
K13717 OTUD3; OTU domain-containing protein 3 [EC:3.4.19.12]
K13718 OTUD4; OTU domain-containing protein 4 [EC:3.4.19.12]
K15235 JOSD; josephin [EC:3.4.19.12]
K18342 OTUD6; OTU domain-containing protein 6 [EC:3.4.19.12]
K18342 OTUD6; OTU domain-containing protein 6 [EC:3.4.19.12]
K18343 OTULIN; ubiquitin thioesterase otulin [EC:3.4.19.12]
K21122 USP28; ubiquitin carboxyl-terminal hydrolase 28 [EC:3.4.19.12]
K21343 USP15; ubiquitin carboxyl-terminal hydrolase 15 [EC:3.4.19.12]
K21634 USP21; ubiquitin carboxyl-terminal hydrolase 21 [EC:3.4.19.12]
K22647 MINDY3_4; ubiquitin carboxyl-terminal hydrolase MINDY-3/4 [EC:3.4.19.12]
K22647 MINDY3_4; ubiquitin carboxyl-terminal hydrolase MINDY-3/4 [EC:3.4.19.12]
K22647 MINDY3_4; ubiquitin carboxyl-terminal hydrolase MINDY-3/4 [EC:3.4.19.12]
K22647 MINDY3_4; ubiquitin carboxyl-terminal hydrolase MINDY-3/4 [EC:3.4.19.12]
K22763 DESI2; deubiquitinase DESI2 [EC:3.4.19.12]
K22763 DESI2; deubiquitinase DESI2 [EC:3.4.19.12]
K24134 ZUP1; zinc finger-containing ubiquitin peptidase 1 [EC:3.4.19.12]
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3.4.19.13 glutathione gamma-glutamate hydrolase
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3.4.19.14 leukotriene-C4 hydrolase
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3.4.19.15 desampylase
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3.4.19.16 glucosinolate gamma-glutamyl hydrolase
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3.4.21 Serine endopeptidases
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3.4.22 Cysteine endopeptidases
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3.4.23 Aspartic endopeptidases
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3.4.24 Metalloendopeptidases
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3.4.25 Threonine endopeptidases
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3.4.26 Glutamic endopeptidases
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3.5 Acting on carbon-nitrogen bonds, other than peptide bonds
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3.6 Acting on acid anhydrides
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3.7 Acting on carbon-carbon bonds
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3.8 Acting on halide bonds
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3.9 Acting on phosphorus-nitrogen bonds
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3.10 Acting on sulfur-nitrogen bonds
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3.11 Acting on carbon-phosphorus bonds
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3.12 Acting on sulfur-sulfur bonds
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3.13 Acting on carbon-sulfur bonds
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4. Lyases
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5. Isomerases
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6. Ligases
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7. Translocases
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