Table 1.
Viral DUBs and their characterized structures and substrates
| Virus family/genus | Virus | DUB domain | Location | In vitro DUB activity | Cellular targets | PDB ID |
|---|---|---|---|---|---|---|
| Adenoviridae | AdV | Avp | L3 gene product p23 | Lys48 polyUb, ISG15 [74] | Histone H2A [74] | 1AVP, 1NLN, 4EKF, 4PID, 4PIE, 4PIQ, 4PIS, 5FGY, 4WX4, 4WX6, 4WX7 |
| Herpesviridae/alphaherpesviruses | Human HSV-1 | UL36USP | N terminus of viral tegument protein | Lys48 polyUb [85], [86], Lys63 polyUb [86] | TRAF3 [88], IκBα [89] | |
| MDV | MDVUSP | N/A | Unknown | |||
| PrV | pUL36 | N/A | Unknown | |||
| Herpesviridae/betaherpesviruses | MCMV | M48USP | N terminus of viral tegument protein | Lys48/63 diUb [91] | Unknown | 2J7Q |
| HCMV | UL48USP | Lys48/63 polyUb [86] | Unknown | |||
| Herpesviridae/gammaherpesviruses | EBV | BPLF1 | N terminus of viral tegument protein | Lys48/63 polyUb [94], NEDD8 [95] | EBV RR [94], proliferating cell nuclear antigen [98], Cullin [95], TRAF6 [99], [100], NEMO, IκBα [100] | |
| KSV | KSV Orf64 | Lys48/63 polyUb [103] | RIG-I [105] | |||
| MHV-68 | ORF64USP | N/A | Unknown | |||
| Coronaviridae/alphacoronaviruses | HCoV- NL63 | HCoV-NL63 PLP2 | Membrane- associated nsp3 that is part of the replication–transcription complex | Lys48/63 polyUb [138], [172], ISG15 [173] | RIG-I, TBK1, IRF3, STING [174] | |
| PEDV | PEDV PLP2 | N/A | RIG-I, STING [183] | |||
| TGEV | TGEV PL1pro | Lys48/63 polyUb [182] | Unknown | 3MP2 | ||
| Coronaviridae/betacoronaviruses | SARS-CoV | SARS-CoV PLpro | Membrane- associated nsp3 that is part of the replication–transcription complex | Lys48 polyUb [130], [139], [158], Lys63 polyUb [158], ISG15 [130], [158], Lys6/11/27/29/33/48/63 diUb [139] | RIG-I, TRAF3, STING, TBK1, IRF3 [256] | 4M0W, 5E6J, 3E9S, 3MJ5, 4MM3, 4OVZ, 4OW0, 2FE8, 5TL6, 5TL7 |
| MERS-CoV | MERS-CoV PLpro | Lys6/11/29/33/48/63 diUb [139], Lys48 polyUb [139], [158], [162], Lys63 polyUb [158], [162], ISG15 [158] | Unknown | 4P16, 4PT5, 4R3D, 4REZ, 4RF0, 4RF1, 4RNA, 4WUR | ||
| MHV | MHV PLP2 | Lys11/48/63 diUb [177] | IRF3 [179], TBK1 [178] | 4YPT | ||
| Coronaviridae/gammacoronaviruses | IBV | IBV PLpro | Membrane- associated nsp3 that is part of the replication–transcription complex | Lys48/63 polyUb [188], [189] | Unknown |
4X2Z 5BZ0 |
| Arteriviridae | EAV | EAV PLP2 | N-terminal region of membrane-associated nsp2 that is part of the replication–transcription complex | Lys48/63 polyUb [196] | RIG-I [196] | 4IUM |
| PRRSV | PRRSV PLP2 | Lys6/11/27/29/33/48/63 diUb, Lys48/63 polyUb [209] | IκBα [208], RIG-I [196] | |||
| LDV | LDV PLP2 | N/A | RIG-I [196] | |||
| SHFV | SHFV PLP2 | N/A | RIG-I [196] | |||
| Bunyaviridae/nairoviruses | CCHFV | CCHFV OTU | N-terminal region of RNA-dependent RNA polymerase-containing L-segment | Lys48/63 polyUb [198], [219], [221], ISG15 [198], [217], [218], [219], [221], Lys6/11 diUb [221], Lys63 diUb [218], [219], [221], Lys48 diUb [219], [221] | RIG-I [196] | 3PHU, 3PHW, 3PHX, 3PT2, 3PSE, 3PRM, 3PRP |
| DUGV | DUGV OTU | Lys48/63 polyUb [198], [219], [221], ISG15 [198], [217], [218], [219], [221], Lys6/11 diUb [221], Lys63 diUb [218], [219], [221], Lys48 diUb [219], [221] | Unknown | 4HXD, 3ZNH | ||
| ERVV | ERVEV OTU | ISG15 [221] | Unknown | 5JZE | ||
| NSDV | NSDV OTU | N/A | Unknown | |||
| Picornaviridae | FMDV | FMDV Lpro | N terminus of polyprotein | Lys48/63 polyUb [240] | RIG-I, TBK1, TRAF3, TRAF6 [240] | 1QOL, 4QBB, 1QMY |
| G | ToV-PLP | 2C/3A junction of the Enterovirus G polyprotein | Met1/Lys48/63 polyUb, ISG15 [226] | Unknown | ||
| Tymoviridae | TYMV | TYMV PRO | Non-structural protein p206 | Lys48/63 polyUb [221], [250] | TYMV p66 [250] | 4A5U |