| IPR022733 | DPUP/SUD, C-terminal, betacoronavirus | Domain |
| IPR042515 | Non-structural protein NSP15, N-terminal domain superfamily, coronavirus | Homologous Superfamily |
| IPR043174 | Non-structural protein NSP15, middle domain superfamily | Homologous Superfamily |
| IPR044315 | Nonstructural protein 14, betacoronavirus | Domain |
| IPR038123 | Non-structural protein NSP4, C-terminal superfamily, coronavirus | Homologous Superfamily |
| IPR042570 | Non-structural protein NSP3, nucleic acid-binding domain superfamily, betacoronavirus | Homologous Superfamily |
| IPR043178 | Papain-like protease, thumb domain superfamily, coronavirus | Homologous Superfamily |
| IPR046441 | RNA-dependent RNA polymerase, coronavirus | Domain |
| IPR044388 | Non-structural protein 2, MERS-CoV-like | Domain |
| IPR044863 | Nidovirus RdRp-associated nucleotidyl transferase (NiRAN) domain | Domain |
| IPR044343 | Nonstructural protein 13, 1B domain, coronavirus | Domain |
| IPR037227 | Endoribonuclease EndoU-like | Homologous Superfamily |
| IPR027352 | Nonstructural protein 13, zinc-binding domain, coronavirus-like | Domain |
| IPR009003 | Peptidase S1, PA clan | Homologous Superfamily |
| IPR013016 | Peptidase C16, coronavirus | Domain |
| IPR009466 | Non-structural protein 14, coronavirus | Domain |
| IPR044357 | NSP3, first ubiquitin-like (Ubl) domain, coronavirus | Domain |
| IPR046436 | Nidovirus 3'-5' exoribonuclease domain | Domain |
| IPR047570 | NSP12, interface domain, coronavirus | Domain |
| IPR018995 | RNA synthesis protein NSP10, coronavirus | Domain |
| IPR043615 | Nonstructural protein 2, N-terminal domain, coronavirus | Domain |
| IPR050534 | Coronaviruses polyprotein 1ab | Family |
| IPR043177 | Papain-like protease, N-terminal domain superfamily, coronavirus | Homologous Superfamily |
| IPR043606 | Coronavirus replicase NSP15, N-terminal oligomerization | Domain |
| IPR044330 | Nonstructural protein 15, N-terminal domain, alpha/beta-coronavirus | Domain |
| IPR044350 | RNA-dependent RNA polymerase, Middle East respiratory syndrome-related coronavirus | Domain |
| IPR041679 | DNA2/NAM7 helicase-like, C-terminal | Domain |
| IPR024375 | Non-structural protein NSP3, SUD-M domain, betacoronavirus | Domain |
| IPR014828 | Non-structural protein NSP7, coronavirus | Domain |
| IPR043503 | Papain-like viral protease, palm and finger domains, coronavirus | Homologous Superfamily |
| IPR014829 | Non-structural protein NSP8, coronavirus | Domain |
| IPR036499 | Non-structural protein NSP9 superfamily, coronavirus | Homologous Superfamily |
| IPR029063 | S-adenosyl-L-methionine-dependent methyltransferase superfamily | Homologous Superfamily |
| IPR043502 | DNA/RNA polymerase superfamily | Homologous Superfamily |
| IPR008740 | Peptidase C30, coronavirus | Domain |
| IPR036333 | RNA synthesis protein NSP10 superfamily, coronavirus | Homologous Superfamily |
| IPR047573 | Non-structural protein 2, middle domain, coronavirus | Domain |
| IPR049894 | Coronavirus NSP3, 3Ecto domain | Domain |
| IPR043472 | Macro domain-like | Homologous Superfamily |
| IPR043609 | NendoU domain, nidovirus | Domain |
| IPR032592 | Non-structural protein NSP3, nucleic acid-binding domain, betacoronavirus | Domain |
| IPR043613 | Non-structural protein 2, C-terminal domain, coronavirus | Domain |
| IPR038083 | Non-structural protein NSP3A domain-like superfamily | Homologous Superfamily |
| IPR043504 | Peptidase S1, PA clan, chymotrypsin-like fold | Homologous Superfamily |
| IPR048673 | Nonstructural protein 13, stalk domain, coronavirus | Domain |
| IPR046435 | NSP14, guanine-N7-methyltransferase domain, coronavirus | Domain |
| IPR009469 | RNA-dependent RNA polymerase, N-terminal, coronavirus | Domain |
| IPR043611 | Coronavirus replicase NSP3, C-terminal | Domain |
| IPR047566 | Coronavirus replicase NSP3, Y domain | Domain |
| IPR048672 | Nonstructural protein 13, zinc-binding domain, coronavirus | Domain |
| IPR043612 | Non-structural protein NSP4, N-terminal, coronavirus | Domain |
| IPR027417 | P-loop containing nucleoside triphosphate hydrolase | Homologous Superfamily |
| IPR043608 | Nonstructural protein 15, middle domain, coronavirus | Domain |
| IPR044353 | NSP3, second ubiquitin-like (Ubl) domain, coronavirus | Domain |
| IPR044382 | NSP3, SUD-C domain, MERS-CoV-like | Domain |
| IPR037204 | Non-structural protein NSP7 superfamily, coronavirus | Homologous Superfamily |
| IPR046443 | NSP1, globular domain, alpha/betacoronavirus | Domain |
| IPR043610 | Non-structural protein 6, coronavirus | Domain |
| IPR027351 | (+) RNA virus helicase core domain | Domain |
| IPR044322 | Nonstructural protein 15, middle domain, alpha/betacoronavirus | Domain |
| IPR009461 | Non-structural protein NSP16, coronavirus-like | Domain |
| IPR043477 | Peptidase C30, domain 3, coronavirus | Homologous Superfamily |
| IPR038400 | Non-structural protein NSP3, SUD-M domain superfamily, betacoronavirus | Homologous Superfamily |
| IPR046442 | NSP1, C-terminal domain, betacoronavirus | Domain |
| IPR001205 | RNA-directed RNA polymerase, C-terminal domain | Domain |
| IPR014822 | Non-structural protein NSP9, coronavirus | Domain |
| IPR021590 | NSP1, globular domain, betacoronavirus | Domain |
| IPR044367 | Non-structural protein 6, betacoronavirus | Domain |
| IPR037230 | Non-structural protein NSP8 superfamily, coronavirus | Homologous Superfamily |
| IPR046440 | Arterivirus Nsp11 N-terminal/Coronavirus NSP15 middle domain | Domain |
| IPR032505 | Non-structural protein NSP4, C-terminal, coronavirus | Domain |
| IPR046438 | Nidovirus 2-O-methyltransferase | Domain |
| IPR002589 | Macro domain | Domain |
| IPR047567 | Non-structural protein NSP3, group 2-specific marker domain, betacoronavirus | Domain |
| IPR044371 | Non-structural protein 3, X-domain-like | Domain |
| IPR007094 | RNA-directed RNA polymerase, catalytic domain | Domain |
| IPR019954 | Ubiquitin conserved site | Conserved Site |
| IPR050158 | Ubiquitin and ubiquitin-like | Family |
| IPR000626 | Ubiquitin-like domain | Domain |
| IPR019956 | Ubiquitin domain | Domain |
| IPR029071 | Ubiquitin-like domain superfamily | Homologous Superfamily |