7F0U

porcine epidemic diarrhea virus papain-like protease 2 C44S mutant in complex with mono ubiquitin

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	Ubiquitin-like	8098884	3000157	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Ubiquitin-like	8098884	3000157	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF08715	e7f0uA1	A: a+b complex topology	X: Cysteine proteinases-like	H: Cysteine proteinases (From Topology)	T: Cysteine proteinases	F: PF08715	ECOD (1.6)
B	PF08715	e7f0uB1	A: a+b complex topology	X: Cysteine proteinases-like	H: Cysteine proteinases (From Topology)	T: Cysteine proteinases	F: PF08715	ECOD (1.6)
C	PF00240	e7f0uC1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: PF00240	ECOD (1.6)
D	PF00240	e7f0uD1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: PF00240	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF08715	Coronavirus papain-like peptidase (CoV_peptidase)	Coronavirus papain-like peptidase	-	Family
C, D	PF00240	Ubiquitin family (ubiquitin)	Ubiquitin family	This family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue) (see Swiss:Q02724), Nedd8 (see Swiss:P29595), Elongin B (see Swiss:Q15370), Rub1 (see Swiss:Q9SHE7), and Parkin (see Swiss:O60260). A number of them are thought to carry ...	This family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue) (see Swiss:Q02724), Nedd8 (see Swiss:P29595), Elongin B (see Swiss:Q15370), Rub1 (see Swiss:Q9SHE7), and Parkin (see Swiss:O60260). A number of them are thought to carry a distinctive five-residue motif termed the proteasome-interacting motif (PIM), which may have a biologically significant role in protein delivery to proteasomes and recruitment of proteasomes to transcription sites [5].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	papain-like protease 2	peptidase activity omega peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity 3'-5'-RNA exonuclease activity catalytic activity, acting on RNA RNA exonuclease activity, producing 5'-phosphomonoesters catalytic activity, acting on a nucleic acid 3'-5' exonuclease activity RNA exonuclease activity RNA nuclease activity exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters nuclease activity peptidase activity omega peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity 3'-5'-RNA exonuclease activity catalytic activity, acting on RNA RNA exonuclease activity, producing 5'-phosphomonoesters catalytic activity, acting on a nucleic acid 3'-5' exonuclease activity RNA exonuclease activity RNA nuclease activity exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters nuclease activity hydrolase activity, acting on ester bonds exonuclease activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding helicase activity RNA helicase activity ATP-dependent activity, acting on RNA ATP-dependent activity endonuclease activity RNA methyltransferase activity O-methyltransferase activity transferase activity, transferring one-carbon groups mRNA (nucleoside-2'-O-)-methyltransferase activity transferase activity S-adenosylmethionine-dependent methyltransferase activity methyltransferase activity mRNA methyltransferase activity 5'-3' RNA polymerase activity RNA polymerase activity RNA-dependent RNA polymerase activity nucleotidyltransferase activity transferase activity, transferring phosphorus-containing groups mRNA 5'-cap (guanine-N7-)-methyltransferase activity N-methyltransferase activity cysteine-type peptidase activity cysteine-type endopeptidase activity endopeptidase activity lyase activity RNA binding nucleic acid binding ubiquitin-like protein peptidase activity cysteine-type deubiquitinase activity deubiquitinase activity cation binding transition metal ion binding zinc ion binding metal ion binding	viral gene expression viral protein processing viral process cellular biosynthetic process cellular metabolic process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription viral gene expression viral protein processing viral process cellular biosynthetic process cellular metabolic process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription organic cyclic compound metabolic process nucleic acid biosynthetic process organic substance metabolic process biosynthetic process organic cyclic compound biosynthetic process organic substance biosynthetic process metabolic process cellular process macromolecule metabolic process symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms response to stimulus symbiont-mediated suppression of host pathogen-associated molecular pattern receptor signaling pathway response to biotic stimulus biological process involved in symbiotic interaction symbiont-mediated suppression of host immune response symbiont-mediated suppression of host innate immune response response to host immune response symbiont-mediated suppression of host defenses symbiont-mediated perturbation of host innate immune response response to host response to external biotic stimulus symbiont-mediated perturbation of host signal transduction pathway modulation of process of another organism symbiont-mediated perturbation of host defense response response to host defenses response to other organism symbiont-mediated perturbation of host immune response response to defenses of other organism symbiont-mediated perturbation of host defenses response to external stimulus biological process involved in interaction with host symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of IRF3 activity symbiont-mediated suppression of host signal transduction pathway modulation by symbiont of host process symbiont-mediated suppression of cytoplasmic pattern recognition receptor signaling pathway catabolic process regulation of cellular process autophagy positive regulation of biological process modulation by virus of host process positive regulation of cellular metabolic process regulation of autophagy cellular catabolic process positive regulation of metabolic process induction by virus of host autophagy process utilizing autophagic mechanism positive regulation of cellular process modulation by virus of host cellular process positive regulation of autophagy regulation of biological process modulation by virus of host autophagy biological regulation regulation of cellular metabolic process regulation of catabolic process symbiont-mediated perturbation of host autophagy positive regulation of catabolic process regulation of cellular catabolic process positive regulation of cellular catabolic process regulation of metabolic process symbiont-mediated perturbation of host ubiquitin-like protein modification viral genome replication viral life cycle organonitrogen compound metabolic process proteolysis protein metabolic process	membrane cellular anatomical entity membrane-bounded organelle intracellular organelle intracellular anatomical structure organelle endoplasmic reticulum-Golgi intermediate compartment cytoplasm intracellular membrane-bounded organelle host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum-Golgi intermediate compartment host cell cytoplasm membrane cellular anatomical entity membrane-bounded organelle intracellular organelle intracellular anatomical structure organelle endoplasmic reticulum-Golgi intermediate compartment cytoplasm intracellular membrane-bounded organelle host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum-Golgi intermediate compartment host cell cytoplasm host cell part host intracellular region host cell cytoplasm part host intracellular organelle host cell perinuclear region of cytoplasm host cell membrane
C, D	Ubiquitin	protein tag activity molecular tag activity ubiquitin protein ligase binding protein binding binding ubiquitin-like protein ligase binding enzyme binding structural molecule activity structural constituent of ribosome cation binding ion binding metal ion binding small molecule binding	cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis cellular process cellular component organization or biogenesis ribosomal small subunit biogenesis organonitrogen compound catabolic process organonitrogen compound metabolic process catabolic process proteolysis involved in protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process organic substance metabolic process cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis cellular process cellular component organization or biogenesis ribosomal small subunit biogenesis organonitrogen compound catabolic process organonitrogen compound metabolic process catabolic process proteolysis involved in protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process organic substance metabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process proteolysis metabolic process protein metabolic process macromolecule metabolic process organic substance catabolic process protein ubiquitination macromolecule modification post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process translation gene expression macromolecule biosynthetic process biosynthetic process organic substance biosynthetic process	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle cytosolic ribosome ribosome cytoplasm cytosol preribosome protein-containing complex ribonucleoprotein complex small-subunit processome synapse cell junction

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR042515	Non-structural protein NSP15, N-terminal domain superfamily, coronavirus	Homologous Superfamily
A, B	IPR048673	Nonstructural protein 13, stalk domain, coronavirus	Domain
A, B	IPR046435	NSP14, guanine-N7-methyltransferase domain, coronavirus	Domain
A, B	IPR043174	Non-structural protein NSP15, middle domain superfamily	Homologous Superfamily
A, B	IPR009469	RNA-dependent RNA polymerase, N-terminal, coronavirus	Domain
A, B	IPR043611	Coronavirus replicase NSP3, C-terminal	Domain
A, B	IPR038123	Non-structural protein NSP4, C-terminal superfamily, coronavirus	Homologous Superfamily
A, B	IPR047566	Coronavirus replicase NSP3, Y domain	Domain
A, B	IPR043178	Papain-like protease, thumb domain superfamily, coronavirus	Homologous Superfamily
A, B	IPR046441	RNA-dependent RNA polymerase, coronavirus	Domain
A, B	IPR048672	Nonstructural protein 13, zinc-binding domain, coronavirus	Domain
A, B	IPR043612	Non-structural protein NSP4, N-terminal, coronavirus	Domain
A, B	IPR044863	Nidovirus RdRp-associated nucleotidyl transferase (NiRAN) domain	Domain
A, B	IPR044343	Nonstructural protein 13, 1B domain, coronavirus	Domain
A, B	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B	IPR043608	Nonstructural protein 15, middle domain, coronavirus	Domain
A, B	IPR044353	NSP3, second ubiquitin-like (Ubl) domain, coronavirus	Domain
A, B	IPR037227	Endoribonuclease EndoU-like	Homologous Superfamily
A, B	IPR027352	Nonstructural protein 13, zinc-binding domain, coronavirus-like	Domain
A, B	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
A, B	IPR013016	Peptidase C16, coronavirus	Domain
A, B	IPR037204	Non-structural protein NSP7 superfamily, coronavirus	Homologous Superfamily
A, B	IPR047912	Non-structural protein 13, helicase domain, alphacoronavirus	Domain
A, B	IPR009466	Non-structural protein 14, coronavirus	Domain
A, B	IPR044357	NSP3, first ubiquitin-like (Ubl) domain, coronavirus	Domain
A, B	IPR046436	Nidovirus 3'-5' exoribonuclease domain	Domain
A, B	IPR046443	NSP1, globular domain, alpha/betacoronavirus	Domain
A, B	IPR047570	NSP12, interface domain, coronavirus	Domain
A, B	IPR044313	Nonstructural protein 14, alphacoronavirus	Domain
A, B	IPR043610	Non-structural protein 6, coronavirus	Domain
A, B	IPR027351	(+) RNA virus helicase core domain	Domain
A, B	IPR044322	Nonstructural protein 15, middle domain, alpha/betacoronavirus	Domain
A, B	IPR009461	Non-structural protein NSP16, coronavirus-like	Domain
A, B	IPR043477	Peptidase C30, domain 3, coronavirus	Homologous Superfamily
A, B	IPR018995	RNA synthesis protein NSP10, coronavirus	Domain
A, B	IPR011050	Pectin lyase fold/virulence factor	Homologous Superfamily
A, B	IPR043615	Nonstructural protein 2, N-terminal domain, coronavirus	Domain
A, B	IPR043606	Coronavirus replicase NSP15, N-terminal oligomerization	Domain
A, B	IPR044330	Nonstructural protein 15, N-terminal domain, alpha/beta-coronavirus	Domain
A, B	IPR001205	RNA-directed RNA polymerase, C-terminal domain	Domain
A, B	IPR044401	NSP15, NendoU domain, coronavirus	Domain
A, B	IPR044369	Non-structural protein 6, alphacoronavirus	Domain
A, B	IPR014822	Non-structural protein NSP9, coronavirus	Domain
A, B	IPR041679	DNA2/NAM7 helicase-like, C-terminal	Domain
A, B	IPR037230	Non-structural protein NSP8 superfamily, coronavirus	Homologous Superfamily
A, B	IPR044356	RNA-dependent RNA polymerase, alphacoronavirus	Domain
A, B	IPR046440	Arterivirus Nsp11 N-terminal/Coronavirus NSP15 middle domain	Domain
A, B	IPR014828	Non-structural protein NSP7, coronavirus	Domain
A, B	IPR032505	Non-structural protein NSP4, C-terminal, coronavirus	Domain
A, B	IPR014829	Non-structural protein NSP8, coronavirus	Domain
A, B	IPR046438	Nidovirus 2-O-methyltransferase	Domain
A, B	IPR036499	Non-structural protein NSP9 superfamily, coronavirus	Homologous Superfamily
A, B	IPR002589	Macro domain	Domain
A, B	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Homologous Superfamily
A, B	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A, B	IPR008740	Peptidase C30, coronavirus	Domain
A, B	IPR036333	RNA synthesis protein NSP10 superfamily, coronavirus	Homologous Superfamily
A, B	IPR047573	Non-structural protein 2, middle domain, coronavirus	Domain
A, B	IPR044309	Non-structural protein 5, alphacoronavirus	Domain
A, B	IPR043472	Macro domain-like	Homologous Superfamily
A, B	IPR043609	NendoU domain, nidovirus	Domain
A, B	IPR044371	Non-structural protein 3, X-domain-like	Domain
A, B	IPR043613	Non-structural protein 2, C-terminal domain, coronavirus	Domain
A, B	IPR044385	Nonstructural protein 2, HCoV-229E-like	Domain
A, B	IPR043504	Peptidase S1, PA clan, chymotrypsin-like fold	Homologous Superfamily
C, D	IPR019954	Ubiquitin conserved site	Conserved Site
C, D	IPR000626	Ubiquitin-like domain	Domain
C, D	IPR038582	Small ribosomal subunit protein eS31 eukaryotic-type superfamily	Homologous Superfamily
C, D	IPR002906	Small ribosomal subunit protein eS31	Domain
C, D	IPR019956	Ubiquitin domain	Domain
C, D	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
C, D	IPR011332	Zinc-binding ribosomal protein	Homologous Superfamily