4X2Z

Structural view and substrate specificity of papain-like protease from Avian Infectious Bronchitis Virus

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Viral_protease_N	e4x2zA2	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: Viral_protease_N	ECOD (1.6)
A	Viral_protease_C	e4x2zA1	A: a+b complex topology	X: Cysteine proteinases-like	H: Cysteine proteinases (From Topology)	T: Cysteine proteinases	F: Viral_protease_C	ECOD (1.6)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Nonstructural protein 3	ATP-dependent activity, acting on DNA forked DNA-dependent helicase activity DNA helicase activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid helicase activity catalytic activity ATP-dependent activity 3'-5'-RNA exonuclease activity catalytic activity, acting on RNA RNA exonuclease activity, producing 5'-phosphomonoesters 3'-5' exonuclease activity RNA exonuclease activity RNA nuclease activity ATP-dependent activity, acting on DNA forked DNA-dependent helicase activity DNA helicase activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid helicase activity catalytic activity ATP-dependent activity 3'-5'-RNA exonuclease activity catalytic activity, acting on RNA RNA exonuclease activity, producing 5'-phosphomonoesters 3'-5' exonuclease activity RNA exonuclease activity RNA nuclease activity hydrolase 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 anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding double-stranded DNA helicase activity 5'-3' DNA helicase activity RNA methyltransferase activity transferase activity, transferring one-carbon groups transferase activity S-adenosylmethionine-dependent methyltransferase activity mRNA 5'-cap (guanine-N7-)-methyltransferase activity N-methyltransferase activity methyltransferase activity mRNA methyltransferase activity four-way junction helicase activity pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity, acting on acid anhydrides DNA translocase activity chromatin extrusion motor activity ATP-dependent H3-H4 histone complex chaperone activity catalytic activity, acting on a protein histone chaperone activity ATP-dependent chromatin remodeler activity H3-H4 histone complex chaperone activity protein carrier chaperone ATP-dependent histone chaperone activity molecular carrier activity peptidase activity omega peptidase activity RNA helicase activity ATP-dependent activity, acting on RNA endonuclease activity O-methyltransferase activity mRNA (nucleoside-2'-O-)-methyltransferase activity 5'-3' RNA polymerase activity RNA polymerase activity RNA-dependent RNA polymerase activity nucleotidyltransferase activity transferase activity, transferring phosphorus-containing groups cohesin loader activity DNA clamp loader activity cysteine-type peptidase activity cysteine-type endopeptidase activity endopeptidase activity ATP-dependent H2AZ histone chaperone activity lyase activity RNA binding nucleic acid binding single-stranded 3'-5' DNA helicase activity single-stranded DNA helicase activity 3'-5' DNA helicase activity cation binding transition metal ion binding zinc ion binding metal ion binding	RNA metabolic process viral life cycle primary metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process viral genome replication biosynthetic process viral RNA genome replication viral process metabolic process RNA metabolic process viral life cycle primary metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process viral genome replication biosynthetic process viral RNA genome replication viral process metabolic process cellular process macromolecule metabolic process viral gene expression viral protein processing gene expression DNA-templated transcription symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host process symbiont-mediated perturbation of host autophagy modulation of process of another organism symbiont-mediated activation of host autophagy biological process involved in interaction with host biological process involved in symbiotic interaction viral translational frameshifting viral translation proteolysis protein metabolic process	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum-Golgi intermediate compartment cellular anatomical structure host cell cytoplasm host cell part host intracellular region host cell cytoplasm part host intracellular organelle host cell perinuclear region of cytoplasm membrane host cell endoplasmic reticulum host cell membrane host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum-Golgi intermediate compartment cellular anatomical structure host cell cytoplasm host cell part host intracellular region host cell cytoplasm part host intracellular organelle host cell perinuclear region of cytoplasm membrane host cell endoplasmic reticulum host cell membrane host cell endomembrane system host cell endoplasmic reticulum membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR042515	Non-structural protein NSP15, N-terminal domain superfamily, coronavirus	Homologous Superfamily
A	IPR043174	Non-structural protein NSP15, middle domain superfamily	Homologous Superfamily
A	IPR038123	Non-structural protein NSP4, C-terminal superfamily, coronavirus	Homologous Superfamily
A	IPR043178	Papain-like protease, thumb domain superfamily, coronavirus	Homologous Superfamily
A	IPR046441	RNA-dependent RNA polymerase, coronavirus	Domain
A	IPR044863	Nidovirus RdRp-associated nucleotidyl transferase (NiRAN) domain	Domain
A	IPR044343	Nonstructural protein 13, 1B domain, coronavirus	Domain
A	IPR044328	Nonstructural protein 15, N-terminal, gammacoronavirus	Domain
A	IPR044358	RNA-dependent RNA polymerase, gammacoronavirus	Domain
A	IPR037227	Endoribonuclease EndoU-like	Homologous Superfamily
A	IPR027352	Nonstructural protein 13, zinc-binding domain, coronavirus-like	Domain
A	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
A	IPR013016	Peptidase C16, coronavirus	Domain
A	IPR040795	Non-structural protein 2, gammacoronavirus	Domain
A	IPR009466	Non-structural protein 14, coronavirus	Domain
A	IPR044357	NSP3, first ubiquitin-like (Ubl) domain, coronavirus	Domain
A	IPR046436	Nidovirus 3'-5' exoribonuclease domain	Domain
A	IPR047570	NSP12, interface domain, coronavirus	Domain
A	IPR018995	RNA synthesis protein NSP10, coronavirus	Domain
A	IPR050534	Coronaviruses polyprotein 1ab	Family
A	IPR043606	Coronavirus replicase NSP15, N-terminal oligomerization	Domain
A	IPR014828	Non-structural protein NSP7, coronavirus	Domain
A	IPR043503	Papain-like viral protease, palm and finger domains, coronavirus	Homologous Superfamily
A	IPR014829	Non-structural protein NSP8, coronavirus	Domain
A	IPR036499	Non-structural protein NSP9 superfamily, coronavirus	Homologous Superfamily
A	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Homologous Superfamily
A	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A	IPR008740	Peptidase C30, coronavirus	Domain
A	IPR036333	RNA synthesis protein NSP10 superfamily, coronavirus	Homologous Superfamily
A	IPR049894	Coronavirus NSP3, 3Ecto domain	Domain
A	IPR043472	Macro domain-like	Homologous Superfamily
A	IPR043609	NendoU domain, nidovirus	Domain
A	IPR043504	Peptidase S1, PA clan, chymotrypsin-like fold	Homologous Superfamily
A	IPR048673	Nonstructural protein 13, stalk domain, coronavirus	Domain
A	IPR046435	NSP14, guanine-N7-methyltransferase domain, coronavirus	Domain
A	IPR009469	RNA-dependent RNA polymerase, N-terminal, coronavirus	Domain
A	IPR043611	Coronavirus replicase NSP3, C-terminal	Domain
A	IPR047566	Coronavirus replicase NSP3, Y domain	Domain
A	IPR044308	Non-structural protein 5, gammacoronavirus	Domain
A	IPR044316	Nonstructural protein 14, gammacoronavirus	Domain
A	IPR048672	Nonstructural protein 13, zinc-binding domain, coronavirus	Domain
A	IPR043612	Non-structural protein NSP4, N-terminal, coronavirus	Domain
A	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A	IPR043608	Nonstructural protein 15, middle domain, coronavirus	Domain
A	IPR044353	NSP3, second ubiquitin-like (Ubl) domain, coronavirus	Domain
A	IPR044383	Non-structural protein 2, IBV-like	Domain
A	IPR037204	Non-structural protein NSP7 superfamily, coronavirus	Homologous Superfamily
A	IPR043610	Non-structural protein 6, coronavirus	Domain
A	IPR027351	(+) RNA virus helicase core domain	Domain
A	IPR009461	Non-structural protein NSP16, coronavirus-like	Domain
A	IPR043477	Peptidase C30, domain 3, coronavirus	Homologous Superfamily
A	IPR001205	RNA-directed RNA polymerase, C-terminal domain	Domain
A	IPR044401	NSP15, NendoU domain, coronavirus	Domain
A	IPR014822	Non-structural protein NSP9, coronavirus	Domain
A	IPR003593	AAA+ ATPase domain	Domain
A	IPR037230	Non-structural protein NSP8 superfamily, coronavirus	Homologous Superfamily
A	IPR046440	Arterivirus Nsp11 N-terminal/Coronavirus NSP15 middle domain	Domain
A	IPR032505	Non-structural protein NSP4, C-terminal, coronavirus	Domain
A	IPR044325	Nonstructural protein 15, middle domain, gammacoronavirus	Domain
A	IPR046438	Nidovirus 2-O-methyltransferase	Domain
A	IPR002589	Macro domain	Domain
A	IPR044368	Non-structural protein 6, gammacoronavirus	Domain
A	IPR044371	Non-structural protein 3, X-domain-like	Domain
A	IPR007094	RNA-directed RNA polymerase, catalytic domain	Domain

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.

Prepare Data

Validate Data

Deposit Data

Help and Resources

4X2Z

Structural view and substrate specificity of papain-like protease from Avian Infectious Bronchitis Virus

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage