Annotations: 3LD1

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	EUF08548	e3ld1A3	A: beta barrels	X: SH3	H: Replicase polyprotein 1a N-terminal beta barrel domain (From Topology)	T: Replicase polyprotein 1a N-terminal beta barrel domain	F: EUF08548	ECOD (1.6)
A	EUF08548	e3ld1A2	A: alpha arrays	X: Replicase polyprotein 1a N-terminal helical domain (From Topology)	H: Replicase polyprotein 1a N-terminal helical domain (From Topology)	T: Replicase polyprotein 1a N-terminal helical domain	F: EUF08548	ECOD (1.6)
A	EUF08548	e3ld1A1	A: a/b three-layered sandwiches	X: Replicase polyprotein 1a N-terminal macro-like domain (From Topology)	H: Replicase polyprotein 1a N-terminal macro-like domain (From Topology)	T: Replicase polyprotein 1a N-terminal macro-like domain	F: EUF08548	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF17896	Non-structural protein 2, gammacoronavirus (NSP2_gammaCoV)	Non-structural protein 2, gammacoronavirus	Avian infectious bronchitis virus (IBV) is a gammacoronavirus that belongs to Group III of coronaviruses. They have a large genome containing the replicase gene consisting of two large ORFs, ORF1a and 1b that encode two replicase polyproteins ppa1a/1 ...	Avian infectious bronchitis virus (IBV) is a gammacoronavirus that belongs to Group III of coronaviruses. They have a large genome containing the replicase gene consisting of two large ORFs, ORF1a and 1b that encode two replicase polyproteins ppa1a/1ab, which are then auto-proteolytically processed into 15 or 16 matured nonstructural proteins to achieve viral genomic replication, assembly and maturation. This group contains avian viruses and differs from the other groups in that they do not encode the essential pathogenic factor non-structural protein 1 (NSP1) and instead start with NSP2. IBV NSP2 is one of the first replicase proteins to be translated and processed in the viral life cycle [1]. NSP2 is a weak protein kinase R (PKR) antagonist, which may suggest that it plays a role in interfering with intracellular immunity [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Replicase polyprotein 1a	peptidase activity omega peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity cysteine-type peptidase activity cysteine-type endopeptidase activity endopeptidase activity lyase activity RNA binding binding organic cyclic compound binding nucleic acid binding transferase activity peptidase activity omega peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity cysteine-type peptidase activity cysteine-type endopeptidase activity endopeptidase activity lyase activity RNA binding binding organic cyclic compound binding nucleic acid binding transferase activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	viral genome replication viral process viral life cycle viral gene expression viral protein processing symbiont-mediated perturbation of host cellular process catabolic process regulation of cellular process biological process involved in interspecies interaction between organisms autophagy positive regulation of biological process modulation by virus of host process positive regulation of cellular metabolic process regulation of autophagy viral genome replication viral process viral life cycle viral gene expression viral protein processing symbiont-mediated perturbation of host cellular process catabolic process regulation of cellular process biological process involved in interspecies interaction between organisms autophagy positive regulation of biological process modulation by virus of host process positive regulation of cellular metabolic process regulation of autophagy biological process involved in symbiotic interaction cellular catabolic process positive regulation of metabolic process induction by virus of host autophagy process utilizing autophagic mechanism modulation of process of another organism 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 cellular metabolic process biological regulation regulation of cellular metabolic process regulation of catabolic process symbiont-mediated perturbation of host autophagy biological process involved in interaction with host positive regulation of catabolic process modulation by symbiont of host process regulation of cellular catabolic process positive regulation of cellular catabolic process cellular process metabolic process regulation of metabolic process organic substance metabolic process organonitrogen compound metabolic process proteolysis primary metabolic process protein metabolic process macromolecule metabolic process	membrane cellular anatomical entity host cellular component host intracellular part host cell perinuclear region of cytoplasm host cell cytoplasm host cell part host intracellular region host cell cytoplasm part host intracellular membrane-bounded organelle host cell endoplasmic reticulum host cell membrane host intracellular organelle host cell endomembrane system membrane cellular anatomical entity host cellular component host intracellular part host cell perinuclear region of cytoplasm host cell cytoplasm host cell part host intracellular region host cell cytoplasm part host intracellular membrane-bounded organelle host cell endoplasmic reticulum host cell membrane host intracellular organelle host cell endomembrane system host cell endoplasmic reticulum membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR043611	Coronavirus replicase NSP3, C-terminal	Domain
A	IPR014822	Non-structural protein NSP9, coronavirus	Domain
A	IPR038123	Non-structural protein NSP4, C-terminal superfamily, coronavirus	Homologous Superfamily
A	IPR047566	Coronavirus replicase NSP3, Y domain	Domain
A	IPR044308	Non-structural protein 5, gammacoronavirus	Domain
A	IPR037230	Non-structural protein NSP8 superfamily, coronavirus	Homologous Superfamily
A	IPR014828	Non-structural protein NSP7, coronavirus	Domain
A	IPR043178	Papain-like protease, thumb domain superfamily, coronavirus	Homologous Superfamily
A	IPR032505	Non-structural protein NSP4, C-terminal, coronavirus	Domain
A	IPR043503	Papain-like viral protease, palm and finger domains, coronavirus	Homologous Superfamily
A	IPR014829	Non-structural protein NSP8, coronavirus	Domain
A	IPR043612	Non-structural protein NSP4, N-terminal, coronavirus	Domain
A	IPR036499	Non-structural protein NSP9 superfamily, coronavirus	Homologous Superfamily
A	IPR044353	NSP3, second ubiquitin-like (Ubl) domain, coronavirus	Domain
A	IPR002589	Macro domain	Domain
A	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
A	IPR044383	Non-structural protein 2, IBV-like	Domain
A	IPR008740	Peptidase C30, coronavirus	Domain
A	IPR044368	Non-structural protein 6, gammacoronavirus	Domain
A	IPR036333	RNA synthesis protein NSP10 superfamily, coronavirus	Homologous Superfamily
A	IPR013016	Peptidase C16, coronavirus	Domain
A	IPR040795	Non-structural protein 2, gammacoronavirus	Domain
A	IPR037204	Non-structural protein NSP7 superfamily, coronavirus	Homologous Superfamily
A	IPR043472	Macro domain-like	Homologous Superfamily
A	IPR044357	NSP3, first ubiquitin-like (Ubl) domain, coronavirus	Domain
A	IPR043610	Non-structural protein 6, coronavirus	Domain
A	IPR044371	Non-structural protein 3, X-domain-like	Domain
A	IPR043477	Peptidase C30, domain 3, coronavirus	Homologous Superfamily
A	IPR018995	RNA synthesis protein NSP10, coronavirus	Domain
A	IPR043504	Peptidase S1, PA clan, chymotrypsin-like fold	Homologous Superfamily