6VV5 | pdb_00006vv5

Cryo-EM structure of porcine epidemic diarrhea virus (PEDV) spike protein

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
A	SCOP2 Family	HCov-NL63 receptor-binding domain-like	8092605	4006418	SCOP2 (2022-06-29)
A	SCOP2 Family	Coronavirus spike S1 glycoprotein N-terminal domain-like	8092607	4004563	SCOP2 (2022-06-29)
A	SCOP2 Family	Coronavirus S2 glycoprotein stalk-like	8092609	4003119	SCOP2 (2022-06-29)
A	SCOP2 Family	Coronavirus spike S2 glycoprotein connector domain-like	8092611	4007763	SCOP2 (2022-06-29)
A	SCOP2 Family	Coronavirus spike S1 glycoprotein N-terminal domain-like	8092626	4004563	SCOP2 (2022-06-29)
A	SCOP2 Family	Coronavirus S1 glycoprotein, domain C-like	8092688	4007778	SCOP2 (2022-06-29)
A	SCOP2 Family	Coronavirus S1 glycoprotein, domain D-like	8092690	4007779	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	SARS coronavirus receptor-binding domain-like	8092606	3001706	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Concanavalin A-like lectins/glucanases	8092608	3000120	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Coronavirus S2 glycoprotein stalk-like	8092610	3000282	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Coronavirus spike S2 glycoprotein connector domain-like	8092612	3002562	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Concanavalin A-like lectins/glucanases	8092627	3000120	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Coronavirus S1 glycoprotein, domain C-like	8092689	3002615	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Coronavirus S1 glycoprotein, domain D-like	8092691	3002616	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Coronavirus spike S2 glycoprotein connector domain-like	8092612	3002562	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Coronavirus S2 glycoprotein stalk-like	8092610	3000282	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	SARS coronavirus receptor-binding domain-like	8092606	3001706	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Coronavirus S1 glycoprotein, domain D-like	8092691	3002616	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Coronavirus S1 glycoprotein, domain C-like	8092689	3002615	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8092608	3000120	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Coronavirus S2 glycoprotein stalk-like	8092610	3000282	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	SARS coronavirus receptor-binding domain-like	8092606	3001706	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8092608	3000120	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Coronavirus S1 glycoprotein, domain C-like	8092689	3002615	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Coronavirus S1 glycoprotein, domain D-like	8092691	3002616	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Coronavirus spike S2 glycoprotein connector domain-like	8092612	3002562	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	e6vv5A1	A: alpha bundles	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F:	ECOD (develop294)
B	e6vv5B1	A: alpha bundles	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F:	ECOD (develop294)
C	e6vv5C1	A: alpha bundles	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F:	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.40.3130	Mainly Beta	Sandwich	Immunoglobulin-like	Coronavirus S1 glycoprotein, central receptor binding domain (RBD)	CATH (utative)
B	2.60.40.3130	Mainly Beta	Sandwich	Immunoglobulin-like	Coronavirus S1 glycoprotein, central receptor binding domain (RBD)	CATH (utative)
C	2.60.40.3130	Mainly Beta	Sandwich	Immunoglobulin-like	Coronavirus S1 glycoprotein, central receptor binding domain (RBD)	CATH (utative)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	Spike glycoprotein	-	viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell virion attachment to host cell biological process involved in interspecies interaction between organisms receptor-mediated virion attachment to host cell adhesion of symbiont to host cell viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction membrane organization cellular component organization membrane fusion viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell virion attachment to host cell biological process involved in interspecies interaction between organisms receptor-mediated virion attachment to host cell adhesion of symbiont to host cell viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction membrane organization cellular component organization membrane fusion fusion of virus membrane with host plasma membrane cellular process cellular component organization or biogenesis symbiont entry into host cell symbiont entry into host endocytosis involved in viral entry into host cell	cellular anatomical structure membrane virion component virion membrane host intracellular membrane-bounded organelle host cellular component host intracellular part host cell membrane other organism part host cell cytoplasm part host intracellular organelle host cell endoplasmic reticulum-Golgi intermediate compartment membrane host cell endoplasmic reticulum-Golgi intermediate compartment host cell cytoplasm cellular anatomical structure membrane virion component virion membrane host intracellular membrane-bounded organelle host cellular component host intracellular part host cell membrane other organism part host cell cytoplasm part host intracellular organelle host cell endoplasmic reticulum-Golgi intermediate compartment membrane host cell endoplasmic reticulum-Golgi intermediate compartment host cell cytoplasm host cell part host intracellular region viral membrane viral envelope

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR002551	Spike glycoprotein S1, coronavirus	Domain
A, B, C	IPR044874	Spike glycoprotein S2, coronavirus, heptad repeat 2	Domain
A, B, C	IPR044873	Spike glycoprotein S2, coronavirus, heptad repeat 1	Domain
A, B, C	IPR043473	Spike glycoprotein S2 superfamily, coronavirus	Homologous Superfamily
A, B, C	IPR042552	Spike glycoprotein, Alphacoronavirus	Family
A, B, C	IPR043607	Coronavirus spike glycoprotein S1, C-terminal	Domain
A, B, C	IPR002552	Spike glycoprotein S2, coronavirus	Domain