6B7N

Cryo-electron microscopy structure of porcine delta coronavirus spike protein in the pre-fusion state

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)
A	SCOP2 Family	Coronavirus spike S2 glycoprotein connector domain-like	8092603	4007763	SCOP2 (2022-06-29)
A	SCOP2 Family	Coronavirus S1 glycoprotein domain C-like	8092708	4007778	SCOP2 (2022-06-29)
A	SCOP2 Family	Coronavirus S1 glycoprotein domain D-like	8092710	4007779	SCOP2 (2022-06-29)
A	SCOP2 Family	Coronavirus spike S1 glycoprotein N-terminal domain-like	8092599	4004563	SCOP2 (2022-06-29)
A	SCOP2 Family	Coronavirus S2 glycoprotein stalk-like	8092601	4003119	SCOP2 (2022-06-29)
A	SCOP2 Family	HCov-NL63 receptor-binding domain-like	8092597	4006418	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Coronavirus spike S2 glycoprotein connector domain-like	8092604	3002562	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Coronavirus S1 glycoprotein domain C-like	8092709	3002615	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Coronavirus S1 glycoprotein domain D-like	8092711	3002616	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Concanavalin A-like lectins/glucanases	8092600	3000120	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Coronavirus S2 glycoprotein stalk-like	8092602	3000282	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	SARS coronavirus receptor-binding domain-like	8092598	3001706	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Coronavirus spike S2 glycoprotein connector domain-like	8092604	3002562	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	SARS coronavirus receptor-binding domain-like	8092598	3001706	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Coronavirus S2 glycoprotein stalk-like	8092602	3000282	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8092600	3000120	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Coronavirus S1 glycoprotein domain D-like	8092711	3002616	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Coronavirus S1 glycoprotein domain C-like	8092709	3002615	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Coronavirus S2 glycoprotein stalk-like	8092602	3000282	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Coronavirus spike S2 glycoprotein connector domain-like	8092604	3002562	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8092600	3000120	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Coronavirus S1 glycoprotein domain C-like	8092709	3002615	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Coronavirus S1 glycoprotein domain D-like	8092711	3002616	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	SARS coronavirus receptor-binding domain-like	8092598	3001706	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	PF01600	e6b7nA1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Concanavalin A-like lectins/glucanases	F: PF01600	ECOD (1.6)
A	PF19209	e6b7nA3	A: beta complex topology	X: Beta domain of coronavirus spike glycoprotein (From Topology)	H: Beta domain of coronavirus spike glycoprotein (From Topology)	T: Beta domain of coronavirus spike glycoprotein	F: PF19209	ECOD (1.6)
A	PF01600	e6b7nA2	A: a+b three layers	X: Coronavirus spike protein receptor-binding domain (From Homology)	H: Coronavirus spike protein receptor-binding domain	T: Alpha-coronavirus spike protein receptor-binding domain	F: PF01600	ECOD (1.6)
A	PF01601	e6b7nA4	A: a+b complex topology	X: S2 subunit of coronavirus spike glycoprotein (From Topology)	H: S2 subunit of coronavirus spike glycoprotein (From Topology)	T: S2 subunit of coronavirus spike glycoprotein	F: PF01601	ECOD (1.6)
B	PF01600	e6b7nB3	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Concanavalin A-like lectins/glucanases	F: PF01600	ECOD (1.6)
B	PF19209	e6b7nB2	A: beta complex topology	X: Beta domain of coronavirus spike glycoprotein (From Topology)	H: Beta domain of coronavirus spike glycoprotein (From Topology)	T: Beta domain of coronavirus spike glycoprotein	F: PF19209	ECOD (1.6)
B	PF01600	e6b7nB4	A: a+b three layers	X: Coronavirus spike protein receptor-binding domain (From Homology)	H: Coronavirus spike protein receptor-binding domain	T: Alpha-coronavirus spike protein receptor-binding domain	F: PF01600	ECOD (1.6)
B	PF01601	e6b7nB1	A: a+b complex topology	X: S2 subunit of coronavirus spike glycoprotein (From Topology)	H: S2 subunit of coronavirus spike glycoprotein (From Topology)	T: S2 subunit of coronavirus spike glycoprotein	F: PF01601	ECOD (1.6)
C	PF01600	e6b7nC3	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Concanavalin A-like lectins/glucanases	F: PF01600	ECOD (1.6)
C	PF19209	e6b7nC2	A: beta complex topology	X: Beta domain of coronavirus spike glycoprotein (From Topology)	H: Beta domain of coronavirus spike glycoprotein (From Topology)	T: Beta domain of coronavirus spike glycoprotein	F: PF19209	ECOD (1.6)
C	PF01600	e6b7nC4	A: a+b three layers	X: Coronavirus spike protein receptor-binding domain (From Homology)	H: Coronavirus spike protein receptor-binding domain	T: Alpha-coronavirus spike protein receptor-binding domain	F: PF01600	ECOD (1.6)
C	PF01601	e6b7nC1	A: a+b complex topology	X: S2 subunit of coronavirus spike glycoprotein (From Topology)	H: S2 subunit of coronavirus spike glycoprotein (From Topology)	T: S2 subunit of coronavirus spike glycoprotein	F: PF01601	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF01601	Coronavirus spike glycoprotein S2 (CoV_S2)	Coronavirus spike glycoprotein S2	-	Family
A, B, C	PF01600	Coronavirus spike glycoprotein S1 (CoV_S1)	Coronavirus spike glycoprotein S1	-	Family
A, B, C	PF19209	Coronavirus spike glycoprotein S1, C-terminal (CoV_S1_C)	Coronavirus spike glycoprotein S1, C-terminal	This entry represents a domain found at the C-terminus of the Coronavirus S1 protein. It is found across a range of alpha, beta and gamma coronaviruses. This small all beta stranded domain is known as subdomain 2 in the structure of the porcine epide ...	This entry represents a domain found at the C-terminus of the Coronavirus S1 protein. It is found across a range of alpha, beta and gamma coronaviruses. This small all beta stranded domain is known as subdomain 2 in the structure of the porcine epidemic diarrhea virus spike protein [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	Spike protein	-	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 import into cell transport establishment of localization vesicle-mediated transport localization symbiont entry into host cell symbiont entry into host endocytosis involved in viral entry into host cell endocytosis transport of virus	membrane cellular anatomical entity virion component virion membrane host cellular component host cell part host cell membrane 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	IPR043614	Spike glycoprotein S2, coronavirus, C-terminal	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	IPR043607	Coronavirus spike glycoprotein S1, C-terminal	Domain
A, B, C	IPR002552	Spike glycoprotein S2, coronavirus	Domain