5SZS | pdb_00005szs

Glycan shield and epitope masking of a coronavirus spike protein observed by cryo-electron microscopy

External Resource: Annotation


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
CSCOP2B SuperfamilyCoronavirus S1 glycoprotein, domain D-like 8092699 3002616 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyConcanavalin A-like lectins/glucanases 8092693 3000120 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyCoronavirus S1 glycoprotein, domain C-like 8092697 3002615 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyCoronavirus spike S2 glycoprotein connector domain-like 8092703 3002562 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyCoronavirus S2 glycoprotein stalk-like 8092701 3000282 SCOP2B (2022-06-29)
CSCOP2B SuperfamilySARS coronavirus receptor-binding domain-like 8053550 3001706 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyConcanavalin A-like lectins/glucanases 8092695 3000120 SCOP2B (2022-06-29)
BSCOP2 FamilyHCov-NL63 receptor-binding domain-like 8049253 4006418 SCOP2 (2022-06-29)
BSCOP2 FamilyCoronavirus spike S1 glycoprotein N-terminal domain-like 8092692 4004563 SCOP2 (2022-06-29)
BSCOP2 FamilyCoronavirus spike S1 glycoprotein N-terminal domain-like 8092694 4004563 SCOP2 (2022-06-29)
BSCOP2 FamilyCoronavirus S1 glycoprotein, domain C-like 8092696 4007778 SCOP2 (2022-06-29)
BSCOP2 FamilyCoronavirus S1 glycoprotein, domain D-like 8092698 4007779 SCOP2 (2022-06-29)
BSCOP2 FamilyCoronavirus S2 glycoprotein stalk-like 8092700 4003119 SCOP2 (2022-06-29)
BSCOP2 FamilyCoronavirus spike S2 glycoprotein connector domain-like 8092702 4007763 SCOP2 (2022-06-29)
BSCOP2 SuperfamilySARS coronavirus receptor-binding domain-like 8053550 3001706 SCOP2 (2022-06-29)
BSCOP2 SuperfamilyConcanavalin A-like lectins/glucanases 8092693 3000120 SCOP2 (2022-06-29)
BSCOP2 SuperfamilyConcanavalin A-like lectins/glucanases 8092695 3000120 SCOP2 (2022-06-29)
BSCOP2 SuperfamilyCoronavirus S1 glycoprotein, domain C-like 8092697 3002615 SCOP2 (2022-06-29)
BSCOP2 SuperfamilyCoronavirus S1 glycoprotein, domain D-like 8092699 3002616 SCOP2 (2022-06-29)
BSCOP2 SuperfamilyCoronavirus S2 glycoprotein stalk-like 8092701 3000282 SCOP2 (2022-06-29)
BSCOP2 SuperfamilyCoronavirus spike S2 glycoprotein connector domain-like 8092703 3002562 SCOP2 (2022-06-29)
ASCOP2B SuperfamilyCoronavirus S1 glycoprotein, domain C-like 8092697 3002615 SCOP2B (2022-06-29)
ASCOP2B SuperfamilySARS coronavirus receptor-binding domain-like 8053550 3001706 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyConcanavalin A-like lectins/glucanases 8092695 3000120 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyCoronavirus S1 glycoprotein, domain D-like 8092699 3002616 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyCoronavirus S2 glycoprotein stalk-like 8092701 3000282 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyCoronavirus spike S2 glycoprotein connector domain-like 8092703 3002562 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyConcanavalin A-like lectins/glucanases 8092693 3000120 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
Ce5szsC1 A: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4X: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4H: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4T: euk_SelB_IIIF:ECOD (20:10:01)
Be5szsB1 A: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4X: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4H: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4T: euk_SelB_IIIF:ECOD (20:10:01)
Ae5szsA1 A: ALDH-likeX: S2 subunit of coronavirus spike glycoproteinH: S2 subunit of coronavirus spike glycoproteinT: CoV_S2F:ECOD (20:10:01)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, B, C
PF01601Coronavirus spike glycoprotein S2 (CoV_S2)Coronavirus spike glycoprotein S2- Family
A, B, C
PF01600Coronavirus spike glycoprotein S1 (CoV_S1)Coronavirus spike glycoprotein S1- Family
A, B, C
PF19209Coronavirus spike glycoprotein S1, C-terminal (CoV_S1_C)Coronavirus spike glycoprotein S1, C-terminalThis 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

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, B, C
Spike glycoprotein

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, B, C
IPR002551Spike glycoprotein S1, coronavirusDomain
A, B, C
IPR044874Spike glycoprotein S2, coronavirus, heptad repeat 2Domain
A, B, C
IPR043614Spike glycoprotein S2, coronavirus, C-terminalDomain
A, B, C
IPR044873Spike glycoprotein S2, coronavirus, heptad repeat 1Domain
A, B, C
IPR043473Spike glycoprotein S2 superfamily, coronavirusHomologous Superfamily
A, B, C
IPR042552Spike glycoprotein, AlphacoronavirusFamily
A, B, C
IPR043607Coronavirus spike glycoprotein S1, C-terminalDomain
A, B, C
IPR002552Spike glycoprotein S2, coronavirusDomain