Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
A [auth AAA]SCOP2B SuperfamilySARS coronavirus receptor-binding domain-like8092467 3001706 SCOP2B (2022-06-29)
C [auth CCC]SCOP2B SuperfamilySARS coronavirus receptor-binding domain-like8092467 3001706 SCOP2B (2022-06-29)
E [auth EEE]SCOP2B SuperfamilySARS coronavirus receptor-binding domain-like8092467 3001706 SCOP2B (2022-06-29)
G [auth GGG]SCOP2B SuperfamilySARS coronavirus receptor-binding domain-like8092467 3001706 SCOP2B (2022-06-29)
I [auth III]SCOP2B SuperfamilySARS coronavirus receptor-binding domain-like8092467 3001706 SCOP2B (2022-06-29)
K [auth KKK]SCOP2B SuperfamilySARS coronavirus receptor-binding domain-like8092467 3001706 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
A [auth AAA]PF09408e7oayAAA1 A: a+b three layersX: Coronavirus spike protein receptor-binding domain (From Homology)H: Coronavirus spike protein receptor-binding domainT: Beta-coronavirus spike protein receptor-binding domainF: PF09408ECOD (1.6)
C [auth CCC]PF09408e7oayCCC1 A: a+b three layersX: Coronavirus spike protein receptor-binding domain (From Homology)H: Coronavirus spike protein receptor-binding domainT: Beta-coronavirus spike protein receptor-binding domainF: PF09408ECOD (1.6)
E [auth EEE]PF09408e7oayEEE1 A: a+b three layersX: Coronavirus spike protein receptor-binding domain (From Homology)H: Coronavirus spike protein receptor-binding domainT: Beta-coronavirus spike protein receptor-binding domainF: PF09408ECOD (1.6)
G [auth GGG]PF09408e7oayGGG1 A: a+b three layersX: Coronavirus spike protein receptor-binding domain (From Homology)H: Coronavirus spike protein receptor-binding domainT: Beta-coronavirus spike protein receptor-binding domainF: PF09408ECOD (1.6)
I [auth III]PF09408e7oayIII1 A: a+b three layersX: Coronavirus spike protein receptor-binding domain (From Homology)H: Coronavirus spike protein receptor-binding domainT: Beta-coronavirus spike protein receptor-binding domainF: PF09408ECOD (1.6)
K [auth KKK]PF09408e7oayKKK1 A: a+b three layersX: Coronavirus spike protein receptor-binding domain (From Homology)H: Coronavirus spike protein receptor-binding domainT: Beta-coronavirus spike protein receptor-binding domainF: PF09408ECOD (1.6)
B [auth BBB]PF07686e7oayBBB1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07686ECOD (1.6)
D [auth DDD]PF07686e7oayDDD1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07686ECOD (1.6)
F [auth FFF]PF07686e7oayFFF1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07686ECOD (1.6)
H [auth HHH]PF07686e7oayHHH1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07686ECOD (1.6)
J [auth JJJ]PF07686e7oayJJJ1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07686ECOD (1.6)
L [auth LLL]PF07686e7oayLLL1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PF07686ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
PF09408Betacoronavirus spike glycoprotein S1, receptor binding (bCoV_S1_RBD)Betacoronavirus spike glycoprotein S1, receptor bindingThis entry represents the receptor binding domain (S1 RBD) of the betacoronavirus spike glycoprotein. The spike glycoprotein is arranged in trimers on the surface of the viral membrane and is essential for viral entry. The spike protein is transla ...This entry represents the receptor binding domain (S1 RBD) of the betacoronavirus spike glycoprotein. The spike glycoprotein is arranged in trimers on the surface of the viral membrane and is essential for viral entry. The spike protein is translated as a large polypeptide that is subsequently cleaved to the distal S1, responsible for receptor binding, and the membrane-anchored S2 responsible for membrane fusion [1]. The coronavirus (SARS-CoV) S1 subunit is composed of two distinct domains: an N-terminal domain (S1 NTD) and a receptor-binding domain (S1 RBD) also referred to as the S1 CTD or domain B. Each of these domains have been implicated in binding to host receptors. However, most coronaviruses are not known to utilise both the S1 NTD and S1 RBD for viral entry [2]. SARS-CoV makes use of its S1 RBD to bind to the human angiotensin-converting enzyme 2 (ACE2) as its host receptor [3,4].
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
Spike protein S1
F2 nanobody---

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
IPR044873Spike glycoprotein S2, coronavirus, heptad repeat 1Domain
IPR044366Spike (S) protein S1 subunit, receptor-binding domain, SARS-CoV-2Domain
IPR018548Spike (S) protein S1 subunit, receptor-binding domain, betacoronavirusDomain
IPR044341Spike (S) protein S1 subunit, N-terminal domain, SARS-CoV-likeDomain
IPR032500Spike glycoprotein S1, N-terminal domain, betacoronavirus-likeDomain
IPR042578Spike glycoprotein, betacoronavirusFamily
IPR036326Spike S1 subunit, receptor binding domain superfamily, betacoronavirusHomologous Superfamily
IPR043002Spike glycoprotein, N-terminal domain superfamilyHomologous Superfamily
IPR044874Spike glycoprotein S2, coronavirus, heptad repeat 2Domain
IPR043473Spike glycoprotein S2 superfamily, coronavirusHomologous Superfamily
IPR043607Coronavirus spike glycoprotein S1, C-terminalDomain
IPR002552Spike glycoprotein S2, coronavirusDomain