8HC3

SARS-CoV-2 Omicron BA.1 spike trimer (6P) in complex with 2 YB9-258 Fabs (2 RBD up)


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
ASCOP2B SuperfamilyConcanavalin A-like lectins/glucanases8092469 3000120 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyCoronavirus S1 glycoprotein domain C-like8092661 3002615 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyCoronavirus S2 glycoprotein stalk-like8092471 3000282 SCOP2B (2022-06-29)
ASCOP2B SuperfamilySARS coronavirus receptor-binding domain-like8092467 3001706 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyCoronavirus spike S2 glycoprotein connector domain-like8092473 3002562 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyCoronavirus S2 glycoprotein stalk-like8092471 3000282 SCOP2B (2022-06-29)
BSCOP2B SuperfamilySARS coronavirus receptor-binding domain-like8092467 3001706 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyConcanavalin A-like lectins/glucanases8092469 3000120 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyCoronavirus spike S2 glycoprotein connector domain-like8092473 3002562 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyCoronavirus S1 glycoprotein domain C-like8092661 3002615 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyCoronavirus S1 glycoprotein domain C-like8092661 3002615 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyConcanavalin A-like lectins/glucanases8092469 3000120 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyCoronavirus S2 glycoprotein stalk-like8092471 3000282 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyCoronavirus spike S2 glycoprotein connector domain-like8092473 3002562 SCOP2B (2022-06-29)
CSCOP2B 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)
AF_UNCLASSIFIEDe8hc3A1 A: beta sandwichesX: jelly-rollH: Concanavalin A-likeT: Concanavalin A-like lectins/glucanasesF: F_UNCLASSIFIEDECOD (1.6)
AF_UNCLASSIFIEDe8hc3A3 A: beta complex topologyX: Beta domain of coronavirus spike glycoprotein (From Topology)H: Beta domain of coronavirus spike glycoprotein (From Topology)T: Beta domain of coronavirus spike glycoproteinF: F_UNCLASSIFIEDECOD (1.6)
AF_UNCLASSIFIEDe8hc3A2 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: F_UNCLASSIFIEDECOD (1.6)
AF_UNCLASSIFIEDe8hc3A4 A: a+b complex topologyX: S2 subunit of coronavirus spike glycoprotein (From Topology)H: S2 subunit of coronavirus spike glycoprotein (From Topology)T: S2 subunit of coronavirus spike glycoproteinF: F_UNCLASSIFIEDECOD (1.6)
BF_UNCLASSIFIEDe8hc3B4 A: beta sandwichesX: jelly-rollH: Concanavalin A-likeT: Concanavalin A-like lectins/glucanasesF: F_UNCLASSIFIEDECOD (1.6)
BF_UNCLASSIFIEDe8hc3B2 A: beta complex topologyX: Beta domain of coronavirus spike glycoprotein (From Topology)H: Beta domain of coronavirus spike glycoprotein (From Topology)T: Beta domain of coronavirus spike glycoproteinF: F_UNCLASSIFIEDECOD (1.6)
BF_UNCLASSIFIEDe8hc3B3 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: F_UNCLASSIFIEDECOD (1.6)
BF_UNCLASSIFIEDe8hc3B1 A: a+b complex topologyX: S2 subunit of coronavirus spike glycoprotein (From Topology)H: S2 subunit of coronavirus spike glycoprotein (From Topology)T: S2 subunit of coronavirus spike glycoproteinF: F_UNCLASSIFIEDECOD (1.6)
CF_UNCLASSIFIEDe8hc3C2 A: beta sandwichesX: jelly-rollH: Concanavalin A-likeT: Concanavalin A-like lectins/glucanasesF: F_UNCLASSIFIEDECOD (1.6)
CF_UNCLASSIFIEDe8hc3C3 A: beta complex topologyX: Beta domain of coronavirus spike glycoprotein (From Topology)H: Beta domain of coronavirus spike glycoprotein (From Topology)T: Beta domain of coronavirus spike glycoproteinF: F_UNCLASSIFIEDECOD (1.6)
CF_UNCLASSIFIEDe8hc3C1 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: F_UNCLASSIFIEDECOD (1.6)
CF_UNCLASSIFIEDe8hc3C4 A: a+b complex topologyX: S2 subunit of coronavirus spike glycoprotein (From Topology)H: S2 subunit of coronavirus spike glycoprotein (From Topology)T: S2 subunit of coronavirus spike glycoproteinF: F_UNCLASSIFIEDECOD (1.6)
D [auth L]F_UNCLASSIFIEDe8hc3L1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: F_UNCLASSIFIEDECOD (1.6)
F [auth E]F_UNCLASSIFIEDe8hc3E1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: F_UNCLASSIFIEDECOD (1.6)
E [auth H]F_UNCLASSIFIEDe8hc3H2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: F_UNCLASSIFIEDECOD (1.6)
G [auth D]F_UNCLASSIFIEDe8hc3D1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: F_UNCLASSIFIEDECOD (1.6)

SAbDab Antibody Annotation SAbDab Database Homepage

ChainChain ClassChain SubclassChain TypeAntigen Name(s) Provenance Source
D [auth L],
F [auth E]
Light ChainIGKV1 Kappaspike glycoproteinSAbDab (2023-09-15)
E [auth H],
G [auth D]
Heavy ChainIGHV3 -spike glycoproteinSAbDab (2023-09-15)

Gene Product Annotation Gene Product Annotation

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, B, C
Spike glycoprotein
D [auth L],
F [auth E]
Light chain of YB9-258nonenonenone
E [auth H],
G [auth D]
Heavy chain of YB9-258nonenonenone