Annotations: 9DF0

PDCoV S RBD bound to PD41 Fab (local refinement)

External Resource: Annotation

Domain Annotation: ECOD Classification
SAbDab Antibody Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	WD40	e9df0A1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: WD40	ECOD (v295)
B [auth H]	WD40	e9df0H1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: WD40	ECOD (v295)
C [auth L]	TRIF-NTD	e9df0L01	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: TRIF-NTD	ECOD (v295)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth H]	Heavy Chain	IGHV4	-	spike glycoprotein	SAbDab (2026-06-26)
C [auth L]	Light Chain	IGLV2	Lambda	spike glycoprotein	SAbDab (2026-06-26)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	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 viral membrane viral envelope
B [auth H]	PD41 Fab variable heavy-chain	-	-	-
C [auth L]	PD41 Fab variable light-chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR002551	Spike glycoprotein S1, coronavirus	Domain
A	IPR044874	Spike glycoprotein S2, coronavirus, heptad repeat 2	Domain
A	IPR043614	Spike glycoprotein S2, coronavirus, C-terminal	Domain
A	IPR044873	Spike glycoprotein S2, coronavirus, heptad repeat 1	Domain
A	IPR043473	Spike glycoprotein S2 superfamily, coronavirus	Homologous Superfamily
A	IPR043607	Coronavirus spike glycoprotein S1, C-terminal	Domain
A	IPR002552	Spike glycoprotein S2, coronavirus	Domain

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.

9DF0 | pdb_00009df0

PDCoV S RBD bound to PD41 Fab (local refinement)

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

SAbDab Antibody Annotation SAbDab Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage