7VN9 | pdb_00007vn9

Crystal structure of human coronavirus 229E spike protein receptor-binding domain in complex with C04 Fab

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
SAbDab Antibody 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)
F [auth C]	SCOP2B Superfamily	SARS coronavirus receptor-binding domain-like	8084629	3001706	SCOP2B (2022-06-29)
C [auth E]	SCOP2B Superfamily	SARS coronavirus receptor-binding domain-like	8084629	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)
E [auth B]	PH	e7vn9B1	A: a/b three-layered sandwiches	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: PH	ECOD (v294.1)
B [auth L]	PH	e7vn9L1	A: a/b three-layered sandwiches	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: PH	ECOD (v294.1)
F [auth C]	PH	e7vn9C1	A: a/b three-layered sandwiches	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: PH	ECOD (v294.1)
C [auth E]	PH	e7vn9E1	A: a/b three-layered sandwiches	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: PH	ECOD (v294.1)
D [auth A]	PH	e7vn9A1	A: a/b three-layered sandwiches	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: PH	ECOD (v294.1)
A [auth H]	PH	e7vn9H1	A: a/b three-layered sandwiches	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: PH	ECOD (v294.1)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth L], E [auth B]	Light Chain	IGKV1	Kappa	spike glycoprotein s1	SAbDab (2026-03-27)
A [auth H], D [auth A]	Heavy Chain	IGHV3	-	spike glycoprotein s1	SAbDab (2026-03-27)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth L], E [auth B]	C04 Fab light chain	-	-	-
C [auth E], F [auth C]	Spike glycoprotein S1	-	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 host intracellular membrane-bounded organelle host cellular component host intracellular part host cell membrane other organism part host cell cytoplasm part host intracellular organelle host cell endoplasmic reticulum-Golgi intermediate compartment membrane host cell endoplasmic reticulum-Golgi intermediate compartment host cell cytoplasm cellular anatomical structure membrane virion component virion membrane host intracellular membrane-bounded organelle host cellular component host intracellular part host cell membrane other organism part host cell cytoplasm part host intracellular organelle host cell endoplasmic reticulum-Golgi intermediate compartment membrane host cell endoplasmic reticulum-Golgi intermediate compartment host cell cytoplasm host cell part host intracellular region viral membrane viral envelope
A [auth H], D [auth A]	C04 Fab heavy chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth E], F [auth C]	IPR002551	Spike glycoprotein S1, coronavirus	Domain
C [auth E], F [auth C]	IPR044874	Spike glycoprotein S2, coronavirus, heptad repeat 2	Domain
C [auth E], F [auth C]	IPR043614	Spike glycoprotein S2, coronavirus, C-terminal	Domain
C [auth E], F [auth C]	IPR044873	Spike glycoprotein S2, coronavirus, heptad repeat 1	Domain
C [auth E], F [auth C]	IPR043473	Spike glycoprotein S2 superfamily, coronavirus	Homologous Superfamily
C [auth E], F [auth C]	IPR042552	Spike glycoprotein, Alphacoronavirus	Family
C [auth E], F [auth C]	IPR043607	Coronavirus spike glycoprotein S1, C-terminal	Domain
C [auth E], F [auth C]	IPR002552	Spike glycoprotein S2, coronavirus	Domain

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.