8JN6 | pdb_00008jn6

Cryo-EM structure of the small tail club shape particle of dengue virus serotype 3 strain CH53489 in complex with human antibody DENV-290 Fab at 37 deg C

External Resource: Annotation

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

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
C [auth H]	Heavy Chain	IGHV3	-	polyprotein (fragment)	SAbDab (2025-10-17)
D [auth L]	Light Chain	IGKV2	Kappa	polyprotein (fragment)	SAbDab (2025-10-17)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth C], B [auth E]	PF00869	Flavivirus glycoprotein, central and dimerisation domains (Flavi_glycoprot)	Flavivirus glycoprotein, central and dimerisation domains		Domain
A [auth C], B [auth E]	PF21659	Flavivirus envelope glycoprotein E, stem/anchor domain (Flavi_E_stem)	Flavivirus envelope glycoprotein E, stem/anchor domain	This entry represents the stem/anchor domain found at the C-terminal of envelope glycoprotein E from Flavivirus. This domain comprises a stem region followed by two transmembrane anchor domains [1-5].	Domain
A [auth C], B [auth E]	PF02832	Flavivirus glycoprotein, immunoglobulin-like domain (Flavi_glycop_C)	Flavivirus glycoprotein, immunoglobulin-like domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C [auth H]	Human antibody DENV-290 heavy chain	-	-	-
D [auth L]	Human antibody DENV-290 light chain	-	-	-
A [auth C], B [auth E]	Polyprotein (Fragment)	protein binding binding protein dimerization activity	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 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 import into cell receptor-mediated endocytosis of virus by host cell transport establishment of localization 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 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 import into cell receptor-mediated endocytosis of virus by host cell transport establishment of localization vesicle-mediated transport localization symbiont entry into host cell clathrin-dependent endocytosis symbiont entry into host cellular process clathrin-dependent endocytosis of virus by host cell receptor-mediated endocytosis endocytosis endocytosis involved in viral entry into host cell symbiont-mediated perturbation of host defense response symbiont-mediated suppression of host immune response symbiont-mediated suppression of host innate immune response symbiont-mediated perturbation of host process symbiont-mediated perturbation of host immune response symbiont-mediated perturbation of host innate immune response modulation of process of another organism	cellular anatomical structure membrane virion component virion membrane extracellular region host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum host cell membrane other organism part host cell cytoplasm part host intracellular organelle host cell cytoplasm cellular anatomical structure membrane virion component virion membrane extracellular region host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum host cell membrane other organism part host cell cytoplasm part host intracellular organelle host cell cytoplasm host cell part host cell endomembrane system host intracellular region host cell endoplasmic reticulum membrane viral membrane viral envelope

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth C], B [auth E]	IPR038345	Flavivirus envelope glycoprotein E, Stem/Anchor domain superfamily	Homologous Superfamily
A [auth C], B [auth E]	IPR038688	Flavivirus polyprotein propeptide superfamily	Homologous Superfamily
A [auth C], B [auth E]	IPR026470	Flavivirus envelope glycoprotein E, Stem/Anchor domain	Domain
A [auth C], B [auth E]	IPR011998	Envelope glycoprotein E, central and dimerisation domain, flavivirus	Domain
A [auth C], B [auth E]	IPR013755	Flaviviral glycoprotein E, central domain, subdomain 1	Homologous Superfamily
A [auth C], B [auth E]	IPR038055	Flaviviral glycoprotein E, dimerisation domain	Homologous Superfamily
A [auth C], B [auth E]	IPR014756	Immunoglobulin E-set	Homologous Superfamily
A [auth C], B [auth E]	IPR027287	Glycoprotein E, immunoglobulin-like domain, flavivirus	Domain
A [auth C], B [auth E]	IPR013756	Flaviviral glycoprotein E, central domain, subdomain 2	Homologous Superfamily
A [auth C], B [auth E]	IPR000336	Flavivirus/Alphavirus glycoprotein, immunoglobulin-like domain superfamily	Homologous Superfamily
A [auth C], B [auth E]	IPR038302	Envelope glycoprotein M superfamily, flavivirus	Homologous Superfamily
A [auth C], B [auth E]	IPR002535	Flavivirus polyprotein propeptide	Domain
A [auth C], B [auth E]	IPR036253	Flavivirus glycoprotein, central and dimerisation domain superfamily	Homologous Superfamily
A [auth C], B [auth E]	IPR000069	Envelope glycoprotein M, flavivirus	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.