2R6P | pdb_00002r6p

Fit of E protein and Fab 1A1D-2 into 24 angstrom resolution cryoEM map of Fab complexed with dengue 2 virus.

External Resource: Annotation

Domain Annotation: ECOD Classification
IMGT Antibody Annotation
SAbDab Antibody Annotation
Protein Family 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)
G		e2r6pG1	A: HTH	X: HTH	H: tetra-helical, lambda repressor-like	T: Abhydrolase_1	F:	ECOD (20:10:01)
E		e2r6pE1	A: HTH	X: HTH	H: tetra-helical, lambda repressor-like	T: Abhydrolase_1	F:	ECOD (20:10:01)
D		e2r6pD1	A: HTH	X: HTH	H: tetra-helical, lambda repressor-like	T: Abhydrolase_1	F:	ECOD (20:10:01)
F		e2r6pF1	A: HTH	X: HTH	H: tetra-helical, lambda repressor-like	T: Abhydrolase_1	F:	ECOD (20:10:01)
C		e2r6pC1	A: HTH	X: HTH	H: tetra-helical, lambda repressor-like	T: Abhydrolase_1	F:	ECOD (20:10:01)
B		e2r6pB1	A: HTH	X: HTH	H: tetra-helical, lambda repressor-like	T: Abhydrolase_1	F:	ECOD (20:10:01)
A		e2r6pA1	A: HTH	X: HTH	H: tetra-helical, lambda repressor-like	T: Abhydrolase_1	F:	ECOD (20:10:01)

IMGT Antibody Annotation IMGT Database Homepage

Chain	Protein Name	Description	Organism Name	Gene Allele Name(s)	Domain Name(s)	Receptor Type	Receptor Description	Provenance Source
E, G	Fab 1A1D-2	L-KAPPA	Mus musculus (house mouse)	IGKV3-501, IGKJ102, IGKC01, IGKC02	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202609-0)
D, F	Fab 1A1D-2	VH-CH1	Mus musculus (house mouse)	IGHV14-302, IGHJ301, IGHG1*02	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202609-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
E, G	Light Chain	IGKV3	Kappa	major envelope protein e	SAbDab (2026-03-13)
D, F	Heavy Chain	IGHV14	-	major envelope protein e	SAbDab (2026-03-13)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
D, F	PF07654	Immunoglobulin C1-set domain (C1-set)	Immunoglobulin C1-set domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E, G	Light chain of 1A1D-2	-	-	-
D, F	Heavy chain of 1A1D-2	protein-containing complex binding protein binding binding signaling receptor binding immunoglobulin receptor binding Fc-gamma receptor I complex binding antigen binding	adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity humoral immune response response to stimulus positive regulation of biological process positive regulation of response to stimulus complement activation humoral immune response mediated by circulating immunoglobulin positive regulation of immune response leukocyte mediated immunity regulation of immune system process positive regulation of immune system process complement activation, classical pathway regulation of biological process adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity humoral immune response response to stimulus positive regulation of biological process positive regulation of response to stimulus complement activation humoral immune response mediated by circulating immunoglobulin positive regulation of immune response leukocyte mediated immunity regulation of immune system process positive regulation of immune system process complement activation, classical pathway regulation of biological process immune response biological regulation immunoglobulin mediated immune response adaptive immune response immune effector process regulation of response to stimulus immune system process B cell mediated immunity regulation of immune response activation of immune response biological process involved in interspecies interaction between organisms response to other organism defense response antibacterial humoral response defense response to symbiont response to external stimulus antimicrobial humoral response response to biotic stimulus defense response to bacterium defense response to other organism response to stress response to bacterium response to external biotic stimulus	protein-containing complex cellular anatomical structure extracellular region extracellular space immunoglobulin complex, circulating immunoglobulin complex IgG immunoglobulin complex
A, B, C	Major envelope protein E	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	virion component virion membrane 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 cellular anatomical structure host cell cytoplasm host cell part host cell endomembrane system virion component virion membrane 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 cellular anatomical structure 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
D, F	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
D, F	IPR050380	Immune Recognition and Response Modulators	Family
D, F	IPR003597	Immunoglobulin C1-set	Domain
D, F	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
D, F	IPR007110	Immunoglobulin-like domain	Domain
D, F	IPR003006	Immunoglobulin/major histocompatibility complex, conserved site	Conserved Site
A, B, C	IPR038345	Flavivirus envelope glycoprotein E, Stem/Anchor domain superfamily	Homologous Superfamily
A, B, C	IPR026470	Flavivirus envelope glycoprotein E, Stem/Anchor domain	Domain
A, B, C	IPR011998	Envelope glycoprotein E, central and dimerisation domain, flavivirus	Domain
A, B, C	IPR013755	Flaviviral glycoprotein E, central domain, subdomain 1	Homologous Superfamily
A, B, C	IPR038055	Flaviviral glycoprotein E, dimerisation domain	Homologous Superfamily
A, B, C	IPR014756	Immunoglobulin E-set	Homologous Superfamily
A, B, C	IPR027287	Glycoprotein E, immunoglobulin-like domain, flavivirus	Domain
A, B, C	IPR013756	Flaviviral glycoprotein E, central domain, subdomain 2	Homologous Superfamily
A, B, C	IPR000336	Flavivirus/Alphavirus glycoprotein, immunoglobulin-like domain superfamily	Homologous Superfamily
A, B, C	IPR036253	Flavivirus glycoprotein, central and dimerisation domain superfamily	Homologous Superfamily

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.