4WHY | pdb_00004why

Structure of the Hepatitis C virus envelope glycoprotein E2 antigenic region 412-423 bound to the broadly neutralizing antibody 3/11, P21 crystal form

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
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)
F [auth H]	Glyco_hydro_3	e4whyH1	A: a/b three-layered sandwiches	X: CCHC-type 1 zinc finger	H: Retrovirus zinc finger-related domains	T: Retrovirus zinc finger-related domains	F: Glyco_hydro_3	ECOD (v294.1)
H [auth J]	Glyco_hydro_3	e4whyJ1	A: a/b three-layered sandwiches	X: CCHC-type 1 zinc finger	H: Retrovirus zinc finger-related domains	T: Retrovirus zinc finger-related domains	F: Glyco_hydro_3	ECOD (v294.1)
J [auth L]	Glyco_hydro_3	e4whyL1	A: a/b three-layered sandwiches	X: CCHC-type 1 zinc finger	H: Retrovirus zinc finger-related domains	T: Retrovirus zinc finger-related domains	F: Glyco_hydro_3	ECOD (v294.1)
L [auth N]	Glyco_hydro_3	e4whyN1	A: a/b three-layered sandwiches	X: CCHC-type 1 zinc finger	H: Retrovirus zinc finger-related domains	T: Retrovirus zinc finger-related domains	F: Glyco_hydro_3	ECOD (v294.1)
E [auth G]	Glyco_hydro_3	e4whyG1	A: a/b three-layered sandwiches	X: CCHC-type 1 zinc finger	H: Retrovirus zinc finger-related domains	T: Retrovirus zinc finger-related domains	F: Glyco_hydro_3	ECOD (v294.1)
G [auth I]	Glyco_hydro_3	e4whyI1	A: a/b three-layered sandwiches	X: CCHC-type 1 zinc finger	H: Retrovirus zinc finger-related domains	T: Retrovirus zinc finger-related domains	F: Glyco_hydro_3	ECOD (v294.1)
I [auth K]	Glyco_hydro_3	e4whyK1	A: a/b three-layered sandwiches	X: CCHC-type 1 zinc finger	H: Retrovirus zinc finger-related domains	T: Retrovirus zinc finger-related domains	F: Glyco_hydro_3	ECOD (v294.1)
K [auth M]	Glyco_hydro_3	e4whyM1	A: a/b three-layered sandwiches	X: CCHC-type 1 zinc finger	H: Retrovirus zinc finger-related domains	T: Retrovirus zinc finger-related domains	F: Glyco_hydro_3	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
H [auth J]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
J [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
L [auth N]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
E [auth G]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
G [auth I]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
I [auth K]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
K [auth M]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)

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
F [auth H], H [auth J], J [auth L], L [auth N]	neutralizing	L-KAPPA	Rattus norvegicus (Norway rat)	IGKV2S2501, IGKJ2-301, IGKJ2-101, IGKJ2-201, IGKC*01	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202611-0)
E [auth G], G [auth I], I [auth K], K [auth M]	neutralizing	VH-CH1	Rattus norvegicus (Norway rat)	IGHV5-2001, IGHJ201, IGHJ401, IGHG101	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202611-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
F [auth H], H [auth J], J [auth L], L [auth N]	Light Chain	IGKV2	Kappa	epitope peptide	SAbDab (2026-03-27)
E [auth G], G [auth I], I [auth K], K [auth M]	Heavy Chain	IGHV5	-	epitope peptide	SAbDab (2026-03-27)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
F [auth H], H [auth J], J [auth L], L [auth N]	Light chain of Fab fragment derived from neutralizing antibody 3/11	-	-	-
E [auth G], G [auth I], I [auth K], K [auth M]	Heavy chain of Fab fragment derived from neutralizing antibody 3/11	-	-	-
A, B, C, D	epitope peptide	-	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 symbiont entry into host cell symbiont entry into host	host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host cell lipid droplet host intracellular region other organism part host cell cytoplasm part host intracellular membrane-bounded organelle host cell endoplasmic reticulum host cell membrane host intracellular organelle host cell endomembrane system host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host cell lipid droplet host intracellular region other organism part host cell cytoplasm part host intracellular membrane-bounded organelle host cell endoplasmic reticulum host cell membrane host intracellular organelle host cell endomembrane system host cell endoplasmic reticulum membrane virion component viral membrane viral envelope virion membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR002519	Hepatitis C virus, Envelope glycoprotein E1	Domain
A, B, C, D	IPR002531	Hepatitis C virus, Non-structural protein E2/NS1	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.

Prepare Data

Validate Data

Deposit Data

Help and Resources

.id_divider{ color: #ccc; padding: 0 10px 0 10px; } .extended_id_info{ color: #ccc; font-size: 18px; position: relative; top: -10px; left: 4px; } 4WHY | pdb_00004why