3J7E | pdb_00003j7e

Electron cryo-microscopy of human papillomavirus 16 and H16.V5 Fab fragments

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)
A [auth L]	V-set	e3j7eL1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
C [auth A]	V-set	e3j7eA1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
E [auth C]	V-set	e3j7eC1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
G [auth E]	V-set	e3j7eE1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
B [auth H]	V-set_8	e3j7eH1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
D [auth B]	V-set_8	e3j7eB1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
F [auth D]	V-set_8	e3j7eD1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
H [auth F]	V-set_8	e3j7eF1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)

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
A [auth L], C [auth A], E [auth C], G [auth E]	H16.V5 Fab	V-KAPPA	Mus musculus (house mouse)	IGKV8-2401, IGKJ501	V-DOMAIN V-KAPPA	IG	FV-HEAVY_KAPPA	IMGT (202510-0)
B [auth H], D [auth B], F [auth D], H [auth F]	H16.V5 Fab	VH	Mus musculus (house mouse)	IGHV1-8701, IGHJ201	V-DOMAIN VH	IG	FV-HEAVY_KAPPA	IMGT (202510-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
A [auth L], C [auth A], E [auth C], G [auth E]	Light Chain	IGKV8	Kappa	-	SAbDab (2025-03-21)
B [auth H], D [auth B], F [auth D], H [auth F]	Heavy Chain	IGHV1	-	-	SAbDab (2025-03-21)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth H], D [auth B], F [auth D], H [auth F]	PF07686	Immunoglobulin V-set domain (V-set)	Immunoglobulin V-set domain	This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth L], C [auth A], E [auth C], G [auth E]	H16.V5 Fab light chain	-	-	-
B [auth H], D [auth B], F [auth D], H [auth F]	H16.V5 Fab heavy chain	-	response to stimulus immune response immune system process adaptive immune response	protein-containing complex immunoglobulin complex cellular anatomical structure extracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth H], D [auth B], F [auth D], H [auth F]	IPR050199	Immunoglobulin Heavy Variable	Family
B [auth H], D [auth B], F [auth D], H [auth F]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
B [auth H], D [auth B], F [auth D], H [auth F]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
B [auth H], D [auth B], F [auth D], H [auth F]	IPR013106	Immunoglobulin V-set domain	Domain
B [auth H], D [auth B], F [auth D], H [auth F]	IPR003599	Immunoglobulin domain subtype	Domain
B [auth H], D [auth B], F [auth D], H [auth F]	IPR007110	Immunoglobulin-like domain	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.