4HDI | pdb_00004hdi

Crystal Structure of 3E5 IgG3 FAB from mus musculus

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
C [auth A]	d4hdia1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C [auth A]	d4hdia2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A [auth L]	d4hdil1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A [auth L]	d4hdil2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D [auth B]	Rrf2	e4hdiB1	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: Rrf2	ECOD (v294.1)
B [auth H]	ADH_zinc_N	e4hdiH1	A: a/b three-layered sandwiches	X: LidA	H: LidA	T: LidA	F: ADH_zinc_N	ECOD (v294.1)
C [auth A]	RRM_1	e4hdiA1	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: RRM_1	ECOD (v294.1)
A [auth L]	ADH_zinc_N	e4hdiL1	A: a/b three-layered sandwiches	X: LidA	H: LidA	T: LidA	F: ADH_zinc_N	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth B]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
B [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
C [auth A]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
A [auth L]	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
B [auth H], D [auth B]	FAB-GAMMA-3_KAPPA	VH-CH1	Mus musculus (house mouse)	IGHV5-6-201, IGHJ201, IGHG3*01	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-3_KAPPA	IMGT (202611-0)
A [auth L], C [auth A]	FAB-GAMMA-3_KAPPA	L-KAPPA	Mus musculus (house mouse)	IGKV1-11001, IGKJ101, IGKJ102, IGKC01, IGKC*02	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-3_KAPPA	IMGT (202611-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth H], D [auth B]	Heavy Chain	IGHV5	-	-	SAbDab (2026-03-27)
A [auth L], C [auth A]	Light Chain	IGKV1	Kappa	-	SAbDab (2026-03-27)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth H], D [auth B]	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
B [auth H], D [auth B]	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
B [auth H], D [auth B]	Ig heavy chain V region RF, Ig gamma-3 chain C region	binding antigen binding	adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity response to stimulus immune response immune system process B cell mediated immunity leukocyte mediated immunity immunoglobulin mediated immune response adaptive immune response immune effector process	protein-containing complex immunoglobulin complex cellular anatomical structure extracellular region
A [auth L], C [auth A]	Kappa light chain variable region, Anti-colorectal carcinoma light chain	cation binding ion binding binding metal ion binding small molecule binding	response to stimulus immune response immune system process adaptive immune response	cellular anatomical structure extracellular region cell periphery plasma membrane membrane protein-containing complex immunoglobulin complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth H], D [auth B]	IPR003597	Immunoglobulin C1-set	Domain
B [auth H], D [auth B]	IPR050199	Immunoglobulin Heavy Variable	Family
B [auth H], D [auth B]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
B [auth H], D [auth B]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
B [auth H], D [auth B]	IPR013106	Immunoglobulin V-set domain	Domain
B [auth H], D [auth B]	IPR003599	Immunoglobulin domain subtype	Domain
B [auth H], D [auth B]	IPR007110	Immunoglobulin-like domain	Domain
A [auth L], C [auth A]	IPR050150	Immunoglobulin Variable Light Chain	Family
A [auth L], C [auth A]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A [auth L], C [auth A]	IPR003597	Immunoglobulin C1-set	Domain
A [auth L], C [auth A]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A [auth L], C [auth A]	IPR013106	Immunoglobulin V-set domain	Domain
A [auth L], C [auth A]	IPR003599	Immunoglobulin domain subtype	Domain
A [auth L], C [auth A]	IPR007110	Immunoglobulin-like domain	Domain
A [auth L], C [auth A]	IPR003006	Immunoglobulin/major histocompatibility complex, conserved site	Conserved Site

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.