4K3E | pdb_00004k3e

Crystal structure of bovine antibody BLV5B8 with ultralong CDR H3

External Resource: Annotation

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D [auth M]	d4k3em1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	bovine (Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
B [auth L]	d4k3el1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	bovine (Bos taurus ) [TaxId: 9913 ],	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 M]		e4k3eM1	A: PBZ domain	X: PBZ domain	H: PBZ domain	T: CBM_6	F:	ECOD (20:10:01)
B [auth L]		e4k3eL1	A: PBZ domain	X: PBZ domain	H: PBZ domain	T: CBM_6	F:	ECOD (20:10:01)
C [auth I]		e4k3eI3	A: Fusion glycoprotein F2	X: Fusion glycoprotein F2	H: Fusion glycoprotein F2	T: VEGFR-1-like_Ig-like	F:	ECOD (20:10:01)
A [auth H]		e4k3eH1	A: Thioredoxin-like	X: Thioredoxin-like	H: Thioredoxin-like	T: MR_MLE_N	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth M]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
B [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
C [auth I]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
A [auth H]	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 L], D [auth M]	Bovine antibody with ultralong CDR H3	L-LAMBDA	Bos taurus (bovine)	IGLV1-9801, TRAJ2201, IGLC102, IGLC201, IGLC202, IGLC302, IGLC303, IGLC304, IGLC601, IGLC701, IGLC7*02	V-DOMAIN V-LAMBDA, C-DOMAIN C-LAMBDA	IG	(VH)	IMGT (202609-0)
A [auth H], C [auth I]	Bovine antibody with ultralong CDR H3	VH	Bos taurus (bovine)	IGHV1S301, IGHV1S401	V-DOMAIN VH	IG	(VH)	IMGT (202609-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth L], D [auth M]	Light Chain	IGLV1	Lambda	-	SAbDab (2026-03-13)
A [auth H], C [auth I]	Heavy Chain	IGHV1	-	-	SAbDab (2026-03-13)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth L], D [auth M]	BOVINE ANTIBODY WITH ULTRALONG CDR H3, LIGHT CHAIN	-	-	cell periphery cellular anatomical structure plasma membrane membrane protein-containing complex immunoglobulin complex extracellular region
A [auth H], C [auth I]	BOVINE ANTIBODY WITH ULTRALONG CDR H3, HEAVY CHAIN	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

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

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B [auth L], D [auth M]	PCA	Parent Component: GLN RESID: AA0031 PSI-MOD : 2-pyrrolidone-5-carboxylic acid (Gln) MOD:00040 , 2-pyrrolidone-5-carboxylic acid (Glu) MOD:00420
A [auth H], C [auth I]	PCA	Parent Component: GLN RESID: AA0031 , AA0031 PSI-MOD : 2-pyrrolidone-5-carboxylic acid (Gln) MOD:00040 , 2-pyrrolidone-5-carboxylic acid (Glu) MOD:00420 , 2-pyrrolidone-5-carboxylic acid (Gln) MOD:00040 , 2-pyrrolidone-5-carboxylic acid (Glu) MOD:00420

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.