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 3BD4 | pdb_00003bd4

Crystal structure of single domain VL of an anti-DNA binding antibody 3D8 scFv and its active site revealed by complex structures of a small molecule and metals

External Resource: Annotation


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

ChainsDomain InfoClassFoldSuperfamilyFamilyDomainSpeciesProvenance Source (Version)
Bd3bd4b_ All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) automated matches house mouse (Mus musculus ) [TaxId: 10090 ], SCOPe (2.08)
Ad3bd4a_ All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) automated matches house mouse (Mus musculus ) [TaxId: 10090 ], SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
BCellulasee3bd4B1 A: alpha arraysX: HTHH: HTHT: tetra-helical, lambda repressor-likeF: CellulaseECOD (v295.2)
ACellulasee3bd4A1 A: alpha arraysX: HTHH: HTHT: tetra-helical, lambda repressor-likeF: CellulaseECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
B2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (4.3.0)
A2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (4.3.0)

IMGT Antibody Annotation IMGT Database Homepage

ChainProtein NameDescriptionOrganism NameGene Allele Name(s)Domain Name(s)Receptor TypeReceptor DescriptionProvenance Source
A, B
VL of 3D8 scFv, anti-DNA V-KAPPA Mus musculus (house mouse) IGKV8-21*01, IGKJ2*03 V-DOMAIN V-KAPPA IG (V-KAPPA) IMGT (202636-0)

SAbDab Antibody Annotation SAbDab Database Homepage

ChainChain ClassChain SubclassChain TypeAntigen Name(s) Provenance Source
A, B
Light ChainIGKV8 Kappa-SAbDab (2026-09-18)