6FY2 | pdb_00006fy2

Crystal structure of a V2p-reactive RV144 vaccine-like antibody, CAP228-16H, in complex with a heterologous CAP225 V1V2

External Resource: Annotation


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

ChainsDomain InfoClassFoldSuperfamilyFamilyDomainSpeciesProvenance Source (Version)
D [auth X]d6fy2x_ All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin automated matches automated matches (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
A [auth H]d6fy2h_ All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin automated matches automated matches (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
E [auth Y]d6fy2y2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) automated matches (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
E [auth Y]d6fy2y1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin automated matches automated matches (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
B [auth L]d6fy2l2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) automated matches (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
B [auth L]d6fy2l1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin automated matches automated matches (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
D [auth X]Anoctamine6fy2X1 A: a/b three-layered sandwichesX: PriB N-terminal domain-likeH: gp11/gp12 receptor-binding domainT: gp11/gp12 receptor-binding domainF: AnoctaminECOD (v294.1)
A [auth H]SBP_bac_1e6fy2H1 A: a/b three-layered sandwichesX: PriB N-terminal domain-likeH: ADP-ribosylationT: ADP-ribosylationF: SBP_bac_1ECOD (v294.1)
C [auth P]Complex1_49kDae6fy2P01 A: a/b three-layered sandwichesX: Rossmann-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: Complex1_49kDaECOD (v294.1)
E [auth Y]Anoctamine6fy2Y1 A: a/b three-layered sandwichesX: PriB N-terminal domain-likeH: gp11/gp12 receptor-binding domainT: gp11/gp12 receptor-binding domainF: AnoctaminECOD (v294.1)
B [auth L]SBP_bac_1e6fy2L1 A: a/b three-layered sandwichesX: PriB N-terminal domain-likeH: ADP-ribosylationT: ADP-ribosylationF: SBP_bac_1ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
D [auth X]2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
A [auth H]2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
E [auth Y]2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (4.3.0)
B [auth L]2.60.40.10 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 [auth H],
D [auth X]		Fab CAP228-16H VH-CH1 Homo sapiens (human) IGHV5-51*01, IGHV5-51*03, IGHJ3*02, IGHG1*01, IGHG1*02, IGHG1*04, IGHG1*05 V-DOMAIN VH, C-DOMAIN CH1 IG FAB-GAMMA-1_LAMBDA IMGT (202612-0)
B [auth L],
E [auth Y]		Fab CAP228-16H L-LAMBDA Homo sapiens (human) IGLV3-21*01, IGLV3-21*02, IGLV3-21*03, IGLJ2*01, IGLJ3*01, IGLC2*01, IGLC2*02, IGLC3*04 V-DOMAIN V-LAMBDA, C-DOMAIN C-LAMBDA IG FAB-GAMMA-1_LAMBDA IMGT (202612-0)

SAbDab Antibody Annotation SAbDab Database Homepage

ChainChain ClassChain SubclassChain TypeAntigen Name(s) Provenance Source
A [auth H],
D [auth X]		Heavy ChainIGHV5 -cap225 scaffolded v1v2SAbDab (2026-03-27)
B [auth L],
E [auth Y]		Light ChainIGLV3 Lambdacap225 scaffolded v1v2SAbDab (2026-03-27)

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
C [auth P],
F [auth Z]		IPR000724IgG-binding BDomain