5VL3 | pdb_00005vl3

CD22 d1-d3 in complex with therapeutic Fab Epratuzumab


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

ChainsDomain InfoClassFoldSuperfamilyFamilyDomainSpeciesProvenance Source (Version)
G [auth E]d5vl3e_ All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin automated matches automated matches Mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
E [auth A]d5vl3a_ All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin automated matches automated matches Mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
F [auth C]d5vl3c_ All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin automated matches automated matches Mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
Hd5vl3h_ All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin automated matches automated matches Mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
J [auth D]d5vl3d2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) automated matches Mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
J [auth D]d5vl3d1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin automated matches automated matches Mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
K [auth F]d5vl3f2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) automated matches Mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
K [auth F]d5vl3f1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin automated matches automated matches Mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
I [auth B]d5vl3b2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) automated matches Mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
I [auth B]d5vl3b1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin automated matches automated matches Mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
Ld5vl3l2 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin C1 set domains (antibody constant domain-like) automated matches Mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)
Ld5vl3l1 All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin automated matches automated matches Mouse (Mus musculus ) [TaxId: 10090 ], Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
B [auth R]I-set_4e5vl3R1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: I-set_4ECOD (1.6)
B [auth R]V-set_11e5vl3R3 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_11ECOD (1.6)
B [auth R]I-set_8e5vl3R2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: I-set_8ECOD (1.6)
C [auth S]I-set_4e5vl3S2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: I-set_4ECOD (1.6)
C [auth S]V-set_11e5vl3S3 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_11ECOD (1.6)
C [auth S]I-set_8e5vl3S1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: I-set_8ECOD (1.6)
A [auth Q]I-set_4e5vl3Q3 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: I-set_4ECOD (1.6)
A [auth Q]V-set_11e5vl3Q2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_11ECOD (1.6)
A [auth Q]I-set_8e5vl3Q1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: I-set_8ECOD (1.6)
D [auth T]I-set_4e5vl3T3 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: I-set_4ECOD (1.6)
D [auth T]V-set_11e5vl3T1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_11ECOD (1.6)
D [auth T]I-set_8e5vl3T2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: I-set_8ECOD (1.6)
G [auth E]V-set_8e5vl3E2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_8ECOD (1.6)
G [auth E]C1-set_1e5vl3E1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_1ECOD (1.6)
E [auth A]V-set_8e5vl3A2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_8ECOD (1.6)
E [auth A]C1-set_1e5vl3A1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_1ECOD (1.6)
F [auth C]V-set_8e5vl3C1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_8ECOD (1.6)
F [auth C]C1-set_1e5vl3C2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_1ECOD (1.6)
HV-set_8e5vl3H1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-set_8ECOD (1.6)
HC1-set_1e5vl3H2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_1ECOD (1.6)
J [auth D]C1-set_4e5vl3D1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_4ECOD (1.6)
J [auth D]V-sete5vl3D2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-setECOD (1.6)
K [auth F]C1-set_4e5vl3F1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_4ECOD (1.6)
K [auth F]V-sete5vl3F2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-setECOD (1.6)
I [auth B]C1-set_4e5vl3B1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_4ECOD (1.6)
I [auth B]V-sete5vl3B2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-setECOD (1.6)
LC1-set_4e5vl3L2 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: C1-set_4ECOD (1.6)
LV-sete5vl3L1 A: beta sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: V-setECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

IMGT Antibody Annotation IMGT Database Homepage

ChainProtein NameDescriptionOrganism NameGene Allele Name(s)Domain Name(s)Receptor TypeReceptor DescriptionProvenance Source
E [auth A],
F [auth C],
G [auth E],
H
Fab Epratuzumab VH-CH1 Homo sapiens (human) IGHV1-3*01, IGHV1-46*01, IGHV1-46*03, IGHV1-69*01, IGHV1-69*11, IGHV1-69*12, IGHV1-69*13, IGHV1-69D*01, IGHV1-69*15, IGHJ6*01, IGHG1*03, IGHG1*08, IGHG1*06 V-DOMAIN VH, C-DOMAIN CH1 IG FAB-GAMMA-1_KAPPA IMGT (202515-0)
I [auth B],
J [auth D],
K [auth F],
L
Fab Epratuzumab L-KAPPA Homo sapiens (human) IGKV4-1*01, IGKJ4*01, IGKJ2*02, IGKJ4*02, IGKC*01 V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA IG FAB-GAMMA-1_KAPPA IMGT (202515-0)

SAbDab Antibody Annotation SAbDab Database Homepage

ChainChain ClassChain SubclassChain TypeAntigen Name(s) Provenance Source
E [auth A],
F [auth C],
G [auth E],
H
Heavy ChainIGHV1 -b-cell receptor cd22SAbDab (2025-04-25)
I [auth B],
J [auth D],
K [auth F],
L
Light ChainIGKV8 Kappab-cell receptor cd22SAbDab (2025-04-25)

Thera-SAbDab Antibody Annotation Thera-SAbDab Database Homepage

ChainNameTargetProvenance Source
E [auth A],
F [auth C],
G [auth E],
H
Epratuzumab SIGLEC2/CD22Therapeutic SAbDab (2025-04-25)
I [auth B],
J [auth D],
K [auth F],
L
Epratuzumab SIGLEC2/CD22Therapeutic SAbDab (2025-04-25)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A [auth Q],
B [auth R],
C [auth S],
D [auth T]
PF13927Immunoglobulin domain (Ig_3)Immunoglobulin domainThis family contains immunoglobulin-like domains. Domain
A [auth Q],
B [auth R],
C [auth S],
D [auth T]
PF08205CD80-like C2-set immunoglobulin domain (C2-set_2)CD80-like C2-set immunoglobulin domainThese domains belong to the immunoglobulin superfamily. Domain
E [auth A],
F [auth C],
G [auth E],
H
PF07686Immunoglobulin V-set domain (V-set)Immunoglobulin V-set domainThis domain is found in antibodies as well as neural protein P0 and CTL4 amongst others. Domain
E [auth A],
F [auth C],
G [auth E],
H
PF07654Immunoglobulin C1-set domain (C1-set)Immunoglobulin C1-set domainDomain
I [auth B],
J [auth D],
K [auth F],
L
PF07686Immunoglobulin V-set domain (V-set)Immunoglobulin V-set domainThis domain is found in antibodies as well as neural protein P0 and CTL4 amongst others. Domain
I [auth B],
J [auth D],
K [auth F],
L
PF07654Immunoglobulin C1-set domain (C1-set)Immunoglobulin C1-set domainDomain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth Q],
B [auth R],
C [auth S],
D [auth T]
B-cell receptor CD22
E [auth A],
F [auth C],
G [auth E],
H
Epratuzumab Fab Heavy Chain- -
I [auth B],
J [auth D],
K [auth F],
L
Epratuzumab Fab Light Chain -

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A [auth Q],
B [auth R],
C [auth S],
D [auth T]
IPR036179Immunoglobulin-like domain superfamilyHomologous Superfamily
A [auth Q],
B [auth R],
C [auth S],
D [auth T]
IPR003598Immunoglobulin subtype 2Domain
A [auth Q],
B [auth R],
C [auth S],
D [auth T]
IPR056386B-cell receptor CD22, first Ig-like domainDomain
A [auth Q],
B [auth R],
C [auth S],
D [auth T]
IPR003599Immunoglobulin domain subtypeDomain
A [auth Q],
B [auth R],
C [auth S],
D [auth T]
IPR013783Immunoglobulin-like foldHomologous Superfamily
A [auth Q],
B [auth R],
C [auth S],
D [auth T]
IPR013162CD80-like, immunoglobulin C2-setDomain
A [auth Q],
B [auth R],
C [auth S],
D [auth T]
IPR007110Immunoglobulin-like domainDomain
E [auth A],
F [auth C],
G [auth E],
H
IPR003597Immunoglobulin C1-setDomain
E [auth A],
F [auth C],
G [auth E],
H
IPR013783Immunoglobulin-like foldHomologous Superfamily
E [auth A],
F [auth C],
G [auth E],
H
IPR036179Immunoglobulin-like domain superfamilyHomologous Superfamily
E [auth A],
F [auth C],
G [auth E],
H
IPR013106Immunoglobulin V-set domainDomain
E [auth A],
F [auth C],
G [auth E],
H
IPR003599Immunoglobulin domain subtypeDomain
E [auth A],
F [auth C],
G [auth E],
H
IPR007110Immunoglobulin-like domainDomain
E [auth A],
F [auth C],
G [auth E],
H
IPR050380Immune Recognition and Response ModulatorsFamily
E [auth A],
F [auth C],
G [auth E],
H
IPR003006Immunoglobulin/major histocompatibility complex, conserved siteConserved Site
I [auth B],
J [auth D],
K [auth F],
L
IPR003597Immunoglobulin C1-setDomain
I [auth B],
J [auth D],
K [auth F],
L
IPR050150Immunoglobulin Variable Light ChainFamily
I [auth B],
J [auth D],
K [auth F],
L
IPR013783Immunoglobulin-like foldHomologous Superfamily
I [auth B],
J [auth D],
K [auth F],
L
IPR036179Immunoglobulin-like domain superfamilyHomologous Superfamily
I [auth B],
J [auth D],
K [auth F],
L
IPR013106Immunoglobulin V-set domainDomain
I [auth B],
J [auth D],
K [auth F],
L
IPR003599Immunoglobulin domain subtypeDomain
I [auth B],
J [auth D],
K [auth F],
L
IPR007110Immunoglobulin-like domainDomain
I [auth B],
J [auth D],
K [auth F],
L
IPR003006Immunoglobulin/major histocompatibility complex, conserved siteConserved Site