5VL3

CD22 d1-d3 in complex with therapeutic Fab Epratuzumab

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
SAbDab Antibody Annotation
Thera-SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
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)
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)
L	d5vl3l2	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)
L	d5vl3l1	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)
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)
H	d5vl3h_	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

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A [auth Q]	PF07686	e5vl3Q2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
A [auth Q]	PF08205	e5vl3Q1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF08205	ECOD (1.6)
A [auth Q]	PF13927	e5vl3Q3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF13927	ECOD (1.6)
B [auth R]	PF07686	e5vl3R3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
B [auth R]	PF08205	e5vl3R2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF08205	ECOD (1.6)
B [auth R]	PF13927	e5vl3R1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF13927	ECOD (1.6)
C [auth S]	PF07686	e5vl3S3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
C [auth S]	PF08205	e5vl3S1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF08205	ECOD (1.6)
C [auth S]	PF13927	e5vl3S2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF13927	ECOD (1.6)
D [auth T]	PF07686	e5vl3T1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
D [auth T]	PF08205	e5vl3T2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF08205	ECOD (1.6)
D [auth T]	PF13927	e5vl3T3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF13927	ECOD (1.6)
I [auth B]	PF07654	e5vl3B1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
I [auth B]	PF07686	e5vl3B2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
J [auth D]	PF07654	e5vl3D1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
J [auth D]	PF07686	e5vl3D2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
K [auth F]	PF07654	e5vl3F1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
K [auth F]	PF07686	e5vl3F2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
L	PF07654	e5vl3L2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
L	PF07686	e5vl3L1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
E [auth A]	PF07654	e5vl3A1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
E [auth A]	PF07686	e5vl3A2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
F [auth C]	PF07654	e5vl3C2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
F [auth C]	PF07686	e5vl3C1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
G [auth E]	PF07654	e5vl3E1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
G [auth E]	PF07686	e5vl3E2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
H	PF07654	e5vl3H2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
H	PF07686	e5vl3H1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
I [auth B]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
J [auth D]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
K [auth F]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
L	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
E [auth A]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
F [auth C]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
G [auth E]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
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
I [auth B], J [auth D], K [auth F], L	Fab Epratuzumab	L-KAPPA	Homo sapiens (human)	IGKV4-101, IGKJ401, IGKJ202, IGKJ402, IGKC*01	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202416-0)
E [auth A], F [auth C], G [auth E], H	Fab Epratuzumab	VH-CH1	Homo sapiens (human)	IGHV1-301, IGHV1-4601, IGHV1-4603, IGHV1-6901, IGHV1-6911, IGHV1-6912, IGHV1-6913, IGHV1-69D01, IGHV1-6915, IGHJ601, IGHG103, IGHG108, IGHG1*06	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202416-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
I [auth B], J [auth D], K [auth F], L	Light Chain	IGKV8	Kappa	b-cell receptor cd22	SAbDab (2024-04-26)
E [auth A], F [auth C], G [auth E], H	Heavy Chain	IGHV1	-	b-cell receptor cd22	SAbDab (2024-04-26)

Thera-SAbDab Antibody Annotation Thera-SAbDab Database Homepage

Chain	Name	Target	Provenance Source
I [auth B], J [auth D], K [auth F], L	Epratuzumab	SIGLEC2/CD22	Therapeutic SAbDab (2024-04-26)
E [auth A], F [auth C], G [auth E], H	Epratuzumab	SIGLEC2/CD22	Therapeutic SAbDab (2024-04-26)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth Q], B [auth R], C [auth S], D [auth T]	PF13927	Immunoglobulin domain (Ig_3)	Immunoglobulin domain	This family contains immunoglobulin-like domains.	Domain
A [auth Q], B [auth R], C [auth S], D [auth T]	PF08205	CD80-like C2-set immunoglobulin domain (C2-set_2)	CD80-like C2-set immunoglobulin domain	These domains belong to the immunoglobulin superfamily.	Domain
I [auth B], J [auth D], K [auth F], L	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
I [auth B], J [auth D], K [auth F], L	PF07654	Immunoglobulin C1-set domain (C1-set)	Immunoglobulin C1-set domain	-	Domain
E [auth A], F [auth C], G [auth E], H	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
E [auth A], F [auth C], G [auth E], H	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
A [auth Q], B [auth R], C [auth S], D [auth T]	B-cell receptor CD22	protein-containing complex binding binding immunoglobulin binding IgM binding sialic acid binding organic acid binding ion binding anion binding carboxylic acid binding carbohydrate derivative binding small molecule binding protein binding signaling receptor binding protein phosphatase binding protein-containing complex binding binding immunoglobulin binding IgM binding sialic acid binding organic acid binding ion binding anion binding carboxylic acid binding carbohydrate derivative binding small molecule binding protein binding signaling receptor binding protein phosphatase binding phosphatase binding enzyme binding carbohydrate binding CD4 receptor binding	regulation of localization import into cell regulation of biological process regulation of cellular process regulation of cellular component organization regulation of transport transport biological regulation regulation of vesicle-mediated transport establishment of localization vesicle-mediated transport cellular component organization localization cellular process regulation of localization import into cell regulation of biological process regulation of cellular process regulation of cellular component organization regulation of transport transport biological regulation regulation of vesicle-mediated transport establishment of localization vesicle-mediated transport cellular component organization localization cellular process cellular component organization or biogenesis endocytosis regulation of endocytosis regulation of immune effector process immunoglobulin production cellular biosynthetic process negative regulation of biological process negative regulation of cellular metabolic process organic substance metabolic process organic substance biosynthetic process negative regulation of cellular process regulation of immune system process negative regulation of macromolecule metabolic process negative regulation of immunoglobulin production regulation of biosynthetic process production of molecular mediator of immune response cellular metabolic process negative regulation of metabolic process negative regulation of immune effector process regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process negative regulation of cellular biosynthetic process immune effector process regulation of cellular biosynthetic process regulation of gene expression negative regulation of production of molecular mediator of immune response negative regulation of gene expression biosynthetic process regulation of immunoglobulin production negative regulation of immune system process negative regulation of biosynthetic process immune system process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of production of molecular mediator of immune response regulation of metabolic process multicellular organismal process B cell activation cell activation lymphocyte activation leukocyte activation response to stimulus regulation of response to stimulus immune response regulation of immune response cellular response to stimulus regulation of B cell receptor signaling pathway immune response-regulating cell surface receptor signaling pathway signaling negative regulation of signaling positive regulation of biological process regulation of signal transduction regulation of antigen receptor-mediated signaling pathway negative regulation of antigen receptor-mediated signaling pathway negative regulation of cell communication cell communication negative regulation of B cell receptor signaling pathway positive regulation of response to stimulus immune response-activating signaling pathway immune response-regulating signaling pathway positive regulation of immune response signal transduction positive regulation of immune system process regulation of signaling cell surface receptor signaling pathway immune response-activating cell surface receptor signaling pathway negative regulation of response to stimulus B cell receptor signaling pathway negative regulation of signal transduction regulation of cell communication antigen receptor-mediated signaling pathway activation of immune response cell adhesion negative regulation of intracellular signal transduction intracellular signal transduction regulation of intracellular signal transduction intracellular signaling cassette regulation of calcium-mediated signaling negative regulation of calcium-mediated signaling calcium-mediated signaling regulation of leukocyte activation regulation of cell activation leukocyte proliferation regulation of B cell proliferation lymphocyte proliferation regulation of B cell activation regulation of multicellular organismal process regulation of lymphocyte proliferation regulation of leukocyte proliferation cell population proliferation B cell proliferation regulation of cell population proliferation mononuclear cell proliferation regulation of mononuclear cell proliferation regulation of lymphocyte activation	cell periphery cell surface membrane plasma membrane cellular anatomical entity external side of plasma membrane side of membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space cell periphery cell surface membrane plasma membrane cellular anatomical entity external side of plasma membrane side of membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm early endosome endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle recycling endosome somatodendritic compartment neuronal cell body membrane cell body cell body membrane neuronal cell body
I [auth B], J [auth D], K [auth F], L	Epratuzumab Fab Light Chain	-	-	extracellular region cellular anatomical entity
E [auth A], F [auth C], G [auth E], H	Epratuzumab Fab Heavy Chain	-	-	cell periphery plasma membrane membrane cellular anatomical entity protein-containing complex immunoglobulin complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth Q], B [auth R], C [auth S], D [auth T]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A [auth Q], B [auth R], C [auth S], D [auth T]	IPR003599	Immunoglobulin subtype	Domain
A [auth Q], B [auth R], C [auth S], D [auth T]	IPR003598	Immunoglobulin subtype 2	Domain
A [auth Q], B [auth R], C [auth S], D [auth T]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A [auth Q], B [auth R], C [auth S], D [auth T]	IPR013162	CD80-like, immunoglobulin C2-set	Domain
A [auth Q], B [auth R], C [auth S], D [auth T]	IPR007110	Immunoglobulin-like domain	Domain
I [auth B], J [auth D], K [auth F], L	IPR003597	Immunoglobulin C1-set	Domain
I [auth B], J [auth D], K [auth F], L	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
I [auth B], J [auth D], K [auth F], L	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
I [auth B], J [auth D], K [auth F], L	IPR003599	Immunoglobulin subtype	Domain
I [auth B], J [auth D], K [auth F], L	IPR013106	Immunoglobulin V-set domain	Domain
I [auth B], J [auth D], K [auth F], L	IPR007110	Immunoglobulin-like domain	Domain
I [auth B], J [auth D], K [auth F], L	IPR003006	Immunoglobulin/major histocompatibility complex, conserved site	Conserved Site
E [auth A], F [auth C], G [auth E], H	IPR003597	Immunoglobulin C1-set	Domain
E [auth A], F [auth C], G [auth E], H	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
E [auth A], F [auth C], G [auth E], H	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
E [auth A], F [auth C], G [auth E], H	IPR003599	Immunoglobulin subtype	Domain
E [auth A], F [auth C], G [auth E], H	IPR013106	Immunoglobulin V-set domain	Domain
E [auth A], F [auth C], G [auth E], H	IPR007110	Immunoglobulin-like domain	Domain
E [auth A], F [auth C], G [auth E], H	IPR003006	Immunoglobulin/major histocompatibility complex, conserved site	Conserved Site

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth Q], B [auth R], C [auth S], D [auth T]	Pharos: P20273	B-cell chronic lymphocytic leukemia interstitial cystitis malignant ependymoma nasopharyngeal carcinoma Pre B-cell acute lymphoblastic leukemia Sjogren syndrome cutaneous lupus erythematosus leukemia malignant glioma osteosarcoma progressive supranuclear palsy hairy cell leukemia lymphoma medulloblastoma Pick disease B-cell chronic lymphocytic leukemia interstitial cystitis malignant ependymoma nasopharyngeal carcinoma Pre B-cell acute lymphoblastic leukemia Sjogren syndrome cutaneous lupus erythematosus leukemia malignant glioma osteosarcoma progressive supranuclear palsy hairy cell leukemia lymphoma medulloblastoma Pick disease psoriasis