4K2U | pdb_00004k2u

Crystal structure of PfEBA-175 F1 in complex with R218 antibody Fab fragment

External Resource: Annotation

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F [auth M]	d4k2um1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
E [auth L]	d4k2ul1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
D [auth I]	d4k2ui_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C [auth H]	d4k2uh_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d4k2ub_	All alpha proteins	Duffy binding domain-like	Duffy binding domain-like	automated matches	automated matches	(Plasmodium falciparum 3D7 ) [TaxId: 36329 ],	SCOPe (2.08)
A	d4k2ua_	All alpha proteins	Duffy binding domain-like	Duffy binding domain-like	automated matches	automated matches	(Plasmodium falciparum 3D7 ) [TaxId: 36329 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F [auth M]	C1-set_4	e4k2uM2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
F [auth M]	V-set	e4k2uM1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
E [auth L]	C1-set_4	e4k2uL2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
E [auth L]	V-set	e4k2uL1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
D [auth I]	V-set_8	e4k2uI1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
D [auth I]	C1-set_1	e4k2uI2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
C [auth H]	V-set_8	e4k2uH1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
C [auth H]	C1-set_1	e4k2uH2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
B	Duffy_binding	e4k2uB1	A: alpha bundles	X: Duffy-binding-like domain, N-terminal subdomain (From Topology)	H: Duffy-binding-like domain, N-terminal subdomain (From Topology)	T: Duffy-binding-like domain, N-terminal subdomain	F: Duffy_binding	ECOD (1.6)
B	PTZ00176	e4k2uB2	A: alpha bundles	X: Duffy-binding-like domain, C-terminal subdomain (From Topology)	H: Duffy-binding-like domain, C-terminal subdomain (From Topology)	T: Duffy-binding-like domain, C-terminal subdomain	F: PTZ00176	ECOD (1.6)
A	Duffy_binding	e4k2uA1	A: alpha bundles	X: Duffy-binding-like domain, N-terminal subdomain (From Topology)	H: Duffy-binding-like domain, N-terminal subdomain (From Topology)	T: Duffy-binding-like domain, N-terminal subdomain	F: Duffy_binding	ECOD (1.6)
A	PTZ00176	e4k2uA3	A: alpha bundles	X: Duffy-binding-like domain, C-terminal subdomain (From Topology)	H: Duffy-binding-like domain, C-terminal subdomain (From Topology)	T: Duffy-binding-like domain, C-terminal subdomain	F: PTZ00176	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F [auth M]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
E [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
D [auth I]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
C [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
E [auth L], F [auth M]	ANTIBODY	L-KAPPA	Mus musculus (house mouse)	IGKV10-9602, IGKJ101, IGKJ102, IGKC01, IGKC*02	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202547-0)
C [auth H], D [auth I]	ANTIBODY	VH-CH1	Mus musculus (house mouse)	IGHV14-302, IGHJ201, IGHG1*02	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202547-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
E [auth L], F [auth M]	Light Chain	IGKV10	Kappa	erythrocyte binding antigen 175	SAbDab (2025-12-05)
C [auth H], D [auth I]	Heavy Chain	IGHV14	-	erythrocyte binding antigen 175	SAbDab (2025-12-05)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF05424	Duffy binding domain (Duffy_binding)	Duffy binding domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E [auth L], F [auth M]	Antibody Light Chain	-	-	-
C [auth H], D [auth I]	Antibody Heavy Chain	-	-	-
A, B	Erythrocyte binding antigen 175	heparin binding glycosaminoglycan binding binding carbohydrate derivative binding sulfur compound binding host cell surface binding host cell surface receptor binding	biological process involved in interspecies interaction between organisms symbiont entry into host biological process involved in interaction with host biological process involved in symbiotic interaction	cellular anatomical structure membrane membrane-bounded organelle intracellular organelle microneme intracellular anatomical structure apical part of cell organelle intracellular membrane-bounded organelle apical complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR043057	Erythrocyte binding antigen 175, C-terminal domain superfamily	Homologous Superfamily
A, B	IPR008602	Duffy-antigen binding domain	Domain
A, B	IPR021620	Erythrocyte binding antigen 175, C-terminal	Domain
A, B	IPR042202	Duffy-antigen binding superfamily	Homologous Superfamily

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.