6O25

Crystal structure of 3945 Fab in complex with circumsporozoite protein NANP3 and anti-Kappa VHH domain

External Resource: Annotation

Domain Annotation: ECOD Classification
IMGT Antibody Annotation
SAbDab Antibody Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF07654	e6o25A2	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)
A	PF07686	e6o25A1	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 E]	PF07654	e6o25E1	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)
B [auth E]	PF07686	e6o25E2	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 I]	PF07654	e6o25I1	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 I]	PF07686	e6o25I2	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 F]	PF07654	e6o25F1	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)
C [auth F]	PF07686	e6o25F2	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 B]	PF07654	e6o25B1	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)
D [auth B]	PF07686	e6o25B2	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 J]	PF07654	e6o25J1	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 J]	PF07686	e6o25J2	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 K]	F_UNCLASSIFIED	e6o25K1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: F_UNCLASSIFIED	ECOD (1.6)
H [auth C]	F_UNCLASSIFIED	e6o25C1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: F_UNCLASSIFIED	ECOD (1.6)
I [auth G]	F_UNCLASSIFIED	e6o25G1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: F_UNCLASSIFIED	ECOD (1.6)

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
A, B [auth E], E [auth I]	Fab 3945, anti-PfCSP	VH-CH1	Homo sapiens (human)	IGHV3-3301, IGHV3-3304, IGHJ401, IGHJ402, IGHJ403, IGHG103, IGHG108, IGHG106	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202417-0)
C [auth F], D [auth B], F [auth J]	Fab 3945, anti-PfCSP	L-KAPPA	Homo sapiens (human)	IGKV3-2001, IGKJ101, IGKC*01	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202417-0)
G [auth K], H [auth C], I [auth G]	VHH, anti-Kappa	VH	Lama glama (llama)	IGHV3-701, IGHV3-702, IGHV3-901, IGHV3-2301, IGHV3-2302, IGHV3-2303, IGHV3-3001, IGHV3-3002, IGHV3-3003, IGHV3-3004, IGHV3-3006, IGHV3-3007, IGHV3-3008, IGHV3-3010, IGHV3-3011, IGHV3-3012, IGHV3-3013, IGHV3-3014, IGHV3-3015, IGHV3-3016, IGHV3-3017, IGHV3-3018, IGHV3-3019, IGHV3-30-301, IGHV3-30-302, IGHV3-3301, IGHV3-3302, IGHV3-3303, IGHV3-3304, IGHV3-3305, IGHV3-4302, IGHV3-4801, IGHV3-4802, IGHV3-4803, IGHV3-6404, IGHV3-2304, IGHV3-NL101, IGHV3-703, IGHV3-4804, IGHV3-902, IGHV3-3306, IGHV3-30-303, IGHV3-903, IGHV3-64D06, IGHV3-23D01, IGHV3-30-501, IGHV3-30-502, IGHV3-6407, IGHV3-704, IGHV3-64D08, IGHV3-64D09, IGHV3-705	V-DOMAIN VH	IG	VH	IMGT (202417-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
A, B [auth E], E [auth I]	Heavy Chain	IGHV3	-	circumsporozoite protein \| anti-kappa vhh domain, circumsporozoite protein	SAbDab (2024-05-03)
C [auth F], D [auth B], F [auth J]	Light Chain	IGKV3	Kappa	circumsporozoite protein, circumsporozoite protein \| anti-kappa vhh domain	SAbDab (2024-05-03)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B [auth E], E [auth I]	3945 Fab heavy chain	-	-	-
C [auth F], D [auth B], F [auth J]	3945 Kappa light chain	-	-	-
G [auth K], H [auth C], I [auth G]	Anti-Kappa VHH domain	-	-	-
J [auth D], K [auth H], L	Circumsporozoite protein	-	biological process involved in interspecies interaction between organisms symbiont entry into host cell viral process symbiont entry into host viral life cycle entry into host cell by a symbiont-containing vacuole biological process involved in interaction with host biological process involved in symbiotic interaction	cell periphery cell surface membrane plasma membrane cellular anatomical entity external side of plasma membrane side of membrane intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
J [auth D], K [auth H], L	IPR000884	Thrombospondin type-1 (TSP1) repeat	Repeat
J [auth D], K [auth H], L	IPR003067	Plasmodium circumsporozoite protein	Family
J [auth D], K [auth H], L	IPR036383	Thrombospondin type-1 (TSP1) repeat 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 R01GM133198.