6O2A | pdb_00006o2a

Crystal structure of 4493 Fab in complex with circumsporozoite protein NDN and anti-kappa VHH domain

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
P [auth J]	Gp5_C, Gp5_trimer_C	e6o2aJ1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: Gp5_C, Gp5_trimer_C	ECOD (develop294)
O [auth N]	Gp5_C, Gp5_trimer_C	e6o2aN1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: Gp5_C, Gp5_trimer_C	ECOD (develop294)
N [auth M]	Gp5_C, Gp5_trimer_C	e6o2aM1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: Gp5_C, Gp5_trimer_C	ECOD (develop294)
I [auth E]	Gp5_C, Gp5_trimer_C	e6o2aE1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: Gp5_C, Gp5_trimer_C	ECOD (develop294)
H [auth P]	Gp5_C, Gp5_trimer_C	e6o2aP1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: Gp5_C, Gp5_trimer_C	ECOD (develop294)
F [auth I]	Gp5_C, Gp5_trimer_C	e6o2aI1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: Gp5_C, Gp5_trimer_C	ECOD (develop294)
D	Gp5_C, Gp5_trimer_C	e6o2aD1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: Gp5_C, Gp5_trimer_C	ECOD (develop294)
B	Gp5_C, Gp5_trimer_C	e6o2aB1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: Gp5_C, Gp5_trimer_C	ECOD (develop294)
G [auth O]	Gp5_C, Gp5_trimer_C	e6o2aO1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: Gp5_C, Gp5_trimer_C	ECOD (develop294)
E [auth H]	Gp5_C, Gp5_trimer_C	e6o2aH1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: Gp5_C, Gp5_trimer_C	ECOD (develop294)
C	Gp5_C, Gp5_trimer_C	e6o2aC1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: Gp5_C, Gp5_trimer_C	ECOD (develop294)
A	Gp5_C, Gp5_trimer_C	e6o2aA1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: Gp5_C, Gp5_trimer_C	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
G [auth O]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
E [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
C	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
A	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)

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 E], N [auth M], O [auth N], P [auth J]	VHH, anti-Kappa	null	Lama glama (llama)	-	-	IG	VH	IMGT (202610-0)
B, D, F [auth I], H [auth P]	Fab 4493, 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 (202610-0)
A, C, E [auth H], G [auth O]	Fab 4493, anti-PfCSP	null	Homo sapiens (human)	-	-	IG	FAB-GAMMA-1_KAPPA	IMGT (202610-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B, D, F [auth I], H [auth P]	Light Chain	IGKV3	Kappa	circumsporozoite protein, circumsporozoite protein \| anti-kappa vhh domain	SAbDab (2026-03-20)
A, C, E [auth H], G [auth O]	Heavy Chain	IGHV3	-	circumsporozoite protein, circumsporozoite protein \| anti-kappa vhh domain	SAbDab (2026-03-20)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
J [auth F], K [auth G], L [auth K], M [auth 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 cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane intracellular anatomical structure cytoplasm
I [auth E], N [auth M], O [auth N], P [auth J]	Anti-kappa VHH domain	-	-	-
B, D, F [auth I], H [auth P]	4493 Kappa light chain	-	-	-
A, C, E [auth H], G [auth O]	4493 Fab heavy chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
J [auth F], K [auth G], L [auth K], M [auth L]	IPR000884	Thrombospondin type-1 (TSP1) repeat	Repeat
J [auth F], K [auth G], L [auth K], M [auth L]	IPR003067	Plasmodium circumsporozoite protein	Family
J [auth F], K [auth G], L [auth K], M [auth L]	IPR051860	Plasmodium Circumsporozoite Invasion Protein	Family
J [auth F], K [auth G], L [auth K], M [auth L]	IPR036383	Thrombospondin type-1 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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.