6VX4 | pdb_00006vx4

Density-fitted Model Structure of Antibody Variable Domains of TyTx11 in Complex with Typhoid Toxin

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
IMGT Antibody Annotation
SAbDab Antibody 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)
I [auth F]	d6vx4f_	Alpha and beta proteins (a+b)	DNase I-like	DNase I-like	automated matches	automated matches	(Salmonella enterica subsp. enterica serovar Typhi str. CT18 ) [TaxId: 220341 ],	SCOPe (2.08)
H [auth G]	d6vx4g_	Alpha and beta proteins (a+b)	ADP-ribosylation	ADP-ribosylation	automated matches	automated matches	(Salmonella enterica subsp. enterica serovar Typhi str. CT18 ) [TaxId: 220341 ],	SCOPe (2.08)
A [auth K]	d6vx4k_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	Mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
I [auth F]	SCOP2B Superfamily	DNase I-like	8061769	3000957	SCOP2B (2022-06-29)
H [auth G]	SCOP2 Family	ADP-ribosylating toxins	8102604	4002404	SCOP2 (2022-06-29)
H [auth G]	SCOP2 Superfamily	ADP-ribosylation	8102605	3001208	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
I [auth F]		e6vx4F1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F:	ECOD (v294.1)
H [auth G]		e6vx4G1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F:	ECOD (v294.1)
C [auth H]		e6vx4H1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F:	ECOD (v294.1)
G [auth E]		e6vx4E1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F:	ECOD (v294.1)
F [auth D]		e6vx4D1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F:	ECOD (v294.1)
E [auth B]		e6vx4B1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F:	ECOD (v294.1)
D [auth A]		e6vx4A1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F:	ECOD (v294.1)
B [auth C]		e6vx4C1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F:	ECOD (v294.1)
A [auth K]		e6vx4K1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F:	ECOD (v294.1)

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
C [auth H]	Fab TyTx11, neutralizing	VH-CH1	Mus musculus (house mouse)	IGHV1-2002, IGHJ401, IGHG101, IGHG102	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202611-0)
A [auth K]	Fab TyTx11, neutralizing	V-KAPPA	Mus musculus (house mouse)	IGKV13-8501, IGKJ201	V-DOMAIN V-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202611-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
C [auth H]	Heavy Chain	IGHV1	-	cytolethal distending toxin subunit b \| pertussis toxin-like subunit arta	SAbDab (2026-03-27)
A [auth K]	Light Chain	IGKV13	Kappa	cytolethal distending toxin subunit b \| pertussis toxin-like subunit arta	SAbDab (2026-03-27)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
I [auth F]	Cytolethal distending toxin subunit B	hydrolase activity catalytic activity endonuclease activity nuclease activity catalytic activity, acting on a nucleic acid toxin activity	-	cellular anatomical structure extracellular region
H [auth G]	Pertussis toxin-like subunit ArtA	pentosyltransferase activity NAD+ poly-ADP-ribosyltransferase activity glycosyltransferase activity transferase activity catalytic activity	-	cellular anatomical structure extracellular region
C [auth H]	Variable Domain of Heavy Chain of Antibody TyTx11	-	-	-
B [auth C], D [auth A], E [auth B], F [auth D], G [auth E]	Pertussis like toxin subunit B	-	-	cellular anatomical structure extracellular region
A [auth K]	Variable Domain of Kappa Chain of TyTx11 Antibody	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
I [auth F]	IPR005135	Endonuclease/exonuclease/phosphatase	Domain
I [auth F]	IPR003539	Cytolethal distending toxin B	Family
I [auth F]	IPR036691	Endonuclease/exonuclease/phosphatase superfamily	Homologous Superfamily
H [auth G]	IPR003898	Bordetella pertussis toxin A	Family
B [auth C], D [auth A], E [auth B], F [auth D], G [auth E]	IPR008992	Enterotoxin	Homologous Superfamily
B [auth C], D [auth A], E [auth B], F [auth D], G [auth E]	IPR020063	Bordetella pertussis toxin B, subunit 2/3, C-terminal	Domain

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.