5EPM | pdb_00005epm

Ceratotoxin variant in complex with specific antibody Fab fragment

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
SAbDab Antibody Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	omega toxin-like	8061085	3000255	SCOP2B (2022-06-29)
C	SCOP2 Family	Spider toxins	8061084	4003112	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	omega toxin-like	8061085	3000255	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)
D	PDZ_2	e5epmD1	A: alpha bundles	X: alpha/beta knot	H: alpha/beta knot	T: alpha/beta knot	F: PDZ_2	ECOD (develop294)
C	PDZ_2	e5epmC1	A: alpha bundles	X: alpha/beta knot	H: alpha/beta knot	T: alpha/beta knot	F: PDZ_2	ECOD (develop294)
F	PDZ_2	e5epmF1	A: alpha bundles	X: alpha/beta knot	H: alpha/beta knot	T: alpha/beta knot	F: PDZ_2	ECOD (develop294)
B	PDZ_2	e5epmB1	A: alpha bundles	X: alpha/beta knot	H: alpha/beta knot	T: alpha/beta knot	F: PDZ_2	ECOD (develop294)
E	PDZ_2	e5epmE1	A: alpha bundles	X: alpha/beta knot	H: alpha/beta knot	T: alpha/beta knot	F: PDZ_2	ECOD (develop294)
A	PDZ_2	e5epmA1	A: alpha bundles	X: alpha/beta knot	H: alpha/beta knot	T: alpha/beta knot	F: PDZ_2	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
B	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
E	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
A	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
B, F	Fab 6F1	L-KAPPA	Mus musculus (house mouse)	IGKV1-11701, IGKJ401, IGKC01, IGKC02	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202610-0)
A, E	Fab 6F1	VH-CH1	Mus musculus (house mouse)	IGHV1-6101, IGHV1-5201, IGHJ201, IGHG102	V-DOMAIN VH, C-DOMAIN CH1	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, F	Light Chain	IGKV1	Kappa	beta-theraphotoxin-cm1a	SAbDab (2026-03-20)
A, E	Heavy Chain	IGHV1	-	beta-theraphotoxin-cm1a	SAbDab (2026-03-20)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C, D	Beta-theraphotoxin-Cm1a	molecular function inhibitor activity sodium channel inhibitor activity channel regulator activity transporter inhibitor activity ion channel regulator activity ion channel inhibitor activity molecular function regulator activity sodium channel regulator activity transporter regulator activity channel inhibitor activity calcium channel regulator activity toxin activity	biological process involved in interspecies interaction between organisms venom-mediated perturbation of voltage-gated sodium channel activity venom-mediated perturbation of ion channel activity venom-mediated perturbation of biological process venom-mediated inhibition of voltage-gated sodium channel activity modulation of process of another organism	cellular anatomical structure extracellular region extracellular space
B, F	Antibody Fab fragment light chain	-	-	-
A, E	Antibody Fab fragment heavy chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, D	IPR013140	Huwentoxin, conserved site-1	Conserved Site
C, D	IPR011696	Huwentoxin-1 family	Family

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A, E	PCA	Parent Component: GLN RESID: AA0031 PSI-MOD : 2-pyrrolidone-5-carboxylic acid (Gln) MOD:00040 , 2-pyrrolidone-5-carboxylic acid (Glu) MOD:00420

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.