5JA8 | pdb_00005ja8

Crystal structure of the HigB2 toxin in complex with Nb2

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
SAbDab Antibody Annotation
Protein Family 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)
H	d5ja8h1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)
H	d5ja8h2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)
H	d5ja8h3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)
F	d5ja8f1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)
F	d5ja8f2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)
F	d5ja8f3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)
D	d5ja8d1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)
D	d5ja8d2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)
D	d5ja8d3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)
B	d5ja8b1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)
B	d5ja8b2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)
B	d5ja8b3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
H	KH_NusA_2nd	e5ja8H1	A: alpha bundles	X: Spectrin repeat-like	H: Spectrin repeat	T: Spectrin repeat	F: KH_NusA_2nd	ECOD (develop294)
F	KH_NusA_2nd	e5ja8F1	A: alpha bundles	X: Spectrin repeat-like	H: Spectrin repeat	T: Spectrin repeat	F: KH_NusA_2nd	ECOD (develop294)
D	KH_NusA_2nd	e5ja8D1	A: alpha bundles	X: Spectrin repeat-like	H: Spectrin repeat	T: Spectrin repeat	F: KH_NusA_2nd	ECOD (develop294)
B	KH_NusA_2nd	e5ja8B1	A: alpha bundles	X: Spectrin repeat-like	H: Spectrin repeat	T: Spectrin repeat	F: KH_NusA_2nd	ECOD (develop294)
G	V-set	e5ja8G1	A: alpha bundles	X: Spectrin repeat-like	H: Spectrin repeat	T: Spectrin repeat	F: V-set	ECOD (develop294)
E	V-set	e5ja8E1	A: alpha bundles	X: Spectrin repeat-like	H: Spectrin repeat	T: Spectrin repeat	F: V-set	ECOD (develop294)
C	AARP2CN	e5ja8C1	A: alpha bundles	X: Spectrin repeat-like	H: Spectrin repeat	T: Spectrin repeat	F: AARP2CN	ECOD (develop294)
A	V-set	e5ja8A1	A: alpha bundles	X: Spectrin repeat-like	H: Spectrin repeat	T: Spectrin repeat	F: V-set	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
F	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
D	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)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B, D, F, H	Heavy Chain	IGHV1	-	toxin higb-2	SAbDab (2026-03-20)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C, E, G	PF06296	RelE toxin of RelE / RelB toxin-antitoxin system (RelE)	RelE toxin of RelE / RelB toxin-antitoxin system	RelE is a family of Gram-negative bacterial antitoxins of the RelE/RelB toxin-antitoxin system. Its cognate antitoxin is family RelB, Pfam:PF04221.	Domain

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C, E, G	IPR009387	Toxin HigB-2	Family

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.