3DBO | pdb_00003dbo

Crystal structure of a member of the VapBC family of toxin-antitoxin systems, VapBC-5, from Mycobacterium tuberculosis

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family 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)
B	PIN	e3dboB1	A: alpha bundles	X: Profilin-like	H: sensor domains	T: sensor domains	F: PIN	ECOD (develop294)
A	Flavi_NS2B	e3dboA01	A: alpha bundles	X: Caspase-like	H: Caspase-like	T: Caspase-like	F: Flavi_NS2B	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.40.50.1010	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	5'-nuclease	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	PF01850	PIN domain (PIN)	PIN domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	Uncharacterized protein	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding endonuclease activity nuclease activity catalytic activity, acting on RNA RNA endonuclease activity catalytic activity, acting on a nucleic acid RNA nuclease activity catalytic activity hydrolase activity	-	cellular anatomical structure extracellular region
A	Uncharacterized protein	binding toxic substance binding molecular sequestering activity toxin sequestering activity	positive regulation of growth regulation of growth regulation of biological process biological regulation growth positive regulation of biological process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR002716	PIN domain	Domain
B	IPR029060	PIN-like domain superfamily	Homologous Superfamily
B	IPR022907	VapC family	Family
B	IPR050556	Type II toxin-antitoxin system RNase	Family
A	IPR006442	Type II toxin-antitoxin system, antitoxin Phd/YefM	Family
A	IPR051416	phD-YefM_TA_antitoxins	Unknown
A	IPR036165	YefM-like 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.