5WZF

Crystal structure of Mycobacterium tuberculosis VapC20 (Rv2549c), Sarcin-Ricin loop cleaving toxin

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Protein Modification Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	UNK_F_TYPE	e5wzfA1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: PIN domain-like	F: UNK_F_TYPE	ECOD (1.6)
B	UNK_F_TYPE	e5wzfB1	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: PIN domain-like	F: UNK_F_TYPE	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01850	PIN domain (PIN)	PIN domain	-	Domain
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
A	23S rRNA-specific endonuclease VapC20	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding endonuclease activity nuclease activity hydrolase activity, acting on ester bonds catalytic activity, acting on RNA RNA endonuclease activity catalytic activity, acting on a nucleic acid RNA nuclease activity hydrolase activity cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding endonuclease activity nuclease activity hydrolase activity, acting on ester bonds catalytic activity, acting on RNA RNA endonuclease activity catalytic activity, acting on a nucleic acid RNA nuclease activity hydrolase activity catalytic activity	catabolic process RNA metabolic process primary metabolic process rRNA catabolic process nucleic acid metabolic process macromolecule catabolic process organic cyclic compound catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process ncRNA metabolic process nucleic acid catabolic process metabolic process catabolic process RNA metabolic process primary metabolic process rRNA catabolic process nucleic acid metabolic process macromolecule catabolic process organic cyclic compound catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process ncRNA metabolic process nucleic acid catabolic process metabolic process macromolecule metabolic process rRNA metabolic process organic substance catabolic process RNA catabolic process biological process involved in interspecies interaction between organisms modulation by symbiont of host process modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction	-
B	23S rRNA-specific endonuclease VapC20	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding endonuclease activity nuclease activity hydrolase activity, acting on ester bonds catalytic activity, acting on RNA RNA endonuclease activity catalytic activity, acting on a nucleic acid RNA nuclease activity hydrolase activity cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding endonuclease activity nuclease activity hydrolase activity, acting on ester bonds catalytic activity, acting on RNA RNA endonuclease activity catalytic activity, acting on a nucleic acid RNA nuclease activity hydrolase activity catalytic activity	catabolic process RNA metabolic process primary metabolic process rRNA catabolic process nucleic acid metabolic process macromolecule catabolic process organic cyclic compound catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process ncRNA metabolic process nucleic acid catabolic process metabolic process catabolic process RNA metabolic process primary metabolic process rRNA catabolic process nucleic acid metabolic process macromolecule catabolic process organic cyclic compound catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process ncRNA metabolic process nucleic acid catabolic process metabolic process macromolecule metabolic process rRNA metabolic process organic substance catabolic process RNA catabolic process biological process involved in interspecies interaction between organisms modulation by symbiont of host process modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR002716	PIN domain	Domain
A	IPR029060	PIN-like domain superfamily	Homologous Superfamily
A	IPR039018	Endonuclease VapC20-like	Family
A	IPR022907	VapC family	Family
B	IPR002716	PIN domain	Domain
B	IPR029060	PIN-like domain superfamily	Homologous Superfamily
B	IPR039018	Endonuclease VapC20-like	Family
B	IPR022907	VapC family	Family

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B	CSO	Parent Component: CYS RESID: AA0205 PSI-MOD : L-cysteine sulfenic acid MOD:00210

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.