6X6H

Structure of Shiga toxin 2 with a C-terminal peptide of ribosomal P stalk proteins

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth A1]	SCOP2 Family	Shiga toxin A-chain	8097213	4002413	SCOP2 (2022-06-29)
A [auth A1]	SCOP2 Superfamily	Ribosome inactivating proteins (RIP)	8097214	3001164	SCOP2 (2022-06-29)
E [auth D]	SCOP2B Superfamily	Bacterial enterotoxins	8099974	3000434	SCOP2B (2022-06-29)
F [auth E]	SCOP2B Superfamily	Bacterial enterotoxins	8099974	3000434	SCOP2B (2022-06-29)
G [auth F]	SCOP2B Superfamily	Bacterial enterotoxins	8099974	3000434	SCOP2B (2022-06-29)
C [auth B]	SCOP2B Superfamily	Bacterial enterotoxins	8099974	3000434	SCOP2B (2022-06-29)
D [auth C]	SCOP2B Superfamily	Bacterial enterotoxins	8099974	3000434	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
E [auth D]	PF02258	e6x6hD1	A: beta barrels	X: OB-fold	H: Bacterial enterotoxins (From Topology)	T: Bacterial enterotoxins	F: PF02258	ECOD (1.6)
F [auth E]	PF02258	e6x6hE1	A: beta barrels	X: OB-fold	H: Bacterial enterotoxins (From Topology)	T: Bacterial enterotoxins	F: PF02258	ECOD (1.6)
G [auth F]	PF02258	e6x6hF1	A: beta barrels	X: OB-fold	H: Bacterial enterotoxins (From Topology)	T: Bacterial enterotoxins	F: PF02258	ECOD (1.6)
C [auth B]	PF02258	e6x6hB1	A: beta barrels	X: OB-fold	H: Bacterial enterotoxins (From Topology)	T: Bacterial enterotoxins	F: PF02258	ECOD (1.6)
D [auth C]	PF02258	e6x6hC1	A: beta barrels	X: OB-fold	H: Bacterial enterotoxins (From Topology)	T: Bacterial enterotoxins	F: PF02258	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth A1]	PF00161	Ribosome inactivating protein (RIP)	Ribosome inactivating protein	-	Domain
C [auth B], D [auth C], E [auth D], F [auth E], G [auth F]	PF02258	Shiga-like toxin beta subunit (SLT_beta)	Shiga-like toxin beta subunit	This family represents the B subunit of shiga-like toxin (SLT or verotoxin) produced by some strains of E.coli associated with hemorrhagic colitis and hemolytic uremic syndrome. SLT's are composed of one enzymatic A subunit and five cell binding B s ...	This family represents the B subunit of shiga-like toxin (SLT or verotoxin) produced by some strains of E.coli associated with hemorrhagic colitis and hemolytic uremic syndrome. SLT's are composed of one enzymatic A subunit and five cell binding B subunits.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth A1]	rRNA N-glycosylase	hydrolase activity, acting on glycosyl bonds rRNA N-glycosylase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid hydrolase activity catalytic activity, acting on a rRNA catalytic activity RNA glycosylase activity hydrolase activity, hydrolyzing N-glycosyl compounds toxin activity	regulation of cellular process cellular biosynthetic process organonitrogen compound biosynthetic process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process post-transcriptional regulation of gene expression negative regulation of translation organic substance metabolic process organic substance biosynthetic process negative regulation of cellular process protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of cellular process cellular biosynthetic process organonitrogen compound biosynthetic process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process post-transcriptional regulation of gene expression negative regulation of translation organic substance metabolic process organic substance biosynthetic process negative regulation of cellular process protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process organonitrogen compound metabolic process cellular metabolic process regulation of protein metabolic process negative regulation of metabolic process biological regulation regulation of cellular metabolic process primary metabolic process regulation of macromolecule metabolic process gene expression translation macromolecule biosynthetic process negative regulation of cellular biosynthetic process regulation of cellular biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process regulation of translation negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process	-
B [auth A2]	rRNA N-glycosylase	hydrolase activity, acting on glycosyl bonds rRNA N-glycosylase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid hydrolase activity catalytic activity, acting on a rRNA catalytic activity RNA glycosylase activity hydrolase activity, hydrolyzing N-glycosyl compounds toxin activity	regulation of cellular process cellular biosynthetic process organonitrogen compound biosynthetic process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process post-transcriptional regulation of gene expression negative regulation of translation organic substance metabolic process organic substance biosynthetic process negative regulation of cellular process protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of cellular process cellular biosynthetic process organonitrogen compound biosynthetic process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process post-transcriptional regulation of gene expression negative regulation of translation organic substance metabolic process organic substance biosynthetic process negative regulation of cellular process protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process organonitrogen compound metabolic process cellular metabolic process regulation of protein metabolic process negative regulation of metabolic process biological regulation regulation of cellular metabolic process primary metabolic process regulation of macromolecule metabolic process gene expression translation macromolecule biosynthetic process negative regulation of cellular biosynthetic process regulation of cellular biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process regulation of translation negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process	-
C [auth B], D [auth C], E [auth D], F [auth E], G [auth F]	Shiga toxin 2 B subunit	-	biological process involved in interspecies interaction between organisms symbiont-mediated cytolysis of host cell disruption of cell in another organism hemolysis by symbiont of host erythrocytes cytolysis biological process involved in interaction with host biological process involved in symbiotic interaction cytolysis in another organism cellular process disruption of anatomical structure in another organism symbiont-mediated killing of host cell killing of cells of another organism cell killing	extracellular region cellular anatomical entity
H [auth P]	P11 peptide	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth A1]	IPR036041	Ribosome-inactivating protein superfamily	Homologous Superfamily
A [auth A1]	IPR016331	Shiga-like toxin, subunit A	Family
A [auth A1]	IPR017988	Ribosome-inactivating protein conserved site	Conserved Site
A [auth A1]	IPR016139	Ribosome-inactivating protein, subdomain 2	Homologous Superfamily
A [auth A1]	IPR016138	Ribosome-inactivating protein, subdomain 1	Homologous Superfamily
A [auth A1]	IPR001574	Ribosome-inactivating protein	Family
B [auth A2]	IPR036041	Ribosome-inactivating protein superfamily	Homologous Superfamily
B [auth A2]	IPR016331	Shiga-like toxin, subunit A	Family
B [auth A2]	IPR017988	Ribosome-inactivating protein conserved site	Conserved Site
B [auth A2]	IPR016139	Ribosome-inactivating protein, subdomain 2	Homologous Superfamily
B [auth A2]	IPR016138	Ribosome-inactivating protein, subdomain 1	Homologous Superfamily
B [auth A2]	IPR001574	Ribosome-inactivating protein	Family
C [auth B], D [auth C], E [auth D], F [auth E], G [auth F]	IPR008992	Enterotoxin	Homologous Superfamily
C [auth B], D [auth C], E [auth D], F [auth E], G [auth F]	IPR003189	Shiga-like toxin, beta subunit	Family

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.