2A8K

Structural and Mutational Studies of the Catalytic Domain of Colicin E5a tRNA-Specific Ribonuclease

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product 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)
A	d2a8ka1	Alpha and beta proteins (a+b)	Colicin D/E5 nuclease domain	Colicin D/E5 nuclease domain	Colicin E5 nuclease domain	Colicin E5	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d2a8kb_	Alpha and beta proteins (a+b)	Colicin D/E5 nuclease domain	Colicin D/E5 nuclease domain	Colicin E5 nuclease domain	Colicin E5	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
D	d2a8kd_	Alpha and beta proteins (a+b)	Colicin D/E5 nuclease domain	Colicin D/E5 nuclease domain	Colicin E5 nuclease domain	Colicin E5	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
C	d2a8kc_	Alpha and beta proteins (a+b)	Colicin D/E5 nuclease domain	Colicin D/E5 nuclease domain	Colicin E5 nuclease domain	Colicin E5	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Colicin D/E5 nuclease domain	8040946	3001283	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Colicin D/E5 nuclease domain	8040946	3001283	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Colicin D/E5 nuclease domain	8040946	3001283	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Colicin D/E5 nuclease domain	8040946	3001283	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)
A	Colicin_E5	e2a8kA1	A: a+b two layers	X: Microbial ribonucleases-like	H: Colicin D nuclease domain (From Topology)	T: Colicin D nuclease domain	F: Colicin_E5	ECOD (1.6)
B	Colicin_E5	e2a8kB1	A: a+b two layers	X: Microbial ribonucleases-like	H: Colicin D nuclease domain (From Topology)	T: Colicin D nuclease domain	F: Colicin_E5	ECOD (1.6)
D	Colicin_E5	e2a8kD1	A: a+b two layers	X: Microbial ribonucleases-like	H: Colicin D nuclease domain (From Topology)	T: Colicin D nuclease domain	F: Colicin_E5	ECOD (1.6)
C	Colicin_E5	e2a8kC1	A: a+b two layers	X: Microbial ribonucleases-like	H: Colicin D nuclease domain (From Topology)	T: Colicin D nuclease domain	F: Colicin_E5	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.2310.30	Alpha Beta	2-Layer Sandwich	YaeB-like fold	Colicin E5 C-terminal ribonuclease domain (CRD)	CATH (4.3.0)
B	3.30.2310.30	Alpha Beta	2-Layer Sandwich	YaeB-like fold	Colicin E5 C-terminal ribonuclease domain (CRD)	CATH (4.3.0)
D	3.30.2310.30	Alpha Beta	2-Layer Sandwich	YaeB-like fold	Colicin E5 C-terminal ribonuclease domain (CRD)	CATH (4.3.0)
C	3.30.2310.30	Alpha Beta	2-Layer Sandwich	YaeB-like fold	Colicin E5 C-terminal ribonuclease domain (CRD)	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF12106	Colicin E5 ribonuclease domain (Colicin_E5)	Colicin E5 ribonuclease domain	Colicin is a protein produced by bacteria with Col plasmids. Its function is to attack E. coli through actions on its inner membrane ion channels or through ribonuclease or deoxyribonuclease actions. The C terminal domain is the ribonuclease domain. ...	Colicin is a protein produced by bacteria with Col plasmids. Its function is to attack E. coli through actions on its inner membrane ion channels or through ribonuclease or deoxyribonuclease actions. The C terminal domain is the ribonuclease domain. It specifically cleaves tRNA anticodons which recognise codons in the form NAY (N:any nucleotide, A:adenosine, Y:pyrimidine) which corresponds to Tyrosine, Histidine, Asparagine and Aspartic Acid. E5-CRD can be referred to as an RNA restriction enzyme that specifically recognizes and cleaves single-stranded GU sequences. [1]	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Colicin E5	endonuclease activity nuclease activity hydrolase activity, acting on ester bonds hydrolase activity catalytic activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA nuclease activity	biological process involved in interspecies interaction between organisms response to stimulus response to other organism defense response response to external stimulus response to biotic stimulus defense response to bacterium defense response to other organism response to stress response to bacterium response to external biotic stimulus cellular process disruption of cell in another organism disruption of anatomical structure in another organism biological process involved in interspecies interaction between organisms response to stimulus response to other organism defense response response to external stimulus response to biotic stimulus defense response to bacterium defense response to other organism response to stress response to bacterium response to external biotic stimulus cellular process disruption of cell in another organism disruption of anatomical structure in another organism killing of cells of another organism cell killing	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR038234	Colicin E5 ribonuclease domain superfamily	Homologous Superfamily
A, B, C, D	IPR038233	Colicin D/E5 nuclease domain superfamily	Homologous Superfamily
A, B, C, D	IPR021964	Colicin E5 ribonuclease domain	Domain

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.