2AV5 | pdb_00002av5

Crystal structure of Pyrococcus furiosus Pop5, an archaeal Ribonuclease P protein

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	d2av5a1	Alpha and beta proteins (a+b)	Ferredoxin-like	Rnp2-like	Rpp14/Pop5-like	RNase P protein component 2, Rnp2	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
B	d2av5b_	Alpha and beta proteins (a+b)	Ferredoxin-like	Rnp2-like	Rpp14/Pop5-like	RNase P protein component 2, Rnp2	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
C	d2av5c_	Alpha and beta proteins (a+b)	Ferredoxin-like	Rnp2-like	Rpp14/Pop5-like	RNase P protein component 2, Rnp2	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
D	d2av5d_	Alpha and beta proteins (a+b)	Ferredoxin-like	Rnp2-like	Rpp14/Pop5-like	RNase P protein component 2, Rnp2	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)
E	d2av5e_	Alpha and beta proteins (a+b)	Ferredoxin-like	Rnp2-like	Rpp14/Pop5-like	RNase P protein component 2, Rnp2	(Pyrococcus furiosus ) [TaxId: 2261 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Rpp14/Pop5-like	8021114	4001975	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Rnp2-like	8033494	3000630	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Rnp2-like	8033494	3000630	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Rnp2-like	8033494	3000630	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Rnp2-like	8033494	3000630	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Rnp2-like	8033494	3000630	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	RNase_P_Rpp14	e2av5A1	A: a+b two layers	X: Alpha-beta plaits	H: Rpp14/Pop5-like (From Topology)	T: Rpp14/Pop5-like	F: RNase_P_Rpp14	ECOD (1.6)
B	RNase_P_Rpp14	e2av5B1	A: a+b two layers	X: Alpha-beta plaits	H: Rpp14/Pop5-like (From Topology)	T: Rpp14/Pop5-like	F: RNase_P_Rpp14	ECOD (1.6)
C	RNase_P_Rpp14	e2av5C1	A: a+b two layers	X: Alpha-beta plaits	H: Rpp14/Pop5-like (From Topology)	T: Rpp14/Pop5-like	F: RNase_P_Rpp14	ECOD (1.6)
D	RNase_P_Rpp14	e2av5D1	A: a+b two layers	X: Alpha-beta plaits	H: Rpp14/Pop5-like (From Topology)	T: Rpp14/Pop5-like	F: RNase_P_Rpp14	ECOD (1.6)
E	RNase_P_Rpp14	e2av5E1	A: a+b two layers	X: Alpha-beta plaits	H: Rpp14/Pop5-like (From Topology)	T: Rpp14/Pop5-like	F: RNase_P_Rpp14	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.70.3250	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Ribonuclease P, Pop5 subunit	CATH (4.3.0)
B	3.30.70.3250	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Ribonuclease P, Pop5 subunit	CATH (4.3.0)
C	3.30.70.3250	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Ribonuclease P, Pop5 subunit	CATH (4.3.0)
D	3.30.70.3250	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Ribonuclease P, Pop5 subunit	CATH (4.3.0)
E	3.30.70.3250	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Ribonuclease P, Pop5 subunit	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E	PF01900	Rpp14/Pop5 family (RNase_P_Rpp14)	Rpp14/Pop5 family	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E	Ribonuclease P protein component 2	tRNA-specific ribonuclease activity endonuclease activity RNA endonuclease activity, producing 5'-phosphomonoesters catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA nuclease activity hydrolase activity catalytic activity, acting on a tRNA nuclease activity hydrolase activity, acting on ester bonds RNA endonuclease activity ribonuclease P activity catalytic activity	RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process tRNA metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process biosynthetic process tRNA processing RNA 5'-end processing metabolic process RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process tRNA metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process biosynthetic process tRNA processing RNA 5'-end processing metabolic process cellular process macromolecule metabolic process RNA processing tRNA 5'-leader removal tRNA 5'-end processing	cellular anatomical structure intracellular anatomical structure cytoplasm protein-containing complex endoribonuclease complex catalytic complex ribonuclease P complex ribonucleoprotein complex intracellular protein-containing complex endonuclease complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E	IPR002759	RNase P subunit Pop5/Rpp14/Rnp2-like	Family
A, B, C, D, E	IPR016434	Ribonuclease P protein subunit Rnp2, archaea	Family
A, B, C, D, E	IPR038085	RNase P subunit Pop5/Rpp14/Rnp2-like domain 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.