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)
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)
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)
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)
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)
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)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
E	SCOP2B Superfamily	Rnp2-like	8033494	3000630	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Rnp2-like	8033494	3000630	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Rnp2-like	8033494	3000630	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Rnp2-like	8033494	3000630	SCOP2B (2022-06-29)
A	SCOP2 Family	Rpp14/Pop5-like	8021114	4001975	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Rnp2-like	8033494	3000630	SCOP2 (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		e2av5E1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: Fer4,DUF3470	F:	ECOD (20:10:01)
D		e2av5D1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: Fer4,DUF3470	F:	ECOD (20:10:01)
C		e2av5C1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: Fer4,DUF3470	F:	ECOD (20:10:01)
B		e2av5B1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: Fer4,DUF3470	F:	ECOD (20:10:01)
A		e2av5A1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: Fer4,DUF3470	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
E	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)
C	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)
A	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, hydrolytic mechanism catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA nuclease activity catalytic activity, acting on a tRNA hydrolase activity 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	Rnp2_archaea	Unknown
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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.