6AHU | pdb_00006ahu

Cryo-EM structure of human Ribonuclease P with mature tRNA


Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
JTranspeptidasee6ahuJ1 A: alpha arraysX: N-cbl likeH: a+b domain in beta-lactamase/transpeptidase-like proteinsT: a+b domain in beta-lactamase/transpeptidase-like proteinsF: TranspeptidaseECOD (v295)
ITranspeptidasee6ahuI1 A: alpha arraysX: N-cbl likeH: a+b domain in beta-lactamase/transpeptidase-like proteinsT: a+b domain in beta-lactamase/transpeptidase-like proteinsF: TranspeptidaseECOD (v295)
HTranspeptidasee6ahuH1 A: alpha arraysX: N-cbl likeH: a+b domain in beta-lactamase/transpeptidase-like proteinsT: a+b domain in beta-lactamase/transpeptidase-like proteinsF: TranspeptidaseECOD (v295)
GTranspeptidasee6ahuG1 A: alpha arraysX: N-cbl likeH: a+b domain in beta-lactamase/transpeptidase-like proteinsT: a+b domain in beta-lactamase/transpeptidase-like proteinsF: TranspeptidaseECOD (v295)
FTranspeptidasee6ahuF1 A: alpha arraysX: N-cbl likeH: a+b domain in beta-lactamase/transpeptidase-like proteinsT: a+b domain in beta-lactamase/transpeptidase-like proteinsF: TranspeptidaseECOD (v295)
Ee6ahuE1 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF:ECOD (v295)
DTranspeptidasee6ahuD1 A: alpha arraysX: N-cbl likeH: a+b domain in beta-lactamase/transpeptidase-like proteinsT: a+b domain in beta-lactamase/transpeptidase-like proteinsF: TranspeptidaseECOD (v295)
LNADHdhe6ahuL1 A: alpha arraysX: Family A G protein-coupled receptor-likeH: Sodium/proton antiporter subunits-likeT: NADH-quinone oxidoreductase subunit 8 (Nqo8)-relatedF: NADHdhECOD (v295)
KTranspeptidasee6ahuK1 A: alpha arraysX: N-cbl likeH: a+b domain in beta-lactamase/transpeptidase-like proteinsT: a+b domain in beta-lactamase/transpeptidase-like proteinsF: TranspeptidaseECOD (v295)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
I3.20.20.140 Alpha Beta Alpha-Beta Barrel TIM Barrel Metal-dependent hydrolasesCATH (utative)
H3.30.70.3250 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits Ribonuclease P, Pop5 subunitCATH (utative)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
I, J
PF01876RNase P subunit p30 (RNase_P_p30)RNase P subunit p30This protein is part of the RNase P complex that is involved in tRNA maturation [1]. Domain
PF01900Rpp14/Pop5 family (RNase_P_Rpp14)Rpp14/Pop5 family- Family
PF12328Rpp20 subunit of nuclear RNase MRP and P (Rpp20)Rpp20 subunit of nuclear RNase MRP and P- Family
PF01918Alba (Alba)AlbaAlba is a novel chromosomal protein that coats archaeal DNA without compacting it. Domain
PF01900Rpp14/Pop5 family (RNase_P_Rpp14)Rpp14/Pop5 family- Family
PF01868Ribonuclease P/MRP, subunit p29 (RNase_P-MRP_p29)Ribonuclease P/MRP, subunit p29This family consists of several archaeal and eukaryotic proteins. The archaeal proteins are found to be expressed within ribosomal operons and several of the sequences are described as ribonuclease P protein subunit p29 proteins [1,2]. The structure ...This family consists of several archaeal and eukaryotic proteins. The archaeal proteins are found to be expressed within ribosomal operons and several of the sequences are described as ribonuclease P protein subunit p29 proteins [1,2]. The structure of the RNase P subunit, Rpp29, from Methanobacterium thermoautotrophicum has been determined. Mth Rpp29 is a member of the oligonucleotide/oligosaccharide binding fold family. It contains a structured beta-barrel core and unstructured N- and C-terminal extensions bearing several highly conserved amino acid residues that could be involved in RNA contacts in the protein-RNA complex [2]. Rpp29 catalyses the endonucleolytic cleavage of RNA, removing 5'-extranucleotides from tRNA precursor. It interacts with the Rpp25 and Pop5 subunits.
Domain
PF22770POP1 C-terminal domain (POP1_C)POP1 C-terminal domainThis entry represents the C-terminal domain of human Ribonuclease P/MRP protein subunit POP1 and similar eukaryotic sequences. POP1 is a component of Ribonuclease P that cleaves the 5' leader from precursor tRNAs. The C-terminal domain of POP1 intera ...This entry represents the C-terminal domain of human Ribonuclease P/MRP protein subunit POP1 and similar eukaryotic sequences. POP1 is a component of Ribonuclease P that cleaves the 5' leader from precursor tRNAs. The C-terminal domain of POP1 interacts with H1 RNA and has a stabilizing role. This domain adopts a beta-barrel structure that is structurally very similar to the C-terminal beta-barrel domains of eIF2 gamma, EF-Tu and tRNA thiouridylase MnmA [1].
Domain
PF08170POPLD (NUC188) domain (POPLD)POPLD (NUC188) domainThis domain is found in POP1-like nucleolar proteins [1]. Domain
PF06978Ribonucleases P/MRP protein subunit POP1, N-terminal (POP1_N)Ribonucleases P/MRP protein subunit POP1, N-terminalThis entry represents a conserved region approximately 150 residues long located towards the N-terminus of the POP1 subunit that is common to both the RNase MRP and RNase P ribonucleoproteins (EC:3.1.26.5) [1]. These RNA-containing enzymes generate m ...This entry represents a conserved region approximately 150 residues long located towards the N-terminus of the POP1 subunit that is common to both the RNase MRP and RNase P ribonucleoproteins (EC:3.1.26.5) [1]. These RNA-containing enzymes generate mature tRNA molecules by cleaving their 5' ends. This is a short N-terminal domain consisting of a small helical core and a long alpha-helix [2], which is enriched with positively charged residues involved in pre-tRNA substrate recognition [2].
Domain
PF08584Ribonuclease P 40kDa (Rpp40) subunit (Ribonuc_P_40)Ribonuclease P 40kDa (Rpp40) subunit- Family
PF04032RNAse P Rpr2/Rpp21/SNM1 subunit domain (Rpr2)RNAse P Rpr2/Rpp21/SNM1 subunit domain- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
I, J
Ribonuclease P protein subunit p30
Ribonuclease P protein subunit p14
Ribonuclease P protein subunit p20
Ribonuclease P protein subunit p25
Ribonuclease P/MRP protein subunit POP5
Ribonuclease P protein subunit p29
Ribonuclease P protein subunit p38
Ribonucleases P/MRP protein subunit POP1
M [auth T]tRNA---
Ribonuclease P protein subunit p40
Ribonuclease P protein subunit p21
H1 RNA---

InterPro: Protein Family Classification InterPro Database Homepage

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
I, J
P78346
O95059
O75817
Q9BUL9
Q969H6
O95707
P78345
Q99575
O75818
Q9H633