PDBe 6ah3

Electron Microscopy
3.48Å resolution

Cryo-EM structure of yeast Ribonuclease P with pre-tRNA substrate

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero 12-mer (preferred)
Entry contents:
9 distinct polypeptide molecules
2 distinct RNA molecules
Macromolecules (11 distinct):
Ribonucleases P/MRP protein subunit POP1 Chain: B
Molecule details ›
Chain: B
Length: 875 amino acids
Theoretical weight: 100.56 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P41812 (Residues: 1-875; Coverage: 100%)
Gene names: N1285, POP1, YNL221C
Sequence domains:
Ribonucleases P/MRP protein subunit POP3 Chain: C
Molecule details ›
Chain: C
Length: 195 amino acids
Theoretical weight: 22.64 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P53833 (Residues: 1-195; Coverage: 100%)
Gene names: N0586, POP3, YNL282W
Sequence domains: RNase P subunit Pop3
RNases MRP/P 32.9 kDa subunit Chain: D
Molecule details ›
Chain: D
Length: 279 amino acids
Theoretical weight: 32.93 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P38336 (Residues: 1-279; Coverage: 100%)
Gene names: POP4, YBR1725, YBR257W
Sequence domains: Domain of unknown function UPF0086
Ribonuclease P/MRP protein subunit POP5 Chain: E
Molecule details ›
Chain: E
Length: 173 amino acids
Theoretical weight: 19.6 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P28005 (Residues: 1-173; Coverage: 100%)
Gene names: FUN53, POP5, YAL033W
Sequence domains: Rpp14/Pop5 family
Ribonucleases P/MRP protein subunit POP6 Chain: F
Molecule details ›
Chain: F
Length: 158 amino acids
Theoretical weight: 18.23 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P53218 (Residues: 1-158; Coverage: 100%)
Gene names: POP6, YGR030C
Sequence domains: Alba
Ribonucleases P/MRP protein subunit POP7 Chain: G
Molecule details ›
Chain: G
Length: 140 amino acids
Theoretical weight: 15.84 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P38291 (Residues: 1-140; Coverage: 100%)
Gene names: POP7, RPP2, YBR1219, YBR167C
Sequence domains: Rpp20 subunit of nuclear RNase MRP and P
Ribonucleases P/MRP protein subunit POP8 Chain: H
Molecule details ›
Chain: H
Length: 133 amino acids
Theoretical weight: 15.53 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P38208 (Residues: 1-133; Coverage: 100%)
Gene names: POP8, YBL018C, YBL0301
Ribonuclease P/MRP protein subunit RPP1 Chains: I, J
Molecule details ›
Chains: I, J
Length: 293 amino acids
Theoretical weight: 32.27 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P38786 (Residues: 1-293; Coverage: 100%)
Gene names: RPP1, YHR062C
Sequence domains: RNase P subunit p30
Ribonuclease P protein subunit RPR2 Chain: K
Molecule details ›
Chain: K
Length: 144 amino acids
Theoretical weight: 16.38 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P40571 (Residues: 1-144; Coverage: 100%)
Gene names: RPR2, YIR015W
Sequence domains: RNAse P Rpr2/Rpp21/SNM1 subunit domain
Ribonuclease P RNA Chain: A
Molecule details ›
Chain: A
Length: 369 nucleotides
Theoretical weight: 118.86 KDa
Sequence domains: Nuclear RNase P
pre-tRNA Chain: T
Molecule details ›
Chain: T
Length: 80 nucleotides
Theoretical weight: 25.83 KDa
Sequence domains: tRNA

Ligands and Environments

2 bound ligands:

No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.48Å
Relevant EMDB volumes: EMD-9622