7onu

Electron Microscopy
3Å resolution

Structure of human mitochondrial RNase P in complex with mitochondrial pre-tRNA-Tyr

Released:
Source organism: Homo sapiens
Primary publication:
Structural basis of RNA processing by human mitochondrial RNase P.
Nat Struct Mol Biol 28 713-723 (2021)
PMID: 34489609
Related structures: EMD-13002

Function and Biology Details

Reactions catalysed:
3-alpha,7-alpha,12-alpha-trihydroxy-5-beta-cholanate + NAD(+) = 3-alpha,12-alpha-dihydroxy-7-oxo-5-beta-cholanate + NADH
(2S,3S)-3-hydroxy-2-methylbutanoyl-CoA + NAD(+) = 2-methylacetoacetyl-CoA + NADH
Testosterone + NAD(+) = androstenedione + NADH
(S)-3-hydroxyacyl-CoA + NAD(+) = 3-oxoacyl-CoA + NADH
Androstan-3-alpha,17-beta-diol + NAD(+) = 17-beta-hydroxyandrostan-3-one + NADH
17-beta-estradiol + NAD(P)(+) = estrone + NAD(P)H
Endonucleolytic cleavage of RNA, removing 5'-extranucleotides from tRNA precursor.
S-adenosyl-L-methionine + adenine(9) in tRNA = S-adenosyl-L-homocysteine + N(1)-methyladenine(9) in tRNA
S-adenosyl-L-methionine + guanine(9) in tRNA = S-adenosyl-L-homocysteine + N(1)-methylguanine(9) in tRNA
Biochemical function:
Cellular component:

Structure analysis Details

Assembly composition:
hetero heptamer (preferred)
PDBe Complex ID:
PDB-CPX-127288 (preferred)
Entry contents:
3 distinct polypeptide molecules
1 distinct RNA molecule
Macromolecules (4 distinct):
3-hydroxyacyl-CoA dehydrogenase type-2 Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 261 amino acids
Theoretical weight: 26.95 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q99714 (Residues: 1-261; Coverage: 100%)
Gene names: ERAB, HADH2, HSD17B10, MRPP2, SCHAD, SDR5C1, XH98G2
Sequence domains: short chain dehydrogenase
Mitochondrial ribonuclease P catalytic subunit Chain: E
Molecule details ›
Chain: E
Length: 541 amino acids
Theoretical weight: 62.46 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: O15091 (Residues: 46-583; Coverage: 92%)
Gene names: KIAA0391, MRPP3, PRORP
Sequence domains: Protein-only RNase P
tRNA methyltransferase 10 homolog C Chain: F
Molecule details ›
Chain: F
Length: 367 amino acids
Theoretical weight: 42.94 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q7L0Y3 (Residues: 40-403; Coverage: 90%)
Gene names: MRPP1, RG9MTD1, TRMT10C
Sequence domains: tRNA (Guanine-1)-methyltransferase
Mitochondrial Precursor tRNA-Tyr Chain: T
Molecule details ›
Chain: T
Length: 128 nucleotides
Theoretical weight: 41.49 KDa
Sequence domains: tRNA

Ligands and Environments


Cofactor: Ligand NAD 4 x NAD
2 bound ligands:
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution:
Relevant EMDB volumes: EMD-13002
Expression system: Escherichia coli BL21