5g06

Electron Microscopy
4.2Å resolution

Cryo-EM structure of yeast cytoplasmic exosome

Released:
Source organism: Saccharomyces cerevisiae
Related structures: EMD-3366

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero undecamer (preferred)
PDBe Complex ID:
PDB-CPX-150442 (preferred)
Entry contents:
11 distinct polypeptide molecules
Macromolecules (11 distinct):
Exosome complex component RRP45 Chain: A
Molecule details ›
Chain: A
Length: 305 amino acids
Theoretical weight: 34 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: Q05636 (Residues: 1-305; Coverage: 100%)
Gene names: D9954.1, RRP45, YDR280W
Sequence domains:
Exosome complex component SKI6 Chain: B
Molecule details ›
Chain: B
Length: 246 amino acids
Theoretical weight: 27.6 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P46948 (Residues: 1-246; Coverage: 100%)
Gene names: ECM20, G7587, RRP41, SKI6, YGR195W
Sequence domains:
Exosome complex component RRP43 Chain: C
Molecule details ›
Chain: C
Length: 394 amino acids
Theoretical weight: 44.09 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P25359 (Residues: 1-394; Coverage: 100%)
Gene names: RRP43, YCR035C, YCR35C, YCR522
Sequence domains: 3' exoribonuclease family, domain 1
Exosome complex component RRP46 Chain: D
Molecule details ›
Chain: D
Length: 223 amino acids
Theoretical weight: 24.43 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P53256 (Residues: 1-223; Coverage: 100%)
Gene names: RRP46, YGR095C
Sequence domains:
Exosome complex component RRP42 Chain: E
Molecule details ›
Chain: E
Length: 265 amino acids
Theoretical weight: 29.1 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: Q12277 (Residues: 1-265; Coverage: 100%)
Gene names: RRP42, YDL111C
Exosome complex component MTR3 Chain: F
Molecule details ›
Chain: F
Length: 250 amino acids
Theoretical weight: 27.59 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P48240 (Residues: 1-250; Coverage: 100%)
Gene names: G6676, MTR3, YGR158C
Sequence domains: 3' exoribonuclease family, domain 1
Exosome complex component RRP40 Chain: G
Molecule details ›
Chain: G
Length: 240 amino acids
Theoretical weight: 26.58 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: Q08285 (Residues: 1-240; Coverage: 100%)
Gene names: RRP40, YOL142W
Sequence domains:
Exosome complex component RRP4 Chain: H
Molecule details ›
Chain: H
Length: 359 amino acids
Theoretical weight: 39.47 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P38792 (Residues: 1-359; Coverage: 100%)
Gene names: RRP4, YHR069C
Sequence domains:
Exosome complex component CSL4 Chain: I
Molecule details ›
Chain: I
Length: 292 amino acids
Theoretical weight: 31.62 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P53859 (Residues: 1-292; Coverage: 100%)
Gene names: CSL4, N1154, SKI4, YNL232W
Sequence domains:
Exosome complex exonuclease DIS3 Chain: J
Molecule details ›
Chain: J
Length: 1001 amino acids
Theoretical weight: 113.86 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: Q08162 (Residues: 1-1001; Coverage: 100%)
Gene names: DIS3, O2197, RRP44, YOL021C
Sequence domains:
Superkiller protein 7 Chain: P
Molecule details ›
Chain: P
Length: 747 amino acids
Theoretical weight: 84.89 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: Q08491 (Residues: 1-747; Coverage: 100%)
Gene names: SKI7, YOR076C, YOR29-27
Sequence domains: Elongation factor Tu GTP binding domain

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 4.2Å
Relevant EMDB volumes: EMD-3366