› 2jeb

X-ray diffraction
2.4Å resolution

Structure of a 9-subunit archaeal exosome bound to Mn ions

Released:
DOI: 10.2210/pdb2jeb/pdb
PDB entry 2jeb coloured by chain, front view.
PDB entry 2jeb coloured by chain, side view.
PDB entry 2jeb coloured by chain, top view.
Source organism: Saccharolobus solfataricus
Primary publication:
RNA channelling by the archaeal exosome.
Lorentzen E, Dziembowski A, Lindner D, Seraphin B, Conti E
EMBO Rep 8 470-6 (2007)
PMID: 17380186

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
hetero nonamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-194121 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Exosome complex component Rrp42 Chain: A
Molecule details ›
Chain: A
Length: 277 amino acids
Theoretical weight: 30.42 KDa
Source organism: Saccharolobus solfataricus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9UXC0 (Residues: 1-275; Coverage: 100%)
Gene names: C20_023, SSO0732, rrp42
Sequence domains:
Structure domains: GHMP Kinase, N-terminal domain
Exosome complex component Rrp41 Chain: B
Molecule details ›
Chain: B
Length: 250 amino acids
Theoretical weight: 27.76 KDa
Source organism: Saccharolobus solfataricus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9UXC2 (Residues: 1-248; Coverage: 100%)
Gene names: SSO0735, rrp41
Sequence domains:
Structure domains: GHMP Kinase, N-terminal domain
Exosome complex component Rrp4 Chain: I
Molecule details ›
Chain: I
Length: 251 amino acids
Theoretical weight: 28.23 KDa
Source organism: Saccharolobus solfataricus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9UXC4 (Residues: 1-249; Coverage: 100%)
Gene names: C20_026, SSO0736, rrp4
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand MN 2 x MN
Ligand 1PE 1 x 1PE
Ligand CL 1 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06SA
Spacegroup: P213
Unit cell:
a: 133.64Å b: 133.64Å c: 133.64Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.201 0.198 0.258
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

22 review citations

Nucleases: diversity of structure, function and mechanism.
Yang W. (2011)
21 more

1 mention without citation

RNA channelling by the archaeal exosome.
Lorentzen et al. (2007)