› 5aff

X-ray diffraction
3.4Å resolution

Symportin 1 chaperones 5S RNP assembly during ribosome biogenesis by occupying an essential rRNA binding site

Released:
DOI: 10.2210/pdb5aff/pdb
PDB entry 5aff coloured by chain, front view.
PDB entry 5aff coloured by chain, side view.
PDB entry 5aff coloured by chain, top view.
Source organism: Thermochaetoides thermophila
Primary publication:
Symportin 1 chaperones 5S RNP assembly during ribosome biogenesis by occupying an essential rRNA-binding site.
Calviño FR, Kharde S, Ori A, Hendricks A, Wild K, Kressler D, Bange G, Hurt E, Beck M, Sinning I
Nat Commun 6 6510 (2015)
PMID: 25849277

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-124015 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
ARM-like repeat-containing protein Chain: A
Molecule details ›
Chain: A
Length: 654 amino acids
Theoretical weight: 72.16 KDa
Source organism: Thermochaetoides thermophila
Expression system: Escherichia coli
UniProt:
  • Canonical: G0S5S6 (Residues: 24-676; Coverage: 97%)
Gene name: CTHT_0033460
Large ribosomal subunit protein uL18 C-terminal eukaryotes domain-containing protein Chain: B
Molecule details ›
Chain: B
Length: 48 amino acids
Theoretical weight: 6.06 KDa
Source organism: Thermochaetoides thermophila
Expression system: Escherichia coli
UniProt:
  • Canonical: G0SEG2 (Residues: 1-41; Coverage: 14%)
Gene name: CTHT_0063640
Putative ribosomal protein Chain: C
Molecule details ›
Chain: C
Length: 173 amino acids
Theoretical weight: 20.12 KDa
Source organism: Thermochaetoides thermophila
Expression system: Escherichia coli
UniProt:
  • Canonical: G0SHQ2 (Residues: 1-173; Coverage: 100%)
Gene name: CTHT_0072970
Sequence domains:

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-2
Spacegroup: P212121
Unit cell:
a: 60.087Å b: 105.959Å c: 147.234Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.239 0.236 0.3
Expression system: Escherichia coli

Quick links

Citations

13 review citations

Ribosome assembly coming into focus.
Klinge et al. (2019)
12 more

4 mentions without citation

Placeholder factors in ribosome biogenesis: please, pave my way.
Espinar-Marchena et al. (2017)
3 more