› 2d3o

X-ray diffraction
3.35Å resolution

Structure of Ribosome Binding Domain of the Trigger Factor on the 50S ribosomal subunit from D. radiodurans

Released:
DOI: 10.2210/pdb2d3o/pdb
PDB entry 2d3o coloured by chain, front view.
PDB entry 2d3o coloured by chain, side view.
PDB entry 2d3o coloured by chain, top view.
Source organism: Deinococcus radiodurans
Primary publication:
The binding mode of the trigger factor on the ribosome: implications for protein folding and SRP interaction.
Schlünzen F, Wilson DN, Tian P, Harms JM, McInnes SJ, Hansen HA, Albrecht R, Buerger J, Wilbanks SM, Fucini P
Structure 13 1685-94 (2005)
PMID: 16271892

Function and Biology Details

Reaction catalysed: 
Peptidylproline (omega=180) = peptidylproline (omega=0)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
PDBe Complex ID:
PDB-CPX-193260 (preferred)
Entry contents:
4 distinct polypeptide molecules
1 distinct RNA molecule
Macromolecules (5 distinct):
Large ribosomal subunit protein uL23 Chain: R
Molecule details ›
Chain: R
Length: 95 amino acids
Theoretical weight: 10.54 KDa
Source organism: Deinococcus radiodurans
UniProt:
  • Canonical: Q9RXK0 (Residues: 1-95; Coverage: 100%)
Gene names: DR_0313, rplW
Sequence domains: Ribosomal protein L23
Structure domains: Alpha-Beta Plaits
Large ribosomal subunit protein uL24 Chain: S
Molecule details ›
Chain: S
Length: 115 amino acids
Theoretical weight: 12.38 KDa
Source organism: Deinococcus radiodurans
UniProt:
  • Canonical: Q9RXJ1 (Residues: 1-115; Coverage: 100%)
Gene names: DR_0322, rplX
Sequence domains:
Large ribosomal subunit protein uL29 Chain: W
Molecule details ›
Chain: W
Length: 67 amino acids
Theoretical weight: 7.77 KDa
Source organism: Deinococcus radiodurans
UniProt:
  • Canonical: Q9RXJ4 (Residues: 1-67; Coverage: 100%)
Gene names: DR_0319, rpmC
Sequence domains: Ribosomal L29 protein
Structure domains: Helix Hairpins
Trigger factor Chain: 1
Molecule details ›
Chain: 1
Length: 112 amino acids
Theoretical weight: 12.49 KDa
Source organism: Deinococcus radiodurans
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9RT21 (Residues: 1-112; Coverage: 24%)
Gene names: DR_1948, tig
Sequence domains: Bacterial trigger factor protein (TF)
Structure domains: Trigger factor ribosome-binding domain
23S ribosomal RNA Chain: 0
Molecule details ›
Chain: 0
Length: 2880 nucleotides
Theoretical weight: 933.41 KDa
Sequence domains: Bacterial large subunit ribosomal RNA

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06SA
Spacegroup: I222
Unit cell:
a: 169.5Å b: 410.5Å c: 695.2Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.299 0.299 0.322
Expression system: Escherichia coli

Quick links

Citations

18 review citations

Molecular chaperone functions in protein folding and proteostasis.
Kim et al. (2013)
17 more

6 mentions without citation

A growing toolbox of techniques for studying β-barrel outer membrane protein folding and biogenesis.
Horne et al. (2016)
5 more