› 3d2v

X-ray diffraction
2Å resolution

Structure of the eukaryotic TPP-specific riboswitch bound to the antibacterial compound pyrithiamine pyrophosphate

Released:
DOI: 10.2210/pdb3d2v/pdb
PDB entry 3d2v coloured by chain, front view.
PDB entry 3d2v coloured by chain, side view.
PDB entry 3d2v coloured by chain, top view.
Source organism: Arabidopsis thaliana
Primary publication:
Structural basis of thiamine pyrophosphate analogues binding to the eukaryotic riboswitch.
Thore S, Frick C, Ban N
J Am Chem Soc 130 8116-7 (2008)
PMID: 18533652

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-195845 (preferred)
Entry contents:
1 distinct RNA molecule
Macromolecule:
TPP-specific riboswitch Chains: A, B
Molecule details ›
Chains: A, B
Length: 77 nucleotides
Theoretical weight: 24.96 KDa
Source organism: Arabidopsis thaliana
Expression system: cell-free synthesis
Sequence domains: TPP riboswitch (THI element)

Ligands and Environments

2 bound ligands:
Ligand MG 10 x MG
Ligand PYI 2 x PYI
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06SA
Spacegroup: P21212
Unit cell:
a: 74.79Å b: 110.78Å c: 55.75Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.226 0.207 0.251
Expression system: cell-free synthesis

Quick links

Citations

23 review citations

The structural and functional diversity of metabolite-binding riboswitches.
Roth et al. (2009)
22 more

15 mentions without citation

Riboswitches: discovery of drugs that target bacterial gene-regulatory RNAs.
Deigan et al. (2011)
14 more