› 5ob3

X-ray diffraction
2Å resolution

iSpinach aptamer

Released:
DOI: 10.2210/pdb5ob3/pdb
PDB entry 5ob3 coloured by chain, front view.
PDB entry 5ob3 coloured by chain, side view.
PDB entry 5ob3 coloured by chain, top view.
Source organism: synthetic construct
Primary publication:
Crystal structure and fluorescence properties of the iSpinach aptamer in complex with DFHBI.
Fernandez-Millan P, Autour A, Ennifar E, Westhof E, Ryckelynck M
RNA 23 1788-1795 (2017)
PMID: 28939697

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-196969 (preferred)
Entry contents:
1 distinct RNA molecule
Macromolecule:
RNA aptamer (69-MER) Chain: A
Molecule details ›
Chain: A
Length: 69 nucleotides
Theoretical weight: 22.37 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand 1TU 1 x 1TU
Ligand K 2 x K
Ligand SPM 1 x SPM
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06DA
Spacegroup: C2
Unit cell:
a: 150.7Å b: 48.5Å c: 30.1Å
α: 90° β: 91.86° γ: 90°
R-values:
R R work R free
0.2 0.198 0.223
Expression system: Not provided

Quick links

Citations

3 review citations

Light-Up RNA Aptamers and Their Cognate Fluorogens: From Their Development to Their Applications.
Bouhedda et al. (2017)
2 more

12 mentions without citation

RNA Structure and Cellular Applications of Fluorescent Light-Up Aptamers.
Neubacher et al. (2019)
11 more