› 5bjo

X-ray diffraction
2.35Å resolution

Crystal structure of the Corn RNA aptamer in complex with DFHO, site-specific 5-iodo-U

Released:
DOI: 10.2210/pdb5bjo/pdb
PDB entry 5bjo coloured by chain, front view.
PDB entry 5bjo coloured by chain, side view.
PDB entry 5bjo coloured by chain, top view.
Source organism: synthetic construct
Primary publication:
A homodimer interface without base pairs in an RNA mimic of red fluorescent protein.
Warner KD, Sjekloća L, Song W, Filonov GS, Jaffrey SR, Ferré-D'Amaré AR
Nat Chem Biol 13 1195-1201 (2017)
PMID: 28945234

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-196903 (preferred)
Entry contents:
1 distinct RNA molecule
Macromolecule:
RNA (36-MER) Chains: E, Y
Molecule details ›
Chains: E, Y
Length: 36 nucleotides
Theoretical weight: 11.92 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand K 4 x K
Ligand MG 4 x MG
Ligand 747 1 x 747
1 modified residue:
Ligand IU 2 x IU

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 5.0.2
Spacegroup: P212121
Unit cell:
a: 36.269Å b: 55.305Å c: 99.002Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.184 0.18 0.228
Expression system: Not provided

Quick links

Citations

11 review citations

Aptamers as Modular Components of Therapeutic Nucleic Acid Nanotechnology.
Panigaj et al. (2019)
10 more

14 mentions without citation

The emerging structural complexity of G-quadruplex RNAs.
Banco et al. (2021)
13 more