› 4ts0

X-ray diffraction
2.8Å resolution

Crystal structure of the Spinach RNA aptamer in complex with DFHBI, barium ions

Released:
DOI: 10.2210/pdb4ts0/pdb
PDB entry 4ts0 coloured by chain, front view.
PDB entry 4ts0 coloured by chain, side view.
PDB entry 4ts0 coloured by chain, top view.
Source organism: synthetic construct
Primary publication:
Structural basis for activity of highly efficient RNA mimics of green fluorescent protein.
Warner KD, Chen MC, Song W, Strack RL, Thorn A, Jaffrey SR, Ferré-D'Amaré AR
Nat Struct Mol Biol 21 658-63 (2014)
PMID: 25026079

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-196874 (preferred)
Entry contents:
2 distinct RNA molecules
Macromolecules (3 distinct):
Spinach RNA aptamer, bimolecular construct Chain: X
Molecule details ›
Chain: X
Length: 44 nucleotides
Theoretical weight: 14.39 KDa
Source organism: synthetic construct
Expression system: Not provided
Spinach RNA aptamer, bimolecular construct Chain: Y
Molecule details ›
Chain: Y
Length: 47 nucleotides
Theoretical weight: 15.22 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

Carbohydrate polymer : NEW Components: GLC, FRU
Carbohydrate polymer
3 bound ligands:
Ligand K 10 x K
Ligand BA 1 x BA
Ligand 38E 1 x 38E
1 modified residue:
Ligand CCC 2 x CCC

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 5.0.2
Spacegroup: P212121
Unit cell:
a: 39.76Å b: 49.5Å c: 186.26Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.208 0.206 0.239
Expression system: Not provided

Quick links

Citations

40 review citations

RNA Structure: Advances and Assessment of 3D Structure Prediction.
Miao et al. (2017)
39 more

12 mentions without citation

Selection and Biosensor Application of Aptamers for Small Molecules.
Pfeiffer et al. (2016)
11 more