5OB3

iSpinach aptamer


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.223
  • R-Value Work: 0.198

Literature

Macromolecules
Sequence Display for 5OB3

Classification: RNA

Total Structure Weight: 22908.01

Macromolecule Entities
Molecule Chains Length Organism Details
RNA aptamer (69-MER) A 69 Synthetic construct

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
1TU
Query on 1TU

A 4-(3,5-difluoro-4-hydroxybenzyl)-1,2-dimethyl- 1H-imidazol-5-ol
C12 H12 F2 N2 O2
MSZRPLCUVKFQJC-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SPM
Query on SPM

A SPERMINE
C10 H26 N4
PFNFFQXMRSDOHW-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
K
Query on K

A POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.223
  • R-Value Work: 0.198
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 150.70 α = 90.00
b = 48.50 β = 91.86
c = 30.10 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2017-06-26
  • Released Date: 2017-10-04
  • Deposition author(s): Fernandez-Millan, P., Autour, A., Westhof, E., Ryckelynck, M.

Revision History

  • Version 1_0: 2017-10-04

    Type: Initial release

  • Version 1_1: 2017-10-11

    Type: Database references

  • Version 1_2: 2017-11-29

    Type: Database references