5CKK

Crystal structure of 9DB1* deoxyribozyme


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.287
  • R-Value Work: 0.275

Literature

Macromolecules
Sequence Display for 5CKK

Classification: LIGASE

Total Structure Weight: 18556.59

Macromolecule Entities
Molecule Chains Length Organism Details
DNA (44-MER) Y 44 Synthetic construct
RNA (5'-R(P*GP*CP*AP*CP*UP*AP*GP*AP*UP*CP*GP*GP*AP*UP*G)-3') D 15 Synthetic construct

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

D, Y MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.287
  • R-Value Work: 0.275
  • Space Group: P 43 21 2

Unit Cell:

Length (Å) Angle (°)
a = 83.15 α = 90.00
b = 83.15 β = 90.00
c = 55.99 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2015-07-15
  • Released Date: 2016-01-13
  • Deposition author(s): Ponce-Salvatierra, A., Hoebartner, C., Pena, V.

Revision History

  • Version 1_0: 2016-01-13

    Type: Initial release

  • Version 1_1: 2016-01-20

    Type: Database references