5LIT

Structure of the DNA duplex d(AAATTT)2 with the potential antiparasitic drug 6XV at 1.25 A resolution


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.25 Å
  • R-Value Free: 0.167
  • R-Value Work: 0.121

Literature

Macromolecules
Sequence Display for 5LIT

Classification: DNA

Total Structure Weight: 8416.43

Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*AP*AP*AP*TP*TP*T)-3') A, B, C, D 6 Synthetic construct

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
6XV
Query on 6XV

B, C, D 4-((4,5-dihydro-1H-imidazol-2-yl)amino)-N- (4-((4,5-dihydro-1H-imidazol-2-yl)amino)phenyl)benzamide dihydrochloride
C19 H21 N7 O
LDJIXMMIBFEFIF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

B, C, D 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: 1.25 Å
  • R-Value Free: 0.167
  • R-Value Work: 0.121
  • Space Group: I 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 22.33 α = 90.00
b = 40.25 β = 93.67
c = 72.42 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2016-07-15
  • Released Date: 2017-06-14
  • Deposition author(s): Millan, C.R., Dardonville, C., de Koning, H.P., Saperas, N., Lourdes Campos, J.

Revision History

  • 2017-06-21
    Type: Database references, Structure summary
  • 2017-06-28
    Type: Database references, Structure summary
  • 2017-07-05
    Type: Database references
  • 2017-09-06
    Type: Database references