4DA3

Crystal structure of an intramolecular human telomeric DNA G-quadruplex 21-mer bound by the naphthalene diimide compound MM41.

Structural Biology Knowledgebase: 4DA3 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.282
  • R-Value Work: 0.242

Literature

Macromolecules
Sequence Display for 4DA3

Classification: DNA

Total Structure Weight: 7618.71

Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*GP*GP*GP*TP*TP*AP*GP*GP*GP*TP*TP*AP*GP*GP*GP*TP*TP*AP*GP*GP*G)-3') A 21 Synthetic construct

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
0DX
Query on 0DX

A 4,9-bis{[3-(4-methylpiperazin-1-yl)propyl]amino}- 2,7-bis[3-(morpholin-4-yl)propyl]benzo[lmn][3,8]phenanthroline- 1,3,6,8(2H,7H)-tetrone
C44 H66 N10 O6
JOVJRDSWNCUWBX-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: 2.4 Å
  • R-Value Free: 0.282
  • R-Value Work: 0.242
  • Space Group: P 31 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 51.31 α = 90.00
b = 51.31 β = 90.00
c = 51.94 γ = 120.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2012-01-12
  • Released Date: 2013-01-30
  • Deposition author(s): Collie, G.W., Neidle, S.

Revision History

  • 2013-04-24
    Type: Citation | Details: Citation update
  • 2013-04-03
    Type: Citation | Details: Citation update