3NX5

The crystal structure of Sanguinarine bound to DNA d(CGTACG)

Structural Biology Knowledgebase: 3NX5 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.31 Å
  • R-Value Free: 0.283
  • R-Value Work: 0.252

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3NX5

Classification: DNA

Total Structure Weight: 7609.34

Macromolecule Entities
Molecule Chains Length Organism Details
5'-D(*CP*GP*TP*AP*CP*G)-3' A, B, C, D 6 synthetic

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

C 13-methyl[1,3]benzodioxolo[5,6-c][1,3]dioxolo[4,5- i]phenanthridin-13-ium
Sanguinarine (Synonym)
C20 H14 N O4
INVGWHRKADIJHF-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

D CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.31 Å
  • R-Value Free: 0.283
  • R-Value Work: 0.252
  • Space Group: P 32 2 1

Unit Cell:

Length (Å) Angle (°)
a = 29.99 α = 90.00
b = 29.99 β = 90.00
c = 119.07 γ = 120.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2010-07-13
  • Released Date: 2011-05-04
  • Deposition author(s): Ferraroni, M., Bazzicalupi, C., Gratteri, P., Bilia, A.R.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4