1NAB

The crystal structure of the complex between a disaccharide anthracycline and the DNA hexamer d(CGATCG) reveals two different binding sites involving two DNA duplexes


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.15 Å
  • R-Value Free: 0.233
  • R-Value Work: 0.224

Literature

Macromolecules
Sequence Display for 1NAB

Classification: DNA

Total Structure Weight: 4905.70

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

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
44D
Query on 44D

A, B 7-[5-(4-AMINO-5-HYDROXY-6-METHYL-TETRAHYDRO- PYRAN-2-YLOXY)-4-HYDROXY-6-METHYL-TETRAHYDRO- PYRAN-2-YLOXY]-6,9,11-TRIHYDROXY-9-(2-HYDROXY- ACETYL)-7,8,9,10-TETRAHYDRO-NAPHTHACENE-5,12- DIONE
4'-(O-ALPHA-L-DAUNOSAMINYL)-4-DEMETHOXYDOXORUBICIN (Synonym)
C32 H37 N O13
VQHRZZISQVWPLK-UIRGBLDSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.15 Å
  • R-Value Free: 0.233
  • R-Value Work: 0.224
  • Space Group: P 43 21 2

Unit Cell:

Length (Å) Angle (°)
a = 37.81 α = 90.00
b = 37.81 β = 90.00
c = 63.02 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-11-27
  • Released Date: 2003-02-25
  • Deposition author(s): Temperini, C., Messori, L., Orioli, P., Di Bugno, C., Animati, F., Ughetto, G.

Revision History

  • Version 1_0: 2003-02-25

    Type: Initial release

  • Version 1_1: 2008-04-28

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance

  • Version 1_3: 2012-02-08

    Type: Derived calculations