1D38

INFLUENCE OF AGLYCONE MODIFICATIONS ON THE BINDING OF ANTHRACYCLINE DRUGS TO DNA: THE MOLECULAR STRUCTURE OF IDARUBICIN AND 4-O-DEMETHYL-11-DEOXYDOXORUBICIN COMPLEXED TO D(CGATCG)

Structural Biology Knowledgebase: 1D38 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Observed: 0.188

Literature

Macromolecules
Sequence Display for 1D38

Classification: DNA

Total Structure Weight: 2331.04

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

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
DM5
Query on DM5

A IDARUBICIN
4-DEMETHOXY-DAUNORUBICIN (Synonym)
C26 H27 N O9
XDXDZDZNSLXDNA-TZNDIEGXSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A 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: 1.7 Å
  • R-Value Observed: 0.188
  • Space Group: P 41 21 2

Unit Cell:

Length (Å) Angle (°)
a = 28.13 α = 90.00
b = 28.13 β = 90.00
c = 53.68 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 1991-04-23
  • Released Date: 1992-04-15
  • Deposition author(s): Gao, Y.-G., Wang, A.H.-J.

Revision History

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