1D12

STRUCTURAL COMPARISON OF ANTICANCER DRUG-DNA COMPLEXES. ADRIAMYCIN AND DAUNOMYCIN

Structural Biology Knowledgebase: 1D12 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Observed: 0.177

Literature

Macromolecules
Sequence Display for 1D12

Classification: DNA

Total Structure Weight: 2578.09

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

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
DM2
Query on DM2

A DOXORUBICIN
ADRIAMYCIN (Synonym)
C27 H29 N O11
AOJJSUZBOXZQNB-TZSSRYMLSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SPM
Query on SPM

A SPERMINE
C10 H26 N4
PFNFFQXMRSDOHW-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

A SODIUM ION
Na
FKNQFGJONOIPTF-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: 0.177
  • Space Group: P 41 21 2

Unit Cell:

Length (Å) Angle (°)
a = 28.21 α = 90.00
b = 28.21 β = 90.00
c = 53.19 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 1989-10-20
  • Released Date: 1990-10-15
  • Deposition author(s): Frederick, C.A., Williams, L.D., Ughetto, G., Van Der Marel, G.A., Van Boom, J.H., Rich, A., Wang, A.H.-J.

Revision History

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