173D

MULTIPLE BINDING MODES OF ANTICANCER DRUG ACTINOMYCIN D: X-RAY, MOLECULAR MODELING, AND SPECTROSCOPIC STUDIES OF D(GAAGCTTC)2-ACTINOMYCIN D COMPLEXES AND ITS HOST DNA

Structural Biology Knowledgebase: 173D SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Observed: 0.202

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 173D

Classification: DNA / ANTIBIOTIC

Total Structure Weight: 7372.20


Macromolecule Entities
Molecule Chains Length Organism Details
ACTINOMYCIN D C, D 11 Streptomyces antibioticus
Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*GP*AP*AP*GP*CP*TP*TP*C)-3') A, B 8 synthetic

Small Molecules
Biologically Interesting Molecules 1 Unique
ID Chains Name Type/Class 2D Diagram 3D Interactions
PRD_000001 (DVA,SAR,THR,MVA,PRO,PXZ) C, D Actinomycin D Polypeptide /
Antibiotic
Ligand Explorer

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Observed: 0.202
  • Space Group: F 2 2 2

Unit Cell:

Length (Å) Angle (°)
a = 69.90 α = 90.00
b = 61.41 β = 90.00
c = 54.25 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1994-04-18
  • Released Date: 1994-10-15
  • Deposition author(s): Kamitori, S., Takusagawa, F.

Revision History

  • 2012-12-12
    Type: Other | Details: Add PRD info
  • 2012-02-15
    Type: Other | Details: --
  • 2011-07-27
    Type: Linkage | Details: Linkage
  • 2011-07-27
    Type: Sequence database correspondence | Details: Sequence database correspondence
  • 2011-07-27
    Type: Polymer description | Details: Changed inhibitor presentation or chemistry
  • 2011-07-27
    Type: Atom nomenclature | Details: Atom nomenclature
  • 2011-07-27
    Type: Binding sites and description | Details: Binding sites and description
  • 2011-07-27
    Type: Non-polymer description | Details: Non-polymer description
  • 2011-07-27
    Type: Function and keywords | Details: Function and keywords
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4