1I3W

ACTINOMYCIN D BINDING TO CGATCGATCG

Structural Biology Knowledgebase: 1I3W SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Observed: 0.237

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1I3W

Classification: DNA / ANTIBIOTIC

Total Structure Weight: 17477.44


Macromolecule Entities
Molecule Chains Length Organism Details
ACTINOMYCIN D E, F, G, H 11 Streptomyces antibioticus
Macromolecule Entities
Molecule Chains Length Organism Details
5'-D(*C*GP*AP*TP*CP*GP*AP*(BRU)P*CP*GP)-3' A, B, C, D 10 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) E, F, G, H Actinomycin D Polypeptide /
Antibiotic
Ligand Explorer Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
BRU
Query on BRU
A, B, C, D DNA LINKING C9 H12 Br N2 O8 P DU

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Observed: 0.237
  • Space Group: P 43 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 47.01 α = 90.00
b = 47.01 β = 90.00
c = 160.37 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-02-17
  • Released Date: 2001-05-21
  • Deposition author(s): Robinson, H., Gao, Y.-G., Yang, X.-L., Sanishvili, R., Joachimiak, A., Wang, A.H.-J.

Revision History

  • 2012-12-12
    Type: Other | Details: Add PRD info
  • 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
  • 2011-07-27
    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
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4