3CO3

X-Ray Crystal Structure of a Monofunctional Platinum-DNA Adduct, cis-{Pt(NH3)2(pyridine)}2+ Bound to Deoxyguanosine in a Dodecamer Duplex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.16 Å
  • R-Value Free: 0.254
  • R-Value Work: 0.225

Literature

Macromolecules
Sequence Display for 3CO3

Classification: DNA

Total Structure Weight: 7670.48

Macromolecule Entities
Molecule Chains Length Organism Details
5'-D(*DCP*DCP*DTP*DCP*DTP*DCP*DGP*DTP*DCP*DTP*DCP*DC)-3' A 12 synthetic
5'-D(*DGP*DGP*DAP*DGP*DAP*DCP*DGP*DAP*DGP*DAP*DGP*DG)-3' B 12 synthetic

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
C7P
Query on C7P

A cis-diammine(pyridine)chloroplatinum(II)
C5 H11 Cl N3 Pt
JFCCPKJRZXSLGC-CEZONRIICQ
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.16 Å
  • R-Value Free: 0.254
  • R-Value Work: 0.225
  • Space Group: C 2 2 21

Unit Cell:

Length (Å) Angle (°)
a = 46.44 α = 90.00
b = 66.01 β = 90.00
c = 56.05 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-03-27
  • Released Date: 2008-06-10
  • Deposition author(s): Lovejoy, K.S., Todd, R.C., Zhang, S., McCormick, M.S., D'Aquino, J.A., Reardon, J.T., Sancar, A., Giacomini, K.M., Lippard, S.J.

Revision History

  • Version 1_0: 2008-06-10

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Version format compliance

  • Version 1_2: 2017-10-25

    Type: Refinement description