› 3co3

X-ray diffraction
2.16Å resolution

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

Released:
DOI: 10.2210/pdb3co3/pdb
PDB entry 3co3 coloured by chain, front view.
PDB entry 3co3 coloured by chain, side view.
PDB entry 3co3 coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
cis-Diammine(pyridine)chloroplatinum(II), a monofunctional platinum(II) antitumor agent: Uptake, structure, function, and prospects.
Lovejoy KS, Todd RC, Zhang S, McCormick MS, D'Aquino JA, Reardon JT, Sancar A, Giacomini KM, Lippard SJ
Proc Natl Acad Sci U S A 105 8902-7 (2008)
PMID: 18579768

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-116145 (preferred)
Entry contents:
2 distinct DNA molecules
Macromolecules (2 distinct):
5'-D(*DCP*DCP*DTP*DCP*DTP*DCP*DGP*DTP*DCP*DTP*DCP*DC)-3' Chain: A
Molecule details ›
Chain: A
Length: 12 nucleotides
Theoretical weight: 3.53 KDa
Source organism: Synthetic construct
Expression system: Not provided
5'-D(*DGP*DGP*DAP*DGP*DAP*DCP*DGP*DAP*DGP*DAP*DGP*DG)-3' Chain: B
Molecule details ›
Chain: B
Length: 12 nucleotides
Theoretical weight: 3.8 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand C7P 1 x C7P
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-C, SSRL BEAMLINE BL9-2
Spacegroup: C2221
Unit cell:
a: 46.44Å b: 66.01Å c: 56.05Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.248 0.225 0.254
Expression system: Not provided

Quick links

Citations

17 review citations

Inhibition of transcription by platinum antitumor compounds.
Todd et al. (2009)
16 more

10 mentions without citation

The Next Generation of Platinum Drugs: Targeted Pt(II) Agents, Nanoparticle Delivery, and Pt(IV) Prodrugs.
Johnstone et al. (2016)
9 more