› 4e1u

X-ray diffraction
0.92Å resolution

[Ru(bpy)2 dppz]2+ bound to DNA

Released:
DOI: 10.2210/pdb4e1u/pdb
PDB entry 4e1u coloured by chain, front view.
PDB entry 4e1u coloured by chain, side view.
PDB entry 4e1u coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
Crystal structure of Δ-[Ru(bpy)₂dppz]²⁺ bound to mismatched DNA reveals side-by-side metalloinsertion and intercalation.
Song H, Kaiser JT, Barton JK
Nat Chem 4 615-20 (2012)
PMID: 22824892

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-117375 (preferred)
Entry contents:
1 distinct DNA molecule
Macromolecule:
5'-D(*CP*GP*GP*AP*AP*AP*TP*TP*AP*CP*CP*G)-3' Chains: A, B
Molecule details ›
Chains: A, B
Length: 12 nucleotides
Theoretical weight: 3.67 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand R1Z 5 x R1Z
Ligand BA 2 x BA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL12-2
Spacegroup: P1
Unit cell:
a: 24.039Å b: 24.797Å c: 37.521Å
α: 74.67° β: 84.42° γ: 76.21°
R-values:
R R work R free
0.14 0.14 0.149
Expression system: Not provided

Quick links

Citations

12 review citations

The development of anticancer ruthenium(ii) complexes: from single molecule compounds to nanomaterials.
Zeng et al. (2017)
11 more

11 mentions without citation

A survey of recent unusual high-resolution DNA structures provoked by mismatches, repeats and ligand binding.
Satange et al. (2018)
10 more