› 454d

X-ray diffraction
1.2Å resolution

INTERCALATION AND MAJOR GROOVE RECOGNITION IN THE 1.2 A RESOLUTION CRYSTAL STRUCTURE OF RH[ME2TRIEN]PHI BOUND TO 5'-G(5IU)TGCAAC-3'

Released:
DOI: 10.2210/pdb454d/pdb
PDB entry 454d coloured by chain, front view.
PDB entry 454d coloured by chain, side view.
PDB entry 454d coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
Structure of a photoactive rhodium complex intercalated into DNA.
Kielkopf CL, Erkkila KE, Hudson BP, Barton JK, Rees DC
Nat Struct Biol 7 117-21 (2000)
PMID: 10655613

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-117159 (preferred)
Entry contents:
1 distinct DNA molecule
Macromolecule:
5'-D(*GP*(5IU)P*TP*GP*CP*AP*AP*C)-3' Chains: A, B, C, D, E, F, G, H, I, J
Molecule details ›
Chains: A, B, C, D, E, F, G, H, I, J
Length: 8 nucleotides
Theoretical weight: 2.54 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand RHM 5 x RHM
1 modified residue:
Ligand 5IU 10 x 5IU

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU, SSRL BEAMLINE BL9-1
Spacegroup: C2
Unit cell:
a: 94.74Å b: 23.98Å c: 96.52Å
α: 90° β: 93.24° γ: 90°
R-values:
R R work R free
0.17 0.17 0.21
Expression system: Not provided

Quick links

Citations

7 review citations

Ruthenium(II) polypyridyl complexes and DNA--from structural probes to cellular imaging and therapeutics.
Gill et al. (2012)
6 more

5 mentions without citation

Molecular methods for assessment of non-covalent metallodrug-DNA interactions.
Kellett et al. (2019)
4 more