› 446d

X-ray diffraction
3Å resolution

STRUCTURE OF THE OLIGONUCLEOTIDE D(CGTATATACG) AS A SITE SPECIFIC COMPLEX WITH NICKEL IONS

Released:
DOI: 10.2210/pdb446d/pdb
PDB entry 446d coloured by chain, front view.
PDB entry 446d coloured by chain, side view.
PDB entry 446d coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
Structure of the oligonucleotide d(CGTATATACG) as a site-specific complex with nickel ions.
Abrescia NG, Malinina L, Fernandez LG, Huynh-Dinh T, Neidle S, Subirana JA
Nucleic Acids Res 27 1593-9 (1999)
PMID: 10075989

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-117153 (preferred)
Entry contents:
1 distinct DNA molecule
Macromolecule:
DNA (5'-D(*CP*GP*TP*AP*TP*AP*TP*AP*CP*G)-3') Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 10 nucleotides
Theoretical weight: 3.04 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand NI 9 x NI
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RU200
Spacegroup: P41212
Unit cell:
a: 52.46Å b: 52.46Å c: 101.49Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.204 0.204 0.253
Expression system: Not provided

Quick links

Citations

4 review citations

Cations as hydrogen bond donors: a view of electrostatic interactions in DNA.
Subirana et al. (2003)
3 more

2 mentions without citation

Indirect readout in drug-DNA recognition: role of sequence-dependent DNA conformation.
Araúzo-Bravo et al. (2008)
1 more