› 1v3n

X-ray diffraction
1.8Å resolution

Crystal structure of d(GCGAGAGC): the DNA quadruplex structure split from the octaplex

Released:
DOI: 10.2210/pdb1v3n/pdb
PDB entry 1v3n coloured by chain, front view.
PDB entry 1v3n coloured by chain, side view.
PDB entry 1v3n coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
Crystal structures of a DNA octaplex with I-motif of G-quartets and its splitting into two quadruplexes suggest a folding mechanism of eight tandem repeats.
Kondo J, Adachi W, Umeda S, Sunami T, Takénaka A
Nucleic Acids Res 32 2541-9 (2004)
PMID: 15133122

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-114714 (preferred)
Entry contents:
1 distinct DNA molecule
Macromolecule:
5'-D(*GP*(CBR)P*GP*AP*GP*AP*GP*C)-3' Chains: A, B
Molecule details ›
Chains: A, B
Length: 8 nucleotides
Theoretical weight: 2.56 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand K 1 x K
1 modified residue:
Ligand CBR 2 x CBR

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-18B
Spacegroup: I222
Unit cell:
a: 33.81Å b: 43.47Å c: 64.2Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.225 0.225 0.249
Expression system: Not provided

Quick links

Citations

3 review citations

DNA architecture: from G to Z.
Phan et al. (2006)
2 more

2 mentions without citation

DNA conformations and their sequence preferences.
Svozil et al. (2008)
1 more