› 376d

X-ray diffraction
2.1Å resolution

A ZIPPER-LIKE DNA DUPLEX D(GCGAAAGCT)

Released:
DOI: 10.2210/pdb376d/pdb
PDB entry 376d coloured by chain, front view.
PDB entry 376d coloured by chain, side view.
PDB entry 376d coloured by chain, top view.
Source organism: Unidentified
Primary publication:
A zipper-like duplex in DNA: the crystal structure of d(GCGAAAGCT) at 2.1 A resolution.
Shepard W, Cruse WB, Fourme R, de la Fortelle E, Prangé T
Structure 6 849-61 (1998)
PMID: 9687367

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-116036 (preferred)
Entry contents:
1 distinct DNA molecule
Macromolecule:
DNA (5'-D(*GP*(CBR)P*GP*AP*AP*AP*GP*CP*T)-3') Chain: A
Molecule details ›
Chain: A
Length: 9 nucleotides
Theoretical weight: 2.84 KDa
Source organism: Unidentified
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand NCO 1 x NCO
1 modified residue:
Ligand CBR 1 x CBR

Experiments and Validation Details

Entry percentile scores
X-ray source: LURE BEAMLINE DW21B
Spacegroup: P6322
Unit cell:
a: 37.56Å b: 37.56Å c: 65.39Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.189 0.189 0.241
Expression system: Not provided

Quick links

Citations

3 review citations

Electronic properties, hydrogen bonding, stacking, and cation binding of DNA and RNA bases.
Sponer et al. (2001)
2 more

1 mention without citation

On the Importance of Halogen and Chalcogen Bonds in the Solid State of Nucleic Acids: A Combined Crystallographic and Theoretical Perspective.
Piña et al. (2023)