› 1uhx

X-ray diffraction
2Å resolution

Crystal structure of d(GCGAGAGC): the base-intercalated duplex

Released:
DOI: 10.2210/pdb1uhx/pdb
PDB entry 1uhx coloured by chain, front view.
PDB entry 1uhx coloured by chain, side view.
PDB entry 1uhx coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
X-ray analyses of d(GCGAXAGC) containing G and T at X: the base-intercalated duplex is still stable even in point mutants at the fifth residue.
Kondo J, Umeda S, Fujita K, Sunami T, Takénaka A
J Synchrotron Radiat 11 117-20 (2004)
PMID: 14646150

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-114700 (preferred)
Entry contents:
1 distinct DNA molecule
Macromolecule:
5'-D(*GP*(CBR)P*GP*AP*GP*AP*GP*C)-3' Chain: A
Molecule details ›
Chain: A
Length: 8 nucleotides
Theoretical weight: 2.56 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

4 bound ligands:
Ligand MG 1 x MG
Ligand CL 1 x CL
Ligand NA 1 x NA
Ligand NCO 1 x NCO
1 modified residue:
Ligand CBR 1 x CBR

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-18B
Spacegroup: P6322
Unit cell:
a: 37.67Å b: 37.67Å c: 65.49Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.22 0.22 0.278
Expression system: Not provided

Quick links

Citations

1 review citation

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