› 1d3r

X-ray diffraction
1.8Å resolution

CRYSTAL STRUCTURE OF TRIPLEX DNA

Released:
DOI: 10.2210/pdb1d3r/pdb
PDB entry 1d3r coloured by chain, front view.
PDB entry 1d3r coloured by chain, side view.
PDB entry 1d3r coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
Structure of a triple helical DNA with a triplex-duplex junction.
Rhee S, Han Zj, Liu K, Miles HT, Davies DR
Biochemistry 38 16810-5 (1999)
PMID: 10606513

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-113600 (preferred)
Entry contents:
2 distinct DNA molecules
Macromolecules (2 distinct):
DNA (5'-D(*CP*(BRU)P*CP*CP*(BRU)P*CP*CP*GP*CP*GP*CP*G)-3') Chains: A, C
Molecule details ›
Chains: A, C
Length: 12 nucleotides
Theoretical weight: 3.71 KDa
Source organism: Synthetic construct
Expression system: Not provided
DNA (5'-D(*CP*GP*CP*GP*CP*GP*GP*AP*G)-3') Chains: B, D
Molecule details ›
Chains: B, D
Length: 9 nucleotides
Theoretical weight: 2.78 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

No bound ligands
1 modified residue:
Ligand BRU 4 x BRU

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X9B
Spacegroup: P42
Unit cell:
a: 53.8Å b: 53.8Å c: 43.1Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.21 0.21 0.275
Expression system: Not provided

Quick links

Citations

4 review citations

DNA-binding drugs caught in action: the latest 3D pictures of drug-DNA complexes.
Boer et al. (2009)
3 more

3 mentions without citation

Three's a crowd - stabilisation, structure, and applications of DNA triplexes.
Dalla Pozza et al. (2022)
2 more