› 1d39

X-ray diffraction
1.2Å resolution

COVALENT MODIFICATION OF GUANINE BASES IN DOUBLE STRANDED DNA: THE 1.2 ANGSTROMS Z-DNA STRUCTURE OF D(CGCGCG) IN THE PRESENCE OF CUCL2

Released:
DOI: 10.2210/pdb1d39/pdb
PDB entry 1d39 coloured by chain, front view.
PDB entry 1d39 coloured by chain, side view.
PDB entry 1d39 coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
Covalent modification of guanine bases in double-stranded DNA. The 1.2-A Z-DNA structure of d(CGCGCG) in the presence of CuCl2.
Kagawa TF, Geierstanger BH, Wang AH, Ho PS
J Biol Chem 266 20175-84 (1991)
PMID: 1939078

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-113599 (preferred)
Entry contents:
1 distinct DNA molecule
Macromolecule:
DNA (5'-D(*CP*(CU)GP*CP*(CU)GP*CP*(CU)G)-3') Chains: A, B
Molecule details ›
Chains: A, B
Length: 6 nucleotides
Theoretical weight: 1.81 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand CU 6 x CU
Ligand NA 1 x NA
No modified residues

Experiments and Validation Details

Entry percentile scores
Spacegroup: P212121
Unit cell:
a: 18.01Å b: 31.03Å c: 44.8Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.198 not available not available
Expression system: Not provided

Quick links

Citations

6 review citations

Mechanism of guanine-specific DNA damage by oxidative stress and its role in carcinogenesis and aging.
Kawanishi et al. (2001)
5 more

3 mentions without citation

Mg2+ ions: do they bind to nucleobase nitrogens?
Leonarski et al. (2017)
2 more