› 1vaq

X-ray diffraction
2Å resolution

Crystal structure of the Mg2+-(chromomycin A3)2-d(TTGGCCAA)2 complex reveals GGCC binding specificity of the drug dimer chelated by metal ion

Released:
DOI: 10.2210/pdb1vaq/pdb
PDB entry 1vaq coloured by chain, front view.
PDB entry 1vaq coloured by chain, side view.
PDB entry 1vaq coloured by chain, top view.
Source organism: synthetic construct
Primary publication:
Crystal structure of the [Mg2+-(chromomycin A3)2]-d(TTGGCCAA)2 complex reveals GGCC binding specificity of the drug dimer chelated by a metal ion.
Hou MH, Robinson H, Gao YG, Wang AH
Nucleic Acids Res 32 2214-22 (2004)
PMID: 15107489

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-114718 (preferred)
Entry contents:
1 distinct DNA molecule
Macromolecules (3 distinct):
5'-D(*TP*TP*GP*GP*CP*CP*AP*A)-3' Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 8 nucleotides
Theoretical weight: 2.43 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

Carbohydrate polymer : NEW Components: ARI, 1GL
Carbohydrate polymer
Carbohydrate polymer : NEW Components: CDR, ERI
Carbohydrate polymer
2 bound ligands:
Ligand MG 2 x MG
Ligand CPH 4 x CPH
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P6522
Unit cell:
a: 42.23Å b: 42.23Å c: 246.11Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.235 0.235 0.278
Expression system: Not provided

Quick links

Citations

3 review citations

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

6 mentions without citation

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