› 403d

X-ray diffraction
1.4Å resolution

5'-D(*CP*GP*CP*(HYD)AP*AP*AP*TP*TP*TP*GP*CP*G)-3', 2'-(4-ETHOXYPHENYL)-5-(4-METHYL-1-PIPERAZINYL)-2,5'-BI-BENZIMIDAZOLE

Released:
DOI: 10.2210/pdb403d/pdb
PDB entry 403d coloured by chain, front view.
PDB entry 403d coloured by chain, side view.
PDB entry 403d coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
2'-Deoxyisoguanosine adopts more than one tautomer to form base pairs with thymidine observed by high-resolution crystal structure analysis.
Robinson H, Gao YG, Bauer C, Roberts C, Switzer C, Wang AH
Biochemistry 37 10897-905 (1998)
PMID: 9692982

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-117128 (preferred)
Entry contents:
1 distinct DNA molecule
Macromolecule:
DNA (5'-D(*CP*GP*CP*(IGU)P*AP*AP*TP*TP*TP*GP*CP*G)-3') Chains: A, B
Molecule details ›
Chains: A, B
Length: 12 nucleotides
Theoretical weight: 3.68 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand HT1 1 x HT1
Ligand MG 1 x MG
1 modified residue:
Ligand IGU 2 x IGU

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RU200
Spacegroup: P212121
Unit cell:
a: 25.759Å b: 41.084Å c: 64.307Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.245 0.245 0.316
Expression system: Not provided

Quick links

Citations

39 citation in other articles

Identification of human MutY homolog (hMYH) as a repair enzyme for 2-hydroxyadenine in DNA and detection of multiple forms of hMYH located in nuclei and mitochondria.
Ohtsubo et al. (2000)
38 more

3 mentions without citation

DNA conformations and their sequence preferences.
Svozil et al. (2008)
2 more