› 2o82

Solution NMR

Duplex DNA containing an abasic site with an opposite dC (beta anomer) in 5'-G_AC-3' (10 structure ensemble and averaged structure)

Released:
DOI: 10.2210/pdb2o82/pdb
PDB entry 2o82 coloured by chain, ensemble of 11 models, front view.
PDB entry 2o82 coloured by chain, ensemble of 11 models, side view.
PDB entry 2o82 coloured by chain, ensemble of 11 models, top view.
Source organism: Synthetic construct
Primary publication:
DNA oligonucleotides with A, T, G or C opposite an abasic site: structure and dynamics.
Chen J, Dupradeau FY, Case DA, Turner CJ, Stubbe J
Nucleic Acids Res 36 253-62 (2008)
PMID: 18025040

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-115716 (preferred)
Entry contents:
2 distinct DNA molecules
Macromolecules (2 distinct):
5'-D(*CP*CP*AP*AP*AP*GP*(AAB)P*AP*CP*CP*GP*GP*G)-3' Chain: A
Molecule details ›
Chain: A
Length: 13 nucleotides
Theoretical weight: 3.88 KDa
Source organism: Synthetic construct
Expression system: Not provided
5'-D(*CP*CP*CP*GP*GP*TP*CP*CP*TP*TP*TP*GP*G)-3' Chain: B
Molecule details ›
Chain: B
Length: 13 nucleotides
Theoretical weight: 3.93 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Refinement method: simulated annealing molecular dynamics matrix relaxation
Expression system: Not provided

Quick links

Citations

4 review citations

Understanding DNA under oxidative stress and sensitization: the role of molecular modeling.
Dumont et al. (2015)
3 more

1 mention without citation

DNA oligonucleotides with A, T, G or C opposite an abasic site: structure and dynamics.
Chen et al. (2008)