› 2m11

Solution NMR

Structure of perimidinone-derived synthetic nucleoside paired with guanine in DNA duplex

Released:
DOI: 10.2210/pdb2m11/pdb
PDB entry 2m11 coloured by chain, ensemble of 10 models, front view.
PDB entry 2m11 coloured by chain, ensemble of 10 models, side view.
PDB entry 2m11 coloured by chain, ensemble of 10 models, top view.
Source organism: Synthetic construct
Primary publication:
Recognition of O6-benzyl-2'-deoxyguanosine by a perimidinone-derived synthetic nucleoside: a DNA interstrand stacking interaction.
Kowal EA, Lad RR, Pallan PS, Dhummakupt E, Wawrzak Z, Egli M, Sturla SJ, Stone MP
Nucleic Acids Res 41 7566-76 (2013)
PMID: 23748954

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-115578 (preferred)
Entry contents:
1 distinct DNA molecule
Macromolecule:
DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(D3N)P*GP*CP*G)-3') Chains: A, B
Molecule details ›
Chains: A, B
Length: 12 nucleotides
Theoretical weight: 3.74 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
Chemical shift assignment: 21%
Refinement method: simulated annealing
Expression system: Not provided

Quick links

Citations

1 review citation

Nucleobase-modified nucleosides and nucleotides: Applications in biochemistry, synthetic biology, and drug discovery.
Berdis A. (2022)
4 other articles

1 mention without citation

Recognition of O6-benzyl-2'-deoxyguanosine by a perimidinone-derived synthetic nucleoside: a DNA interstrand stacking interaction.
Kowal et al. (2013)