› 4o5y

X-ray diffraction
1.75Å resolution

O6-carboxymethylguanine in DNA forms a sequence context dependent wobble base pair structure with thymine

Released:
DOI: 10.2210/pdb4o5y/pdb
PDB entry 4o5y coloured by chain, front view.
PDB entry 4o5y coloured by chain, side view.
PDB entry 4o5y coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
O⁶-carboxymethylguanine in DNA forms a sequence context-dependent wobble base-pair structure with thymine.
Zhang F, Tsunoda M, Kikuchi Y, Wilkinson O, Millington CL, Margison GP, Williams DM, Takénaka A
Acta Crystallogr D Biol Crystallogr 70 1669-79 (2014)
PMID: 24914978

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-117905 (preferred)
Entry contents:
1 distinct DNA molecule
Macromolecule:
DNA (5'-D(*CP*GP*CP*(C6G)P*AP*AP*TP*TP*TP*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

2 bound ligands:
Ligand K 1 x K
Ligand BA 1 x BA
1 modified residue:
Ligand C6G 2 x C6G

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-5A
Spacegroup: P212121
Unit cell:
a: 25.957Å b: 41.525Å c: 64.691Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.231 0.229 0.269
Expression system: Not provided

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