› 4mkw

X-ray diffraction
1.22Å resolution

Comparison of the structural and dynamic effects of 5-methylcytosine and 5-chlorocytosine in a CpG dinucleotide sequence

Released:
DOI: 10.2210/pdb4mkw/pdb
PDB entry 4mkw coloured by chain, front view.
PDB entry 4mkw coloured by chain, side view.
PDB entry 4mkw coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
Comparison of the structural and dynamic effects of 5-methylcytosine and 5-chlorocytosine in a CpG dinucleotide sequence.
Theruvathu JA, Yin YW, Pettitt BM, Sowers LC
Biochemistry 52 8590-8 (2013)
PMID: 24147911

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-117855 (preferred)
Entry contents:
1 distinct DNA molecule
Macromolecule:
5methylC DNA dodecamer 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

1 bound ligand:
Ligand MG 1 x MG
1 modified residue:
Ligand 5CM 2 x 5CM

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P212121
Unit cell:
a: 25.38Å b: 40.274Å c: 65.405Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.213 0.21 0.24
Expression system: Not provided

Quick links

Citations

3 review citations

Occurrence, Biological Consequences, and Human Health Relevance of Oxidative Stress-Induced DNA Damage.
Yu et al. (2016)
2 more

1 mention without citation

Comparison of the structural and dynamic effects of 5-methylcytosine and 5-chlorocytosine in a CpG dinucleotide sequence.
Theruvathu et al. (2013)