1VTV image
Deposition Date 1989-01-10
Release Date 2011-07-13
Last Version Date 2023-12-27
Entry Detail
PDB ID:
1VTV
Keywords:
DNA
Title:
Molecular structure of (M5DC-DG)3: The role of the methyl group on 5-methyl cytosine in stabilizing Z-DNA
Biological Source:
Source Organism:
(Taxon ID: ) (Taxon ID: )
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
1.30 Å
R-Value Observed:
0.15
Space Group:
P 21 21 21
1VTV validation report
Macromolecular Entities
Polymer Type:polydeoxyribonucleotide
Molecule:DNA (5'-D(*(CH3)CP*GP*(CH3)CP*GP*(CH3)CP*G)-3')
Chain IDs:A, B
Chain Length:6
Number of Molecules:2
Biological Source:
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
5CM A DC ?
Ligand Molecules
NA
Primary Citation
Molecular Structure of (m5dC-dG)3: The Role of the Methyl Group on 5-Methyl Cytosine in Stabilizing Z-DNA
Nucleic Acids Res. 10 7879 7892 (1982)
PMID: 7155900

Abstact

The hexamer (m5 dC-dG)3 has been synthesized and its three-dimensional structure determined by a single crystal X-ray diffraction analysis. The structure has been refined to a final R value of 15.6% at 1.3 A resolution. The molecule forms a left-handed Z-DNA helix which is similar to the unmethylated Z-DNA structure. The presence of the methyl group has resulted in slight changes in the twist angle between successive base pairs and modification of some of the interatomic contacts. Methylation of cytosine in the C5 position is associated with a relative destabilization of the B-DNA structure and a stabilization through hydrophobic bonding of the Z-DNA structure.

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Primary Citation of related structures
1VTV