1I3T image
Deposition Date 2001-02-16
Release Date 2001-09-14
Last Version Date 2023-08-09
Entry Detail
PDB ID:
1I3T
Keywords:
DNA
Title:
MOLECULAR AND CRYSTAL STRUCTURE OF D(CGCGAATT(MO4)CGCG): THE WATSON-CRICK TYPE AND WOBBLE N4-METHOXYCYTIDINE/GUANOSINE BASE PAIRS IN B-DNA
Biological Source:
Source Organism:
(Taxon ID: ) (Taxon ID: )
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
1.60 Å
R-Value Free:
0.25
R-Value Work:
0.22
Space Group:
P 21 21 21
1I3T validation report
Macromolecular Entities
Polymer Type:polydeoxyribonucleotide
Molecule:5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(C45)P*GP*CP*GP)-3'
Chain IDs:A, B
Chain Length:12
Number of Molecules:2
Biological Source:
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
C45 A DC ?
Ligand Molecules
MG
Primary Citation
Crystallographic studies on damaged DNAs: III. N(4)-methoxycytosine can form both Watson-Crick type and wobbled base pairs in a B-form duplex.
J.Biochem.(Tokyo) 130 9 12 (2001)
PMID: 11432773

Abstact

To investigate the mutation mechanism of purine transition in DNA damaged with methoxyamine, a DNA dodecamer with the sequence d(CGCGAATTmo(4)CGCG), where mo(4)C is 2'-deoxy-N(4)-methoxycytidine, has been synthesized and its crystal structure determined. Two dodecamers form a B-form duplex. Electron density maps clearly show that one of the two mo(4)C residues forms a pair with a guanine residue of the opposite strand, the geometry being the canonical Watson-Crick type, and that the other mo(4)C residue forms a wobble pair with the opposite guanine residue. These two pairings are ascribed to the tautomerization of the methoxylated cytosine moieties between the amino and imino forms.

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Primary Citation of related structures
1I3T