9KCC image
Deposition Date 2024-11-01
Release Date 2025-09-10
Last Version Date 2025-09-10
Entry Detail
PDB ID:
9KCC
Keywords:
DNA
Title:
DNA duplex containing copper-mediated 5-fluorouracil-cytosine base pairs
Biological Source:
Source Organism:
synthetic construct (Taxon ID: 32630)
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
2.31 Å
R-Value Free:
0.20
R-Value Work:
0.19
R-Value Observed:
0.19
Space Group:
P 41 21 2
9KCC validation report
Macromolecular Entities
Polymer Type:polydeoxyribonucleotide
Molecule:DNA (5'-D(*GP*GP*AP*CP*CP*CP*(UFP)P*GP*GP*TP*CP*C)-3')
Chain IDs:A
Chain Length:12
Number of Molecules:1
Biological Source:synthetic construct
Ligand Molecules
CU
Primary Citation
Novel specific binding of copper ions to naturally modified base pairs involving 5-fluorouracil in duplex DNA.
Dalton Trans 54 7208 7213 (2025)
PMID: 40265694 DOI: 10.1039/d5dt00619h

Abstact

Only mercury(II) and silver(I) ions are known to specifically bind to natural and naturally modified base pairs in duplex DNA to form metal-mediated base pairs. We found novel, specific binding of copper ions to naturally modified base pairs involving 5-fluorouracil (FdU) in duplex DNA, forming C-Cu-FdU and FdU-Cu-C base pairs.

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Primary Citation of related structures
9KCC