3NP6 image
Deposition Date 2010-06-28
Release Date 2011-05-04
Last Version Date 2023-11-01
Entry Detail
PDB ID:
3NP6
Keywords:
DNA
Title:
The crystal structure of Berberine bound to DNA d(CGTACG)
Biological Source:
Source Organism:
(Taxon ID: )
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
2.30 Å
R-Value Free:
0.30
R-Value Work:
0.23
R-Value Observed:
0.23
Space Group:
P 32 2 1
3NP6 validation report
Macromolecular Entities
Polymer Type:polydeoxyribonucleotide
Molecule:5'-D(*CP*GP*TP*AP*CP*G)-3'
Chain IDs:A, B, C, D
Chain Length:6
Number of Molecules:4
Biological Source:
Ligand Molecules
BER
CA
Primary Citation
X-Ray diffraction analyses of the natural isoquinoline alkaloids Berberine and Sanguinarine complexed with double helix DNA d(CGTACG)
Chem.Commun.(Camb.) 47 4917 4919 (2011)
PMID: 21431128 DOI: 10.1039/c1cc10971e

Abstact

The first crystal structures of Berberine and Sanguinarine intercalated with a d(CGTACG)(2) DNA sequence were obtained by X-ray diffraction analysis at 2.3 Å resolution. Both drugs join the end of two "two-molecules" DNA units, stacked in a non-classic intercalation site formed by six bases. Sanguinarine interacts with d(CGTACG)(2) DNA in its iminium form.

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Primary Citation of related structures
3NX5