ISDA

Entry Detail

PDB ID:

3NP6

Keywords:

DNA

Title:

The crystal structure of Berberine bound to DNA d(CGTACG)

Biological Source:

Source Organism:

PDB Version:

Deposition Date:

2010-06-28

Release Date:

2011-05-04

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

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Macromolecular Entities

Polymer Type:polydeoxyribonucleotide
Description: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

Primary Citation

X-Ray diffraction analyses of the natural isoquinoline alkaloids Berberine and Sanguinarine complexed with double helix DNA d(CGTACG)

Ferraroni, M, Bazzicalupi, C, Bilia, A.R, Gratteri, P.Show

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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