2D34

FORMALDEHYDE CROSS-LINKS DAUNORUBICIN AND DNA EFFICIENTLY: HPLC AND X-RAY DIFFRACTION STUDIES

Summary for 2D34

• Entry DOI: 10.2210/pdb2d34/pdb
• Descriptor: 5'-D(*CP*GP*TP*(A35)P*CP*G)-3', DAUNOMYCIN, MAGNESIUM ION, ... (4 entities in total)
• Functional Keywords: right handed dna, double helix, complexed with drug, modified, dna
• Total number of polymer chains: 1
• Total formula weight: 2390.08

Authors

Wang, A.H.-J.,Gao, Y.-G.,Liaw, Y.-C.,Li, Y.-K. (deposition date: 1991-05-23, release date: 1992-04-15, Last modification date: 2024-02-14)

Primary citation

Wang, A.H.,Gao, Y.G.,Liaw, Y.C.,Li, Y.K.
Formaldehyde cross-links daunorubicin and DNA efficiently: HPLC and X-ray diffraction studies.
Biochemistry, 30:3812-3815, 1991

PubMed Abstract: Formaldehyde (HCHO) cross-links the anticancer drug daunorubicin (DAU) to DNA efficiently. When DAU is mixed with DNA hexamers, d(CGCGCG) and d(CGTDCG), in the presence of HCHO, stable covalent adducts of DNA are formed, as shown by the HPLC analyses. The major adducts are identical with the materials in the respective crystals which can be readily obtained from the 1:1 mixture of DAU-d(CGCGCG) and DAU-d(CGTDCG) plus HCHO, but not from the solution without HCHO. The high-resolution (1.5 A) X-ray crystal structure of those adducts shows unambiguously that they contain a covalent methylene bridge between the N3' of daunosamine and the N2 of the guanine or 2-aminoadenine. The perfect juxtaposition of the two amino groups in the minor groove of the complex provides a template for an efficient addition of HCHO. The methylene bridge does not perturb the conformation of the drug-DNA complex, when compared to the structure of DAU-d(CGTACG). The results suggest new approaches for synthesizing a new type of potential anticancer drug by attaching a reactive (e.g., alkylating) functional group at the N3' amino position of daunorubicin/doxorubicin. The stable drug-DNA adduct may be useful as probes for other biological studies.

PubMed: 2018756
DOI: 10.1021/bi00230a002

Experimental method

X-RAY DIFFRACTION (1.4 Å)