2mcj

NMR structure of spermine modified DNA duplex

spinqualitylabelsall models 2mcj Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 2mcj is a 2 chain structure. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance. Method: Solution NMR Ligands: N4S Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Publication Abstract from PubMed BACKGROUND: The nature of the polyamine-DNA interactions at a molecular level is not clearly understood. METHODS: In order to shed light on the binding preferences of polyamine with nucleic acids, the NMR solution structure of the DNA duplex containing covalently bound spermine was determined. RESULTS: The structure of 4-N-[4,9,13-triazatridecan-1-yl]-2'-deoxycytidine (dCSp) modified duplex was compared to the structure of the reference duplex. Both duplexes are regular right-handed helices with all attributes of the B-DNA form. The spermine chain which is located in a major groove and points toward the 3' end of the modified strand does not perturb the DNA structure. CONCLUSION: In our study the charged polyamine alkyl chain was found to interact with the DNA surface. In the majority of converged structures we identified the presumed hydrogen bonding interactions between O6 and N7 atoms of G4 and the first internal -NH2+- amino group. Additional interaction was found between the second internal -NH2+- amino group and the oxygen atom of the phosphate of C3 residue. GENERAL SIGNIFICANCE: The knowledge of the location and nature of a structure-specific binding site for spermine in DNA should be valuable in understanding gene expression and in the design of new therapeutic drugs. Polyaminooligonucleotide: NMR structure of duplex DNA containing a nucleoside with spermine residue, N-[4,9,13-triazatridecan-1-yl]-2'-deoxycytidine.,Brzezinska J, Gdaniec Z, Popenda L, Markiewicz WT Biochim Biophys Acta. 2013 Dec 20;1840(3):1163-1170. doi:, 10.1016/j.bbagen.2013.12.008. PMID:24361616 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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