2kaz | pdb_00002kaz

Folding topology of a bimolecular DNA quadruplex containing a stable mini-hairpin motif within the connecting loop

spinqualitylabelsall models 2kaz, 5 NMR models Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 2kaz is a 2 chain structure. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance. Ligands: K Resources: FirstGlance, OCA, RCSB, PDBsum Publication Abstract from PubMed We describe the NMR structural characterisation of a bimolecular anti-parallel DNA quadruplex d(G(3)ACGTAGTG(3))(2) containing an autonomously stable mini-hairpin motif inserted within the diagonal loop. A folding topology is identified that is different from that observed for the analogous d(G(3)T(4)G(3))(2) dimer with the two structures differing in the relative orientation of the diagonal loops. This appears to reflect specific base stacking interactions at the quadruplex-duplex interface that are not present in the structure with the T(4)-loop sequence. A truncated version of the bimolecular quadruplex d(G(2)ACGTAGTG(2))(2), with only two core G-tetrads, is less stable and forms a heterogeneous mixture of three 2-fold symmetric quadruplexes with different loop arrangements. We demonstrate that the nature of the loop sequence, its ability to form autonomously stable structure, the relative stabilities of the hairpin loop and core quadruplex, and the ability to form favourable stacking interactions between these two motifs are important factors in controlling DNA G-quadruplex topology. Folding topology of a bimolecular DNA quadruplex containing a stable mini-hairpin motif within the diagonal loop.,Balkwill GD, Garner TP, Williams HE, Searle MS J Mol Biol. 2009 Feb 6;385(5):1600-15. Epub 2008 Dec 3. PMID:19070621 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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