2KAZ

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

2KAZ の概要

• エントリーDOI: 10.2210/pdb2kaz/pdb
• 分子名称: 5'-D(*DGP*DGP*DGP*DAP*DCP*DGP*DTP*DAP*DGP*DTP*DGP*DGP*DG)-3', POTASSIUM ION (2 entities in total)
• 機能のキーワード: bimolecular dna quadruplex, dna hairpins, dna, quadruplex
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 8303.53

構造登録者

Balkwill, G.D.,Garner, T.P.,Williams, H.E.L.,Searle, M.S. (登録日: 2008-11-18, 公開日: 2008-12-16, 最終更新日: 2024-05-01)

主引用文献

Balkwill, G.D.,Garner, T.P.,Williams, H.E.,Searle, M.S.
Folding topology of a bimolecular DNA quadruplex containing a stable mini-hairpin motif within the diagonal loop
J.Mol.Biol., 385:1600-1615, 2009

PubMed Abstract: 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.

PubMed: 19070621
DOI: 10.1016/j.jmb.2008.11.050

実験手法

SOLUTION NMR