2LSC

Solution structure of 2'F-ANA and ANA self-complementary duplex

2LSC の概要

• エントリーDOI: 10.2210/pdb2lsc/pdb
• NMR情報: BMRB: 18427
• 分子名称: DNA (5'-D(*(CFL)P*(GFL)P*(CFL)P*(GFL)P*(A5O)P*(A5O)P*(UAR)P*(UAR)P*(CFL)P*(GFL)P*(CFL)P*(GFL))-3') (1 entity in total)
• 機能のキーワード: dna, dickerson drew dodecamer
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 7686.53

構造登録者

Martin-Pintado, N.,Yahyaee, M.,Campos, R.,Noronha, A.,Wilds, C.,Damha, M.,Gonzalez, C. (登録日: 2012-04-26, 公開日: 2012-07-18, 最終更新日: 2024-05-15)

主引用文献

Martin-Pintado, N.,Yahyaee-Anzahaee, M.,Campos-Olivas, R.,Noronha, A.M.,Wilds, C.J.,Damha, M.J.,Gonzalez, C.
The solution structure of double helical arabino nucleic acids (ANA and 2'F-ANA): effect of arabinoses in duplex-hairpin interconversion.
Nucleic Acids Res., 40:9329-9339, 2012

PubMed Abstract: We report here the first structure of double helical arabino nucleic acid (ANA), the C2'-stereoisomer of RNA, and the 2'-fluoro-ANA analogue (2'F-ANA). A chimeric dodecamer based on the Dickerson sequence, containing a contiguous central segment of arabino nucleotides, flanked by two 2'-deoxy-2'F-ANA wings was studied. Our data show that this chimeric oligonucleotide can adopt two different structures of comparable thermal stabilities. One structure is a monomeric hairpin in which the stem is formed by base paired 2'F-ANA nucleotides and the loop by unpaired ANA nucleotides. The second structure is a bimolecular duplex, with all the nucleotides (2'F-ANA and ANA) forming Watson-Crick base pairs. The duplex structure is canonical B-form, with all arabinoses adopting a pure C2'-endo conformation. In the ANA:ANA segment, steric interactions involving the 2'-OH substituent provoke slight changes in the glycosidic angles and, therefore, in the ANA:ANA base pair geometry. These distortions are not present in the 2'F-ANA:2'F-ANA regions of the duplex, where the -OH substituent is replaced by a smaller fluorine atom. 2'F-ANA nucleotides adopt the C2'-endo sugar pucker and fit very well into the geometry of B-form duplex, allowing for favourable 2'F···H8 interactions. This interaction shares many features of pseudo-hydrogen bonds previously observed in 2'F-ANA:RNA hybrids and in single 2'F-ANA nucleotides.

PubMed: 22798499
DOI: 10.1093/nar/gks672

実験手法

SOLUTION NMR