4DKZ

Hairpin structure of a DNA dodecamer containing North-methanocarba-2'-deoxythymidine

4DKZ の概要

• エントリーDOI: 10.2210/pdb4dkz/pdb
• 分子名称: Synthetic DNA dodecamer containg North-methanocarba-2'-deoxythymidine (N-MCdT) (2 entities in total)
• 機能のキーワード: north-methanocarba-2'-deoxythymidine, n-mcdt, x-ray crystal structure, tetra-loop hairpin, c4'-exo pucker, hairpin dna, dna
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 7366.94

構造登録者

Egli, M.,Pallan, P.S. (登録日: 2012-02-05, 公開日: 2012-03-28, 最終更新日: 2024-02-28)

主引用文献

Pallan, P.S.,Marquez, V.E.,Egli, M.
The Conformationally Constrained N-Methanocarba-dT Analogue Adopts an Unexpected C4'-exo Sugar Pucker in the Structure of a DNA Hairpin.
Biochemistry, 51:2639-2641, 2012

PubMed Abstract: Incorporation of a bicyclo[3.1.0]hexane scaffold into the nucleoside sugar was devised to lock the embedded cyclopentane ring in conformations that mimic the furanose North and South sugar puckers. To analyze the effects of North-methanocarba-2'-deoxythymidine (N-MCdT) on the B-form DNA, we crystallized d(CGCGAA[mcTmcT]CGCG) with two N-MCdTs. Instead of a duplex, the 12mer forms a tetraloop hairpin, whereby loop N-MCdTs adopt the C4'-exo pucker (NE; P = 50°). Thus, the bicyclic framework does not limit the pucker to the anticipated C2'-exo range (NNW; P = -18°).

PubMed: 22409313
DOI: 10.1021/bi300215k

実験手法

X-RAY DIFFRACTION (1.8 Å)