2B8S

Structure of HIV-1(MAL) genomic RNA DIS

「1JJN」から置き換えられました

2B8S の概要

• エントリーDOI: 10.2210/pdb2b8s/pdb
• 関連するPDBエントリー: 1XP7 1XPE 1XPF 1Y3S 1ZCI 2B8R
• 分子名称: 5'-R(*CP*UP*UP*GP*CP*UP*GP*AP*GP*GP*UP*GP*CP*AP*CP*AP*CP*AP*GP*CP*AP*AP*G)-3', MAGNESIUM ION, SULFATE ION, ... (5 entities in total)
• 機能のキーワード: hiv-1, rna, hairpin
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 15573.13

構造登録者

Ennifar, E.,Walter, P.,Ehresmann, B.,Ehresmann, C.,Dumas, P. (登録日: 2005-10-10, 公開日: 2005-10-25, 最終更新日: 2023-08-23)

主引用文献

Ennifar, E.,Walter, P.,Ehresmann, B.,Ehresmann, C.,Dumas, P.
Crystal structures of coaxially stacked kissing complexes of the HIV-1 RNA dimerization initiation site
NAT.STRUCT.BIOL., 8:1064-1068, 2001

PubMed Abstract: We describe the crystal structures of the RNA dimerization initiation sites (DIS) of HIV-1 subtypes A and B. Both molecules adopt a hairpin conformation, with loop sequences consisting of 272-AGGUGCACA-280 and 272-AAGCGCGCA-280, respectively. This includes a six-base self-complementary stretch (underlined) that allows homodimerization through the formation of a loop-loop, or 'kissing-loop', complex. The DISs for the two sequences have identical conformations, and the two interacting hairpins show a perfect coaxial alignment. The conserved purines, A272 and R273, are stacked in a bulged-out conformation and symmetrically join the upward and downward strands of each hairpin by crossing the helix major groove. There is good agreement between these structures and previous results from chemical probing in solution, as well as with differences in magnesium dependence for dimerization. The overall shape of the kissing-loop complex is very similar to that of the previously determined subtype A DIS duplex form. Unexpectedly, the purine R273 is the only base seen at a different position and is responsible for the difference in topology between the two forms. We propose that the transition from kissing-loop duplex could occur by a recombination mechanism based on symmetrical chain cleavage at R273 of each hairpin and subsequent cross-religation, rather than by base-pair melting and subsequent reannealing.

PubMed: 11702070
DOI: 10.1038/nsb727

実験手法

X-RAY DIFFRACTION (2.76 Å)