5V2R

Structure of a GA Rich 8x8 Nucleotide RNA Internal Loop

5V2R の概要

• エントリーDOI: 10.2210/pdb5v2r/pdb
• NMR情報: BMRB: 30268
• 分子名称: RNA (5'-R(*CP*CP*AP*GP*AP*AP*AP*CP*GP*GP*AP*UP*GP*GP*A)-3') (1 entity in total)
• 機能のキーワード: 3rrs ga sheared pairs ac pair, rna
• 由来する生物種: synthetic construct
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 9756.04

構造登録者

Kauffmann, A.D.,Kennedy, S.D.,Turner, D.H. (登録日: 2017-03-06, 公開日: 2017-07-26, 最終更新日: 2024-05-01)

主引用文献

Kauffmann, A.D.,Kennedy, S.D.,Zhao, J.,Turner, D.H.
Nuclear Magnetic Resonance Structure of an 8 8 Nucleotide RNA Internal Loop Flanked on Each Side by Three Watson-Crick Pairs and Comparison to Three-Dimensional Predictions.
Biochemistry, 56:3733-3744, 2017

PubMed Abstract: The prediction of RNA three-dimensional structure from sequence alone has been a long-standing goal. High-resolution, experimentally determined structures of simple noncanonical pairings and motifs are critical to the development of prediction programs. Here, we present the nuclear magnetic resonance structure of the (5'CCAGAAACGGAUGGA) duplex, which contains an 8 × 8 nucleotide internal loop flanked by three Watson-Crick pairs on each side. The loop is comprised of a central 5'AC/3'CA nearest neighbor flanked by two 3RRs motifs, a known stable motif consisting of three consecutive sheared GA pairs. Hydrogen bonding patterns between base pairs in the loop, the all-atom root-mean-square deviation for the loop, and the deformation index were used to compare the structure to automated predictions by MC-sym, RNA FARFAR, and RNAComposer.

PubMed: 28700212
DOI: 10.1021/acs.biochem.7b00201

実験手法

SOLUTION NMR