2O83

The Structure of Tandem GA RNA Pairs When Flanking Pairs are isoG-isoC Pairs

2O83 の概要

• エントリーDOI: 10.2210/pdb2o83/pdb
• 関連するPDBエントリー: 2O81
• 分子名称: 5'-R(*GP*GP*(IC)P*GP*AP*(IG)P*CP*CP*A)-3' (1 entity in total)
• 機能のキーワード: rna, thermodynamics, secondary structure prediction, imino ga pair, isoguanosine, isocytidine
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 5819.65

構造登録者

Kennedy, S.D.,Turner, D.H. (登録日: 2006-12-11, 公開日: 2007-07-10, 最終更新日: 2023-12-27)

主引用文献

Chen, G.,Kierzek, R.,Yildirim, I.,Krugh, T.R.,Turner, D.H.,Kennedy, S.D.
Stacking Effects on Local Structure in RNA: Changes in the Structure of Tandem GA Pairs when Flanking GC Pairs are Replaced by isoG-isoC Pairs
J.Phys.Chem.B, 111:6718-6727, 2007

PubMed Abstract: The Watson-Crick-like isoG-isoC (iGiC) pair, with the amino and carbonyl groups transposed relative to the Watson-Crick GC pair, provides an expanded alphabet for understanding interactions that shape nucleic acid structure. Here, thermodynamic stabilities of tandem GA pairs flanked by iGiC pairs are reported along with the NMR structures of the RNA self-complementary duplexes (GCiGGAiCGCA)2 and (GGiCGAiGCCA)2. A sheared GA pairing forms in (GCiGGAiCGCA)2, and an imino GA pairing forms in (GGiCGAiGCCA)2. The structures contrast with the formation of tandem imino and sheared GA pairs flanked by GC pairs in the RNA self-complementary duplexes (GCGGACGC)2 and (GGCGAGCC)2, respectively. In both iGiC duplexes, Watson-Crick-like hydrogen bonds are formed between iG and iC, and iGiC substitutions result in less favorable loop stability. The results provide benchmarks for testing computations of molecular interactions that shape RNA three-dimensional structure.

PubMed: 17411085
DOI: 10.1021/jp068732m

実験手法

SOLUTION NMR