165D

THE STRUCTURE OF A MISPAIRED RNA DOUBLE HELIX AT 1.6 ANGSTROMS RESOLUTION AND IMPLICATIONS FOR THE PREDICTION OF RNA SECONDARY STRUCTURE

165D の概要

• エントリーDOI: 10.2210/pdb165d/pdb
• 分子名称: DNA/RNA (5'-R(*GP*CP*UP*UP*CP*GP*GP*CP*)-D(*(BRU))-3'), RHODIUM HEXAMINE ION (3 entities in total)
• 機能のキーワード: a-dna/rna, double helix, overhanging bases, modified, mismatched, dna-rna hybrid
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 6595.56

構造登録者

Cruse, W.,Saludjian, P.,Biala, E.,Strazewski, P.,Prange, T.,Kennard, O. (登録日: 1994-03-21, 公開日: 1994-08-31, 最終更新日: 2024-02-07)

主引用文献

Cruse, W.B.,Saludjian, P.,Biala, E.,Strazewski, P.,Prange, T.,Kennard, O.
Structure of a mispaired RNA double helix at 1.6-A resolution and implications for the prediction of RNA secondary structure.
Proc.Natl.Acad.Sci.USA, 91:4160-4164, 1994

PubMed Abstract: The nonamer r(GCUUCGGC)dBrU, where dBrU is 5-bromo-2'-deoxyuridine, contains the tetraloop sequence UUCG. It crystallizes in the presence of Rh(NH3)6Cl3. In solution the oligomer is expected to form a hairpin loop but the x-ray structure analysis, to a resolution of 1.6 A, indicates an eight-base-pair A-RNA duplex containing a central block of two G.U and two C.U pairs. Self-pairs which approximate to Watson-Crick geometry are also formed in the extended crystal structure between symmetry-related BrU residues and are part of infinite double-helical stacks. The G.U pair is a wobble base pair analogous to the G.T pair found in DNA fragments. The C.U mismatch involves one hydrogen-bonded contact between the bases and a bridging water molecule which ensures a good fit of the base pair in the RNA helix. The BrU.BrU pair is held by two hydrogen bonds in an orientation which is compatible with duplex geometry. The structure observed within the crystal has some parallels with the structure of globular RNAs, and the presence of stable, noncanonical base pairs has implications for the prediction of RNA secondary structure.

PubMed: 7514296
DOI: 10.1073/pnas.91.10.4160

実験手法

X-RAY DIFFRACTION (1.55 Å)