کد مقاله | کد نشریه | سال انتشار | مقاله انگلیسی | نسخه تمام متن |
---|---|---|---|---|
9127282 | 1160207 | 2005 | 10 صفحه PDF | دانلود رایگان |
عنوان انگلیسی مقاله ISI
The effect of RNA secondary structures on RNA-ligand binding and the modifier RNA mechanism: a quantitative model
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کلمات کلیدی
TNFαfluorescence intensity distribution analysisUTRHu-antigen RELAVL1IL2IRESNon-coding RNA - RNA غیرکد کننده، RNA غیرترجمه شوندهinterleukin 2 - اینترلوکین 2Gene expression - بیان ژنRNA–protein interactions - تعاملات RNA-پروتئینtumor necrosis factor α - تومور نکروز عامل αRNA secondary structure - ساختار ثانویه RNAinternal ribosomal entry site - سایت ورودی ریبوزوم داخلیAU-rich elements - عناصر غنی AUAU-rich element - عنصر غنی AUuntranslated region - منطقه غیر ترجمهARE - هستندHuR - چگونه
موضوعات مرتبط
علوم زیستی و بیوفناوری
بیوشیمی، ژنتیک و زیست شناسی مولکولی
ژنتیک
پیش نمایش صفحه اول مقاله
![عکس صفحه اول مقاله: The effect of RNA secondary structures on RNA-ligand binding and the modifier RNA mechanism: a quantitative model The effect of RNA secondary structures on RNA-ligand binding and the modifier RNA mechanism: a quantitative model](/preview/png/9127282.png)
چکیده انگلیسی
RNA-ligand binding often depends crucially on the local RNA secondary structure at the binding site. We develop here a model that quantitatively predicts the effect of RNA secondary structure on effective RNA-ligand binding activities based on equilibrium thermodynamics and the explicit computations of partition functions for the RNA structures. A statistical test for the impact of a particular structural feature on the binding affinities follows directly from this approach. The formalism is extended to describing the effects of hybridizing small “modifier RNAs” to a target RNA molecule outside its ligand binding site. We illustrate the applicability of our approach by quantitatively describing the interaction of the mRNA stabilizing protein HuR with AU-rich elements [Meisner, N.-C., Hackermüller, J., Uhl, V., Aszódi, A., Jaritz, M., Auer, M., 2004. mRNA openers and closers: a methodology to modulate AU-rich element controlled mRNA stability by a molecular switch in mRNA conformation. ChemBioChem 5, 1432-1447]. We discuss our model and recent experimental findings demonstrating the effectivity of modifier RNAs in vitro in the context of the current research activities in the field of non-coding RNAs. We speculate that modifier RNAs might also exist in nature; if so, they present an additional regulatory layer for fine-tuning gene expression that could evolve rapidly, leaving no obvious traces in the genomic DNA sequences.
ناشر
Database: Elsevier - ScienceDirect (ساینس دایرکت)
Journal: Gene - Volume 345, Issue 1, 17 January 2005, Pages 3-12
Journal: Gene - Volume 345, Issue 1, 17 January 2005, Pages 3-12
نویسندگان
Jörg Hackermüller, Nicole-Claudia Meisner, Manfred Auer, Markus Jaritz, Peter F. Stadler,