scholarly journals The role of RNA structure in the interaction of U1A protein with U1 hairpin II RNA

RNA ◽  
2006 ◽  
Vol 12 (7) ◽  
pp. 1168-1178 ◽  
Author(s):  
M. J. Law
Keyword(s):  
Rna Structure ◽  
U1 Hairpin Ii ◽  
U1a Protein

scholarly journals The Role of Metals in the Reaction Catalyzed by Metal-Ion-Independent Bacillary RNase

2016 ◽  
Vol 2016 ◽  
pp. 1-7 ◽  
Author(s):  
Yulia Sokurenko ◽  
Vera Ulyanova ◽  
Pavel Zelenikhin ◽  
Alexey Kolpakov ◽  
Dmitriy Blokhin ◽  
...  
Keyword(s):  
Metal Ions ◽  
Rna Structure ◽  
Metal Ion ◽  
Extracellular Enzymes ◽  
Bacillus Pumilus ◽  
Transition Metal Ions ◽  
The Body ◽  
Intestinal Microbiome ◽  
Phosphodiester Bond

Extracellular enzymes of intestinal microbiota are the key agents that affect functional activity of the body as they directly interact with epithelial and immune cells. Several species of theBacillusgenus, likeBacillus pumilus, a common producer of extracellular RNase binase, can populate the intestinal microbiome as a colonizing organism. Without involving metal ions as cofactors, binase depolymerizes RNA by cleaving the 3′,5′-phosphodiester bond and generates 2′,3′-cyclic guanosine phosphates in the first stage of a catalytic reaction. Maintained in the reaction mixture for more than one hour, such messengers can affect the human intestinal microflora and the human body. In the present study, we found that the rate of 2′,3′-cGMP was growing in the presence of transition metals that stabilized the RNA structure. At the same time, transition metal ions only marginally reduced the amount of 2′,3′-cGMP, blocking binase recognition sites of guanine at N7 of nucleophilic purine bases.

scholarly journals Intrinsic Regulatory Role of RNA Structural Arrangement in Alternative Splicing Control

2020 ◽  
Vol 21 (14) ◽  
pp. 5161 ◽  
Author(s):  
Katarzyna Taylor ◽  
Krzysztof Sobczak
Keyword(s):  
Alternative Splicing ◽  
Rna Structure ◽  
The Other ◽  
Splicing Regulation ◽  
Rna Structures ◽  
Structural Arrangement ◽  
Biological Functionality ◽  
Cis And Trans ◽  
Structural Aspects

Alternative splicing is a highly sophisticated process, playing a significant role in posttranscriptional gene expression and underlying the diversity and complexity of organisms. Its regulation is multilayered, including an intrinsic role of RNA structural arrangement which undergoes time- and tissue-specific alterations. In this review, we describe the principles of RNA structural arrangement and briefly decipher its cis- and trans-acting cellular modulators which serve as crucial determinants of biological functionality of the RNA structure. Subsequently, we engage in a discussion about the RNA structure-mediated mechanisms of alternative splicing regulation. On one hand, the impairment of formation of optimal RNA structures may have critical consequences for the splicing outcome and further contribute to understanding the pathomechanism of severe disorders. On the other hand, the structural aspects of RNA became significant features taken into consideration in the endeavor of finding potential therapeutic treatments. Both aspects have been addressed by us emphasizing the importance of ongoing studies in both fields.

scholarly journals Role of RNA structure in arginine recognition of TAR RNA.

1993 ◽  
Vol 90 (8) ◽  
pp. 3680-3684 ◽  
Author(s):  
J. D. Puglisi ◽  
L. Chen ◽  
A. D. Frankel ◽  
J. R. Williamson
Keyword(s):  
Rna Structure ◽  
Tar Rna

scholarly journals Intact RNA structurome reveals mRNA structure-mediated regulation of miRNA cleavage in vivo

2019 ◽  
Author(s):  
Minglei Yang ◽  
Hugh C. Woolfenden ◽  
Yueying Zhang ◽  
Xiaofeng Fang ◽  
Qi Liu ◽  
...  
Keyword(s):  
Rna Structure ◽  
Target Site ◽  
Site Structure ◽  
Mrna Structure ◽  
Sequence Complementarity ◽  
Primary Determinant ◽  
Site Binding

ABSTRACTMicroRNA (miRNA)-mediated cleavage is involved in numerous essential cellular pathways. miRNAs recognize target RNAs via sequence complementarity. In addition to complementarity, in vitro and in silico studies have suggested that RNA structure may influence the accessibility of mRNAs to miRNA-Induced Silencing Complexes (miRISCs), thereby affecting RNA silencing. However, the regulatory mechanism of mRNA structure in miRNA cleavage remains elusive. Here, we investigated the role of in vivo RNA secondary structure in miRNA cleavage by developing the new CAP-STRUCTURE-seq method to capture the intact mRNA structurome in Arabidopsis thaliana. This approach revealed that miRNA target sites were not structurally accessible for miRISC binding prior to cleavage in vivo. Instead, the unfolding of the target site structure is the primary determinant for miRISC activity in vivo. Notably, we found that the single-strandedness of the two nucleotides immediately downstream of the target site, named Target Adjacent structure Motif (TAM), can promote miRNA cleavage but not miRNA binding, thus decoupling target site binding from cleavage. Our findings demonstrate that mRNA structure in vivo can regulate miRNA cleavage, providing evidence of mRNA structure-dependent regulation of biological processes.

scholarly journals Molecular Insights into the Role of RNA Structure in the Phase Separated Nucleolus

2019 ◽  
Vol 116 (3) ◽  
pp. 348a
Author(s):  
Michele Tolbert ◽  
Paul C. Parish ◽  
Samuel W. Olson ◽  
Diana M. Mitrea ◽  
Kevin Weeks ◽  
...  
Keyword(s):  
Rna Structure

scholarly journals The role of RNA structure at 5′ untranslated region in microRNA-mediated gene regulation

RNA ◽  
2014 ◽  
Vol 20 (9) ◽  
pp. 1369-1375 ◽  
Author(s):  
Wanjun Gu ◽  
Yuming Xu ◽  
Xueying Xie ◽  
Ting Wang ◽  
Jae-Hong Ko ◽  
...  
Keyword(s):  
Gene Regulation ◽  
Rna Structure ◽  
Untranslated Region
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