RNA structure: advances and assessment of 3D structure prediction

Z Miao, E Westhof - Annual review of biophysics, 2017 - annualreviews.org
Biological functions of RNA molecules are dependent upon sustained specific three-
dimensional (3D) structures of RNA, with or without the help of proteins. Understanding of …

Thermostability, tunability, and tenacity of RNA as rubbery anionic polymeric materials in nanotechnology and nanomedicine—specific cancer targeting with …

DW Binzel, X Li, N Burns, E Khan, WJ Lee… - Chemical …, 2021 - ACS Publications
RNA nanotechnology is the bottom-up self-assembly of nanometer-scale architectures,
resembling LEGOs, composed mainly of RNA. The ideal building material should be (1) …

[PDF][PDF] New functionality of RNAComposer: an application to shape the axis of miR160 precursor structure

M Antczak, M Popenda, T Zok… - Acta Biochimica …, 2016 - frontierspartnerships.org
RNAComposer is a fully automated, web-interfaced system for RNA 3D structure prediction,
freely available at http://rnacomposer. cs. put. poznan. pl/and http://rnacomposer. ibch …

Cryo-EM structure of human dicer and its complexes with a pre-miRNA substrate

Z Liu, J Wang, H Cheng, X Ke, L Sun, QC Zhang… - Cell, 2018 - cell.com
Human Dicer (hDicer) is a multi-domain protein belonging to the RNase III family. It plays
pivotal roles in small RNA biogenesis during the RNA interference (RNAi) pathway by …

RNA-Puzzles Round III: 3D RNA structure prediction of five riboswitches and one ribozyme

Z Miao, RW Adamiak, M Antczak, RT Batey, AJ Becka… - Rna, 2017 - rnajournal.cshlp.org
RNA-Puzzles is a collective experiment in blind 3D RNA structure prediction. We report here
a third round of RNA-Puzzles. Five puzzles, 4, 8, 12, 13, 14, all structures of riboswitch …

Computer-aided design of RNA-targeted small molecules: A growing need in drug discovery

J Manigrasso, M Marcia, M De Vivo - Chem, 2021 - cell.com
In recent years, researchers have identified certain RNAs as druggable targets for small
molecules to treat several human pathologies. However, these regulatory RNAs are …

High content design of riboswitch biosensors: All-around rational module-by-module design

Y Wu, L Zhu, S Li, H Chu, X Wang, W Xu - Biosensors and Bioelectronics, 2023 - Elsevier
Riboswitches are ideal, diverse regulatory elements with simple mechanisms. Therefore,
they are widely employed in synthetic biology to construct highly efficient biosensors for …

rRNA expansion segment 7 in eukaryotes: from Signature Fold to tentacles

M Biesiada, MY Hu, LD Williams… - Nucleic Acids …, 2022 - academic.oup.com
The ribosomal core is universally conserved across the tree of life. However, eukaryotic
ribosomes contain diverse rRNA expansion segments (ESs) on their surfaces. Sites of ES …

Entanglements of structure elements revealed in RNA 3D models

M Popenda, T Zok, J Sarzynska, A Korpeta… - Nucleic acids …, 2021 - academic.oup.com
Computational methods to predict RNA 3D structure have more and more practical
applications in molecular biology and medicine. Therefore, it is crucial to intensify efforts to …

RNAComposer and RNA 3D structure prediction for nanotechnology

M Biesiada, K Pachulska-Wieczorek, RW Adamiak… - Methods, 2016 - Elsevier
RNAs adopt specific, stable tertiary architectures to perform their activities. Knowledge of
RNA tertiary structure is fundamental to understand RNA functions beginning with …