Results 61 to 70 of about 44,034 (296)

RNA-Puzzles Round IV:3D structure predictions of four ribozymes and two aptamers [PDF]

, 2020
International audienceRNA-Puzzles is a collective endeavor dedicated to the advancement and improvement of RNA 3D structure prediction. With agreement from crystallographers, the RNA structures are predicted by various groups before the publication of ...
Adamiak, Ryszard W., Antczak, Maciej, Batey, Robert T., Boniecki, Michal J., Bujnicki, Janusz M., Chen, Shi-Jie, Cheng, Clarence Yu, Cheng, Yi, Chou, Fang-Chieh, Das, Rhiju, Ding, Feng, Dokholyan, Nikolay V., Geniesse, Caleb, Golden, Barbara L., Huang, Lin, Jiang, Yangwei, Joshi, Astha, Krokhotin, Andrey, Lilley, David M., Liu, Yijin, Magnus, Marcin, Mailhot, Olivier, Major, Francois, Mann, Thomas H., Miao, Zhichao, Patel, Dinshaw J., Piatkowski, Pawel, Pluta, Radoslaw, Popenda, Mariusz, Ren, Aiming, Sarzynska, Joanna, Sun, Lizhen, Szachniuk, Marta, Tian, Siqi, Wang, Jian, Wang, Jun, Watkins, Andrew M., Westhof, Eric, Wiedemann, Jakub, Xiao, Yi, Xu, Xiaojun, Yesselman, Joseph D., Zhang, Dong, Zhang, Yi, Zhang, Zhenzhen, Zhao, Chenhan, Zhao, Peinan, Zhou, Yuanzhe, Zok, Tomasz, Zyla, Adriana   +49 more
core   +5 more sources

Pistol ribozyme adopts a pseudoknot fold facilitating site-specific in-line cleavage

Nature Chemical Biology, 2016
The field of small self-cleaving nucleolytic ribozymes has been invigorated by the recent discovery of the twister, twister-sister, pistol and hatchet ribozymes.
A. Ren, Nikola Vušurović, Jennifer Gebetsberger, P. Gao, M. Juen, C. Kreutz, R. Micura, D. Patel   +7 more
semanticscholar   +1 more source

Ribozyme-mediated CRISPR/Cas9 gene editing in pyrethrum (Tanacetum cinerariifolium) hairy roots using a RNA polymerase II-dependent promoter

Plant Methods, 2022
Background Traditional CRISPR/Cas9 systems that rely on U6 or U3 snRNA promoters (RNA polymerase III-dependent promoters) can only achieve constitutive gene editing in plants, hampering the functional analysis of specifically expressed genes.
Jia-Wen Li, Tuo Zeng, Zhi-Zhuo Xu, Jin-Jin Li, Hao Hu, Qin Yu, Li Zhou, Ri-Ru Zheng, Jing Luo, Cai-Yun Wang   +9 more
doaj   +1 more source

Processing of insect retrotransposons by self-cleaving ribozymes [PDF]

, 2010
We show that several classes of insect non-LTR retrotransposons harbor self-cleaving ribozymes of the HDV family at their 5′ termini. In Drosophila the R2 ribozymes exhibit highly differential in vivo expression and robust in vitro activity ...
Andrej Luptak, Chiu-Ho T. Webb, Dana J. Ruminski, Nathan J. Riccitelli   +3 more
core   +1 more source

Distribution of graph-distances in Boltzmann ensembles of RNA secondary structures [PDF]

, 2013
Large RNA molecules often carry multiple functional domains whose spatial arrangement is an important determinant of their function. Pre-mRNA splicing, furthermore, relies on the spatial proximity of the splice junctions that can be separated by very ...
A. Kobitski, A.M. Yoffe, A.P. Baraniak, A.X. Li, C.J. McManus, C.M. Reidys, D. Dufour, D. Leipply, D. Mathews, D.H. Mathews, H.S. Han, J.S. McCaskill, K. Darty, L.T. Fang, M. Müller, P. Clote, P. Schuster, R. Das, R. Giegerich, R. Lorenz, R. Lorenz, R. Roy, R.A. Forties, T.R. Einert, U. Gerland, U. Gerland, Y. Ding   +26 more
core   +1 more source

Translation‐Promoting Effects of RNA Template Overhangs in the Absence of Ribosomes

Angewandte Chemie, Volume 138, Issue 4, 22 January 2026.
Ribosome‐free translation of an RNA sequence into a peptide sequence can be controlled by the folding of the template strand. Overhang sequences forming a triplex structure with the templating region and the peptidoyl RNA in pH‐dependent manner increase yields up to 40‐fold through entropic effects and mixed anhydride formation, allowing for controlled,
Nikolaos Giannakopoulos, Martin Rentschler, Clemens Richert   +2 more
wiley   +2 more sources

Mini‐Hairpin DNA: Extraordinarily Stable Structure and Its Applications

Chemistry – A European Journal, EarlyView.
Mini‐hairpin DNA fragments containing GCGAAGC and GCGAAAGC form exceptionally stable hairpin‐like structures, with only two G−C pairs and one sheared G−A pair, remaining undenatured in 7 M urea and resisting nuclease digestion. These mini‐hairpin sequences frequently appear in replication and transcription origins, influence DNA sequencing fidelity ...
Michiko Kimoto, Ichiro Hirao
wiley   +1 more source

A modular and extensible RNA-based gene-regulatory platform for engineering cellular function [PDF]

, 2007
Engineered biological systems hold promise in addressing pressing human needs in chemical processing, energy production, materials construction, and maintenance and enhancement of human health and the environment. However, significant advancements in our
Smolke, Christina D., Win, Maung Nyan
core   +2 more sources

An RNA Triangle with Six Ribozyme Units Can Promote a Trans-Splicing Reaction through Trimerization of Unit Ribozyme Dimers

Applied Sciences, 2021
Ribozymes are catalytic RNAs that are attractive platforms for the construction of nanoscale objects with biological functions. We designed a dimeric form of the Tetrahymena group I ribozyme as a unit structure in which two ribozymes were connected in a ...
Junya Akagi, Takahiro Yamada, Kumi Hidaka, Yoshihiko Fujita, Hirohide Saito, Hiroshi Sugiyama, Masayuki Endo, Shigeyoshi Matsumura, Yoshiya Ikawa   +8 more
doaj   +1 more source

Rational Design Strategies for Stimuli‐Responsive DNAzymes Using Modified and Artificial Nucleotides

Chemistry – A European Journal, EarlyView.
Activity control of RNA‐cleaving DNAzymes in response to external stimuli has attracted growing interest for applications in DNA‐based diagnostics, therapeutics, and dynamic DNA nanotechnology. This review summarizes rational design strategies for stimuli‐responsive DNAzymes using modified or artificial nucleotides, including split and caged DNAzymes ...
Yusuke Takezawa, Mitsuhiko Shionoya
wiley   +1 more source