Results 11 to 20 of about 5,237 (166)

Kinetic Framework for Ligation by an Efficient RNA Ligase Ribozyme † [PDF]

Biochemistry, 2000
The class I RNA ligase ribozyme, isolated previously from random sequences, performs an efficient RNA ligation reaction. It ligates two substrate RNAs, promoting the attack of the 3'-hydroxyl of one substrate upon the 5'-triphosphate of the other substrate with release of pyrophosphate.
David P. Bartel, Nicholas H. Bergman, Wendy K. Johnston   +2 more
core   +4 more sources

Riboswitch identification using Ligase-Assisted Selection for the Enrichment of Responsive Ribozymes (LigASERR) [PDF]

Synthetic Biology, 2019
In vitro selection of ligand-responsive ribozymes can identify rare, functional sequences from large libraries. While powerful, key caveats of this approach include lengthy and demanding experimental workflows; unpredictable experimental outcomes and ...
Barany, Beilstein, Breaker, Bunka, Carmody, Carothers, Cornish-Bowden, Darty, Deana, DeAngelis, Espah Borujeni, Felletti, Garst, Gruber, Hertel, Iost, Jang, Ketzer, Kobori, Kobori, Koizumi, Lee, Liang, Link, Lohman, Martin, Michener, Niu, Packer, Piganeau, Piganeau, Piganeau, Quinn, Roth, Selinger, Shen, Storch, Takahashi, Tang, Tani, Thomas, Wieland, Winkler, Wittmann, Zhang, Zimmermann   +45 more
core   +10 more sources

A cis-acting ligase ribozyme generates circular RNA in vitro for ectopic protein functioning. [PDF]

Nat Commun
Delivering synthetic protein-coding RNA bypassing the DNA stage for ectopic protein functioning is a novel therapeutic strategy. Joining the linear RNA head-to-tail covalently could be a state-of-the-art strategy for functioning longer. Here we enroll a cis-acting ligase ribozyme (RzL) to generate circular RNA (circRNA) in vitro for ectopic protein ...
Su CI, Chuang ZS, Shie CT, Wang HI, Kao YT, Yu CY.   +5 more
europepmc   +4 more sources

Rational optimization of the DSL ligase ribozyme with GNRA/receptor interacting modules. [PDF]

Arch Biochem Biophys, 2009
The DSL ribozyme is a class of artificial ligase ribozymes with a highly modular architecture, which catalyzes template-directed RNA ligation on a helical substrate module that can be either covalently connected (cis-DSL) or physically separated (trans-DSL) from the catalytic module.
Ishikawa J, Matsumura S, Jaeger L, Inoue T, Furuta H, Ikawa Y.   +5 more
europepmc   +5 more sources

Peptide conjugates with polyaromatic hydrocarbons can benefit the activity of catalytic RNAs. [PDF]

Chem Sci, 2023
Early stages of life likely employed catalytic RNAs (ribozymes) in many functions that are today filled by proteins. However, the earliest life forms must have emerged from heterogenous chemical mixtures, which included amino acids, short peptides, and ...
Sweeney KJ, Le T, Jorge MZ, Schellinger JG, Leman LJ, Müller UF.   +5 more
europepmc   +4 more sources

Template-Directed Ligation of Tethered Mononucleotides by T4 DNA Ligase for Kinase Ribozyme Selection [PDF]

PLoS ONE, 2010
Background: In vitro selection of kinase ribozymes for small molecule metabolites, such as free nucleosides, will require partition systems that discriminate active from inactive RNA species.
A Doherty, A Jaschke, AV Cherepanov, B Cho, B Cho, B Seelig, C Ho, D Loakes, D Loakes, D Saran, D Saran, David G. Nickens, DH Burke, Donald H. Burke, E Biondi, E Curtis, GF Joyce, I Chen, IR Lehman, J Jarvius, J Rumbaugh, James T. Patterson, JR Lorsch, M Hanczyc, M Moore, M Nilsson, M Saikia, Maxim Antopolsky, Nirmala Bardiya, P Liu, P Vallone, R Rossi, RC Alexander, S Ball, S Rhee, S Rhee, U Landegren, V Sriskanda, V Sriskanda, W Chiuman, W Wang, X Chen, Y Li, Y Wang   +43 more
core   +9 more sources

RNA ligase ribozymes with a small catalytic core

Scientific Reports, 2023
AbstractCatalytic RNAs, or ribozymes, catalyze diverse chemical reactions that could have sustained primordial life in the hypothetical RNA world. Many natural ribozymes and laboratory evolved ribozymes exhibit efficient catalysis mediated by elaborate catalytic cores within complex tertiary structures.
Yoko Nomura, Yohei Yokobayashi
openaire   +3 more sources

A self-replicating ligase ribozyme [PDF]

Proceedings of the National Academy of Sciences, 2002
A self-replicating molecule directs the covalent assembly of component molecules to form a product that is of identical composition to the parent. When the newly formed product also is able to direct the assembly of product molecules, the self-replicating system can be termed autocatalytic.
Gerald F. Joyce, Natasha Paul
openaire   +3 more sources

Cross-Catalytic Replication of an RNA Ligase Ribozyme [PDF]

Chemistry & Biology, 2004
A self-replicating RNA ligase ribozyme was converted to a cross-catalytic format whereby two ribozymes direct each other's synthesis from a total of four component substrates. Each ribozyme binds two RNA substrates and catalyzes their ligation to form the opposing ribozyme.
Gerald F. Joyce, Dong-Eun Kim
openaire   +3 more sources

A ligase ribozyme obtained from a structured pool [PDF]

Nucleic Acids Symposium Series, 2004
Here we report the in vitro selection experiment employed to construct a catalytic site on a self-folding RNA. To practice the selection, the sequence of 30 nucleotides was located in close proximity of the putative reaction site in a derivative of a naturally occurring RNA with a well known 3D structure.
Wataru Yoshioka, Yoshiya Ikawa, Tan Inoue, Luc Jaeger   +3 more
openaire   +3 more sources