The structure and catalytic mechanism of a pseudoknot-containing hammerhead ribozyme [PDF]
Nature CommunicationsWe have determined the crystal structure of a pseudoknot (PK)-containing hammerhead ribozyme that closely resembles the pistol ribozyme, with essentially identical secondary structure and connectivity. The activity is more sensitive to deletion of the G8
Xuelin Zhan +6 more
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The Hammerhead Ribozyme: A Long History for a Short RNA [PDF]
Molecules, 2017 Small nucleolytic ribozymes are a family of naturally occurring RNA motifs that catalyse a self-transesterification reaction in a highly sequence-specific manner.
Marcos de la Peña +2 more
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The ubiquitous hammerhead ribozyme. [PDF]
RNA, 2012 The hammerhead ribozyme is a small catalytic RNA motif capable of endonucleolytic (self-) cleavage. It is composed of a catalytic core of conserved nucleotides flanked by three helices, two of which form essential tertiary interactions for fast self ...
Hammann C +3 more
europepmc +8 more sources
Hammerhead ribozyme activity and oligonucleotide duplex stability in mixed solutions of water and organic compounds [PDF]
FEBS Open Bio, 2014 Nucleic acids are useful for biomedical targeting and sensing applications in which the molecular environment is different from that of a dilute aqueous solution. In this study, the influence of various types of mixed solutions of water and water-soluble
Shu-ichi Nakano +3 more
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Enhanced RNA knockdown efficiency with engineered fusion guide RNAs that function with both CRISPR-CasRx and hammerhead ribozyme. [PDF]
Genome Biol, 2023 Background CRISPR-Cas13 is a newly emerging RNA knockdown technology that is comparable to RNAi. Among all members of Cas13, CasRx degrades RNA in human cells with high precision and effectiveness.
Zhan Y, Cao C, Li A, Mei H, Liu Y.
europepmc +2 more sources
Molecular simulations of the pistol ribozyme: unifying the interpretation of experimental data and establishing functional links with the hammerhead ribozyme. [PDF]
RNA, 2019 The pistol ribozyme (Psr) is among the most recently discovered RNA enzymes and has been the subject of experiments aimed at elucidating the mechanism.
Kostenbader K, York DM.
europepmc +2 more sources
A High-Pressure, High-Temperature Flow Reactor Simulating the Hadean Earth Environment, with Application to the Pressure Dependence of the Cleavage of Avocado Viroid Hammerhead Ribozyme [PDF]
Life, 2022 The RNA world hypothesis suggests that chemical networks consisting of functional RNA molecules could have constructed a primitive life-like system leading a first living system.
Kunio Kawamura +8 more
doaj +2 more sources
Divalent Metal Ion Activation of a Guanine General Base in the Hammerhead Ribozyme: Insights from Molecular Simulations. [PDF]
Biochemistry, 2017 The hammerhead ribozyme is a well-studied nucleolytic ribozyme that catalyzes the self-cleavage of the RNA phosphodiester backbone. Despite experimental and theoretical efforts, key questions remain about details of the mechanism with regard to the ...
Chen H, Giese TJ, Golden BL, York DM.
europepmc +2 more sources
Life on Minerals: Binding Behaviors of Oligonucleotides on Zirconium Silicate and Its Inhibitory Activity for the Self-Cleavage of Hammerhead Ribozyme [PDF]
Life, 2022 The role of minerals in the chemical evolution of RNA molecules is an important issue when considering the early stage of the Hadean Earth. In particular, the interaction between functional ribozymes and ancient minerals under simulated primitive ...
Kunio Kawamura +5 more
doaj +2 more sources
Small Molecule Recognition Triggers Secondary and Tertiary Interactions in DNA Folding and Hammerhead Ribozyme Catalysis. [PDF]
J Am Chem Soc, 2017 We have identified tris(2-aminoethyl)amine (tren)-derived scaffolds with two (t2M) or four (t4M) melamine rings that can target oligo T/U domains in DNA/RNA.
Mao J, DeSantis C, Bong D.
europepmc +2 more sources