Results 121 to 130 of about 1,849,598 (165)

Mitochondrial transport of catalytic RNAs and targeting of the organellar transcriptome in human cells. [PDF]

J Mol Cell Biol
Głodowicz P, Kuczyński K, Val R, Dietrich A, Rolle K.   +4 more
europepmc   +1 more source

Systematic benchmarking of deep-learning methods for tertiary RNA structure prediction. [PDF]

PLoS Comput Biol
Bahai A, Kwoh CK, Mu Y, Li Y.
europepmc   +1 more source

Effects of cobalt hexammine on folding and self-cleavage of the Neurospora VS ribozyme

Journal of Molecular Biology, 2001
We have investigated the effects of Co(NH3)6(3+), an analog of hexahydrated Mg2+, on folding and catalysis of the Neurospora VS ribozyme. Most of the metal ion-induced changes detected by chemical modification structure probing in either metal ion are ...
Jonathon L. Maguire, Richard A. Collins
semanticscholar   +5 more sources

A ph controlled conformational switch in the cleavage site of the VS ribozyme substrate RNA 1 1Edited by I. Tinoco

Journal of Molecular Biology, 2001
The VS ribozyme is a 154 nucleotide sequence found in certain natural strains of Neurospora. The RNA can be divided into a substrate and a catalytic domain.
Jeremy Flinders, Thorsten Dieckmann
semanticscholar   +5 more sources

The A730 loop is an important component of the active site of the VS ribozyme 1 1Edited by J. Karn

Journal of Molecular Biology, 2001
The core of the VS ribozyme comprises five helices, that act either in cis or in trans on a stem-loop substrate to catalyse site-specific cleavage. The structure of the 2-3-6 helical junction indicates that a cleft is formed between helices II and VI ...
Daniel A. Lafontaine, Timothy J. Wilson, D. Norman, David M.J. Lilley   +3 more
semanticscholar   +6 more sources

Identification of functional domains in theself-cleaving Neurospora VS ribozyme using damage selection

Journal of Molecular Biology, 1997
Varkud Satellite (VS) RNA contains a small self-cleaving RNA motif that is distinct in its sequence and secondary structure from the hammerhead, hairpin, and hepatitis delta virus ribozymes, which are found in other natural RNAs.
Tara L. Beattie, Richard A. Collins
semanticscholar   +4 more sources

Identification of Separate Structural Features That Affect Rate and Cation Concentration Dependence of Self-Cleavage by the Neurospora VS Ribozyme

Biochemistry, 2006
The cleavage site of the Neurospora VS ribozyme is located in an internal loop in a hairpin called stem-loop I. Stem-loop I undergoes a cation-dependent structural change to adopt a conformation, termed shifted, that is required for activity.
Alan Hing-Lun Poon, Joan E. Olive, Meredith McLaren, Richard A. Collins   +3 more
semanticscholar   +5 more sources

Functional equivalence of the uridine turn and the hairpin as building blocks of tertiary structure in the Neurospora VS ribozyme 1 1Edited by D. Draper

Journal of Molecular Biology, 2001
Mutational, kinetic, and chemical modification experiments show that one of the three-way helical junctions in the Neurospora VS ribozyme contains a uridine turn that is important for organizing the functional three-dimensional structure of this junction.
Vanita D. Sood, Richard A. Collins
semanticscholar   +5 more sources

Functional Group Requirements in the Probable Active Site of the VS Ribozyme

Journal of Molecular Biology, 2002
The VS ribozyme catalyses the site-specific cleavage of a phosphodiester linkage by a transesterification reaction that entails the attack of the neighbouring 2'-oxygen with departure of the 5'-oxygen. We have previously suggested that the A730 loop is an important component of the active site of the ribozyme, and that A756 is especially important in ...
Daniel A. Lafontaine, Timothy J. Wilson, Zheng-yun Zhao, David M.J. Lilley   +3 more
semanticscholar   +4 more sources

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Efficient, pH-dependent RNA ligation by the VS ribozyme in trans.

Biochemistry, 2004
The VS ribozyme acts as a very efficient ligase in trans when the 5' cleavage product is prevented from dissociation by an extended helix Ia in the substrate.
Aileen C McLeod, D. Lilley
semanticscholar   +4 more sources