Literature DB >> 28620029

How RNA acts as a nuclease: some mechanistic comparisons in the nucleolytic ribozymes.

David M J Lilley1.   

Abstract

Recent structural and mechanistic studies have shed considerable light on the catalytic mechanisms of nucleolytic ribozymes. The discovery of several new ribozymes in this class has now allowed comparisons to be made, and the beginnings of mechanistic groupings to emerge.
© 2017 The Author(s); published by Portland Press Limited on behalf of the Biochemical Society.

Entities:  

Keywords:  catalysis; general acid–base catalysis; metal ions; ribozymes

Mesh：

Substances：

Year:  2017        PMID： 28620029     DOI： 10.1042/BST20160158

Source DB:  PubMed          Journal:  Biochem Soc Trans        ISSN： 0300-5127            Impact factor:   5.407


  15 in total

1.  B2 and ALU retrotransposons are self-cleaving ribozymes whose activity is enhanced by EZH2.

Authors:  Alfredo J Hernandez; Athanasios Zovoilis; Catherine Cifuentes-Rojas; Lu Han; Bojan Bujisic; Jeannie T Lee
Journal:  Proc Natl Acad Sci U S A       Date:  2019-12-23       Impact factor: 11.205

2.  Cleaning Up Mechanistic Debris Generated by Twister Ribozymes Using Computational RNA Enzymology.

Authors:  Colin S Gaines; Timothy J Giese; Darrin M York
Journal:  ACS Catal       Date:  2019-05-22       Impact factor: 13.084

3.  Small Molecule Rescue and Glycosidic Conformational Analysis of the Twister Ribozyme.

Authors:  Kyle J Messina; Ryszard Kierzek; Matthew A Tracey; Philip C Bevilacqua
Journal:  Biochemistry       Date:  2019-11-19       Impact factor: 3.162

4.  Light-controlled twister ribozyme with single-molecule detection resolves RNA function in time and space.

Authors:  Arthur Korman; Huabing Sun; Boyang Hua; Haozhe Yang; Joseph N Capilato; Rakesh Paul; Subrata Panja; Taekjip Ha; Marc M Greenberg; Sarah A Woodson
Journal:  Proc Natl Acad Sci U S A       Date:  2020-05-19       Impact factor: 11.205

5.  An Ontology for Facilitating Discussion of Catalytic Strategies of RNA-Cleaving Enzymes.

Authors:  Philip C Bevilacqua; Michael E Harris; Joseph A Piccirilli; Colin Gaines; Abir Ganguly; Ken Kostenbader; Şölen Ekesan; Darrin M York
Journal:  ACS Chem Biol       Date:  2019-06-07       Impact factor: 5.100

6.  Who stole the proton? Suspect general base guanine found with a smoking gun in the pistol ribozyme.

Authors:  Şölen Ekesan; Darrin M York
Journal:  Org Biomol Chem       Date:  2022-08-10       Impact factor: 3.890

7.  Cellular Small Molecules Contribute to Twister Ribozyme Catalysis.

Authors:  Kyle J Messina; Philip C Bevilacqua
Journal:  J Am Chem Soc       Date:  2018-08-13       Impact factor: 15.419

8.  Corroboration of Zn(ii)-Mg(ii)-tertiary structure interplays essential for the optimal catalysis of a phosphorothiolate thiolesterase ribozyme.

Authors:  Tzu-Pin Wang; Yu-Chih Su; Yi Chen; Scott Severance; Chi-Ching Hwang; Yi-Ming Liou; Chia-Hui Lu; Kun-Liang Lin; Rui Jing Zhu; Eng-Chi Wang
Journal:  RSC Adv       Date:  2018-09-21       Impact factor: 3.361

9.  Molecular Dynamics Simulations Reveal an Interplay between SHAPE Reagent Binding and RNA Flexibility.

Authors:  Vojtěch Mlýnský; Giovanni Bussi
Journal:  J Phys Chem Lett       Date:  2018-01-04       Impact factor: 6.475

10.  Influence of Na+ and Mg2+ ions on RNA structures studied with molecular dynamics simulations.

Authors:  Nina M Fischer; Marcelo D Polêto; Jakob Steuer; David van der Spoel
Journal:  Nucleic Acids Res       Date:  2018-06-01       Impact factor: 16.971
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