Literature DB >> 21428954

Catalysis by the nucleolytic ribozymes.

David M J Lilley1.   

Abstract

The nucleolytic ribozymes use general acid-base catalysis to contribute significantly to their rate enhancement. The VS (Varkud satellite) ribozyme uses a guanine and an adenine nucleobase as general base and acid respectively in the cleavage reaction. The hairpin ribozyme is probably closely similar, while the remaining nucleolytic ribozymes provide some interesting contrasts.

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Year:  2011        PMID： 21428954     DOI： 10.1042/BST0390641

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


  16 in total

1.  Multiscale methods for computational RNA enzymology.

Authors:  Maria T Panteva; Thakshila Dissanayake; Haoyuan Chen; Brian K Radak; Erich R Kuechler; George M Giambaşu; Tai-Sung Lee; Darrin M York
Journal:  Methods Enzymol       Date:  2015-01-22       Impact factor: 1.600

Review 2.  Integration of kinetic isotope effect analyses to elucidate ribonuclease mechanism.

Authors:  Michael E Harris; Joseph A Piccirilli; Darrin M York
Journal:  Biochim Biophys Acta       Date:  2015-04-30

Review 3.  Molecular Mechanisms of Enzyme Activation by Monovalent Cations.

Authors:  David W Gohara; Enrico Di Cera
Journal:  J Biol Chem       Date:  2016-07-26       Impact factor: 5.157

4.  Crystal structure of Pistol, a class of self-cleaving ribozyme.

Authors:  Laura A Nguyen; Jimin Wang; Thomas A Steitz
Journal:  Proc Natl Acad Sci U S A       Date:  2017-01-17       Impact factor: 11.205

5.  Isotope effect analyses provide evidence for an altered transition state for RNA 2'-O-transphosphorylation catalyzed by Zn(2+).

Authors:  Shuming Zhang; Hong Gu; Haoyuan Chen; Emily Strong; Edward W Ollie; Daniel Kellerman; Danni Liang; Masaru Miyagi; Vernon E Anderson; Joseph A Piccirilli; Darrin M York; Michael E Harris
Journal:  Chem Commun (Camb)       Date:  2016-03-25       Impact factor: 6.222

6.  Essential structural and functional roles of the Cmr4 subunit in RNA cleavage by the Cmr CRISPR-Cas complex.

Authors:  Nancy F Ramia; Michael Spilman; Li Tang; Yaming Shao; Joshua Elmore; Caryn Hale; Alexis Cocozaki; Nilakshee Bhattacharya; Rebecca M Terns; Michael P Terns; Hong Li; Scott M Stagg
Journal:  Cell Rep       Date:  2014-12-04       Impact factor: 9.423

Review 7.  Structure-based mechanistic insights into catalysis by small self-cleaving ribozymes.

Authors:  Aiming Ren; Ronald Micura; Dinshaw J Patel
Journal:  Curr Opin Chem Biol       Date:  2017-11-03       Impact factor: 8.822

8.  Quantum mechanical/molecular mechanical free energy simulations of the self-cleavage reaction in the hepatitis delta virus ribozyme.

Authors:  Abir Ganguly; Pallavi Thaplyal; Edina Rosta; Philip C Bevilacqua; Sharon Hammes-Schiffer
Journal:  J Am Chem Soc       Date:  2014-01-15       Impact factor: 15.419

9.  Intermolecular domain docking in the hairpin ribozyme: metal dependence, binding kinetics and catalysis.

Authors:  Minako Sumita; Neil A White; Kristine R Julien; Charles G Hoogstraten
Journal:  RNA Biol       Date:  2013-01-16       Impact factor: 4.652

10.  Structure of a dimeric crenarchaeal Cas6 enzyme with an atypical active site for CRISPR RNA processing.

Authors:  Judith Reeks; Richard D Sokolowski; Shirley Graham; Huanting Liu; James H Naismith; Malcolm F White
Journal:  Biochem J       Date:  2013-06-01       Impact factor: 3.857
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