Literature DB >> 19879179

Model systems: how chemical biologists study RNA.

Andro C Rios1, Yitzhak Tor.   

Abstract

Ribonucleic acids are structurally and functionally sophisticated biomolecules and the use of models, frequently truncated or modified sequences representing functional domains of the natural systems, is essential to their exploration. Functional noncoding RNAs such as miRNAs, riboswitches, and, in particular, ribozymes, have changed the view of RNA's role in biology and its catalytic potential. The well-known truncated hammerhead model has recently been refined and new data provide a clearer molecular picture of the elements responsible for its catalytic power. A model for the spliceosome, a massive and highly intricate ribonucleoprotein, is also emerging, although its true utility is yet to be cemented. Such catalytic model systems could also serve as 'chemo-paleontological' tools, further refining the RNA world hypothesis and its relevance to the origin and evolution of life.

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Year:  2009        PMID: 19879179      PMCID: PMC2787688          DOI: 10.1016/j.cbpa.2009.09.028

Source DB:  PubMed          Journal:  Curr Opin Chem Biol        ISSN: 1367-5931            Impact factor:   8.822


  74 in total

Review 1.  Translation: in retrospect and prospect.

Authors:  C R Woese
Journal:  RNA       Date:  2001-08       Impact factor: 4.942

2.  Role of Mg2+ in hammerhead ribozyme catalysis from molecular simulation.

Authors:  Tai-Sung Lee; Carlos Silva López; George M Giambasu; Monika Martick; William G Scott; Darrin M York
Journal:  J Am Chem Soc       Date:  2008-02-14       Impact factor: 15.419

3.  Biochemistry. The evolution of ribozyme chemistry.

Authors:  Timothy J Wilson; David M J Lilley
Journal:  Science       Date:  2009-03-13       Impact factor: 47.728

4.  The generality of self-splicing RNA: relationship to nuclear mRNA splicing.

Authors:  T R Cech
Journal:  Cell       Date:  1986-01-31       Impact factor: 41.582

Review 5.  On the origin of RNA splicing and introns.

Authors:  P A Sharp
Journal:  Cell       Date:  1985-09       Impact factor: 41.582

6.  The crystal structure of an all-RNA hammerhead ribozyme: a proposed mechanism for RNA catalytic cleavage.

Authors:  W G Scott; J T Finch; A Klug
Journal:  Cell       Date:  1995-06-30       Impact factor: 41.582

7.  The U5 and U6 small nuclear RNAs as active site components of the spliceosome.

Authors:  E J Sontheimer; J A Steitz
Journal:  Science       Date:  1993-12-24       Impact factor: 47.728

8.  Mutations in U6 snRNA that alter splice site specificity: implications for the active site.

Authors:  C F Lesser; C Guthrie
Journal:  Science       Date:  1993-12-24       Impact factor: 47.728

9.  Model for general acid-base catalysis by the hammerhead ribozyme: pH-activity relationships of G8 and G12 variants at the putative active site.

Authors:  Joonhee Han; John M Burke
Journal:  Biochemistry       Date:  2005-05-31       Impact factor: 3.162

10.  Synthesis of activated pyrimidine ribonucleotides in prebiotically plausible conditions.

Authors:  Matthew W Powner; Béatrice Gerland; John D Sutherland
Journal:  Nature       Date:  2009-05-14       Impact factor: 49.962

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  2 in total

1.  Site-specific platinum(II) cross-linking in a ribozyme active site.

Authors:  Erich G Chapman; Victoria J DeRose
Journal:  J Am Chem Soc       Date:  2011-12-14       Impact factor: 15.419

Review 2.  Bridging the gap between theory and experiment to derive a detailed understanding of hammerhead ribozyme catalysis.

Authors:  Tai-Sung Lee; Kin-Yiu Wong; George M Giambasu; Darrin M York
Journal:  Prog Mol Biol Transl Sci       Date:  2013       Impact factor: 3.622

  2 in total

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