RNA dynamics: it is about time

被引:240
作者
Al-Hashimi, Hashim M. [1 ]
Walter, Nils G. [2 ]
机构
[1] Univ Michigan, Dept Biophys Chem, Ann Arbor, MI 48109 USA
[2] Univ Michigan, Dept Chem, Single Mol Anal Grp, Ann Arbor, MI 48109 USA
关键词
D O I
10.1016/j.sbi.2008.04.004
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Many recently discovered RNA functions rely on highly complex multistep conformational transitions that occur in response to an array of cellular signals. These dynamics accompany and guide, for example, RNA cotranscriptional folding, ligand sensing and signaling, site-specific catalysis in ribozymes, and the hierarchically ordered assembly of ribonucleoproteins. RNA dynamics are encoded by both the inherent properties of RNA structure, spanning many motional modes with a large range of amplitudes and timescales, and external trigger factors, ranging from proteins, nucleic acids, metal ions, metabolites, and vitamins to temperature and even directional RNA biosynthesis itself. Here, we review recent advances in our understanding of RNA dynamics as highlighted by biophysical tools.
引用
收藏
页码:321 / 329
页数:9
相关论文
共 50 条
  • [1] Two distinct binding modes of a protein cofactor with its target RNA
    Bokinsky, Gregory
    Nivon, Lucas G.
    Liu, Shixin
    Chai, Geqing
    Hong, Minh
    Weeks, Kevin M.
    Zhuang, Xiaowei
    [J]. JOURNAL OF MOLECULAR BIOLOGY, 2006, 361 (04) : 771 - 784
  • [2] Time-resolved NMR methods resolving ligand-induced RNA folding at atomic resolution
    Buck, Janina
    Fuertig, Boris
    Noeske, Jonas
    Woehnert, Jens
    Schwalbe, Harald
    [J]. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2007, 104 (40) : 15699 - 15704
  • [3] Molecular basis for temperature sensing by an RNA thermometer
    Chowdhury, Saheli
    Maris, Christophe
    Allain, Frederic H-T
    Narberhaus, Franz
    [J]. EMBO JOURNAL, 2006, 25 (11) : 2487 - 2497
  • [4] Focus on function:: Single molecule RNA enzymology
    Ditzler, Mark A.
    Aleman, Elvin A.
    Rueda, David
    Walter, Nils G.
    [J]. BIOPOLYMERS, 2007, 87 (5-6) : 302 - 316
  • [5] Metal ion dependence, thermodynamics, and kinetics for intramolecular docking of a GAAA tetraloop and receptor connected by a flexible linker
    Downey, CD
    Fiore, JL
    Stoddard, CD
    Hodak, JH
    Nesbitt, DJ
    Pardi, A
    [J]. BIOCHEMISTRY, 2006, 45 (11) : 3664 - 3673
  • [6] Influence of hydrostatic pressure and cosolutes on RNA tertiary structure
    Downey, Christopher D.
    Crisman, Ryan L.
    Randolph, Theodore W.
    Pardi, Arthur
    [J]. JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 2007, 129 (30) : 9290 - +
  • [7] Riboswitches:: small-molecule recognition by gene regulatory RNAs
    Edwards, Thomas E.
    Klein, Daniel J.
    Ferre-D'Amare, Adrian R.
    [J]. CURRENT OPINION IN STRUCTURAL BIOLOGY, 2007, 17 (03) : 273 - 279
  • [8] Internal bulge and tetraloop of the catalytic domain 5 of a group II intron ribozyme are flexible: Implications for catalysis
    Eldho, Nadukkudy V.
    Dayie, Kwaku T.
    [J]. JOURNAL OF MOLECULAR BIOLOGY, 2007, 365 (04) : 930 - 944
  • [9] Ligand-directed dynamics of adenine riboswitch conformers
    Eskandari, Sarnan
    Prychyna, Oksana
    Leung, Jessica
    Avdic, Dijana
    O'Neill, Melanie A.
    [J]. JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 2007, 129 (37) : 11308 - +
  • [10] Thermodynamic and kinetic characterization of ligand binding to the purine riboswitch aptamer domain
    Gilbert, Sunny D.
    Stoddard, Colby D.
    Wise, Sarah J.
    Batey, Robert T.
    [J]. JOURNAL OF MOLECULAR BIOLOGY, 2006, 359 (03) : 754 - 768