RNA Folding: Thermodynamic and Molecular Descriptions of the Roles of Ions

被引:196
作者
Draper, David E. [1 ]
机构
[1] Johns Hopkins Univ, Dept Chem, Baltimore, MD 21218 USA
基金
美国国家卫生研究院;
关键词
D O I
10.1529/biophysj.108.131813
中图分类号
Q6 [生物物理学];
学科分类号
071011 ;
摘要
The stability of a compact RNA tertiary structure is exquisitely sensitive to the concentrations and types of ions that are present. This review discusses the progress that has been made in developing a quantitative understanding of the thermodynamic parameters and molecular detail that underlie this sensitivity, including the nature of the ion atmosphere, the occurrence of specific ion binding sites, and the importance of the ensemble of partially unfolded states from which folding to the native structure occurs.
引用
收藏
页码:5489 / 5495
页数:7
相关论文
共 49 条
[1]   SALT DEPENDENCE OF OLIGOION POLYION BINDING - A THERMODYNAMIC DESCRIPTION BASED ON PREFERENTIAL INTERACTION COEFFICIENTS [J].
ANDERSON, CF ;
RECORD, MT .
JOURNAL OF PHYSICAL CHEMISTRY, 1993, 97 (27) :7116-7126
[2]   Probing counterion modulated repulsion and attraction between nucleic acid duplexes in solution [J].
Bai, Y ;
Das, R ;
Millett, IS ;
Herschlag, D ;
Doniach, S .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2005, 102 (04) :1035-1040
[3]   Quantitative and comprehensive decomposition of the ion atmosphere around nucleic acids [J].
Bai, Yu ;
Greenfeld, Max ;
Travers, Kevin J. ;
Chu, Vincent B. ;
Lipfert, Jan ;
Doniach, Sebastian ;
Herschlag, Daniel .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 2007, 129 (48) :14981-14988
[4]   Structure of a folding intermediate reveals the interplay between core and peripheral elements in RNA folding [J].
Baird, NJ ;
Westhof, E ;
Qin, H ;
Pan, T ;
Sosnick, TR .
JOURNAL OF MOLECULAR BIOLOGY, 2005, 352 (03) :712-722
[5]   CONFORMATIONAL TRANSITIONS OF DUPLEX AND TRIPLER NUCLEIC-ACID HELICES - THERMODYNAMIC ANALYSIS OF EFFECTS OF SALT CONCENTRATION ON STABILITY USING PREFERENTIAL INTERACTION COEFFICIENTS [J].
BOND, JP ;
ANDERSON, CF ;
RECORD, MT .
BIOPHYSICAL JOURNAL, 1994, 67 (02) :825-836
[6]   Complex riboswitches [J].
Breaker, Ronald R. .
SCIENCE, 2008, 319 (5871) :1795-1797
[7]  
Buchmueller KL, 2000, NAT STRUCT BIOL, V7, P362
[8]   Crystal structure of a group I ribozyme domain: Principles of RNA packing [J].
Cate, JH ;
Gooding, AR ;
Podell, E ;
Zhou, KH ;
Golden, BL ;
Kundrot, CE ;
Cech, TR ;
Doudna, JA .
SCIENCE, 1996, 273 (5282) :1678-1685
[9]   CHARACTERIZATION OF THE CYTOPLASM OF ESCHERICHIA-COLI-K-12 AS A FUNCTION OF EXTERNAL OSMOLARITY - IMPLICATIONS FOR PROTEIN DNA INTERACTIONS INVIVO [J].
CAYLEY, S ;
LEWIS, BA ;
GUTTMAN, HJ ;
RECORD, MT .
JOURNAL OF MOLECULAR BIOLOGY, 1991, 222 (02) :281-300
[10]   RNA tertiary interactions mediate native collapse of a bacterial group I ribozyme [J].
Chauhan, S ;
Caliskan, G ;
Briber, RM ;
Perez-Salas, U ;
Rangan, P ;
Thirumalai, D ;
Woodson, SA .
JOURNAL OF MOLECULAR BIOLOGY, 2005, 353 (05) :1199-1209