Ion-induced folding of the hammerhead ribozyme: a fluorescence resonance energy transfer study

被引:142
作者
Bassi, GS
Murchie, AIH
Walter, F
Clegg, RM
Lilley, DMJ [1 ]
机构
[1] Univ Dundee, Dept Biochem, CRC, Nucleic Acid Struct Res Grp, Dundee DD1 4HN, Scotland
[2] Max Planck Inst Biophys Chem, Mol Biol Abt, D-37077 Gottingen, Germany
关键词
fluorescence; metal ions; ribozyme; RNA folding;
D O I
10.1093/emboj/16.24.7481
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
The ion-induced folding transitions of the hammerhead ribozyme have been analysed by fluorescence resonance energy transfer. The hammerhead ribozyme may be regarded as a special example of a three-way RNA junction, the global structure of which has been studied by comparing the distances (as energy transfer efficiencies) between the ends of pairs of labelled arms for the three possible end-to-end vectors as a function of magnesium ion concentration. The data support two sequential ion-dependent transitions, which can be interpreted in the light of the crystal structures of the hammerhead ribozyme. The first transition corresponds to the formation of a coaxial stacking between helices II and III; the data can be fully explained by a model in which the transition is induced by a single magnesium ion which binds with an apparent association constant of 8000-10 000 M-1. The second structural transition corresponds to the formation of the catalytic domain of the ribozyme, induced by a single magnesium ion with an apparent association constant of similar to 1100 M-1. The hammerhead ribozyme provides a well-defined example of ion-dependent folding in RNA.
引用
收藏
页码:7481 / 7489
页数:9
相关论文
共 54 条
[1]   GLOBAL CONFORMATION OF A SELF-CLEAVING HAMMERHEAD RNA [J].
AMIRI, KMA ;
HAGERMAN, PJ .
BIOCHEMISTRY, 1994, 33 (45) :13172-13177
[2]  
Bassi GS, 1996, RNA, V2, P756
[3]   IONIC INTERACTIONS AND THE GLOBAL CONFORMATIONS OF THE HAMMERHEAD RIBOZYME [J].
BASSI, GS ;
MOLLEGAARD, NE ;
MURCHIE, AIH ;
VONKITZING, E ;
LILLEY, DMJ .
NATURE STRUCTURAL BIOLOGY, 1995, 2 (01) :45-55
[4]   DEOXYNUCLEOSIDE PHOSPHORAMIDITES - A NEW CLASS OF KEY INTERMEDIATES FOR DEOXYPOLYNUCLEOTIDE SYNTHESIS [J].
BEAUCAGE, SL ;
CARUTHERS, MH .
TETRAHEDRON LETTERS, 1981, 22 (20) :1859-1862
[5]   OBSERVING THE HELICAL GEOMETRY OF DOUBLE-STRANDED DNA IN SOLUTION BY FLUORESCENCE RESONANCE ENERGY-TRANSFER [J].
CLEGG, RM ;
MURCHIE, AIH ;
ZECHEL, A ;
LILLEY, DMJ .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1993, 90 (07) :2994-2998
[6]  
CLEGG RM, 1992, METHOD ENZYMOL, V211, P353
[7]   FLUORESCENCE RESONANCE ENERGY-TRANSFER ANALYSIS OF THE STRUCTURE OF THE 4-WAY DNA JUNCTION [J].
CLEGG, RM ;
MURCHIE, AIH ;
ZECHEL, A ;
CARLBERG, C ;
DIEKMANN, S ;
LILLEY, DMJ .
BIOCHEMISTRY, 1992, 31 (20) :4846-4856
[8]   EVIDENCE FOR THE ROLE OF SOLVATED METAL HYDROXIDE IN THE HAMMERHEAD CLEAVAGE MECHANISM [J].
DAHM, SC ;
DERRICK, WB ;
UHLENBECK, OC .
BIOCHEMISTRY, 1993, 32 (48) :13040-13045
[9]   ROLE OF DIVALENT METAL-IONS IN THE HAMMERHEAD RNA CLEAVAGE REACTION [J].
DAHM, SC ;
UHLENBECK, OC .
BIOCHEMISTRY, 1991, 30 (39) :9464-9469
[10]   THE STRUCTURE OF THE HOLLIDAY JUNCTION, AND ITS RESOLUTION [J].
DUCKETT, DR ;
MURCHIE, AIH ;
DIEKMANN, S ;
VONKITZING, E ;
KEMPER, B ;
LILLEY, DMJ .
CELL, 1988, 55 (01) :79-89