在锤头状核酶切割机制研究中构型明确的含硫代磷酸酯寡核糖核苷酸
Configurationally defined phosphorothioate-containing oligoribonucleotides in the study of the mechanism of cleavage of hammerhead ribozymes.
作者信息
Slim G, Gait M J
机构信息
MRC Laboratory of Molecular Biology, Cambridge, UK.
出版信息
Nucleic Acids Res. 1991 Mar 25;19(6):1183-8. doi: 10.1093/nar/19.6.1183.
Abstract
The chemical synthesis is described of oligoribonucleotides containing a single phosphorothioate linkage of defined Rp and Sp configuration. The oligoribonucleotides were used as substrates in the study of the mechanism of cleavage of an RNA hammerhead domain having the phosphorothioate group at the cleavage site. Whereas the Rp isomer was cleaved only very slowly in the presence of magnesium ion, the rate of cleavage of the Sp isomer was only slightly reduced from that of the unmodified phosphodiester. This finding gives further evidence for the hypothesis that the magnesium ion is bound to the pro-R oxygen in the transition state of the hammerhead cleavage reaction. Also, inversion of configuration at phosphorus is confirmed for a two-stranded hammerhead.
摘要
本文描述了含有特定Rp和Sp构型的单个硫代磷酸酯键的寡核糖核苷酸的化学合成。这些寡核糖核苷酸被用作底物，用于研究在切割位点具有硫代磷酸酯基团的RNA锤头结构域的切割机制。在镁离子存在下，Rp异构体的切割非常缓慢，而Sp异构体的切割速率与未修饰的磷酸二酯相比仅略有降低。这一发现进一步证明了以下假设：在锤头切割反应的过渡态中，镁离子与前-R氧结合。此外，对于双链锤头，磷原子的构型翻转也得到了证实。
相似文献
1
Configurationally defined phosphorothioate-containing oligoribonucleotides in the study of the mechanism of cleavage of hammerhead ribozymes.在锤头状核酶切割机制研究中构型明确的含硫代磷酸酯寡核糖核苷酸
Nucleic Acids Res. 1991 Mar 25;19(6):1183-8. doi: 10.1093/nar/19.6.1183.
2
Effects of phosphorothioate and 2-amino groups in hammerhead ribozymes on cleavage rates and Mg2+ binding.锤头状核酶中硫代磷酸酯和2-氨基对切割速率及Mg2+结合的影响。
Biochemistry. 1991 May 28;30(21):5145-50. doi: 10.1021/bi00235a005.
3
Identification of the hammerhead ribozyme metal ion binding site responsible for rescue of the deleterious effect of a cleavage site phosphorothioate.鉴定锤头状核酶金属离子结合位点，该位点可挽救切割位点硫代磷酸酯的有害效应。
Biochemistry. 1999 Oct 26;38(43):14363-78. doi: 10.1021/bi9913202.
4
A reappraisal, based on (31)P NMR, of the direct coordination of a metal ion with the phosphoryl oxygen at the cleavage site of a hammerhead ribozyme.基于磷-31核磁共振（³¹P NMR）对金属离子与锤头状核酶切割位点处磷酰氧直接配位作用的重新评估。
J Am Chem Soc. 2002 Jul 17;124(28):8230-6. doi: 10.1021/ja0202098.
5
A re-investigation of the thio effect at the hammerhead cleavage site.锤头状切割位点硫效应的重新研究。
Nucleic Acids Res. 1999 Jan 15;27(2):479-84. doi: 10.1093/nar/27.2.479.
6
Involvement of a specific metal ion in the transition of the hammerhead ribozyme to its catalytic conformation.特定金属离子在锤头状核酶向其催化构象转变过程中的作用。
J Biol Chem. 1997 Oct 24;272(43):26822-6. doi: 10.1074/jbc.272.43.26822.
7
Activities and relative affinities of divalent metals in unmodified and phosphorothioate-substituted hammerhead ribozymes.未修饰及硫代磷酸酯取代的锤头状核酶中二价金属的活性及相对亲和力
J Inorg Biochem. 2000 Jul 1;80(3-4):271-81. doi: 10.1016/s0162-0134(00)00079-9.
8
The stereochemical course of group II intron self-splicing.II类内含子自我剪接的立体化学过程。
Science. 1994 Dec 9;266(5191):1685-8. doi: 10.1126/science.7527587.
9
Metal ions play a passive role in the hairpin ribozyme catalysed reaction.金属离子在发夹状核酶催化反应中起被动作用。
Nucleic Acids Res. 1997 Oct 1;25(19):3760-6. doi: 10.1093/nar/25.19.3760.
10
Ribonuclease P (RNase P) RNA is converted to a Cd(2+)-ribozyme by a single Rp-phosphorothioate modification in the precursor tRNA at the RNase P cleavage site.核糖核酸酶P（RNase P）RNA通过在前体tRNA的RNase P切割位点进行单个Rp-硫代磷酸酯修饰而转化为Cd(2+)核酶。
Proc Natl Acad Sci U S A. 1996 Aug 20;93(17):8924-8. doi: 10.1073/pnas.93.17.8924.
引用本文的文献
1
The L-platform/L-scaffold framework: a blueprint for RNA-cleaving nucleic acid enzyme design.L 平台/L 支架框架：RNA 切割核酸酶设计的蓝图。
RNA. 2020 Feb;26(2):111-125. doi: 10.1261/rna.071894.119. Epub 2019 Nov 27.
2
Classification of the nucleolytic ribozymes based upon catalytic mechanism.基于催化机制的核酸裂解核酶分类。
F1000Res. 2019 Aug 19;8. doi: 10.12688/f1000research.19324.1. eCollection 2019.
3
A Two-Metal-Ion-Mediated Conformational Switching Pathway for HDV Ribozyme Activation.一种用于丁型肝炎病毒核酶激活的双金属离子介导的构象转换途径。
ACS Catal. 2016;6(3):1853-1869. doi: 10.1021/acscatal.5b02158. Epub 2016 Feb 1.
4
Molecular Dynamics Study of Twister Ribozyme: Role of Mg(2+) Ions and the Hydrogen-Bonding Network in the Active Site.扭曲核酶的分子动力学研究：镁离子和活性位点氢键网络的作用
Biochemistry. 2016 Jul 12;55(27):3834-46. doi: 10.1021/acs.biochem.6b00203. Epub 2016 Jun 27.
5
Nucleic acid separations using superficially porous silica particles.使用表面多孔二氧化硅颗粒进行核酸分离。
J Chromatogr A. 2016 Apr 1;1440:135-144. doi: 10.1016/j.chroma.2016.02.057. Epub 2016 Feb 23.
6
NMR localization of divalent cations at the active site of the Neurospora VS ribozyme provides insights into RNA-metal-ion interactions.NMR 定位神经丝氨酸核酶活性部位的二价阳离子，深入了解 RNA-金属离子相互作用。
Biochemistry. 2014 Jan 28;53(3):579-90. doi: 10.1021/bi401484a. Epub 2014 Jan 10.
7
G17-modified hammerhead ribozymes are active in vitro and in vivo.G17 修饰的锤头核酶在体外和体内都具有活性。
RNA. 2013 Dec;19(12):1595-604. doi: 10.1261/rna.040543.113. Epub 2013 Oct 21.
8
Hydrostatic and osmotic pressure study of the RNA hydration.RNA 水合的流体静力学和渗透压力研究。
Mol Biol Rep. 2012 May;39(5):6309-18. doi: 10.1007/s11033-012-1452-z.
9
Ground-state coordination of a catalytic metal to the scissile phosphate of a tertiary-stabilized Hammerhead ribozyme.催化金属与三级稳定锤头核酶裂解磷酸盐的基态配位。
RNA. 2012 Jan;18(1):16-23. doi: 10.1261/rna.030239.111. Epub 2011 Nov 28.
10
Hammerhead ribozymes: true metal or nucleobase catalysis? Where is the catalytic power from?锤头核酶：真的是金属催化还是碱基催化？催化活力来自哪里？
Molecules. 2010 Aug 6;15(8):5389-407. doi: 10.3390/molecules15085389.
本文引用的文献
1
Synthesis and configurational analysis of a dinucleoside phosphate isotopically chiral at phosphorus. Stereochemical course of Penicillium citrum nuclease P1 reaction.磷原子具有同位素手性的磷酸二核苷的合成与构型分析。柠檬青霉核酸酶P1反应的立体化学过程。
Biochemistry. 1983 Mar 15;22(6):1369-77. doi: 10.1021/bi00275a008.
2
Self-splicing RNA: autoexcision and autocyclization of the ribosomal RNA intervening sequence of Tetrahymena.自我剪接RNA：嗜热四膜虫核糖体RNA间隔序列的自动切除与自动环化
Cell. 1982 Nov;31(1):147-57. doi: 10.1016/0092-8674(82)90414-7.
3
Geometry of the first step in the action of ribonuclease-A (in-line geometry-uridine2',3'-cyclic thiophosphate- 31 P NMR).核糖核酸酶-A作用第一步的几何结构（内式几何结构——尿苷2',3'-环硫代磷酸酯——31P核磁共振）
Proc Natl Acad Sci U S A. 1972 Jan;69(1):115-8. doi: 10.1073/pnas.69.1.115.
4
Structural and ionic requirements for self-cleavage of virusoid RNAs and trans self-cleavage of viroid RNA.类病毒RNA自我切割及病毒卫星RNA反式自我切割的结构和离子需求
Cold Spring Harb Symp Quant Biol. 1987;52:249-59. doi: 10.1101/sqb.1987.052.01.030.
5
Mutagenesis analysis of a self-cleaving RNA.自我切割RNA的诱变分析。
Nucleic Acids Res. 1989 Jul 25;17(14):5679-85. doi: 10.1093/nar/17.14.5679.
6
A catalytic 13-mer ribozyme.一种具有催化活性的13聚体核酶。
Nucleic Acids Res. 1989 Feb 25;17(4):1371-7. doi: 10.1093/nar/17.4.1371.
7
A computational approach to the mechanism of self-cleavage of hammerhead RNA.一种针对锤头状RNA自我切割机制的计算方法。
Proc Natl Acad Sci U S A. 1989 Dec;86(24):9727-31. doi: 10.1073/pnas.86.24.9727.
8
Design of RNA enzymes distinguishing a single base mutation in RNA.区分RNA中单个碱基突变的RNA酶设计。
Nucleic Acids Res. 1989 Sep 12;17(17):7059-71. doi: 10.1093/nar/17.17.7059.
9
Mobile RNA catalysts.
Nature. 1988;336(6201):716-8. doi: 10.1038/336716a0.
10
Cleavage of specific sites of RNA by designed ribozymes.设计的核酶对RNA特定位点的切割
FEBS Lett. 1988 Nov 7;239(2):285-8. doi: 10.1016/0014-5793(88)80935-9.
Zotero 插件