六核苷酸基序上的程序性翻译-1移码以及tRNA的摆动特性
Programmed translational -1 frameshifting on hexanucleotide motifs and the wobble properties of tRNAs.
作者信息
Licznar Patricia, Mejlhede Nina, Prère Marie-Françoise, Wills Norma, Gesteland Raymond F, Atkins John F, Fayet Olivier
机构信息
Microbiologie et Génétique Moléculaire, CNRS, 118 route de Narbonne, 31062 Toulouse Cedex, France.
出版信息
EMBO J. 2003 Sep 15;22(18):4770-8. doi: 10.1093/emboj/cdg465.
Abstract
Programmed -1 ribosomal frameshifting, involving tRNA re-pairing from an AAG codon to an AAA codon, has been reported to occur at the sequences CGA AAG and CAA AAG. In this study, using the recoding region of insertion sequence IS3, we have investigated the influence on frameshifting in Escherichia coli of the first codon of this type of motif by changing it to all other NNA codons. Two classes of NNA codons were distinguished, depending on whether they favor or limit frameshifting. Their degree of shiftiness is correlated with wobble propensity, and base 34 modification, of their decoding tRNAs. A more flexible anticodon loop very likely makes the tRNAs with extended wobble more prone to liberate the third codon base, A, for re-pairing of tRNALys in the -1 frame.
摘要
据报道，程序性-1核糖体移码涉及tRNA从AAG密码子重新配对到AAA密码子，发生在序列CGA AAG和CAA AAG处。在本研究中，我们利用插入序列IS3的重编码区域，通过将这类基序的第一个密码子替换为所有其他NNA密码子，研究了其对大肠杆菌中移码的影响。根据它们对移码的促进或限制作用，区分出两类NNA密码子。它们的移码程度与解码tRNA的摆动倾向和第34位碱基修饰相关。一个更灵活的反密码子环很可能使具有扩展摆动的tRNA更容易释放第三个密码子碱基A，以便在-1框架中与赖氨酸tRNA重新配对。
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本文引用的文献
1
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Cell. 2003 Jun 13;113(6):789-801. doi: 10.1016/s0092-8674(03)00427-6.
2
Insights into the decoding mechanism from recent ribosome structures.从近期核糖体结构看解码机制的见解。
Trends Biochem Sci. 2003 May;28(5):259-66. doi: 10.1016/S0968-0004(03)00066-5.
3
Overriding standard decoding: implications of recoding for ribosome function and enrichment of gene expression.超越标准解码：重新编码对核糖体功能和基因表达富集的影响。
Cold Spring Harb Symp Quant Biol. 2001;66:217-32. doi: 10.1101/sqb.2001.66.217.
4
The 9-A solution: how mRNA pseudoknots promote efficient programmed -1 ribosomal frameshifting.9-A解决方案：信使核糖核酸假结如何促进高效的程序性-1核糖体移码
RNA. 2003 Feb;9(2):168-74. doi: 10.1261/rna.2132503.
5
Selection of tRNA by the ribosome requires a transition from an open to a closed form.核糖体对tRNA的选择需要从开放形式转变为封闭形式。
Cell. 2002 Nov 27;111(5):721-32. doi: 10.1016/s0092-8674(02)01086-3.
6
Ribosome interactions of aminoacyl-tRNA and elongation factor Tu in the codon-recognition complex.密码子识别复合物中氨酰tRNA与延伸因子Tu的核糖体相互作用。
Nat Struct Biol. 2002 Nov;9(11):849-54. doi: 10.1038/nsb859.
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8
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J Mol Biol. 2002 Jun 21;319(5):1015-34. doi: 10.1016/S0022-2836(02)00382-0.
10
Translocation of tRNA during protein synthesis.蛋白质合成过程中tRNA的易位。
FEBS Lett. 2002 Mar 6;514(1):11-6. doi: 10.1016/s0014-5793(02)02327-x.
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