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1
Variable and conserved elements of human ribosomes surrounding the mRNA at the decoding and upstream sites.在解码位点和上游位点围绕mRNA的人类核糖体的可变和保守元件。
Nucleic Acids Res. 2004 Jun 18;32(11):3282-93. doi: 10.1093/nar/gkh657. Print 2004.
2
[Positioning of mRNA 3' of the a site bound codon on the human 80S ribosome].[人80S核糖体上与A位点结合密码子3'端的mRNA定位]
Mol Biol (Mosk). 2005 Nov-Dec;39(6):999-1007.
3
Arrangement of mRNA 3' of the A site codon on the human 80S ribosome.人80S核糖体上A位点密码子3'端的mRNA排列
RNA Biol. 2005 Apr;2(2):63-9. doi: 10.4161/rna.2.2.1756. Epub 2005 Apr 14.
4
Nucleotides of 18S rRNA surrounding mRNA codons at the human ribosomal A, P, and E sites: a crosslinking study with mRNA analogs carrying an aryl azide group at either the uracil or the guanine residue.人核糖体A、P和E位点处围绕mRNA密码子的18S rRNA核苷酸：一项对在尿嘧啶或鸟嘌呤残基处带有芳基叠氮基团的mRNA类似物进行的交联研究。
RNA. 2000 Dec;6(12):1727-36. doi: 10.1017/s1355838200000996.
5
[Part of the matrix on the 5' side from codon in the E-segment is close to protein S26 on the human 80S ribosome].[E段中密码子5'侧的部分矩阵靠近人类80S核糖体上的蛋白质S26]。
Mol Biol (Mosk). 2004 Nov-Dec;38(6):1033-40.
6
The first position of a codon placed in the A site of the human 80S ribosome contacts nucleotide C1696 of the 18S rRNA as well as proteins S2, S3, S3a, S30, and S15.置于人类80S核糖体A位点的密码子的第一个位置与18S rRNA的核苷酸C1696以及蛋白质S2、S3、S3a、S30和S15接触。
Biochemistry. 2005 Feb 15;44(6):2153-62. doi: 10.1021/bi0487802.
7
Sites of 18S rRNA contacting mRNA 3' and 5' of the P site codon in human ribosome: a cross-linking study with mRNAs carrying 4-thiouridines at specific positions.人核糖体中18S rRNA与P位点密码子mRNA 3'和5'接触的位点：对在特定位置携带4-硫尿苷的mRNA进行的交联研究
Biochim Biophys Acta. 2009 Mar;1789(3):167-74. doi: 10.1016/j.bbagrm.2008.12.001. Epub 2008 Dec 11.
8
[The mRNA codon environment at the P and E sites of human ribosomes deduced from photo crosslinking with pUUUGUU].[通过与pUUUGUU进行光交联推导得出的人核糖体P位和E位的mRNA密码子环境]
Mol Biol (Mosk). 2003 Jan-Feb;37(1):147-55.
9
mRNA 3' of the A site bound codon is located close to protein S3 on the human 80S ribosome.A位点结合密码子的mRNA 3'端位于人80S核糖体上靠近蛋白质S3的位置。
RNA Biol. 2006 Jul;3(3):122-9. doi: 10.4161/rna.3.3.3584. Epub 2006 Jul 7.
10
Positioning of mRNA codons with respect to 18S rRNA at the P and E sites of human ribosome.人核糖体P位和E位上mRNA密码子相对于18S rRNA的定位。
Biochim Biophys Acta. 2003 May 13;1627(1):39-46. doi: 10.1016/s0167-4781(03)00072-1.

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1
Two "Edges" in Our Knowledge on the Functions of Ribosomal Proteins: The Revealed Contributions of Their Regions to Translation Mechanisms and the Issues of Their Extracellular Transport by Exosomes.核糖体蛋白功能知识的两个“边缘”：其区域对翻译机制的贡献以及它们通过外泌体进行细胞外运输的问题。
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2
Structural Insights into the Mammalian Late-Stage Initiation Complexes.哺乳动物晚期起始复合物的结构见解。
Cell Rep. 2020 Apr 7;31(1):107497. doi: 10.1016/j.celrep.2020.03.061.
3
mRNA regions where 80S ribosomes pause during translation elongation in vivo interact with protein uS19, a component of the decoding site.mRNA 区域在体内翻译延伸过程中 80S 核糖体暂停与蛋白 uS19 相互作用，uS19 是解码位点的一个组成部分。
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4
Exploring the interactions of short RNAs with the human 40S ribosomal subunit near the mRNA entry site by EPR spectroscopy.通过电子顺磁共振波谱法研究短 RNA 与靠近 mRNA 入口位点的人 40S 核糖体亚基的相互作用。
Nucleic Acids Res. 2019 Dec 16;47(22):11850-11860. doi: 10.1093/nar/gkz1039.
5
Structural rearrangements in mRNA upon its binding to human 80S ribosomes revealed by EPR spectroscopy.通过电子顺磁共振波谱学揭示了人 80S 核糖体结合的 mRNA 的结构重排。
Nucleic Acids Res. 2018 Jan 25;46(2):897-904. doi: 10.1093/nar/gkx1136.
6
Recognition but no repair of abasic site in single-stranded DNA by human ribosomal uS3 protein residing within intact 40S subunit.完整40S亚基中的人核糖体uS3蛋白对单链DNA中无碱基位点的识别但不修复
Nucleic Acids Res. 2017 Apr 20;45(7):3833-3843. doi: 10.1093/nar/gkx052.
7
Ribosomal Protein Rps26 Influences 80S Ribosome Assembly in Saccharomyces cerevisiae.核糖体蛋白Rps26影响酿酒酵母中的80S核糖体组装。
mSphere. 2016 Feb 24;1(1). doi: 10.1128/mSphere.00109-15. eCollection 2016 Jan-Feb.
8
Doubly Spin-Labeled RNA as an EPR Reporter for Studying Multicomponent Supramolecular Assemblies.双自旋标记RNA作为用于研究多组分超分子组装体的电子顺磁共振报告分子。
Biophys J. 2015 Dec 15;109(12):2637-2643. doi: 10.1016/j.bpj.2015.10.042.
9
Modified Method of rRNA Structure Analysis Reveals Novel Characteristics of Box C/D RNA Analogues.rRNA结构分析的改进方法揭示了盒C/D RNA类似物的新特征。
Acta Naturae. 2015 Apr-Jun;7(2):64-73.
10
Interaction of tRNA with eukaryotic ribosome.转运RNA与真核生物核糖体的相互作用。
Int J Mol Sci. 2015 Mar 30;16(4):7173-94. doi: 10.3390/ijms16047173.

本文引用的文献

1
[Interaction of human S26 ribosomal protein with fragments of mRNA and pre-mRNA for this protein in Hela nuclear cell extracts].[人S26核糖体蛋白与Hela细胞核提取物中该蛋白的mRNA和前体mRNA片段的相互作用]
Mol Biol (Mosk). 2003 Sep-Oct;37(5):900-5.
2
The ribosomal A site-bound sense and stop codons are similarly positioned towards the A1823-A1824 dinucleotide of the 18S ribosomal RNA.与核糖体A位点结合的有义密码子和终止密码子与18S核糖体RNA的A1823 - A1824二核苷酸的位置相似。
FEBS Lett. 2003 Jul 31;548(1-3):97-102. doi: 10.1016/s0014-5793(03)00755-5.
3
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.
4
Positioning of mRNA codons with respect to 18S rRNA at the P and E sites of human ribosome.人核糖体P位和E位上mRNA密码子相对于18S rRNA的定位。
Biochim Biophys Acta. 2003 May 13;1627(1):39-46. doi: 10.1016/s0167-4781(03)00072-1.
5
[The mRNA codon environment at the P and E sites of human ribosomes deduced from photo crosslinking with pUUUGUU].[通过与pUUUGUU进行光交联推导得出的人核糖体P位和E位的mRNA密码子环境]
Mol Biol (Mosk). 2003 Jan-Feb;37(1):147-55.
6
Structure of the mammalian ribosome-channel complex at 17A resolution.哺乳动物核糖体通道复合物的17埃分辨率结构。
J Mol Biol. 2002 Dec 6;324(4):871-86. doi: 10.1016/s0022-2836(02)01111-7.
7
Ribosome structure and the mechanism of translation.核糖体结构与翻译机制。
Cell. 2002 Feb 22;108(4):557-72. doi: 10.1016/s0092-8674(02)00619-0.
8
Positioning of the mRNA stop signal with respect to polypeptide chain release factors and ribosomal proteins in 80S ribosomes.80S核糖体中mRNA终止信号相对于多肽链释放因子和核糖体蛋白的定位。
FEBS Lett. 2002 Mar 6;514(1):96-101. doi: 10.1016/s0014-5793(02)02304-9.
9
Crystal structure of the 30 S ribosomal subunit from Thermus thermophilus: structure of the proteins and their interactions with 16 S RNA.嗜热栖热菌30 S核糖体亚基的晶体结构：蛋白质结构及其与16 S RNA的相互作用
J Mol Biol. 2002 Feb 22;316(3):725-68. doi: 10.1006/jmbi.2001.5359.
10
Structure of the 80S ribosome from Saccharomyces cerevisiae--tRNA-ribosome and subunit-subunit interactions.酿酒酵母80S核糖体的结构——tRNA与核糖体及亚基间的相互作用
Cell. 2001 Nov 2;107(3):373-86. doi: 10.1016/s0092-8674(01)00539-6.

在解码位点和上游位点围绕mRNA的人类核糖体的可变和保守元件。

Variable and conserved elements of human ribosomes surrounding the mRNA at the decoding and upstream sites.

作者信息

Graifer Dmitri, Molotkov Maxim, Styazhkina Valentina, Demeshkina Natalia, Bulygin Konstantin, Eremina Anna, Ivanov Anton, Laletina Elena, Ven'yaminova Aliya, Karpova Galina

机构信息

Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of the Russian Academy of Sciences, Prospekt Lavrentieva, 8, Novosibirsk, 630090, Russia.

出版信息

Nucleic Acids Res. 2004 Jun 18;32(11):3282-93. doi: 10.1093/nar/gkh657. Print 2004.

DOI:10.1093/nar/gkh657
PMID:15208366
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC443533/
Abstract

This study is centred upon an important biological problem concerning the structural organization of mammalian ribosomes that cannot be studied by X-ray analysis because 80S ribosome crystals are still unavailable. Here, positioning of the mRNA on 80S ribosomes was studied using mRNA analogues containing the perfluorophenylazide cross-linker on either the guanosine or an uridine residue. The modified nucleotides were directed to positions from -9 to +6 with respect to the first nucleotide of the P site bound codon by a tRNA cognate to the triplet targeted to the P site. Upon mild UV-irradiation, the modified nucleotides at positions +4 to +6 cross-linked to protein S15 and 18S rRNA nucleotides A1823-A1825. In addition, modified guanosines in positions +5 and +6 also cross-linked to G626, and in position +1 to G1702. Cross-linking from the upstream positions was mainly to protein S26 that has no prokaryotic homologues. These findings indicate that the tail of mammalian S15 comes closer to the decoding site than that of its prokaryotic homologue S19, and that the environments of the upstream part of mRNA on 80S and 70S ribosomes differ. On the other hand, the results confirm the widely accepted idea regarding the conserved nature of the decoding site of the small subunit rRNA.

摘要

本研究聚焦于一个关于哺乳动物核糖体结构组织的重要生物学问题，由于80S核糖体晶体仍然无法获得，该问题无法通过X射线分析进行研究。在这里，使用在鸟苷或尿苷残基上含有全氟苯基叠氮化物交联剂的mRNA类似物，研究了mRNA在80S核糖体上的定位。通过与靶向P位点的三联体同源的tRNA，将修饰的核苷酸定向到相对于P位点结合密码子的第一个核苷酸从-9到+6的位置。在温和的紫外线照射下，+4到+6位置的修饰核苷酸与蛋白质S15和18S rRNA核苷酸A1823 - A1825交联。此外，+5和+6位置的修饰鸟苷也与G626交联，+1位置的修饰鸟苷与G1702交联。来自上游位置的交联主要是与没有原核同源物的蛋白质S26交联。这些发现表明，哺乳动物S15的尾部比其原核同源物S19的尾部更靠近解码位点，并且80S和70S核糖体上mRNA上游部分的环境不同。另一方面，结果证实了关于小亚基rRNA解码位点保守性质的广泛接受的观点。