大肠杆菌核糖体识别的核糖体结合位点在前导序列和蛋白质编码序列中都有具有信号特征的区域。
The ribosome binding sites recognized by E. coli ribosomes have regions with signal character in both the leader and protein coding segments.
作者信息
Scherer G F, Walkinshaw M D, Arnott S, Morré D J
出版信息
Nucleic Acids Res. 1980 Sep 11;8(17):3895-907. doi: 10.1093/nar/8.17.3895.
Abstract
Oligonucleotide analysis, by a novel computerized procedure, was first applied to determine the sequence of an ideal E. coli promoter (Scherer et al., Nucl. Acids Res. 1978, 5:3759-3773) and has now been used to obtain the sequence of nucleotides that should be present in a messenger RNA for optimum binding to the E. coli ribosome. This sequence is: UU.UUAAAAAUUAAGGAGGUAUAUUAUGAAAAAAAUUAAAAAACUCAA AA U A AUA A CUC G. Comparison of this sequence with each of the 68 ribosome binding site sequences used to generate it shows a preference rather than an absolute requirement for a specific base in any given position. The preference for certain bases persists along the whole length of the RNA within the ribosome binding domain even though nearly half of that length includes translated codons. Thus messages without leader sequences (like lambda CI mRNA) can still have some affinity for the ribosome. Part of the model sequence is complementary to the 3'end of 16S rRNA.
摘要
寡核苷酸分析通过一种全新的计算机程序，首次被用于确定理想的大肠杆菌启动子序列（Scherer等人，《核酸研究》，1978年，5:3759 - 3773），如今已被用于获取信使核糖核酸中为实现与大肠杆菌核糖体的最佳结合而应存在的核苷酸序列。该序列为：UU.UUAAAAAUUAAGGAGGUAUAUUAUGAAAAAAAUUAAAAAACUCAAA AA U A AUA A CUC G。将此序列与用于生成它的68个核糖体结合位点序列中的每一个进行比较，结果表明在任何给定位置对特定碱基的偏好而非绝对要求。即使该长度的近一半包含已翻译的密码子，对某些碱基的偏好仍贯穿核糖体结合域内RNA的整个长度。因此，没有前导序列的信使（如λCI信使核糖核酸）仍可对核糖体具有一定亲和力。部分模型序列与16S核糖体RNA的3'端互补。
相似文献
1
The ribosome binding sites recognized by E. coli ribosomes have regions with signal character in both the leader and protein coding segments.大肠杆菌核糖体识别的核糖体结合位点在前导序列和蛋白质编码序列中都有具有信号特征的区域。
Nucleic Acids Res. 1980 Sep 11;8(17):3895-907. doi: 10.1093/nar/8.17.3895.
2
How ribosomes select initiator regions in mRNA: base pair formation between the 3' terminus of 16S rRNA and the mRNA during initiation of protein synthesis in Escherichia coli.核糖体如何在mRNA中选择起始区域：大肠杆菌蛋白质合成起始过程中16S rRNA的3'末端与mRNA之间的碱基对形成
Proc Natl Acad Sci U S A. 1975 Dec;72(12):4734-8. doi: 10.1073/pnas.72.12.4734.
3
Nonanucleotide sequence from 16S ribonucleic acid at the peptidyl transfer ribonucleic acid binding site of the Escherichia coli ribosome.来自大肠杆菌核糖体肽基转移核糖核酸结合位点的16S核糖核酸的九核苷酸序列。
Biochemistry. 1981 Dec 22;20(26):7581-8. doi: 10.1021/bi00529a037.
4
Some base substitutions in the leader of an Escherichia coli ribosomal RNA operon affect the structure and function of ribosomes. Evidence for a transient scaffold function of the rRNA leader.大肠杆菌核糖体RNA操纵子前导序列中的一些碱基替换会影响核糖体的结构和功能。rRNA前导序列具有瞬时支架功能的证据。
J Mol Biol. 1993 Sep 20;233(2):203-18. doi: 10.1006/jmbi.1993.1500.
5
Effects of base change mutations within an Escherichia coli ribosomal RNA leader region on rRNA maturation and ribosome formation.大肠杆菌核糖体RNA前导区内碱基变化突变对rRNA成熟和核糖体形成的影响。
Nucleic Acids Res. 2001 Aug 15;29(16):3394-403. doi: 10.1093/nar/29.16.3394.
6
The Shine and Dalgarno hypothesis for termination: the 3' terminus of the 16S rRNA of the Escherichia coli ribosome can be modified or base-paired with a complementary oligonucleotide without affecting termination in vitro.关于终止的Shine和达尔加诺假说：大肠杆菌核糖体16S rRNA的3'末端可以被修饰或与互补寡核苷酸碱基配对，而不影响体外的终止。
Biochem Int. 1983 Oct;7(4):529-34.
7
Binding of ribosomal protein S1 of Escherichia coli to the 3' end of 16S rRNA.大肠杆菌核糖体蛋白S1与16S rRNA 3'末端的结合。
Proc Natl Acad Sci U S A. 1975 Aug;72(8):2940-4. doi: 10.1073/pnas.72.8.2940.
8
3' terminal sequences of 16S rRNA do not explain translational specificity differences between E. coli and B. stearothermophilus ribosomes.16S核糖体RNA的3'末端序列并不能解释大肠杆菌和嗜热栖热菌核糖体之间的翻译特异性差异。
Nature. 1977 Jun 2;267(5610):462-5. doi: 10.1038/267462a0.
9
Mutations in the leader region of ribosomal RNA operons cause structurally defective 30 S ribosomes as revealed by in vivo structural probing.核糖体RNA操纵子前导区的突变会导致结构有缺陷的30 S核糖体，这是通过体内结构探测揭示的。
J Mol Biol. 1998 Feb 27;276(3):547-57. doi: 10.1006/jmbi.1997.1556.
10
Ribosome-protected regions in the leader-trpE sequence of Escherichia coli tryptophan operon messenger RNA.大肠杆菌色氨酸操纵子信使核糖核酸前导序列-色氨酸E序列中的核糖体保护区域。
J Mol Biol. 1976 May 15;103(2):411-20. doi: 10.1016/0022-2836(76)90320-x.
引用本文的文献
1
CRISPR-Cas tools for simultaneous transcription & translation control in bacteria.CRISPR-Cas 工具可用于细菌中转录和翻译的同时控制。
Nucleic Acids Res. 2024 May 22;52(9):5406-5419. doi: 10.1093/nar/gkae275.
2
Machine Learning Guided Batched Design of a Bacterial Ribosome Binding Site.机器学习指导的细菌核糖体结合位点的批量设计。
ACS Synth Biol. 2022 Jul 15;11(7):2314-2326. doi: 10.1021/acssynbio.2c00015. Epub 2022 Jun 15.
3
Strategies for enhancing gene expression in Escherichia coli.提高大肠杆菌中基因表达的策略。
Appl Microbiol Biotechnol. 2020 May;104(9):3825-3834. doi: 10.1007/s00253-020-10430-4. Epub 2020 Mar 3.
4
Ribosomal selection of mRNAs with degenerate initiation triplets.核糖体对具有简并起始三联体的mRNA的选择。
Nucleic Acids Res. 2017 Jul 7;45(12):7309-7325. doi: 10.1093/nar/gkx472.
5
Modeling the specificity of protein-DNA interactions.模拟蛋白质与DNA相互作用的特异性。
Quant Biol. 2013 Jun;1(2):115-130. doi: 10.1007/s40484-013-0012-4.
6
Mechanisms of the initiation of protein synthesis: in reading frame binding of ribosomes to mRNA.蛋白质合成的起始机制：核糖体与 mRNA 的读码框结合。
Mol Biol Rep. 2011 Feb;38(2):847-55. doi: 10.1007/s11033-010-0176-1. Epub 2010 May 14.
7
Naturally occurring adenines within mRNA coding sequences affect ribosome binding and expression in Escherichia coli.信使核糖核酸（mRNA）编码序列中的天然腺嘌呤会影响大肠杆菌中的核糖体结合及表达。
J Bacteriol. 2007 Jan;189(2):501-10. doi: 10.1128/JB.01356-06. Epub 2006 Nov 3.
8
Bdellovibrio bacteriovorus strains produce a novel major outer membrane protein during predacious growth in the periplasm of prey bacteria.食菌蛭弧菌菌株在捕食性生长于猎物细菌周质期间会产生一种新型主要外膜蛋白。
J Bacteriol. 2004 May;186(9):2766-73. doi: 10.1128/JB.186.9.2766-2773.2004.
9
Depletion of free 30S ribosomal subunits in Escherichia coli by expression of RNA containing Shine-Dalgarno-like sequences.通过表达含有类似Shine-Dalgarno序列的RNA来消耗大肠杆菌中的游离30S核糖体亚基。
J Bacteriol. 2002 Jan;184(2):494-502. doi: 10.1128/JB.184.2.494-502.2002.
10
Translation limits synthesis of an assembly-initiating coat protein of filamentous phage IKe.翻译限制丝状噬菌体IKe的组装起始外壳蛋白的合成。
J Bacteriol. 1998 Feb;180(3):464-72. doi: 10.1128/JB.180.3.464-472.1998.
本文引用的文献
1
Sequence of a ribosome binding site in bacteriophage Q-beta-RNA.噬菌体Q-β-RNA中核糖体结合位点的序列
Nature. 1969 Dec 6;224(5223):964-7. doi: 10.1038/224964a0.
2
Polypeptide chain initiation: nucleotide sequences of the three ribosomal binding sites in bacteriophage R17 RNA.多肽链起始：噬菌体R17 RNA中三个核糖体结合位点的核苷酸序列
Nature. 1969 Dec 6;224(5223):957-64. doi: 10.1038/224957a0.
3
Ribosome binding site of Q-beta RNA polymerase cistron.Q-β RNA聚合酶顺反子的核糖体结合位点。
Nat New Biol. 1971 Sep 15;234(50):211-2. doi: 10.1038/newbio234211a0.
4
Localization of Q-beta maturation cistron ribosome binding site.Q-β成熟顺反子核糖体结合位点的定位
Nat New Biol. 1971 Sep 15;234(50):202-4. doi: 10.1038/newbio234202a0.
5
Nucleotide sequence of a ribosome attachment site of bacteriophage f2 RNA.噬菌体f2 RNA核糖体附着位点的核苷酸序列。
Biochem Biophys Res Commun. 1970 Jun 5;39(5):883-8. doi: 10.1016/0006-291x(70)90406-7.
6
The 5'-terminal nucleotide sequence of galactose messenger ribonucleic acid of Escherichia coli.大肠杆菌半乳糖信使核糖核酸的5'-末端核苷酸序列。
Proc Natl Acad Sci U S A. 1974 Dec;71(12):4940-4. doi: 10.1073/pnas.71.12.4940.
7
E. coli lactose operon ribosome binding site.大肠杆菌乳糖操纵子核糖体结合位点。
Nature. 1974 Jun 14;249(458):647-9. doi: 10.1038/249647b0.
8
The 3'-terminal sequence of Escherichia coli 16S ribosomal RNA: complementarity to nonsense triplets and ribosome binding sites.大肠杆菌16S核糖体RNA的3'末端序列：与无义三联体及核糖体结合位点的互补性
Proc Natl Acad Sci U S A. 1974 Apr;71(4):1342-6. doi: 10.1073/pnas.71.4.1342.
9
Cistron specificity of 30S ribosomes heterologously reconstituted with components from Escherichia coli and Bacillus stearothermophilus.用大肠杆菌和嗜热脂肪芽孢杆菌的组分异源重建的30S核糖体的顺反子特异性。
Biochemistry. 1974 May 7;13(10):2123-9. doi: 10.1021/bi00707a020.
10
Role of 16S ribosomal ribonucleic acid and the 30S ribosomal protein S12 in the initiation of natural messenger ribonucleic acid translation.16S核糖体核糖核酸和30S核糖体蛋白S12在天然信使核糖核酸翻译起始中的作用
Biochemistry. 1974 May 7;13(10):2115-22. doi: 10.1021/bi00707a019.
Zotero 插件