核糖体RNA中几种高阶结构元件的证据。
Evidence for several higher order structural elements in ribosomal RNA.
作者信息
Woese C R, Gutell R R
机构信息
Department of Microbiology, University of Illinois, Urbana 61801.
出版信息
Proc Natl Acad Sci U S A. 1989 May;86(9):3119-22. doi: 10.1073/pnas.86.9.3119.
Abstract
Comparative analysis of small subunit ribosomal RNA sequences suggests the existence of two new higher order interactions: (i) a double-helical structure involving positions 505-507 and 524-526 (Escherichia coli numbering) and (ii) an interaction between the region of position 130 and the helix located approximately between positions 180 and 195. In the first of these, one of the strands of the helix exists in the bulge loop, and the other strand exists in the terminal loop of a previously recognized compound helix involving positions 500-545. Therefore, the new structure formally represents a pseudoknot. In the second, the insertion/deletion of a nucleotide in the vicinity of position 130 correlates with the length of the helix in the 180-195 region, the latter having a 3-base-pair stalk when the base in question is deleted and a stalk of approximately 10 pairs when it is inserted.
摘要
小亚基核糖体RNA序列的比较分析表明存在两种新的高阶相互作用：（i）一种涉及505 - 507位和524 - 526位（大肠杆菌编号）的双螺旋结构，以及（ii）130位区域与位于大约180位和195位之间的螺旋之间的相互作用。在其中第一种情况中，螺旋的一条链存在于凸起环中，另一条链存在于先前识别的涉及500 - 545位的复合螺旋的末端环中。因此，新结构在形式上代表一个假结。在第二种情况中，130位附近一个核苷酸的插入/缺失与180 - 195区域螺旋的长度相关，当所讨论的碱基缺失时，后者具有一个3碱基对的茎，而当它插入时具有大约10对的茎。
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本文引用的文献
1
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Syst Appl Microbiol. 1987;9:34-9. doi: 10.1016/s0723-2020(87)80053-x.
2
Secondary structure model for 23S ribosomal RNA.23S核糖体RNA的二级结构模型
Nucleic Acids Res. 1981 Nov 25;9(22):6167-89. doi: 10.1093/nar/9.22.6167.
3
The complete nucleotide sequence of a 16S ribosomal RNA gene from a blue-green alga, Anacystis nidulans.来自蓝藻（集胞藻）的16S核糖体RNA基因的完整核苷酸序列。
Mol Gen Genet. 1983;191(1):46-50. doi: 10.1007/BF00330888.
4
Detailed analysis of the higher-order structure of 16S-like ribosomal ribonucleic acids.对16S样核糖体核糖核酸高阶结构的详细分析。
Microbiol Rev. 1983 Dec;47(4):621-69. doi: 10.1128/mr.47.4.621-669.1983.
5
Secondary structure model for bacterial 16S ribosomal RNA: phylogenetic, enzymatic and chemical evidence.细菌16S核糖体RNA的二级结构模型：系统发育、酶学及化学证据
Nucleic Acids Res. 1980 May 24;8(10):2275-93. doi: 10.1093/nar/8.10.2275.
6
The complete nucleotide sequence of the Xenopus laevis mitochondrial genome.非洲爪蟾线粒体基因组的完整核苷酸序列。
J Biol Chem. 1985 Aug 15;260(17):9759-74.
7
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Prog Nucleic Acid Res Mol Biol. 1985;32:155-216. doi: 10.1016/s0079-6603(08)60348-7.
8
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9
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10
Eubacterial origin of chlamydiae.衣原体的真细菌起源。
J Bacteriol. 1986 Aug;167(2):570-4. doi: 10.1128/jb.167.2.570-574.1986.
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