Model for the three-dimensional folding of 16 S ribosomal RNA.
Model for the three-dimensional folding of 16 S ribosomal RNA.
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16 S 核糖体 RNA 三维折叠模型。
DOI：
10.1016/0022-2836(88)90588-8
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发表时间：
1988
影响因子：
5.6
通讯作者：
Noller,HF
中科院分区：
文献类型：
--
作者：
Stern,S;Weiser,B;Noller,HF
我们用交互式计算机图形学方法导出了大肠杆菌16 S核糖体RNA的三维折叠模型。它基于（1）来自比较序列分析的二级结构，（2）30 S亚基蛋白质质心的三维坐标，以及（3）来自足迹法和交联研究的16 S rRNA中与特定核糖体蛋白相互作用的位点的位置。我们给出了一个详细的描述模型的推导过程，大约75%的RNA链被充分约束，提供了一个有用的模型。这包含了大部分普遍保守的分子核心。在除少数情况外的所有情况下，受保护的和交联的位点可以被放置在其同源蛋白内或非常接近其同源蛋白，同时遵守立体化学规则。模型的整体形状和RNA特定区域的位置与来自30 S亚基的电子显微照片的数据很好地对应，尽管这些数据没有用于构建模型。结构上的系统发育变异很容易被容纳;作为一个例子，我们通过将950个核苷酸的哺乳动物线粒体12 S rRNA叠加在E.由二级结构定义的三个主要RNA结构域在大多数情况下似乎作为三维中的自主结构单元存在。在5′和中央结构域之间有一个广泛的界面，而3′主要结构域与结构的其余部分的接触相对较少。在30个S亚基的电子显微照片中，5′、中央和3′主要结构域分别形成类似于体、平台和头的结构。我们讨论了核糖体蛋白在核糖体组装过程中稳定RNA的特定结构特征的可能作用。从足迹法和涉及tRNA反密码子茎环的交联研究中推断，解码位点是定位良好的。由反密码子茎-环线保护的碱基不受化学探测，位于亚基的裂缝处。位置530处的保守环。它包含一些由A位点结合的tRNA保护的碱基，是远程的（大约。80分）从解码网站。因此，反密码子茎环对这些碱基的保护不太可能是由于直接接触。
We have derived a model for the three-dimensional folding ofEscherichia coli16S ribosomal RNA, using interactive computer graphic methods. It is based on (1) the secondary structure derived from comparative sequence analysis, (2) the three-dimensional co-ordinates for the centers of mass of the 30 S subunit proteins, and (3) the locations of sites in 16 S rRNA that interact with specific ribosomal proteins, from footprinting and crosslinking studies. We present a detailed description of the derivation of the model.About 75% of the RNA chain is sufficiently constrained to provide a useful model. This contains most of the universally conserved core of the molecule. In all but a few instances, protected and crosslinked sites can be placed within or very close to their cognate proteins, while obeying stereochemical rules. The overall shape of the model and locations of specific regions of the RNA correspond well to data derived from electron micrographs of 30 S subunits, although such data were not used to construct the model. Phylogenetic variations in the structure are readily accommodated; as an example, we have modeled the 950-nucleotide mammalian mitochondrial 12 S rRNA by superimposing it on theE. colistructure.The three major RNA domains, as defined by secondary structure, appear to exist as autonomous structural units in three dimensions, for the most part. There is an extensive interface between the 5′ and central domains, whereas the 3′ major domain has relatively little apparent contact with the rest of the structure. The 5′, central and 3′ major domains form structures that resemble the body, platform and head, respectively, seen in electron micrographs of 30 S subunits. We discuss possible roles for the ribosomal proteins in stabilizing specific structural features of the RNA during ribosome assembly.The decoding site, as deduced from footprinting and crosslinking studies involving the tRNA anticodon stem—loop, is well-localized. Bases protected from chemical probing by the anticodon stem—loop line the cleft of the subunit. The conserved loop at position 530. which contains some of the bases protected by A site-bound tRNA, is remote (approx. 80 Å) from the decoding site. Protection of these bases by the anticodon stem—loop is thus unlikely to be due to direct contact.
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影响因子：
3.3
作者：
MITZNER, W;GOLDBERG, H
通讯作者：
GOLDBERG, H
DOI：
10.1016/0022-4804(75)90139-0
发表时间：
1975
期刊：
The Journal of surgical research
影响因子：
--
作者：
R. M. Auden;D. Donald
通讯作者：
D. Donald
基于主动脉模型分析收缩药物对内脏静脉系统扩张性的影响
影响因子：
20.1
作者：
R. S. Alexander
通讯作者：
R. S. Alexander
影响因子：
20.1
作者：
R. S. Alexander
通讯作者：
R. S. Alexander
影响因子：
20.1
作者：
BROOKSBY, GA;DONALD, DE
通讯作者：
DONALD, DE