A HIGHLY CONSERVED RNA FOLDING REGION COINCIDENT WITH THE REV RESPONSE ELEMENT OF PRIMATE IMMUNODEFICIENCY VIRUSES
A HIGHLY CONSERVED RNA FOLDING REGION COINCIDENT WITH THE REV RESPONSE ELEMENT OF PRIMATE IMMUNODEFICIENCY VIRUSES
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DOI：
10.1093/nar/18.6.1613
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发表时间：
1990-03-25
影响因子：
14.9
通讯作者：
MAIZEL, JV
中科院分区：
文献类型：
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作者：
LE, SY;MALIM, MH;MAIZEL, JV
用MonteCarlo方法对人免疫缺陷病毒（HIV-1，HIV-2）和猴免疫缺陷病毒（SIV）的包膜基因RNA进行了模拟，发现在膜外蛋白（OMP）和跨膜蛋白（TMP）切割位点的3“处存在一系列不寻常的折叠区（UFR）。这些RNA二级结构被预测为高度稳定且具有统计学显著性。在计算中，包括25个不同序列的HIV-1分离株、3个HIV-2分离株和8个SIV序列。尽管在这些病毒的env编码区中存在显著的序列差异，但234-nt的独特UFR始终位于HIV-1中OMP/TMP切割位点3“的10个核苷酸处，而216-nt的UFR分别位于HIV-2和SIV的OMP/TMP切割位点下游的46个和49个核苷酸处。在这些保守的RNA二级结构的螺旋茎区域的补偿性碱基变化被确定。这些结果支持的假设，这些特殊的RNA折叠区域是功能上重要的，并建议，该序列的作用作为Rev反应元件（RRE）是介导的二级结构以及初级RNA序列。
A series of unusual folding regions (UFR) immediately 3'' to the cleavage site of the outer membrane protein (OMP) and transmembrane protein (TMP) were detected in the envelope gene RNA of the human immunodeficient virus (HIV-1, HIV-2) and simian immunodeficiency virus (SIV) by an extensive Monte Carlo simulation. These RNA secondary structures were predicted to be both highly stable and statistically significant. In the calculation, twenty-five different sequence isolates of HIV-1, three isolates of HIV-2 and eight sequences of SIV were included. Although significant sequence divergence occurs in the env coding regions of these viruses, a distinct UFR of 234-nt is consistently located ten nucleotides 3'' to the cleavage site of the OMP/TMP in HIV-1, and a 216-nt UFR occurs forty-six and forty-nine nucleotides downstream from the OMP/TMP cleavage site of HIV-2 and SIV, respectively. Compensatory base changes in the helical stem regions of these conserved RNA secondary structures are identified. These results support the hypothesis that these special RNA folding regions are functionally important and suggest that the role of this sequence as the Rev response element (RRE) is mediated by secondary structure as well as primary RNA sequence.