Adaptive covariation between the coat and movement proteins of prunus necrotic ringspot virus
Adaptive covariation between the coat and movement proteins of prunus necrotic ringspot virus
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DOI：
10.1128/jvi.00122-06
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发表时间：
2006-06-01
影响因子：
5.4
通讯作者：
Elena, Santiago F.
中科院分区：
文献类型：
--
作者：
Codoner, Francisco M.;Fares, Mario A.;Elena, Santiago F.
蛋白质中不同氨基酸位点的相对功能和/或结构重要性可以通过评估它们在进化过程中受到的选择性约束来评估。在这里，我们探索这种限制在线性和三维水平的运动蛋白（MP）和外壳蛋白（CP）编码的RNA 3的李坏死环斑病病毒（PNRSV）。通过最大简约的方法，从46个分离株的PNRSV不同的病原学，宿主树，和地理来源的核苷酸序列进行了分析和网站在不同的选择压力下已确定在这两种蛋白质。我们还进行了协变分析，以探讨是否在某些氨基酸位点的变化条件下，在其他网站的相同的蛋白质或其他蛋白质的后续变化。这些协变分析揭示了哪些特定的氨基酸应该参与MP和CP之间的物理和功能相互作用。最后，我们讨论了这些发现的光是什么已经知道的某些网站和结构域的结构和蛋白质-蛋白质和RNA-蛋白质相互作用的影响。
The relative functional and/or structural importance of different amino acid sites in a protein can be assessed by evaluating the selective constraints to which they have been subjected during the course of evolution. Here we explore such constraints at the linear and three-dimensional levels for the movement protein (MP) and coat protein (CP) encoded by RNA 3 of prunus necrotic ringspot ilarvirus (PNRSV). By a maximum-parsimony approach, the nucleotide sequences from 46 isolates of PNRSV varying in symptomatology, host tree, and geographic origin have been analyzed and sites under different selective pressures have been identified in both proteins. We have also performed covariation analyses to explore whether changes in certain amino acid sites condition subsequent variation in other sites of the same protein or the other protein. These covariation analyses shed light on which particular amino acids should be involved in the physical and functional interaction between MP and CP. Finally, we discuss these findings in the light of what is already known about the implication of certain sites and domains in structure and protein-protein and RNA-protein interactions.