Hall J D, Gibbs J S, Coen D M, Mount D W
DNA. 1986 Aug;5(4):281-8. doi: 10.1089/dna.1986.5.281.
We have analyzed the protein and nucleic acid sequences of the DNA polymerase from herpes simplex virus type 1 (HSV-1) to provide insight into the expression and possible structure of this enzyme. Extensive similarity between the amino acid sequence and that of the Epstein Barr virus DNA polymerase is reported. We describe probable structural similarities between these proteins and the use of these similarities to define structural and functional domains within the polymerase. Analysis of base composition and codon usage reveals that several genes from HSV-1, including DNA polymerase, exhibit a strong preference for guanine or cytosine at the third codon position. This preference may result from the high guanine + cytosine content of the virus and produces a highly restricted codon usage, different from that of the host cell. Consequences of the unusual codon usage for viral expression include the potential for extensive mRNA secondary structure.
我们分析了1型单纯疱疹病毒（HSV-1）DNA聚合酶的蛋白质和核酸序列，以深入了解该酶的表达及可能的结构。据报道，该氨基酸序列与爱泼斯坦-巴尔病毒DNA聚合酶的序列有广泛的相似性。我们描述了这些蛋白质之间可能的结构相似性，以及利用这些相似性来定义聚合酶内的结构和功能域。对碱基组成和密码子使用情况的分析表明，HSV-1的几个基因，包括DNA聚合酶，在第三个密码子位置对鸟嘌呤或胞嘧啶有强烈偏好。这种偏好可能源于病毒中高鸟嘌呤+胞嘧啶含量，并产生高度受限的密码子使用情况，与宿主细胞不同。这种不寻常的密码子使用对病毒表达的影响包括产生广泛mRNA二级结构的可能性。
