Jones D T, Taylor W R, Thornton J M
Department of Biochemistry and Molecular Biology, University College, London, UK.
FEBS Lett. 1994 Feb 21;339(3):269-75. doi: 10.1016/0014-5793(94)80429-x.
The widely used Mutation Data Matrix (MDM), is an amino acid comparison matrix calculated from a study of the exchange probabilities (or odds) derived from an analysis of the evolutionary changes seen in groups of very similar proteins. In this work, a mutation data matrix is calculated for membrane spanning segments. This new mutation data matrix is found to be very different from matrices calculated from general sequence sets which are biased towards water-soluble globular proteins, and the differences are discussed in the context of specific structural requirements of membrane spanning segments. This new matrix will help improve the accuracy of integral membrane protein sequence alignments, and could also be of use in the rational design of site directed mutagenesis experiments for this class of proteins.
广泛使用的突变数据矩阵（MDM）是一种氨基酸比较矩阵，它是通过研究从对非常相似的蛋白质组中观察到的进化变化分析得出的交换概率（或几率）而计算得到的。在这项工作中，计算了跨膜片段的突变数据矩阵。发现这个新的突变数据矩阵与从偏向水溶性球状蛋白质的一般序列集计算得到的矩阵有很大不同，并在跨膜片段的特定结构要求的背景下讨论了这些差异。这个新矩阵将有助于提高整合膜蛋白序列比对的准确性，也可用于这类蛋白质定点诱变实验的合理设计。
