A STRATEGY FOR THE RAPID MULTIPLE ALIGNMENT OF PROTEIN SEQUENCES - CONFIDENCE LEVELS FROM TERTIARY STRUCTURE COMPARISONS
A STRATEGY FOR THE RAPID MULTIPLE ALIGNMENT OF PROTEIN SEQUENCES - CONFIDENCE LEVELS FROM TERTIARY STRUCTURE COMPARISONS
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DOI：
10.1016/0022-2836(87)90316-0
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发表时间：
1987-11-20
影响因子：
5.6
通讯作者：
STERNBERG, MJE
中科院分区：
文献类型：
--
作者：
BARTON, GJ;STERNBERG, MJE
提出了一种蛋白质序列多重比对的算法，该算法具有计算速度快、精度高的特点。该方法是基于传统的动态规划方法的成对比对。最初，比对两个序列，然后将第三个序列与序列1和序列2的比对进行比对。类似地，第四序列与一、二和三进行比对。重复这一过程，直到所有序列都已对齐。然后执行迭代以产生最终对准。序列比对的准确性是从蛋白质家族中二级结构的比对来评估的。对于球蛋白，多重比对平均准确度为99%，而序列的成对比较平均准确度为90%。对于免疫球蛋白恒定和可变结构域的比对，使用许多序列产生了63%的平均准确度的比对，相比之下，哺乳动物血清转铁蛋白中个体可变/连接的平均准确度为41%，这与晶体学数据一致，而成对比对给出了另一种分配。
An algorithm is presented for the multiple alignment of protein sequences that is both accurate and rapid computationally. The approach is based on the conventional dynamic-programming method of pairwise alignment. Initially, two sequences are aligned, then the third sequence is aligned against the alignment of both sequences one and two. Similarly, the fourth sequence is aligned against one, two and three. This is repeated until all sequences have been aligned. Iteration is then performed to yield a final alignment. The accuracy of sequence alignment is evaluated from alignment of the secondary structures in a family of proteins. For the globins, the multiple alignment was on average 99% accurate compared to 90% for pairwise comparison of sequences. For the alignment of immunoglobulin constant and variable domains, the use of many sequences yielded an alignment of 63% average accuracy compared to 41% average for individual variable/connectivity in mammalian serotransferrin that is consistent with crystallographic data, whereas pairwise alignments give an alternative assignment.