PROFILE ANALYSIS - DETECTION OF DISTANTLY RELATED PROTEINS
PROFILE ANALYSIS - DETECTION OF DISTANTLY RELATED PROTEINS
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DOI：
10.1073/pnas.84.13.4355
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发表时间：
1987-07-01
影响因子：
11.1
通讯作者：
EISENBERG, D
中科院分区：
文献类型：
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作者：
GRIBSKOV, M;MCLACHLAN, AD;EISENBERG, D
图谱分析是通过序列比较检测远缘蛋白质的方法。比较的基础不仅是习惯的Dayhoff突变距离矩阵，而且还隐含在相似蛋白质家族的序列比对中的结构研究和信息的结果。该信息在位置特异性评分表（概况）中表达，该评分表由先前通过结构或序列相似性比对的一组序列创建。任何其他序列（靶标）与比对序列（探针）组的相似性可以通过使用动态编程算法将靶标与谱进行比较来测试。概况方法在两个主要方面不同于常用的序列比较方法：用途：（i）可以使用任何数量的已知序列来构建概况，从而允许在靶的测试中使用比成对比对方法可能使用的更多的信息。(ii)该概况包括每个位置处插入或缺失的罚分，这允许在测试方案中包括探针二级结构。用珠蛋白和免疫球蛋白序列进行的测试表明，谱分析可以将这些家族的所有成员与包含3800个蛋白质序列的数据库中的所有其他序列区分开来。
Profile analysis is a method for detecting distantly related proteins by sequence comparison. The basis for comparison is not only the customary Dayhoff mutational-distance matrix but also the results of structural studies and information implicit in the alignments of the sequences of families of similar proteins. This information is expressed in a position-specific scoring table (profile), which is created from a group of sequences previously aligned by structural or sequence similarity. The similarity of any other sequence (target) to the group of aligned sequences (probe) can be tested by comparing the target to the profile using dynamic programming algorithms. The profile method differs in two major respects from methods of sequence comparison in common use: (i) Any number of known sequences can be used to construct the profile, allowing more information to be used in the testing of the target than is possible with pairwise alignment methods. (ii) The profile includes the penalties for insertion or deletion at each position, which allow one to include the probe secondary structure in the testing scheme. Tests with globin and immunoglobulin sequences show that profile analysis can distinguish all members of these families from all other sequences in a database containing 3800 protein sequences.