A method to assess compositional bias in biological sequences and its application to prion-like glutamine/asparagine-rich domains in eukaryotic proteomes
A method to assess compositional bias in biological sequences and its application to prion-like glutamine/asparagine-rich domains in eukaryotic proteomes
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DOI：
10.1186/gb-2003-4-6-r40
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发表时间：
2003-01-01
期刊：
影响因子：
12.3
通讯作者：
Gerstein, M
中科院分区：
文献类型：
--
作者：
Harrison, PM;Gerstein, M
我们已经推导出一种新的方法来评估生物序列中的成分偏差，这是基于找到一个给定的剩余类型集的最低概率的序列。作为一个案例研究，分布朊病毒样谷氨酰胺/天冬酰胺丰富（（Q+N）丰富）域（这是连接到淀粉样蛋白的形成）进行了评估，为出芽和分裂酵母和其他四个真核生物。我们在芽殖酵母中发现了170多个朊病毒样（Q+N）富集区，而令人惊讶的是，在裂变酵母中发现的区域要少得多。此外，一些残基，如色氨酸或异亮氨酸，不太可能在任何真核蛋白质组中形成偏向区域。
We have derived a novel method to assess compositional biases in biological sequences, which is based on finding the lowest-probability subsequences for a given residue-type set. As a case study, the distribution of prion-like glutamine/asparagine-rich ((Q+N)-rich) domains (which are linked to amyloidogenesis) was assessed for budding and fission yeasts and four other eukaryotes. We find more than 170 prion-like (Q+N)-rich regions in budding yeast, and, strikingly, many fewer in fission yeast. Also, some residues, such as tryptophan or isoleucine, are unlikely to form biased regions in any eukaryotic proteome.