Variations of the C2H2 zinc finger motif in the yeast genome and classification of yeast zinc finger proteins
Variations of the C2H2 zinc finger motif in the yeast genome and classification of yeast zinc finger proteins
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DOI：
10.1093/nar/25.12.2464
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发表时间：
1997-06-15
影响因子：
14.9
通讯作者：
Mewes, HW
中科院分区：
文献类型：
--
作者：
Bohm, S;Frishman, D;Mewes, HW
扩展了PROSITE模式Zinc_Finger_C2H2，以允许在最近完成的酵母基因组序列中检测所有C2 H2锌指及其亲本蛋白。此外，编写了一个新的计算机程序，从发现的酵母C2 H2指中提取与经典锌指模式重叠的其他锌结合基序（非C2 H2“指”）。完整和正确的检测所有的手指是酵母锌指蛋白的功能分类的先决条件。检测到的53个酵母C2 H2锌指蛋白不含有指簇与10个或更多的重复，因为经常发现在高等真核生物。只有三种蛋白质在一个簇中含有四个或更多的指状物。此外，几乎所有的27个串联阵列的两个或三个指结构域的酵母蛋白质可以分为9个亚组，在其指簇，特别是其DNA识别螺旋序列高度保守。这些结果和最近阐述的手指/DNA识别规则的应用表明，属于同一亚组的酵母蛋白质可以识别相同或非常相似的DNA位点。
The PROSITE pattern Zinc_Finger_C2H2 was extended to permit the detection of all C2H2 zinc fingers and their parent proteins in the recently completed sequence of the yeast genome. Additionally, a new computer program was written that extracts other zinc binding motifs (non C2H2 'fingers'), overlapping with the classical zinc finger pattern, from the found set of yeast C2H2 fingers. The complete and correct detection of all fingers is a prerequisite for the classification of the yeast zinc finger proteins in functional terms. The detected 53 yeast C2H2 zinc finger proteins do not contain finger clusters with 10 or more repeats, as is frequently found in higher eukaryotes. Only three proteins contain four or more fingers in a cluster. Moreover, nearly all 27 yeast proteins with tandem arrays of two or three finger domains can be classified into nine subgroups with high sequence conservation in their finger clusters, in particular of their DNA recognition helices. These results and application of the recently elaborated finger/DNA recognition rules suggest that the yeast proteins belonging to the same subgroup may recognize identical or very similar DNA sites.