結(jié)構(gòu)基序預(yù)測(cè)蛋白質(zhì)功能(文件)
【正文】 ary motif for DNA binding. To evaluate the properties of works of meta motifs Materials and Methods 1. Data set We have used all the PDB entries as of December 29, 2021(70,231 entries)， which contained at least one ligand binding site. A ligand binding site of a subunit is defined as a set of at least 10 atoms in the subunit that are in contact with some atoms of aligand within 5 A radius. 2. Similarity between binding site structures To pare binding site structures, we used the GIRAF structural search and alignment program with some modifications to enable faster database search and flexible alignments (unpublished). After allagainstall parisons of binding sites, elementary motifs were defined as pletelinkage clusters with a cutoff GIRAF score of 15. The GIRAF score is defined as The results of allagainstall parison of binding sites and classifications are made available for download at ? NA and NB分別是 A、 B原子中的結(jié)合位點(diǎn)數(shù)目。 因此， posite motif僅僅只能作為整個(gè)生物學(xué)過(guò)程中的點(diǎn)。我們把這些簇看做 elementary elementary motifs 的集稱為亞基的 posite 兩個(gè)亞基有共同的 elementary motifs 可以推斷他們有共 同的 posite motif。然而我們不用已知的基于序列相似性的非冗余數(shù)據(jù)庫(kù)，我們的冗余在相似結(jié)構(gòu)聚類之后再清理。 To date, there have been many methods for detecting potential ligand binding sites based on structural similarity of proteins [14,16–22]. Most of these methods are
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