[转载]【转】蛋⽩质翻译后修饰棕榈酰化位点预测⼯tiger stone
影视原著具 —— CS
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meantodo原⽂地址：【转】蛋⽩质翻译后修饰棕榈酰化位点预测⼯具 —— CS作者：michaelfounders
As a special class of post-translational modifications (PTMs), numerous proteins could be covalently modified by a variety of lipids, including myristate (C14), palmitate (C16), farnesyl (C15), geranylgeranyl (C20) and glycosylphosphatidylinositol (GPI), etc (Cay, 1995 ; Nadolski and Linder, 2007 ; Resh, 2006 ). Although most of lipid modifications are irreversible, protein S-palmitoylation , also called as thioacylation or S-acylation, could reversibly attach 16-carbon saturated fatty acids to specific cysteine residues in protein substrates through thioester linkages (Bijlmakers and Marsh, 2003 ; Dietrich and Ungermann, 2004 ; el-Husini Ael and Bredt, 2002 ; Greaves and Chamberlain, 2007 ; Linder and Deschenes, 2007 ; Nadolski and Linder, 2007 ; Resh, 2006 ; Resh, 2006 ; Roth, et al., 2006 ; Smotrys and Linder, 2004 ; Wan, et al., 2007 ). Palmitoylation will enhance the surface hydrophobicity and membrane affinity of protein substrates, and play important roles in modulating proteins' trafficking (Draper, et al., 2007 ; Linder and Deschenes, 2007 ), stability (Linder and Deschenes, 2007 ), and sorting (Greaves and Chamberlain, 2007 ), etc. Also, protein palmitoylation has been involved in numer中医英语>forgiven
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ous cellular process, including signaling (Cay, 1995 ; Kurayoshi, et al., 2007 ; Resh, 2006 ), apoptosis (Chakrabandhu, et al., 2007 ; Feig, et al., 2007 ), and neuronal transmission (Roth, et al., 2006 ; Stowers and Isacoff, 2007 ), etc. Although many efforts have been made in this field, the molecular mechanism underlying protein palmitoylation still remain to be inexplicit.
In this work, we updated our previous CSS-Palm 1.0 (Zhou, et al., 2006 ) into version 2.0 . We manually collected the experimentally verified palmitoylation sites from scientific literature. The non-redundant training data contained 263 palmitoylation sites from 109 distinct proteins. Then an improved version of CSS algorithm was deployed. The leave-one-out validation and 4-, 6-, 8-, 10-fold cross-validations were calculated to uate the prediction performance and system robustness of CSS-Palm 2.0 . Again, the prediction performance was also tested on an additional data t not included in the training data t, with 53 palmitoylation sites in 26 proteins. By comparison with our previous CSS-Palm1.0 and NBA-Palm 1.0 (Xue, et al., 2006 ; Zhou, et al., 2006 ), the performance of CSS-Palm 2.0 was greatly improved. Finally, the CSS-Palm 2.0 was implemented in JAVA 1.4.2 with high speed . The CSS-Palm 2.0 could predict out potential palmitoylation sites for ~1,000 proteins (with an average length of ~1000aa) within five minutes. Taken together, we propod that the CSS-Palm 2.0 will be a great help for experimentalists. The CSS-Palm 2.0 is freely available at: csspalm.biocuckoo .在线英汉字典
computernetwork本⽂来⾃CSDN博客：blog.csdn/casularm/archive/2008/07/22/2688098.aspx
