Xu Xiaochun, Yu Dong, Fang Wei, Cheng Yushao, Qian Ziliang, Lu Wencong, Cai Yudong, Feng Kaiyan
CAS-MPG Partner Institute for Computational Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 320 Yueyang Road, Shanghai 200031, China
J Proteome Res. 2008 Oct;7(10):4521-4. doi: 10.1021/pr800292w. Epub 2008 Sep 3.
Peptidases play pivotal regulatory roles in conception, birth, digestion, growth, maturation, aging, and death of all organisms. These regulatory roles include activation, synthesis and turnover of proteins. In the proteomics era, computational methods to identify peptidases and catalog the peptidases into six different major classes-aspartic peptidases, cysteine peptidases, glutamic peptidases, metallo peptidases, serine peptidases and threonine peptidases can give an instant glance at the biological functions of a newly identified protein. In this contribution, by combining the nearest neighbor algorithm and the functional domain composition, we introduce both an automatic peptidase identifier and an automatic peptidase classier. The successful identification and classification rates are 93.7% and 96.5% for our peptidase identifier and peptidase classifier, respectively. Free online peptidase identifier and peptidase classifier are provided on our Web page http://pcal.biosino.org/protease_classification.html.
肽酶在所有生物体的受孕、出生、消化、生长、成熟、衰老和死亡过程中发挥着关键的调节作用。这些调节作用包括蛋白质的激活、合成和周转。在蛋白质组学时代，通过计算方法来识别肽酶并将其归类为六个不同的主要类别——天冬氨酸肽酶、半胱氨酸肽酶、谷氨酸肽酶、金属肽酶、丝氨酸肽酶和苏氨酸肽酶，能够快速了解新鉴定蛋白质的生物学功能。在本论文中，我们结合最近邻算法和功能域组成，引入了一个自动肽酶识别器和一个自动肽酶分类器。我们的肽酶识别器和肽酶分类器的成功识别率和分类率分别为93.7%和96.5%。我们在网页http://pcal.biosino.org/protease_classification.html上提供了免费的在线肽酶识别器和肽酶分类器。
