精品范文基于二级结构氨基酸组成识别酸性_中性及碱性酶.pdfVIP

生 物 工 程 学 报 Chin J Biotech 2009, October 25; 25(10): 1508-1515 Chinese Journal of Biotechnology ISSN 1000-3061 cjb@ © 2009 Institute of Microbiology, CAS CSM, All rights reserved - 系统生物技术 张光亚, 高嘉强, 方柏山 , 361021 : 本研究系统分析了酸性、碱性和中性酶在二级结构氨基酸组成上的差异。结果发现在形成特定二级结构过程 中, 酸性酶和碱性酶有着不同的氨基酸使用偏向; 同时, 在酸性和碱性酶中, 中性氨基酸和侧链微小的氨基酸含量明显 较高, 这可能是它们适应极端pH 的普遍机制。基于此, 提出了一种提取蛋白质序列特征值的新方法, 其 10 倍交叉验证 的精度可达80.3%。与其他常见特征值提取方法相比, 其精度提高了9.4%到 18.7%不等; 而随机森林算法比其他机器学 习算法识别精度也高出2.7%到21.8%不等。 : 二级结构, 氨基酸组成, 酸性酶, 碱性酶, 稳定性机制, 特征提取, 随机森林 Discriminating acidic, neutral and alkaline enzymes with secondary structure amino acid composition Guangya Zhang, Jiaqiang Gao, and Baishan Fang Department of Bioengineering and Biotechnology, Huaqiao University, Xiamen 361021, China Abstract: In this work, we systematically analyzed the secondary structure amino acid compositions of acidic and alkaline enzymes and compared them with neutral ones. We found that the propensity of the individual residues to participate in secondary structures and the consistently higher composition of neutral and tiny residues might be the general stability mechanisms for their adaptation to pH extremes. Based on this, we presented a secondary structure amino acid composition method for extracting useful features from sequence. The overall prediction accuracy evaluated by the 10-fold cross-validation reached 80.3%. Comparing our method with other feature extraction methods, the improvement of the overall prediction accuracy ranged from 9.4% to 18.7%. The random forests algorithm also outperformed other machine learning techniques with an improvement ranging from 2.7% to 21.8%. Key