基于HNP模型及相对熵的蛋白质设计方法在不同蛋白质体系中的应用  

Application of Protein Design Method Based on The HNP Model and Relative Entropy for Different Protein Systems

作　　者：齐立省[1] 苏计国[1] 陈慰祖[1] 王存新[1] 

机构地区：[1]北京工业大学生命科学与生物工程学院,北京100124

出　　处：《生物化学与生物物理进展》2008年第9期1070-1076,共7页Progress In Biochemistry and Biophysics

基　　金：国家自然科学基金(10574009,30670497);北京市自然科学基金(5072002)资助项目~~

摘　　要：详细考察了基于HNP(H:hydrophobic,N:neutral,P:hydrophilic)模型及相对熵的蛋白质设计方法对于不同结构类型蛋白质的适用性,并与基于HP模型的结果进行了比较.通过对190个4种不同结构类型的蛋白质进行预测,结果表明,基于HNP模型及相对熵的设计方法对于不同结构类型的蛋白质具有普适性.进一步的研究发现,对于α螺旋、β折叠等规则的二级结构,该方法的预测成功率高于无规卷曲结构预测成功率.另外,还比较了对不同氨基酸的预测差异,结果显示亲水残基的预测成功率较高.此外,研究表明该方法对于蛋白质保守残基的预测成功率高于非保守残基.在以上分析的基础上,进一步讨论了导致这些差异的原因.这些研究为基于相对熵的蛋白质设计方法的实际应用和进一步的发展打下了良好基础.The application of the protein design method based on the HNP model and the relative entropy theory is discussed for four structural classes of real proteins, and the results are compared with that of the HP model. Testing on 190 proteins shows that this method is generally effective for the different structural classes of proteins. Further studies show that the success rate of this method on regular secondary structures is higher than that on the random coil. Additionally, the success rate for different types of amino acids is also analyzed. It is found that the success rate on the hydrophilic residues is higher than those of the other two types. Furthermore, the success rate of this method on the conserved residues is higher than the non-conserved residues. The reasons resulting in the difference of the success rate on different systems were also analyzed. All analyses mentioned above make the foundation for the development and the application of this method in the future.

关 键 词：蛋白质设计 相对熵 结构类型 氨基酸简化模型 

分 类 号：Q6[生物学—生物物理学]