On the Topological Sub-Structural Molecular Design (TOSS-MODE) in QSPR/QSAR and Drug Design Research

Abstract

A recently introduced graph-theoretical approach to the study of structure-property-activity relationships is presented. The theoretical approach and the computational strategy for the use of the TOSS-MODE approach are given with details. Several QSPR and QSAR applications are reviewed including the study of physical properties of organic compounds, diamagnetic susceptibilities, and biological properties. The applications of the TOSS-MODE approach to discrimination of active/inactive compounds, the virtual screening of compounds with a desired property from databases of chemical structures, identification of active/inactive fragments and its relationships with 2D/3D pharmacophores, and to the design of novel compounds with desired biological activities are also reviewed.     

多氯联苯的定量结构－性质(活性)关系

多氯联苯(PCBs)是一类重要的持久性环境污染物.首先对所有209个PCB分子进行了HF/6-31G*水平上的结构优化, 在优化结构上获得了分子的表面静电势分布, 并在此基础上对其统计导出的参数进行了计算．其后, 运用多元线性回归方法对PCBs的水溶性、正辛醇/水分配系数、正辛醇/空气分配系数、土壤吸附性、水溶液活度系数、298 K超冷流体蒸汽压、总分子表面积、色谱保留指数、升华焓、蒸发焓、熔融焓、PCB结合芳烃受体活性数据、生物降解度以及生物降解速率参数等理化性质和生物活性与分子的结构参数进行了关联．结果表明:分子静电势参数结合分子表面积和常规的量子化学参数可以很好地用于表达多氯联苯分子理化性质和生物活性与其分子结构间的定量关系．     

The chemical structure matrix and a new formalism for the QSPR problem

The notion of the chemical structure matrix (CSM) is introduced. The columns of the CSM represent the numbers of occurrences of different subgraphs in molecular graphs and are treated as vectors in a linear space. Any topological indices and physicochemical properties can also be treated as vectors in the same linear space. The QSPR problem is formally reduced to the search for linear correlations between vectors. A simple procedure for solving the problem is proposed. A novel method for establishing QSAR is outlined. Published in Russian in Izvestiya Akademii Nauk. Seriya Khimicheskaya, No. 9, pp. 1447–1453, September, 2006.     

Performance of multicomponent self-organizing regression (MCSOR) in QSAR,QSPR, and multivariate calibration: comparison with partial least-squares (PLS) and validation with large external data sets

A novel method for underdetermined regression problems, multicomponent self-organizing regression (MCSOR), has been recently introduced. Here, its performance is compared with partial least-squares (PLS), which is perhaps the most widely adopted multivariate method in chemometrics. A potpourri of models is presented, and MCSOR appears to provide highly predictive models that are comparable with or better than the corresponding PLS models in large internal (leave-one-out, LOO) and pseudo-external (leave-many-out, LMO) validation tests. The “blind” external predictive ability of MCSOR and PLS is demonstrated employing large melting point, factor Xa, log?P and log?S data sets. In a nutshell, MCSOR is fast, conceptually simple (employing multiple linear regression, MLR, as a statistical tool), and applicable to all kinds of multivariate problems with single Y-variable.     

新定义的价连接性指数与有机物理化活性的相关性研究

基于分子中成键原子i的结构特征和所处的化学环境,新定义了原子的价点价δYi,以价连接矩阵为基础构建了一个新的能表征含多重键、杂原子分子结构信息的价连接性指数mωY. mωY对有机化合物异构体具有很强的选择性和区分能力.用0ωY, 1ωY和分子中的含碳数NC研究了有机物的一系列理化活性,其相关性良好,并发现不同的性质,0ωY, 1ωY和NC所起的作用程度是有所不同的.新模型物理意义明确,计算简便,对不同类型有机物的不同理化活性具有良好的估算和预测能力,计算值与实验值的吻合程度均优于相应文献的结果.