Quantitative Structure–Activity Relationship (QSAR) Modeling of Chiral CCR2 Antagonists with a Multidimensional Space of Novel Chirality Descriptors
The development of chirality descriptors for quantitative chirality structure–activity relationship (QCSAR) modeling has always attracted attention, owing to the importance of chiral molecules in pharmaceutical, agriculture, food, and fragrance industries, and environmental toxicology. The utility o...
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MDPI AG
2025-01-01
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| author | Ramanathan Natarajan Ganapathy S. Natarajan Subhash C. Basak |
| author_facet | Ramanathan Natarajan Ganapathy S. Natarajan Subhash C. Basak |
| author_sort | Ramanathan Natarajan |
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| description | The development of chirality descriptors for quantitative chirality structure–activity relationship (QCSAR) modeling has always attracted attention, owing to the importance of chiral molecules in pharmaceutical, agriculture, food, and fragrance industries, and environmental toxicology. The utility of a multidimensional space of novel relative chirality indices (RCIs) in the QCSAR modeling of twenty CCR2 antagonists is reported upon in this paper. The numerical characterization of chirality by the RCI approach gives a large pool of chirality descriptors with different degrees of mutual correlation (the correlation coefficient among the computed descriptors varied from 0.02 to 0.99). In the present study, the final data set contains 198 chirality descriptors for each of the twenty CCR2 antagonist molecules, providing a multidimensional space for modeling. The data reduction using principal component analysis resulted in the extraction of eight principal components (PCs). The linear regression using the principal component scores (PCSs) resulted in a three-predictor prediction model with good statistics: R<sup>2</sup> = 0.823; Adj R<sup>2</sup> = 0.790. The regression models were rebuilt using the chirality descriptors (RCIs) that are most correlated with each of the scores (PCSs) of the three principal components. The R<sup>2</sup> value for the regression models with three RCIs as the predictors is 0.742 and the five-fold cross validation, R<sub>cv</sub><sup>2</sup>, is 0.839. The new chirality descriptors, namely, the RCIs calculated using a different weighting scheme, provide a multidimensional space of chirality descriptors for a set of chiral molecules, and such a multidimensional chirality space is a powerful tool to build quantitative chiral structure–activity relationship (QCSAR) models. |
| format | Article |
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| institution | Kabale University |
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| spelling | doaj-art-3eb4e645e1694df4959dd9c1514bfa2d2025-01-24T13:43:31ZengMDPI AGMolecules1420-30492025-01-0130230710.3390/molecules30020307Quantitative Structure–Activity Relationship (QSAR) Modeling of Chiral CCR2 Antagonists with a Multidimensional Space of Novel Chirality DescriptorsRamanathan Natarajan0Ganapathy S. Natarajan1Subhash C. Basak2Department of Research and Development, Saranathan College of Engineering, Panjappur, Tiruchirappalli 620 012, Tamil Nadu, IndiaDepartment of Mechanical Engineering and Industrial Engineering, University of Wisconsin-Platteville, Platteville, WI 53818, USAIndependent Researcher, 1802 Stanford Avenue, Duluth, MN 55811, USAThe development of chirality descriptors for quantitative chirality structure–activity relationship (QCSAR) modeling has always attracted attention, owing to the importance of chiral molecules in pharmaceutical, agriculture, food, and fragrance industries, and environmental toxicology. The utility of a multidimensional space of novel relative chirality indices (RCIs) in the QCSAR modeling of twenty CCR2 antagonists is reported upon in this paper. The numerical characterization of chirality by the RCI approach gives a large pool of chirality descriptors with different degrees of mutual correlation (the correlation coefficient among the computed descriptors varied from 0.02 to 0.99). In the present study, the final data set contains 198 chirality descriptors for each of the twenty CCR2 antagonist molecules, providing a multidimensional space for modeling. The data reduction using principal component analysis resulted in the extraction of eight principal components (PCs). The linear regression using the principal component scores (PCSs) resulted in a three-predictor prediction model with good statistics: R<sup>2</sup> = 0.823; Adj R<sup>2</sup> = 0.790. The regression models were rebuilt using the chirality descriptors (RCIs) that are most correlated with each of the scores (PCSs) of the three principal components. The R<sup>2</sup> value for the regression models with three RCIs as the predictors is 0.742 and the five-fold cross validation, R<sub>cv</sub><sup>2</sup>, is 0.839. The new chirality descriptors, namely, the RCIs calculated using a different weighting scheme, provide a multidimensional space of chirality descriptors for a set of chiral molecules, and such a multidimensional chirality space is a powerful tool to build quantitative chiral structure–activity relationship (QCSAR) models.https://www.mdpi.com/1420-3049/30/2/307quantitative chirality structure–activity relationship (QCSAR)QSARchiralitychirality indicesCCR2 antagonists |
| spellingShingle | Ramanathan Natarajan Ganapathy S. Natarajan Subhash C. Basak Quantitative Structure–Activity Relationship (QSAR) Modeling of Chiral CCR2 Antagonists with a Multidimensional Space of Novel Chirality Descriptors Molecules quantitative chirality structure–activity relationship (QCSAR) QSAR chirality chirality indices CCR2 antagonists |
| title | Quantitative Structure–Activity Relationship (QSAR) Modeling of Chiral CCR2 Antagonists with a Multidimensional Space of Novel Chirality Descriptors |
| title_full | Quantitative Structure–Activity Relationship (QSAR) Modeling of Chiral CCR2 Antagonists with a Multidimensional Space of Novel Chirality Descriptors |
| title_fullStr | Quantitative Structure–Activity Relationship (QSAR) Modeling of Chiral CCR2 Antagonists with a Multidimensional Space of Novel Chirality Descriptors |
| title_full_unstemmed | Quantitative Structure–Activity Relationship (QSAR) Modeling of Chiral CCR2 Antagonists with a Multidimensional Space of Novel Chirality Descriptors |
| title_short | Quantitative Structure–Activity Relationship (QSAR) Modeling of Chiral CCR2 Antagonists with a Multidimensional Space of Novel Chirality Descriptors |
| title_sort | quantitative structure activity relationship qsar modeling of chiral ccr2 antagonists with a multidimensional space of novel chirality descriptors |
| topic | quantitative chirality structure–activity relationship (QCSAR) QSAR chirality chirality indices CCR2 antagonists |
| url | https://www.mdpi.com/1420-3049/30/2/307 |
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