{"title":"几何描述符作为非平面多环芳烃能量稳定性有效预测因子的大数据分析","authors":"Kasimir P. Gregory, Amir Karton","doi":"10.1002/jcc.70198","DOIUrl":null,"url":null,"abstract":"<p>Accurate, efficient stability predictors are essential for understanding isomer formation in polycyclic aromatic hydrocarbons (PAHs), with implications for pollution toxicity and carbon-material design, holding broad environmental and technological significance. Recently, a benchmark study demonstrated that PBE0-D4 reproduces CCSD(T)-level isomerization energies for 335 PAHs with a mean absolute deviation (MAD) of 0.67 kcal mol<sup>−1</sup>. Here, we apply the PBE0-D4/6-31G(2df,p) level of theory to 38,264 PAH isomers from the COMPAS-3x database and identify fast, geometry-based parameters that predict isomer stability. The total dihedral deviation (Σ<sub>Dihedral</sub>) provides a cost-free nonplanarity metric yielding a mean absolute deviation (MAD) of 3.6 kcal mol<sup>−1</sup>, outperforming maximal <i>z</i>-displacement (MAD = 4.8 kcal mol<sup>−1</sup>) and the Harmonic Oscillator Model of Aromaticity (HOMA; MAD = 5.3 kcal mol<sup>−1</sup>). A combined Σ<sub>Dihedral</sub>–HOMA model reduces the MAD to 2.5 kcal mol<sup>−1</sup>, and adding a fitted semiempirical xTB correction further lowers the MAD to 0.8 kcal mol<sup>−1</sup>. We implement these descriptors in the PAH Automated Property Scanner (PAHAPS) web tool, enabling rapid estimation of PAH isomer energies from molecular coordinates without intensive quantum calculations. This integrated approach facilitates large-scale screening and efficient design of stable PAH isomers for environmental and materials applications.</p>","PeriodicalId":188,"journal":{"name":"Journal of Computational Chemistry","volume":"46 21","pages":""},"PeriodicalIF":4.8000,"publicationDate":"2025-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/jcc.70198","citationCount":"0","resultStr":"{\"title\":\"Big-Data Analysis of Geometric Descriptors as Efficient Predictors of Energetic Stability in Nonplanar Polycyclic Aromatic Hydrocarbons\",\"authors\":\"Kasimir P. Gregory, Amir Karton\",\"doi\":\"10.1002/jcc.70198\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p>Accurate, efficient stability predictors are essential for understanding isomer formation in polycyclic aromatic hydrocarbons (PAHs), with implications for pollution toxicity and carbon-material design, holding broad environmental and technological significance. Recently, a benchmark study demonstrated that PBE0-D4 reproduces CCSD(T)-level isomerization energies for 335 PAHs with a mean absolute deviation (MAD) of 0.67 kcal mol<sup>−1</sup>. Here, we apply the PBE0-D4/6-31G(2df,p) level of theory to 38,264 PAH isomers from the COMPAS-3x database and identify fast, geometry-based parameters that predict isomer stability. The total dihedral deviation (Σ<sub>Dihedral</sub>) provides a cost-free nonplanarity metric yielding a mean absolute deviation (MAD) of 3.6 kcal mol<sup>−1</sup>, outperforming maximal <i>z</i>-displacement (MAD = 4.8 kcal mol<sup>−1</sup>) and the Harmonic Oscillator Model of Aromaticity (HOMA; MAD = 5.3 kcal mol<sup>−1</sup>). A combined Σ<sub>Dihedral</sub>–HOMA model reduces the MAD to 2.5 kcal mol<sup>−1</sup>, and adding a fitted semiempirical xTB correction further lowers the MAD to 0.8 kcal mol<sup>−1</sup>. We implement these descriptors in the PAH Automated Property Scanner (PAHAPS) web tool, enabling rapid estimation of PAH isomer energies from molecular coordinates without intensive quantum calculations. This integrated approach facilitates large-scale screening and efficient design of stable PAH isomers for environmental and materials applications.</p>\",\"PeriodicalId\":188,\"journal\":{\"name\":\"Journal of Computational Chemistry\",\"volume\":\"46 21\",\"pages\":\"\"},\"PeriodicalIF\":4.8000,\"publicationDate\":\"2025-08-01\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"https://onlinelibrary.wiley.com/doi/epdf/10.1002/jcc.70198\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Journal of Computational Chemistry\",\"FirstCategoryId\":\"92\",\"ListUrlMain\":\"https://onlinelibrary.wiley.com/doi/10.1002/jcc.70198\",\"RegionNum\":3,\"RegionCategory\":\"化学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q2\",\"JCRName\":\"CHEMISTRY, MULTIDISCIPLINARY\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of Computational Chemistry","FirstCategoryId":"92","ListUrlMain":"https://onlinelibrary.wiley.com/doi/10.1002/jcc.70198","RegionNum":3,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q2","JCRName":"CHEMISTRY, MULTIDISCIPLINARY","Score":null,"Total":0}
Big-Data Analysis of Geometric Descriptors as Efficient Predictors of Energetic Stability in Nonplanar Polycyclic Aromatic Hydrocarbons
Accurate, efficient stability predictors are essential for understanding isomer formation in polycyclic aromatic hydrocarbons (PAHs), with implications for pollution toxicity and carbon-material design, holding broad environmental and technological significance. Recently, a benchmark study demonstrated that PBE0-D4 reproduces CCSD(T)-level isomerization energies for 335 PAHs with a mean absolute deviation (MAD) of 0.67 kcal mol−1. Here, we apply the PBE0-D4/6-31G(2df,p) level of theory to 38,264 PAH isomers from the COMPAS-3x database and identify fast, geometry-based parameters that predict isomer stability. The total dihedral deviation (ΣDihedral) provides a cost-free nonplanarity metric yielding a mean absolute deviation (MAD) of 3.6 kcal mol−1, outperforming maximal z-displacement (MAD = 4.8 kcal mol−1) and the Harmonic Oscillator Model of Aromaticity (HOMA; MAD = 5.3 kcal mol−1). A combined ΣDihedral–HOMA model reduces the MAD to 2.5 kcal mol−1, and adding a fitted semiempirical xTB correction further lowers the MAD to 0.8 kcal mol−1. We implement these descriptors in the PAH Automated Property Scanner (PAHAPS) web tool, enabling rapid estimation of PAH isomer energies from molecular coordinates without intensive quantum calculations. This integrated approach facilitates large-scale screening and efficient design of stable PAH isomers for environmental and materials applications.
期刊介绍:
This distinguished journal publishes articles concerned with all aspects of computational chemistry: analytical, biological, inorganic, organic, physical, and materials. The Journal of Computational Chemistry presents original research, contemporary developments in theory and methodology, and state-of-the-art applications. Computational areas that are featured in the journal include ab initio and semiempirical quantum mechanics, density functional theory, molecular mechanics, molecular dynamics, statistical mechanics, cheminformatics, biomolecular structure prediction, molecular design, and bioinformatics.