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A substructure-based topological quantum chemistry approach for the estimation of the ultraviolet absorption energy of some substituted linear conjugated compounds. COMPUT THEOR CHEM 2016. [DOI: 10.1016/j.comptc.2016.10.001] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Liu F, Cao C, Cheng B. A Quantitative Structure-Property Relationship (QSPR) Study of aliphatic alcohols by the method of dividing the molecular structure into substructure. Int J Mol Sci 2011; 12:2448-62. [PMID: 21731451 PMCID: PMC3127127 DOI: 10.3390/ijms12042448] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2011] [Revised: 03/24/2011] [Accepted: 04/06/2011] [Indexed: 11/16/2022] Open
Abstract
A quantitative structure–property relationship (QSPR) analysis of aliphatic alcohols is presented. Four physicochemical properties were studied: boiling point (BP), n-octanol–water partition coefficient (lg POW), water solubility (lg W) and the chromatographic retention indices (RI) on different polar stationary phases. In order to investigate the quantitative structure–property relationship of aliphatic alcohols, the molecular structure ROH is divided into two parts, R and OH to generate structural parameter. It was proposed that the property is affected by three main factors for aliphatic alcohols, alkyl group R, substituted group OH, and interaction between R and OH. On the basis of the polarizability effect index (PEI), previously developed by Cao, the novel molecular polarizability effect index (MPEI) combined with odd-even index (OEI), the sum eigenvalues of bond-connecting matrix (SX1CH) previously developed in our team, were used to predict the property of aliphatic alcohols. The sets of molecular descriptors were derived directly from the structure of the compounds based on graph theory. QSPR models were generated using only calculated descriptors and multiple linear regression techniques. These QSPR models showed high values of multiple correlation coefficient (R > 0.99) and Fisher-ratio statistics. The leave-one-out cross-validation demonstrated the final models to be statistically significant and reliable.
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Affiliation(s)
- Fengping Liu
- School of Chemistry and Chemical Engineering, Hunan University of Science and Technology, Xiangtan, Hunan 411201, China; E-Mails: (F.L.); (B.C.)
| | - Chenzhong Cao
- School of Chemistry and Chemical Engineering, Hunan University of Science and Technology, Xiangtan, Hunan 411201, China; E-Mails: (F.L.); (B.C.)
- Key Laboratory of Theoretical Chemistry and Molecular Simulation of Ministry of Education, Hunan University of Science and Technology, Xiangtan, Hunan 411201, China
- Author to whom correspondence should be addressed; E-Mail:
| | - Bin Cheng
- School of Chemistry and Chemical Engineering, Hunan University of Science and Technology, Xiangtan, Hunan 411201, China; E-Mails: (F.L.); (B.C.)
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Alkorta I, Blanco F, Elguero J, Dobado JA, Ferrer SM, Vidal I. Carbon···Carbon Weak Interactions. J Phys Chem A 2009; 113:8387-93. [DOI: 10.1021/jp903016e] [Citation(s) in RCA: 64] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Affiliation(s)
- Ibon Alkorta
- Instituto de Química Médica, CSIC, Juan de la Cierva, 3, E-28006 Madrid, Spain, and Departamento de Química Orgánica, Facultad de Ciencias, Universidad de Granada, E-18071 Granada, Spain
| | - Fernando Blanco
- Instituto de Química Médica, CSIC, Juan de la Cierva, 3, E-28006 Madrid, Spain, and Departamento de Química Orgánica, Facultad de Ciencias, Universidad de Granada, E-18071 Granada, Spain
| | - José Elguero
- Instituto de Química Médica, CSIC, Juan de la Cierva, 3, E-28006 Madrid, Spain, and Departamento de Química Orgánica, Facultad de Ciencias, Universidad de Granada, E-18071 Granada, Spain
| | - José A. Dobado
- Instituto de Química Médica, CSIC, Juan de la Cierva, 3, E-28006 Madrid, Spain, and Departamento de Química Orgánica, Facultad de Ciencias, Universidad de Granada, E-18071 Granada, Spain
| | - Santiago Melchor Ferrer
- Instituto de Química Médica, CSIC, Juan de la Cierva, 3, E-28006 Madrid, Spain, and Departamento de Química Orgánica, Facultad de Ciencias, Universidad de Granada, E-18071 Granada, Spain
| | - Isaac Vidal
- Instituto de Química Médica, CSIC, Juan de la Cierva, 3, E-28006 Madrid, Spain, and Departamento de Química Orgánica, Facultad de Ciencias, Universidad de Granada, E-18071 Granada, Spain
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Gharagheizi F. Prediction of the Standard Enthalpy of Formation of Pure Compounds Using Molecular Structure. Aust J Chem 2009. [DOI: 10.1071/ch08522] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
A predictive approach has been presented to calculate the standard enthalpy of formation of pure compounds based on a quantitative structure–property relationship technique. A large number (1692) of pure compounds were used in this study. A genetic algorithm based on multivariate linear regression was used to subset variable selection. Using the selected molecular descriptors an optimized feed forward neural network was presented to predict the ΔHfo of pure compounds.
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Cao C. Topological Electronegativity Index and Its Application 2. Enthalpies of Formation for Monosubstituted Alkanes RX. ACTA ACUST UNITED AC 2007. [DOI: 10.1002/qsar.200730063] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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Yu YY, Fu Y, Liu L, Guo QX. Theoretical Study of Remote Substituent Effects on X-H(X=CH2, NH, O) Bond Dissociation Energies of Azulene. CHINESE J CHEM 2007. [DOI: 10.1002/cjoc.200790162] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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Liu F, Liang Y, Cao C, Zhou N. Theoretical prediction of the Kovat's retention index for oxygen-containing organic compounds using novel topological indices. Anal Chim Acta 2007; 594:279-89. [PMID: 17586126 DOI: 10.1016/j.aca.2007.05.023] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2006] [Revised: 05/14/2007] [Accepted: 05/16/2007] [Indexed: 02/03/2023]
Abstract
For the retention index of polar compounds, polar groups in molecules would participate in polar interactions between eluents and stationary phases and thus would be expected to make large and separate contributions to the total retention index (RI). The characterization of the structural feature will help to elucidate the quantitative structure-retention relationship (QSRR). In this paper, on the basis of the PEI index previously developed by Cao, two novel molecular polarizability effect index, modified molecular polarizability index (MPEI(m)) and modified inner molecular polarizability index (IMPEI(m)) were proposed to predict the GC retention of a variety of oxygen-containing organic compounds with diverse chemical structures on OV-1 and SE-54 stationary phases. The sets of molecular descriptors were derived directly from the structure of the compounds based on graph theory. Simple linear regression equations between the RI and the topological indices were established for each stationary phase separately (R>0.99). Statistical analysis showed that the QSRR models have high internal stability and good predictive ability for external groups. The molecular properties known to be relevant for GC retention data, such as molecular size, branching and polar functional groups were well covered by the generated descriptors. The models with topological indices were compared with those based on quantum-chemical descriptors. It is observed that topological indices produce better correlations with Kovat's retention index. The results indicate the efficiency of presented indices in the structure-retention index correlations of complex compounds with polar multi-functional groups.
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Affiliation(s)
- Fengping Liu
- School of Chemistry and Chemical Engineering, Hunan University of Science and Technology, Xiangtan 411201, PR China
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Cao CZ, Gao S. Bond Orbital-Connection Matrix Method to Predict Refractive Indices of Alkanes. CHINESE J CHEM PHYS 2007. [DOI: 10.1360/cjcp2007.20(2).149.6] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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Extending bond orbital-connection matrix method to the QSPR study of alkylbenzenes: Some thermochemical properties. ACTA ACUST UNITED AC 2006. [DOI: 10.1016/j.theochem.2006.06.041] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Cheng YY, Yuan H. Quantitative study of electrostatic and steric effects on physicochemical property and biological activity. J Mol Graph Model 2005; 24:219-26. [PMID: 16182578 DOI: 10.1016/j.jmgm.2005.08.005] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2005] [Revised: 08/18/2005] [Accepted: 08/18/2005] [Indexed: 11/26/2022]
Abstract
The physicochemical properties and biological activities are highly dependent on the electrostatic and steric effects of compounds. The characterization of these structural features will help to elucidate the quantitative structure-property/activity relationship (QSPR/QSAR). In this paper, two novel structural descriptors, lone-pair electrons index (LEI) and molecular volume index (MVI) were developed to quantify the molecular electrostatic and steric effects, respectively. One of the most attractive traits of these two descriptors is that the calculation is very easy, especially for LEI, which only takes the heteroatoms into account. Four data sets on diverse physicochemical properties and biological activities were selected as examples to evaluate the utility of these descriptors. One or two-variable multiple linear regression (MLR) models against the four data sets obtained such correlation results as follows: correlation coefficient R = 0.9998 and standard deviation s = 0.095 for the partition coefficient of halide benzenes; R = 0.9689 and s = 0.248 for the toxicity of heterocyclic nitrogen-containing compounds to miracidium; R = 0.9645 and s = 0.209 for the antifungal activity of benzyl alcohols to aspergillus niger; R = 0.9530 and s = 0.206 for the toxicity of substituted phenols against tetrahymena pyriformis. Leave-one-out cross validation was also carried out to evaluate the stability of each model and good results were obtained.
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Affiliation(s)
- Yi-Yu Cheng
- Pharmaceutical Informatics Institute, College of Pharmaceutical Sciences, Zhejiang University, Hangzhou 310027, China.
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Exploration of a general expression to estimate the enthalpies of formation for monosubstituted alkanes RX. ACTA ACUST UNITED AC 2005. [DOI: 10.1016/j.theochem.2005.05.008] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Tasi G, Szöri M, Csaszar AG. Semispectroscopic and quantitative structure-property relationship estimates of the equilibrium and vibrationally averaged structure and dipole moment of 1-buten-3-yne. J Phys Chem A 2005; 109:4824-8. [PMID: 16833826 DOI: 10.1021/jp058005b] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Systematic quantum chemical calculations have been performed to obtain precise estimates of the equilibrium and vibrationally averaged molecular structure and electric dipole moment of vinylacetylene (VA, 1-buten-3-yne). Anharmonic (cubic and semi-diagonal quartic) MP2/cc-pVTZ force fields in normal coordinates were computed to account for anharmonic vibrational effects, including zero-point contributions to the rotational constants and the electric dipole moment. A simultaneous weighted least-squares structural refinement was performed, resulting in the best semispectroscopic estimate of the re structure of VA. The refinement was based on experimentally measured ground-state rotational constants of two isotopologs of VA corrected to equilibrium values using MP2/cc-pVTZ vibration-rotation interaction constants and all-electron CCSD(T)/aug-cc-pVTZ structural constraints. The semispectroscopic re structure of VA agrees excellently with the high-level CCSD(T)/aug-cc-pVTZ ab initio structure. The most dependable, CCSD(T)/cc-pVQZ//CCSD(T)/aug-cc-pVTZ equilibrium electric dipole moment of VA, in D, is mua= 0.4088, mub= 0.0004, and muc= 0. The vibrationally corrected a-component of 0.4214 D is in excellent agreement with one of the available experimental values. The present analysis shows that mub is negligible even after vibrational correction. A simple quantitative structure-property relationship (QSPR) model resulted in a highly similar estimate, 0.45 D, for the electric dipole moment of VA.
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Affiliation(s)
- Gyula Tasi
- Department of Applied and Environmental Chemistry, University of Szeged, Rerrich B. tér 1, H-6720 Szeged, Hungary.
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Cao C, Gao S. Estimating enthalpies of formation of monoalkenes by the bonding orbital-connecting matrix of molecular graphics and the steric effect of the cis/trans configuration. ACTA ACUST UNITED AC 2005. [DOI: 10.1016/j.theochem.2005.01.004] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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