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Shi B. Problem in the molecular area of polar probe molecules used in inverse gas chromatography. J Chromatogr A 2019; 1601:385-387. [DOI: 10.1016/j.chroma.2019.05.027] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2019] [Revised: 05/13/2019] [Accepted: 05/14/2019] [Indexed: 12/16/2022]
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2
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Krein MP, Sukumar N. Exploration of the Topology of Chemical Spaces with Network Measures. J Phys Chem A 2011; 115:12905-18. [DOI: 10.1021/jp204022u] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Affiliation(s)
- Michael P. Krein
- Rensselaer Exploratory Center for Cheminformatics Research, and Department of Chemistry & Chemical Biology, Rensselaer Polytechnic Institute, 110 Eighth Street, Troy, New York 12180, United States
| | - N. Sukumar
- Rensselaer Exploratory Center for Cheminformatics Research, and Department of Chemistry & Chemical Biology, Rensselaer Polytechnic Institute, 110 Eighth Street, Troy, New York 12180, United States
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3
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Durand M, Molinier V, Kunz W, Aubry JM. Classification of organic solvents revisited by using the COSMO-RS approach. Chemistry 2011; 17:5155-64. [PMID: 21438038 DOI: 10.1002/chem.201001743] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2010] [Indexed: 11/07/2022]
Abstract
A new approach for the classification of solvents is proposed, based solely on the solvent molecular structure and relying on the "COnductor-like Screening MOdel for Real Solvents" (COSMO-RS), in which solvents are considered in their liquid state. This approach provides an a priori classification without requiring the knowledge of any experimental data. The theoretical descriptors of the proposed classification are generated through the analysis of the COSMO-RS σ-potential profiles. By applying a two-step statistical procedure to the descriptors generated for a set of 153 representative solvents, a clustering into 10 classes leads to an optimal classification that is compared to the classical Chastrette's classification. The investigation of nitrocellulose solubility allows a validation of the proposed classification, which can be extended also to solvent mixtures. This new approach for solvent classification, thus, appears as a consistent tool for the design of new solvents and their formulation.
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Affiliation(s)
- Morgan Durand
- Université Lille Nord de France, USTL, ENSCL, E.A. 4478 Chimie Moléculaire et Formulation, Cité Scientifique, BP 90108, 59652 Villeneuve d'Ascq Cedex, France
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Hui-Ying X, Jian-Wei Z, Gui-Xiang H, Wei W. QSPR/QSAR models for prediction of the physico-chemical properties and biological activity of polychlorinated diphenyl ethers (PCDEs). CHEMOSPHERE 2010; 80:665-670. [PMID: 20488504 DOI: 10.1016/j.chemosphere.2010.04.050] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/14/2009] [Revised: 03/31/2010] [Accepted: 04/22/2010] [Indexed: 05/29/2023]
Abstract
Polychlorinated diphenyl ethers (PCDEs) are a group of important persistent organic pollutants. In the present study, geometrical optimization and electrostatic potential calculations have been performed for all 209 PCDE congeners at the HF/6-31G(*) level of theory. A number of statistically-based parameters have been obtained. Linear relationships between gas-chromatographic relative retention time (RRT), n-octanol/water partition coefficient (log K(OW)), 298 K supercooled liquid vapour pressures (log p(L)), aqueous solubilities (logS(w,L)) and the immunotoxicity values (log ED(50)) of PCDEs and the structural descriptors have been established by multiple linear regression method. The result shows that the quantities derived from electrostatic potential V(s,min), SigmaV(s)(+),V(s,av)(-),Pi,sigma(tot)(2),sigma(+)(2),nu, and N(v)(+), together with the number of the chlorine atoms on the two phenyl rings (N(Cl)) can be well used to express the quantitative structure-property (activity) relationships of PCDEs. Good predictive capabilities have also been demonstrated by leave-group(1/5)-out cross-validation and external test set. Based on these equations, the predicted values have been presented for those PCDE congeners whose experimentally determined physico-chemical properties are unavailable.
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Affiliation(s)
- Xu Hui-Ying
- College of Biology & Environment Engineering, Zhejiang Shuren University, Hangzhou 310015, China.
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5
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Bajot F. The Use of Qsar and Computational Methods in Drug Design. CHALLENGES AND ADVANCES IN COMPUTATIONAL CHEMISTRY AND PHYSICS 2010. [DOI: 10.1007/978-1-4020-9783-6_9] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
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6
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Hoffmann EA, Rajkó R, Fekete ZA, Körtvélyesi T. Quantum chemical characterization of Abraham solvation parameters for gas–liquid chromatographic stationary phases. J Chromatogr A 2009; 1216:8535-44. [DOI: 10.1016/j.chroma.2009.09.074] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2009] [Revised: 09/24/2009] [Accepted: 09/28/2009] [Indexed: 10/20/2022]
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7
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Theoretical characterization of gas–liquid chromatographic stationary phases with quantum chemical descriptors. J Chromatogr A 2009; 1216:2540-7. [DOI: 10.1016/j.chroma.2009.01.026] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2008] [Revised: 01/07/2009] [Accepted: 01/12/2009] [Indexed: 11/19/2022]
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8
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9
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Yang GY, Yu J, Wang ZY, Zeng XL, Ju XH. QSPR Study on the Aqueous Solubility (−lgSw) andn-Octanol/Water Partition Coefficients (lgKow) of Polychlorinated Dibenzo-p-dioxins (PCDDs). ACTA ACUST UNITED AC 2007. [DOI: 10.1002/qsar.200610008] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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Estimation of the aqueous solubility (−lgSw) of all polychlorinated dibenzo-furans (PCDF) and polychlorinated dibenzo-p-dioxins (PCDD) congeners by density functional theory. ACTA ACUST UNITED AC 2006. [DOI: 10.1016/j.theochem.2006.03.027] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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12
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Zhou W, Zhai Z, Wang Z, Wang L. Estimation of n-octanol/water partition coefficients (Kow) of all PCB congeners by density functional theory. ACTA ACUST UNITED AC 2005. [DOI: 10.1016/j.theochem.2005.08.020] [Citation(s) in RCA: 50] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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13
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Vidiš A, Ohlin C, Laurenczy G, Küsters E, Sedelmeier G, Dyson P. Rationalisation of Solvent Effects in the DielsAlder Reaction Between Cyclopentadiene and Methyl Acrylate in Room Temperature Ionic Liquids. Adv Synth Catal 2005. [DOI: 10.1002/adsc.200404301] [Citation(s) in RCA: 85] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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14
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Mutelet F, Nicolas C, Rogalski M. Estimating Phase Equilibria of a van der Waals Fluid on the Basis of Molecular Interactions. Ind Eng Chem Res 2004. [DOI: 10.1021/ie049822l] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- F. Mutelet
- Laboratoire de Thermodynamique des Milieux Polyphasés, Ecole Nationale Supérieure des Industries Chimiques, Institut National Polytechnique de Lorraine, 1 rue Grandville, BP 451, F-54001 Nancy Cedex, France, Laboratoire de Chimie Physique de Marseille, UMR 6181, Faculté des Sciences de Luminy, 163 Avenue de Luminy, Case 901, 13288 Marseille Cedex 9, France, and Laboratoire de Thermodynamique des Milieux Polyphasés, Université de Metz, Ile du Saulcy, 57045 Metz, France
| | - C. Nicolas
- Laboratoire de Thermodynamique des Milieux Polyphasés, Ecole Nationale Supérieure des Industries Chimiques, Institut National Polytechnique de Lorraine, 1 rue Grandville, BP 451, F-54001 Nancy Cedex, France, Laboratoire de Chimie Physique de Marseille, UMR 6181, Faculté des Sciences de Luminy, 163 Avenue de Luminy, Case 901, 13288 Marseille Cedex 9, France, and Laboratoire de Thermodynamique des Milieux Polyphasés, Université de Metz, Ile du Saulcy, 57045 Metz, France
| | - M. Rogalski
- Laboratoire de Thermodynamique des Milieux Polyphasés, Ecole Nationale Supérieure des Industries Chimiques, Institut National Polytechnique de Lorraine, 1 rue Grandville, BP 451, F-54001 Nancy Cedex, France, Laboratoire de Chimie Physique de Marseille, UMR 6181, Faculté des Sciences de Luminy, 163 Avenue de Luminy, Case 901, 13288 Marseille Cedex 9, France, and Laboratoire de Thermodynamique des Milieux Polyphasés, Université de Metz, Ile du Saulcy, 57045 Metz, France
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Huddleston JG, Willauer HD, Burney MT, Tate LJ, Carruth AD, Rogers RD. Comparison of an Empirical and a Theoretical Linear Solvation Energy Relationship Applied to the Characterization of Solute Distribution in a Poly(ethylene) Glycol-Salt Aqueous Biphasic System. ACTA ACUST UNITED AC 2004; 44:549-58. [PMID: 15032535 DOI: 10.1021/ci034085+] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
A Linear Solvation Energy Relationship (LSER) developed by Abraham has been applied to the partition of organic solutes in an Aqueous Biphasic System (ABS) and to published values of their 1-octanol/water partition coefficients. The results are compared to the application of a conceptually similar Theoretical Linear Solvation Energy Relationship (TLSER) developed by Famini and co-workers. Differences and similarities in the molecular properties highlighted by each LSER are discussed. The theoretical relationship of Famini, although modeled on the approach of Abraham, seems not to encapsulate molecular properties in the same way as the Abraham's empirical relationship. However, this theoretical approach has the great merit of computational simplicity, and it is concluded that efforts directed toward its improvement could be rewarding.
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Affiliation(s)
- Jonathan G Huddleston
- Center for Green Manufacturing, Department of Chemistry, and Computer-Based Honors Program, The University of Alabama, Tuscaloosa, Alabama 35487, USA.
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Whitehead CE, Breneman CM, Sukumar N, Ryan MD. Transferable atom equivalent multicentered multipole expansion method. J Comput Chem 2003; 24:512-29. [PMID: 12594794 DOI: 10.1002/jcc.10240] [Citation(s) in RCA: 50] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
The transferability of atomic and functional group properties is an implicit concept in chemistry. The work presented here describes the use of Transferable Atom Equivalents (TAE) to represent molecular electrostatic potential fields through the use of integrated atomic multipole moments that are associated with each TAE atom type used in the reconstruction. TAE molecular surface distributions of electrostatic potentials are compared with analytical ab initio and empirical (Gasteiger) partial charge reference models for several conformations of test peptides. Surface electrostatic potential distributions computed using TAE multipole representations were found to converge at the octopole level, with incremental improvement observed when hexadecapoles were included. Molecular electrostatic potential fields that were produced using the TAE method were observed to be responsive to conformational changes and to compare well with ab initio reference distributions. Generation of TAE atom types and their associated multipoles does not involve fitting to sample electrostatic potential fields, but rather utilizes integrated AIM atomic electron density distributions within representative chemical environments. The RECON program was used for TAE reconstruction. RECON is capable of processing 5,000 drug-sized molecules or 25 proteins per minute per 1.7 GHz P4 Linux processor.
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Affiliation(s)
- C E Whitehead
- Department of Chemistry, Rensselaer Polytechnic Institute, 110 8th St., Troy, NY 12180, USA.
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Zou JW, Zhao WN, Shang ZC, Huang ML, Guo M, Yu QS. A Quantitative Structure−Property Relationship Analysis of logP for Disubstituted Benzenes. J Phys Chem A 2002. [DOI: 10.1021/jp025984o] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Jian-Wei Zou
- Department of Chemistry, Zhejiang University, Hangzhou, 310027, People's Republic of China
| | - Wen-Na Zhao
- Department of Chemistry, Zhejiang University, Hangzhou, 310027, People's Republic of China
| | - Zhi-Cai Shang
- Department of Chemistry, Zhejiang University, Hangzhou, 310027, People's Republic of China
| | - Mei-Lan Huang
- Department of Chemistry, Zhejiang University, Hangzhou, 310027, People's Republic of China
| | - Ming Guo
- Department of Chemistry, Zhejiang University, Hangzhou, 310027, People's Republic of China
| | - Qing-Sen Yu
- Department of Chemistry, Zhejiang University, Hangzhou, 310027, People's Republic of China
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Famini GR, Aguiar D, Payne MA, Rodriquez R, Wilson LY. Using the theoretical linear energy solvation energy relationship to correlate and predict nasal pungency thresholds. J Mol Graph Model 2002; 20:277-80. [PMID: 11858636 DOI: 10.1016/s1093-3263(01)00124-3] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Abstract
The theoretical linear solvation energy relationship (TLSER) has been used to correlate and characterize 44 nasal pungency threshold (NPT) values in man with parameters derived from semi-empirical molecular orbital theory. The resulting relationship provides good correlative (R2 > 0.92) and predictive (R2cy > 0.88) capability. In addition, the TLSER parameters are used as a molecular probe to attempt to understand the fundamental properties influencing nasal pungency.
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Affiliation(s)
- George R Famini
- AMSSB-RAS-I, US Army Soldier and Biological Chemical Command, APG, MD 21010, USA.
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Cramer CJ, Truhlar DG. Implicit Solvation Models: Equilibria, Structure, Spectra, and Dynamics. Chem Rev 1999; 99:2161-2200. [PMID: 11849023 DOI: 10.1021/cr960149m] [Citation(s) in RCA: 1722] [Impact Index Per Article: 68.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Christopher J. Cramer
- Department of Chemistry and Supercomputer Institute, University of Minnesota, Minneapolis, Minnesota 55455-0431
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