1
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Soukup-Carne D, López-Porfiri P, Bragagnolo FS, Funari CS, Fan X, González-Miquel M, Esteban J. Extraction of 5-Hydroxymethylfurfural and Furfural in Aqueous Biphasic Systems: A COSMO-RS Guided Approach to Greener Solvent Selection. ACS SUSTAINABLE CHEMISTRY & ENGINEERING 2024; 12:3766-3779. [PMID: 38456191 PMCID: PMC10915861 DOI: 10.1021/acssuschemeng.3c07894] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/01/2023] [Revised: 02/05/2024] [Accepted: 02/07/2024] [Indexed: 03/09/2024]
Abstract
5-Hydroxymethylfurfural (HMF) and furfural (Fur) are promising biobased platform chemicals, derived from the dehydration of carbohydrate feedstocks, normally conducted in an aqueous phase. Plagued by side-reactions in such phase, such as the rehydration to levulinic acid (LA) and formic acid (FA) or self-condensation to humins, HMF and Fur necessitates diversification from monophasic aqueous reaction systems toward biphasic systems to mitigate undesired side-reactions. Here, a methodology based on the COnductor-like Screening MOdel for Real Solvents (COSMO-RS) method was used to screen solvent candidates based on the predicted partition coefficients (Ki). Hansen solubility parameters in conjunction with excess thermodynamic quantities determined by COSMO-RS were employed to assess solvent compatibility. Experimental validation of the COSMO-RS values highlighted only minor deviations from the predictions with root-mean-square-error (RMSE) values of HMF and Fur at 0.76 and 5.32, respectively, at 298 K. The combined effort suggested cyclohexanone, isophorone, and methyl isobutyl ketone (MIBK) as the best candidates. Finally, extraction solvent reuse demonstrated cyclohexanone suitability for HMF extraction with KHMF of 3.66 and MIBK for Fur with KFur 7.80 with consistent partitioning across four total runs. Both solvents are classified as recommended by the CHEM21 solvent selection guide, hence adding to the sustainability of the process.
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Affiliation(s)
- Dominik Soukup-Carne
- Department
of Chemical Engineering, The University
of Manchester, Oxford Road, Manchester M13 9PL, United Kingdom
| | - Pablo López-Porfiri
- Department
of Chemical Engineering, The University
of Manchester, Oxford Road, Manchester M13 9PL, United Kingdom
| | - Felipe Sanchez Bragagnolo
- Multidisciplinary
Laboratory of Food and Health (LabMAS), School of Applied Sciences
(FCA), University of Campinas (UNICAMP), Rua Pedro Zaccaria 1300, 13484-350 Limeira, SP, Brazil
| | - Cristiano Soleo Funari
- Green
Biotech Network, School of Agricultural Sciences, São Paulo State University, Av. Universitária 3780, Botucatu, 18610-034 São Paulo, Brazil
| | - Xiaolei Fan
- Department
of Chemical Engineering, The University
of Manchester, Oxford Road, Manchester M13 9PL, United Kingdom
| | - María González-Miquel
- Department
of Chemical and Environmental Engineering, ETSI Industriales, Universidad Politécnica de Madrid, José Gutiérrez Abascal
2, 28006 Madrid, Spain
| | - Jesús Esteban
- Department
of Chemical Engineering, The University
of Manchester, Oxford Road, Manchester M13 9PL, United Kingdom
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2
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Pattanaik L, Menon A, Settels V, Spiekermann KA, Tan Z, Vermeire FH, Sandfort F, Eiden P, Green WH. ConfSolv: Prediction of Solute Conformer-Free Energies across a Range of Solvents. J Phys Chem B 2023; 127:10151-10170. [PMID: 37966798 DOI: 10.1021/acs.jpcb.3c05904] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2023]
Abstract
Predicting Gibbs free energy of solution is key to understanding the solvent effects on thermodynamics and reaction rates for kinetic modeling. Accurately computing solution free energies requires the enumeration and evaluation of relevant solute conformers in solution. However, even after generation of relevant conformers, determining their free energy of solution requires an expensive workflow consisting of several ab initio computational chemistry calculations. To help address this challenge, we generate a large data set of solution free energies for nearly 44,000 solutes with almost 9 million conformers calculated in 41 different solvents using density functional theory and COSMO-RS and quantify the impact of solute conformers on the solution free energy. We then train a message passing neural network to predict the relative solution free energies of a set of solute conformers, enabling the identification of a small subset of thermodynamically relevant conformers. The model offers substantial computational time savings with predictions usually substantially within 1 kcal/mol of the free energy of the solution calculated by using computational chemical methods.
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Affiliation(s)
- Lagnajit Pattanaik
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Angiras Menon
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Volker Settels
- BASF SE, Scientific Modeling, Group Research, Ludwigshafen am Rhein 67056, Germany
| | - Kevin A Spiekermann
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Zipei Tan
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Florence H Vermeire
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
- Department of Chemical Engineering, KU Leuven, Celestijnenlaan 200F, Leuven 3001, Belgium
| | - Frederik Sandfort
- BASF SE, Scientific Modeling, Group Research, Ludwigshafen am Rhein 67056, Germany
| | - Philipp Eiden
- BASF SE, Scientific Modeling, Group Research, Ludwigshafen am Rhein 67056, Germany
| | - William H Green
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
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3
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Cysewski P, Przybyłek M, Jeliński T. Intermolecular Interactions as a Measure of Dapsone Solubility in Neat Solvents and Binary Solvent Mixtures. MATERIALS (BASEL, SWITZERLAND) 2023; 16:6336. [PMID: 37763610 PMCID: PMC10532775 DOI: 10.3390/ma16186336] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/07/2023] [Revised: 09/19/2023] [Accepted: 09/20/2023] [Indexed: 09/29/2023]
Abstract
Dapsone is an effective antibacterial drug used to treat a variety of conditions. However, the aqueous solubility of this drug is limited, as is its permeability. This study expands the available solubility data pool for dapsone by measuring its solubility in several pure organic solvents: N-methyl-2-pyrrolidone (CAS: 872-50-4), dimethyl sulfoxide (CAS: 67-68-5), 4-formylmorpholine (CAS: 4394-85-8), tetraethylene pentamine (CAS: 112-57-2), and diethylene glycol bis(3-aminopropyl) ether (CAS: 4246-51-9). Furthermore, the study proposes the use of intermolecular interactions as molecular descriptors to predict the solubility of dapsone in neat solvents and binary mixtures using machine learning models. An ensemble of regressors was used, including support vector machines, random forests, gradient boosting, and neural networks. Affinities of dapsone to solvent molecules were calculated using COSMO-RS and used as input for model training. Due to the polymorphic nature of dapsone, fusion data are not available, which prohibits the direct use of COSMO-RS for solubility calculations. Therefore, a consonance solvent approach was tested, which allows an indirect estimation of the fusion properties. Unfortunately, the resulting accuracy is unsatisfactory. In contrast, the developed regressors showed high predictive potential. This work documents that intermolecular interactions characterized by solute-solvent contacts can be considered valuable molecular descriptors for solubility modeling and that the wealth of encoded information is sufficient for solubility predictions for new systems, including those for which experimental measurements of thermodynamic properties are unavailable.
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Affiliation(s)
- Piotr Cysewski
- Department of Physical Chemistry, Pharmacy Faculty, Collegium Medicum of Bydgoszcz, Nicolaus Copernicus University in Toruń, Kurpińskiego 5, 85-096 Bydgoszcz, Poland; (M.P.); (T.J.)
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4
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Deng Y, Liu S, Jiang Y, Martins ICB, Rades T. Recent Advances in Co-Former Screening and Formation Prediction of Multicomponent Solid Forms of Low Molecular Weight Drugs. Pharmaceutics 2023; 15:2174. [PMID: 37765145 PMCID: PMC10538140 DOI: 10.3390/pharmaceutics15092174] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2023] [Revised: 08/15/2023] [Accepted: 08/19/2023] [Indexed: 09/29/2023] Open
Abstract
Multicomponent solid forms of low molecular weight drugs, such as co-crystals, salts, and co-amorphous systems, are a result of the combination of an active pharmaceutical ingredient (API) with a pharmaceutically acceptable co-former. These solid forms can enhance the physicochemical and pharmacokinetic properties of APIs, making them increasingly interesting and important in recent decades. Nevertheless, predicting the formation of API multicomponent solid forms in the early stages of formulation development can be challenging, as it often requires significant time and resources. To address this, empirical and computational methods have been developed to help screen for potential co-formers more efficiently and accurately, thus reducing the number of laboratory experiments needed. This review provides a comprehensive overview of current screening and prediction methods for the formation of API multicomponent solid forms, covering both crystalline states (co-crystals and salts) and amorphous forms (co-amorphous). Furthermore, it discusses recent advances and emerging trends in prediction methods, with a particular focus on artificial intelligence.
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Affiliation(s)
- Yuehua Deng
- Guangdong Provincial Key Lab of Green Chemical Product Technology, School of Chemistry and Chemical Engineering, South China University of Technology, Guangzhou 510640, China; (Y.D.); (S.L.)
- Department of Pharmacy, University of Copenhagen, Universitetsparken 2, 2100 Copenhagen, Denmark;
| | - Shiyuan Liu
- Guangdong Provincial Key Lab of Green Chemical Product Technology, School of Chemistry and Chemical Engineering, South China University of Technology, Guangzhou 510640, China; (Y.D.); (S.L.)
| | - Yanbin Jiang
- Guangdong Provincial Key Lab of Green Chemical Product Technology, School of Chemistry and Chemical Engineering, South China University of Technology, Guangzhou 510640, China; (Y.D.); (S.L.)
- School of Chemical Engineering, Guangdong University of Petrochemical Technology, Maoming 525000, China
| | - Inês C. B. Martins
- Department of Pharmacy, University of Copenhagen, Universitetsparken 2, 2100 Copenhagen, Denmark;
| | - Thomas Rades
- Department of Pharmacy, University of Copenhagen, Universitetsparken 2, 2100 Copenhagen, Denmark;
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5
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Iftakher A, Monjur MS, Hasan MMF. An Overview of Computer‐aided Molecular and Process Design. CHEM-ING-TECH 2023. [DOI: 10.1002/cite.202200172] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Affiliation(s)
- Ashfaq Iftakher
- Texas A&M University Artie McFerrin Department of Chemical Engineering 100 Spence St. TX 77843-3122 College Station USA
| | - Mohammed Sadaf Monjur
- Texas A&M University Artie McFerrin Department of Chemical Engineering 100 Spence St. TX 77843-3122 College Station USA
| | - M. M. Faruque Hasan
- Texas A&M University Artie McFerrin Department of Chemical Engineering 100 Spence St. TX 77843-3122 College Station USA
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Li J, Maravelias CT, Van Lehn RC. Adaptive Conformer Sampling for Property Prediction Using the Conductor-like Screening Model for Real Solvents. Ind Eng Chem Res 2022. [DOI: 10.1021/acs.iecr.2c01163] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Jianping Li
- Department of Chemical and Biological Engineering and DOE Great Lakes Bioenergy Research Center, University of Wisconsin-Madison, Madison, Wisconsin 53706, United States
| | - Christos T. Maravelias
- Department of Chemical and Biological Engineering and Andlinger Center for Energy and the Environment, Princeton University, Princeton, New Jersey 08540, United States
| | - Reid C. Van Lehn
- Department of Chemical and Biological Engineering and DOE Great Lakes Bioenergy Research Center, University of Wisconsin-Madison, Madison, Wisconsin 53706, United States
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7
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Przybyłek M, Miernicka A, Nowak M, Cysewski P. New Screening Protocol for Effective Green Solvents Selection of Benzamide, Salicylamide and Ethenzamide. Molecules 2022; 27:3323. [PMID: 35630800 PMCID: PMC9144492 DOI: 10.3390/molecules27103323] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2022] [Revised: 05/18/2022] [Accepted: 05/20/2022] [Indexed: 02/06/2023] Open
Abstract
New protocol for screening efficient and environmentally friendly solvents was proposed and experimentally verified. The guidance for solvent selection comes from computed solubility via COSMO-RS approach. Furthermore, solute-solvent affinities computed using advanced quantum chemistry level were used as a rationale for observed solvents ranking. The screening protocol pointed out that 4-formylomorpholine (4FM) is an attractive solubilizer compared to commonly used aprotic solvents such as DMSO and DMF. This was tested experimentally by measuring the solubility of the title compounds in aqueous binary mixtures in the temperature range between 298.15 K and 313.15 K. Additional measurements were also performed for aqueous binary mixtures of DMSO and DMF. It has been found that the solubility of studied aromatic amides is very high and quite similar in all three aprotic solvents. For most aqueous binary mixtures, a significant decrease in solubility with a decrease in the organic fraction is observed, indicating that all systems can be regarded as efficient solvent-anti-solvent pairs. In the case of salicylamide dissolved in aqueous-4FM binary mixtures, a strong synergistic effect has been found leading to the highest solubility for 0.6 mole fraction of 4-FM.
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Affiliation(s)
- Maciej Przybyłek
- Department of Physical Chemistry, Pharmacy Faculty, Collegium Medicum of Bydgoszcz, Nicolaus Copernicus University in Toruń, Kurpińskiego 5, 85-950 Bydgoszcz, Poland; (A.M.); (M.N.)
| | | | | | - Piotr Cysewski
- Department of Physical Chemistry, Pharmacy Faculty, Collegium Medicum of Bydgoszcz, Nicolaus Copernicus University in Toruń, Kurpińskiego 5, 85-950 Bydgoszcz, Poland; (A.M.); (M.N.)
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8
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Dupeux T, Gaudin T, Marteau‐Roussy C, Aubry J, Nardello‐Rataj V. COSMO‐RS as an effective tool for predicting the physicochemical properties of fragrance raw materials. FLAVOUR FRAG J 2022. [DOI: 10.1002/ffj.3690] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Tristan Dupeux
- Univ. LilleCNRSCentrale LilleUniv. ArtoisUMR 8181 – UCCS – Unité de Catalyse et Chimie du Solide Lille France
- International Flavors & Fragrances (Fragrance Beauty Care) Neuilly‐sur‐Seine France
| | - Théophile Gaudin
- Univ. LilleCNRSCentrale LilleUniv. ArtoisUMR 8181 – UCCS – Unité de Catalyse et Chimie du Solide Lille France
| | | | - Jean‐Marie Aubry
- Univ. LilleCNRSCentrale LilleUniv. ArtoisUMR 8181 – UCCS – Unité de Catalyse et Chimie du Solide Lille France
| | - Véronique Nardello‐Rataj
- Univ. LilleCNRSCentrale LilleUniv. ArtoisUMR 8181 – UCCS – Unité de Catalyse et Chimie du Solide Lille France
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9
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Mur R, Langa E, Pino-Otín MR, Urieta JS, Mainar AM. Concentration of Antioxidant Compounds from Calendula officinalis through Sustainable Supercritical Technologies, and Computational Study of Their Permeability in Skin for Cosmetic Use. Antioxidants (Basel) 2021; 11:antiox11010096. [PMID: 35052598 PMCID: PMC8773024 DOI: 10.3390/antiox11010096] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2021] [Revised: 12/23/2021] [Accepted: 12/28/2021] [Indexed: 01/09/2023] Open
Abstract
The growing interest in the cosmetic industry in using compounds of natural and sustainable origin that are safe for humans is encouraging the development of processes that can satisfy these needs. Chlorogenic acid (CHA), caffeic acid (CAF) and ferulic acid (FA) are three compounds widely used within the cosmetic industry due to their functionalities as antioxidants, collagen modifiers or even as radiation protectors. In this work, two advanced separation techniques with supercritical CO2 are used to obtain these three compounds from Calendula officinalis, and these are then evaluated using a computational skin permeability model. This model is encompassed by the COSMO-RS model, the calculations of which make it possible to study the behaviour of the compounds in the epidermis. The results show that both CAF and FA are retained in the stratum corneum, while CHA manages to penetrate to the stratum spinosum. These compounds were concentrated by antisolvent fractionation with super-critical CO2 using a Response Surface Methodology to study the effect of pressure and CO2 flow rate. CHA, CAF and FA were completely retained in the precipitation vessel, with concentrations between 40% and 70% greater than in the original extract. The conditions predicted that the optimal overall yield and enrichment achieved would be 153 bar and 42 g/min.
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Affiliation(s)
- Raquel Mur
- GATHERS Group, Aragón Institute of Engineering Research (I3A), Universidad de Zaragoza, c/. Mariano Esquillor s/n, 50018 Zaragoza, Spain; (R.M.); (J.S.U.)
| | - Elisa Langa
- Campus Universitario Villanueva de Gállego, Universidad San Jorge, Autovía A-23 Zaragoza-Huesca Km. 299, 50830 Villanueva de Gallego, Spain; (E.L.); (M.R.P.-O.)
| | - M. Rosa Pino-Otín
- Campus Universitario Villanueva de Gállego, Universidad San Jorge, Autovía A-23 Zaragoza-Huesca Km. 299, 50830 Villanueva de Gallego, Spain; (E.L.); (M.R.P.-O.)
| | - José S. Urieta
- GATHERS Group, Aragón Institute of Engineering Research (I3A), Universidad de Zaragoza, c/. Mariano Esquillor s/n, 50018 Zaragoza, Spain; (R.M.); (J.S.U.)
| | - Ana M. Mainar
- GATHERS Group, Aragón Institute of Engineering Research (I3A), Universidad de Zaragoza, c/. Mariano Esquillor s/n, 50018 Zaragoza, Spain; (R.M.); (J.S.U.)
- Correspondence: ; Tel.: +34-976761195
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10
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Ghazizadeh Ahsaie F, Pazuki G. Effect of carbohydrates, choline chloride based deep eutectic solvents and salts on the phase behavior of PEG-PPG copolymer ATPSs and partitioning of penicillin G. J Mol Liq 2021. [DOI: 10.1016/j.molliq.2021.117152] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
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11
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Guardian MGE, Antle JP, Vexelman PA, Aga DS, Simpson SM. Resolving unknown isomers of emerging per- and polyfluoroalkyl substances (PFASs) in environmental samples using COSMO-RS-derived retention factor and mass fragmentation patterns. JOURNAL OF HAZARDOUS MATERIALS 2021; 402:123478. [PMID: 32731116 DOI: 10.1016/j.jhazmat.2020.123478] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/28/2020] [Revised: 07/12/2020] [Accepted: 07/13/2020] [Indexed: 06/11/2023]
Abstract
Chromatographic retention factors (k) and mass spectral fragmentation patterns of per- and polyfluoroalkyl substances (PFASs) were determined using the optimized parameters in liquid chromatography with tandem high-resolution mass spectrometry (LC-HRMS) analysis. Characteristic fragment ions obtained at various collision energies (MS2 fragmentation) were used to determine the structures of newly discovered (emerging) PFASs detected from industrial effluent and surface water samples. Moreover, COnductor-like Screening MOdel for Realistic Solvents (COSMO-RS) derived octanol-water partition coefficients (Kow), along with mean isotropic polarizabilities calculated from Density Functional Theory (DFT), of known PFASs were plotted against their experimental k values (kexp) to obtain a multivariable regression model that can be used to predict k values of unknown PFASs. The k values of different structural isomers of unknown PFASs were calculated and compared to kexp. The predicted k value for the isomer that matches the MS2 fragmentation observed was found to be within 4.2 % of kexp. This study demonstrates the applicability of an approach that combines the observed MS2 fragmentation patterns and k values, together with computationally-derived log Kow and polarizabilities, in assigning the structures of unknown PFASs at environmentally relevant conditions when no reference standards are available.
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Affiliation(s)
- Mary Grace E Guardian
- Department of Chemistry, University at Buffalo, the State University of New York (SUNY), Buffalo, NY, 14260, United States
| | - Jonathan P Antle
- Department of Chemistry, St. Bonaventure University, St. Bonaventure, NY, 14778, United States
| | - Paul A Vexelman
- Department of Chemistry, St. Bonaventure University, St. Bonaventure, NY, 14778, United States
| | - Diana S Aga
- Department of Chemistry, University at Buffalo, the State University of New York (SUNY), Buffalo, NY, 14260, United States.
| | - Scott M Simpson
- Department of Chemistry, St. Bonaventure University, St. Bonaventure, NY, 14778, United States.
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12
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Mbous YP, Hayyan M, Wong WF, Hayyan A, Looi CY, Hashim MA. Simulation of Deep Eutectic Solvents' Interaction with Membranes of Cancer Cells Using COSMO-RS. J Phys Chem B 2020; 124:9086-9094. [PMID: 32930594 DOI: 10.1021/acs.jpcb.0c04801] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Deep eutectic solvent (DES) affinities with cellular membranes structures dictate the degree of cytotoxicity that results from these interactions. The physicochemical properties of choline chloride (ChCl)-DESs suggest non-negligible cytotoxicities that were attested by published researches. In this study, the profiles of novel N,N-diethylammonium chloride (DAC)-based-deep eutectic solvents (DESs) prepared with various hydrogen bond donors (urea, glycerol, ethylene glycol, malonic acid, and zinc chloride) were compared to those of ChCl-DESs by using HelaS3, AGS, MCF-7, and WRL-68 cancer cell lines. The molecular interactions between salts and cellular membranes were investigated to explain the observed cytotoxicity. The results show that ChCl-based DESs (279 ≤ IC50 ≥ 1260 mM) were less toxic than DAC-based DESs (37 ≤ IC50 ≥ 109 mM). COSMO-RS analysis emphasized the importance of salt hydrophobicity with regards to DESs cytotoxicity. Malonic acid increased hydrophobicity and cytotoxicity in general, thus highlighting the potential of ammonium salt-based DESs as anticancer agents.
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Affiliation(s)
- Yves Paul Mbous
- Department of Pharmaceutical Systems and Policy, School of Pharmacy, West Virginia University, Morgantown, West Virginia 26506, United States
| | - Maan Hayyan
- Chemical Engineering Program, Faculty of Engineering and Technology, Muscat University, P.O. Box 550, Muscat P.C. 130, Oman.,University of Malaya Centre for Ionic Liquids (UMCiL), University of Malaya, Kuala Lumpur 50603, Malaysia
| | - Won Fen Wong
- Department of Medical Microbiology, Faculty of Medicine, University of Malaya, Kuala Lumpur 50603, Malaysia
| | - Adeeb Hayyan
- Department of Chemical Engineering, Faculty of Engineering, University of Malaya, Kuala Lumpur 50603, Malaysia.,Centre for Separation Science & Technology (CSST), Faculty of Engineering, University of Malaya, Kuala Lumpur 50603, Malaysia
| | - Chung Yeng Looi
- School of Biosciences, Faculty of Health & Medical Sciences, Taylor's University, Subang Jaya, Selangor, Malaysia
| | - Mohd Ali Hashim
- University of Malaya Centre for Ionic Liquids (UMCiL), University of Malaya, Kuala Lumpur 50603, Malaysia.,Department of Chemical Engineering, Faculty of Engineering, University of Malaya, Kuala Lumpur 50603, Malaysia
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13
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Aubry JM, Ontiveros JF, Salager JL, Nardello-Rataj V. Use of the normalized hydrophilic-lipophilic-deviation (HLD N) equation for determining the equivalent alkane carbon number (EACN) of oils and the preferred alkane carbon number (PACN) of nonionic surfactants by the fish-tail method (FTM). Adv Colloid Interface Sci 2020; 276:102099. [PMID: 31931276 DOI: 10.1016/j.cis.2019.102099] [Citation(s) in RCA: 24] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2019] [Revised: 12/26/2019] [Accepted: 12/27/2019] [Indexed: 12/22/2022]
Abstract
The standard HLD (Hydrophilic-Lipophilic-Deviation) equation expressing quantitatively the deviation from the "optimum formulation" of Surfactant/Oil/Water systems is normalized and simplified into a relation including only the three more meaningful formulation variables, namely (i) the "Preferred Alkane Carbon Number" PACN which expresses the amphiphilicity of the surfactant, (ii) the "Equivalent Alkane Carbon Number" EACN which accurately reflects the hydrophobicity of the oil and (iii) the temperature which has a strong influence on ethoxylated surfactants and is thus selected as an effective, continuous and reversible scanning variable. The PACN and EACN values, as well as the "temperature-sensitivity-coefficient"τ of surfactants are determined by reviewing available data in the literature for 17 nonionic n-alkyl polyglycol ether (CiEj) surfactants and 125 well-defined oils. The key information used is the so-called "fish-tail-temperature" T* which is a unique data point in true ternary CiEj/Oil/Water fish diagrams. The PACNs of CiEj surfactants are compared with other descriptors of their amphiphilicity, namely, the cloud point, the HLB number and the PIT-slope value. The EACNs of oils are rationalized by the Effective-Packing-Parameter concept and modelled thanks to the COSMO-RS theory.
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14
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Yang J, Hou Z, Wen G, Cui P, Wang Y, Gao J. A Brief Review of the Prediction of Liquid–Liquid Equilibrium of Ternary Systems Containing Ionic Liquids by the COSMO-SAC Model. J SOLUTION CHEM 2019. [DOI: 10.1007/s10953-019-00934-7] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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15
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Shirmohammadi M, Mohammadinasab E, Bayat Z. Prediction of Lipophilicity of some Quinolone Derivatives by using Quantitative Structure-Activity Relationship. Curr Drug Discov Technol 2019; 18:83-94. [PMID: 31701848 DOI: 10.2174/1570163816666191108145026] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2019] [Revised: 07/24/2019] [Accepted: 09/27/2019] [Indexed: 11/22/2022]
Abstract
OBJECTIVES Quantitative structure activity relationship (QSAR) was used to study the partition coefficient of some quinolones and their derivatives. METHODS These molecules are broad-spectrum antibiotic pharmaceutics. First, data were divided into two categories of train and test (validation) sets using a random selection method. Second, three approaches, including stepwise selection (STS) (forward), genetic algorithm (GA), and simulated annealing (SA) were used to select the descriptors, to examine the effect feature selection methods. To find the relation between descriptors and partition coefficient, multiple linear regression (MLR), principal component regression (PCR) and partial least squares (PLS) were used. RESULTS QSAR study showed that both regression and descriptor selection methods have a vital role in the results. Different statistical metrics showed that the MLR-SA approach with (r2=0.96, q2=0.91, pred_r2=0.95) gives the best outcome. CONCLUSION The proposed expression by the MLR-SA approach can be used in the better design of novel quinolones and their derivatives.
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Affiliation(s)
| | | | - Zakiyeh Bayat
- Department of Chemistry, Quchan Branch, Islamic Azad University, Quchan, Iran
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16
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Klamt A, Schwöbel J, Huniar U, Koch L, Terzi S, Gaudin T. COSMOplex: self-consistent simulation of self-organizing inhomogeneous systems based on COSMO-RS. Phys Chem Chem Phys 2019; 21:9225-9238. [PMID: 30994133 DOI: 10.1039/c9cp01169b] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
During the past 20 years, the efficient combination of quantum chemical calculations with statistical thermodynamics by the COSMO-RS method has become an important alternative to force-field based simulations for the accurate prediction of free energies of molecules in liquid systems. While it was originally restricted to homogeneous liquids, it later has been extended to the prediction of the free energy of molecules in inhomogeneous systems such as micelles, biomembranes, or liquid interfaces, but these calculations were based on external input about the structure of the inhomogeneous system. Here we report the rigorous extension of COSMO-RS to a self-consistent prediction of the structure and the free energies of molecules in self-organizing inhomogeneous systems. This extends the application range to many new areas, such as the prediction of micellar structures and critical micelle concentrations, finite loading effects in micelles and biomembranes, the free energies and structure of liquid interfaces, microemulsions, and many more related topics, which often are of great practical importance.
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Affiliation(s)
- Andreas Klamt
- COSMOlogic GmbH & Co KG, Imbacher Weg 46, D-51379 Leverkusen, Germany.
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17
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Vierros S, Sammalkorpi M. Effects of 1-hexanol on C 12E 10 micelles: a molecular simulations and light scattering study. Phys Chem Chem Phys 2018; 20:6287-6298. [PMID: 29431748 DOI: 10.1039/c7cp07511a] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The micelles of the non-ionic C12E10 surfactant and 1-hexanol as an aqueous solution additives are studied toward the purpose of understanding the role of alcohol additives in tuning the characteristics of alkyl-ethoxylate micellar systems. Our dynamic light scattering and cloud point experiments show that the addition of hexanol induces a response similar to an increase of temperature. We associate the change with increased attraction between the micelles at low to moderate hexanol loadings and a potential increase of the aggregate size at a high hexanol-to-surfactant ratio. Detailed molecular dynamic simulation characterization shows that hexanol solubilizes to a micelle palisade layer when the hexanol-to-C12E10 ratio is less than or equal to 0.5 while swollen micelles, in which a part of hexanol forms an oil core, are present when the ratio increases above approximately 1.5. The simulations indicate that the surface of the micelles is rough. Formation of reverse hexanol structures akin to those found in bulk octanol is observed in the oil core. Molecular simulations associate the increase in attraction between micelles observed via the experiments with decreased chain density in the headgroup region. This density decrease is caused by hexanol molecules solubilized between neighbouring surfactants. Altogether, these findings provide detailed physical characterization of the effect of an archetypal solution additive, hexanol, on an alkyl ethoxylate micelle system. These findings could bear a significance in designing micellar and emulsion based systems with desired solution characteristics or properties for e.g. drug delivery, catalysis, or platforms for green chemistry reactions.
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Affiliation(s)
- Sampsa Vierros
- Department of Chemistry and Materials Science, School of Chemical Engineering, Aalto University, P. O. Box 16100, FI-00076 Aalto, Finland.
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18
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Anderson RL, Bray DJ, Ferrante AS, Noro MG, Stott IP, Warren PB. Dissipative particle dynamics: Systematic parametrization using water-octanol partition coefficients. J Chem Phys 2017; 147:094503. [DOI: 10.1063/1.4992111] [Citation(s) in RCA: 48] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
| | - David J. Bray
- STFC Hartree Centre, Scitech Daresbury, Warrington WA4 4AD, United Kingdom
| | - Andrea S. Ferrante
- Novidec Ltd., 3 Brook Hey, Parkgate, Neston CH64 6TH, United Kingdom
- Ferrante Scientific Ltd., 5 Croft Lane, Bromborough CH62 2BX, United Kingdom
| | - Massimo G. Noro
- Unilever R&D Port Sunlight, Quarry Road East, Bebington CH63 3JW, United Kingdom
| | - Ian P. Stott
- Unilever R&D Port Sunlight, Quarry Road East, Bebington CH63 3JW, United Kingdom
| | - Patrick B. Warren
- Unilever R&D Port Sunlight, Quarry Road East, Bebington CH63 3JW, United Kingdom
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19
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Fraaije JGEM, van Male J, Becherer P, Serral Gracià R. Coarse-Grained Models for Automated Fragmentation and Parametrization of Molecular Databases. J Chem Inf Model 2016; 56:2361-2377. [DOI: 10.1021/acs.jcim.6b00003] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Johannes G. E. M. Fraaije
- Leiden
Institute of Chemistry, Leiden University, Einsteinweg 55, 2300 RA Leiden, The Netherlands
- Culgi BV, Galileiweg 8, 2333 BD Leiden, The Netherlands
| | - Jan van Male
- Culgi BV, Galileiweg 8, 2333 BD Leiden, The Netherlands
| | - Paul Becherer
- Culgi BV, Galileiweg 8, 2333 BD Leiden, The Netherlands
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20
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Hayyan M, Mbous YP, Looi CY, Wong WF, Hayyan A, Salleh Z, Mohd-Ali O. Natural deep eutectic solvents: cytotoxic profile. SPRINGERPLUS 2016; 5:913. [PMID: 27386357 PMCID: PMC4927554 DOI: 10.1186/s40064-016-2575-9] [Citation(s) in RCA: 116] [Impact Index Per Article: 14.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/27/2016] [Accepted: 06/15/2016] [Indexed: 01/15/2023]
Abstract
The purpose of this study was to investigate the cytotoxic profiles of different ternary natural deep eutectic solvents (NADESs) containing water. For this purpose, five different NADESs were prepared using choline chloride as a salt, alongside five hydrogen bond donors (HBD) namely glucose, fructose, sucrose, glycerol, and malonic acid. Water was added as a tertiary component during the eutectics preparation, except for the malonic acid-based mixture. Coincidentally, the latter was found to be more toxic than any of the water-based NADESs. A trend was observed between the cellular requirements of cancer cells, the viscosity of the NADESs, and their cytotoxicity. This study also highlights the first time application of the conductor-like screening model for real solvent (COSMO-RS) software for the analysis of the cytotoxic mechanism of NADESs. COSMO-RS simulation of the interactions between NADESs and cellular membranes' phospholipids suggested that NADESs strongly interacted with cell surfaces and that their accumulation and aggregation possibly defined their cytotoxicity. This reinforced the idea that careful selection of NADESs components is necessary, as it becomes evident that organic acids as HBD highly contribute to the increasing toxicity of these neoteric mixtures. Nevertheless, NADESs in general seem to possess relatively less acute toxicity profiles than their DESs parents. This opens the door for future large scale utilization of these mixtures.
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Affiliation(s)
- Maan Hayyan
- />University of Malaya Centre for Ionic Liquids (UMCiL), University of Malaya, 50603 Kuala Lumpur, Malaysia
- />Department of Civil Engineering, University of Malaya, 50603 Kuala Lumpur, Malaysia
| | - Yves Paul Mbous
- />University of Malaya Centre for Ionic Liquids (UMCiL), University of Malaya, 50603 Kuala Lumpur, Malaysia
- />Department of Chemical Engineering, University of Malaya, 50603 Kuala Lumpur, Malaysia
| | - Chung Yeng Looi
- />Department of Pharmacology, University of Malaya, 50603 Kuala Lumpur, Malaysia
| | - Won Fen Wong
- />Department of Medical Microbiology, University of Malaya, 50603 Kuala Lumpur, Malaysia
| | - Adeeb Hayyan
- />University of Malaya Centre for Ionic Liquids (UMCiL), University of Malaya, 50603 Kuala Lumpur, Malaysia
- />Institute of Halal Research University of Malaya (IHRUM), Academy of Islamic Studies, University of Malaya, 50603 Kuala Lumpur, Malaysia
| | - Zulhaziman Salleh
- />University of Malaya Centre for Ionic Liquids (UMCiL), University of Malaya, 50603 Kuala Lumpur, Malaysia
- />Department of Chemical Engineering, University of Malaya, 50603 Kuala Lumpur, Malaysia
| | - Ozair Mohd-Ali
- />UiTM Medical Specialist Centre, University of Technology MARA, Jalan Hospital, 47000 Sungai Buloh, Selangor, Malaysia
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21
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Yamin P, Isele-Holder R, Leonhard K. Predicting Octanol/Water Partition Coefficients of Alcohol Ethoxylate Surfactants Using a Combination of Molecular Dynamics and the Conductor-like Screening Model for Realistic Solvents. Ind Eng Chem Res 2016. [DOI: 10.1021/acs.iecr.5b04955] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Peyman Yamin
- Chair of
Technical Thermodynamics, RWTH Aachen University, 52062 Aachen, Germany
| | - Rolf Isele-Holder
- Chair of
Technical Thermodynamics, RWTH Aachen University, 52062 Aachen, Germany
| | - Kai Leonhard
- Chair of
Technical Thermodynamics, RWTH Aachen University, 52062 Aachen, Germany
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22
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Baum S, Ritter E, Smirnova I, Schilling M, Liese A. The role of phase behavior in the enzyme catalyzed synthesis of glycerol monolaurate. RSC Adv 2016. [DOI: 10.1039/c6ra05181b] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Partial glycerides such as monoacylglycerides (MAGs) are important functional ingredients with various applications in the cosmetics and food industry.
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Affiliation(s)
- Sören Baum
- Institute of Technical Biocatalysis
- Hamburg University of Technology
- 21073 Hamburg
- Germany
| | - Eric Ritter
- Institute of Thermal Separation Processes
- Hamburg University of Technology
- 21073 Hamburg
- Germany
| | - Irina Smirnova
- Institute of Thermal Separation Processes
- Hamburg University of Technology
- 21073 Hamburg
- Germany
| | | | - Andreas Liese
- Institute of Technical Biocatalysis
- Hamburg University of Technology
- 21073 Hamburg
- Germany
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23
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Nieto-Draghi C, Fayet G, Creton B, Rozanska X, Rotureau P, de Hemptinne JC, Ungerer P, Rousseau B, Adamo C. A General Guidebook for the Theoretical Prediction of Physicochemical Properties of Chemicals for Regulatory Purposes. Chem Rev 2015; 115:13093-164. [PMID: 26624238 DOI: 10.1021/acs.chemrev.5b00215] [Citation(s) in RCA: 72] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Carlos Nieto-Draghi
- IFP Energies nouvelles , 1 et 4 avenue de Bois-Préau, 92852 Rueil-Malmaison, France
| | - Guillaume Fayet
- INERIS, Parc Technologique Alata, BP2 , 60550 Verneuil-en-Halatte, France
| | - Benoit Creton
- IFP Energies nouvelles , 1 et 4 avenue de Bois-Préau, 92852 Rueil-Malmaison, France
| | - Xavier Rozanska
- Materials Design S.A.R.L. , 18, rue de Saisset, 92120 Montrouge, France
| | - Patricia Rotureau
- INERIS, Parc Technologique Alata, BP2 , 60550 Verneuil-en-Halatte, France
| | | | - Philippe Ungerer
- Materials Design S.A.R.L. , 18, rue de Saisset, 92120 Montrouge, France
| | - Bernard Rousseau
- Laboratoire de Chimie-Physique, Université Paris Sud , UMR 8000 CNRS, Bât. 349, 91405 Orsay Cedex, France
| | - Carlo Adamo
- Institut de Recherche Chimie Paris, PSL Research University, CNRS, Chimie Paristech , 11 rue P. et M. Curie, F-75005 Paris, France.,Institut Universitaire de France , 103 Boulevard Saint Michel, F-75005 Paris, France
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24
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Loschen C, Klamt A. Solubility prediction, solvate and cocrystal screening as tools for rational crystal engineering. ACTA ACUST UNITED AC 2015; 67:803-11. [PMID: 25851032 DOI: 10.1111/jphp.12376] [Citation(s) in RCA: 76] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2014] [Accepted: 11/23/2014] [Indexed: 11/29/2022]
Abstract
OBJECTIVES The fact that novel drug candidates are becoming increasingly insoluble is a major problem of current drug development. Computational tools may address this issue by screening for suitable solvents or by identifying potential novel cocrystal formers that increase bioavailability. In contrast to other more specialized methods, the fluid phase thermodynamics approach COSMO-RS (conductor-like screening model for real solvents) allows for a comprehensive treatment of drug solubility, solvate and cocrystal formation and many other thermodynamics properties in liquids. This article gives an overview of recent COSMO-RS developments that are of interest for drug development and contains several new application examples for solubility prediction and solvate/cocrystal screening. METHODS For all property predictions COSMO-RS has been used. The basic concept of COSMO-RS consists of using the screening charge density as computed from first principles calculations in combination with fast statistical thermodynamics to compute the chemical potential of a compound in solution. KEY FINDING The fast and accurate assessment of drug solubility and the identification of suitable solvents, solvate or cocrystal formers is nowadays possible and may be used to complement modern drug development. Efficiency is increased by avoiding costly quantum-chemical computations using a database of previously computed molecular fragments. SUMMARY COSMO-RS theory can be applied to a range of physico-chemical properties, which are of interest in rational crystal engineering. Most notably, in combination with experimental reference data, accurate quantitative solubility predictions in any solvent or solvent mixture are possible. Additionally, COSMO-RS can be extended to the prediction of cocrystal formation, which results in considerable predictive accuracy concerning coformer screening. In a recent variant costly quantum chemical calculations are avoided resulting in a significant speed-up and ease-of-use.
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Affiliation(s)
| | - Andreas Klamt
- COSMOlogic GmbH & Co. KG, Leverkusen, Germany.,Institute of Physical and Theoretical Chemistry, University of Regensburg, Regensburg, Germany
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25
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Gomis MI, Wang Z, Scheringer M, Cousins IT. A modeling assessment of the physicochemical properties and environmental fate of emerging and novel per- and polyfluoroalkyl substances. THE SCIENCE OF THE TOTAL ENVIRONMENT 2015; 505:981-91. [PMID: 25461098 DOI: 10.1016/j.scitotenv.2014.10.062] [Citation(s) in RCA: 126] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/04/2014] [Revised: 10/09/2014] [Accepted: 10/20/2014] [Indexed: 04/14/2023]
Abstract
Long-chain perfluoroalkyl carboxylic acids (PFCAs) and perfluoroalkane sulfonic acids (PFSAs) are persistent, bioaccumulative, and toxic contaminants that are globally present in the environment, wildlife and humans. Phase-out actions and use restrictions to reduce the environmental release of long-chain PFCAs, PFSAs and their precursors have been taken since 2000. In particular, long-chain poly- and perfluoroalkyl substances (PFASs) are being replaced with shorter-chain homologues or other fluorinated or non-fluorinated alternatives. A key question is: are these alternatives, particularly the structurally similar fluorinated alternatives, less hazardous to humans and the environment than the substances they replace? Several fluorinated alternatives including perfluoroether carboxylic acids (PFECAs) and perfluoroether sulfonic acids (PFESAs) have been recently identified. However, the scarcity of experimental data prevents hazard and risk assessments for these substances. In this study, we use state-of-the-art in silico tools to estimate key properties of these newly identified fluorinated alternatives. [i] COSMOtherm and SPARC are used to estimate physicochemical properties. The US EPA EPISuite software package is used to predict degradation half-lives in air, water and soil. [ii] In combination with estimated chemical properties, a fugacity-based multimedia mass-balance unit-world model - the OECD Overall Persistence (POV) and Long-Range Transport Potential (LRTP) Screening Tool - is used to assess the likely environmental fate of these alternatives. Even though the fluorinated alternatives contain some structural differences, their physicochemical properties are not significantly different from those of their predecessors. Furthermore, most of the alternatives are estimated to be similarly persistent and mobile in the environment as the long-chain PFASs. The models therefore predict that the fluorinated alternatives will become globally distributed in the environment similar to their predecessors. Although such in silico methods are coupled with uncertainties, this preliminary assessment provides enough cause for concern to warrant experimental work to better determine the properties of these fluorinated alternatives.
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Affiliation(s)
- Melissa Ines Gomis
- Department of Applied Environmental Science (ITM), Stockholm University, SE-10691 Stockholm, Sweden
| | - Zhanyun Wang
- Institute for Chemical and Bioengineering, ETH Zurich, CH-8093 Zurich, Switzerland
| | - Martin Scheringer
- Institute for Chemical and Bioengineering, ETH Zurich, CH-8093 Zurich, Switzerland
| | - Ian T Cousins
- Department of Applied Environmental Science (ITM), Stockholm University, SE-10691 Stockholm, Sweden.
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26
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Frey A, Hopmann E, Minceva M. Selection of Biphasic Liquid Systems in Liquid-Liquid Chromatography Using Predictive Thermodynamic Models. Chem Eng Technol 2014. [DOI: 10.1002/ceat.201400234] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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27
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Paloncýová M, DeVane R, Murch B, Berka K, Otyepka M. Amphiphilic Drug-Like Molecules Accumulate in a Membrane below the Head Group Region. J Phys Chem B 2014; 118:1030-9. [DOI: 10.1021/jp4112052] [Citation(s) in RCA: 80] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Affiliation(s)
- Markéta Paloncýová
- Department
of Physical Chemistry, Faculty of Science, Regional Centre
of Advanced Technologies and Materials, Palacký University Olomouc, tř.
17. listopadu 12, 771 46 Olomouc, Czech Republic
| | - Russell DeVane
- Corporate Modeling & Simulation, Procter & Gamble, 8611 Beckett Road, West Chester, Ohio 45069, United States
| | - Bruce Murch
- Corporate Modeling & Simulation, Procter & Gamble, 8611 Beckett Road, West Chester, Ohio 45069, United States
| | - Karel Berka
- Department
of Physical Chemistry, Faculty of Science, Regional Centre
of Advanced Technologies and Materials, Palacký University Olomouc, tř.
17. listopadu 12, 771 46 Olomouc, Czech Republic
| | - Michal Otyepka
- Department
of Physical Chemistry, Faculty of Science, Regional Centre
of Advanced Technologies and Materials, Palacký University Olomouc, tř.
17. listopadu 12, 771 46 Olomouc, Czech Republic
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28
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Storm S, Jakobtorweihen S, Smirnova I, Panagiotopoulos AZ. Molecular dynamics simulation of SDS and CTAB micellization and prediction of partition equilibria with COSMOmic. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2013; 29:11582-92. [PMID: 23941607 DOI: 10.1021/la402415b] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
Molecular dynamics (MD) simulations of the self-assembly of different ionic surfactants have been performed in order to obtain representative micellar structures. Subsequently, these structures were used to predict the partition behavior of various solutes in these micelles with COSMOmic, an extension of COSMO-RS. This paper includes multiple self-assembled micelles of SDS (sodium dodecyl sulfate, anionic surfactant) and CTAB (cetyltrimethylammoniumbromide, cationic surfactant) at different concentrations. Micellar size, density profiles, and shape (eccentricity) have been investigated. However, the size strongly depends on the functional definition of a micelle. For this reason, we present a method based on the free monomer concentration in aqueous solution as an optimization criterion for the micelle definition. The combination of MD with COSMOmic has the benefit of combining detailed atomistic information from MD with fast calculations of COSMOmic. For the first time the influence of micelle structure on pratition equilibria, predicted with COSMOmic, were investigated. In case of SDS more than 4600 and for CTAB more than 800 single micelles have been studied. The predictions of the partition coefficients with COSMOmic are in good agreement with experimental data. Additionally, the most favorable locations of selected molecules in the micelles as well as probable energy barriers are determined even for complex solutes such as toluene, propanolol, ephedrine, acetone, phenol, lidocaine, syringic acid, coumarin, isovanillin, ferulic acid, and vanillic acid. This method can therefore be applied as a potential screening tool for solutes (e.g., drugs) to find the optimal solute-surfactant combination.
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Affiliation(s)
- Sandra Storm
- Institute of Thermal Separation Processes, ‡Institute of Chemical Reaction Engineering, Hamburg University of Technology , D-21073 Hamburg, Germany
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29
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Kolář M, Fanfrlík J, Lepšík M, Forti F, Luque FJ, Hobza P. Assessing the accuracy and performance of implicit solvent models for drug molecules: conformational ensemble approaches. J Phys Chem B 2013; 117:5950-62. [PMID: 23600402 DOI: 10.1021/jp402117c] [Citation(s) in RCA: 57] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The accuracy and performance of implicit solvent methods for solvation free energy calculations were assessed on a set of 20 neutral drug molecules. Molecular dynamics (MD) provided ensembles of conformations in water and water-saturated octanol. The solvation free energies were calculated by popular implicit solvent models based on quantum mechanical (QM) electronic densities (COSMO-RS, MST, SMD) as well as on molecular mechanical (MM) point-charge models (GB, PB). The performance of the implicit models was tested by a comparison with experimental water-octanol transfer free energies (ΔG(ow)) by using single- and multiconformation approaches. MD simulations revealed difficulties in a priori estimation of the flexibility features of the solutes from simple structural descriptors, such as the number of rotatable bonds. An increasing accuracy of the calculated ΔG(ow) was observed in the following order: GB1 ~ PB < GB7 ≪ MST < SMD ~ COSMO-RS with a clear distinction identified between MM- and QM-based models, although for the set excluding three largest molecules, the differences among COSMO-RS, MST, and SMD were negligible. It was shown that the single-conformation approach applied to crystal geometries provides a rather accurate estimate of ΔG(ow) for rigid molecules yet fails completely for the flexible ones. The multiconformation approaches improved the performance, but only when the deformation contribution was ignored. It was revealed that for large-scale calculations on small molecules a recent GB model, GB7, provided a reasonable accuracy/speed ratio. In conclusion, the study contributes to the understanding of solvation free energy calculations for physical and medicinal chemistry applications.
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Affiliation(s)
- Michal Kolář
- Institute of Organic Chemistry and Biochemistry and Gilead Sciences & IOCB Research Center, Academy of Sciences of the Czech Republic, v.v.i., 166 10 Prague 6, Czech Republic.
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Jakobtorweihen S, Ingram T, Smirnova I. Combination of COSMOmic and molecular dynamics simulations for the calculation of membrane-water partition coefficients. J Comput Chem 2013; 34:1332-40. [DOI: 10.1002/jcc.23262] [Citation(s) in RCA: 46] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2012] [Revised: 02/01/2013] [Accepted: 02/03/2013] [Indexed: 12/28/2022]
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Hansen N, Hünenberger PH, van Gunsteren WF. Efficient Combination of Environment Change and Alchemical Perturbation within the Enveloping Distribution Sampling (EDS) Scheme: Twin-System EDS and Application to the Determination of Octanol-Water Partition Coefficients. J Chem Theory Comput 2013; 9:1334-46. [PMID: 26587596 DOI: 10.1021/ct300933y] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
The methodology of Enveloping Distribution Sampling (EDS) is extended to probe a single-simulation alternative to the thermodynamic cycle that is standardly used for measuring the effect of a modification of a chemical compound, e.g. from a given species to a chemical derivative for a ligand or solute molecule, on the free-enthalpy change associated with a change in environment, e.g. from the unbound state to the bound state for a protein-ligand system or from one solvent to another one for a solute molecule. This alternative approach relies on the coupled simulation of two systems (computational boxes) 1 and 2, and the method is therefore referred to as twin-system EDS. Systems 1 and 2 account for the two choices of environment. The end states of the alchemical perturbation for the twin-system associate the two alternative forms X and Y of the molecule to systems 1 and 2 or 2 and 1, respectively. In this way, the processes of transforming one molecule into the other are carried out simultaneously in opposite directions in the two environments, leading to a change in free enthalpy that is smaller than for the two individual processes and to an energy-difference distribution that is more symmetric. As an illustration, the method is applied to the calculation of octanol-water partition coefficients for C4 to C8 alkanes, 1-hexanol and 1,2-dimethoxyethane. It is shown in particular that the consideration of the residual hydration of octanol leads to calculated partition coefficients that are in better agreement with reported experimental numbers.
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Affiliation(s)
- Niels Hansen
- Laboratory of Physical Chemistry, Swiss Federal Institute of Technology, ETH, CH-8093 Zürich, Switzerland
| | - Philippe H Hünenberger
- Laboratory of Physical Chemistry, Swiss Federal Institute of Technology, ETH, CH-8093 Zürich, Switzerland
| | - Wilfred F van Gunsteren
- Laboratory of Physical Chemistry, Swiss Federal Institute of Technology, ETH, CH-8093 Zürich, Switzerland
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32
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Redmill PS. Estimating Octanol–Water Partition Coefficients for Selected Nanoscale Building Blocks Using the COSMO-SAC Segment Contribution Method. Ind Eng Chem Res 2012. [DOI: 10.1021/ie202107t] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Patrick S. Redmill
- Department of Chemical
Engineering, Vanderbilt University, Nashville, Tennessee 37235, United States
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33
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Wille S, Mokrushina L, Schwarze M, Smirnova I, Schomäcker R, Arlt W. Partition Coefficients for Continuous Micellar Reaction Processes. Chem Eng Technol 2011. [DOI: 10.1002/ceat.201100359] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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34
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Garrido NM, Jorge M, Queimada AJ, Macedo EA, Economou IG. Using molecular simulation to predict solute solvation and partition coefficients in solvents of different polarity. Phys Chem Chem Phys 2011; 13:9155-64. [DOI: 10.1039/c1cp20110g] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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35
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Hopmann E, Arlt W, Minceva M. Solvent system selection in counter-current chromatography using conductor-like screening model for real solvents. J Chromatogr A 2011; 1218:242-50. [DOI: 10.1016/j.chroma.2010.11.018] [Citation(s) in RCA: 56] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2010] [Revised: 09/08/2010] [Accepted: 11/10/2010] [Indexed: 11/16/2022]
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36
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Schwarze M, Milano-Brusco J, Strempel V, Hamerla T, Wille S, Fischer C, Baumann W, Arlt W, Schomäcker R. Rhodium catalyzed hydrogenation reactions in aqueous micellar systems as green solvents. RSC Adv 2011. [DOI: 10.1039/c1ra00397f] [Citation(s) in RCA: 45] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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37
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Wille S, Mokrushina L, Smirnova I, Arlt W. Partition Coefficients of Alkyl Parabens and Ibuprofen in Micellar Systems. Chem Eng Technol 2010. [DOI: 10.1002/ceat.201000279] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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38
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Klamt A, Eckert F, Arlt W. COSMO-RS: An Alternative to Simulation for Calculating Thermodynamic Properties of Liquid Mixtures. Annu Rev Chem Biomol Eng 2010; 1:101-22. [DOI: 10.1146/annurev-chembioeng-073009-100903] [Citation(s) in RCA: 362] [Impact Index Per Article: 25.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Andreas Klamt
- COSMOlogic GmbH & Co. KG, 51381 Leverkusen, Germany; ,
- Institute of Physical and Theoretical Chemistry, University of Regensburg, 93040 Regensburg, Germany
| | - Frank Eckert
- COSMOlogic GmbH & Co. KG, 51381 Leverkusen, Germany; ,
| | - Wolfgang Arlt
- Separation Science and Technology, University of Erlangen, 91058 Erlangen, Germany;
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