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Juszczak K, Szczepankiewicz W, Walczak K. Synthesis and Primary Activity Assay of Novel Benitrobenrazide and Benserazide Derivatives. Molecules 2024; 29:629. [PMID: 38338374 PMCID: PMC10856005 DOI: 10.3390/molecules29030629] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2024] [Revised: 01/17/2024] [Accepted: 01/19/2024] [Indexed: 02/12/2024] Open
Abstract
Schiff bases attract research interest due to their applications in chemical synthesis and medicinal chemistry. In recent years, benitrobenrazide and benserazide containing imine moiety have been synthesized and characterized as promising inhibitors of hexokinase 2 (HK2), an enzyme overexpressed in most cancer cells. Benserazide and benitrobenrazide possess a common structural fragment, a 2,3,4-trihydroxybenzaldehyde moiety connected through a hydrazone or hydrazine linker acylated on an N' nitrogen atom by serine or a 4-nitrobenzoic acid fragment. To avoid the presence of a toxicophoric nitro group in the benitrobenrazide molecule, we introduced common pharmacophores such as 4-fluorophenyl or 4-aminophenyl substituents. Modification of benserazide requires the introduction of other endogenous amino acids instead of serine. Herein, we report the synthesis of benitrobenrazide and benserazide analogues and preliminary results of inhibitory activity against HK2 evoked by these structural changes. The derivatives contain a fluorine atom or amino group instead of a nitro group in BNB and exhibit the most potent inhibitory effects against HK2 at a concentration of 1 µM, with HK2 inhibition rates of 60% and 54%, respectively.
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Affiliation(s)
| | | | - Krzysztof Walczak
- Department of Organic Chemistry, Bioorganic Chemistry and Biotechnology, Faculty of Chemistry, Silesian University of Technology, 44-100 Gliwice, Poland; (K.J.); (W.S.)
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2
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Pusfitasari ED, Ruiz-Jimenez J, Samuelsson J, Besel V, Fornstedt T, Hartonen K, Riekkola ML. Assessment of physicochemical properties of sorbent materials in passive and active sampling systems towards gaseous nitrogen-containing compounds. J Chromatogr A 2023; 1703:464119. [PMID: 37271082 DOI: 10.1016/j.chroma.2023.464119] [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: 04/22/2023] [Revised: 05/25/2023] [Accepted: 05/31/2023] [Indexed: 06/06/2023]
Abstract
The adsorption and desorption behavior of volatile nitrogen-containing compounds in vapor phase by solid-phase microextraction Arrow (SPME-Arrow) and in-tube extraction (ITEX) sampling systems, were investigated experimentally using gas chromatography-mass spectrometry. Three different SPME-Arrow coating materials, DVB/PDMS, MCM-41, and MCM-41-TP and two ITEX adsorbents, TENAX-GR and MCM-41-TP were compared to clarify the selectivity of the sorbents towards nitrogen-containing compounds. In addition, saturated vapor pressures for these compounds were estimated, both experimentally and theoretically. In this study, the adsorption of nitrogen-containing compounds on various adsorbents followed the Elovich model well, while a pseudo-first-order kinetics model best described the desorption kinetics. Pore volume and pore sizes of the coating sorbents were essential parameters for the determination of the adsorption performance for the SPME-Arrow sampling system. MCM-41-TP coating with the smallest pore size gave the slowest adsorption rate compared to that of DVB/PDMS and MCM-41 in the SPME-Arrow sampling system. Both adsorbent and adsorbate properties, such as hydrophobicity and basicity, affected the adsorption and desorption kinetics in SPME-Arrow system. The adsorption and desorption rates of studied C6H15N isomers in the MCM-41 and MCM-41-TP sorbent materials of SPME-Arrow system were higher for dipropylamine and triethylamine (branched amines) than for hexylamine (linear chain amines). DVB/PDMS-SPME-Arrow gave fast adsorption rates for the aromatic-ringed pyridine and o-toluidine. All studied nitrogen-containing compounds demonstrated high desorption rates with DVB/PDMS-SPME-Arrow. Chemisorption and physisorption were the sorption mechanisms in MCM-41- and MCM-41-TP- SPME-Arrow, but additional experiments are needed to confirm this. An active sampling technique ITEX gave comparable adsorption and desorption rates on the selective MCM-41-TP and universal TENAX-GR sorbent materials for all the compounds studied. Vapor pressures of nitrogen-containing compounds were experimentally estimated by using retention index approach and these values were compared with the theoretical ones, calculated using the COnductor-like Screening MOdel for Real Solvent (COSMO-RS) model. Both values agreed well with those found in the literature proving that these methods can be successfully used in predicting VOC's vapor pressures, e.g. for the formation of secondary organic aerosols.
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Affiliation(s)
- Eka Dian Pusfitasari
- Department of Chemistry, PO Box 55, FI-00014, University of Helsinki, Finland; Institute for Atmospheric and Earth System Research, Chemistry, Faculty of science, PO Box 55, FI-00014, University of Helsinki, Finland
| | - Jose Ruiz-Jimenez
- Department of Chemistry, PO Box 55, FI-00014, University of Helsinki, Finland; Institute for Atmospheric and Earth System Research, Chemistry, Faculty of science, PO Box 55, FI-00014, University of Helsinki, Finland
| | - Jörgen Samuelsson
- Department of Engineering and Chemical Sciences, Karlstad University, SE-651 88, Karlstad, Sweden
| | - Vitus Besel
- Institute for Atmospheric and Earth System Research, Physics, Faculty of science, PO Box 64, FI-00014, University of Helsinki, Finland
| | - Torgny Fornstedt
- Department of Engineering and Chemical Sciences, Karlstad University, SE-651 88, Karlstad, Sweden
| | - Kari Hartonen
- Department of Chemistry, PO Box 55, FI-00014, University of Helsinki, Finland; Institute for Atmospheric and Earth System Research, Chemistry, Faculty of science, PO Box 55, FI-00014, University of Helsinki, Finland.
| | - Marja-Liisa Riekkola
- Department of Chemistry, PO Box 55, FI-00014, University of Helsinki, Finland; Institute for Atmospheric and Earth System Research, Chemistry, Faculty of science, PO Box 55, FI-00014, University of Helsinki, Finland.
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3
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Alsaee SK, Razak IA, Arshad S, Abdullah M, Bakar MAA. Comprehensive study of the molecular structure and nonlinear optical response of two novel halogenated pyrenyl-chalcones. J Mol Struct 2023. [DOI: 10.1016/j.molstruc.2023.135021] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
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Castro G, Valente JS, Galván M, Ireta J. Activated layered double hydroxides: assessing the surface anion basicity and its connection with the catalytic activity in the cyanoethylation of alcohols. Phys Chem Chem Phys 2022; 24:23507-23516. [PMID: 36129120 DOI: 10.1039/d2cp02704f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Layered double hydroxides (LDHs) act as catalysts in several reactions like in the cyanoethylation of alcohols with acrylonitrile to produce alkoxypropionitriles. Here we report an experimental and theoretical study in which it is shown that the experimental catalytic activity of LDHs in the cyanoethylation of 2-propanol and methanol correlates with the predicted strength of the basicity of the adsorbed surface species. First, it is shown that using activated LDHs containing Mg2+ and Al3+ (MgAl-LDH), Mg2+ and Ga3+ (MgGa-LDH), and Mg2+, Al3+ and Ga3+ (MgAlGa-LDH) great conversions to alkoxypropionitriles in high yields are obtained. Next, the basicity of these LDHs is estimated by means of the local softness, a local reactivity index calculated using density functional theory and appropriate surface models. For that, the adsorption of hydroxide and methoxide anions at the (001) surface of MgAl and MgGa-LDHs is investigated. We include LDHs containing Zn2+ and Al3+ (ZnAl-LDH) and Zn2+ and Ga3+ (ZnGa-LDH) in this part of the study to account for the effect of changing the divalent and trivalent metal composition on the basicity. It is found that hydroxide anions adsorbed on the MgGa-LDH surface and methoxide anions adsorbed on the MgAl-LDH surface are the most basic ones. This basicity trend correlates with our experimental findings about the catalytic activity of the activated LDHs. Further analyzing the connection between the LDH composition and the anion basicity, it is argued that the key steps dictating the LDH catalytic activity are the alcohol deprotonation in the cyanoethylation of 2-propanol, as it has been previously suggested, and the methoxide anion attack to the acrylonitrile double bond in the methanol cyanoethylation reaction.
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Affiliation(s)
- Guadalupe Castro
- Universidad Autónoma Metropolitana-Iztapalapa, Departamento de Química, CP 09310, Ciudad de México, Mexico.
| | - Jaime S Valente
- Instituto Mexicano del Petróleo, CP 07730, Ciudad de México, Mexico
| | - Marcelo Galván
- Universidad Autónoma Metropolitana-Iztapalapa, Departamento de Química, CP 09310, Ciudad de México, Mexico.
| | - Joel Ireta
- Universidad Autónoma Metropolitana-Iztapalapa, Departamento de Química, CP 09310, Ciudad de México, Mexico.
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Polarization of ionic liquid and polymer and its implications for polymerized ionic liquids: An overview towards a new theory and simulation. JOURNAL OF POLYMER SCIENCE 2021. [DOI: 10.1002/pol.20210330] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
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6
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Maliekal PJ, Gulvi NR, Karnik AV, Badani PM. Origin and turnaround of enantioselectivity in a chiral organocatalysed Diels‐Alder reaction: A mechanistic study. J PHYS ORG CHEM 2020. [DOI: 10.1002/poc.4072] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Affiliation(s)
| | - Nitin R. Gulvi
- Department of ChemistryUniversity of Mumbai Mumbai India
| | - Anil V. Karnik
- Department of ChemistryUniversity of Mumbai Mumbai India
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de Oliveira BG, Zabardasti A, do Rego DG, Pour MM. The formation of H···X hydrogen bond, C···X carbon-halide or Si···X tetrel bonds on the silylene-halogen dimers (X = F or Cl): intermolecular strength, molecular orbital interactions and prediction of covalency. Theor Chem Acc 2020. [DOI: 10.1007/s00214-020-02644-6] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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Yang S, Xu Y, Liu C, Huang L, Huang Z, Li H. The anionic flotation of fluorite from barite using gelatinized starch as the depressant. Colloids Surf A Physicochem Eng Asp 2020. [DOI: 10.1016/j.colsurfa.2020.124794] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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9
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Kukułka M, Srebro-Hooper M, Mitoraj MP. Substituent Effect on Conformational Preferences in Ground and Excited States of Selected Schiff Bases: An Insight from Theoretical Calculations. J Phys Chem A 2019; 124:63-73. [DOI: 10.1021/acs.jpca.9b10254] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Mercedes Kukułka
- Department of Theoretical Chemistry, Faculty of Chemistry, Jagiellonian University, Gronostajowa 2, 30-387 Krakow, Poland
| | - Monika Srebro-Hooper
- Department of Theoretical Chemistry, Faculty of Chemistry, Jagiellonian University, Gronostajowa 2, 30-387 Krakow, Poland
| | - Mariusz P. Mitoraj
- Department of Theoretical Chemistry, Faculty of Chemistry, Jagiellonian University, Gronostajowa 2, 30-387 Krakow, Poland
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Dutta B, Chowdhury J. Existence of dimeric hydroxylamine-O-sulfonic acid: Experimental observations aided by ab initio, DFT, Car-Parrinello and Born – Oppenheimer on the fly dynamics. Chem Phys Lett 2019. [DOI: 10.1016/j.cplett.2019.136645] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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11
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Glavatskikh M, Madzhidov T, Solov'ev V, Marcou G, Horvath D, Varnek A. Predictive Models for the Free Energy of Hydrogen Bonded Complexes with Single and Cooperative Hydrogen Bonds. Mol Inform 2016; 35:629-638. [DOI: 10.1002/minf.201600070] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2016] [Accepted: 06/27/2016] [Indexed: 11/10/2022]
Affiliation(s)
- Marta Glavatskikh
- Laboratoire de Chémoinformatique; UMR 7140 CNRS; Université de Strasbourg; 1, rue Blaise Pascal 67000 Strasbourg France
- Laboratory of Chemoinformatics and Molecular Modeling; Butlerov Institut of Chemistry; Kazan Federal University; Kremlevskaya 18 Kazan Russia
| | - Timur Madzhidov
- Laboratory of Chemoinformatics and Molecular Modeling; Butlerov Institut of Chemistry; Kazan Federal University; Kremlevskaya 18 Kazan Russia
| | - Vitaly Solov'ev
- A.N. Frumkin Institute of Physical Chemistry and Electrochemistry; Russian Academy of Sciences; Leninskiy prosp., 31 119071 Moscow Russia
| | - Gilles Marcou
- Laboratoire de Chémoinformatique; UMR 7140 CNRS; Université de Strasbourg; 1, rue Blaise Pascal 67000 Strasbourg France
| | - Dragos Horvath
- Laboratoire de Chémoinformatique; UMR 7140 CNRS; Université de Strasbourg; 1, rue Blaise Pascal 67000 Strasbourg France
| | - Alexandre Varnek
- Laboratoire de Chémoinformatique; UMR 7140 CNRS; Université de Strasbourg; 1, rue Blaise Pascal 67000 Strasbourg France
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Mahmudov KT, Pombeiro AJL. Resonance-Assisted Hydrogen Bonding as a Driving Force in Synthesis and a Synthon in the Design of Materials. Chemistry 2016; 22:16356-16398. [PMID: 27492126 DOI: 10.1002/chem.201601766] [Citation(s) in RCA: 101] [Impact Index Per Article: 12.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2016] [Indexed: 11/08/2022]
Abstract
Resonance-assisted hydrogen bonding (RAHB), a concept introduced by Gilli and co-workers in 1989, concerns a kind of intramolecular H-bonding strengthened by a conjugated π-system, usually in 6-, 8-, or 10-membered rings. This Review highlights the involvement of RAHB as a driving force in the synthesis of organic, coordination, and organometallic compounds, as a handy tool in the activation of covalent bonds, and in starting moieties for synthetic transformations. The unique roles of RAHB in molecular recognition and switches, E/Z isomeric resolution, racemization and epimerization of amino acids and chiral amino alcohols, solvatochromism, liquid-crystalline compounds, and in synthons for crystal engineering and polymer materials are also discussed. The Review can provide practical guidance for synthetic chemists that are interested in exploring and further developing RAHB-assisted synthesis and design of materials.
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Affiliation(s)
- Kamran T Mahmudov
- Centro de Química Estrutural, Instituto Superior Técnico, Universidade de Lisboa, Av. Rovisco Pais, 1049-001, Lisboa, Portugal. .,Department of Chemistry, Baku State University, Z. Xalilov Str. 23, Az 1148, Baku, Azerbaijan.
| | - Armando J L Pombeiro
- Centro de Química Estrutural, Instituto Superior Técnico, Universidade de Lisboa, Av. Rovisco Pais, 1049-001, Lisboa, Portugal.
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KAUR DAMANJIT, KAUR RAJINDER. Theoretical Characterization of Hydrogen Bonding Interactions between RCHO (R = H, CN, CF3, OCH3, NH2) and HOR′(R′ = H, Cl, CH3, NH2, C(O)H, C6H5). J CHEM SCI 2015. [DOI: 10.1007/s12039-015-0885-z] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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14
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Alonso M, Pinter B, Woller T, Geerlings P, De Proft F. Scrutinizing ion-π and ion-σ interactions using the noncovalent index and energy decomposition analysis. COMPUT THEOR CHEM 2015. [DOI: 10.1016/j.comptc.2014.09.033] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
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15
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Ruggiu F, Solov'ev V, Marcou G, Horvath D, Graton J, Le Questel JY, Varnek A. Individual Hydrogen-Bond Strength QSPR Modelling with ISIDA Local Descriptors: a Step Towards Polyfunctional Molecules. Mol Inform 2014; 33:477-87. [PMID: 27485986 DOI: 10.1002/minf.201400032] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2014] [Accepted: 05/15/2014] [Indexed: 11/09/2022]
Abstract
Here, we introduce new ISIDA fragment descriptors able to describe "local" properties related to selected atoms or molecular fragments. These descriptors have been applied for QSPR modelling of the H-bond basicity scale pKBHX , measured by the 1 : 1 complexation constant of a series of organic acceptors (H-bond bases) with 4-fluorophenol as the reference H-bond donor in CCl4 at 298 K. Unlike previous QSPR studies of H-bond complexation, the models based on these new descriptors are able to predict the H-bond basicity of different acceptor centres on the same polyfunctional molecule. QSPR models were obtained using support vector machine and ensemble multiple linear regression methods on a set of 537 organic compounds including 5 bifunctional molecules. They were validated with cross-validation procedures and with two external test sets. The best model displays good predictive performance on a large test set of 451 mono- and bifunctional molecules: a root-mean squared error RMSE=0.26 and a determination coefficient R(2) =0.91. It is implemented on our website (http://infochim.u-strasbg.fr/webserv/VSEngine.html) together with the estimation of its applicability domain and an automatic detection of potential H-bond acceptors.
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Affiliation(s)
- Fiorella Ruggiu
- Laboratoire de Chémoinformatique, UMR 7140 CNRS, Université de Strasbourg, 1, rue Blaise Pascal, 67000 Strasbourg, France phone:+33368851560
| | - Vitaly Solov'ev
- Institute of Physical Chemistry and Electrochemistry, Russian Academy of Sciences, Leninskiy prospect, 31a, 119991, Moscow, Russian Federation
| | - Gilles Marcou
- Laboratoire de Chémoinformatique, UMR 7140 CNRS, Université de Strasbourg, 1, rue Blaise Pascal, 67000 Strasbourg, France phone:+33368851560
| | - Dragos Horvath
- Laboratoire de Chémoinformatique, UMR 7140 CNRS, Université de Strasbourg, 1, rue Blaise Pascal, 67000 Strasbourg, France phone:+33368851560
| | - Jérôme Graton
- Université de Nantes, UMR CNRS 6230, Chimie Et Interdisciplinarité: Synthèse, Analyse, Modélisation (CEISAM), UFR Sciences & Techniques, 2, rue de la Houssinière, BP 92208, 44322 NANTES Cedex 3, France
| | - Jean-Yves Le Questel
- Université de Nantes, UMR CNRS 6230, Chimie Et Interdisciplinarité: Synthèse, Analyse, Modélisation (CEISAM), UFR Sciences & Techniques, 2, rue de la Houssinière, BP 92208, 44322 NANTES Cedex 3, France
| | - Alexandre Varnek
- Laboratoire de Chémoinformatique, UMR 7140 CNRS, Université de Strasbourg, 1, rue Blaise Pascal, 67000 Strasbourg, France phone:+33368851560.
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Stachowicz A, Korchowiec J. Bond detectors for molecular dynamics simulations, Part I: Hydrogen bonds. J Comput Chem 2013; 34:2261-9. [DOI: 10.1002/jcc.23385] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2013] [Revised: 06/27/2013] [Accepted: 06/29/2013] [Indexed: 11/10/2022]
Affiliation(s)
- Anna Stachowicz
- K. Gumiński Department of Theoretical Chemistry, Faculty of Chemistry; Jagiellonian University; R. Ingardena 3; Krakow; Poland
| | - Jacek Korchowiec
- K. Gumiński Department of Theoretical Chemistry, Faculty of Chemistry; Jagiellonian University; R. Ingardena 3; Krakow; Poland
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17
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Brogaard RY, Weckhuysen BM, Nørskov JK. Guest–host interactions of arenes in H-ZSM-5 and their impact on methanol-to-hydrocarbons deactivation processes. J Catal 2013. [DOI: 10.1016/j.jcat.2013.01.009] [Citation(s) in RCA: 54] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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18
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Giribet CG, Ruiz de Azúa MC. CLOPPA Analysis of the Molecular Polarizability and the Energy of Strong Intramolecular Hydrogen Bonds: Resonance Assisted? J Phys Chem A 2012; 116:12175-83. [DOI: 10.1021/jp309612a] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Affiliation(s)
- Claudia G. Giribet
- Department
of Physics, Facultad de Ciencias Exactas y Naturales, University of Buenos Aires, Ciudad Universitaria, IFIBA-CONICET,
Pab. I, 1428 Buenos Aires, Argentina
| | - Martín C. Ruiz de Azúa
- Department
of Physics, Facultad de Ciencias Exactas y Naturales, University of Buenos Aires, Ciudad Universitaria, IFIBA-CONICET,
Pab. I, 1428 Buenos Aires, Argentina
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Viswanathan U, Basak D, Venkataraman D, Fermann JT, Auerbach SM. Modeling Energy Landscapes of Proton Motion in Nonaqueous, Tethered Proton Wires. J Phys Chem A 2011; 115:5423-34. [DOI: 10.1021/jp1051535] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Usha Viswanathan
- Department of Chemistry and ‡Department of Chemical Engineering, University of Massachusetts Amherst, Amherst, Massachusetts 01003, United States
| | - Dipankar Basak
- Department of Chemistry and ‡Department of Chemical Engineering, University of Massachusetts Amherst, Amherst, Massachusetts 01003, United States
| | - Dhandapani Venkataraman
- Department of Chemistry and ‡Department of Chemical Engineering, University of Massachusetts Amherst, Amherst, Massachusetts 01003, United States
| | - Justin T. Fermann
- Department of Chemistry and ‡Department of Chemical Engineering, University of Massachusetts Amherst, Amherst, Massachusetts 01003, United States
| | - Scott M. Auerbach
- Department of Chemistry and ‡Department of Chemical Engineering, University of Massachusetts Amherst, Amherst, Massachusetts 01003, United States
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Schwöbel JAH, Ebert RU, Kühne R, Schüürmann G. Prediction models for the Abraham hydrogen bond donor strength: comparison of semi-empirical, ab initio
, and DFT methods. J PHYS ORG CHEM 2011. [DOI: 10.1002/poc.1834] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
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22
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Gál T, Geerlings P, De Proft F, Torrent-Sucarrat M. A new approach to local hardness. Phys Chem Chem Phys 2011; 13:15003-15. [DOI: 10.1039/c1cp21213c] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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23
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Parveen S, Chandra AK, Zeegers-Huyskens T. Theoretical investigation of the hydrogen bonding interaction between substituted phenols and simple O- and N-bases. J Mol Struct 2010. [DOI: 10.1016/j.molstruc.2010.06.001] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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24
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Roy RK, Saha S. Studies of regioselectivity of large molecular systems using DFT based reactivity descriptors. ACTA ACUST UNITED AC 2010. [DOI: 10.1039/b811052m] [Citation(s) in RCA: 77] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Torrent-Sucarrat M, De Proft F, Ayers PW, Geerlings P. On the applicability of local softness and hardness. Phys Chem Chem Phys 2009; 12:1072-80. [PMID: 20094672 DOI: 10.1039/b919471a] [Citation(s) in RCA: 85] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Global hardness and softness and the associated hard/soft acid/base (HSAB) principle have been used to explain many experimental observed reactivity patterns and these concepts can be found in textbooks of general, inorganic, and organic chemistry. In addition, local versions of these reactivity indices and principles have been defined to describe the regioselectivity of systems. In a very recent article (Chem.-Eur. J. 2008, 14, 8652), the present authors have shown that the picture of these well-known descriptors is incomplete and that the understanding of these reactivity indices must be "reinterpreted". In fact, the local softness and hardness contain the same "potential information" and they should be interpreted as the "local abundance" or "concentration" of their corresponding global properties. In this contribution, we analyze the implications of this new point of view for the applicability of these well-known descriptors when comparing two sites in three situations: two sites within one molecule, two sites in two different, but noninteracting molecules, and two sites in two different, but interacting, molecules. The implications on the HSAB principle are highlighted, leading to the discussion of the role of the electrostatic interaction.
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Affiliation(s)
- M Torrent-Sucarrat
- Member of the QCMM Alliance group Ghent/Brussels, Eenheid Algemene Chemie (ALGC), Faculteit Wetenschappen, Vrije Universiteit Brussel (VUB), Pleinlaan 2, 1050 Brussels, Belgium.
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Schwöbel J, Ebert RU, Kühne R, Schüürmann G. Prediction of the Intrinsic Hydrogen Bond Acceptor Strength of Chemical Substances from Molecular Structure. J Phys Chem A 2009; 113:10104-12. [DOI: 10.1021/jp904812b] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Affiliation(s)
- Johannes Schwöbel
- UFZ Department of Ecological Chemistry, Helmholtz Centre for Environmental Research, Permoserstrasse 15, 04318 Leipzig, Germany, and Institute for Organic Chemistry, Technical University Bergakademie Freiberg, Leipziger Strasse 29, 09596 Freiberg, Germany
| | - Ralf-Uwe Ebert
- UFZ Department of Ecological Chemistry, Helmholtz Centre for Environmental Research, Permoserstrasse 15, 04318 Leipzig, Germany, and Institute for Organic Chemistry, Technical University Bergakademie Freiberg, Leipziger Strasse 29, 09596 Freiberg, Germany
| | - Ralph Kühne
- UFZ Department of Ecological Chemistry, Helmholtz Centre for Environmental Research, Permoserstrasse 15, 04318 Leipzig, Germany, and Institute for Organic Chemistry, Technical University Bergakademie Freiberg, Leipziger Strasse 29, 09596 Freiberg, Germany
| | - Gerrit Schüürmann
- UFZ Department of Ecological Chemistry, Helmholtz Centre for Environmental Research, Permoserstrasse 15, 04318 Leipzig, Germany, and Institute for Organic Chemistry, Technical University Bergakademie Freiberg, Leipziger Strasse 29, 09596 Freiberg, Germany
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27
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Schwöbel J, Ebert RU, Kühne R, Schüürmann G. Modeling the H bond donor strength of OH, NH, and CH sites by local molecular parameters. J Comput Chem 2009; 30:1454-64. [DOI: 10.1002/jcc.21166] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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Abstract
Supramolecular chemistry has expanded dramatically in recent years both in terms of potential applications and in its relevance to analogous biological systems. The formation and function of supramolecular complexes occur through a multiplicity of often difficult to differentiate noncovalent forces. The aim of this Review is to describe the crucial interaction mechanisms in context, and thus classify the entire subject. In most cases, organic host-guest complexes have been selected as examples, but biologically relevant problems are also considered. An understanding and quantification of intermolecular interactions is of importance both for the rational planning of new supramolecular systems, including intelligent materials, as well as for developing new biologically active agents.
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Affiliation(s)
- Hans-Jörg Schneider
- Organische Chemie, Universität des Saarlandes, 66041 Saarbrücken, Deutschland.
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29
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Hammerum S. Alkyl Radicals as Hydrogen Bond Acceptors: Computational Evidence. J Am Chem Soc 2009; 131:8627-35. [DOI: 10.1021/ja901854t] [Citation(s) in RCA: 43] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Affiliation(s)
- Steen Hammerum
- Department of Chemistry, University of Copenhagen, Universitetsparken 5, DK-2100 Copenhagen, Denmark
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30
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31
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Torrent-Sucarrat M, De Proft F, Geerlings P, Ayers PW. Do the local softness and hardness indicate the softest and hardest regions of a molecule? Chemistry 2008; 14:8652-60. [PMID: 18671307 DOI: 10.1002/chem.200800570] [Citation(s) in RCA: 69] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
In this work, we will show that the largest values of the local softness and hardness do not necessarily correspond to the softest and hardest regions of the molecule, respectively. Based on our results, we will argue that it is more useful to interpret the local softness and the local hardness as functions that measure the "local abundance" or "concentration" of the corresponding global properties. This new point of view helps reveal how and when these local reactivity indices are most useful.
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Affiliation(s)
- Miquel Torrent-Sucarrat
- Eenheid Algemene Chemie (ALGC), Faculteit Wetenschappen, Vrije Universiteit Brussel (VUB), Pleinlaan 2, Brussels, Belgium.
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32
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Geerlings P, De Proft F. Conceptual DFT: the chemical relevance of higher response functions. Phys Chem Chem Phys 2008; 10:3028-42. [PMID: 18688366 DOI: 10.1039/b717671f] [Citation(s) in RCA: 192] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Abstract
In recent years conceptual density functional theory offered a perspective for the interpretation/prediction of experimental/theoretical reactivity data on the basis of a series of response functions to perturbations in the number of electrons and/or external potential. This approach has enabled the sharp definition and computation, from first principles, of a series of well-known but sometimes vaguely defined chemical concepts such as electronegativity and hardness. In this contribution, a short overview of the shortcomings of the simplest, first order response functions is illustrated leading to a description of chemical bonding in a covalent interaction in terms of interacting atoms or groups, governed by electrostatics with the tendency to polarize bonds on the basis of electronegativity differences. The second order approach, well known until now, introduces the hardness/softness and Fukui function concepts related to polarizability and frontier MO theory, respectively. The introduction of polarizability/softness is also considered in a historical perspective in which polarizability was, with some exceptions, mainly put forward in non covalent interactions. A particular series of response functions, arising when the changes in the external potential are solely provoked by changes in nuclear configurations (the "R-analogues") are also systematically considered. The main part of the contribution is devoted to third order response functions which, at first sight, may be expected not to yield chemically significant information, as turns out to be for the hyperhardness. A counterexample is the dual descriptor and its R analogue, the initial hardness response, which turns out to yield a firm basis to regain the Woodward-Hoffmann rules for pericyclic reactions based on a density-only basis, i.e. without involving the phase, sign, symmetry of the wavefunction. Even the second order nonlinear response functions are shown possibly to bear interesting information, e.g. on the local and global polarizability. Its derivatives may govern the influence of charge on the polarizability, the R-analogues being the nuclear Fukui function and the quadratic and cubic force constants. Although some of the higher order derivatives may be difficult to evaluate a comparison with the energy expansion used in spectroscopy in terms of nuclear displacements, nuclear magnetic moments, electric and magnetic fields leads to the conjecture that, certainly cross terms may contain new, intricate information for understanding chemical reactivity.
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Affiliation(s)
- P Geerlings
- Eenheid Algemene Chemie (ALGC), Faculty of Sciences, Vrije Universiteit Brussel (Free University of Brussels - VUB), Pleinlaan 2, 1050, Brussels.
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33
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Torrent-Sucarrat M, Salvador P, Solà M, Geerlings P. The hardness kernel as the basis for global and local reactivity indices. J Comput Chem 2008; 29:1064-72. [DOI: 10.1002/jcc.20866] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
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34
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Sanz P, Mó O, Yáñez M, Elguero J. Non-resonance-assisted hydrogen bonding in hydroxymethylene and aminomethylene cyclobutanones and cyclobutenones and their nitrogen counterparts. Chemphyschem 2007; 8:1950-8. [PMID: 17676647 DOI: 10.1002/cphc.200700266] [Citation(s) in RCA: 75] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
The characteristics of intramolecular hydrogen bonds (IMHB) have been systematically analyzed for a series of 32 different enols of derivatives of cyclobutane, cyclobutene, and cyclobutadiene bearing oxygen and nitrogen functionalities, at the B3LYP/6-311+G(3df,2p)//B3LYP/6-311+G(d,p) level of theory. In those cases where two tautomers (interconnected by a hydrogen shift through the IMHB) exist, tautomer a, in which the HB-donor group (YH) is attached to the four-membered ring, is less stable than tautomer b, in which is the HB-acceptor (X) is the one attached to the four-membered ring. As expected the OH group behaves as a better HB-donor than the NH(2) group and the C==NH group as a better HB-acceptor than the C==O group, although the first effect clearly dominates. Accordingly, the expected IMHB strength follows the [donor, acceptor] trend: [OH,C==NH]>[OH,C==O]>[NH(2),C==NH]>[NH(2),C==O]. Quite unexpectedly, in all those compounds in which the functionality exhibiting the IMHB is unsaturated, the IMHB is weaker than in their saturated counterparts, verifying that the primary effect on the strength of the IMHB is the structure of the sigma-skeleton of the system. In the conjugated systems investigated here, the severe constraints imposed by the four-membered ring force the HB donor and acceptor to be far apart and the IMHB is rather weak. These geometrical constraints are less severe for the saturated analogues and the IMHB becomes stronger, confirming that the characteristics of the sigma-skeleton, and not the resonance-assisted hydrogen bond (RAHB) phenomenon, are the primary contributors to the strength of the IMHB in conjugated compounds.
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Affiliation(s)
- Pablo Sanz
- Departamento de Química, C-9, Universidad Autónoma de Madrid, Cantoblanco, 28049, Madrid, Spain
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35
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Chattaraj PK, Roy DR, Geerlings P, Torrent-Sucarrat M. Local hardness: a critical account. Theor Chem Acc 2007. [DOI: 10.1007/s00214-007-0373-8] [Citation(s) in RCA: 60] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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36
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Roy D, Sunoj RB. Intramolecular nonbonding interactions in organoseleniums: Quantification using a computational thermochemical approach. ACTA ACUST UNITED AC 2007. [DOI: 10.1016/j.theochem.2007.01.022] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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37
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Sanz P, Mó O, Yañez M, Elguero J. Resonance-assisted hydrogen bonds: a critical examination. Structure and stability of the enols of beta-diketones and beta-enaminones. J Phys Chem A 2007; 111:3585-91. [PMID: 17429952 DOI: 10.1021/jp067514q] [Citation(s) in RCA: 126] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The characteristics of the intramolecular hydrogen bond (IMHB) for a series of 40 different enols of beta-diketones and their nitrogen counterparts have been systematically analyzed at the B3LYP/6-311+G(3df,2p)//B3LYP/6-311+G(d,p) level of theory. In some cases, two tautomers may exist which are interconnected by a hydrogen shift through the IMHB. In tautomer a the HB donor group (YH) is attached to the six-membered ring, while in tautomer b the HB acceptor (X) is the one that is attached to the six-membered ring. We found that changing an O to a N favors the a tautomer when the atom is endo and the contrary when it is exo, while the presence of a double bond favors the a tautomers. As expected, the OH group behaves as a better HB donor than the NH2 group and the C=NH group as a better HB acceptor than the C=O group, although the first effect clearly dominates. Accordingly, the expected IMHB strength follows the [donor, acceptor] trend: [OH, C=NH] > [OH, C=O] > [NH2, C=NH] > [NH2, C=O]. For all those compounds in which the functionality exhibiting the IMHB is unsaturated (I-type), the IMHB is much stronger than in their saturated counterparts (II-type). However, when the systems of the II-type subset, which are saturated, are constrained to have the HB donor and the HB acceptor lying in the same plane and at the same distance as in the corresponding unsaturated analogue, the IMHB is of similar or even larger strength. Hence, we conclude that, at least for this series of unsaturated compounds, the resonance-assisted hydrogen bond effect is not the primary reason behind the strength of their IMHBs, which is simply a consequence of the structure of the sigma-skeleton of the system that keeps the HB donor and the HB acceptor coplanar and closer to each other.
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Affiliation(s)
- Pablo Sanz
- Departamento de Química, C-9, Universidad Autónoma de Madrid, Cantoblanco, 28049 Madrid, Spain
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38
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Musin RN, Mariam YH. An integrated approach to the study of intramolecular hydrogen bonds in malonaldehyde enol derivatives and naphthazarin: trend in energetic versus geometrical consequences. J PHYS ORG CHEM 2006. [DOI: 10.1002/poc.1102] [Citation(s) in RCA: 84] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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