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Muzychka LV, Verves EV, Yaremchuk IO, Zinchenko AM, Shishkina SV, Semenyuta IV, Hodyna DM, Metelytsia LO, Kovalishyn V, Smolii OB. Synthesis, QSAR modeling, and molecular docking of novel fused 7-deazaxanthine derivatives as adenosine A 2A receptor antagonists. Chem Biol Drug Des 2022; 100:1025-1032. [PMID: 34651417 DOI: 10.1111/cbdd.13975] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2021] [Revised: 09/21/2021] [Accepted: 10/10/2021] [Indexed: 01/25/2023]
Abstract
Predictive QSAR models for the search of new adenosine A2A receptor antagonists were developed by using OCHEM platform. The predictive ability of the regression models has coefficient of determination q2 = 0.65-0.71 with cross-validation and independent test set. The inhibition activities of novel fused 7-deazaxanthine compounds were predicted by the developed QSAR models. A preparative method for the synthesis of pyrimido[5',4':4,5]pyrrolo[1,2-a][1,4]diazepine derivatives was developed, and 11 new adenosine A2A receptor antagonists were obtained. Preliminary investigations into the toxicology of fused 7-deazaxanthine compounds toward commonly used model organism to assess toxicity invertebrate cladoceran D. magna were also described.
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Affiliation(s)
- Liubov V Muzychka
- Department of Chemistry of Natural Compounds, V.P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry, NAS of Ukraine, Kyiv, Ukraine
| | - Evgenii V Verves
- Department of Chemistry of Natural Compounds, V.P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry, NAS of Ukraine, Kyiv, Ukraine.,Enamine Ltd, Kyiv, Ukraine
| | - Iryna O Yaremchuk
- Department of Chemistry of Natural Compounds, V.P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry, NAS of Ukraine, Kyiv, Ukraine
| | - Anna M Zinchenko
- Department of Chemistry of Natural Compounds, V.P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry, NAS of Ukraine, Kyiv, Ukraine
| | - Svitlana V Shishkina
- Department of X-ray Diffraction Studies and Quantum Chemistry, STC "Institute for Single Crystals", NAS of Ukraine, Kharkiv, Ukraine
| | - Ivan V Semenyuta
- Department of Medical and Biological Researches, V.P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry, NAS of Ukraine, Kyiv, Ukraine
| | - Diana M Hodyna
- Department of Medical and Biological Researches, V.P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry, NAS of Ukraine, Kyiv, Ukraine
| | - Larysa O Metelytsia
- Department of Medical and Biological Researches, V.P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry, NAS of Ukraine, Kyiv, Ukraine
| | - Vasyl Kovalishyn
- Department of Medical and Biological Researches, V.P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry, NAS of Ukraine, Kyiv, Ukraine
| | - Oleg B Smolii
- Department of Chemistry of Natural Compounds, V.P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry, NAS of Ukraine, Kyiv, Ukraine
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Rogalsky SP, Tarasyuk OP, Dzhuzha OV, Hodyna DM, Cherniavska TV, Hubina AV, Filonenko MM, Metelytsia LO. Evaluation of N,N-dibutyloleamide as a bifunctional additive for poly(vinyl chloride). Colloid Polym Sci 2022. [DOI: 10.1007/s00396-022-05038-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Moshynets OV, Baranovskyi TP, Iungin OS, Kysil NP, Metelytsia LO, Pokholenko I, Potochilova VV, Potters G, Rudnieva KL, Rymar SY, Semenyuta IV, Spiers AJ, Tarasyuk OP, Rogalsky SP. eDNA Inactivation and Biofilm Inhibition by the PolymericBiocide Polyhexamethylene Guanidine Hydrochloride (PHMG-Cl). Int J Mol Sci 2022; 23:ijms23020731. [PMID: 35054915 PMCID: PMC8775615 DOI: 10.3390/ijms23020731] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2021] [Revised: 01/03/2022] [Accepted: 01/03/2022] [Indexed: 01/05/2023] Open
Abstract
The choice of effective biocides used for routine hospital practice should consider the role of disinfectants in the maintenance and development of local resistome and how they might affect antibiotic resistance gene transfer within the hospital microbial population. Currently, there is little understanding of how different biocides contribute to eDNA release that may contribute to gene transfer and subsequent environmental retention. Here, we investigated how different biocides affect the release of eDNA from mature biofilms of two opportunistic model strains Pseudomonas aeruginosa ATCC 27853 (PA) and Staphylococcus aureus ATCC 25923 (SA) and contribute to the hospital resistome in the form of surface and water contaminants and dust particles. The effect of four groups of biocides, alcohols, hydrogen peroxide, quaternary ammonium compounds, and the polymeric biocide polyhexamethylene guanidine hydrochloride (PHMG-Cl), was evaluated using PA and SA biofilms. Most biocides, except for PHMG-Cl and 70% ethanol, caused substantial eDNA release, and PHMG-Cl was found to block biofilm development when used at concentrations of 0.5% and 0.1%. This might be associated with the formation of DNA–PHMG-Cl complexes as PHMG-Cl is predicted to bind to AT base pairs by molecular docking assays. PHMG-Cl was found to bind high-molecular DNA and plasmid DNA and continued to inactivate DNA on surfaces even after 4 weeks. PHMG-Cl also effectively inactivated biofilm-associated antibiotic resistance gene eDNA released by a pan-drug-resistant Klebsiella strain, which demonstrates the potential of a polymeric biocide as a new surface-active agent to combat the spread of antibiotic resistance in hospital settings.
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Affiliation(s)
- Olena V. Moshynets
- Biofilm Study Group, Department of Cell Regulatory Mechanisms, Institute of Molecular Biology and Genetics, National Academy of Sciences of Ukraine, 150 Zabolotnoho Str., 03680 Kiev, Ukraine; (O.S.I.); (I.P.); (S.Y.R.)
- Correspondence: (O.V.M.); (S.P.R.)
| | - Taras P. Baranovskyi
- Department of Dermatovenerology, Allergology, Clinical and Laboratory Immunology, Shupyk National Healthcare University of Ukraine, 9 Dorohozhytska Str., 03680 Kiev, Ukraine;
- Kyiv Regional Clinical Hospital, 1 Baggovutivska Street, 04107 Kiev, Ukraine; (V.V.P.); (K.L.R.)
| | - Olga S. Iungin
- Biofilm Study Group, Department of Cell Regulatory Mechanisms, Institute of Molecular Biology and Genetics, National Academy of Sciences of Ukraine, 150 Zabolotnoho Str., 03680 Kiev, Ukraine; (O.S.I.); (I.P.); (S.Y.R.)
- Department of Biotechnology, Leather and Fur, Faculty of Chemical and Biopharmaceutical Technologies, Kyiv National University of Technologies and Design, Nemyrovycha-Danchenka Street, 2, 01011 Kiev, Ukraine
| | - Nadiia P. Kysil
- National Children’s Specialized Hospital “Okhmatdyt”, 28/1 Chornovola Str., 01135 Kiev, Ukraine;
| | - Larysa O. Metelytsia
- V. P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry, National Academy of Science of Ukraine, 50 Kharkivske Schose, 01135 Kiev, Ukraine; (L.O.M.); (I.V.S.); (O.P.T.)
| | - Ianina Pokholenko
- Biofilm Study Group, Department of Cell Regulatory Mechanisms, Institute of Molecular Biology and Genetics, National Academy of Sciences of Ukraine, 150 Zabolotnoho Str., 03680 Kiev, Ukraine; (O.S.I.); (I.P.); (S.Y.R.)
| | - Viktoria V. Potochilova
- Kyiv Regional Clinical Hospital, 1 Baggovutivska Street, 04107 Kiev, Ukraine; (V.V.P.); (K.L.R.)
| | - Geert Potters
- Antwerp Maritime Academy, Noordkasteel Oost 6, 2030 Antwerp, Belgium;
- Department of Bioscience Engineering, University of Antwerp, Groenenborgerlaan 171, 2020 Antwerp, Belgium
| | - Kateryna L. Rudnieva
- Kyiv Regional Clinical Hospital, 1 Baggovutivska Street, 04107 Kiev, Ukraine; (V.V.P.); (K.L.R.)
| | - Svitlana Y. Rymar
- Biofilm Study Group, Department of Cell Regulatory Mechanisms, Institute of Molecular Biology and Genetics, National Academy of Sciences of Ukraine, 150 Zabolotnoho Str., 03680 Kiev, Ukraine; (O.S.I.); (I.P.); (S.Y.R.)
| | - Ivan V. Semenyuta
- V. P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry, National Academy of Science of Ukraine, 50 Kharkivske Schose, 01135 Kiev, Ukraine; (L.O.M.); (I.V.S.); (O.P.T.)
| | - Andrew J. Spiers
- School of Applied Sciences, Abertay University, Bell Street, Dundee DD1 1HG, UK;
| | - Oksana P. Tarasyuk
- V. P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry, National Academy of Science of Ukraine, 50 Kharkivske Schose, 01135 Kiev, Ukraine; (L.O.M.); (I.V.S.); (O.P.T.)
| | - Sergiy P. Rogalsky
- V. P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry, National Academy of Science of Ukraine, 50 Kharkivske Schose, 01135 Kiev, Ukraine; (L.O.M.); (I.V.S.); (O.P.T.)
- Correspondence: (O.V.M.); (S.P.R.)
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Metelytsia LO, Trush MM, Kovalishyn VV, Hodyna DM, Kachaeva MV, Brovarets VS, Pilyo SG, Sukhoveev VV, Tsyhankov SA, Blagodatnyi VM, Semenyuta IV. 1,3-Oxazole derivatives of cytisine as potential inhibitors of glutathione reductase of Candida spp.: QSAR modeling, docking analysis and experimental study of new anti-Candida agents. Comput Biol Chem 2021; 90:107407. [DOI: 10.1016/j.compbiolchem.2020.107407] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2020] [Revised: 09/01/2020] [Accepted: 10/16/2020] [Indexed: 11/16/2022]
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Semenyuta IV, Kobzar OL, Hodyna DM, Brovarets VS, Metelytsia LO. In silico study of 4-phosphorylated derivatives of 1,3-oxazole as inhibitors of Candida albicans fructose-1,6-bisphosphate aldolase II. Heliyon 2019; 5:e01462. [PMID: 31011642 PMCID: PMC6460381 DOI: 10.1016/j.heliyon.2019.e01462] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2018] [Revised: 01/16/2019] [Accepted: 03/27/2019] [Indexed: 02/08/2023] Open
Abstract
In this study, the synthesis, in vitro anti-Candida activity and molecular modeling of 4-phosphorylated derivatives of 1,3-oxazole as inhibitors of Candida albicans fructose-1,6-bisphosphate aldolase (FBA-II) are demonstrated and discussed. Significant similarity of the primary and secondary structure, binding sites and active sites of FBA-II C. albicans and Mycobacterium tuberculosis are established. FBA-II C. albicans inhibitors contained 1,3-oxazole-4-phosphonates moiety are created by analogy to inhibitors FBA-II M. tuberculosis. The experimental studies of the anti-Candida activity of the designed and synthesized compounds have shown their high activity against standard strain and its C. albicans fluconazole resistant clinical isolate. It was hypothesized that the growth suppression of fluconazole-resistant С. albicans strain may be due to the inhibition of aldolase fructose-1,6-bisphosphate. A qualitative homology 3D model of the C. albicans FBA-II was created using SWISS-MODEL server. The probable mechanism of FBA-II inhibition by studied 4-phosphorylated derivatives was shown using molecular docking. The main role of amino acid residues His110, His226, Gly227, Leu248, Val238, Asp144, Lys230, Glu147, Gly227, Ala112, Leu145 and catalytic zinc atom in the formation of stable ligand-protein complexes with ΔG = -6.89, -7.2, -7.16, -7.5, -8.0, -7.9 kcal/mol was shown. Thus, the positive results obtained in the work were demonstrated the promise of using the proposed homology 3D model of the C. albicans FBA-II as the target for the search and development of new anti-Candida agents against azole-resistant fungal pathogens. Designed and studied 4-phosphorylated derivatives of 1,3-oxazole having a direct inhibiting FBA-II molecular mechanism of action can be used as perspective drug-candidates against resistant C. albicans strains.
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Affiliation(s)
- Ivan V. Semenyuta
- Department of Medical and Biological Researches, V.P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Sciences of Ukraine, Kyiv, Ukraine
| | - Oleksandr L. Kobzar
- Department of Bioorganic Mechanisms, V.P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Sciences of Ukraine, Kyiv, Ukraine
| | - Diana M. Hodyna
- Department of Medical and Biological Researches, V.P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Sciences of Ukraine, Kyiv, Ukraine
| | - Volodymyr S. Brovarets
- Department of Chemistry of Bioactive Nitrogen Containing Heterocyclic Bases, V.P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Sciences of Ukraine, Kyiv, Ukraine
| | - Larysa O. Metelytsia
- Department of Medical and Biological Researches, V.P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Sciences of Ukraine, Kyiv, Ukraine
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Kachaeva MV, Hodyna DM, Semenyuta IV, Pilyo SG, Prokopenko VM, Kovalishyn VV, Metelytsia LO, Brovarets VS. Design, synthesis and evaluation of novel sulfonamides as potential anticancer agents. Comput Biol Chem 2018; 74:294-303. [PMID: 29698921 DOI: 10.1016/j.compbiolchem.2018.04.006] [Citation(s) in RCA: 39] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2018] [Revised: 04/05/2018] [Accepted: 04/08/2018] [Indexed: 11/25/2022]
Abstract
Based on modern literature data about biological activity of E7010 derivatives, a series of new sulfonamides as potential anticancer drugs were rationally designed by QSAR modeling methods Сlassification learning QSAR models to predict the tubulin polymerization inhibition activity of novel sulfonamides as potential anticancer agents were created using the Online Chemical Modeling Environment (OCHEM) and are freely available online on OCHEM server at https://ochem.eu/article/107790. A series of sulfonamides with predicted activity were synthesized and tested against 60 human cancer cell lines with growth inhibition percent values. The highest antiproliferative activity against leukemia (cell lines K-562 and MOLT-4), non-small cell lung cancer (cell line NCI-H522), colon cancer (cell lines NT29 and SW-620), melanoma (cell lines MALME-3M and UACC-257), ovarian cancer (cell lines IGROV1 and OVCAR-3), renal cancer (cell lines ACHN and UO-31), breast cancer (cell line T-47D) was found for compounds 4-9. According to the docking results the compounds 4-9 induce cytotoxicity by the disruption of the microtubule dynamics by inhibiting tubulin polymerization via effective binding into colchicine domain, similar the E7010.
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Affiliation(s)
- Maryna V Kachaeva
- Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Sciences of Ukraine, 1, Murmanskaya Str, Kyiv 02094, Ukraine.
| | - Diana M Hodyna
- Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Sciences of Ukraine, 1, Murmanskaya Str, Kyiv 02094, Ukraine
| | - Ivan V Semenyuta
- Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Sciences of Ukraine, 1, Murmanskaya Str, Kyiv 02094, Ukraine
| | - Stepan G Pilyo
- Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Sciences of Ukraine, 1, Murmanskaya Str, Kyiv 02094, Ukraine
| | - Volodymyr M Prokopenko
- Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Sciences of Ukraine, 1, Murmanskaya Str, Kyiv 02094, Ukraine
| | - Vasyl V Kovalishyn
- Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Sciences of Ukraine, 1, Murmanskaya Str, Kyiv 02094, Ukraine
| | - Larysa O Metelytsia
- Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Sciences of Ukraine, 1, Murmanskaya Str, Kyiv 02094, Ukraine
| | - Volodymyr S Brovarets
- Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Sciences of Ukraine, 1, Murmanskaya Str, Kyiv 02094, Ukraine
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Trush MM, Kovalishyn VV, Blagodatnyi VM, Brovarets VS, Pilyo SG, Prokopenko VM, Hodyna DM, Metelytsia LO. QSAR studies and antimicrobial potential of 1,3-thiazolylphosphonium salts. Ukr Biochem J 2016; 88:57-65. [PMID: 29235765 DOI: 10.15407/ubj88.04.057] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
Abstract
The regression QSAR models were built to predict the antimicrobial activity of new thiazole derivatives. Compounds with high predicting activity were synthesized and evaluated against Gram-positive and Gram-negative bacteria and fungi. 1,3-Thiazole-4-ylphosphonium salts 4 and 5 displayed good antibacterial properties and high antifungal activity. The predictions are in a good agreement with the experiment results, which indicate the good predictive power of the created QSAR models.
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Zhyrnov VV, Metelytsia LO, Charochkina LL, Mohylevich SI, Haviĭ VM. [Effect of forskolin and quinacrine on leukocyte functions under the effect of low-dose radiation]. Ukr Biokhim Zh (1999) 2003; 75:54-8. [PMID: 14574738] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 04/27/2023]
Abstract
The adenylate cyclase and phospholipase A2 incorporation in the functional responses as well as lipid peroxidation processes and glutathione system homeostasis of animal leukocytes to small doses of ionizing radiation (1-100 mGy) have been estimated. The cells were irradiated by introduction of radioactive isotope 14C-leucine into the incubation medium. It is established that the ionizing radiation has different effects on the modification of cellular functions by the agents, which change adenylate cyclase and phospholipase A2 activity. Neutralization of stimulative irradiation effect on chemokinesis of polymorphonuclear leukocytes by quinacrine (the inhibitor of phospholipase A2) indicates for certain, that metabolism of eicosanoids takes immediate part in the cell response to ionizing radiation. Apparently, adenylate cyclase has no influence on this process, where at indicates the lack of influence of forskolin (the stimulator of adenylate cyclase) on the spontaneous motility, and on the radiation action on this leukocyte function. Rosette forming ability of lymphocytes is regulated by both enzymes because it is modified both by the inhibitor of phospholipase A2, and by the adenylate cyclase stimulant. In this case it is impossible to exclude the action of ionizing radiation both through the adenylate cyclase cascade, and through the eicosanoid metabolism. In all the concentration range the radionuclides do not affect the studied biochemical indexes of the cell, but change the action of the modifiers.
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Affiliation(s)
- V V Zhyrnov
- Institute of Bioorganic Chemistry and Petrochemistry, NAS of Ukraine, Kyiv
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