Design, synthesis, and biological evaluation of some methyl 2-(1H-pyrazol-4-ylthio)-1,2,3,4-tetrahydro-6-methylpyrimidine-5-carboxylate derivatives as potential DHFR inhibitors
Keywords:
antibacterial, biginelli reaction, DHFR, molecular docking, pyrimidinesAbstract
Drug-resistant bacteria pose an increasingly serious threat to mankind all over the world. However, the currently available clinical treatments do not meet the urgent demand. Therefore, it is desirable to find new targets and inhibitors to overcome the problems of antibiotic resistance. Dihydrofolate reductase (DHFR) is an important enzyme required to maintain bacterial growth, and hence inhibitors of DHFR have been proven as effective agents for treating bacterial infections. In the present work, we have designed some methyl 2-(1H-pyrazol-4-ylthio)-1,2,3,4-tetrahydro-6-methylpyrimidine-5-carboxylate derivatives as potential DHFR inhibitors through rational drug design approach. The designed derivatives were screened through Lipinski rule, Veber’s rule, ADMET analysis, drug-likeness properties, and molecular docking. All the compounds demonstrated more potent activity than Ampicillin against both gram-positive and gram-negative bacteria. Most of the compounds were more or equipotent than Chloramphenicol and Ciprofloxacin. Compound A7 was sensitive at 25 µg/mL against Escherichia coli, Pseudomonas aeruginosa, and Staphylococcus aureus whereas compound A20 was sensitive to all gram +ve and –ve bacteria at same concentration. Compound A16 was sensitive at 50 µg/mL against all the bacteria. In antifungal activity, compound A7 exhibited MFCs of 100 µg/mL against Candida albicans, Aspergillus niger, and Aspergillus clavatus which is same as Nystatin.
Downloads
References
Ahmed Elkanzi, N.A., 2020. Synthesis and Biological Activities of Some Pyrimidine Derivatives: A Review. Orient. J. Chem. 36, 1001–1015. https://doi.org/10.13005/ojc/360602
Anwar, K., Hussein, D., Salih, J., 2020. Antimicrobial susceptibility testing and phenotypic detection of MRSA isolated from diabetic foot infection. Int. J. Gen. Med. 13, 1349–1357. https://doi.org/10.2147/IJGM.S278574
Banerjee, P., Eckert, A.O., Schrey, A.K., Preissner, R., 2018. ProTox-II: A webserver for the prediction of toxicity of chemicals. Nucleic Acids Res. 46, W257–W263. https://doi.org/10.1093/nar/gky318
Bhat, A.R., Dongre, R.S., Naikoo, G.A., Hassan, I.U., Ara, T., 2017. Proficient synthesis of bioactive annulated pyrimidine derivatives: A review. J. Taibah Univ. Sci. 11, 1047–1069. https://doi.org/10.1016/j.jtusci.2017.05.005
Chaudhari, R.N., Khan, S.L., Chaudhary, R.S., Jain, S.P., Siddiqui, F.A., 2020. ?-Sitosterol: Isolation from Muntingia Calabura Linn Bark Extract, Structural Elucidation And Molecular Docking Studies As Potential Inhibitor of SARS-CoV-2 Mpro (COVID-19). Asian J. Pharm. Clin. Res. 13, 204–209. https://doi.org/10.22159/ajpcr.2020.v13i5.37909
Daina, A., Michielin, O., Zoete, V., 2017. SwissADME: A free web tool to evaluate pharmacokinetics, drug-likeness and medicinal chemistry friendliness of small molecules. Sci. Rep. 7. https://doi.org/10.1038/srep42717
Dallakyan, S., Olson, A.J., 2015. Small-molecule library screening by docking with PyRx. Methods Mol. Biol. 1263, 243–250. https://doi.org/10.1007/978-1-4939-2269-7_19
Durga devi, D., Manivarman, S., Subashchandrabose, S., 2017. Synthesis, molecular characterization of pyrimidine derivative: A combined experimental and theoretical investigation. Karbala Int. J. Mod. Sci. 3, 18–28. https://doi.org/10.1016/j.kijoms.2017.01.001
He, J., Qiao, W., An, Q., Yang, T., Luo, Y., 2020. Dihydrofolate reductase inhibitors for use as antimicrobial agents. Eur. J. Med. Chem. 195. https://doi.org/10.1016/j.ejmech.2020.112268
Indora, N., Kaushik, D., 2015. Design , development and evaluation of ethosomal gel of fluconazole for topical fungal infection. Int. J. Eng. Sci. Invent. Res. Dev. I, 280–306.
Jouhar, L., Jaafar, R.F., Nasreddine, R., Itani, O., Haddad, F., Rizk, N., Hoballah, J.J., 2020. Microbiological profile and antimicrobial resistance among diabetic foot infections in Lebanon. Int. Wound J. 17, 1764–1773. https://doi.org/10.1111/iwj.13465
Khan, A., Unnisa, A., Sohel, M., Date, M., Panpaliya, N., Saboo, S.G., Siddiqui, F., Khan, S., 2022. Investigation of phytoconstituents of Enicostemma littorale as potential glucokinase activators through molecular docking for the treatment of type 2 diabetes mellitus. Silico Pharmacol. 10. https://doi.org/10.1007/s40203-021-00116-8
Khan, S., Kale, M., Siddiqui, F., Nema, N., 2021. Novel pyrimidine-benzimidazole hybrids with antibacterial and antifungal properties and potential inhibition of SARS-CoV-2 main protease and spike glycoprotein. Digit. Chinese Med. 4, 102–119. https://doi.org/10.1016/j.dcmed.2021.06.004
Khan, S.L., Siddiqui, F.A., Jain, S.P., Sonwane, G.M., 2020. Discovery of Potential Inhibitors of SARS-CoV-2 (COVID-19) Main Protease (Mpro) from Nigella Sativa (Black Seed) by Molecular Docking Study. Coronaviruses 2, 384–402. https://doi.org/10.2174/2666796701999200921094103
Khan, S.L., Siddiqui, F.A., Shaikh, M.S., Nema, N. V., Shaikh, A.A., 2021. Discovery of potential inhibitors of the receptor-binding domain (RBD) of pandemic disease-causing SARS-CoV-2 Spike Glycoprotein from Triphala through molecular docking. Curr. Chinese Chem. 01. https://doi.org/10.2174/2666001601666210322121802
Khan, Sharuk L., Sonwane, G.M., Siddiqui, F.A., Jain, S.P., Kale, M.A., Borkar, V.S., 2020. Discovery of Naturally Occurring Flavonoids as Human Cytochrome P450 (CYP3A4) Inhibitors with the Aid of Computational Chemistry. Indo Glob. J. Pharm. Sci. 10, 58–69. https://doi.org/10.35652/igjps.2020.10409
Kim, S., Chen, J., Cheng, T., Gindulyte, A., He, J., He, S., Li, Q., Shoemaker, B.A., Thiessen, P.A., Yu, B., Zaslavsky, L., Zhang, J., Bolton, E.E., 2021. PubChem in 2021: New data content and improved web interfaces. Nucleic Acids Res. 49, D1388–D1395. https://doi.org/10.1093/nar/gkaa971
Krzywinski, M., Altman, N., 2013. Points of significance: Significance, P values and t-tests. Nat. Methods 10, 1041–1042. https://doi.org/10.1038/nmeth.2698
Lipinski, C.A., Lombardo, F., Dominy, B.W., Feeney, P.J., 2012. Experimental and computational approaches to estimate solubility and permeability in drug discovery and development settings. Adv. Drug Deliv. Rev. https://doi.org/10.1016/j.addr.2012.09.019
Liu, Q., Meng, X., Li, Y., Zhao, C.N., Tang, G.Y., Li, H. Bin, 2017. Antibacterial and antifungal activities of spices. Int. J. Mol. Sci. 18. https://doi.org/10.3390/ijms18061283
Loi, V. Van, Huyen, N.T.T., Busche, T., Tung, Q.N., Gruhlke, M.C.H., Kalinowski, J., Bernhardt, J., Slusarenko, A.J., Antelmann, H., 2019. Staphylococcus aureus responds to allicin by global S-thioallylation – Role of the Brx/BSH/YpdA pathway and the disulfide reductase MerA to overcome allicin stress. Free Radic. Biol. Med. 139, 55–69. https://doi.org/10.1016/j.freeradbiomed.2019.05.018
Manohar, P., Loh, B., Athira, S., Nachimuthu, R., Hua, X., Welburn, S.C., Leptihn, S., 2020. Secondary Bacterial Infections During Pulmonary Viral Disease: Phage Therapeutics as Alternatives to Antibiotics? Front. Microbiol. 11. https://doi.org/10.3389/fmicb.2020.01434
Marchese, A., Barbieri, R., Sanches-Silva, A., Daglia, M., Nabavi, S.F., Jafari, N.J., Izadi, M., Ajami, M., Nabavi, S.M., 2016. Antifungal and antibacterial activities of allicin: A review. Trends Food Sci. Technol. 52, 49–56. https://doi.org/10.1016/j.tifs.2016.03.010
Mittersteiner, M., Farias, F.F.S., Bonacorso, H.G., Martins, M.A.P., Zanatta, N., 2021. Ultrasound-assisted synthesis of pyrimidines and their fused derivatives: A review. Ultrason. Sonochem. 79. https://doi.org/10.1016/j.ultsonch.2021.105683
Mohana Roopan, S., Sompalle, R., 2016. Synthetic chemistry of pyrimidines and fused pyrimidines: A review. Synth. Commun. 46, 645–672. https://doi.org/10.1080/00397911.2016.1165254
Murali, T.S., Kavitha, S., Spoorthi, J., Bhat, D. V., Prasad, A.S.B., Upton, Z., Ramachandra, L., Acharya, R. V., Satyamoorthy, K., 2014. Characteristics of microbial drug resistance and its correlates in chronic diabetic foot ulcer infections. J. Med. Microbiol. 63, 1377–1385. https://doi.org/10.1099/jmm.0.076034-0
Nerkar, A.U., 2021. Use of Pyrimidine and Its Derivative in Pharmaceuticals: A Review. J. Adv. Chem. Sci. 7, 729–732. https://doi.org/10.30799/jacs.239.21070203
Qin, H.L., Zhang, Z.W., Lekkala, R., Alsulami, H., Rakesh, K.P., 2020. Chalcone hybrids as privileged scaffolds in antimalarial drug discovery: A key review. Eur. J. Med. Chem. 193. https://doi.org/10.1016/j.ejmech.2020.112215
Rahman, M., Hasan, M.F., Das, R., Khan, A., 2009. The Determination of Antibacterial and Antifungal Activities of Polygonum hydropiper (L.) Root Extract. Adv. Biol. Res. (Rennes). 3, 53–56.
Rappé, A.K., Casewit, C.J., Colwell, K.S., Goddard, W.A., Skiff, W.M., 1992. UFF, a Full Periodic Table Force Field for Molecular Mechanics and Molecular Dynamics Simulations. J. Am. Chem. Soc. 114, 10024–10035. https://doi.org/10.1021/ja00051a040
Reta, A., Bitew Kifilie, A., Mengist, A., 2019. Bacterial Infections and Their Antibiotic Resistance Pattern in Ethiopia: A Systematic Review. Adv. Prev. Med. 2019, 1–10. https://doi.org/10.1155/2019/4380309
San Diego: Accelrys Software Inc., 2012. Discovery Studio Modeling Environment, Release 3.5. Accelrys Softw. Inc.
Sanchez, E., Doron, S., 2016. Bacterial Infections: Overview, in: International Encyclopedia of Public Health. pp. 196–205. https://doi.org/10.1016/B978-0-12-803678-5.00030-8
Sánchez-Sánchez, M., Cruz-Pulido, W.L., Bladinieres-Cámara, E., Alcalá-Durán, R., Rivera-Sánchez, G., Bocanegra-García, V., 2017. Bacterial Prevalence and Antibiotic Resistance in Clinical Isolates of Diabetic Foot Ulcers in the Northeast of Tamaulipas, Mexico. Int. J. Low. Extrem. Wounds 16, 129–134. https://doi.org/10.1177/1534734617705254
Shen, Z.L., Xu, X.P., Ji, S.J., 2010. Brønsted base-catalyzed one-pot three-component Biginelli-type reaction: An efficient synthesis of 4,5,6-triaryl-3,4-dihydropyrimidin-2(1H)-one and mechanistic study. J. Org. Chem. 75, 1162–1167. https://doi.org/10.1021/jo902394y
Shntaif, A.H., Khan, S., Tapadiya, G., Chettupalli, A., Saboo, S., Shaikh, M.S., Siddiqui, F., Amara, R.R., 2021. Rational drug design, synthesis, and biological evaluation of novel N-(2-arylaminophenyl)-2,3-diphenylquinoxaline-6-sulfonamides as potential antimalarial, antifungal, and antibacterial agents. Digit. Chinese Med. 4, 290–304. https://doi.org/10.1016/j.dcmed.2021.12.004
Siddiqui, F.A., Khan, S.L., Marathe, R.P., Nema, N. V., 2021. Design, Synthesis, and In Silico Studies of Novel N-(2-Aminophenyl)-2,3- Diphenylquinoxaline-6-Sulfonamide Derivatives Targeting Receptor- Binding Domain (RBD) of SARS-CoV-2 Spike Glycoprotein and their Evaluation as Antimicrobial and Antimalarial Agents. Lett. Drug Des. Discov. 18, 915–931. https://doi.org/10.2174/1570180818666210427095203
Songsungthong, W., Prasopporn, S., Bohan, L., Srimanote, P., Leartsakulpanich, U., Yongkiettrakul, S., 2021. A novel bicyclic 2,4-diaminopyrimidine inhibitor of Streptococcus suis dihydrofolate reductase. PeerJ 9. https://doi.org/10.7717/peerj.10743
Verma, V., Joshi, C.P., Agarwal, A., Soni, S., Kataria, U., 2020. A Review on Pharmacological Aspects of Pyrimidine Derivatives. J. Drug Deliv. Ther. 10, 358–361. https://doi.org/10.22270/jddt.v10i5.4295
Wróbel, A., Arciszewska, K., Maliszewski, D., Drozdowska, D., 2020. Trimethoprim and other nonclassical antifolates an excellent template for searching modifications of dihydrofolate reductase enzyme inhibitors. J. Antibiot. (Tokyo). 73, 5–27. https://doi.org/10.1038/s41429-019-0240-6
Published
How to Cite
Issue
Section
Copyright (c) 2022 International journal of health sciences

This work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.
Articles published in the International Journal of Health Sciences (IJHS) are available under Creative Commons Attribution Non-Commercial No Derivatives Licence (CC BY-NC-ND 4.0). Authors retain copyright in their work and grant IJHS right of first publication under CC BY-NC-ND 4.0. Users have the right to read, download, copy, distribute, print, search, or link to the full texts of articles in this journal, and to use them for any other lawful purpose.
Articles published in IJHS can be copied, communicated and shared in their published form for non-commercial purposes provided full attribution is given to the author and the journal. Authors are able to enter into separate, additional contractual arrangements for the non-exclusive distribution of the journal's published version of the work (e.g., post it to an institutional repository or publish it in a book), with an acknowledgment of its initial publication in this journal.
This copyright notice applies to articles published in IJHS volumes 4 onwards. Please read about the copyright notices for previous volumes under Journal History.








