Research Article
Open Access Peer-reviewed

QSAR Study of 2-benzylthiopyrimidine Derivatives with Antibacterial Activity on Staphylococcus Aureus

Amon Benjamine ASSOMA1,, Siomenan COULIBALI1, Tchambaga Etienne CAMARA1, Patrick-Armand ACHI1, Ane ADJOU1

1Laboratoire de Constitution et Réaction de la Matière, UFR Sciences des Structures de la Matière et Technologie, Université Félix Houphouët-Boigny de Cocody, 22 BP 582 Abidjan 22, Côte d’Ivoire

Journal of Materials Physics and Chemistry. 2022, 10(2), 36-42. DOI: 10.12691/jmpc-10-2-1
Received July 22, 2022; Revised August 24, 2022; Accepted September 05, 2022

Abstract

This work presents a Quantitative Structure-Activity Relationship (QSAR) study of twenty new 2-benzylthioprymidine derivatives that possess antibacterial activity. The antibacterial activity of these compounds was evaluated on a multi-resistant Staphylococcus aureus (S. aureus) strain. The concentrations that inhibit 50% of S. aureus (IC50) were determined as antibacterial parameters by the microdilution method. The results revealed that all the synthesized compounds showed significant antibacterial activity against the tested germ. A mathematical relationship was established by Non-Linear Multiple Regression (NLMR) between the potential inhibitory concentration (PIC50) of the twenty compounds and physicochemical parameters such as the Partition coefficient (LogP), the Molar Volume (MV), the Ionisation Potential (IP), the Electronic Affinity (EA) and the Carbon-Sulfur bond length [l(C-S)]. This mathematical relationship will be used to predict the antibacterial activity of other 2-benzylthioprymidine derivatives.

Keywords:

partition coefficient, molar volume, QSAR, antibacterial activity
[1]  Iqbal A., Anna Z. B., “Antimicrobial and Phytochemical Staties on forty-five Indian medicinal plants against multi drugs resistance Human pathogen”, J. Ethnopharmacologie, 74. 103-123. 2001.View Article
 
[2]  Gangoue PJ., Thèse de Doctorat es sciences en biochimie. Université Liège. Belgique, Caractérisation des Bétalactamases et leur inhibition par les extraits de plantes médicinales 2007, 104.
 
[3]  Oliveira DC, Tomasz A, Lencastre H., “Secrets of success of a human pathogen: molecular evolution of pandemic clones of meticillin-resistant Staphylococcus aureus, Lancet Infect Dis, 2. 180-9. 2002.View Article
 
[4]  Kuroda M, Ohta T, Uchiyama I., “Whole genome sequencing of meticillin-resistant Staphylococcus aureus, Lancet, 357, 1225-40. 2001.View Article
 
[5]  Bukharie HA, Abdelhadi MS, Saeed IA. “Emergence of methicillinresistant Staphylococcus aureus as a community pathogen”, Diagn Microbiol Infect Dis; 40. 1-4. 2001.View Article
 
[6]  Ito T, Okuma K, Ma XX., “Insights on antibiotic resistance of Staphylococcus aureus from its whole genome: genomic island SCC”, Drug Resist Updat; 6. 41-52. 2003.View Article
 
[7]  Patrick-Armand, A., Siomenan, C., Doumade, Z., Adéyolé, T., Eric, B., Daouda, T., Drissa, S. and Ané, A., “Synthesis and Antibacterial Activities of New 2-(Benzylthio)pyrimidines and 2-(Benzimidazolylmethylthio)pyrimidines Derivatives”. Open Journal of Medicinal Chemistry, 11. 27-39. 2021.View Article
 
[8]  Achi Patrick-A., Siomenan, C., Doumade, Z., Adéyolé, T., Eric, B., Souleymane, C., Daouda, B., Drissa, S. and Ane, A., “Synthesis of new n-alkyl-2-benzylthiopyrimidine derivatives and concentrations influence on multiresistant bacteria growth”. J. Mar. Chim. Heterocycl., 20 (4). 1-14. 2021.
 
[9]  Clercq, E. D., Sakuma, T., Baba, M., Pauwels, R., Balzarini, J., Rosenberg, I., and Holý, A., “Antiviral activity of phosphonylmethoxyalkyl derivatives of purine and pyrimidines”. Antiviral Research, 8 (5-6). 261-272. 1987.View Article
 
[10]  Rajanarendar, E., Reddy, M.N., Murthy, K.R., Reddy, K.G., Raju, S., Srinivas, M., Praveen, B., and Rao, M.S., “Synthesis, antimicrobial, and mosquito larvicidal activity of 1-aryl-4-methyl-3,6-bis-(5-methylisoxazol-3-yl)-2-thioxo-2,3,6,10b-tetrahydro1H-pyrimido[5,4-c]quinolin-5-ones”. Bioorganic & Medicinal Chemistry Letters. 20 (20). 6052-6055. 2010.View Article  PubMed
 
[11]  Virsodia, V., Pissurlenkar, R. R. S., Manvar, D., Dholakia, C., Adlakha, P., Shah, A., and Coutinho, E. C., “Synthesis, screening for antitubercular activity and 3D-QSAR studies of substituted N-phenyl-6-methyl-2-oxo-4-phenyl-1,2,3,4-tetrahydro-pyrimidine-5-carboxamides”. European Journal of Medicinal Chemistry, 43 (10). 2103–2115. 2008.View Article  PubMed
 
[12]  Regnier, G., Canevar, L., Le, R. J., Douarec, J. C., Halstop, S., Daussy, J.,”Triphenylpropylpiperazine Derivatives as New Po tent Analgetic Substances”. J. Med. Chem, 15. 295-301. 1972.View Article  PubMed
 
[13]  Farghaly, A.M., AboulWafa, O.M., Elshaier, Y.A.M., “Design, synthesis, and antihypertensive activity of new pyrimidine derivatives endowing new pharmacophores”. Med Chem Res, 28. 360-379. 2019.View Article
 
[14]  Suguira, K., Schmid, A. F., Schmid, M. M.; Brown, F. G., Cancer Chemother. Rep., 23 (1). 231-233. 1973.View Article
 
[15]  Fante, B., Jin, J., Chaudhary, A. S., Tai, P. C., Wang, B. “Design, synthesis, and biological evaluation of pyrimidine analogs as SecA inhibitors”, Med Chem Res, 30. 1334-1340. 2021.View Article
 
[16]  Fante, B., Jin, J., Phang, C. T. and Binghe, W., “Synthesis and biological evaluation of novel 4-oxo-5-cyano thiouracil derivatives as SecA inhibitors”, Heterocyclic Communications, 26 (1). 76-83. 2020.View Article
 
[17]  Suresh, M., Sridevi, G., Nuthangi, S., Palakondu, L., Sreekanth, B. J., “Synthesis, antibacterial and antifungal activity of novel benzothiazole pyrimidine derivatives”, Arabian Journal of Chemistry, 9 (5). 681-687. 2016.View Article
 
[18]  Shigeta, S., Mori, S., Watanabe, F., Takahashi, K., Nagata, T., Koike, N., Saneyoshi, M. “Synthesis and Antiherpesvirus Activities of 5-Alkyl-2-Thiopyrimidine Nucleoside Analogues”. Antiviral Chemistry and Chemotherapy. 13 (2). 67-82. 2002.View Article  PubMed
 
[19]  Mokale, S.N., Shinde, S.S., Elgire, R.D., Sangshetti, J.N., Shinde, D.B., ‘Synthesis and anti-inflammatory activity of some 3-(4,6-disubtituted-2 -thioxo-1,2,3,4-tetrahydropyrimidin-5-yl) propanoic acid derivatives”, Bioorganic & Medicinal Chemistry Letters, 20, 4424-4426. 2010.View Article  PubMed
 
[20]  Pathak, A. K., Pathak, V., Seit, KL. E., Sulng, W. J., Reynolds, R. C., “Antimycobacterial Agents. 1. Thio Analogues of Purine”. J. Med. Chem., 47 (1). 273-276. 2004.View Article  PubMed
 
[21]  ACD/Labs Release: 12.00 Version 12.01.
 
[22]  Frisch M.J., Trucks G.W., Schlegel H.B., Scuseria G.E., Robb M.A., Cheeseman J.R., Gaussian 09, Revision A.02. Gaussian, Inc., Wallingford, 2009.
 
[23]  XLSTAT Version 2016.02.28451, Copyright Addinsoft 1995-2022.
 
[24]  Diudea-Huntingdon MV., “QSPR/QSAR Studies for Molecular Descriptors”, Nova Science, New York, 2000.
 
[25]  Esposito EX., Hopfinger AJ., Madura JD., “Methods for applying the quantitative structure-activity relationship paradigm”, Chemo informatics (Springer), 131-213. 2004.View Article  PubMed
 
[26]  OECD http://www.oecd.org/chemicalsafety/risk-assessment.
 
[27]  Fortune, A. Techniques de Modélisation Moléculaire appliquées a l’Etude et a l’Optimisation de Molécules Immunogènes et de Modulateurs de la Chimiorésistance. Medicaments. 2006.
 
[28]  Eriksson, L., Jaworska, J., Worth, A., Cronin, M.D., Mc Dowell, R.M. and Gramatica, P., “Methods for Reliability and Uncertainty Assessment and for Applicability Evaluations of Classification- and Regression-Based QSARs”, Environmental Health Perspectives, 111, 1361-1375. 2003.View Article  PubMed