Int J Pharm Pharm Sci, Vol 9, Issue 9, 27-32Original Article



Department of Studies in Chemistry, University of Mysore, Manasagangotri, Mysore 570006, Karnataka, India

Received: 04 Feb 2017 Revised and Accepted: 13 Jul 2017


Objective: Benzofuran and their heterocyclic analogs represent an important class of molecules which have a wide range of pharmacological activities. Therefore, in this study synthesis and antimicrobial activity of benzofuran fused C-2,4,6-substituted pyrimidine derivatives was extensively discussed.

Methods: Benzofuran fused C-2,4,6-substituted pyrimidine derivatives (4a-k) were built by cyclo condensation, Claisen-Schmidt condensation followed by cyclization via coupling of benzoyl fragments, which include benzofuran, a pyrimidine ring and C-6 substituted phenyl residue with various substituents, connected by linker-S-band. The structures of the synthesized compounds were confirmed by analytical and spectral techniques and evaluated their antimicrobial activity.

Results: The results of antibacterial and antifungal activity against various microbes, most of the compounds have shown considerable antimicrobial activity, but compounds 4g and 4e exhibits superior activity compared to standards, this may be due to presence bromo and fluro electron withdrawing substituent on the benzoyl moiety and more lipophilic nature of pyrimidine ring.

Conclusion: According to the activity studies, it is observed that the synthesis and antimicrobial activity of benzofuran fused C-2,4,6-substituted pyrimidine derivatives have been shown better antimicrobial activity. The obtained results suggest that these classes of compounds can be considered as new hits for further structural optimization to obtain better antimicrobial drug development program.

Keywords: Benzofuran incorporating substituted pyrimidines, Substituted benzoyl moieties, Antimicrobial activity


The chemical and biological potentials of six-membered heterocyclic compounds fused with aromatic nuclei such as indole, benzofuran and their annulated derivatives have attracted the attention of organic and medicinal chemists for several years [1]. Amongst them, the benzofuran ring systems occupy an important place because they constitute the core skeleton of a family of structurally unique and exhibit a wide range of biological properties such as antihyperglycemic, analgesic, anti-inflammatory, antimicrobial and antitumor activities [2-4]. Various derivatives of benzofuran have been prepared and tested for their biological activity with various modifications in the substituent. The isolation of benzofuran derivatives from natural sources is laborious and time-consuming. So the synthetic chemists are interested in synthesizing the benzofuran derivatives [5]. In this context, pyrimidine derivatives attracted organic chemists very much due to their biological and chemotherapeutic importance. Synthesis of six-membered heterocyclic compounds such as pyrimidine ring is very important because of the synthetic condition and pharmacological properties [6-10]. It is noteworthy that fused heterocyclic structures containing pyrimidine ring exhibited diverse biological activities such as antimicrobial [11, 12], DNA cleavage [13], anti-inflammatory [14], antiviral [15], anti-HIV [16] and antitumor [17]. Benzofuran nucleus directly linked at C-2 to various substituted heterocyclic ring systems exhibited promising biological activity [18].

Fight against the microbes is never ending the battle. The harmful microbes poses the biggest problem in the society as far as health and hygiene is concerned [19]. As the resistance to antimicrobial agents increasing day by day, it is very necessary to synthesize new compounds which will show less bacterial resistance and good inhibitory activity. In view of the importance of benzofuran and pyrimidine fragment and also due to our research interests in synthesis of biologically active heterocycles [20-21], we envisioned that, the design and synthesis of benzofuran fused C-2,4,6-substituted pyrimidine derivatives (fig. 1) by introduction of a benzoyl moiety to the pyrimidine S-H (4) scaffold might form a novel series of microbial inhibitors with improved potency and selectivity. Herein, we report the detailed synthesis and evaluation of antibacterial and antifungal activity of these compounds.

Fig. 1: General structure of title compounds (4a-k)



All reagents and solvents were purchased from Merck (Darmstadt, Germany) chemical AR grade and were used as provided. TLC analysis was performed on alumina sheets precoated with silica gel 60F-254 and SiO2, 200-400 mesh (Merck) was used for column chromatography. 1H NMR (400 MHz) and 13C NMR (100 MHz) were obtained AC Bruker spectrometer in the appropriate (DMSO-d6) solvent. Melting points were obtained on a reichert thermopan melting point apparatus, equipped with a microscope and are uncorrected. Mass spectra were obtained by Water-Q-TOF ultima spectrometer. Micro analytical data were obtained by elemental-Vario EL-III.

Experimental part

General procedure

Synthesis of 1-(6-methoxy benzofuran-2-yl) ethanone (2)

A mixture of 2-Hydroxy-4-methoxy benzaldehyde (1) (2 mmol), chloroacetone (2 mmol) and 1,8-Diazabicyclo[5.4.0]undec-7-ene (DBU) (2 mmol) in 10 ml of dry dichloromethane (DCM) containing molecular sieves was refluxed for 1 hr. The progress of the reaction was monitored by TLC using hexane: ethyl acetate (8:2) mixture as the mobile phase. After the completion of the reaction, the reaction mixture was washed with 10% HCl solution followed by water. The organics were dried over anhydrous sodium sulphate. The yellow solid was obtained by desolventized in a rotary evaporator at room temperature affords 1-(6-methoxy benzofuran-2-yl) ethanone (2): m. p. 127-129 °C, Yield-92%, IR (KBr)νmax(cm-1): 1674 (C=O), 1558 (C=C), 3087 (CH furan), 2900 (CH3). 1H NMR (DMSO-d6 400 MHz) δ ppm: 6.82-7.75 (m, 4H, Ar-H), 3.80 (s, 3H, OCH3), 2.62 (s, 3H, CH3); 13C NMR (DMSO-d6 100 MHz) δ ppm: 185.5, 161.3, 155.2, 143.5, 119.2, 111.2, 103.2, 93.8, 55.2, 25.3; MS (ESI) m/z: 190.06 (M+). Anal. calcd. for C11H10O3, C, 69.46; H, 5.30; found: C, C, 69.50; H, 5.26%.

Synthesis of (E)-1-(6-methoxy benzofuran-2-yl)-3-(4-nitrophenyl) prop-2-en-1-one (3)

Compound (2) (1 mmol) in DCM (5 ml) was treated with ZrCl4 (46.6 mg, 20 mol %) followed by addition nitro benzaldehyde (1 mmol). The solution stirred at room temperature under an air atmosphere for 1 hr. After the completion of the reaction monitored by TLC, the crude mixture was worked up in ice cold brine solution and then extracted with ethyl acetate solution (3×10 ml). The combined ethyl acetate extract was dried over anhydrous Na2SO4 and concentrated in vacuo and the resulting products were purified by column chromatography using ethyl acetate/n-hexane as mobile phase (7:3) to afforded the pure product (3) as a solid. The product was recrystallized by methanol. (E)-1-(6-methoxybenzofuran-2-yl)-3-(4-nitrophenyl)prop-2-en-1-one (3): Light brown solid, yield 56%, m. p.: 205-208 °C Spectroscopic analysis: IR (KBr)ν max(cm-1): 3122-2961 (Ar-CH), 1629 (C=O); 1H NMR (DMSO-d6 400 MHz) δ ppm: 7.32-8.20 (m, 8H, Ar-H), 7.84-7.90 (d, 1H, J=8 Hz, β-CH), 6.93-6.95 (d, 1H, J=8 Hz, α-CH), 3.73 (s, 3H, OCH3); [13]C NMR (DMSO-d6 100 MHz) δ ppm: 177.3, 160.2, 155.6, 145.1, 147.1, 141.3, 129.0, 127.8, 124.5, 123.6, 123.2, 121.0, 120.8, 116.2, 111.0, 55.3; MS (ESI) m/z: 323.2 (M+); Anal. calcd. for C18H13NO5: C, 66.87; H, 4.05; N, 4.33; found: C, 66.85; H, 4.09; N, 4.29%.

Synthesis of 4-(6-methoxybenzofuran-2-yl)-6-(4-nitrophenyl) pyrimidine-2-thiol (4)

Compound (3) (0.01 mol) and thiourea (0.01 mol) were dissolved in DMF (20 ml). Few drops of concentrated HCl were added and the reaction mixture was refluxed and the reaction was monitored by TLC. After completion of reaction, the reaction mixture was poured onto 250 ml of ice-cold water and kept aside for some time. The crude solid was filtered and subjected to column chromatography. Elution with solvent system ethyl acetate/hexane (20:80) gave pure compound (4). 4-(6-methoxybenzofuran-2-yl)-6-(4-nitrophenyl) pyrimidine-2-thiol (4): Reddish brown solid, yield 70%, m. p.: 324-327 °C Spectroscopic analysis: IR (KBr)ν max(cm-1): 3130-2946 (Ar-CH), 1625 (C=N); 1H NMR (DMSO-d6 400 MHz) δ ppm: 12.5 (s, 1H, SH); 7.94 (s, 1H, CH of pyrimidin), 7.12-7.96 (m, 8H, Ar-H), 3.74 (s, 3H, OCH3);[13]C NMR (DMSO-d6 100 MHz) δ ppm: 181.5, 166.2, 164.6, 155.4, 149.8, 147.9, 141.9, 129.3, 126.2, 124.7, 124.1, 123.4, 120.8, 111.2, 103.6, 101.9, 55.50; MS (ESI) m/z: 379.06 (M+); Anal. calcd. for C19H13N3O4S: C, 60.15; H, 3.45; N, 11.08; found: C, 60.12; H, 3.48; N, 11.11%.

General procedure for the synthesis of benzofuran fused C-2,4,6-substituted pyrimidine derivatives (4a-k)

4-(benzofuran-2-yl)-6-(4-nitrophenyl) pyrimidine-2-thiol (4) (1.2 mmol) was suspended in dry THF (5 ml) in an inert atmosphere (N2). To this suspension, at room temperature triethylamine (1.5 mmol) and different benzoyl chlorides (RCOCl) (1 mmol in 3 ml of THF) was added and the reaction mixture was stirred for 3-4 h. The progress of reaction mixture was monitored by TLC using ethyl acetate: hexane (8:2). The reaction mixture was then desolventized in a rotary evaporator and the compound was extracted in ethyl acetate. The ethyl acetate layer was washed with water and dried over anhydrous sodium sulphate. The products were obtained by further desolventation in a rotary evaporator at 50-60 °C. The respective products were purified through column chromatography using ethyl acetate: hexane (8:2).

S-4-(6-methoxybenzofuran-2-yl)-6-(4-nitrophenyl) pyrimidin-2-yl benzothioate (4a)

Brown solid. m. p.: 212-214 °C Spectroscopic analysis: IR (KBr)ν max(cm-1): 3135-2967 (Ar-CH), 1624 (C=N Pyrazole); 1H NMR (DMSO-d6 400 MHz) δ ppm: 8.45 (s, 1H, CH of pyrimidin), 6.95-8.29 (m, 13H, Ar-H), 3.83 (s, 3H, OCH3); [13]C NMR (DMSO-d6 100 MHz) δ ppm: 188.3, 187.6, 166.2, 164.6, 157.6, 156.4, 149.9, 147.8, 134.7, 134.1, 128.9, 128.0, 126.2, 124.4, 121.7, 111.3, 103.4, 101.6, 96.3, 55.8; MS (ESI) m/z: 483.09 (M+); Anal. calcd. for C26H17N3O5S: C, 64.59; H, 3.54; N, 8.69; found: C, 64.54; H, 3.57; N, 8.71%.

S-4-(6-methoxybenzofuran-2-yl)-6-(4-nitrophenyl) pyrimidin-2-yl 4-nitrobenzothioate (4b)

Yellow solid, m. p.: 233-235 °C Spectroscopic analysis: IR (KBr)ν max(cm-1): 3128-2989 (Ar-CH), 1645 (C=N); 1H NMR (DMSO-d6 400 MHz) δ ppm: 8.48 (s, 1H, CH of pyrimidin), 6.97-8.40 (m, 12H, Ar-H), 3.85 (s, 3H, OCH3); [13]C NMR (DMSO-d6 100 MHz) δ ppm: 188.3, 187.4, 166.3, 164.9, 157.8, 156.2, 153.1, 149.8, 147.5, 141.9, 140.3, 129.0, 126.1, 124.4, 124.0, 121.9, 121.6, 111.3, 103.4, 101.7, 96.5, 55.8; MS (ESI) m/z: 528.06 (M+); Anal. calcd. for C26H16N4O7S: C, 59.09; H, 3.05; N, 10.60; found: C, 59.14; H, 2.98; N, 10.57%.

S-4-(6-methoxybenzofuran-2-yl)-6-(4-nitrophenyl) pyrimidin-2-yl 3-chlorobenzothioate (4c)

Light brown semisolid. Spectroscopic analysis: IR (KBr)ν max(cm-1): 3132-2941 (Ar-CH), 1619 (C=N); 1H NMR (DMSO-d6 400 MHz) δ ppm: 8.42 (s, 1H, CH of pyrimidin), 6.95-8.30 (m, 12H, Ar-H), 3.82 (s, 3H, OCH3);[13]C NMR (DMSO-d6 100 MHz) δ ppm: 188.3, 187.3, 166.0, 164.5, 157.4, 156.3, 149.7, 147.9, 141.9, 136.1, 134.4, 130.3, 126.2, 124.4, 121.8, 121.5, 111.3, 103.4, 101.6, 96.0, 55.5; MS (ESI) m/z: 517.05 (M+). Anal. calcd. for C26H16ClN3O5S: C, 60.29; H, 3.11; N, 8.11; found: C, 60.31; H, 3.10 N, 8.15 %.

S-4-(6-methoxybenzofuran-2-yl)-6-(4-nitrophenyl) pyrimidin-2-yl 4-hydroxybenzothioate (4d)

Light Brown solid, m. p.: 245-247 °C Spectroscopic analysis: IR (KBr)ν max(cm-1): 3125-2986 (Ar-CH), 1629 (C=N pyrazole); 1H NMR (DMSO-d6 400 MHz) δ ppm: 8.41 (s, 1H, CH of pyrimidin), 6.89-8.31 (m, 12H, Ar-H), 5.32 (s, 1H, OH), 3.83 (s, 3H, OCH3); [13]C NMR (DMSO-d6 100 MHz) δ ppm: 188.4, 187.5, 166.2, 164.6, 163.9, 157.6, 156.5, 149.9, 147.8, 141.9, 129.6 127.3, 126.2, 124.4, 121.8, 116.1, 111.3, 103.2, 101.5, 96.5, 55.7; MS (ESI) m/z: 499.08 (M+); Anal. calcd. for C26H17ClN3O6S: C, C, 62.52; H, 3.43; N, 8.41; found: C, C, 62.50; H, 3.45; N, 8.40%.

S-4-(6-methoxybenzofuran-2-yl)-6-(4-nitrophenyl) pyrimidin-2-yl 4-fluorobenzothioate (4e)

Off white solid, m. p.: 302-304 °C. Spectroscopic analysis: IR (KBr)ν max(cm-1): 3123-2988 (Ar-CH), 1655 (C=N); 1H NMR (DMSO-d6 400 MHz) δ ppm: 8.47 (s, 1H, CH of pyrimidin) 6.85-8.29 (m, 12H, Ar-H), 3.82(s, 3H, OCH3); 13C NMR (DMSO-d6 100 MHz) δ ppm: 188.6, 187.7, 168.3, 166.4, 164.7, 157.5,156.4, 149.8, 147.9, 142.0, 130.3, 129.7, 126.2, 124.4, 121.9, 115.7, 111.2, 103.4, 101.7, 96.3, 56.0; MS (ESI) m/z: 501.08 (M+); Anal. calcd. for C26H16FN3O5S: C, 62.27; H, 3.22; N, 8.38; found: C, 62.30; H, 3.21; N, 8.35%.

S-4-(6-methoxybenzofuran-2-yl)-6-(4-nitrophenyl) pyrimidin-2-yl 2-hydroxybenzothioate (4f)

Dark brown solid, m. p.: 218-221 °C. Spectroscopic analysis: IR (KBr)ν max(cm-1): 3129-2975 (Ar-CH), 1641 (C=N); 1H NMR (DMSO-d6 400 MHz) δ ppm: 8.45 (s, 1H, CH of pyrimidin), 6.96-8.30 (m, 12H, Ar-H), 5.33 (s, 1H, OH), 3.78 (s, 3H, OCH3); [13]C NMR (DMSO-d6 100 MHz) δ ppm: 188.3, 187.5, 166.2, 164.6, 160.0, 157.6, 156.5, 149.8, 147.8, 141.9, 135.5, 129.5, 126.2, 124.4, 121.9, 121.5, 117.9, 111.3,103.4, 101.6, 96.5, 55.7; MS (ESI) m/z: 499.08 (M+); Anal. calcd. for C26H17N3O6S: C, 62.52; H, 3.43; N, 8.41; found C, 62.50; H, 3.45; N, 8.44%.

S-4-(6-methoxybenzofuran-2-yl)-6-(4-nitrophenyl) pyrimidin-2-yl 4-bromobenzothioate (4g)

Brown solid. m. p.: 273-275 °C, Spectroscopic analysis: IR (KBr)ν max(cm-1): 3138-2963 (Ar-CH), 1633 (C=N); 1H NMR (DMSO-d6 400 MHz) δ ppm: 8.38 (s, 1H, CH of pyrimidin), 6. 98-8.25 (m, 12H, Ar-H), 3.80 (s, 3H, OCH3); [13]C NMR (DMSO-d6 100 MHz) δ ppm: 188.4, 187.3, 166.5, 164.3, 157.5, 149.8, 147.6, 141.8, 137.0, 136.8, 131.6, 129.9, 127.1, 126.2, 124.4, 123.2, 121.9, 121.6, 111.0, 103.2, 101.6, 96.3, 55.8; MS (ESI) m/z: 563.00 (M+). Anal. calcd. for C26H16BrN3O5S: C, 55.53; H, 2.87; N, 7.47; found: C, 55.55; H, 2.84; N, 7.50%.

S-4-(6-methoxybenzofuran-2-yl)-6-(4-nitrophenyl) pyrimidin-2-yl 4-methylbenzothioate (4h)

Dark yellow solid, m. p.: 217-219 °C. Spectroscopic analysis: IR (KBr)ν max(cm-1): 3128-2984 (Ar-CH), 1626 (C=N); 1H NMR (DMSO-d6 400 MHz) δ ppm: 8.41 (s, 1H, CH of pyrimidin), 7.05-8.30 (m, 12H, Ar-H), 3.82 (s, 3H, OCH3), 2.34 (s, 3H, CH3); [13]C NMR (DMSO-d6 100 MHz) δ ppm: 188.5, 187.4, 166.0, 164.5, 157.6, 156.4, 149.7, 147.6, 143.8, 141.8, 131.7, 129.2, 128.0, 126.1, 124.3, 121.8, 111.2, 103.2, 101.8, 95.8, 55.3, 21.3; MS (ESI) m/z: : 497.10 (M+); Anal. calcd. for C27H19N3O5S: C, 65.18; H, 3.85; N, 8.45; found: C, 65.20; H, 3.79; N, 8.42%

S-4-(6-methoxybenzofuran-2-yl)-6-(4-nitrophenyl) pyrimidin-2-yl 2-methoxy-4-nitrobenzothioate (4i)

Yellow semisolid. Spectroscopic analysis: IR (KBr)ν max(cm-1): 3259-2935 (Ar-CH), 1637 (C=N); 1H NMR (DMSO-d6 400 MHz) δ ppm: 8.35 (s, 1H, CH of pyrimidin), 6.95-8.20 (m, 11H, Ar-H), 3.83 (s, 6H, OCH3); [13]C NMR (DMSO-d6 100 MHz) δ ppm: 188.6, 187.4, 166.0, 164.5, 160.2, 157.6, 156.7, 154.2, 149.8, 147.9, 141.6, 130.0, 126.3, 124.5, 121.8, 121.6, 116.4, 112.7, 111.3, 103.4, 101.6, 96.0, 55.8; MS (ESI) m/z: 558.08 (M+); Anal. calcd. for C27H18N4O8S: C, 58.06; H, 3.25; N, 10.03; found: C, 58.06; H, 3.25; N, 10.03%.

S-4-(6-methoxybenzofuran-2-yl)-6-(4-nitrophenyl) pyrimidin-2-yl 4-methoxybenzothioate (4j)

Off white solid, m. p.: 258-261 °C. Spectroscopic analysis: IR (KBr)ν max(cm-1): 3263-2955 (Ar-CH), 1632 (C=N); 1H NMR (DMSO-d6 400 MHz) δ ppm: 8.42 (s, 1H, CH of pyrimidin), 7.00-8.36 (m, 12H, Ar-H), 3.80 (s, 6H, OCH3); [13]C NMR (DMSO-d6 100 MHz) δ ppm: 188.4, 187.5, 166.1, 166.0, 164.6, 157.6, 156.4, 149.8, 147.8, 141.8, 129.0, 127.0, 126.2, 124.4, 121.8, 114.5, 111.3, 103.5, 101.6, 96.2, 55.8; MS (ESI) m/z: 513.10 (M+); Anal. calcd. for C27H19N3O6S: C, 63.15; H, 3.73; N, 8.18; found: C, 63.18; H, 3.69; N, 8.20%.

S-4-(6-methoxybenzofuran-2-yl)-6-(4-nitrophenyl) pyrimidin-2-yl 3-hydroxy-4-methoxybenzothioate (4k)

Brown solid. m. p.: 219-221 °C Spectroscopic analysis: IR (KBr)ν max(cm-1): 3130-2960 (Ar-CH), 1634 (C=N); 1H NMR (DMSO-d6 400 MHz) δ ppm: 8.38 (s, 1H, CH of pyrimidin), 7.09-8.29 (m, 11H, Ar-H), 5.02 (s, 1H, OH), 3.81 (s, 6H, OCH3); 13C NMR (DMSO-d6 100 MHz) δ ppm: 188.3, 187.4, 166.1, 164.6, 157.6, 156.5, 155.5, 149.9, 147.8, 147.4, 141.8, 128.4, 126.5, 124.4, 121.8, 114.8, 112.4, 111.0, 103.2, 101.6, 96.2, 56.1, 55.7; MS (ESI) m/z: 529.09 (M+); Anal. calcd. for C27H19N3O7S: C, 61.24; H, 3.62; N, 7.94; found: C, 61.26; H, 3.60; N, 7.95%.

Biological evaluation

Antibacterial activity

The antibacterial activities of newly synthesized compounds (4a-k) were determined by well plate method in Mueller-Hinton Agar [22, 23].

The antibacterial activity was carried out against 24 h old cultures of bacterial strains. The test compounds were dissolved in dimethyl sulfoxide (DMSO) at a concentration of 1000 and 500 μg/ml. 20 ml of sterilized agar media was poured into each pre-sterilized Petri dish. Excess of the suspension was decanted and plates were dried by placing them in an incubator at 37 °C for an hr. About 60 ml of 24 h old culture suspension were poured and neatly swabbed with the pre-sterilized cotton swabs. Six-millimeter diameter well was then punched carefully using a sterile cork borer and 30 ml of test solutions of different concentrations were added into each labeled well. The plates were then incubated at 37°C for 24 h. The inhibition zone that appeared after 24 h, around the well in each plate was measured as a zone of inhibition in mm. Experiments were carried out in triplicates and the standard deviation was calculated.

Antifungal activity

Antifungal studies of newly synthesized compounds (4a-k) were carried out against A. flavus, C. keratinophilum and C. albicans. Sabourand’s agar media was prepared by dissolving peptone (10 g), D-glucose (40 g) and agar (20 g) in distilled water (1000 ml) and adjusting the pH to 5.7. Normal saline was used to make a suspension of spore of fungal strains for lawning. A loopful of particular fungal strain was transferred to 3 ml saline to get a suspension of the corresponding species. 20 ml of agar media was poured into each Petri dish. Excess of the suspension was decanted and plates were dried by placing them in an incubator at 37 °C for 1 hr. Wells were made on these seeded agar plates using sterile cork borer and different concentrations of the test compounds in DMSO were added into each of the labelled wells. A control was also prepared for the plates, in the same way, using DMSO. The Petri dishes were prepared in triplicate and maintained at 25 °C for 72 h. Antifungal activity was determined by measuring the diameter of inhibition zone. The activity of each compound was compared with fluconazole as standard. Zones of inhibition were determined for compounds (4a-k).



Scheme 1 and 2 illustrate the synthetic pathway to benzofuran fused C-2,4,6-substituted pyrimidine derivatives. Preparation of compounds was started from the methoxy-salicylaldehyde (1) that underwent cyclo condensation reaction with chlroacetone in DCM at room temperature by using DBU as the base thus obtaining intermediates 1-(6-methoxy benzofuran-2-yl) ethanone (2) [24]. Chalcone was synthesized from the (2) with nitro benzaldehyde by Claisen-Schmidt condensation under zirconium chloride as a catalyst thus yielding (3) [25]. Generally, chalcones are considered to be useful intermediate in several cyclisation reactions to produce types of heterocyclic compounds of diverse biological importance, according to the reactants used and the reaction conditions [26]. Construction of the 4-(benzofuran-2-yl)-6-(4-nitrophenyl) pyrimidine-2-thiol (4) was achieved by cyclization of compound (3) with thiourea following a Keri protocol [27]. The moderate yield obtained with the used Keri protocol was considered acceptable for our purposes. Finally, the target compounds (4a-k) were obtained by coupling of commercially available benzoyl chlorides fragments to compound (4) contain linker bond S-H. According to this, 4-(benzofuran-2-yl)-6-(4-nitrophenyl) pyrimidine-2-thiol was coupled with various substituent’s containing benzoyl chlorides, under basic conditions and conversion of the corresponding benzofuran fused C-2,4,6-substituted pyrimidine derivatives (4a-k) and reported in table 1. The structures of the compounds were elucidated by IR, 1H NMR, 13C NMR, mass and elemental analysis.

Antimicrobial studies

Antibacterial activity

The results of antibacterial activities revealed that the majority of the synthesized compounds showed varying degree of inhibition against tested microorganisms. Compared with the standard streptomycin, the antibacterial potency of compounds (4e) and (4g) was found to be the highest against all bacterial strains (table 2). According to the Structure–Activity Relationship (SAR), it is clear that initially, key scaffold (4) showed the considerable activity due to the presence of electron withdrawing nitro group on the pyrimidine C-4 substituted phenyl ring. Further, the introduction of benzoyl moieties influences for effective increases in the activity. Among the synthesized compounds fluro, and bromo substituents on benzoyl moieties to pyrimidine core is more active than the other analogues. The reason would be more lipophilic nature of pyrimidine moiety [28] along with the presence of electronegative groups like halogens. The compounds (4e) and (4g) showed pronounced antibacterial activity. Whereas compounds (4b), (4c), (4h), (4i) and (4j) have also demonstrated good activity because of chloro, nitro, methyl and methoxy substituted benzoyl chloride within the same ring system. The other analogues (4d), (4f) and (4k) it was noticed that the introduction of hydroxy substituted benzoyl chlorides to compound (4) not favors for enhanced antibacterial activity.

It is concluded that the presence of 4-fluorobenzoyl chloride or 4-bromo benzoyl chloride substitution to S-H bond of pyrimidine ring system causes a significant increase in antibacterial activity.

Scheme 1: Synthesis of 1-(6-methoxybenzofuran-2-yl) ethanone (2)

Scheme 2: Synthesis pathway for benzofuran fused C-2,4,6-substituted pyrimidine derivatives (4a-k)

Antifungal activity

The antifungal screening revealed that some of the tested compounds showed good inhibition against various tested fungal strains (table 3). Initially, key intermediates (3, 4) showed considerable activity. Further, introduction of benzoyl moieties into the pyrimidine ring accounted for the enhanced activity. It is to be noted that the nature of the substituent present on the phenyl ring of benzoyl terminus was found to have the strongest influence on the activity and this was confirmed by the fact that the presence of electron withdrawing bromo and fluro group in compounds (4g and 4e) displayed excellent activity than the standard fluconazole. Compounds (4b), (4c), (4h), (4i) and (4j) have also exhibited good activity because of chloro, nitro, methyl and methoxy functional group at para and meta position on phenyl ring of benzoyl terminus. From the studies, the analogues holding electron donating hydroxyl, methyl and methoxy groups were not demanded for enhanced activity against all bacterial strains. This might be the reason for decreases the activity in compounds (4d), (4f) and (4k) compared to other analogues. It is concluded antifungal investigation demonstrated that the halogen and nitro substituents was the source for the significant increases in the activity.

Table 1: Chemical structures and yields of synthesized compounds (4a-k)

Compoundnumber R Yield % Compound number R Yield %
4a 71.56 4g 75.85
4b 73.23 4h 71.70
4c 61.59 4i 73.45
4d 77.10 4j 74.21
4e 65.54 4k
4f 75.23

Table 2: Inhibitory zone (diameter) mm of the synthesized compounds (4a-k) against tested bacterial strains by well plate method

Compound Escherichia coli Staphylococcus aureus Pseudomonas aeroginosa
Concentration (µg/ml) 1000 500 1000
4a 4±0.02 3±0.03 2±0.01
4b 4±0.01 3±0.01 3±0.02
4c 4±0.01 4±0.01 4±0.01
4d 7±0.01 5±0.01 6±0.02
4e 18±0.01 15±0.02 17±0.01
4f 8±0.03 5±0.01 6±0.02
4g 19±0.04 17±0.01 18±0.02
4h 7±0.01 6±0.03 9±0.04
4i 6±0.01 5±0.03 4±0.01
4j 6±0.01 4±0.01 4±0.02
4k 5±0.01 3±0.01 3±0.02
Streptomycin 18±0.01 10±0.01 15±0.02

Each value represents mean±SD (n=3)

Table 3: Inhibitory zone (diameter) mm of the synthesized compounds (4a-k) against tested fungal strains by well plate method

Compound Aspergillus flavus Chrysosporium keratinophilum Candida albicans
Concentration (µg/ml) 1000 500 1000 500 1000 500
4a 3±0.01 1±0.02 4±0.03 3±0.02 4±0.03 3±0.02
4b 4±0.02 1±0.01 4±0.02 3±0.02 5±0.02 3±0.01
4c 3±0.01 1±0.01 5±0.02 3±0.01 3±0.01 2±0.03
4d 6±0.01 5±0.01 5±0.01 2±0.01 5±0.02 4±0.01
4e 15±0.01 13±0.02 18±0.01 16±0.04 23±0.01 21±0.01
4f 6±0.02 5±0.01 4±0.01 3±0.01 5±0.03 4±0.02
4g 16±0.03 14±0.01 20±0.02 18±0.01 25±0.01 23±0.01
4h 5±0.01 4±0.01 3±0.01 3±0.01 5±0.02 3±0.04
4i 5±0.01 3±0.02 5±0.02 4±0.02 4±0.01 2±0.01
4j 4±0.02 2±0.01 5±0.02 4±0.01 3±0.02 4±0.02
4k 4±0.01 1±0.02 4±0.01 3±0.02 4±0.01 2±0.01
Fluconazole 13±0.01 12±0.02 17±0.02 16±0.01 22±0.02 20±0.02

Each value represents mean±SD (n=3)


In the present article, we have reported the in situ synthesis of benzofuran fused C-2,4,6-substituted pyrimidine derivatives (4a-k) by choosing proper experimental conditions and investigate for antibacterial and antifungal activity with the hope of discovering new structure leads serving as potential broad spectrum pharmacological agents. The structure activity relationship studies revealed the critical role of halogens function in the target compounds at para position of benzoyl phenyl ring that showed very promising antimicrobial activity. Compounds (4g) and (4e) contains bromo and fluro on the benzoyl moiety were demonstrated significant antimicrobial activity compared to standard. These results could be helpful in further design and discovery of more potent antimicrobial inhibitors.


The authors are grateful to the University Grants Commission, Government of India, for granting UGC-Post Doctoral Fellowship-PDFSS and UGC-SAP-DRS-III.


Javarappa Rangaswamy researched and wrote this article. Nagaraja Naik provided guidance, critical review, and revision.


The authors declare that they have no conflict of interest


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How to cite this article

  • Javarappa Rangaswamy, Nagaraja Naik. Synthesis and screening of benzofuran fused C-2,4,6-substituted pyrimidine derivatives as a new antibacterial and antifungal agent. Int J Pharm Pharm Sci 2017;9(9):27-32.

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Benzofuran incorporating substituted pyrimidines, Substituted benzoyl moieties, Antimicrobial activity





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International Journal of Pharmacy and Pharmaceutical Sciences
Vol 9, Issue 9, 2017 Page: 27-32

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Authors & Affiliations

Javarappa Rangaswamy
Department of Studies in Chemistry, University of Mysore, Manasagangotri, Mysore – 570006, Karnataka, India

Nagaraja Naik
Department of Studies in Chemistry, University of Mysore, Manasagangotri, Mysore – 570006, Karnataka, India

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