| Literature DB >> 29892427 |
Suresh S Kumbar1, Kallappa M Hosamani1, Gangadhar C Gouripur2, Shrinivas D Joshi3.
Abstract
Recently, heterogeneous catalysts have been explored eximiously in the synthesis of heterocyclic compounds. Therefore, here we used solid-supported heterogeneous silica sulfuric acid as a catalyst for the synthesis of Schiff's base of 3-chloroformylcoumarin in view of simplified procedure, reusability and acceptable efficiency, which are required in organic synthesis. An efficient and facile methodology is preferred for synthesis of a class of chromeno-3-substituted derivatives (1a-1l) with good yields. The molecular docking results showed excellent binding interactions with the Mycobacterium tuberculosis InhA-D148G mutant (PDB: 4DQU). The same biomolecules were screened for their in vitro anti-tubercular activity against the M.tb H37Rv strain and antimicrobial studies. Physico-chemistry, toxicity prediction with IC50 value and bioactivity score were also calculated for title compounds. Most active compounds were further tested for cytotoxicity studies and exhibited low-level cytotoxicity against Vero cells. The suggested conjugates are promising lead compounds for the subsequent investigation in search of new anti-tubercular agents. All the conjugates were obtained within the range and followed the Lipinski rule of 5, indicating more 'drug-like' nature.Entities:
Keywords: Schiff's bases; antimicrobial; cytotoxicity study; in vitro anti-tubercular; molecular docking; silica sulfuric acid
Year: 2018 PMID: 29892427 PMCID: PMC5990764 DOI: 10.1098/rsos.172416
Source DB: PubMed Journal: R Soc Open Sci ISSN: 2054-5703 Impact factor: 2.963
Scheme 1.Preparation of silica sulfuric acid.
Figure 1.Some coumarin Schiff base derivatives.
Figure 2.Naturally occurring and synthetic coumarins exhibiting anti-TB properties.
Figure 3.The hypothetical interaction model designed for coumarin compounds.
Scheme 2.Synthesis of novel coumarin Schiff bases (1a–1l).
Analytical data of synthesized coumarin derivatives (1a–1l).
| products | R | yield (%) | time (min) | melting point (°C) |
|---|---|---|---|---|
| 1a | H | 78 | 180 | 165–167 |
| 1b | p-Cl | 62 | 210 | 193–195 |
| 1c | p-Br | 61 | 190 | 182–184 |
| 1d | p-OH | 67 | 195 | 198–200 |
| 1e | p-OCH3 | 62 | 210 | 205–208 |
| 1f | p-CH3 | 71 | 240 | 202–204 |
| 1g | 2,6-dimethyl | 58 | 220 | 188–190 |
| 1h | m-Cl | 68 | 210 | 197–200 |
| 1i | m-Br | 69 | 190 | 178–181 |
| 1j | m-OH | 62 | 195 | 184–186 |
| 1k | m-OCH3 | 59 | 200 | 208–210 |
| 1l | m-CH3 | 73 | 225 | 212–214 |
Optimization of solvent selection for the synthesis of coumarin compounds.
| entry | solvent | SSA (eq.) | time (h) | temperature (°C) | yield (%) |
|---|---|---|---|---|---|
| 1 | acetonitrile | 1.0 | 4 | 25 | 35 |
| 2 | ethanol | 1.0 | 3 | 25 | 78 |
| 3 | DMF | 1.0 | 12 | 25 | nil |
| 4 | dioxane | 1.0 | 6 | 25 | 38 |
| 5 | THF | 1.0 | 12 | 25 | trace |
| 6 | DMSO | 1.0 | 12 | 25 | nil |
| 7 | acetone | 1.0 | 12 | 25 | nil |
| 8 | acetonitrile | 2.0 | 12 | 40 | 42 |
| 9 | ethanol | 0.0 | 12 | 25 | nil |
| 10 | ethanol | Sia | 12 | 25 | 45 |
aOnly silica is used to perform this experiment.
Scheme 3.Proposed reaction pathway for the formation of compound 1a.
Results of in vitro anti-TB screening against M. tb H37Rv and cytotoxicity assay against Vero cells (n.d., not determined). The most active compounds are marked in bold.
| compound | R | % inhibition at a concentration of 6.25 µg ml−1 | MICa (µg ml−1) | % survival of Vero cells at conc. (10 × MIC)b |
|---|---|---|---|---|
| 1a | − | 78 | n.d. | n.d. |
| 1d | 67 | n.d. | n.d. | |
| 1f | 78 | n.d. | n.d. | |
| 1g | − | 66 | n.d. | n.d. |
| 1j | 75 | n.d. | n.d. | |
| 1l | 72 | n.d. | n.d. | |
aMinimum inhibitory concentration against the Hv strain of M. tuberculosis (µg ml−1).
bCompound is considered toxic if it causes over 50% inhibition of normal cells at a concentration 10-fold higher than its MIC value.
Figure 4.Comparison between per cent survival of Vero cells at a concentration of the compound 10 times that of the actual MIC value (µg ml−1).
In vitro antifungal activity of (1a–1l) derivatives. Fungal strains: Candida albicans, Candida utilis, Trichophyton rubrum, Trichophyton mentagrophytes, Aspergillus niger, Aspergillus flavus, Aspergillus fumigates and Torulopsis glabrata. Standard antibiotic disc: ampicillin (10 mcg). (−) negative results. Values are mean ± s.e.m. All incubations were performed in triplicate. The best values for each compound are provided in bold.
| diameter of growth of the inhibition zone (mm) | ||||||||
|---|---|---|---|---|---|---|---|---|
| compound code | ||||||||
| 1a | 6.3 ± 0.4 | 6.8 ± 0.1 | — | 8.0 ± 0.3 | — | — | 7.2 ± 0.4 | — |
| 1b | 18.1 ± 0.1 | — | 16.2 ± 0.0 | 10.3 ± 0.0 | 19.00 ± 0.1 | 16.1 ± 1.2 | 17.00 ± 0.7 | 14.4 ± 0.5 |
| 1c | 21.0 ± 0.2 | 13.8 ± 0.3 | 16.8 ± 0.0 | 13.3 ± 0.4 | 12.2 ± 0.06 | 14.00 ± 0.1 | — | 13.4 ± 0.5 |
| 1d | — | — | 10.3 ± 0.3 | — | 6.4 | — | 7.4 ± 0.1 | — |
| — | ||||||||
| 1f | 12.2 ± 0.2 | 12.8 ± 0.1 | 10.4 ± 0.2 | 13.2 ± 0.0 | 9.0 ± 0.2 | 10.2 ± 0.0 | — | 10.3 ± 0.3 |
| 1g | 9.6 ± 1.2 | 6.8 ± 0.3 | — | 11.7 ± 0.2 | — | — | 8.2 ± 0.1 | — |
| 1h | 16.2 ± 0.0 | 10.0 ± 0.6 | 13.3 ± 0.2 | 14.9 ± 0.5 | 15.0 ± 0.0 | 12.3 ± 1.0 | — | 13.2 ± 04 |
| 1i | 17.5 ± 0.4 | 11.8 ± 0.1 | 13.6 ± 0.8 | 12.2 ± 0.4 | — | 13.1 ± 0.0 | 12.8 ± 0.0 | 14.2 ± 0.1 |
| 1j | — | — | 8.6 ± 0.0 | — | 9.4 ± 0.3 | — | 6.3 ± 0.2 | — |
| — | ||||||||
| 1l | 10.2 ± 0.2 | 11.3 ± 0.0 | 8.0 ± 0.3 | 10.6 ± 0.1 | 6.6 ± 0.0 | 8.4 ± 0.8 | — | 9.2 ± 1.0 |
| ampicillin | 22.2 ± 0.3 | 20.5 ± 0.2 | 21.4 ± 0.2 | 22.5 ± 0.0 | 21.2 ± 0.3 | 18.5 ± 1.2 | 20.4 ± 1.0 | 21.6 ± 0.3 |
In vitro antibacterial activity of (1a–1l) derivatives. Bacterial strains: Staphylococcus aureus, Bacillus subtilis, Escherichia coli, Pseudomonas aeruginosa, Bacillus cereus, Klebsiella pneumonia, Salmonella typhi and Clostridium botulinum. Standard antibiotic disc: penicillin and streptomycin (10 mcg), (−) negative results. Values are mean ± s.e.m. All incubations were performed in triplicate. The best values for each compound are provided in bold.
| diameter of growth of the inhibition zone (mm) | ||||||||
|---|---|---|---|---|---|---|---|---|
| compound code | ||||||||
| 1a | 5.3 ± 0.33 | — | — | 7.6 ± 0.33 | 7.3 ± 0.16 | 6.3 ± 0.00 | — | 10.5 ± 0.28 |
| 1b | 14.8 ± 0.4 | 16.2 ± 0.0 | 12.3 ± 0.8 | — | 14.8 ± 0.3 | 11.4 ± 0.2 | 10.5 ± 0.2 | 14.3 ± 0.6 |
| 1c | 10.6 ± 0.5 | 12.8 ± 1.2 | 11.0 ± 0.1 | 12.2 ± 0.3 | 14.0 ± 0.0 | — | 11.5 ± 0.6 | 13.0 ± 0.05 |
| 1d | — | 6.4 ± 0.8 | — | 5.8 ± 0.4 | — | 8.2 ± 0.3 | — | — |
| 1f | 9.0 ± 0.4 | 10.5 ± 0.2 | 9.2 ± 0.2 | 8.6 ± 0.1 | — | 11.04 ± 0.3 | — | 10.6 ± 0.2 |
| 1g | 6.4 ± 0.01 | — | — | 6.2 ± 0.0 | 7.3 ± 0.0 | — | — | 7.8 ± 0.02 |
| 1h | — | 9.6 ± 0.0 | 11.8 ± 0.0 | 13.8 ± 0.3 | 10.00 ± 0.2 | 13.02 ± 0.3 | 12.4 ± 0.6 | 12.3 ± 0.9 |
| 1i | 13.9 ± 0.3 | 13.0 ± 0.06 | 10.00 ± 0.8 | — | 10.5 ± 0.0 | 12.00 ± 1.2 | 8.3 ± 0.1 | 14.3 ± 0.0 |
| 1j | — | 5.6 ± 0.3 | — | 8.6 ± 0.6 | 6.8 ± 02 | 6.3 ± 00 | — | — |
| 1l | 7.4 ± 0.0 | 8.5 ± 0.0 | 10.3 ± 0.2 | 7.6 ± 0.8 | — | 8.8 ± 1.0 | — | 8.2 ± 0.0 |
| penicillin | 12.5 ± 0.0 | 19.6 ± 03 | 22.2 ± 0.0 | 20.0 ± 0.3 | 20.3 ± 1.2 | 24.3 ± 0.1 | 20.0 ± 0.6 | — |
| streptomycin | 20.0 ± 1.2 | 12. 0 ± 0.4 | 20.3 ± 0.8 | 20.4 ± 0.0 | — | 12.6 ± 0.5 | 20.4 ± 0.3 | 19.6 ± 0.0 |
Figure 5.Docked view of all compounds into the active site of the enzyme 4DQU.
Surflex docking score (kcal mol−1) of the chromene derivatives (potential of mean force, PMF). Data for compounds showing higher C score value are in bold.
| compounds | C scorea | crash scoreb | polar scorec | D scored | PMF scoree | G scoref | chem scoreg |
|---|---|---|---|---|---|---|---|
| 1a | 6.83 | −1.10 | 1.05 | −108.646 | 5.536 | −168.419 | −27.374 |
| 1b | 5.88 | −1.16 | 0.21 | −122.068 | −9.315 | −164.857 | −31.901 |
| 1c | 5.22 | −1.24 | 0.00 | −113.756 | −19.898 | −167.179 | −30.478 |
| 1f | 6.28 | −0.92 | 0.00 | −107.641 | −18.601 | −152.499 | −30.541 |
| 1g | 6.75 | −2.49 | 0.00 | −123.300 | −12.031 | −212.371 | −34.665 |
| 1h | 5.53 | −0.97 | 1.06 | −96.994 | 13.947 | −140.737 | −25.646 |
| 1i | 5.94 | −1.93 | 1.23 | −120.551 | −7.124 | −157.632 | −31.556 |
| 1l | 6.46 | −1.65 | 1.59 | −120.066 | 8.647 | −194.331 | −25.538 |
aC score (consensus score) integrates a number of popular scoring functions for ranking the affinity of ligands bound to the active site of a receptor and reports the output of the total score.
bCrash score revealing the inappropriate penetration into the binding site. Crash scores close to 0 are favourable. Negative numbers indicate penetration.
cPolar indicating the contribution of the polar interactions to the total score. The polar score may be useful for excluding docking results that make no hydrogen bonds.
dD score for charge and van der Waals interactions between the protein and the ligand.
ePMF score indicating the Helmholtz free energies of interactions for protein–ligand atom pairs.
fG score showing hydrogen bonding, complex (ligand–protein) and internal (ligand–ligand) energies.
gChem score points for H-bonding, lipophilic contact and rotational entropy, along with an intercept term.
Figure 6.Binding interactions of compound 1j into the active site of 4DQU.
Figure 7.Binding interactions of compound 1k into the active site of 4DQU.
Figure 8.Represents the compounds 1j and 1k surrounded by hydrophobic and hydrophilic amino acids. (a) Hydrophilic and (b) hydrophobic amino acids surrounding compounds 1j (green colour) and 1k (cyan colour).
Drug-likeness property (RO5) of compounds (1a–1j). HBA, number of hydrogen bond acceptors (n-ON); HBD, number of hydrogen bond donors (n-OHNH); LogP, logarithm of partition coefficient between n-octanol and water (miLogP); TPSA, topological polar surface area; GPCR, G-protein-coupled receptors.
| Lipinski's parameters | bioactivity score | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| compound | HBA | HBD | LogP | violations | TPSA | molar volume (A3) | drug likeness | GPCR ligand | ion channel modulator | kinase inhibitor | nuclear receptor ligand | protease inhibitor | enzyme inhibitor |
| 3 | 0 | 4.33 | 0 | 42.58 | 264.21 | −0.59 | −0.78 | −0.73 | −0.38 | −0.64 | −0.34 | ||
| 3 | 0 | 5.01 | 1 | 42.58 | 277.74 | −0.55 | −0.75 | −0.70 | −0.37 | −0.62 | −0.36 | ||
| 3 | 0 | 5.14 | 1 | 42.58 | 282.09 | −0.66 | −0.82 | −0.73 | −0.47 | −0.71 | −0.41 | ||
| 4 | 0 | 3.85 | 0 | 62.80 | 272.23 | −0.50 | −0.70 | −0.64 | −0.20 | −0.57 | −0.27 | ||
| 4 | 0 | 4.38 | 0 | 51.81 | 289.75 | −0.09 | −0.57 | −0.79 | −0.69 | −0.34 | −0.60 | −0.37 | |
| 3 | 0 | 4.78 | 0 | 42.58 | 280.77 | −0.60 | −0.82 | −0.73 | −0.38 | −0.65 | −0.40 | ||
| 3 | 0 | 5.13 | 1 | 42.58 | 297.33 | −0.60 | −0.80 | −0.72 | −0.39 | −0.60 | −0.36 | ||
| 3 | 0 | 4.98 | 0 | 42.58 | 277.74 | −0.56 | −0.75 | −0.69 | −0.38 | −0.66 | −0.38 | ||
| 3 | 0 | 5.11 | 1 | 42.58 | 282.09 | −0.69 | −0.83 | −0.70 | −0.52 | −0.72 | −0.43 | ||
| 4 | 1 | 3.83 | 0 | 62.80 | 272.23 | −0.13 | −0.52 | −0.71 | −0.63 | −0.23 | −0.59 | −0.29 | |
| 4 | 0 | 4.36 | 0 | 51.81 | 289.75 | −0.58 | −0.80 | −0.68 | −0.37 | −0.62 | −0.39 | ||
| 3 | 0 | 4.75 | 0 | 42.58 | 280.77 | −0.61 | −0.84 | −0.73 | −0.38 | −0.65 | −0.41 | ||
Oral toxicity prediction results of coumarin Schiff base (1a–1l) derivatives.
| compound code | predicted LD50 (mg kg−1) | predicted toxicity class | average similarity (%) | prediction accuracy (%) | toxic fragments |
|---|---|---|---|---|---|
| 1a | 1600 | 5 | 38.57 | 23 | nil |
| 1b | 820 | 4 | 37.64 | 23 | nil |
| 1c | 1680 | 4 | 36.68 | 23 | nil |
| 1d | 190 | 4 | 39.1 | 23 | nil |
| 1e | 1700 | 5 | 38.49 | 23 | nil |
| 1f | 1600 | 5 | 38.28 | 23 | nil |
| 1g | 1600 | 5 | 38.68 | 23 | nil |
| 1h | 820 | 4 | 37.04 | 23 | nil |
| 1i | 1680 | 4 | 36.11 | 23 | nil |
| 1j | 190 | 4 | 38.58 | 23 | nil |
| 1k | 1950 | 5 | 37.50 | 23 | nil |
| 1l | 1600 | 5 | 37.64 | 23 | nil |