ORCID Profile
0000-0002-5400-0335
Current Organisations
Universitas Padjadjaran
,
University of New South Wales
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Publisher: Universitas Gadjah Mada
Date: 31-08-2021
DOI: 10.22146/IJC.65951
Abstract: Coronavirus disease (COVID-19) is a pandemic burdening the global economy. It is caused by Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2). Black cumin (Nigella sativa) seed may contain antivirals for the disease since it was reported to inhibit the human immunodeficiency virus (HIV) and hepatitis C virus (HCV). Main protease (Mpro) is a vital protein for viral replication and a promising target for COVID-19 drug development. Hence, in this study, we intended to uncover the potency of N. sativa seed as the natural source of inhibitors for SARS-CoV-2 Mpro. We collected secondary metabolites in N. sativa seed through a literature search and employed Lipinski’s rule of five as the initial filter. Subsequently, virtual screening c aigns using a molecular docking method were performed, with N3 inhibitor and leupeptin as reference ligands. The top hits were analyzed further using a molecular dynamics simulation approach. Molecular dynamics simulations showed that binding affinities of nigellamine A2 and A3 to Mpro are comparable to that of leupeptin, with median values of -43.9 and -36.2 kcal mol–1, respectively. Ultimately, this study provides scientific information regarding N. sativa seeds’ potency against COVID-19 and helps direct further wet experiments.
Publisher: IOP Publishing
Date: 05-02-2016
Publisher: Bentham Science Publishers Ltd.
Date: 02-2023
DOI: 10.2174/1386207325666220509184838
Abstract: COVID-19 (Coronavirus Disease 2019) caused by SARS-CoV-2 (Severe Acute Respiratory Syndrome Coronavirus 2) has infected millions of people and caused hundreds of thousands of deaths worldwide. However, until now no specific drug for SARS-CoV-2 infection has been found. This prompted many researchers to explore compounds as anti-SARS-CoV-2 candidates. One of the efforts to deal with the spread of the COVID-19 virus is to increase the body's immune system (immune). Medicinal plants are known to have the ability as immune-modulators, one of which is Betel leaf (Piper betle L.) which has good activity as antibacterial, antioxidant, and anti-viral with other pharmacological effects. An in silico approach in drug development was used to search for potential antiviral compounds as inhibitors of SARS-CoV-2 Mpro Protein, RBD, and Non-structural Protein (NSP15). This study aimed to determine the potential of Betel leaf compounds as immunemodulators and good inhibitory pathways against COVID-19. In this study, a potential screening of steroid class compounds, namely 24- propilcholesterol was carried out as an anti-SARS-CoV-2 candidate, using an in silico approach with molecular docking simulations for three receptors that play an important role in COVID-19, namely Mpro SARS-CoV-2, RBD SARS-CoV-2 and a non-structural protein (NSP15) and were compared with Azithromycin, Favipiravir and Ritonavir as positive controls. Based on the results of molecular docking simulations, compound from Betel leaf, 24- Propylcholesterol, showed high binding affinity values for spike glycoprotein RBD and nonstructural protein 15 (NSP15), namely -7.5 and -7.8 kcal/mol. Meanwhile, a native ligand of Mpro, inhibitor N3, has a higher binding affinity value than 24-propylcholesterol -7.4 kcal/mol. 24-Propylcholesterol compound predicted to have potential as an anti-SARS-CoV-2 compound. However, it is necessary to carry out in vitro and in vivo studies to determine the effectiveness of the compound as an anti-SARS-CoV-2.
Publisher: Bentham Science Publishers Ltd.
Date: 08-2022
DOI: 10.2174/1386207324666210707104440
Abstract: Streptococcus sanguinis can contribute to tooth demineralization, which can lead to dental caries. Antibiotics used indefinitely to treat dental caries can lead to bacterial resistance. Discovering new antibacterial agents from natural products, like Ocimum basilicum, will help combat antibiotic resistance. In silico analysis (molecular docking) can help determine the lead compound by studying the molecular interaction between the drug and the target receptor (MurA enzyme and DNA gyrase). It is a potential candidate for antibacterial drug development. The research objective is to isolate the secondary metabolite of O. basilicum extract that exhibits activity against S. sanguinis through in vitro and in silico analysis. n-Hexane extract of O. basilicum was purified by combining column chromatography with bioactivity-guided fractionation. The in vitro antibacterial activity against S. sanguinis was determined using the disc diffusion and microdilution method, while molecular docking simulation of nevadensin (1) with MurA enzyme and DNA gyrase was performed by using PyRx 0.8 program. Nevadensin from O. basilicum was successfully isolated and characterized by spectroscopic methods. This compound showed antibacterial activity against S. sanguinis with MIC and MBC values of 3750 and 15000 μg/mL, respectively. In silico analysis showed that the binding affinity to MurA was -8.5 Kcal/mol, and the binding affinity to DNA gyrase was -6.7 Kcal/mol. The binding of nevadensin-MurA is greater than fosfomycin-MurA. Otherwise, Nevadensin-DNA gyrase has a weaker binding affinity than fluoroquinolone-DNA gyrase and chlorhexidine-DNA gyrase. Nevadensin showed potential as a new natural antibacterial agent by inhibiting the MurA enzyme rather than DNA gyrase.
Publisher: IOP Publishing
Date: 02-2017
Publisher: Universitas Padjadjaran
Date: 12-04-2017
Publisher: Universitas Padjadjaran
Date: 12-12-2016
Abstract: A methyl ester of L-mandelic acid was found to be an effective resolving agent for resolution of commercial DL-isoleucine. The resolution was based on Steglich esterification between methyl L-mandelate and Boc-DL-isoleucine. The two resolved isomers were easily separated by using a conventional flash-column chromatography, giving quantitatively good yields. Unfortunately, the methyl L-mandelate was found to be ineffective to resolve four stereoisomers of Fmoc- isoleucine.
Publisher: Egypts Presidential Specialized Council for Education and Scientific Research
Date: 05-08-2019
Publisher: IOP Publishing
Date: 02-2017
DOI: 10.1088/1757-899X/172/1/012024
Abstract: 4-hydroxybenzalhydantoin derivatives were synthesized by the condensation reaction between benzaldehydes 12 - 13 and substituted hydantoins 14 - 16 under standard conditions of reflux in glacial acetic acid, in the present of sodium acetate and a little amount of acetic anhydride as a catalyst. All compounds were identified by spectral analysis to give 4-hydroxybenzalhydantoins 17 - 21 .
Publisher: National Library of Serbia
Date: 2021
Abstract: A fluorescence compound with the typical skeleton of benzocoumarin was synthesized and its interaction with various metal ions was evaluated. The synthesis was performed via Knoevenagel condensation whereas identification of the product was accomplished by various spectroscopic techniques. The chemosensor test against representative metal ions was monitored by fluorescence spectrophotometry. A density functional theory calculation (DFT, functional/basis set M06/6-31G (d, p)) was also performed to clarify the experimental results and to confirm the mechanism of interaction. 3-Oxo-3H-benzo- [f]chromene-2-carboxylic acid 1 was obtained as a yellow solid in 60 % chemical yield. Melting point 235.6?236.7?C and ?max UV/Vis, ?em and Stokes shift (MeOH, nm) of 374, 445 and 71 nm, respectively. The structure of the compound was identified based on spectroscopic data and literature comparison. Compound 1 exhibited a chelation quenched fluorescence (CHQF) phenomenon selectively toward the Na+, with a binding stoichiometry (1:2) and LoD and LoQ of 0.14 and 0.48 mg/L, respectively. Based on DFT calculations, compound 1 chelated Na+ through mechanism of oxidative (1:1 equivalent) and reductive (2:1 equivalent) photoinduced electron transfer (PET), correspondingly
Publisher: Author(s)
Date: 2018
DOI: 10.1063/1.5021200
Publisher: Elsevier BV
Date: 2015
Publisher: Bentham Science Publishers Ltd.
Date: 07-2021
DOI: 10.2174/1570163817666200712171652
Abstract: Streptococcus mutans and Streptococcus sanguinis are Gram-positive bacteria that cause dental caries. MurA enzyme acts as a catalyst in the formation of peptidoglycan in bacterial cell walls, making it ideal as an antibacterial target. Basil (Ocimum americanum) is an edible plant that is erse and has been used as a herbal medicine for a long time. It has been reported that basil has a pharmacological effect as well as antibacterial activity. The purpose of this study was to identify antibacterial compounds in O. americanum and analyze their inhibition activity on MurA enzyme. Fresh leaves from O. americanum extracted with n-hexane and purified by a combination of column chromatography on normal and reverse phase together with guided by in vitro bioactivity assay against S. mutans ATCC 25175 and S. sanguinis ATCC 10556, respectively, while in silico molecular docking simulation of lauric acid (1) using PyRx 0.8. The structure determination of antibacterial compound by spectroscopic methods resulted in an active compound 1 as lauric acid. The in vitro evaluation of antibacterial activity compound 1 showed the MIC and MBC of 78.13 & 156.3 ppm and 1250 & 2500 ppm against S. sanguinis and in S. mutans, respectively. Further analysis in silico evaluation as MurA Enzyme inhibitor, lauric acid (1) has a binding affinity of -5.2 Kcal/mol those higher than fosfomycin. Lauric acid showed the potential as a new natural antibacterial agent through MurA inhibition in bacterial cell wall biosynthesis.
No related grants have been discovered for Ika Wiani Hidayat.