scholarly journals Anti-Parkinson Drug Biperiden Inhibits Enzyme Acetylcholinesterase

2017 ◽  
Vol 2017 ◽  
pp. 1-5 ◽  
Author(s):  
Adam Kostelnik ◽  
Alexander Cegan ◽  
Miroslav Pohanka
Keyword(s):  
Acetic Acid ◽  
Protein Structure ◽  
Binding Energy ◽  
Mechanism Of Action ◽  
In Silico ◽  
In Silico Prediction ◽  
Disease Treatment ◽  
Weak Inhibitor ◽  
Lead Structure ◽  
Experimental Findings

Biperiden is a drug used in Parkinson disease treatment and it serves also as an antiseizures compound in organophosphates poisoning. It acts as antagonist of muscarinic receptor activated by acetylcholine while the enzyme acetylcholinesterase (AChE) cleaves acetylcholine in synaptic junction into choline and acetic acid. This enzyme is inhibited by various compounds; however there has not been proposed evidence about interaction with biperiden molecule. We investigated this interaction using standard Ellman’s assay and experimental findings were critically completed with an in silico prediction by SwissDock docking software. Uncompetitive mechanism of action was revealed from Dixon plot and inhibition constant (Ki) was calculated to be 1.11 mmol/l. The lowest predicted binding energy was −7.84 kcal/mol corresponding to H-bond between biperiden molecule and Tyr 341 residuum in protein structure of AChE. This interaction seems to be further stabilized by π-π interaction with Tyr 72, Trp 286, and Tyr 341. In conclusion, biperiden appears as a very weak inhibitor but it can serve as a lead structure in a pharmacological research.

scholarly journals In silico prediction of chemical mechanism of action via an improved network-based inference method

2016 ◽  
Vol 173 (23) ◽  
pp. 3372-3385 ◽  
Author(s):  
Zengrui Wu ◽  
Weiqiang Lu ◽  
Dang Wu ◽  
Anqi Luo ◽  
Hanping Bian ◽  
...  
Keyword(s):  
Mechanism Of Action ◽  
In Silico ◽  
Chemical Mechanism ◽  
In Silico Prediction ◽  
Inference Method

scholarly journals Simulasi Docking Molekuler Senyawa Potensial Tanaman Justicia Gendarussa Burm.f. Sebagai Antidiabetes

2020 ◽  
Vol 48 (2) ◽  
pp. 117-122
Author(s):  
Rosa Adelina
Keyword(s):  
Hydrogen Bonding ◽  
Molecular Docking ◽  
Binding Energy ◽  
Mechanism Of Action ◽  
In Silico ◽  
Research Method ◽  
Natural Compounds ◽  
Reference Drug ◽  
Energy Score

Abstract Indonesia has various natural compounds that are potential as antidiabetics but the mechanism of action was not yet known in detail, one of them is Justicia gendarussa. Justicia gendarussa is known as Gandarusa contains kaempferol and naringenin. In this study, the two compounds were simulated with glucokinase enzyme using a glibenclamide as a standard reference drug to determine their potential action as an antidiabetic. The research method was carried out using molecular docking computation simulation (in silico). The results showed the binding energy scores of glibenclamide, naringenin, and kaempferol to glucokinase enzymes are -22.0917; -22,1866; and -22,6328 kcal/mol, respectively. The hydrogen bonding plays in binding the enzyme. These results showed the binding energy score was not different significantly. Thus, naringenin and kaempferol had the same antidiabetic potential as glibenclamide. Keywords: Justicia gendarussa, antidiabetes, molecular docking, naringenin, kaempferol Abstrak Berbagai senyawa alam Indonesia berpotensi sebagai antidiabetes namun belum diketahui mekanisme aksinya secara rinci, salah satu contohnya Justicia gendarussa Burm.f.. Tanaman Justicia gendarussa yang dikenal baik dengan nama Gandarusa, mengandung kaempferol dan naringenin. Pada penelitian ini, kedua senyawa disimulasikan terhadap enzim glukokinase menggunakan senyawa pembanding glibenklamid yang merupakan obat referensi untuk mengetahui potensinya sebagai antidiabetes. Metode penelitian dilakukan menggunakan simulasi komputasi docking molekuler (in silico). Hasil docking molekuler menunjukkan skor energi ikatan glibenklamid, naringenin dan kaempferol terhadap enzim glukokinase masing-masing sebesar -22,0917; -22,1866 ; dan -22,6328 kkal/mol. Ikatan yang berperan adalah ikatan hydrogen. Hasil penelitian menunjukkan nilai skor energi ikatan yang tidak berbeda signifikan. Dengan demikian naringenin dan kaempferol memiliki potensi sebagai antidiabetes yang sama dengan glibenklamid. Kata kunci: Justicia gendarussa, antidiabetes, docking molekuler, naringenin, kaempfero

scholarly journals ANTI-METHICILLIN RESISTANT STAPHYLOCOCCUS AUREUS POTENTIAL OF PHYTOCHEMICALS IN TERMINALIA CATAPPA AND THEIR PROPOSED IN SILICO MECHANISM OF ACTION

2019 ◽  
pp. 133-137
Author(s):  
LOKESH RAVI ◽  
DIVYA JINDAM ◽  
SUGANYA KUMARESAN ◽  
VENKATESH SELVARAJ ◽  
JAYARAMA REDDY
Keyword(s):  
Staphylococcus Aureus ◽  
Binding Energy ◽  
Hydrogen Bonds ◽  
Mechanism Of Action ◽  
In Silico ◽  
Ethanol Extract ◽  
Docking Study ◽  
Ligand Docking ◽  
Methicillin Resistant ◽  
Antibacterial Potential

Objective: The objective of this study was to investigate the antibacterial potential of leaves of this Terminalia catappa and identify the mechanism of action for those phytochemicals present in this leaves. Methods: Phytochemicals were extracted using maceration and the extracts were analyzed using gas chromatography–mass spectrometry (GC-MS) to identify the chemical structure. Antibacterial potential was evaluated using agar well diffusion. The phytochemicals were subjected to in silico protein–ligand docking study to identify the mechanism of action. Results: In vitro antibacterial study demonstrated that the ethanol extract of the leaves has significant antibacterial activity against Staphylococcus aureus (SA) and methicillin-resistant SA (MRSA) with a zone of inhibition of 16 mm and 18 mm, respectively, at a concentration of 2 mg/ml. The chloroform and hexane extracts of the leaves did not demonstrate any significant activity. Based on GC-MS analysis and literature review, 12 phytochemicals were identified to be present in the ethanol extract of the T. catappa leaves. These molecules were subjected to in silico protein–ligand docking study against common drug target proteins of SA and MRSA. Among the studied ligands, granatin A demonstrated the highest significance to inhibit topoisomerase IV with a binding energy of −11.3 kcal/mol and produced 7 hydrogen bonds, followed by punicalin with −10.7 kcal/mol binding energy toward penicillin-binding protein 2a with 6 hydrogen bonds. Conclusion: Phytochemicals of T. catappa demonstrates significant drug ability potential against drug-resistant MRSA pathogen and demands further investigation on their individual activity and mechanism.

In Silico Prediction of Mechanism of Action for Cancer Therapeutics

2013 ◽  
Vol 32 (8) ◽  
pp. 735-741
Author(s):  
E. A. Whitebay ◽  
K. A. M. Gasem ◽  
B. J. Neely ◽  
J. D. Ramsey
Keyword(s):  
Mechanism Of Action ◽  
In Silico ◽  
Cancer Therapeutics ◽  
In Silico Prediction

Speciation of cultivated temperate and tropical Pleurotus species –an in silico prediction using conserved sequences

2019 ◽  
Vol 28 (1) ◽  
Author(s):  
Anupam Barh ◽  
V P Sharma ◽  
Shwet Kamal ◽  
Mahantesh Shirur ◽  
Sudheer Kumar Annepu ◽  
...  
Keyword(s):  
In Silico ◽  
In Silico Prediction ◽  
Conserved Sequences ◽  
Pleurotus Species

Lead Molecule Prediction and Characterization for Designing MERS-CoV 3C-like Protease Inhibitors: An In silico Approach

2018 ◽  
Vol 15 (1) ◽  
pp. 82-88 ◽  
Author(s):  
Md. Mostafijur Rahman ◽  
Md. Bayejid Hosen ◽  
M. Zakir Hossain Howlader ◽  
Yearul Kabir
Keyword(s):  
Binding Energy ◽  
Middle East ◽  
Virtual Screening ◽  
In Silico ◽  
Screening Method ◽  
Middle East Respiratory Syndrome ◽  
Cytochrome P450 Enzymes ◽  
Drug Molecules ◽  
Essential Enzyme ◽  
Reduced Toxicity

Background: 3C-like protease also called the main protease is an essential enzyme for the completion of the life cycle of Middle East Respiratory Syndrome Coronavirus. In our study we predicted compounds which are capable of inhibiting 3C-like protease, and thus inhibit the lifecycle of Middle East Respiratory Syndrome Coronavirus using in silico methods. </P><P> Methods: Lead like compounds and drug molecules which are capable of inhibiting 3C-like protease was identified by structure-based virtual screening and ligand-based virtual screening method. Further, the compounds were validated through absorption, distribution, metabolism and excretion filtering. Results: Based on binding energy, ADME properties, and toxicology analysis, we finally selected 3 compounds from structure-based virtual screening (ZINC ID: 75121653, 41131653, and 67266079) having binding energy -7.12, -7.1 and -7.08 Kcal/mol, respectively and 5 compounds from ligandbased virtual screening (ZINC ID: 05576502, 47654332, 04829153, 86434515 and 25626324) having binding energy -49.8, -54.9, -65.6, -61.1 and -66.7 Kcal/mol respectively. All these compounds have good ADME profile and reduced toxicity. Among eight compounds, one is soluble in water and remaining 7 compounds are highly soluble in water. All compounds have bioavailability 0.55 on the scale of 0 to 1. Among the 5 compounds from structure-based virtual screening, 2 compounds showed leadlikeness. All the compounds showed no inhibition of cytochrome P450 enzymes, no blood-brain barrier permeability and no toxic structure in medicinal chemistry profile. All the compounds are not a substrate of P-glycoprotein. Our predicted compounds may be capable of inhibiting 3C-like protease but need some further validation in wet lab.

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