دورية أكاديمية
In-silico natural product database mining for novel neuropilin-1 inhibitors: molecular docking, molecular dynamics and binding energy computations
| العنوان: | In-silico natural product database mining for novel neuropilin-1 inhibitors: molecular docking, molecular dynamics and binding energy computations |
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| المؤلفون: | Mahmoud A. A. Ibrahim, Sara S. M. Ali, Khlood A. A. Abdeljawaad, Alaa H. M. Abdelrahman, Gamal A. Gabr, Ahmed M. Shawky, Gamal A. H. Mekhemer, Peter A. Sidhom, Paul W. Paré, Mohamed-Elamir F. Hegazy |
| المصدر: | Journal of Taibah University for Science, Vol 17, Iss 1 (2023) |
| بيانات النشر: | Taylor & Francis Group, 2023. |
| سنة النشر: | 2023 |
| المجموعة: | LCC:Science (General) |
| مصطلحات موضوعية: | Cancer, neuropilin-1 (NRP1), docking calculations, MD simulations, pharmacokinetic study, Science (General), Q1-390 |
| الوصف: | In the search for new metabolite inhibitors, a natural product activity and species source (NPASS) database was virtually screened using AutoDock software to identify potential NRP1 inhibitors. NPASS compounds complexed with NRP1 were subjected to molecular dynamics (MD) simulations. Furthermore, NPASS-NRP1 binding affinities were calculated using the MM-GBSA approach. Based on calculated binding energies, kamolonol (NPC146388) demonstrated lower NRP1 binding affinity than the co-crystallized HRG/Arg-1 ligand with binding energy (ΔGbinding) values of –34.5 and –32.0 kcal/mol, respectively. Structural and energetic analysis showed high stability for kamolonol and HRG/Arg-1 with NRP1 over the 200 ns MD simulations. The studied physicochemical properties of kamolonol and HRG/Arg-1 revealed that these compounds obey Lipinski's rule of five. ADMET characteristics of kamolonol and HRG/Arg-1 were predicted, and kamolonol showed better ADMET properties compared to HRG/Arg-1. Based on these results, kamolonol is a promising NRP1 inhibitor worthy of further experimental assays as anti-carcinoma remediation. |
| نوع الوثيقة: | article |
| وصف الملف: | electronic resource |
| اللغة: | English |
| تدمد: | 16583655 1658-3655 |
| Relation: | https://doaj.org/toc/1658-3655 |
| DOI: | 10.1080/16583655.2023.2182623 |
| URL الوصول: | https://doaj.org/article/220d62db63ee48d4affea6ff1e339d03 |
| رقم الأكسشن: | edsdoj.220d62db63ee48d4affea6ff1e339d03 |
| قاعدة البيانات: | Directory of Open Access Journals |
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Full Text Finder | تدمد: | 16583655 |
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| DOI: | 10.1080/16583655.2023.2182623 |