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Research Articles

Identification and structural studies of natural inhibitors against SARS-CoV-2 viral RNA methyltransferase (NSP16)

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Pages 13965-13975 | Received 03 Jun 2021, Accepted 18 Oct 2021, Published online: 12 Nov 2021

References

  • Alqahtani, S. (2017). In silico ADME-Tox modeling: Progress and prospects. Expert Opinion on Drug Metabolism & Toxicology, 13(11), 1147–1158. https://doi.org/10.1080/17425255.2017.1389897
  • Ayati, N., Saiyarsarai, P., & Nikfar, S. (2020). Short and long term impacts of COVID-19 on the pharmaceutical sector. Daru: Journal of Faculty of Pharmacy, Tehran University of Medical Sciences, 28(2), 799–805. https://doi.org/10.1007/s40199-020-00358-5
  • Bowers, K.J., Chow, D.E., Xu, H., Dror, R.O., Eastwood, M.P., Gregersen, B.A., Klepeis, J.L., Kolossvary, I., Moraes, M.A., Sacerdoti, F.D. and Salmon, J.K., editors. (2006). Scalable Algorithms for Molecular Dynamics Simulations on Commodity Clusters. SC '06: Proceedings of the 2006 ACM/IEEE Conference on Supercomputing, 11-17 November.
  • Chen, Y., Su, C., Ke, M., Jin, X., Xu, L., Zhang, Z., Wu, A., Sun, Y., Yang, Z., Tien, P. and Ahola, T. (2011). Biochemical and structural insights into the mechanisms of SARS coronavirus RNA ribose 2′-O-methylation by nsp16/nsp10 protein complex. PLoS pathogens, 7(10), e1002294.
  • Chen, X., & Yu, B. (2020). First two months of the 2019 Coronavirus Disease (COVID-19) epidemic in China: Real-time surveillance and evaluation with a second derivative model. Global Health Research and Policy, 5(7), 7.
  • Cui, J., Li, F., & Shi, Z.-L. (2019). Origin and evolution of pathogenic coronaviruses. Nature Reviews Microbiology, 17(3), 181–192. https://doi.org/10.1038/s41579-018-0118-9
  • Denison, M. R., Graham, R. L., Donaldson, E. F., Eckerle, L. D., & Baric, R. S. (2011). Coronaviruses: An RNA proofreading machine regulates replication fidelity and diversity. RNA Biology, 8(2), 270–279. https://doi.org/10.4161/rna.8.2.15013
  • Dhama, K., Patel, S. K., Sharun, K., Pathak, M., Tiwari, R., Yatoo, M. I., Malik, Y. S., Sah, R., Rabaan, A. A., Panwar, P. K., Singh, K. P., Michalak, I., Chaicumpa, W., Martinez-Pulgarin, D. F., Bonilla-Aldana, D. K., & Rodriguez-Morales, A. J. (2020). SARS-CoV-2 jumping the species barrier: Zoonotic lessons from SARS, MERS and recent advances to combat this pandemic virus. Travel Medicine and Infectious Disease, 37, 101830–101830.
  • Dyall, J., Gross, R., Kindrachuk, J., Johnson, R. F., Olinger, G. G., Jr., Hensley, L. E., Frieman, M. B., & Jahrling, P. B. (2017). Middle East respiratory syndrome and severe acute respiratory syndrome: Current therapeutic options and potential targets for novel therapies. Drugs, 77(18), 1935–1966.
  • Furuichi, Y. (2015). Discovery of m(7)G-cap in eukaryotic mRNAs. Proceedings of the Japan Academy. Series B, Physical and Biological Sciences, 91, 394–409.
  • Genheden, S., & Ryde, U. (2015). The MM/PBSA and MM/GBSA methods to estimate ligand-binding affinities. Expert opinion on drug discovery, 10(5), 449–461.
  • Halgren, T. A., Murphy, R. B., Friesner, R. A., Beard, H. S., Frye, L. L., Pollard, W. T., & Banks, J. L. (2004). Glide: A new approach for rapid, accurate docking and scoring. 2. Enrichment factors in database screening. Journal of Medicinal Chemistry, 47(7), 1750–1759.
  • Kadioglu, O., Saeed, M., Greten, H. J., & Efferth, T. (2021). Identification of novel compounds against three targets of SARS CoV-2 coronavirus by combined virtual screening and supervised machine learning. Computers in Biology and Medicine, 133, 104359. https://doi.org/10.1016/j.compbiomed.2021.104359
  • Khanal, P., Chikhale, R., Dey, Y. N., Pasha, I., Chand, S., Gurav, N., Ayyanar, M., Patil, B. M., & Gurav, S. (2021). Withanolides from Withania somnifera as an immunity booster and their therapeutic options against COVID-19. Journal of Biomolecular Structure and Dynamics, 1–14. https://doi.org/10.1080/07391102.2020.1869588
  • Krafcikova, P., Silhan, J., Nencka, R., & Boura, E. (2020). Structural analysis of the SARS-CoV-2 methyltransferase complex involved in RNA cap creation bound to sinefungin. Nature Communications, 11(1), 3717. https://doi.org/10.1038/s41467-020-17495-9
  • Lucas, M., Karrer, U., Lucas, A., & Klenerman, P. (2001). Viral escape mechanisms-escapology taught by viruses. International Journal of Experimental Pathology, 82(5), 269–286. https://doi.org/10.1046/j.1365-2613.2001.00204.x
  • Nakagawa, S., & Miyazawa, T. (2020). Genome evolution of SARS-CoV-2 and its virological characteristics. Inflammation and Regeneration, 40, 17. https://doi.org/10.1186/s41232-020-00151-6
  • Nugraha, R. V., Ridwansyah, H., Ghozali, M., Khairani, A. F., & Atik, N. (2020). Traditional herbal medicine candidates as complementary treatments for COVID-19: A review of their mechanisms, Pros and Cons. Evidence-Based Complementary and Alternative Medicine: eCAM, 2020, 2560645.
  • Pattar, S. V., Adhoni, S. A., Kamanavalli, C. M., & Kumbar, S. S. (2020). In silico molecular docking studies and MM/GBSA analysis of coumarin-carbonodithioate hybrid derivatives divulge the anticancer potential against breast cancer. Beni-Suef University Journal of Basic and Applied Sciences, 9(1), 36.
  • Paramasivam, A. (2020). RNA 2′-O-methylation modification and its implication in COVID-19 immunity. Cell Death Discovery, 6(1), 118.
  • Prasansuklab, A., Theerasri, A., Rangsinth, P., Sillapachaiyaporn, C., Chuchawankul, S., & Tencomnao, T. (2021). Anti-COVID-19 drug candidates: A review on potential biological activities of natural products in the management of new coronavirus infection. Journal of Traditional and Complementary Medicine, 11(2), 144–157. https://doi.org/10.1016/j.jtcme.2020.12.001
  • Ramanathan, A., Robb, G. B., & Chan, S.-H. (2016). mRNA capping: Biological functions and applications. Nucleic Acids Research, 44(16), 7511–7526. https://doi.org/10.1093/nar/gkw551
  • Romano, M., Ruggiero, A., Squeglia, F., Maga, G., & Berisio, R. (2020). A structural view of SARS-CoV-2 RNA replication machinery: RNA synthesis, proofreading and final capping. Cells, 9, 1267.
  • Rosas-Lemus, M., Minasov, G., Shuvalova, L., Inniss, N. L., Kiryukhina, O., Wiersum, G., Kim, Y., Jedrzejczak, R., Maltseva, N. I., Endres, M., Jaroszewski, L., Godzik, A., Joachimiak, A., & Satchell, K. J. F. (2020). The crystal structure of nsp10-nsp16 heterodimer from SARS-CoV-2 in complex with S-adenosylmethionine. bioRxiv: The Preprint Server for Biology. 2020.2004.2017.047498.
  • Sharma, A., Tiwari, S., Deb, M. K., & Marty, J. L. (2020). Severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2): A global pandemic and treatment strategies. International Journal of Antimicrobial Agents, 56(2), 106054–106054. https://doi.org/10.1016/j.ijantimicag.2020.106054
  • Tazikeh-Lemeski, E., Moradi, S., Raoufi, R., Shahlaei, M., Janlou, M. A. M., & Zolghadri, S. (2020). Targeting SARS-COV-2 non-structural protein 16: a virtual drug repurposing study. Journal of Biomolecular Structure and Dynamics, 39(13), 4633–4646.
  • Wu, C., Liu, Y., Yang, Y., Zhang, P., Zhong, W., Wang, Y., Wang, Q., Xu, Y., Li, M., Li, X., Zheng, M., Chen, L., & Li, H. (2020). Analysis of therapeutic targets for SARS-CoV-2 and discovery of potential drugs by computational methods. Acta Pharmaceutica Sinica B, 10(5), 766–788. https://doi.org/10.1016/j.apsb.2020.02.008
  • Xian, Y., Zhang, J., Bian, Z., Zhou, H., Zhang, Z., Lin, Z., & Xu, H. (2020). Bioactive natural compounds against human coronaviruses: A review and perspective. Acta Pharmaceutica Sinica B, 10(7), 1163–1174. https://doi.org/10.1016/j.apsb.2020.06.002
  • Yoshimoto, F. K. (2020). The proteins of severe acute respiratory syndrome coronavirus-2 (SARS CoV-2 or n-COV19), the cause of COVID-19. The protein journal, 39(3), 198–216.
  • Zheng, J. (2020). SARS-CoV-2: An emerging coronavirus that causes a global threat. International Journal of Biological Sciences, 16(10), 1678–1685. https://doi.org/10.7150/ijbs.45053
  • Zimmermann, P., & Curtis, N. (2020). Coronavirus infections in children including COVID-19: An overview of the epidemiology, clinical features, diagnosis, treatment and prevention options in children. The Pediatric Infectious Disease Journal, 39(5), 355–368.
  • Zimmermann, P., & Curtis, N. (2020). COVID-19 in children, pregnancy and neonates: A review of epidemiologic and clinical features. The Pediatric Infectious Disease Journal, 39(6), 469–477.

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