Amino Acids Composition of Non-Structural Protein in SARS-CoV-2 the Cause of COVID-19 Pandemic

Suprianto Suprianto, Ni Kadek Dewi Permatasari, Gusti Ayu Kadek Yunita Safitri

Abstract


The transmission of COVID-19 is one of the global problems that has caused many deaths. This pandemic was caused by SARS-CoV-2, which has several non-structural proteins (nsp1-nsp16). The non-structural proteins in SARS-CoV-2 have different amino acid compositions. The purpose of this study was to analyze the amino acid composition of SARS-CoV-2. This study used computational methods in silico analysis to analyze the amino acid composition of the target protein. The target protein sequence database was obtained from the NCBI website with the identity number NC_045512.2. Non-structural protein with the shortest amino acid length is owned by nsp7 (83 aa) with a molecular weight of 9239.34 Daltons, nsp9 (113 aa) with a molecular weight of 12377.54, and nsp1 (180 aa) with a molecular weight of 19774.35, while non-structural proteins with amino acid composition the longest is found in nsp3 (1945 aa) with a molecular weight of 217241.50 Daltons, nsp12 (932 aa) with a molecular weight of 106654.88 Daltons and nsp2 (638 aa) with a molecular weight of 70507.81 Daltons. The amino acid composition of each target protein varies in length, weight, and frequency. Information obtained from this reasearch result can be used as the basis for studying the characteristics of the non-structural protein in SARS-CoV-2, which causes the COVID-19 pandemic based on the composition of the constituent amino acids.


Keywords


COVID-19; SARS-CoV-2; In Silico

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References


Abdullah, A., Hidayat, T., & Yusefi, V. (2013). Profil Asam Amino dan Asam Lemak Kerang Bulu (Anadara antiquata). Masyarakat Pengolahan Hasil Perikanan Indonesia, 159(2).

Ah, A. K., NR, H., M, A., & ST, Z. (2020). Preprocessing of the Candidate Antiviral Drugs against COVID-19 in Models of SARS cov2 Targets. La Prensa Medica Argentina, 106(2). https://doi.org/10.47275/0032-745x-240

Astuti, I., & Ysrafil. (2020). Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2): An overview of viral structure and host response. Diabetes and Metabolic Syndrome: Clinical Research and Reviews, 14(4), 407–412. https://doi.org/10.1016/j.dsx.2020.04.020

Azhar, M. (2016). Biomolekul SeL Karbohidrat, Protein, dan Enzim. UNP Press, Padang, pp. 1-247.

Begum, F., Mukherjee, D., Das, S., Thagriki, D., Tripathi, P. P., Banerjee, A. K., & Ray, U. (2020). Specific mutations in SARS-CoV2 RNA dependent RNA polymerase and helicase alter protein structure, dynamics and thus function: Effect on viral RNA replication. BioRxiv. https://doi.org/10.1101/2020.04.26.063024

Chabibi, M., Puryatni, A., & Sujuti, H. (2017). Hubungan Kadar Sistein , Kadar Interleukin ( IL ) -1 dan Lama Hari Rawat pada Anak Gizi Buruk. Jurnal Kedokteran Brawijaya, 29(3), 249–254.

Chaudhuri, A. (2020). Comparative analysis of non structural protein 1 of SARS-COV2 with SARS-COV1 and MERS-COV: An in silico study. BioRxiv. https://doi.org/10.1101/2020.06.09.142570

Faridah, F., Mumpuni, E., & Yunanto, Y. I. (2019). In-silico Analysis of Chemical Compounds in Green Tea Working on Activators PPAR-γ as Antiobesity. Jurnal Ilmu Kefarmasian Indonesia, 17(2), 251. https://doi.org/10.35814/jifi.v17i2.763

Handayani, D., Hadi, D. R., Isbaniah, F., Burhan, E., & Agustin, H. (2020). Penyakit Virus Corona 2019. Jurnal Respirologi Indonesia, 40(2), 119–129.

Herman, R., & Putri, D. H. (2015). Analisis Struktur Protein Selubung Virus Dengue Serotipe 3 Pada Genotipe Yang Sama Dengan Clade Berbeda. Jurnal Biotek Medisiana Indonesia, 4(2), 43–50.

Kiptiyah, K. (2018). Embriologi Dalam Al-Qur’an: Kajian Pada Proses Penciptaan Manusia. Ulul Albab Jurnal Studi Islam, 8(2), 163. https://doi.org/10.18860/ua.v8i2.6201

Moriska, M., Lubis, G., Herman, R. B., Moriska, M., Lubis, G., & Herman, R. B. (2016). Hubungan antara Kadar Total Triptofan Plasma dan Indeks Massa Tubuh dengan Gejala Depresi dan Skor. Sari Pediatri, 17(5), 373–378.

Narayanan, K., Ramirez, S. I., Lokugamage, K. G., & Makino, S. (2015). Coronavirus nonstructural protein 1: Common and distinct functions in the regulation of host and viral gene expression. Virus Research, 202, 89–100. https://doi.org/10.1016/j.virusres.2014.11.019

Shereen, M. A., Khan, S., Kazmi, A., Bashir, N., & Siddique, R. (2020). COVID-19 infection: Origin, transmission, and characteristics of human coronaviruses. Journal of Advanced Research. https://doi.org/10.1016/j.jare.2020.03.005

Sugiyono. 2004, Kimia Pangan. Fakultas Teknik, Universitas Negeri Yogyakarta, Indonesia.

Suprianto., Trianto, M., Alam, N., & Kirana, N. G. A. G. C. (2020). Karakter Morfologi dan Analisis Daerah Conserved Gen Elongation Factor 1α (EF1α) pada Lepidotrigona terminata. Metamorfosa:Journal of Biological Sciences, 7(2), 30–39. https://doi.org/10.24843/metamorfosa.2020.v07.i02.p05

Suprianto, & Budiarsa, I. M. (2020). COVID-19 : Analisis In-Silico Struktur Tersier nsp1 dan nsp2. Jurnal Kesehatan Manarang, 2, 1–8.

Suprianto, Budiarsa, M., & Dhafir, F. (2020). 3D Structure of VP1 Structural Protein on Enterovirus A71 Using Swiss-Model. Bioeduscience: Jurnal Pendidikan Biologi Dan Sains, 4(1), 37–47. https://doi.org/10.29405/j.bes/4137-474353

V’kovski, P., Gerber, M., Kelly, J., Pfaender, S., Ebert, N., Lagache, S. B., Simillion, C., Portmann, J., Stalder, H., Gaschen, V., Bruggmann, R., Stoffel, M., Heller, M., Dijkman, R., & Thiel, V. (2019). Determination of host proteins composing the microenvironment of coronavirus replicase complexes by proximity-labeling. Elife, 8, 1–30. https://doi.org/10.7554/eLife.42037

Wu, F., Zhao, S., Yu, B., Chen, Y. M., Wang, W., Song, Z. G., Hu, Y., Tao, Z. W., Tian, J. H., Pei, Y. Y., Yuan, M. L., Zhang, Y. L., Dai, F. H., Liu, Y., Wang, Q. M., Zheng, J. J., Xu, L., Holmes, E. C., & Zhang, Y. Z. (2020). A new coronavirus associated with human respiratory disease in China. Nature, 579(7798), 265–269. https://doi.org/10.1038/s41586-020-2008-3.




DOI: http://dx.doi.org/10.30870/educhemia.v6i1.9220

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