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All Journal HAYATI Journal of Biosciences Jurnal Teknologi Industri Pertanian Indonesian Journal of Biotechnology Journal of Agromedicine and Medical Sciences Journal of Tropical Biodiversity and Biotechnology Manajemen Pendidikan BERITA BIOLOGI JURNAL BIOLOGI INDONESIA Jurnal Teknologi Laboratorium Jurnal RESTI (Rekayasa Sistem dan Teknologi Informasi) Chimica et Natura Acta Indonesian Journal of Chemistry Jurnal Sinergitas PkM & CSR FaST : Jurnal Sains dan Teknologi Walisongo Journal of Chemistry Menara Perkebunan Jurnal Teknik Informatika (JUTIF) Bioinformatics and Biomedical Research Journal Cermin Dunia Kedokteran Indonesian Journal of Life Sciences Makara Journal of Science Makara Journal of Technology Biosaintifika: Journal of Biology & Biology Education Jurnal Bioteknologi & Biosains Indonesia (JBBI) Cermin Dunia Kedokteran Kesmas: Jurnal Kesehatan Masyarakat Nasional (National Public Health Journal) Jurnal Bioteknologi & Biosains Indonesia Berita Biologi
Arli Aditya Parikesit
Department Of Bioinformatics, School Of Life Sciences, Indonesia International Institute For Life Sciences (i3l), Jakarta, Indonesia
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Civil Engineering, Building, Construction & Architecture Computer Science & IT Earth & Planetary Sciences Economics, Econometrics & Finance Education Electrical & Electronics Engineering Engineering Environmental Science Health Professions Immunology & microbiology Industrial & Manufacturing Engineering Materials Science & Nanotechnology Mechanical Engineering Medicine & Pharmacology Public Health Social Sciences Other

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Journal : BERITA BIOLOGI

 1 
THE PREDICTED STRUCTURE FOR THE ANTI-SENSE SIRNA OF THE RNA POLYMERASE ENZYME (RDRP) GENE OF THE SARS-COV-2 Arli Aditya Parikesit; Rizky Nurdiansyah
BERITA BIOLOGI Vol 19, No 1 (2020)
Publisher : Research Center for Biology-Indonesian Institute of Sciences

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/beritabiologi.v19i1.3849

Abstract

The SARS-CoV-2 or COVID-19 pandemic has reached a new height with an unprecedented infection rate and mortality post-world war II history. However, there is no particular designed drug for COVID-19 up to this point. Thus, there exist three strategies for COVID-19 drug design; drug repurposing option, herbal medicine development, and transcriptomics-based drug lead. As the most underutilized option, transcriptomics-based drug lead could be leveraged to deal with SARS-CoV-2 infection. One of the main methods to block the SARS-CoV-2 infection is to inhibit the RNA polymerase enzyme that is responsible to the viral replication. In this regard, the objective of the strategy is to design the anti-sense siRNA drug and lead to inhibit the mRNA of the RNA Polymerase Enzyme (RdRp) gene that encodes the viral RNA Polymerase of the SARS-CoV-2. The Computer-Aided Drug Design (CADD)-based method was leveraged with sequence retrieval of 24 RdRp gene sequences, multiple sequence alignment, phylogenetic tree reconstruction, 2D/3D RNA structure predictions, and RNA-RNA docking. Both the RNAalifold conserved structure from the RdRp genes and the RNAfold structure of the siRNA for blocking the conserved structure are negative or less than 0 kcal/mol. The predicted RNA docking occurred with the best RMSD score of 22.53 Å, which is beyond the accepted threshold of 10-20 Å. Based on the findings, the 2D/3D structures of both the siRNA and mRNA could be elucidated, and the docking between them is feasible. However, this finding should be elucidated in the wet laboratory setting for the final lead validation. 
Co-Authors Adi Sofyan Ansori, Muhammad Albert Widjaja Aldino Hafidzhah, Muhammad Alhussain, Shaheer Alyaa Farrah Dibha Angelique, Priscilla Arif Nur Muhammad Ansori Bernard, Stefanus Bhat, Nausheen Burkov, Pavel Chandra, Nelson David Agustriawan Dedy Sugiono Deidre Valeska, Margareta Derkho, Marina Dian, Farida Aryani Didik Huswo Utomo Dito Anurogo Dito ANUROGO Dito Anurogo Dito Anurogo Dito Anurogo Dito Anurogo Dito Anurogo, Dito Ema Utami Ezra Bernandus Wijaya Fugaha, Daniel Ryan Gabriela, Vania Gabriele Mustika Kresnia Gabriella Patricia Adisurja Hafidzhah, Muhammad Aldino Heerlie, Devita Mayanda Herdiansyah, Mochammad Aqilah Hutapea, Hotma Martogi Lorensi Imron Imron Jakhmola, Vikash Jeremias Ivan Josephine, Evalina Junaida Astina Karimah, Nihayatul Karimah, Nihayatul Kharisma, Viol Dhea KUSRINI Kusrini, Kusrini Maksim Rebezov Margareta Deidre Valeska Margaretha, Febrina Maria Kiseleva Maulani Wijaya, Renadya Miko Wahyono, Tri Yunis Muhammad Aldino Hafidzhah Muhammad Aldino Handzhah Muhammad Hermawan Widyananda Murtadlo, Ahmad Affan Ali Nadezhda Kenijz Natalia Satya, Putri Gabriella Angel Nelda Aprilia Salim Nihayatul Karimah Patricia Adisurja, Gabriella Patricia, Gabriella Posa, Gabrielle Ann Villar Prakoso, Muhammad Ja'far Pratama, Rico Alexander Putri Gabriella Angel Natalia Satya Rahadian Zainul Ramanto, Kevin Nathanael Ratnasari, Nanda Risqia Pradana Renadya Maulani Wijaya Ridarto, Afif Maulana Yusuf Riza A PUTRANTO Rizky Nurdiansyah Rizky, Wahyu Choirur Ryan Fugaha, Daniel Ryan Wijaya Ryan Wijaya, Ryan Satrio Wibowo Scherbakov, Pavel Sepiashvili, Ekaterina Shemuel, Josia Sofy Permana Sri Wahyuningsih Stefanus Bernard Sudaryo, Mondastri Korib Sugiono, Dedy Svetlana Artyukhova Tambunan, Usman Sumo Friend Teguh Hari Sucipto, Teguh Hari Theo A Tochary Tochary, Theo A. Usman Sumo Friend Tambunan Utomo, Didik Huswo Utomo, Didik Huswo Vikash Jakhmola Viol Dhea Kharisma Wicaksono, Adhityo Wijaya, Renadya Maulani Yanuargi, Bayu Yulia Matrosova