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All Journal Bioma : Jurnal Biologi Indonesia
Ma'arif, Naufal
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Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Immunology & microbiology

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In Silico Study of the potency of Drynaria rigidula (Sw.) Bedd. (Polypodiaceae) compounds in breast cancer therapy targeting AKT1 protein pathways Ma'arif, Naufal; Sefti Adelia; Alifia Dwinanti Hakamashe; Fadila Nur’anfa Putri; Nailul Rahmi Aulya; Supriyatin
Bioma Vol. 20 No. 2 (2024): Bioma
Publisher : LPPM Universitas Negeri Jakarta

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21009/bioma.v20i2.49340

Abstract

Breast cancer is the second most prevalent cancer globally. One of the key pathways involved in breast cancer is the PI3K/Akt mechanism. A natural compound with potential that has not been extensively studied is Drynaria rigidula (Sw.) Bedd., a Polypodiaceous fern native to Indonesia and is commonly used in traditional medicine. This study aims to explore the potential of Drynaria rigidula as an anti-breast cancer agent. The method used in silico analysis by collecting data from several web servers such as SwissADME (https://www.swissadme.ch/) with the parameters Lipinski’s rule of five, Veber, Egan, and Way2Drug for biological activity. The protein used in this study is AKT1 (PDB ID: 6HHF), obtained from the RCSB database. Molecular docking analysis was conducted using PyRx software with visualization performed in Biovia Discovery Studio. The results showed that several compounds, such as 3,4-dihydroxybenzoic acid, fern-9(11) ene, Stigmasterol, dan Campesterol, had RMSD values < 3.0 Å and binding affinities of -9.4, -9.2, -7.6, and -7.6 respectively. These results were compared with the control ligand AZD5363 and doxorubicin, which had a binding affinity from each other are -8.3 and -7.4. Therefore, the docking results indicate that compounds from Drynaria rigidula are predicted to have potential as anti-cancer agents.
ANALISIS KEANEKARAGAMAN GEN MYOSTATIN (MSTN) SECARA IN-SILICO PADA CATTLE DI INDONESIA Ma'arif, Naufal; Hanum Isfaeni; Gunawan, Asep
Bioma Vol. 19 No. 1 (2023): Bioma
Publisher : LPPM Universitas Negeri Jakarta

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21009/Bioma19(1).3

Abstract

Cattle is one of the largest livestock products in Indonesia. The purpose of this study was to determine the diversity of the myostatin (MSTN) gene found in several cattle in Indonesia. This research was a descriptive analysis research based on several literature studies. Gene data was taken from the National Center for Biotechnology Information (NCBI). The gene data taken were from several species such as Bos indicus, Bos indicus×Bos taurus, and Bos taurus. Meanwhile, Bubalus bubalis, Capra hircus, and Cervis sp. were selected as outgroups. DNA sequence data analysis was aligned using MEGA XI software. MSTN gene parameters showed results between the kinship of several cattle in Indonesia. From these results it can be found that there were still several species of cattle in Indonesia that were not yet found in the NCBI database on the MSTN gene. For example, Madura cattle (Bos javanicus), PO Kebumen, PO Aceh, and several livestock products that do not yet have the MSTN gene characterization database. Therefore, to improve the quality of beef in Indonesia, it is necessary to characterize the MSTN gene in several species that are not yet in the database as a benchmark for the quality level of cattle in Indonesia.
Co-Authors Alifia Dwinanti Hakamashe Asep Gunawan Fadila Nur’anfa Putri Hanum Isfaeni Nailul Rahmi Aulya Sefti Adelia Supriyatin