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All Journal VALENSI Jurnal Ilmiah Farmasi CHEMISTRY PROGRESS Mutiara Medika: Jurnal Kedokteran dan Kesehatan Jurnal Riset Industri Hasil Hutan Pharmascience Berkala Kedokteran Jurnal Ilmiah Kedokteran Wijaya Kusuma Jurnal Teknologi Agro-Industri Acta Biochimica Indonesiana Jurnal Pengabdian Kepada Masyarakat (Mediteg) Jurnal Jejaring Matematika dan Sains Jurnal Ilmiah Berkala: Sains dan Terapan Kimia Gunung Djati Conference Series Jurnal AGRISEP: Kajian Masalah Sosial Ekonomi Pertanian dan Agribisnis Jurnal Natural Scientiae (JNS)
Noer Komari
Jurusan Kimia FMIPA Universitas Lambung Mangkurat
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Journal : Jurnal Jejaring Matematika dan Sains

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Pemodelan Protein dengan Homology Modeling menggunakan SWISS-MODEL: Protein Modeling with Homology Modeling using SWISS-MODEL Komari, Noer; Hadi, Samsul; Suhartono, Eko
Jurnal Jejaring Matematika dan Sains Vol. 2 No. 2 (2020): Edisi Desember 2020
Publisher : Fakultas Matematika dan Ilmu Pengetahuan Alam, Universitas Palangka Raya

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.36873/jjms.2020.v2.i2.408

Abstract

The three-dimensional (3D) structure of proteins is necessary to understand the properties and functions of proteins. Determining protein structure by laboratory equipment is quite complicated and expensive. An alternative method to predict the 3D structure of proteins in the in silico method. One of the in silico methods is homology modeling. Homology modeling is done using the SWISS-MODEL server. Proteins that will be modeled in the 3D structure are proteins that do not yet have a structure in the RCSB PDB database. Protein sequences were obtained from the UniProt database with code A0A0B6VWS2. The results showed that there were two models selected, namely model-1 with the PDB code template 1q0e and model-2 with the PDB code template 3gtv. The results of sequence alignment and model visualization show that model-1 and model-2 are identical. The evaluation and assessment of model-1 on the Ramachandran Plot have a Favored area of ??97.36%, a MolProbity score of 0.79, and a QMEAN value is 1.13. Model-1 is a good 3D protein structure model.
Pemodelan Protein dengan Homology Modeling menggunakan SWISS-MODEL: Protein Modeling with Homology Modeling using SWISS-MODEL Noer Komari; Samsul Hadi; Eko Suhartono
Jurnal Jejaring Matematika dan Sains Vol. 2 No. 2 (2020): Edisi Desember 2020
Publisher : Fakultas Matematika dan Ilmu Pengetahuan Alam, Universitas Palangka Raya

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.36873/jjms.2020.v2.i2.408

Abstract

The three-dimensional (3D) structure of proteins is necessary to understand the properties and functions of proteins. Determining protein structure by laboratory equipment is quite complicated and expensive. An alternative method to predict the 3D structure of proteins in the in silico method. One of the in silico methods is homology modeling. Homology modeling is done using the SWISS-MODEL server. Proteins that will be modeled in the 3D structure are proteins that do not yet have a structure in the RCSB PDB database. Protein sequences were obtained from the UniProt database with code A0A0B6VWS2. The results showed that there were two models selected, namely model-1 with the PDB code template 1q0e and model-2 with the PDB code template 3gtv. The results of sequence alignment and model visualization show that model-1 and model-2 are identical. The evaluation and assessment of model-1 on the Ramachandran Plot have a Favored area of ??97.36%, a MolProbity score of 0.79, and a QMEAN value is 1.13. Model-1 is a good 3D protein structure model.
Co-Authors A.A. Ketut Agung Cahyawan W Abdullah Abdullah Ahmad Budi Junaidi Akmal Rizky Harun Amalia Khairunnisa Aminuddin Prahatama Putra Anang Kadarsah Anjang Yudistri Annisa Rizqi Dwi Oktaviani Awin Fauzi Azidi Irwan Bambang Setiawan Dahlena Ariyani Desiya Ramayanti Azhara Dewi Umaningrum Diah Aulia Rosanti Dona Marisa Dwi Rasy Mujiyanti Dwi Rasy Mujiyanti Eko Suhartono Eko Suhartono Eko Suhartono Eko Suhartono Erfanur Adlhani Etty Novita Fitri Hady Amrullah HANNA HABIBAH Hanna Habibah Hanna Habibah Ina Risnawati INDAH SAPUTRI Indah Saputri Indah Saputri INDAH SETIAWATI Indah Setiawati Indah Setiawati Kamilia Mustikasari Karlina Karlina Khoerul Anwar Kholifatu Rosyidah Laksono Trisnantoro Lisda Hayatie Lusi Thenios Mardi Santoso Maria Dewi Astuti Marisa Shellyanti Megayulia Nooryaneti Melina Arini Sylvia Dewi Mirza Maulana Ahmad Nadia Sasanti NAFISAH Nafisah Nafisah Nafisah Nafisah Ningtyas Indah Sari Noor Malinda Nurhidayati Pratiwi Puji Astuty Rabiatul Adawiyah Rahmi Hardini Retno Agnestisia ROBIATUL ADAWIYAH Rusdiana Rusdiana Rusdiana Rusdiana Salmon Charles Pardomuan Tua Siahaan Samsul Hadi SARMILA Sarmila Sarmila Sarmila Sarmila Siti Juliati Siti Ratna Jinan F Sri Hendriani Sujatmiko Sujatmiko Sujatmiko Sujatmiko Sunardi Sunardi sunardi sunardi Sunardi, Ph.D., Sunardi Taslim Ersam Tri Ayu Novelena Umi Baroroh Lili Utami Utami Irawati Veronica Shania Aprillia Widiyanto, Gregorius Yenny Era Nova