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Program Studi Pendidikan Biologi, Universitas Tadulako
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Computer Science & IT Education Environmental Science Health Professions Immunology & microbiology Materials Science & Nanotechnology Mathematics Nursing Physics Public Health

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ANALISIS IN SILICO PROTEIN CLOCK (CIRCADIAN LOCOMOTOR OUTPUT CYCLES KAPUT) PADA Patagioenas fasciata monilis Suprianto, Suprianto; Budiarsa, I Made
JST (Jurnal Sains dan Teknologi) Vol 10, No 1 (2021)
Publisher : Universitas Pendidikan Ganesha

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.23887/jst-undiksha.v10i1.24888

Abstract

CLOCK merupakan protein penting yang  berperan dalam adaptasi ekologi dan fisiologi organisme. Studi sebelumnya menjelaskan bahwa CLOCK memiliki pengaruh terhadap perubahan perilaku hewan. Penelitian ini bertujuan untuk menganalisis protein CLOCK pada burung Patagioenas fasciata monilis. Metode yang digunakan pada penelitian ini adalah metode homologi. Hasil struktur model berdasarkan assessment menunjukkan akurasi model yang mendekati struktur sebenarnya. Struktur model yang diperoleh memiliki berat 96200,04 Daltons, tiga daerah struktur beta-sheet, lima daerah struktur alpha-helix, 1,47 % daerah outliers,  dua residu C-Beta Deviations, nilai identity 94,43 %, 34 sudut buruk, nilai QMEAN  -1,69 dan nilai GMQE 0,31. Kata Kunci : CLOCK, Patagioenas fasciata monilis, in silico, homologi
Karakter Morfologi dan Analisis Daerah Conserved Gen Elongation Factor 1? (EF1?) pada Lepidotrigona terminata Suprianto Suprianto; Manap Trianto; Nur Alam; Ni Gusti Ayu Galuh Candra Kirana
Metamorfosa: Journal of Biological Sciences Vol 7 No 2 (2020)
Publisher : Prodi Magister Ilmu Biologi, Fakultas MIPA, Universitas Udayana

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.24843/metamorfosa.2020.v07.i02.p05

Abstract

Lepidotrigona terminata is one of the stingless bees of the Apidae family. Morphological characteristics of L. terminata species are very rare due to their genetic characteristics. The elongation factor 1? gene has been studied in the growth and development of both morphology and molecular systematics. This study aims to describe the morphological character of L. terminata from Temanggung Regency, Central Java with a purposive sampling method and analyze the conserved gene elongation factor 1? area to explain genetic variation based on the proportion of DNA bases analyzed in silico and computational methods using a database in GenBank with number access DQ813123.1, DQ813125.1 and DQ813124.1. The results of the analysis explained that the morphological character of L. terminata is very difficult to distinguish from several other Lepidotrigona groups and it is suspected that the genetic trait of the elongation factor 1? gene has an influence on the morphological character of L. terminata. The proportion of DNA bases of the target gene has a length of about 682 bp to 780 bp with the highest proportion of bases found in Adenine (A) around 216 bp (31.67%) to 251 bp (32.18%), the least number of bases found in Guanin (G) around 121 bp (17.74%) to 140 bp (17.95%) and has twelve conserved gene regions. The data obtained from the research provide basic information to study the morphological characteristics and conserved regions of the elongation factor 1? gene in L. terminata. keywords: L. terminata, morphology, elongation factor 1?, in silico, computational methods
Study of NTF-3 (Neurotrophic Factor 3) Gene Information in Columbidae by In Silico S. Suprianto; I Made Budiarsa; Fatmah Dhafir; Ni Kadek Dewi Permatasari; Gusti Ayu Kadek Yunita Safitri
BERKALA SAINSTEK Vol 9 No 3 (2021)
Publisher : Universitas Jember

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.19184/bst.v9i3.24163

Abstract

Neurotrophin Factor 3 (NTF3) is one of the genes that plays an important role in the regulation of the neural systems of vertebrate animals, this gene has a special function in explaining the survival factors of some vertebrate animals. Based on the information obtained from GenBank, the nucleotide sequence of the NTF-3 gene in several vertebrate animals has been known and some of the data obtained have not been studied further for research purposes in adding information related to the molecular character of the NTF-3 gene, such as the NTF-3 gene in Columbidae. Columbidae is a group of birds that have quite diverse species variations, the number of species in columbidae will be very helpful in obtaining data on comparisons of the genetic character of the NTF3 gene. The purpose of this study was to analyze and describe the information on the NTF-3 gene (Neurotrophic Factor 3) in Columbidae through the in silico approach with computational methods. The NTF3 gene nucleotide sequences in Columbidae showed a fairly high level of similarity to the base sequences. This illustrates the fairly close proximity between each species. Geotrygon Montana is a species of Columbidae which has variations of the Base sequence which is quite different from other species. Evaluation of the model structure shows good stability of each target protein, all evaluation results describe a good structure, meaning that the conformation of each target sequence is in accordance with the sequence, so that the structure that is built has high accuracy with the actual model. The results of this research study can be a special description in explaining the genetic characteristics of several Columbidae species for the purposes of conservation measures or efforts to preserve Columbidae species at the molecular and population genetic levels.
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
EduChemia (Jurnal Kimia dan Pendidikan) Vol 6, No 1 (2021)
Publisher : Department of Chemical Education Faculty of Teacher Training and Education Universitas Su

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (447.815 KB) | DOI: 10.30870/educhemia.v6i1.9220

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.
Studi Literatur: Hutan Desa Namo Sebagai Hutan Pendidikan Dalam Menuju Sustainable Development Goals (SDGs) 2030 Suprianto; Fatmah Dhafir
Jurnal Hutan dan Masyarakat VOLUME 12 NOMOR 2, DESEMBER 2020
Publisher : Fakultas Kehutanan, Universitas Hasanuddin

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (372.32 KB) | DOI: 10.24259/jhm.v12i2.11233

Abstract

The forest area of ​​Namo Village has good potential to be developed as an educational forest. The utilization of forest conservation as an educational forest area is an alternative for the SDG's 2030 program in realizing social and economic welfare. The purpose of this study was to describe the study of information regarding the planning of the Namo Village forest program as an educational forest through a qualitative descriptive method. Forest area management in Namo Village is adjusted based on the Specific Objectives Forest Area. Forest area policies with specific objectives is a policy that does not create the perception that there is an overlap between those in charge of area management activities, policies that regulate clearly and in detail the technical rules in the implementation of area management, the absence of sectoral egos or institutional egos between respective policy makers. Educational forests are one of the alternatives to developing conservation-based nature tourism areas by utilizing potential resources and involving local communities. Educational forests will become State assets for the special interests of research, education, culture, conservation and local wisdom of local communities, so that the State has an investment in economic progress to support SDG's 2030 programs. Various data and information contained in this scientific paper can be used as reference in identifying needs and planning the location of educational forests in Sigi Regency, Central Sulawesi Key words:Namo, Forest Education, SDG's 2030  
Struktur 3D Protein Struktural VP1 pada Enterovirus A71 Menggunakan Swiss-Model Suprianto; Made Budiarsa; Fatmah Dhafir
BIOEDUSCIENCE Vol 4 No 1 (2020): BIOEDUSCIENCE
Publisher : Universitas Muhammadiyah Prof. Dr. Hamka

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (642.404 KB) | DOI: 10.29405/j.bes/4137-474353

Abstract

Background: Protein struktural VP1 berperan sebagai pemain kunci dalam patogenesis, memiliki keunikan yang cukup menarik untuk dikaji dengan mempelajari sifat dan fungsi protein struktural VP1. Penelitian ini bertujuan untuk memprediksi struktur tiga dimensi protein VP1 pada EV-A71. Metode: Protein target diperoleh dari server UniProt dengan kode akses A0A097EV89 menggunakan template 4cey.1.A (PDB ID) dianalisis secara in silico melalui metode homologi menggunakan server SWISS-MODEL. Hasil: analisis penelitian menunjukkan protein target dan template memiliki identity 95,29 % dan tersusun dari 297 asam amino dengan nilai QMEAN -2,15. Protein struktural VP1 pada Ramachandran Plots memiliki struktur stabil, residu non-glisin pada daerah outlier hanya berkisar 0,34 % (A53 ALA) dengan Nilai rotamer outliers 1,61 %. Kesimpulan: Model struktur tiga dimensi protein yang diteliti memiliki struktur stabil dan informasi yang didapatkan berguna untuk penelitian lebih lanjut dalam pengembangan vaksin penyakit yang disebabkan oleh EV-A71.
COVID-19: Analisis in-Silico Struktur Tersier Nsp1 dan Nsp2 pada SARS-CoV-2 Suprianto Suprianto; I Made Budiarsa
Jurnal Kesehatan Manarang Vol 6 No Khusus (2020): Oktober 2020
Publisher : Politeknik Kesehatan Kemenkes Mamuju

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.33490/jkm.v6iKhusus.269

Abstract

The spread of the COVID-19 pandemic has captured a lot of attention from the global community. This pandemic was caused by SARS-CoV-2 by producing nonstructural proteins (nsp1-16). This study aims to analyze the tertiary structure of nsp1 and nsp2 in SARS-CoV-2 in-silico. The target proteins nsp1 and nsp2 have access codes YP_009725297.1 and YP_009725298.1 obtained from NCBI. The amino acid composition of nsp1 and nsp2 is 19774.35 Daltons and 70507.81 Daltons, respectively. The nsp1 tertiary structure produces a model structure with a percentage of 64%, 19% disordered area, 42% alpha-helix, 13% beta strand, 92.17% model verification (passed), 74.0% favored region and 6.4% outliers area (stable). The nsp2 tertiary structure produced a model structure with a percentage of 9%, 17% disordered area, 36% alpha-helix, 27% beta strand, 64.29% model verification (failed), 76.0% favored region and 16.4% outliers area (unstable). The stability of nsp1 has very good potential compared to nsp2, the validation of the structure obtained can be the basis for studying the development of the vaccine design for the SARS-CoV-2 virus that causes COVID-19.
Co-Authors Fatmah Dhafir Gusti Ayu Kadek Yunita Safitri Gusti Ayu Kadek Yunita Safitri I Made Budiarsa Laksono Trisnantoro Manap Trianto Ni Gusti Ayu Galuh Candra Kirana Ni Kadek Dewi Permatasari Ni Kadek Dewi Permatasari Nur Alam