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All Journal VALENSI Jurnal Natur Indonesia Majalah Kedokteran Bandung Indonesian Journal of Pharmaceutical Science and Technology Chimica et Natura Acta Indonesian Journal of Chemistry Tarbawi: Jurnal Pendidikan dan Pemikiran Islam CHEDS: Journal of Chemistry, Education, and Science Jurnal Ilmiah Berkala: Sains dan Terapan Kimia al Kimiya : Jurnal Ilmu Kimia dan Terapan Kimia Padjadjaran

Ari Hardianto

Universitas Padjadjaran

Author-ID : 275372

Religion Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Computer Science & IT Education Environmental Science Materials Science & Nanotechnology Medicine & Pharmacology Other

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Sintesis Tiga Peptida Bergugus Pelindung sebagai Prekursor Komponen Vaksin Influenza Universal Subroto, Toto; Hardianto, Ari; Kahari, Abdul Alim; Pradnjaparamita, Tika
Jurnal Natur Indonesia Vol 15, No 2 (2013)
Publisher : Lembaga Penelitian dan Pengabdian kepada Masyarakat Universitas Riau

Current highly effective conventional vaccine to halt the spread of bird flu has not been invented yet because of susceptiblemutation of influenza virus. In spite of undergoing mutation which causes the amino acid sequence change, influenzaviruses maintain conservation at ectodomain of M2 protein, especially M2e(2-16) (SLLTEVETPIRNEW). The use ofconserved epitope M2e(2-16) in epitope-based vaccine potentially produces universal influenza vaccine. In designingepitope-based vaccine, the M2e(2-16) needs to be coupled with T helper epitope, P25, which is subsequently mentioned asM2e(2-16)-K-P25 (SLLTEVETPIRNEWGKKKL IPNASLIENCTKAEL). The M2e(2-16)-K-P25 was synthesized usingconvergent solid phase peptide synthesis strategy because of the size of the sequence. In this strategy, four peptideprecursors of M2e(2-16)-K-P25; SLLTEVETP (F1), IRNEWGK (F2), KLIPNASLI (F3), and ENCTKAEL (F4); were synthesizedin advance. After the precursors ready, coupling reaction was performed to obtain M2e(2-16)-K-P25. In the previousresearch, F3 has been obtained in high purity through Fmoc/tBu solid phase peptide synthesis method. In this conductedresearch, the three remaining precursors; F1, F2, and F4; were synthesized by the same method. Each peptide was analysedby thin layer chromatography, HPLC, and mass spectroscopy methods. F1, F2 and F4 were successfully synthesized andeach of them was detected at 1490.0, 1874.8 and 1881.9 amu, respectively. However, F1 was not possible to purify becauseof its insolubility in various solvents.

Development of Predictive Model for Helper T Lymphocyte Epitope Binding to HLADRB1* 01:01 Ari Hardianto; Muhammad Yusuf
Chimica et Natura Acta Vol 7, No 2 (2019)
Publisher : Departemen Kimia

Epitopes are essential peptides for immune system stimulation, such as governing helper T lymphocyte (HTL) activation via antigen presentation and recognition. Current predictive models for epitope selection mainly rely on the antigen presentation, although HTLs only recognize 50% of the presented peptides. Thus, we developed a HTL epitope predictor which involves the antigen recognition step. The predictor is specific for epitopes presented by Human Leukocyte Allele (HLA)-DRB1*01:01, which is protective against developing multiple sclerosis and association with autoimmune diseases. As the data set, we used binding register of immunogenic and non-immunogenic HTL peptides related to HLA-DRB1*01:01. The binding registers were obtained from consensus results of two current HLA-binder predictors. Amino acid descriptors were extracted from the binding registers and subjected to random forest algorithm. A threshold optimization were applied to overcome data set imbalance class. In addition, descriptors were screened by using a recursive feature elimination to enhance the model performance. The obtained model shows that the hydrophobicity, steric, and electrostatic properties of epitopes, mainly at center of binding registers, are important for the TCR recognition as well as the HTL epitopes predictive model. The model complements current HLA-DRB1*01:01-binder prediction methods to screen immunogenic HTL epitopes.

Mutation and Phylogenetic Analysis of Spike Glycoprotein of Indonesian Isolates of Severe-Acute-Respiratory-Syndrome-Coronavirus-2 (SARS-CoV-2) Shabarni Gaffar; Syifa Al Fauziah Rahmani; Ari Hardianto
Majalah Kedokteran Bandung Vol 53, No 1 (2021)
Publisher : Faculty of Medicine, Universitas Padjadjaran

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15395/mkb.v53n1.2230

Coronavirus disease-2019 (COVID-19) is an infectious acute respiratory disease caused by SARS-CoV-2. The protein that plays a role in the entry of SARS-CoV-2 into human cells is the surface protein, or the Spike, which is thought to be the effective vaccine target to prevent SARS-CoV-2 infection. Until December 2020, Indonesia has reported 106 SARS-CoV-2 genome sequences identified from COVID-19 positive patients. The purpose of this study was to analyze the phylogenetic relationship of the Spike protein of the Indonesian isolates of SARS-CoV-2 Indonesian, as well as the virus mutations and their effects on changes in the amino acid. The 106 Indonesian SARS-CoV-2 genomes were downloaded from GISAID and the Spike nucleotide and amino acid sequences were analyzed by multiple sequence alignment (MSA) and mutation analysis using the ClustalW method. Phylogenetic trees were created using the Neighbor-Joining method in MEGA-X software. The results showed that 30 of the 106 Indonesian isolate SARS-CoV-2 Spike were 100% identical to the Wuhan-Hu-1, while the remaining 76 had experienced mutations at 1-4 sites. There were 43-point mutations in the Spike gene, 27 of which led to amino acid changes and four had not been reported in other countries. The global mutation D614G was found in 60 Indonesian isolates , of which West Java was the province with the most reports. The phylogenetic of Spike showed that the Indonesian samples have been divided into several branches that are far from Wuhan-Hu-1. This study indicates the possibility of differences in the protein structure of Indonesian isolate SARS-CoV-2 Spike that need to be further studied to manufacture a vaccine against the Indonesian strain of SARS-CoV-2.

Exploring the Potency of Nigella sativa Seed in Inhibiting SARS-CoV-2 Main Protease Using Molecular Docking and Molecular Dynamics Simulations Ari Hardianto; Muhammad Yusuf; Ika Wiani Hidayat; Safri Ishmayana; Ukun Mochammad Syukur Soedjanaatmadja
Indonesian Journal of Chemistry Vol 21, No 5 (2021)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijc.65951

Coronavirus disease (COVID-19) is a pandemic burdening the global economy. It is caused by Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2). Black cumin (Nigella sativa) seed may contain antivirals for the disease since it was reported to inhibit the human immunodeficiency virus (HIV) and hepatitis C virus (HCV). Main protease (Mpro) is a vital protein for viral replication and a promising target for COVID-19 drug development. Hence, in this study, we intended to uncover the potency of N. sativa seed as the natural source of inhibitors for SARS-CoV-2 Mpro. We collected secondary metabolites in N. sativa seed through a literature search and employed Lipinski’s rule of five as the initial filter. Subsequently, virtual screening campaigns using a molecular docking method were performed, with N3 inhibitor and leupeptin as reference ligands. The top hits were analyzed further using a molecular dynamics simulation approach. Molecular dynamics simulations showed that binding affinities of nigellamine A2 and A3 to Mpro are comparable to that of leupeptin, with median values of -43.9 and -36.2 kcal mol–1, respectively. Ultimately, this study provides scientific information regarding N. sativa seeds’ potency against COVID-19 and helps direct further wet experiments.

Selection of the Parameters in the Synthesis of Ethylenediamine-Folate Using the Plackett Burman Design Erianti Siska Purnamasari; Linda Septiana; Ari Hardianto; Ukun Mochammad Syukur Soedjanaatmadja; Anni Anggraeni; Husein Hernadi Bahti
Indonesian Journal of Chemistry Vol 22, No 3 (2022)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijc.68313

This study is concerned with synthesizing ethylenediamine-folate (EDA-Folate), which will then be used as a precursor in synthesizing Gd-PEG-DOTA-Folate, a novel targeted-contrast agent for the diagnosis of cancer, employing the Magnetic Resonance Imaging method. This study aims to determine all the parameters affecting the synthesis of EDA-Folate using the Plackett Burman design. The synthesis method included activation of folic acid using dicyclohexylcarbodiimide and N-Hydroxysuccinimide to result in NHS-Folate, followed by conjugation of ethylenediamine with NHS-Folate to produce EDA-Folate. Analysis of the reaction product confirmed that the reaction product was EDA-Folate. From the resulted data, it can also be concluded that there were four significant parameters (out of the ten parameters studied) in the synthesis of EDA-Folate (with its value presented in the bracket), i.e., time inactivation of NHS-Folate (24 h), stirring rate inactivation of NHS-Folate (300 rpm), the mole of EDA (12 moles), and time of EDA-Folate (12 h). Moreover, the value or desirability of the experimental design was found to be 0.875 (which is < 1.0), meaning that the design will produce optimal conditions and thus the optimal yield of the reaction.

SINTESIS PEPTIDA P251-9 BERGUGUS PELINDUNG DENGAN METODE SINTESIS PEPTIDA FASA PADAT FMOC/TBU MENGGUNAKAN ADITIF OKSIMA Ari Hardianto; Toto Subroto; Unang Supratman
Jurnal Sains dan Terapan Kimia Vol 5, No 2 (2011)
Publisher : Program Studi Kimia, Universitas Lambung Mangkurat

Peptida P25 merupakan epitop yang dapat dengan mudah mengaktivasi sel T penolong. Sel T penolong teraktivasi berperan dalam aktivasi sel B untuk membentuk antibodi. Peptida bahkan protein dapat dibuat dengan metode sintesis peptida fasa padat Fmoc/tBu menggunakan aditif HOBt. Namun sayangnya HOBt memiliki karakter yang mudah meledak. Pada penelitian ini telah berhasil disintesis bagian epitop P25 (peptida P251-9 bergugus pelindung) yang memiliki tingkat kemurnian tinggi dan perolehan 36,4% dengan metode sintesis peptida fasa padat Fmoc/tBu menggunakan aditif oksima pengganti HOBt. Kata kunci: Epitop, P251-9, sintesis peptida fasa padat Fmoc/tBu, oksima.

The Effect of Acetonitrile Solvent on the Quantitative Determination of Europium (III) by Voltammetry and its Optimization using the Box-Behnken Design Uji Pratomo; Ari Hardianto; Yeni Wahyuni Hartati; Husein Hernandi Bahti; Santhy Wyantuti
Jurnal Kimia Valensi Jurnal Kimia VALENSI Volume 8, No. 1, May 2022
Publisher : Syarif Hidayatullah State Islamic University

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15408/jkv.v8i1.22508

There is often a drawback during the determination of Eu in aqueous solvents using the voltammetric method. The current signal from water can reduce that of the element, which causes difficulty while separating the Eu signal from other rare earth elements (REE). Therefore, this study used acetonitrile as a solvent due to its high electrical conductivity and wide potential range. The optimum conditions for the determination of Eu in acetonitrile using the Box-Behnken design include 74.56 seconds deposition time, 0.125 V amplitude modulation, and -2.0 V potential deposition. The platinum electrode's performance showed a recovery value of 98.91% and accuracy and precision (in %RSD) of 96.67% and 1.11%, respectively. Furthermore, detection and quantitation limits of 0.6 mg/L and 5.1 mg/L were recorded from the analysis. It concluded that the differential pulse voltammetry method was applied to determine the presence of Eu in acetonitrile.

Selektivitas Ligan DBDTP Terhadap Isomer Ligan Dbdtp untuk Ekstraksi Logam Tanah Jarang Berdasarkan Kajian Simulasi Dinamika Molekuler Ratna Sari Dewi; Abdul Mutholib; Anni Anggraeni; Hesein H. Bahti; Ari Hardianto; Muhammad Yusuf
al Kimiya: Jurnal Ilmu Kimia dan Terapan Vol 6, No 2 (2019): al Kimiya: Jurnal Ilmu Kimia dan Terapan
Publisher : Department of Chemistry, Faculty of Science and Technology, UIN Sunan Gunung Djati Bandung

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15575/ak.v6i2.6504

Logam tanah jarang (LTJ) merupakan suatu material strategis nasional. Tingkat kebutuhan terhadap LTJ semakin lama semakin meningkat pesat. Pemisahan LTJ dapat menggunakan berbagai metode pemisahan, salah satunya dengan menggunakan ligan pengompleks. Ligan Dibutyl dithiophosphate (DBDTP) memiliki banyak keuntungan ketika digunakan sebagai ekstraktan dalam ekstraksi. Simulasi komputer membutuhkan suatu metode akurat dalam memodelkan sistem yang dikaji. Simulasi sering dilakukan dengan kondisi yang sangat mirip dengan eksperimen, sehingga hasil perhitungan kimia komputasi dapat dibandingkan secara langsung dengan eksperimen. Tujuan dari penelitian ini adalah untuk membandingkan prediksi pemisahan ekstraksi LTJ (Sm dan Gd) menggunakan ligan DBDTP dan isomer ligan DBDTP dengan menghitung kestabilan kompleks berdasarkan dinamika molekuler. Ligan DBDTP dan Isomer ligan DBDTP dibuat dengan program BIOVIA Discovery studio 2016, lalu dihubungkan dengan atom pusat dan dilakukan optimasi energi menggunakan program AMBER 16, kemudian disimulasikan dengan sistem satu pelarut selama 10 ns secara eksplisit..Hasil simulasi kompleks UTJ dengan isomer ligan DBDTP dan tiga air secara dinamika molekuler menunjukkan bahwa semakin kecil radian atom maka semakin kecil nilai energi ikatan dan semakin stabil. Energi untuk masing-masing kompleks LTJ (Sm dan Gd) untuk ligan DBDTP adalah -40,43 dan -121,13 Kkal/mol dan ligan isomer DBDTP sebesar -287,62 dan -438,38 Kkal/mol. Hal ini menunjukkan bahwa kompleks LTJ (Sm dan Gd) dengan isomer ligan DBDTP lebih stabil dibandingkan dengan ligan DBDTP.

MAQASHID AL-QURAN DAN MAQASHID SYARIAH SEBAGAI BASIS PARADIGMA PENDIDIKAN ISLAM DI INDONESIA Hardianto, Ari; Fata, Badrus Samsul
Tarbawi: Jurnal Pendidikan dan Pemikiran Islam Vol 8 No 1 (2025): Tarbawi
Publisher : STAI BINAMADANI

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.51476/tarbawi.v8i1.722

Penelitian ini mengeksplorasi konsep maqashid Al-Qur'an dan maqashid syariah sebagai pendekatan filosofis dan operasional dalam sistem pendidikan di Indonesia. Maqashid Al-Qur'an mengacu pada tujuan utama wahyu Al-Qur'an dalam membimbing manusia menuju kehidupan yang sejahtera di dunia dan akhirat, sedangkan maqashid syariah menekankan perlindungan lima aspek utama kehidupan: agama (hifz al-din), jiwa (hifz al-nafs), akal (hifz al-'aql), keturunan (hifz al-nasl), dan harta (hifz al-mal). Penelitian ini menggunakan pendekatan kualitatif dengan analisis data dari berbagai sumber primer, seperti ayat-ayat Al-Qur'an yang relevan, serta sumber sekunder berupa jurnal, buku, dan dokumen pendidikan di Indonesia. Hasil dari penelitian ini mengkaji relevansi kedua konsep tersebut dalam konteks pendidikan modern di Indonesia, dengan menyoroti bagaimana mereka dapat memengaruhi kurikulum, metodologi pengajaran, dan tujuan pendidikan nasional. Hasilnya adalah penerapan maqashid Al-Qur'an dan maqashid syariah sebagai basis paradigma pendidikan di Indonesia menawarkan solusi untuk menciptakan sistem pendidikan yang holistik dan relevan.

Exploration of Anti-FABP3 Aptamer Conformation Using Coarse-Grained Molecular Dynamics Simulation Aathirah, A Sayyidatina; Hardianto, Ari; Gaffar, Shabarni
Indonesian Journal of Pharmaceutical Science and Technology Vol 12 (2025): Vol. 12 Suppl. 2 (2025)
Publisher : Indonesian Journal of Pharmaceutical Science and Technology

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.24198/ijpst.v12s2.58912

Aptamers have been extensively utilized in the development of diagnostic and therapeutic methodologies for a variety of diseases. Aptamer N13, obtained through the SELEX process in previous research, has been identified as an anti-FABP3 ssDNA aptamer to enhance diagnostic techniques for myocardial infarction. This study provides an in-depth examination of the conformation and structural dynamics of aptamer N13 using in-silico methods. These include secondary structure prediction via DNA-fold, 3D structures modeling through RNA-Composer, and coarse-grained molecular dynamics (MD) simulations with SIRAH AMBER. The 83 μs MD simulation results reveal that the predicted conformation generally struggles to maintain stability, as indicated by the RMSD values and their fluctuations. However, residues 1-50 demonstrate relatively stable conformations, particularly beyond the 40 μs point in the simulation. In contrast, residues 51-90, constituting the free end, exhibit persistent conformational instability. This instability is likely attributable to their single-stranded and free nature compared to the other regions characterized by loops that confer greater stability. Our findings suggest that the predicted conformation from existing tools does not yet provide the most stable reference structure, necessitating further exploration through extended molecular dynamics simulations. While current simulations offer a relatively stable conformational reference, additional simulations are warranted to determine the most stable configuration of the free-end region, thereby elucidating its role in the aptamer’s affinity and specificity

Co-Authors Aathirah, A Sayyidatina Abdul Alim Kahari, Abdul Alim Abdul Mutholib Abdul Mutholib Anni Anggraeni Anni Anggraeni Anni Anggraeni, Anni Badrus Samsul Fata, Badrus Samsul Br Ginting, Ela Riana Erianti Siska Purnamasari Hesein H. Bahti Husein Hernadi Bahti Ika Wiani Janitra, R S Karmina, Putri Linda Septiana Muhammad Yusuf Muhammad Yusuf Muhammad Yusuf Muhammad Yusuf Nst, Hafni Indriati Pratomo, Uji R. Ukun M.S. Soedjanaatmadja Ratna Sari Dewi Ratna Sari Dewi Ratna Sari Dewi Retna Putri Fauzia Rokhmat, Launa Silky Karenindra Safri Ishmayana Santhy Wyantuti Sembiring, Surya Julius Shabarni Gaffar Shabarni Gaffar -, Shabarni Gaffar Sutanto, Cindy Florencia Syafei, Minda Syafina Syifa Al Fauziah Rahmani Tika Pradnjaparamita, Tika Toto Subroto Unang Supratman Yeni Wahyuni Hartati Zahra, Sahlaa Alifah

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