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All Journal HAYATI Journal of Biosciences Jurnal Pengolahan Hasil Perikanan Indonesia bionature AL KAUNIYAH BERKALA SAINSTEK BioWallacea Journal of Biological Research Jurnal Sains dan Inovasi Perikanan/Journal of Fishery and Innovation (JSIPi) Jurnal Biodjati Biosaintifika: Journal of Biology & Biology Education Berkala Penelitian Agronomi Jurnal Biofiskim: Pendidikan dan Pembelajaran IPA Majalah Pengabdian Indonesia Jurnal Pusat Kolaborasi Pengabdian Kepada Masyarakat
Sri Ambardini
Jurusan Biologi FMIPA Universitas Halu Oleo
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Journal : Jurnal Biodjati

 1 
Analysis of the Molecular Structure of Lipase-Dependent Chaperone from Ralstonia pickettii Strain BK6 Azwar Syah, Muhamad; Ambardini, Sri; Jamili, Jamili; Muzuni, Muzuni; Trisandy, Darul
Jurnal Biodjati Vol 9, No 2 (2024): November
Publisher : UIN Sunan Gunung Djati Bandung

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15575/biodjati.v9i2.33770

Abstract

Several biotechnology industries are exploring the characteristics of lipase-dependent chaperones due to their distinctive biochemical traits. This study aimed to employ bioinformatics to analyze the molecular structure of Ralstonia picketii BK6's lipase-dependent chaperon (LipRM). The sequence mapping and amino acid distribution were examined using BioEdit (version 7.0.9.1). SignalP 5.0 and Interpro are employed for signal peptide detection, whereas Swiss-Model and VMD 1.9.2 are used for molecular dynamics modelling. The results showed that the Shine-Dalgarno sequence was discovered in the LipRM promoter, seven nucleotides upstream of the initiation codon (AUG) with the 5'-AGGAGA-3', and has a terminator region that facilitates the formation of a secondary structure. The protein's 3D structure prediction results indicate differences in the alpha helix chains (residues 166-174 and 254-271) between LipRM and the reference lipase. LipRM's molecular structure comprises a detachable signal peptide, and with variations in helix alpha chain conformation and ligand geometry.
Analysis of the Molecular Structure of Lipase-Dependent Chaperone from Ralstonia pickettii Strain BK6 Azwar Syah, Muhamad; Ambardini, Sri; Jamili, Jamili; Muzuni, Muzuni; Trisandy, Darul
Jurnal Biodjati Vol 9 No 2 (2024): November
Publisher : UIN Sunan Gunung Djati Bandung

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15575/biodjati.v9i2.33770

Abstract

Several biotechnology industries are exploring the characteristics of lipase-dependent chaperones due to their distinctive biochemical traits. This study aimed to employ bioinformatics to analyze the molecular structure of Ralstonia picketii BK6's lipase-dependent chaperon (LipRM). The sequence mapping and amino acid distribution were examined using BioEdit (version 7.0.9.1). SignalP 5.0 and Interpro are employed for signal peptide detection, whereas Swiss-Model and VMD 1.9.2 are used for molecular dynamics modelling. The results showed that the Shine-Dalgarno sequence was discovered in the LipRM promoter, seven nucleotides upstream of the initiation codon (AUG) with the 5'-AGGAGA-3', and has a terminator region that facilitates the formation of a secondary structure. The protein's 3D structure prediction results indicate differences in the alpha helix chains (residues 166-174 and 254-271) between LipRM and the reference lipase. LipRM's molecular structure comprises a detachable signal peptide, and with variations in helix alpha chain conformation and ligand geometry.
Co-Authors Adi Parman Rudia, La Ode Ahmad, Sitti Wirdhana Amirullah -, Amirullah Anggraini, Wa Ode Linda Rahayu ARDIANSYAH ARDIANSYAH Asrul Sani Azwar Syah, Muhamad Cahyanti, Kartika Dwi Denofia Denofia DIRVAMENA BOER, DIRVAMENA Fahyuddin Fahyuddin, Fahyuddin Iba, Wa Indrawati Indrawati Indrawati INDRAYANI INDRAYANI Jamili Jamili Jamili Jeni Kali, Yustina Rante Karya, Adi La Ode Iman Sulaiman La Ode Muhamad Munadi Marlina, Wa Ode Leni Muhiddin, Nurhayani Haji Muhsin Muhsin Muhsin Muzuni, Muzuni Nasaruddin Nilam Sari Nur Arfa Yanti Nur, Indriyani Nurhayani Haji Muhiddin Padang, Crasilia Yanti Pariakan, Arman Prasetya, Wandy Murti Raharjo, Sapto Raharjo Ratnaen, Ratnaeni Rita Ningsih Rita Ningsih, Rita Rudia, La Ode Adi Parman Sinta, Wa Sitti Wirdhana Ahmad Sulaiman, La Ode Iman Suleman, Darwis Suriana Suriana Suriana Syah, Muhamad Azwar Syahrir Trisandy, Darul Yamin Yaddi