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Analysis of the Molecular Structure of Lipase-Dependent Chaperone from Ralstonia pickettii Strain BK6

Jurnal Biodjati · Vol. 9 No. 2 (2024) · pp. 266–279

DOI
10.15575/biodjati.v9i2.33770
ISSN
2541-4208, 2548-1606
Published
2024-11-30
Publisher
UIN Sunan Gunung Djati Bandung
Language
eng

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.

Keywords

Collaboration network of the authors

40 authors · 99 co-authorship links · 1 across different organisations · showing the 40 most connected

Hover or tap a name to highlight its co-authors. Double-click to open the author's page.

  • Universitas Halu Oleo
  • Jordan University of Science and Technology
  • Universitas Muslim Buton
  • Affiliation unknown
  • Different organisations
  • Same organisation
  • Affiliation unknown
  • Thicker line = more joint articles · bigger circle = more articles
Show as table
Co-authorOrganisationJoint articles
Jahidin JahidinAffiliation unknown5
Suriana SurianaAffiliation unknown4
Wa Ode HarlisUniversitas Halu Oleo3
Dirvamena BoerUniversitas Halu Oleo3
Fahyuddin FahyuddinAffiliation unknown3
Wa IbaUniversitas Halu Oleo2
Analuddin AnaluddinUniversitas Halu Oleo2
Muhsin MuhsinAffiliation unknown2
Warhamni WarhamniAffiliation unknown2
Asrul SaniUniversitas Halu Oleo2
Nur Arfa YantiAffiliation unknown2
Sahidin SahidinAffiliation unknown2
Sitti Wirdhana AhmadAffiliation unknown2
Ahmad MustafaJordan University of Science and Technology1
Ma’ruf KasimUniversitas Halu Oleo1
Abdul Muis BalubiAffiliation unknown1
Wardha JalilAffiliation unknown1
Wa Ode Linda Rahayu AnggrainiUniversitas Halu Oleo1
Yusnaini YusnainiUniversitas Halu Oleo1
Muh Yamin EffendieAffiliation unknown1
Darwis SulemanUniversitas Halu Oleo1
Alias AliasUniversitas Halu Oleo1
Wa SintaAffiliation unknown1
Asmudin AsmudinAffiliation unknown1
Barti BartiAffiliation unknown1
Fitriani FitrianiAffiliation unknown1
Hasbia HasbiaAffiliation unknown1
La Ode KaharudinUniversitas Muslim Buton1
Nurdiana NurdianaAffiliation unknown1
Rimba HamidUniversitas Halu Oleo1
Asriwaty AsriwatyAffiliation unknown1
La HasaniAffiliation unknown1
Nurul Amalia HaerunAffiliation unknown1
Nilam SariAffiliation unknown1
Crasilia Yanti PadangAffiliation unknown1

Affiliations come from OpenAlex; journal OAI-PMH metadata carries none. Authors without an OpenAlex ID are matched by name, which can merge or split people.

Metadata source: OAI-PMH (metadata jurnal) https://journal.uinsgd.ac.id/index.php/biodjati/oai, first harvested 7 Nov 2026, last seen 8 Nov 2026.
Original metadata (oai_dc) 
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	<dc:title xml:lang="en-US">Analysis of the Molecular Structure of Lipase-Dependent Chaperone from Ralstonia pickettii Strain BK6</dc:title>
	<dc:creator>Azwar Syah, Muhamad</dc:creator>
	<dc:creator>Ambardini, Sri</dc:creator>
	<dc:creator>Jamili, Jamili</dc:creator>
	<dc:creator>Muzuni, Muzuni</dc:creator>
	<dc:creator>Trisandy, Darul</dc:creator>
	<dc:subject xml:lang="en-US">bioinformatics</dc:subject>
	<dc:subject xml:lang="en-US">lipase-dependent chaperone</dc:subject>
	<dc:subject xml:lang="en-US">modelling</dc:subject>
	<dc:description xml:lang="en-US">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.</dc:description>
	<dc:publisher xml:lang="en-US">UIN Sunan Gunung Djati Bandung</dc:publisher>
	<dc:date>2024-11-30</dc:date>
	<dc:type>info:eu-repo/semantics/article</dc:type>
	<dc:type>info:eu-repo/semantics/publishedVersion</dc:type>
	<dc:type xml:lang="en-US">Peer-reviewed Article</dc:type>
	<dc:format>application/pdf</dc:format>
	<dc:identifier>https://journal.uinsgd.ac.id/index.php/biodjati/article/view/33770</dc:identifier>
	<dc:identifier>10.15575/biodjati.v9i2.33770</dc:identifier>
	<dc:source xml:lang="en-US">Jurnal Biodjati; Vol. 9 No. 2 (2024): November; 266-279</dc:source>
	<dc:source xml:lang="id-ID">Jurnal Biodjati; Vol 9 No 2 (2024): November; 266-279</dc:source>
	<dc:source>2541-4208</dc:source>
	<dc:source>2548-1606</dc:source>
	<dc:language>eng</dc:language>
	<dc:relation>https://journal.uinsgd.ac.id/index.php/biodjati/article/view/33770/11894</dc:relation>
	<dc:rights xml:lang="en-US">Copyright (c) 2024 Jurnal Biodjati</dc:rights>
</oai_dc:dc>