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Molecular Docking and Dynamics Simulation Studies Uncover the Host-pathogen Proteinprotein Interactions in Penaeus Vannamei and Vibrio Parahaemolyticus

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dc.contributor.authorNur Fathiah Rosilan
dc.contributor.authorMuhamad Arif Mohamad Jamali
dc.contributor.authorSiti Aishah Sufira
dc.contributor.authorKhor Waiho
dc.contributor.authorHanafiah Fazhan
dc.contributor.authorNoraznawati Ismail
dc.contributor.authorYeong Yik Sung
dc.contributor.authorZeti-Azura MohamedHussein
dc.contributor.authorAzzmer Azzar Abdul Hamid
dc.contributor.authorNor Afiqah-Aleng
dc.date.accessioned2024-09-05T17:05:02Z
dc.date.available2024-09-05T17:05:02Z
dc.date.issued2024
dc.date.submitted2024-8-31
dc.descriptionPLoS ONE Volume: 19 No:1 (page: 1-21)
dc.description.abstractShrimp aquaculture contributes significantly to global economic growth, and the whiteleg shrimp, Penaeus vannamei, is a leading species in this industry. However, Vibrio parahaemolyticus infection poses a major challenge in ensuring the success of P. vannamei aquaculture. Despite its significance in this industry, the biological knowledge of its pathogenesis remains unclear. Hence, this study was conducted to identify the interaction sites and binding affinity between several immune-related proteins of P. vannamei with V. parahaemolyticus proteins associated with virulence factors. Potential interaction sites and the binding affinity between host and pathogen proteins were identified using molecular docking and dynamics (MD) simulation. The P. vannamei-V. parahaemolyticus protein-protein interaction of Complex 1 (Ferritin-HrpE/YscL family type III secretion apparatus protein), Complex 2 (Protein kinase domain-containing protein-Chemotaxis CheY protein), and Complex 3 (GPCR-Chemotaxis CheY protein) was found to interact with -4319.76, -5271.39, and -4725.57 of the docked score and the formation of intermolecular bonds at several interacting residues. The docked scores of Complex 1, Complex 2, and Complex 3 were validated using MD simulation analysis, which revealed these complexes greatly contribute to the interactions between P. vannamei and V. parahaemolyticus proteins, with binding free energies of -22.50 kJ/mol, -30.20 kJ/mol, and -26.27 kJ/mol, respectively. This finding illustrates the capability of computational approaches to search for molecular binding sites between host and pathogen, which could increase the knowledge of Vibrio spp. infection on shrimps, which then can be used to assist in the development of effective treatment.
dc.identifier.citationur Fathiah Rosilan, Muhamad Arif Mohamad Jamali, Siti Aishah Sufira, Khor Waiho, Hanafiah Fazhan, Noraznawati Ismail, Yeong Yik Sung, Zeti-Azura MohamedHussein, Hamid, A. A. A. H., & Nor Afiqah-Aleng. (2024). Molecular docking and dynamics simulation studies uncover the host-pathogen protein-protein interactions in Penaeus vannamei and Vibrio parahaemolyticus. PLOS ONE, 19(1), 1–21. https://doi.org/10.1371/journal.pone.0297759
dc.identifier.doi10.1371/journal.pone.0297759
dc.identifier.epage22
dc.identifier.issn1932-6203
dc.identifier.issue1
dc.identifier.spage1
dc.identifier.urihttps://journals.plos.org/plosone/article?id=10.1371/journal.pone.0297759
dc.identifier.urihttps://oarep.usim.edu.my/handle/123456789/22485
dc.identifier.urihttps://www.scopus.com/record/display.uri?eid=2-s2.0-85183337266&origin=resultslist&sort=plf-f&src=s&sid=b8d3a8837f684a348cd0b822bb228369&sot=b&sdt=b&s=TITLE-ABS-KEY%28Molecular+docking+and+dynamics+simulation+studies+uncover+the+host-pathogen+protein-protein+interactions+in+Penaeus+vannamei+and+Vibrio+parahaemolyticus%29&sl=167&sessionSearchId=b8d3a8837f684a348cd0b822bb228369&relpos=0
dc.identifier.volume19
dc.language.isoen_US
dc.publisherPlos One
dc.relation.ispartofPloS one
dc.relation.issn1932-6203
dc.relation.journalPLoS ONE
dc.titleMolecular Docking and Dynamics Simulation Studies Uncover the Host-pathogen Proteinprotein Interactions in Penaeus Vannamei and Vibrio Parahaemolyticus
dc.typetext::journal::journal article::research article
dspace.entity.typePublication
oaire.citation.endPage21
oaire.citation.issue1
oaire.citation.startPage1
oaire.citation.volume19
oairecerif.author.affiliation#PLACEHOLDER_PARENT_METADATA_VALUE#
oairecerif.author.affiliationUniversiti Sains Islam Malaysia
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