Identification of sequence motifs for the protein components of type IX secretion system

Porphyromonas gingivalis is the bacterium responsible for chronic periodontitis, a severe periodontal disease. Virulence factors produced by this bacterium are secreted by the Type IX Secretion System (T9SS). The specific functions for each protein component of the T9SS have yet to be characterized...

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Main Authors:	Reeki Emrizal, Nor Azlan Nor Muhammad
Format:	Article
Language:	English
Published:	Penerbit Universiti Kebangsaan Malaysia 2018
Online Access:	http://journalarticle.ukm.my/12914/ http://journalarticle.ukm.my/12914/ http://journalarticle.ukm.my/12914/1/02%20Reeki%20Emrizal.pdf

id	ukm-12914
recordtype	eprints
spelling	ukm-129142019-05-15T10:56:09Z http://journalarticle.ukm.my/12914/ Identification of sequence motifs for the protein components of type IX secretion system Reeki Emrizal, Nor Azlan Nor Muhammad, Porphyromonas gingivalis is the bacterium responsible for chronic periodontitis, a severe periodontal disease. Virulence factors produced by this bacterium are secreted by the Type IX Secretion System (T9SS). The specific functions for each protein component of the T9SS have yet to be characterized thus limiting our understanding of the mechanisms associated with the translocation and modification processes of the T9SS. This study aims to identify the sequence motifs for each T9SS component and predict the functions associated with each discovered motif using motif comparisons. We extracted the sequences of 20 T9SS components from the P. gingivalis proteome that were experimentally identified to be important for T9SS function and used them for homology searching against fully sequenced bacterial proteomes. We developed a rigorous pipeline for the identification of seed sequences for each protein family of T9SS components. We verified that each selected seed sequence are true members of the protein family hence sharing conserved sequence motifs using profile Hidden Markov Models. The motifs for each T9SS component are identified and compared to motifs in the Pfam database. The discovered motifs for 11 components with known functions matched the motifs associated with the reported functions. We also suggested the putative functions for four components. PorM and PorW might form the putative energy transduction complex. PorP and PorT might be the putative O-deacylases. The identified motifs for five components matched the motifs associated with functions that related/unrelated to the T9SS. Penerbit Universiti Kebangsaan Malaysia 2018-12 Article PeerReviewed application/pdf en http://journalarticle.ukm.my/12914/1/02%20Reeki%20Emrizal.pdf Reeki Emrizal, and Nor Azlan Nor Muhammad, (2018) Identification of sequence motifs for the protein components of type IX secretion system. Sains Malaysiana, 47 (12). pp. 2941-2950. ISSN 0126-6039 http://www.ukm.my/jsm/malay_journals/jilid47bil12_2018/KandunganJilid47Bil12_2018.html
repository_type	Digital Repository
institution_category	Local University
institution	Universiti Kebangasaan Malaysia
building	UKM Institutional Repository
collection	Online Access
language	English
description	Porphyromonas gingivalis is the bacterium responsible for chronic periodontitis, a severe periodontal disease. Virulence factors produced by this bacterium are secreted by the Type IX Secretion System (T9SS). The specific functions for each protein component of the T9SS have yet to be characterized thus limiting our understanding of the mechanisms associated with the translocation and modification processes of the T9SS. This study aims to identify the sequence motifs for each T9SS component and predict the functions associated with each discovered motif using motif comparisons. We extracted the sequences of 20 T9SS components from the P. gingivalis proteome that were experimentally identified to be important for T9SS function and used them for homology searching against fully sequenced bacterial proteomes. We developed a rigorous pipeline for the identification of seed sequences for each protein family of T9SS components. We verified that each selected seed sequence are true members of the protein family hence sharing conserved sequence motifs using profile Hidden Markov Models. The motifs for each T9SS component are identified and compared to motifs in the Pfam database. The discovered motifs for 11 components with known functions matched the motifs associated with the reported functions. We also suggested the putative functions for four components. PorM and PorW might form the putative energy transduction complex. PorP and PorT might be the putative O-deacylases. The identified motifs for five components matched the motifs associated with functions that related/unrelated to the T9SS.
format	Article
author	Reeki Emrizal, Nor Azlan Nor Muhammad,
spellingShingle	Reeki Emrizal, Nor Azlan Nor Muhammad, Identification of sequence motifs for the protein components of type IX secretion system
author_facet	Reeki Emrizal, Nor Azlan Nor Muhammad,
author_sort	Reeki Emrizal,
title	Identification of sequence motifs for the protein components of type IX secretion system
title_short	Identification of sequence motifs for the protein components of type IX secretion system
title_full	Identification of sequence motifs for the protein components of type IX secretion system
title_fullStr	Identification of sequence motifs for the protein components of type IX secretion system
title_full_unstemmed	Identification of sequence motifs for the protein components of type IX secretion system
title_sort	identification of sequence motifs for the protein components of type ix secretion system
publisher	Penerbit Universiti Kebangsaan Malaysia
publishDate	2018
url	http://journalarticle.ukm.my/12914/ http://journalarticle.ukm.my/12914/ http://journalarticle.ukm.my/12914/1/02%20Reeki%20Emrizal.pdf
first_indexed	2023-09-18T20:03:40Z
last_indexed	2023-09-18T20:03:40Z
_version_	1777407015833829376

Identification of sequence motifs for the protein components of type IX secretion system

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