Taxonomic group: bacteria / Bacteroidetes
(Phylum: Bacteroidetes)
Associated disease: periodontitis [ICD11:
DA0C 
]
NCBI PubMed ID: 33804654Publication DOI: 10.3390/pathogens10030374Journal NLM ID: 101596317Publisher: Basel, Switzerland: MDPI AG
Correspondence: wieslaw.swietnicki
hirszfeld.pl
Institutions: Department of Immunology of Infectious Diseases, L. Hirszfeld Institute of Immunology and Experimental Therapy of PAS, ul. R. Wroclaw, Poland, Artificial Intelligence Center, SRI International, Menlo Park, CA, USA
Porphyromonas gingivalis is an oral human pathogen. The bacterium destroys dental tissue and is a serious health problem worldwide. Experimental data and bioinformatic analysis revealed that the pathogen produces three types of lipopolysaccharides (LPS): normal (O-type), anionic (A-type), and capsular (K-type). The enzymes involved in the production of all three types of lipopolysaccharide have been largely identified for the first two and partially for the third type. In the current work, we use bioinformatics tools to predict biosynthetic pathways for the production of the normal (O-type) lipopolysaccharide in the W50 strain Porphyromonas gingivalis and compare the pathway with other putative pathways in fully sequenced and completed genomes of other pathogenic strains. Selected enzymes from the pathway have been modeled and putative structures are presented. The pathway for the A-type antigen could not be predicted at this time due to two mutually exclusive structures proposed in the literature. The pathway for K-type antigen biosynthesis could not be predicted either due to the lack of structural data for the antigen. However, pathways for the synthesis of lipid A, its core components, and the O-type antigen ligase reaction have been proposed based on a combination of experimental data and bioinformatic analyses. The predicted pathways are compared with known pathways in other systems and discussed. It is the first report in the literature showing, in detail, predicted pathways for the synthesis of selected LPS components for the model W50 strain of P. gingivalis.
Porphyromonas gingivalis, LPS biosynthesis, O-type antigen, structure prediction
Structure type: polymer chemical repeating unit
Location inside paper: p. 374-3
The structure in this paper was incorrect:
Compound class: O-polysaccharide
Contained glycoepitopes: IEDB_120354,IEDB_123890,IEDB_130648,IEDB_136105,IEDB_136906,IEDB_137472,IEDB_137473,IEDB_140529,IEDB_141794,IEDB_142488,IEDB_144998,IEDB_146664,IEDB_151528,IEDB_190606,IEDB_225177,IEDB_885823,IEDB_983931,SB_192,SB_21,SB_7
Methods: function analysis of gene clusters, ortholog computation, homology modeling of enzymes
Comments, role: structure OPS from ref. [4] Paramonov et al., Eur. J. Biochem. 2001, 268, 4698-4707, DOI: 10.1046/j.1432-1327.2001.02397.x. Published polymerization frame was shifted for conformity with other records.
Related record ID(s): 9785
NCBI Taxonomy refs (TaxIDs): 1125722Reference(s) to other database(s): GTC:G70509JW
Show glycosyltransferases
There is only one chemically distinct structure:
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