title: Structural significance of the β1K396 residue found in the Porphyromonas gingivalis sialidase β-propeller domain: a computational study with implications for novel therapeutics against periodontal disease.
abstract: Porphyromonas gingivalis sialidase activity is associated with virulence and initiated by sialic acid (SA) binding to the β-propeller domain (BPD). Sialidase BPD is structurally conserved in various bacterial species and the protein binding interfaces have the tendency to form salt bridges, whereas uncommitted charged residues may affect binding and protein structure. However, it is not clear whether the sialidase BPD of varying strains of the same bacterial species differ, particularly with regards to salt bridge formation. Here, we determined the P. gingivalis ATCC 33277 and W50 sialidase homology models and sialidase activities, while the putative salt bridge residues found in the sialidase BPDs were compared. We established that both ATCC 33277 and W50 have different sialidase homology models and activities, whereas, the BPD (β1-6) is structurally conserved with most salt bridge-forming residues following a common orientation. Moreover, β2D444-β6K338 distance measurement in ATCC 33277 (5.99 Å) and W50 (3.09 Å) differ, while β1K396A substitution alters the β2D444-β6K338 distance measurements in ATCC 33277 (3.09 Å) and W50 (3.01 Å) consequentially affecting each model. P. gingivalis plays a major role in periodontitis induction and its virulence is greatly influenced by the sialidase enzyme wherein the sialidase BPD is highly conserved. Our results suggest that alterations in the salt bridge formation within the BPD interface may affect the P. gingivalis sialidase structure. This would imply that disrupting the salt bridge formation within the P. gingivalis sialidase BPD could serve as a potential therapeutic strategy for the treatment of P. gingivalis-related periodontitis.
authors.affiliation: Department of Microbiology, Nihon University School of Dentistry , Tokyo, Japan .
authors.forename: Marni E
authors.initials: ME
authors.lastname: Cueno
authors.forename: Noriaki
authors.initials: N
authors.lastname: Kamio
authors.forename: Kenichi
authors.initials: K
authors.lastname: Imai
authors.forename: Manabu
authors.initials: M
authors.lastname: Ohya
authors.forename: Muneaki
authors.initials: M
authors.lastname: Tamura
authors.forename: Kuniyasu
authors.initials: K
authors.lastname: Ochiai
mesh_terms: D001426:Bacterial Proteins / Q000737:chemistry*; D001665:Binding Sites; D019295:Computational Biology; D006801:Humans; D021621:Imaging, Three-Dimensional; D008958:Models, Molecular; D019158:N-Acetylneuraminic Acid / Q000737:chemistry / Q000378:metabolism; D009439:Neuraminidase / Q000737:chemistry*; D010510:Periodontal Diseases / Q000201:enzymology / Q000628:therapy*; D016966:Porphyromonas gingivalis / Q000201:enzymology*; D017434:Protein Structure, Tertiary; D020539:Sequence Analysis, Protein; D017385:Sequence Homology
chemical_list: D001426:Bacterial Proteins; D009439:Neuraminidase; D019158:N-Acetylneuraminic Acid