The genus of Gram-negative bacteria is characterized by the expression of N-linked protein glycosylation (pgl) pathways. As is an emerging human pathogen, a better understanding of the variation of the biosynthetic pathways across the genus is necessary to identify the relationships between protein glycosylation and disease. The pgl pathways of strains have been reported to diverge from other in steps after the biosynthesis of acetylgalactosamine-α1,3-diacetylbacillosamine-α-1-diphosphate undecaprenyl (GalNAc-diNAcBac-PP-Und), which is catalyzed by PglC and PglA, a phosphoglycosyltransferase (PGT) and a glycosyltransferase (GT), respectively. Here we characterize the PglJ GTs from two strains of . Chemical synthesis was employed to access the stereochemically defined glycan donor substrates, uridine diphosphate -acetyl-d-galactosaminuronic acid (UDP-GalNAcA) and uridine diphosphate -acetyl-d-glucosaminuronic acid (UDP-GlcNAcA), to allow biochemical investigation of PglJ. Evidence for the PglJ substrate specificity structural determinants for the C6″ carboxylate-containing sugar was obtained through variant-based biochemical assays. Additionally, characterization of a UDP-sugar dehydrogenase encoded in the pgl operon, which is similar to the WbpO responsible for the oxidization of a UDP-HexNAc to UDP-HexNAcA, supports the availability of a UDP-HexNAcA substrate for a GT that incorporates the modified sugar and provides evidence for the presence of a HexNAcA in the N-linked glycan. Utilizing sequence similarity network (SSN) analysis, we identified conserved sequence motifs among PglJ glycosyltransferases, shedding light on substrate preferences and offering predictive insights into enzyme functions across the genus. These studies now allow detailed characterization of the later steps in the pgl pathway in strains and provide insights into enzyme substrate specificity determinants for glycan assembly enzymes.
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http://dx.doi.org/10.1021/acs.biochem.3c00564 | DOI Listing |
Bioinformatics
January 2025
Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, United States.
Motivation: The accurate prediction of O-GlcNAcylation sites is crucial for understanding disease mechanisms and developing effective treatments. Previous machine learning models primarily relied on primary or secondary protein structural and related properties, which have limitations in capturing the spatial interactions of neighboring amino acids. This study introduces local environmental features as a novel approach that incorporates three-dimensional spatial information, significantly improving model performance by considering the spatial context around the target site.
View Article and Find Full Text PDFChembiochem
January 2025
Khon Kaen University, Biochemistry, Medicine, 123 Moo 16, 40002, Khon Kaen, THAILAND.
O-GlcNAcylation is an important biological process in regulating the function of many nucleocytoplasmic proteins in cells. Enhancement of O-GlcNAcylation was associated with cancer development and progression. Here, we demonstrated the involvement of O-GlcNAcylation in melanoma metastasis.
View Article and Find Full Text PDFFront Microbiol
January 2025
Institute of Animal Husbandry and Veterinary Medicine, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China.
Bovine viral diarrhea virus (BVDV) is the causative agent of bovine viral diarrhea, which causes significant economic loss to the global livestock industry. Despite the widespread use of inactivated BVDV vaccines, highly pathogenic strains continue to emerge. In China, regional variations in BVDV subtypes, morbidities, and symptoms, however, only the BVDV 1a subtype vaccine is currently approved.
View Article and Find Full Text PDFBBA Adv
January 2025
School of Natural Sciences, Macquarie University, Sydney, NSW 2109, Australia.
The morbidity and mortality of sepsis remain high. Clinicians lack effective markers to rapidly diagnose sepsis and identify the underlying pathogen infection particularly for patients with candidaemia or cases of culture-negative sepsis where culture-based diagnostics are inadequate. In our search for new lines of potential sepsis biomarkers, we here explore the impact of various classes of infectious agents on the serum -glycome in a septic shock cohort.
View Article and Find Full Text PDFSci Rep
January 2025
University of Rouen Normandie, UNIROUEN, UFR des Sciences et Techniques, GlycoMEV UR4358, Innovation Chimie Carnot, Fédération de Recherche Normandie-Végétal FED 4277, 76821, Mont-Saint-Aignan, France.
The marine diatom Phaeodactylum tricornutum is currently used for various industrial applications, including the pharmaceutical industry as a cost-effective cell biofactory to produce Biologics. Recent studies demonstrated that P. tricornutum can produce functional monoclonal antibodies, such application is currently limited by the production yield that hinders industrialization.
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