Exploration of Streptococcus core genome to reveal druggable targets and novel therapeutics against S. pneumoniae

• Published in: PloS one 2022-08, Vol.17 (8), p.e0272945-e0272945
• Main Authors: Chowdhury, Zeshan Mahmud, Bhattacharjee, Arittra, Ahammad, Ishtiaque, Hossain, Mohammad Uzzal, Jaber, Abdullah All, Rahman, Anisur, Dev, Preonath Chondrow, Salimullah, Md, Keya, Chaman Ara
• Format: Article
• Language: English
• Subjects: Annotations; Antibiotics; Antimicrobial agents; Bacterial pneumonia; Bacterial proteins; Bioinformatics; Biology and Life Sciences; Chromosomes; Chronic obstructive pulmonary disease; Computer and Information Sciences; COVID-19; Drug resistance; Drug therapy; Fatalities; Gene expression; Genetic aspects; Genomes; Homology; Infectious diseases; Localization; Medicine and Health Sciences; Microbiological research; Molecular docking; Mutation; Pandemics; Pathogenesis; Pathogenicity; Pathogens; Penicillin; Physicochemical properties; Pneumonia; Protein interaction; Protein transport; Proteins; Proteomes; Secretions; Streptococcus; Streptococcus infections; Streptococcus pneumoniae; Therapeutic targets; Vaccines; Virulence; Virulence (Microbiology)
• ISSN: 1932-6203; 1932-6203
• DOI: 10.1371/journal.pone.0272945

Streptococcus pneumoniae (S. pneumoniae), the major etiological agent of community-acquired pneumonia (CAP) contributes significantly to the global burden of infectious diseases which is getting resistant day by day. Nearly 30% of the S. pneumoniae genomes encode hypothetical proteins (HPs), and better understandings of these HPs in virulence and pathogenicity plausibly decipher new treatments. Some of the HPs are present across many Streptococcus species, systematic assessment of these unexplored HPs will disclose prospective drug targets. In this study, through a stringent bioinformatics analysis of the core genome and proteome of S. pneumoniae PCS8235, we identified and analyzed 28 HPs that are common in many Streptococcus species and might have a potential role in the virulence or pathogenesis of the bacteria. Functional annotations of the proteins were conducted based on the physicochemical properties, subcellular localization, virulence prediction, protein-protein interactions, and identification of essential genes, to find potentially druggable proteins among 28 HPs. The majority of the HPs are involved in bacterial transcription and translation. Besides, some of them were homologs of enzymes, binding proteins, transporters, and regulators. Protein-protein interactions revealed HP PCS8235_RS05845 made the highest interactions with other HPs and also has TRP structural motif along with virulent and pathogenic properties indicating it has critical cellular functions and might go under unconventional protein secretions. The second highest interacting protein HP PCS8235_RS02595 interacts with the Regulator of chromosomal segregation (RocS) which participates in chromosome segregation and nucleoid protection in S. pneumoniae. In this interacting network, 54% of protein members have virulent properties and 40% contain pathogenic properties. Among them, most of these proteins circulate in the cytoplasmic area and have hydrophilic properties. Finally, molecular docking and dynamics simulation demonstrated that the antimalarial drug Artenimol can act as a drug repurposing candidate against HP PCS8235_RS 04650 of S. pneumoniae. Hence, the present study could aid in drugs against S. pneumoniae.