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A Novel Urease Inhibitor of Ruminal Microbiota Screened through Molecular Docking.
- Source :
-
International journal of molecular sciences [Int J Mol Sci] 2020 Aug 20; Vol. 21 (17). Date of Electronic Publication: 2020 Aug 20. - Publication Year :
- 2020
-
Abstract
- Inhibition of the urease activity of ruminal microbiota is not only beneficial for increasing dietary and endogenic urea-N utilization efficiency in ruminants but also might be applicable for the preservation of nitrogen fertilizer in soil and treatment of gastrointestinal and urinary tract infections caused by ureolytic bacteria. To discover urease inhibitors to efficiently target ruminal microbiota, the identified ruminal microbial metagenomic urease gene was used to construct a homology model to virtually screen urease inhibitors from the ChemDiv database by molecular docking. The GMQE and QMEAN values of the homology model were 0.85 and -0.37, respectively, indicating a good model quality. The inhibition effect of the screened urease inhibitor for ruminal urea degradation was assessed by ruminal microbial fermentation in vitro. The toxic effect of the candidate inhibitor was performed using gut Caco-2 cells in vitro. The results showed that compound 3-[1-[(aminocarbonyl)amino]-5-(4-methoxyphenyl)-1H-pyrrol-2-yl] propanoic acid (ChemDiv&#95;ID: 6238-0047, IC <subscript>50</subscript> = 65.86 μM) was found to be the most effective urease inhibitor among the candidate compounds. Compound 6238-0047 significantly lowered the amount of urea degradation and ammonia production in ruminal microbial fermentation. The 24 h degradation rate of compound 6238-0047 in ruminal microbial fermentation was 3.32%-16.00%. In addition, compound 6238-0047 (10-100 μM) had no significant adverse effect on the cell viability of Caco-2 cells. Molecular docking showed that compound 6238-0047 could interact with Asp359 in the active site and Cys318 in the flap region by the hydrogen bond and Pi-Alkyl interaction, respectively. Compound 6238-0047 could be used as a novel inhibitor for decreasing the urease activity of ruminal microbiota.
- Subjects :
- Animals
Bacterial Proteins chemistry
Bacterial Proteins genetics
Caco-2 Cells
Cattle
Databases, Chemical
Enzyme Inhibitors chemistry
Enzyme Inhibitors toxicity
Female
Gastrointestinal Microbiome physiology
Humans
Metagenome genetics
Molecular Docking Simulation
Protein Conformation
Urease chemistry
Urease metabolism
Drug Evaluation, Preclinical methods
Enzyme Inhibitors pharmacology
Gastrointestinal Microbiome drug effects
Rumen microbiology
Urease antagonists & inhibitors
Subjects
Details
- Language :
- English
- ISSN :
- 1422-0067
- Volume :
- 21
- Issue :
- 17
- Database :
- MEDLINE
- Journal :
- International journal of molecular sciences
- Publication Type :
- Academic Journal
- Accession number :
- 32825454
- Full Text :
- https://doi.org/10.3390/ijms21176006