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The selectivity of galardin and an azasugar-based hydroxamate compound for human Matrix metalloproteases and bacterial metalloproteases

Permanent link
https://hdl.handle.net/10037/13897
DOI
https://doi.org/10.1371/journal.pone.0200237
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Date
2018-08-03
Type
Journal article
Tidsskriftartikkel
Peer reviewed

Author
Sylte, Ingebrigt; Dawadi, Rangita; Malla, Nabin; von Hofsten, Susannah; Nguyen, Tra-Mi; Solli, Ann Iren; Berg, Eli; Adekoya, Olayiwola A.; Svineng, Gunbjørg; Winberg, Jan-Olof
Abstract
Inhibitors targeting bacterial enzymes should not interfere with enzymes of the host, and knowledge about structural determinants for selectivity is important for designing inhibitors with a therapeutic potential. We have determined the binding strengths of two hydroxamate compounds, galardin and compound 1b for the bacterial zinc metalloproteases, thermolysin, pseudolysin and auerolysin, known to be bacterial virulence factors, and the two human zinc metalloproteases MMP-9 and MMP-14. The active sites of the bacterial and human enzymes have huge similarities. In addition, we also studied the enzyme-inhibitor interactions by molecular modelling. The obtained Ki values of galardin for MMP-9 and MMP-14 and compound 1b for MMP-9 are approximately ten times lower than previously reported. Compound 1b binds stronger than galardin to both MMP-9 and MMP-14, and docking studies indicated that the diphenyl ether moiety of compound 1b obtains more favourable interactions within the S´1-subpocket than the 4-methylpentanoyl moiety of galardin. Both compounds bind stronger to MMP-9 than to MMP-14, which appears to be due to a larger S´1-subpocket in the former enzyme. Galardin, but not 1b, inhibits the bacterial enzymes, but the galardin Ki values were much larger than for the MMPs. The docking indicates that the S´1-subpockets of the bacterial proteases are too small to accommodate the diphenyl ether moiety of 1b, while the 4-methylpentanoyl moiety of galardin enters the pocket. The present study indicates that the size and shape of the ligand structural moiety entering the S´1-subpocket is an important determinant for selectivity between the studied MMPs and bacterial MPs.
Description
The following article: Sylte, I., Dawadi, R., Malla, N., von Hofsten, S., Nguyen, T.-M., Solli, A.I., ... Winberg, J.-O. (2018). The selectivity of galardin and an azasugar-based hydroxamate compound for human Matrix metalloproteases and bacterial metalloproteases. PLoS ONE, 13(8). https://doi.org/10.1371/journal.pone.0200237, was first published in PLoS ONE. Source at https://doi.org/10.1371/journal.pone.0200237.
Is part of
Dawadi, R. (2020). Biochemical characterization of Matrix Metalloproteinase-9 Binding interactions with two small non-peptide inhibitors and the proteoglycan serglycin & Processing of serglycin. (Doctoral thesis). https://hdl.handle.net/10037/18004.
Publisher
Public Library of Science
Citation
Sylte, I., Dawadi, R., Malla, N., von Hofsten, S., Nguyen, T.-M., Solli, A.I., ... Winberg, J.-O. (2018). The selectivity of galardin and an azasugar-based hydroxamate compound for human Matrix metalloproteases and bacterial metalloproteases. PLoS ONE, 13(8). https://doi.org/10.1371/journal.pone.0200237
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