Destructive twisting of neutral metalloproteases: the catalysis mechanism of the Dispase autolysis‐inducing protein from Streptomyces mobaraensis DSM 40487

• Published in: The FEBS journal 2018-11, Vol.285 (22), p.4246-4264
• Main Authors: Fiebig, David, Storka, Juliana, Roeder, Markus, Meyners, Christian, Schmelz, Stefan, Blankenfeldt, Wulf, Scrima, Andrea, Kolmar, Harald, Fuchsbauer, Hans‐Lothar
• Format: Article
• Language: English
• Subjects: Atomic structure; Aureolysin; Autolysis; Bacillolysin; Catalysis; Complex formation; conformational change; crystal structure; Crystallization; Data banks; Decomposition; Degradation; Dispase autolysis‐inducing protein; Elastase; Fluorescence; Fluorescence polarization; Hemagglutinins; Homology; Mathematical analysis; metalloprotease; Metalloproteinase; Protease; Proteins; Streptomyces; Streptomyces mobaraensis; Subtilisin; Superposition (mathematics); Thermolysin; Transglutaminase 2; Trypsin; Twisting
• ISSN: 1742-464X; 1742-4658
• DOI: 10.1111/febs.14647

The Dispase autolysis‐inducing protein (DAIP) is produced by Streptomyces mobaraensis to disarm neutral metalloproteases by decomposition. The absence of a catalytic protease domain led to the assumption that the seven‐bladed β‐propeller protein DAIP causes structural modifications, thereby triggering autolysis. Determination of protein complexes consisting of DAIP and thermolysin or DAIP and a nonfunctional E138A bacillolysin variant supported this postulation. Protein twisting was indicated by DAIP‐mediated inhibition of thermolysin while bacillolysin underwent immediate autolysis under the same conditions. Interestingly, an increase in SYPRO orange fluorescence allowed tracking of the fast degradation process. Similarly rapid autolysis of thermolysin mediated by DAIP was only observed upon the addition of amphiphilic compounds, which probably amplify the induced structural changes. DAIP further caused degradation of FITC‐labeled E138A bacillolysin by trypsin, as monitored by a linear decrease in fluorescence polarization. The kinetic model, calculated from the obtained data, suggested a three‐step mechanism defined by (a) fast DAIP–metalloprotease complex formation, (b) slower DAIP‐mediated protein twisting, and (c) fragmentation. These results were substantiated by crystallized DAIP attached to a C‐terminal helix fragment of thermolysin. Structural superposition of the complex with thermolysin is indicative of a conformational change upon binding to DAIP. Importantly, the majority of metalloproteases, also including homologs from various pathogens, are highly conserved at the autolysis‐prone peptide bonds, suggesting their susceptibility to DAIP‐mediated decomposition, which may offer opportunities for pharmaceutical applications. Databases The atomic coordinates and structure factors (PDB ID: 6FHP) have been deposited in the Protein Data Bank (http://www.pdb.org/). Enzymes Aureolysin, EC 3.4.24.29; bacillolysin (Dispase, Gentlyase), EC 3.4.24.28; lasB (elastase), EC 3.4.24.4; subtilisin, EC 3.4.21.62; thermolysin, EC 3.4.24.27; transglutaminase, EC 2.3.2.13; trypsin, EC 3.4.21.4; vibriolysin (hemagglutinin(HA)/protease), EC 3.4.24.25. The Dispase autolysis‐inducing protein (DAIP) from Streptomyces mobaraensis adopts a seven‐bladed β‐propeller fold mediating metalloproteases self‐degradation. The present study now reveals strong attraction of bacillolysin and thermolysin by DAIP, complex formation, and protein twisting followed by fragmentation as indi