Sandbox Reserved 1091

This Sandbox is Reserved from 25/11/2019, through 30/9/2020 for use in the course "Structural Biology" taught by Bruno Kieffer at the University of Strasbourg, ESBS. This reservation includes Sandbox Reserved 1091 through Sandbox Reserved 1115.

To get started: Click the edit this page tab at the top. Save the page after each step, then edit it again. show the Scene authoring tools, create a molecular scene, and save it. Copy the green link into the page. Add a description of your scene. Use the buttons above the wikitext box for bold, italics, links, headlines, etc. More help: Help:Editing

The serine protease from Aeromonas sobria

spinqualitylabelsall models Caption for this structure Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D This is a default text for your page '. Click above on edit this page' to modify. Be careful with the < and > signs. You may include any references to papers as in: the use of JSmol in Proteopedia or to the article describing Jmol to the rescue. Generalities The ASP protein is a serine protease of the subtilisin family and it will cut peptide bonds after specific amino acids. Domains The ASP protein contains an N-terminal region that forms the subtilisin domain and a C-terminal region that forms the P-domain. The subtilisin domain is composed of ten helices and twelve chains and goes from Gly3 to Pro341. The structure of the P-domain is a jelly roll-like fold with eight beta-strands. It extends from Leu432 to His595. Insert figure of the domains. The structure contains calcium ions. Active site The catalytic triad of ASP is composed of Asp78, His115 and Ser336. These amino acids are the base is the active site of the protein, where the mode of action of the serine protease takes place. A peptide can be inserted in the space of the active site. There, the amino acids of the catalytic triad will interact together and the mechanism will lead to a cut in the polypeptide. The mechanism is the following : - The histidine will react with the Serine and deprotonate it. - The deprotonate hydroxyle group of the serine will act as a nucleophilic species and attack the carbon from the carbonyle function on the peptide. - This will lead to the formation of a tetrahedral intermediate - The regeneration of the active site will be done with the release of the peptide cut in two parts. Structural highlights This is a sample scene created with SAT to color by Group, and another to make a transparent representation of the protein. You can make your own scenes on SAT starting from scratch or loading and editing one of these sample scenes.