Sandbox 38: Difference between revisions

== Ligands of Papain ==

Papain binds to an abundance of <scene name='Sandbox_38/Ligands/1'>ligands</scene>, as they are the molecules colored green.  These ligands interact with Papain through various <scene name='Sandbox_38/Ligand_hydrogen_bonds/1'>hydrogen bonds</scene>, which are distinctly colored blue.  A pseudosubstrate that is able to mimic the actual substrate and therefore inhibit Papain is called Leupeptin.  The <scene name='Sandbox_38/Leupeptin-papain_complex/1'>leupeptin-papain complex</scene> (PDC ID: 1POP), clearly indicated by the blue Nitrogen of the substrate, indicates that the inhibitors carbonyl carbon is covalently bound to the Cys-25 sulfer atom of papain and is organized in a tetrahedral manner. The carbonyl oxygen atom of the inhibitor is not only able to face the oxyanion hole, it is also able to form hydrogen bond contacts with Gln-19 and Cys-25.