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You may include any references to papers as in: the use of JSmol in Proteopedia [1] or to the article describing Jmol [2] to the rescue.
Function of your protein
is a protein that originates from members of the order Thermoplasmatales, however in this article specifically the Mevalonate 3,5-bisphosphate being studied originated from the species Picrophilus Torridus. The purpose of this protein is to catalyze an elimination reaction in order to remove the 3-phosphate group from mevalonate 3,5-biphosphate and further goes on to decarboxylate the substrate produced thereby removing carboxyl groups from the acidic substrate.
Biological relevance and broader implications
Important amino acids
The article only really talks about how the ligand, like a fatty acid, lacks an ATP binding site. It also talks about the necessity of the ligand being amphipathic as there are hydrophilic and hydrophobic charges found in the binding site.
Structural highlights
The protein is a dimer that contains per linked molecule. The ARG 148 forms hydrogen bonds that allow it to pair with Oleic Acid, the protein’s ligand. Protein also requires H2O to be present in order to bind its . I found it really interesting that the protein only actually attaches to the ligand via small interaction between ARG 148 and water molecules.
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