At the present time the program is still undergoing active development, but it is mature enough to be used for learning and research. Two unique and valuable features of this program over some other visualization program are the use of the powerful programming language ( Python) and an emphasis on high-quality graphics.
It can also perform many other valuable tasks (such as editing PDB files) to assist you in your research. Warren DeLano, PyMOL is a molecular graphics system with an embedded Python interpreter designed for real-time visualization and rapid generation of high-quality molecular graphics images and animations. The nucleophilic alkoxide anion then attacks the carbonyl carbon in the peptide bond.Īccording to the program's author, Dr. These three residues form a hydrogen-bonding network that allows deprotonation of Ser195 during the reaction.
This feature is responsible for the specificity of the enzyme toward peptide bonds that have an aromatic amino acid on the C-terminal side. A hydrophobic pocket that can accommodate aromatic amino acids.The active site of chymotrypsin has two interesting structural features: Its mechanism of action is well-understood and is often taught in undergraduate biochemistry courses as an example of the enzyme catalysis.
It readily cleaves the peptide bonds adjacent to aromatic amino acids tyrosine, phenylalanine and tryptophan. PyMOL Tutorial: Chymotrypsin Chem 110L: Macromolecular Visualization Laboratory Exercise: PyMOLĬhymotrypsin is a well-studied proteolytic enzyme that functions in our digestive tract where it assists in the hydrolysis of proteins that we eat.
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