Lysozyme
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VIDEO DESCRIPTION:
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This video shows the structure of lysozyme, an enzyme found in egg white, and how it binds to substrates and inhibitors. If you want to learn the science behind the images, search for "lysozyme" on Proteopedia and study the page containing interactive 3D scenes used in making this video (proteopedia.org/wiki/index.php/Lysozyme).
Without giving explanations, here are the concepts illustrated in the video:
0:06 Fold and primary sequence.
0:12 Competitive inhibitor binding to active site cleft.
0:14 Primary sequence from N- to C-terminus.
0:20 Cartoon showing secondary structure and disulfide bridges
0:29 Location of hydrophobic side chains (gray) and hydrophilic side chains and proline (pink).
0:42 The surface of the protein is hydrated (water: red spheres).
0:48 Distribution of charged amino acids on the surface.
0:50 Amino acids important for structure (e.g. disulfide bridges) and function (e.g. active site occupied by inhibitor) are conserved in enzymes from related organisms.
1:00 Hydrogen bonding in secondary structure elements (helix, sheet, turn).
1:18 Hydrogen bonds between active site and inhibitor.
1:24 Intermediate in catalysis (covalent complex captured by working with enzyme variant and suicide substrate). Blue shows electron density derived from measurement and model.
1:36 Comparison of covalent intermediate with product complex (same variant of lysozyme)
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