User:Tommie Hata/Protein Structure Tutorial

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Lysozyme, PDB ID 2lyz

Amino acids and primary structure Proteins are polymers of amino acids. The "backbone" of the protein is made up of carbons and nitrogens. The amino acid sidechain extends out of the backbone. Here, the backbone is colored in CPK coloring and the sidechains are colored green. The linear sequence of amino acids in a polypeptide is referred to as its "primary structure".

Interactions between the protein backbone: secondary structure Hydrogen bonds between backbone amide and carboxyl groups maintain some local structural characteristics referred to as secondary structure. Two common types of secondary structure are the https://en.wikipedia.org/wiki/Alpha_helices alpha helices] and the beta pleated sheet. Here, alpha helices are colored red and beta pleated sheets colored blue in a "ribbons" display.

Ionic Interactions Ionic Interactions with surface

Polar and charged sidechains

Hydrophobic core

SS bond, sidechain

SS bond, between alpha carbons

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Tommie Hata