Introduction to protein structure: Difference between revisions
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This tutorial illustrates some basic properties of protein structure and useful commands in Jmol and Proteopedia. Clicking the green links changes the view in the structure box to illustrate the principle described by the text. If the structure box has a puzzle piece in it, please make sure you have the latest version of [[Java]] installed and follow the directions to allow Proteopedia to run. | This tutorial illustrates some basic properties of protein structure and useful commands in Jmol and Proteopedia. Clicking the green links changes the view in the structure box to illustrate the principle described by the text. If the structure box has a puzzle piece in it, please make sure you have the latest version of [[Java]] installed and follow the directions to allow Proteopedia to run. | ||
Proteins are condensation polymers of amino acids. The <scene name='57/575866/Primary_sequence/2'>primary structure</scene> is the amino acid sequence. The <scene name='57/575866/Secondary_sequence/1'>secondary structure</scene> is the local structure over short distances. This level of structure is stabilized by <scene name='57/575866/H_bond_a_helix/1'>hydrogen bonds</scene> along the <scene name='57/575866/Backbone/1'>backbone</scene>. These secondary structures <scene name='57/575866/Global_secondary_structures/1'>pack together</scene> to form the overall form of the entire peptide chain, called the <scene name='57/575866/Tertiary/1'>tertiary structure</scene>. Some proteins, such as the displayed hemoglobin molecule, have more than one polypeptide chain that associate to form the functional unit of the protein; this is called <scene name='57/575866/Tertiary/2'>quaternary structure</scene>. | Proteins are condensation polymers of amino acids. The <scene name='57/575866/Primary_sequence/2'>primary structure</scene> is the amino acid sequence, from the N terminus to the C terminus of the protein. The <scene name='57/575866/Secondary_sequence/1'>secondary structure</scene> is the local structure over short distances. This level of structure is stabilized by <scene name='57/575866/H_bond_a_helix/1'>hydrogen bonds</scene> along the <scene name='57/575866/Backbone/1'>backbone</scene>. These secondary structures <scene name='57/575866/Global_secondary_structures/1'>pack together</scene> to form the overall form of the entire peptide chain, called the <scene name='57/575866/Tertiary/1'>tertiary structure</scene>. Some proteins, such as the displayed hemoglobin molecule, have more than one polypeptide chain that associate to form the functional unit of the protein; this is called <scene name='57/575866/Tertiary/2'>quaternary structure</scene>. | ||
'''Questions based upon these scenes:''' | '''Questions based upon these scenes:''' | ||
Quest #1) What is the primary sequence shown in the first link? | Quest #1) What is the primary sequence shown in the first link? (Hint: which end of the peptide is the N terminus?) | ||
Quest #2) Is the secondary structure shown an alpha helix or beta sheet? | Quest #2) Is the secondary structure shown an alpha helix or beta sheet? | ||