User:Stephen Mills/Secondary Structure: Helices: Difference between revisions
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<scene name='User:Robert_Dutnall/Sandbox_1_alpha_helix/310_helix_mainchain_axis/1'>Click here </scene>to zoom in and look down the helix axis from the N-terminal end. You'll be able to see the triangular shape of the mainchain. | <scene name='User:Robert_Dutnall/Sandbox_1_alpha_helix/310_helix_mainchain_axis/1'>Click here </scene>to zoom in and look down the helix axis from the N-terminal end. You'll be able to see the triangular shape of the mainchain. | ||
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<scene | ==H-Bonding in 3-10 Helices== | ||
<Structure load='Tut_3-10_helix.pdb' size='500' frame='true' align='left' caption='' scene='User:Robert_Dutnall/Sandbox_1_alpha_helix/310_helix_mainchain_hbonds/1'/> | |||
I've zoomed back out and turned on the hydrogen bonds for the mainchain. Once again, all of the mainchain NH and C=O groups are involved in hydrogen bonds. However, now the hydrogen bonds connect amino acids that are spaced 3 residues apart in the primary sequence. The NH group is from amino acid X and the O is from amino acid X-3 (where X is the number of the amino acid in the sequence). <scene name='User:Robert_Dutnall/Sandbox_1_alpha_helix/310_helix_mainchain_hbonds/2'>Click here</scene> to zoom in and you should be able to see this more clearly. | |||
<scene name='User:Robert_Dutnall/Sandbox_1_alpha_helix/310_helix_sidechains/1'>Click here to zoom out and show the side chains again.</scene> The atoms of each amino side chain have been colored light blue to show them more clearly. <scene name='User:Robert_Dutnall/Sandbox_1_alpha_helix/310_helix_sidechains_axis/2'>Click here to change the view to look down the helix axis.</scene> | <scene name='User:Robert_Dutnall/Sandbox_1_alpha_helix/310_helix_sidechains/1'>Click here to zoom out and show the side chains again.</scene> The atoms of each amino side chain have been colored light blue to show them more clearly. <scene name='User:Robert_Dutnall/Sandbox_1_alpha_helix/310_helix_sidechains_axis/2'>Click here to change the view to look down the helix axis.</scene> | ||
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'''Write down these answers so that you can submit them to your instructor at the end of this tutorial.''' | '''Write down these answers so that you can submit them to your instructor at the end of this tutorial.''' | ||
= = | = = | ||
[[User:Robert Dutnall/Sandbox_1_sheets|Click here to go on to part 2 of this tutorial.]] | [[User:Robert Dutnall/Sandbox_1_sheets|Click here to go on to part 2 of this tutorial.]] | ||