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Sandbox 49

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Current revision (02:11, 17 October 2012) (edit) (undo)
 
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{{STRUCTURE_1a4v | PDB=1a4v | SCENE= }}
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<!-- PLEASE DO NOT DELETE THIS TEMPLATE -->
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{{Template:Oberholser_Sandbox_Reservation}}
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==='''Structure'''===
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<!-- PLEASE ADD YOUR CONTENT BELOW HERE -->
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To the right is the <scene name='Sandbox_49/Stick/1'>stick structure</scene>
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<Structure load='1AKE' size='500' frame='true' align='right' caption='Adenylate Kinase' scene='Insert optional scene name here'/>
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of Alpha Lactalbumin which is found in cow milk.
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<scene name='Sandbox_49/Ak_backbone/1'>Backbone</scene>
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<scene name='Sandbox_49/Ak_alpha_helices/1'>Alpha_helices</scene>
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The <scene name='Sandbox_49/Secondary_structure/1'>Secondary structure</scene> of the protein is displayed. Alpha helix are shown as rockets and beta strands as planks. Random coils are white.
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<scene name='Sandbox_49/Ak_beta_sheets/1'>Beta_sheets</scene>
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<scene name='Sandbox_49/Ak_secondary_structures/1'>secondary_structure</scene>
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<scene name='Sandbox_49/Ak_hydrogen_bonds/1'>hydrogen_bonds</scene>
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<scene name='Sandbox_49/Ak_hydrophobic_residues/1'>hydrophobic_residues</scene>
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==='''Hydrophobic and polar areas'''===
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<scene name='Sandbox_49/Hydrophobic_and_polar/3'>Hydrophobic and polar</scene> structure where pink balls are polar. Grey is hydrophobic and green ball are calcium.
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==='''Chain of amino acids'''===
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<scene name='Sandbox_49/Chain_of_amino_acids/2'>The amino acids</scene> figure is displayed where the carboxyl terminal is in red and the Nitrogen terminal is in blue. The <scene name='Sandbox_49/Lysine_residues/1'>Lysine residues</scene> is noted with (*)while the atoms connected to it are displayed in ball and stick structure. The lysine is bind to the atoms by hydrogen and hydrophic bonds. Another example is the cystine residues binded to the protein by <scene name='Sandbox_49/Hydrogen_bonds/1'>hydrogen bonds</scene> which are displays with the blue small balls.
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==='''The Cationic and anionic residues'''===
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<scene name='Sandbox_49/Cationic_vs_ionic_residues/1'>cationic and anionic</scene> structre where red mean cationic and blue means anionic. Red sidechain are oxygens in Asp and Glu, sidechain nitrogens are in Lys, Arg, and His.
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==='''The distribution of polar and nonpolar side chain'''===
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<scene name='Sandbox_49/The_distribution_of_polar/1'>The polar atoms</scene> are noted with a white (*) while the nonpolar side chains are not noted.
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==='''Ligands'''===
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Calcium is the ligand in the alpha lactalbumin. It is not part of the amino acid chain however; it is an important component of the protein. Calcium is bonded to the protein through <scene name='Sandbox_49/Ionic_bonds/1'>ionic bonds</scene>. The calcium is displayed in green.
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Current revision

Please do NOT make changes to this Sandbox. Sandboxes 30-60 are reserved for use by Biochemistry 410 & 412 at Messiah College taught by Dr. Hannah Tims during Fall 2012 and Spring 2013.

Adenylate Kinase

Drag the structure with the mouse to rotate

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