Sandbox Reserved 1797: Difference between revisions
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== Structural highlights == | == Structural highlights == | ||
The <scene name='95/954094/Secondary_structure/2'>secondary structure</scene> is interesting to look at. The magenta color represents the alpha helices. The alpha helices represent how the protein chain is in real life. This model isn't exactly accurate as there is actually no space inside the helix, it is too full of other atoms. The orange color represents the beta strands. The beta strand forms hydrogen bonds with surrounding side chains. The secondary structure is stabilized with hydrogen bonding down the backbone. | The <scene name='95/954094/Secondary_structure/2'>secondary structure</scene> is interesting to look at. The magenta color represents the alpha helices. The alpha helices represent how the protein chain is in real life. This model isn't exactly accurate as there is actually no space inside the helix, it is too full of other atoms. The orange color represents the beta strands. The beta strand forms hydrogen bonds with surrounding side chains. The secondary structure is stabilized with hydrogen bonding down the backbone. | ||
The tertiary structure is a bunch of secondary structures bound together to make the overall peptide chain. | The tertiary structure is a bunch of secondary structures bound together to make the overall peptide chain. | ||
The <scene name='95/954094/Space_filling_structure/1'>space filling model of LdmS</scene> is a more realistic application of how the molecules within LdmS actually interact and their surroundings. On the flip side, the traditional ball and stick models show the actual bonds between atoms. There is a cleft for substrate binding that can be seen by the portion of the molecule hanging away and colored lime green. This cleft interacts with the substrate and is an active binding site. It is essential in the binding to L-Met and L-Asp. | |||
This is a sample scene created with SAT to <scene name="/12/3456/Sample/1">color</scene> by Group, and another to make <scene name="/12/3456/Sample/2">a transparent representation</scene> of the protein. You can make your own scenes on SAT starting from scratch or loading and editing one of these sample scenes. | This is a sample scene created with SAT to <scene name="/12/3456/Sample/1">color</scene> by Group, and another to make <scene name="/12/3456/Sample/2">a transparent representation</scene> of the protein. You can make your own scenes on SAT starting from scratch or loading and editing one of these sample scenes. | ||
