Sandbox Reserved 1638
From Proteopedia
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<scene name='86/861620/Ligand_only/1'>Our structure has but also doesn't have ligands</scene>. The ligands it does have are NADPH and FAD and they're bound, just not to the substrate. There are 4 crystal structures formed. <scene name='86/861620/Secondary/1'>Our secondary structures are in orange and show the polypeptide chains in a helices.</scene> <scene name='86/861620/Cartoon/1'>You can see clearly the inside and outside of the protein.</scene> The outside green, pink, blue, and yellow show the beta sheets and helices in the secondary structure, about 90% helices and 10% beta. The important parts to recognize are the purple helices. <scene name='86/861620/Hydrophobic/1'>These are considered to be polar and hydrophobic.</scene> | <scene name='86/861620/Ligand_only/1'>Our structure has but also doesn't have ligands</scene>. The ligands it does have are NADPH and FAD and they're bound, just not to the substrate. There are 4 crystal structures formed. <scene name='86/861620/Secondary/1'>Our secondary structures are in orange and show the polypeptide chains in a helices.</scene> <scene name='86/861620/Cartoon/1'>You can see clearly the inside and outside of the protein.</scene> The outside green, pink, blue, and yellow show the beta sheets and helices in the secondary structure, about 90% helices and 10% beta. The important parts to recognize are the purple helices. <scene name='86/861620/Hydrophobic/1'>These are considered to be polar and hydrophobic.</scene> | ||
== Other important features == | == Other important features == | ||
| - | One feature is that <scene name='86/861620/Charge/1'>His is light blue and shows</scene> that the Pka is 6.0. The charges would either be red or blue and it doesn't look like those are present. | + | One feature is that <scene name='86/861620/Charge/1'>His is light blue and shows</scene> that the Pka is 6.0. The charges would either be red or blue and it doesn't look like those are present. The other important feature is that there are <scene name='86/861620/Chains/1'>four separate chains</scene>. They are clearly marked by four separate colors and show different branches in the middle. |
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. | ||
Revision as of 03:24, 8 December 2020
| This Sandbox is Reserved from 09/18/2020 through 03/20/2021 for use in CHEM 351 Biochemistry taught by Bonnie Hall at Grand View University, Des Moines, IA. This reservation includes Sandbox Reserved 1628 through Sandbox Reserved 1642. |
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References
- ↑ Hanson, R. M., Prilusky, J., Renjian, Z., Nakane, T. and Sussman, J. L. (2013), JSmol and the Next-Generation Web-Based Representation of 3D Molecular Structure as Applied to Proteopedia. Isr. J. Chem., 53:207-216. doi:http://dx.doi.org/10.1002/ijch.201300024
- ↑ Herraez A. Biomolecules in the computer: Jmol to the rescue. Biochem Mol Biol Educ. 2006 Jul;34(4):255-61. doi: 10.1002/bmb.2006.494034042644. PMID:21638687 doi:10.1002/bmb.2006.494034042644
