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Sandbox Reserved 1680

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Revision as of 09:09, 19 April 2021

This Sandbox is Reserved from 01/25/2021 through 04/30/2021 for use in Biochemistry taught by Bonnie Hall at Grand View University, Des Moines, USA. This reservation includes Sandbox Reserved 1665 through Sandbox Reserved 1682.

To get started:

Click the edit this page tab at the top. Save the page after each step, then edit it again.
show the Scene authoring tools, create a molecular scene, and save it. Copy the green link into the page.
Add a description of your scene. Use the buttons above the wikitext box for bold, italics, links, headlines, etc.

More help: Help:Editing

Protein Spy

This is a default text for your page '. Click above on edit this page' to modify. Be careful with the < and > signs.

You may include any references to papers as in: the use of JSmol in Proteopedia ^[1] or to the article describing Jmol ^[2] to the rescue.

1 Function of your protein
2 Biological relevance and broader implications
3 Important amino acids
4 Structural highlights
5 Other important features

Function of your protein

The organism that Spy is from is Escherichia coli.The protein Spy can facilitate protein folding by allowing it to prevent clustering. That is done by grabbing the proteins as they start to misfold right before they are able to stick to other proteins to make big cluster. The protein also needs to bind very quickly.

Biological relevance and broader implications

There are diseases out there wondering if we can customize chaperons. One in particular is Alzheimer's because people with this disease could possibly have differences in their chaperons which could cause you to be more prone to that disease. You can be more prone because of the beta amyloid plaques being formed. By studying this protein and doing different experiments with it was helping to better understand how chaperons work.

Important amino acids

The protein Spy is a rare protein that doesn't have a ligand and doesn't show any catalytic triad.

Structural highlights

The protein is 85% alpha helix, 10% beta sheet, and 5% other structures. The secondary structures show that the unfolding of substrates is preventing the protein to be clustered.

This shows how much space is being used in the protein and is also showing the quaternary feature.

This is showing how much hydrophobicity of the protein and positively charged.

Other important features

This shows where the amino acids are at that the protein is working with.

Most proteins are a ball shaped, but the protein Spy is a cradle shape because it is easier to attach to other proteins to properly allow folding.

This is a sample scene created with SAT to by Group, and another to make of the protein. You can make your own scenes on SAT starting from scratch or loading and editing one of these sample scenes.

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

Retrieved from "http://52.214.119.220/wiki/index.php/Sandbox_Reserved_1680"

@@ Line 29: / Line 29: @@
 == Other important features ==
 <scene name='87/873242/Side_chains/1'>Side Chains</scene>
+This shows where the amino acids are at that the protein is working with.
+Most proteins are a ball shaped, but the protein Spy is a cradle shape because it is easier to attach to other proteins to properly allow folding.
 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.

Sandbox Reserved 1680

From Proteopedia

Revision as of 09:09, 19 April 2021

Protein Spy

Contents

Function of your protein

Biological relevance and broader implications

Important amino acids

Structural highlights

Other important features

References

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