From Proteopedia
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| 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.
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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
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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.
Ald-C structure
Function of your protein
The enzyme is from a tomato plant. Ald-C is an aldehyde dehydrogenase which are known to preform many biological functions. This enzyme also functions as a long-chain aliphatic aldehyde dehydrogenase. It can detoxify highly reactive compounds such as aldehydes. In a plant they also help with cell wall ester biogenesis, and help plant when they fell "stress" such as dehydration.
Biological relevance and broader implications
The Pseudomonas syringae pant pathogen effects crops, it is relevant because farmers and people that work in the agriculture industry need to know of all the ways that their crops can get infected. Pseudomonas syringae makes the plants defenses against pathogens weak and it is more susceptible to get sick, by producing many different virulence factors such as parahormones, which are chemicals that are similar to the plants natural hormones but are not. Pseudomonas syringae can destroy many different plants in different environments and temperatures, it can also survive and spread through the leaves.
This paper is relevant to more areas in science because if someone want to make a defense chemical for Pseudomonas syringae they can use the chemistry in this paper to do so. There is a lost of valuable information that shows the chemistry, such as binding affinity. If someone is thinking about making a cure against Pseudomonas syringae they will need to know the characteristics of all the things that will bind well to it.
This research paper also is useful in identifying superfamilies among different plant pathogens.
Important amino acids
There are which are essential for catalyzing the reactions and if one of them is mutated it can cause a huge effect in any enzyme.
there are which are NAD+ and OYA.
Structural highlights
The octantal was the best substrate with the lowest Km and the highest affinity.
Ald-C is a homodimer.
Other important features
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.
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References
Lee, S. G., Harline, K., Abar, O., Akadri, S. O., Bastian, A. G., Chen, H. S., Duan, M., Focht, C. M., Groziak, A. R., Kao, J., Kottapalli, J. S., Leong, M. C., Lin, J. J., Liu, R., Luo, J. E., Meyer, C. M., Mo, A. F., Pahng, S. H., Penna, V., Raciti, C. D., … Jez, J. M. (2020). The plant pathogen enzyme AldC is a long-chain aliphatic aldehyde dehydrogenase. The Journal of biological chemistry, 295(40), 13914–13926. https://doi.org/10.1074/jbc.RA120.014747
- ↑ 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
