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Sandbox Reserved 1489
From Proteopedia
(Difference between revisions)
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| - | == Global | + | == Global structure == |
The protein is composed of one chain of 12 transmembrane alpha helices (TMs). They are organised in two repeating units connected by a 59-residue loop (TMs 1-5 and TMs 6-10) and two additional helices (TM 11 and 12). The two repeating units have a symmetrical topology (Figure 2). | The protein is composed of one chain of 12 transmembrane alpha helices (TMs). They are organised in two repeating units connected by a 59-residue loop (TMs 1-5 and TMs 6-10) and two additional helices (TM 11 and 12). The two repeating units have a symmetrical topology (Figure 2). | ||
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The substrate- and cation-binding sites are located in the space between the central four-helix-bundle and the outer helix layer. | The substrate- and cation-binding sites are located in the space between the central four-helix-bundle and the outer helix layer. | ||
| + | == Structure of the substrate biding site == | ||
| + | |||
| + | The substrate binding site is located at the break of the TMs 1 and 6. | ||
| + | The benzyl-hydantoin interacts with the amino acids of the binding site. The hydantoin group establisches pi-stacking interactions with the indole ring of Trp 117 and Trp 220 and hydrogen bounds with Asn 318 and Gln 121. The benzyl ring interacts with Trp 220 and Gln 42 (Figure 3) | ||
| + | [[Image:Substrate binding site.jpg]] | ||
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| + | Figure 3 : Substrate binding site | ||
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 11:26, 9 January 2019
| This Sandbox is Reserved from 06/12/2018, through 30/06/2019 for use in the course "Structural Biology" taught by Bruno Kieffer at the University of Strasbourg, ESBS. This reservation includes Sandbox Reserved 1480 through Sandbox Reserved 1543. |
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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



