Sandbox Reserved 1168
From Proteopedia
(Difference between revisions)
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Binding of NTS to the binding site is enriched by <scene name='72/721539/Binding_pocket_surface/2'>charge complementarity</scene> between the positive NTS arginine side chains and the electronegative pocket. In addition, the C-terminus forms a <scene name='72/721539/Binding_site_charges/2'>salt bridge</scene> with R328. Only three out of eight hydrogen bonds are made between the side chains of NTS and the receptor. Most of the interactions are van der Waals interactions. The binding pocket is partially capped by a hairpin loop at the proximal end of the receptor protein's N-terminus. (White) | Binding of NTS to the binding site is enriched by <scene name='72/721539/Binding_pocket_surface/2'>charge complementarity</scene> between the positive NTS arginine side chains and the electronegative pocket. In addition, the C-terminus forms a <scene name='72/721539/Binding_site_charges/2'>salt bridge</scene> with R328. Only three out of eight hydrogen bonds are made between the side chains of NTS and the receptor. Most of the interactions are van der Waals interactions. The binding pocket is partially capped by a hairpin loop at the proximal end of the receptor protein's N-terminus. (White) | ||
- | == Na<sup>+< | + | == Na<sup>+</sup> Binding Site == |
- | Conserved across all class A GPCRs, a sodium ion-binding pocket is seen in the middle of TM2 helix. The ion is coordinated with a highly conserved D<sup>2.50< | + | Conserved across all class A GPCRs, a sodium ion-binding pocket is seen in the middle of TM2 helix. The ion is coordinated with a highly conserved D<sup>2.50</sup> and four other contacts with oxygen atoms. Some of these oxygen atoms are sourced from water molecules. In order for G-protein activation, a hydrogen bond network with T<sup>3.39</sup>, S<sup>7.46</sup> ,N<sup>7.49</sup> of the NPxxY motif, prevents the coordination of a Na<sup>+</sup>. |
Revision as of 12:12, 29 March 2016
This Sandbox is Reserved from Jan 11 through August 12, 2016 for use in the course CH462 Central Metabolism taught by R. Jeremy Johnson at the Butler University, Indianapolis, USA. This reservation includes Sandbox Reserved 1160 through Sandbox Reserved 1184. |
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Structure
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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