Sandbox Reserved 1576
From Proteopedia
(Difference between revisions)
| Line 12: | Line 12: | ||
compact fold, where stem P1 forms the handle of the tuning fork, and stems P2 and P3, which form the prongs, are aligned parallel to each other and anchored at the tips through extensive interaction between their hairpin loops L2 and L3. The central internal bubble zippers up through stacked base triple alignments between the three junction-connecting segments, J1-2, J2-3, and J3-1, and two junctional base pairs of stem P1, creating an adenine-sensing pocket within the resulting core segment of the RNA scaffold. <ref>PMID:15610857</ref> | compact fold, where stem P1 forms the handle of the tuning fork, and stems P2 and P3, which form the prongs, are aligned parallel to each other and anchored at the tips through extensive interaction between their hairpin loops L2 and L3. The central internal bubble zippers up through stacked base triple alignments between the three junction-connecting segments, J1-2, J2-3, and J3-1, and two junctional base pairs of stem P1, creating an adenine-sensing pocket within the resulting core segment of the RNA scaffold. <ref>PMID:15610857</ref> | ||
| - | The structure includes five Mg cations (colored pink) and a bound adenine (colored yellow). Four of the Mg ions are located inside of the grooves and involved in the junction-connecting segments in the fold. The remaining Mg ion is on the surface and is involved in packing interactions. The four Mg ions on the inside of the complex are surrounding the bound adenine. (1) | + | The structure includes five Mg cations (colored pink) and a bound <scene name='82/824621/Adenine/1'>adenine</scene> (colored yellow). Four of the Mg ions are located inside of the grooves and involved in the junction-connecting segments in the fold. The remaining Mg ion is on the surface and is involved in packing interactions. The four Mg ions on the inside of the complex are surrounding the bound adenine. (1) |
== Function == | == Function == | ||
| Line 18: | Line 18: | ||
Riboswitches are used as a form of genetic control in some bacteria, where they modulate the expression of transport and metabolic proteins. The adenine and guanine riboswitches form nearly identical binding pockets since they are both purines. The single nucleotide in the core forms a Watson-Crick base pair with its ligand. The structure of the adenine riboswitch bound to its ligand creates RNA's ability to use A-minor motifs and base tetrads, which causes the folding required to create the binding pockets. This provides the infrastructure for targeting and discrimination between similar metabolites. (1) | Riboswitches are used as a form of genetic control in some bacteria, where they modulate the expression of transport and metabolic proteins. The adenine and guanine riboswitches form nearly identical binding pockets since they are both purines. The single nucleotide in the core forms a Watson-Crick base pair with its ligand. The structure of the adenine riboswitch bound to its ligand creates RNA's ability to use A-minor motifs and base tetrads, which causes the folding required to create the binding pockets. This provides the infrastructure for targeting and discrimination between similar metabolites. (1) | ||
| - | ==Figures== | ||
| - | The RNA is activated by a bound <scene name='82/824621/Adenine/1'>adenine</scene>. | ||
| - | |||
| - | == Etc. == | ||
| - | |||
| - | 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. | ||
</StructureSection> | </StructureSection> | ||
== References == | == References == | ||
<references/> | <references/> | ||
Revision as of 17:57, 11 November 2019
| This Sandbox is Reserved from September 14, 2021, through May 31, 2022, for use in the class Introduction to Biochemistry taught by User:John Means at the University of Rio Grande, Rio Grande, OH, USA. This reservation includes 5 reserved sandboxes (Sandbox Reserved 1590 through Sandbox Reserved 1594). |
To get started:
More help: Help:Editing. For an example of a student Proteopedia page, please see Photosystem II, Tetanospasmin, or Guanine riboswitch. |
Adenine Riboswitch
| |||||||||||
References
- ↑ Serganov A, Yuan YR, Pikovskaya O, Polonskaia A, Malinina L, Phan AT, Hobartner C, Micura R, Breaker RR, Patel DJ. Structural basis for discriminative regulation of gene expression by adenine- and guanine-sensing mRNAs. Chem Biol. 2004 Dec;11(12):1729-41. PMID:15610857 doi:S1074-5521(04)00343-6
