2irn
From Proteopedia
| Line 1: | Line 1: | ||
[[Image:2irn.jpg|left|200px]] | [[Image:2irn.jpg|left|200px]] | ||
| - | + | <!-- | |
| - | + | The line below this paragraph, containing "STRUCTURE_2irn", creates the "Structure Box" on the page. | |
| - | + | You may change the PDB parameter (which sets the PDB file loaded into the applet) | |
| - | + | or the SCENE parameter (which sets the initial scene displayed when the page is loaded), | |
| - | | | + | or leave the SCENE parameter empty for the default display. |
| - | | | + | --> |
| - | + | {{STRUCTURE_2irn| PDB=2irn | SCENE= }} | |
| - | + | ||
| - | + | ||
| - | }} | + | |
'''The NMR Structures of (rGCUGAGGCU)2 and (rGCGGAUGCU)2''' | '''The NMR Structures of (rGCUGAGGCU)2 and (rGCGGAUGCU)2''' | ||
| Line 19: | Line 16: | ||
==About this Structure== | ==About this Structure== | ||
| - | + | Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IRN OCA]. | |
==Reference== | ==Reference== | ||
NMR structures of (rGCUGAGGCU)2 and (rGCGGAUGCU)2: probing the structural features that shape the thermodynamic stability of GA pairs., Tolbert BS, Kennedy SD, Schroeder SJ, Krugh TR, Turner DH, Biochemistry. 2007 Feb 13;46(6):1511-22. Epub 2007 Jan 20. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17279616 17279616] | NMR structures of (rGCUGAGGCU)2 and (rGCGGAUGCU)2: probing the structural features that shape the thermodynamic stability of GA pairs., Tolbert BS, Kennedy SD, Schroeder SJ, Krugh TR, Turner DH, Biochemistry. 2007 Feb 13;46(6):1511-22. Epub 2007 Jan 20. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17279616 17279616] | ||
| - | [[Category: Protein complex]] | ||
[[Category: Tolbert, B S.]] | [[Category: Tolbert, B S.]] | ||
| - | [[Category: | + | [[Category: Gu wobble]] |
| - | [[Category: | + | [[Category: Rna inernal loop]] |
| - | [[Category: | + | [[Category: Sheared ga pair]] |
| - | [[Category: | + | [[Category: Thermodynamic]] |
| - | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 07:47:10 2008'' | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | |
Revision as of 04:47, 4 May 2008
The NMR Structures of (rGCUGAGGCU)2 and (rGCGGAUGCU)2
Overview
The NMR structures of [see text] and [see text] are reported. The internal loop, [see text], is about 2 kcal/mol more stable than [see text] at 37 degrees C. The duplexes assemble into similar global folds characterized by the formation of tandem sheared GA pairs. The different stabilities of the loops are accompanied by differences in the local structure of the closing GU pairs. In the [see text] internal loop, the GU pairs form canonical wobble configurations with two hydrogen bonds, whereas in [see text], the GU pairs form a single hydrogen bond involving the amino group, GH22, and the carbonyl group, UO4. This pairing is similar to the GU closing pair of the 690 hairpin loop found in E. coli 16S rRNA. The [see text] and [see text] structures reveal how the subtle interplay between stacking and hydrogen bonding determines sequence dependent conformation and thermodynamic stability. Thus, this work provides structural and thermodynamic benchmarks for theoreticians in the ongoing effort to understand the sequence dependence of RNA physicochemical properties.
About this Structure
Full crystallographic information is available from OCA.
Reference
NMR structures of (rGCUGAGGCU)2 and (rGCGGAUGCU)2: probing the structural features that shape the thermodynamic stability of GA pairs., Tolbert BS, Kennedy SD, Schroeder SJ, Krugh TR, Turner DH, Biochemistry. 2007 Feb 13;46(6):1511-22. Epub 2007 Jan 20. PMID:17279616 Page seeded by OCA on Sun May 4 07:47:10 2008
