2l8f
From Proteopedia
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==Structure of a 4X4 Nucleotide RNA Internal Loop from an R2 Retrotransposon== | ==Structure of a 4X4 Nucleotide RNA Internal Loop from an R2 Retrotransposon== | ||
| - | <StructureSection load='2l8f' size='340' side='right' caption='[[2l8f | + | <StructureSection load='2l8f' size='340' side='right'caption='[[2l8f]]' scene=''> |
== Structural highlights == | == Structural highlights == | ||
| - | [[2l8f]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2L8F OCA]. <br> | + | <table><tr><td colspan='2'>[[2l8f]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2L8F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2L8F FirstGlance]. <br> |
| - | <b> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr> |
| + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2l8f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2l8f OCA], [https://pdbe.org/2l8f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2l8f RCSB], [https://www.ebi.ac.uk/pdbsum/2l8f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2l8f ProSAT]</span></td></tr> | ||
| + | </table> | ||
| + | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == Publication Abstract from PubMed == | ||
The NMR solution structure is reported of a duplex, 5'GUGAAGCCCGU/3'UCACAGGAGGC, containing a 4 x 4 nucleotide internal loop from an R2 retrotransposon RNA. The loop contains three sheared purine-purine pairs and reveals a structural element found in other RNAs, which we refer to as the 3RRs motif. Optical melting measurements of the thermodynamics of the duplex indicate that the internal loop is 1.6 kcal/mol more stable at 37 degrees C than predicted. The results identify the 3RRs motif as a common structural element that can facilitate prediction of 3D structure. Known examples include internal loops having the pairings: 5'GAA/3'AGG, 5'GAG/3'AGG, 5'GAA/3'AAG, and 5'AAG/3'AGG. The structural information is compared with predictions made with the MC-Sym program. | The NMR solution structure is reported of a duplex, 5'GUGAAGCCCGU/3'UCACAGGAGGC, containing a 4 x 4 nucleotide internal loop from an R2 retrotransposon RNA. The loop contains three sheared purine-purine pairs and reveals a structural element found in other RNAs, which we refer to as the 3RRs motif. Optical melting measurements of the thermodynamics of the duplex indicate that the internal loop is 1.6 kcal/mol more stable at 37 degrees C than predicted. The results identify the 3RRs motif as a common structural element that can facilitate prediction of 3D structure. Known examples include internal loops having the pairings: 5'GAA/3'AGG, 5'GAG/3'AGG, 5'GAA/3'AAG, and 5'AAG/3'AGG. The structural information is compared with predictions made with the MC-Sym program. | ||
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NMR structure of a 4 x 4 nucleotide RNA internal loop from an R2 retrotransposon: Identification of a three purine-purine sheared pair motif and comparison to MC-SYM predictions.,Lerman YV, Kennedy SD, Shankar N, Parisien M, Major F, Turner DH RNA. 2011 Sep;17(9):1664-77. Epub 2011 Jul 21. PMID:21778280<ref>PMID:21778280</ref> | NMR structure of a 4 x 4 nucleotide RNA internal loop from an R2 retrotransposon: Identification of a three purine-purine sheared pair motif and comparison to MC-SYM predictions.,Lerman YV, Kennedy SD, Shankar N, Parisien M, Major F, Turner DH RNA. 2011 Sep;17(9):1664-77. Epub 2011 Jul 21. PMID:21778280<ref>PMID:21778280</ref> | ||
| - | From | + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> |
| + | </div> | ||
| + | <div class="pdbe-citations 2l8f" style="background-color:#fffaf0;"></div> | ||
== References == | == References == | ||
<references/> | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
| - | [[Category: | + | [[Category: Large Structures]] |
| - | [[Category: | + | [[Category: Kennedy SD]] |
| - | [[Category: | + | [[Category: Lerman Y]] |
| - | [[Category: | + | [[Category: Turner DH]] |
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Current revision
Structure of a 4X4 Nucleotide RNA Internal Loop from an R2 Retrotransposon
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