280d

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[[Image:280d.jpg|left|200px]]<br /><applet load="280d" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="280d, resolution 2.400&Aring;" />
 
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'''THE STRUCTURE OF AN RNA DODECAMER SHOWS HOW TANDEM U-U BASE PAIRS INCREASE THE RANGE OF STABLE RNA STRUCTURES AND THE DIVERSITY OF RECOGNITION SITES'''<br />
 
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==Overview==
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==THE STRUCTURE OF AN RNA DODECAMER SHOWS HOW TANDEM U-U BASE PAIRS INCREASE THE RANGE OF STABLE RNA STRUCTURES AND THE DIVERSITY OF RECOGNITION SITES==
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BACKGROUND: Non-canonical base pairs are fundamental building blocks of RNA structures. They can adopt geometries quite different from those of canonical base pairs and are common in RNA molecules that do not transfer sequence information. Tandem U-U base pairs occur frequently, and can stabilize duplex formation despite the fact that a single U-U base pair is destabilizing. RESULTS: We determined the crystal structure of the RNA dodecamer GGCGCUUGCGUC at 2.4 A resolution. The molecule forms a duplex containing tandem U-U base pairs, which introduce an overall bend of 11-12 degrees in the duplex resulting from conformational changes at each interface between the tandem U-U base pairs and a flanking duplex sequence. The formation of the U-U base pairs cause small changes in several backbone torsion angles; base stacking is preserved and two hydrogen bonds are formed per base pair, explaining the stability of the structure. CONCLUSIONS: Tandem U-U base pairs can produce stable structures not accessible to normal A-form RNA, which may allow the formation of specific interfaces for RNA-RNA or RNA-protein recognition. These base-pairs show an unusual pattern of hydrogen-bond donors and acceptors in the major and minor grooves, which could also act as a recognition site.
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<StructureSection load='280d' size='340' side='right'caption='[[280d]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[280d]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=280D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=280D FirstGlance]. <br>
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280D is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=280D OCA].
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.4&#8491;</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=280d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=280d OCA], [https://pdbe.org/280d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=280d RCSB], [https://www.ebi.ac.uk/pdbsum/280d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=280d ProSAT]</span></td></tr>
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==Reference==
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</table>
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The structure of an RNA dodecamer shows how tandem U-U base pairs increase the range of stable RNA structures and the diversity of recognition sites., Lietzke SE, Barnes CL, Berglund JA, Kundrot CE, Structure. 1996 Aug 15;4(8):917-30. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=8805576 8805576]
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__TOC__
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[[Category: ]]
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</StructureSection>
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[[Category: Protein complex]]
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[[Category: Large Structures]]
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[[Category: Barnes, C L.]]
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[[Category: Barnes CL]]
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[[Category: Kundrot, C E.]]
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[[Category: Kundrot CE]]
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[[Category: Lietzke, S E.]]
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[[Category: Lietzke SE]]
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[[Category: double helix]]
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[[Category: internal loop]]
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[[Category: mismatched]]
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[[Category: unusual rna]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 16:22:12 2008''
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Current revision

THE STRUCTURE OF AN RNA DODECAMER SHOWS HOW TANDEM U-U BASE PAIRS INCREASE THE RANGE OF STABLE RNA STRUCTURES AND THE DIVERSITY OF RECOGNITION SITES

PDB ID 280d

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