2r20

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(New page: 200px<br /><applet load="2r20" size="350" color="white" frame="true" align="right" spinBox="true" caption="2r20, resolution 1.300&Aring;" /> '''Structure of the RN...)
Current revision (09:19, 21 February 2024) (edit) (undo)
 
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[[Image:2r20.gif|left|200px]]<br /><applet load="2r20" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="2r20, resolution 1.300&Aring;" />
 
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'''Structure of the RNA brominated tridecamer r(GCGUU-5BUGAAACGC) at 1.3 A (Br2)'''<br />
 
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==Overview==
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==Structure of the RNA brominated tridecamer r(GCGUU-5BUGAAACGC) at 1.3 A (Br2)==
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Metal ions play a key role in RNA folding and activity. Elucidating the, rules that govern the binding of metal ions is therefore an essential step, for better understanding the RNA functions. High-resolution data are a, prerequisite for a detailed structural analysis of ion binding on RNA and, in particular, the observation of monovalent cations. Here, the, high-resolution crystal structures of the tridecamer duplex, r(GCGUUUGAAACGC) crystallized under different conditions provides new, structural insights on ion binding on GAAA/UUU sequences that exhibit both, unusual structural and functional properties in RNA. The present study, extends the repertory of RNA ion binding sites in showing that the two, first bases of UUU triplets constitute a specific site for sodium ions. A, striking asymmetric pattern of metal ion binding in the two equivalent, halves of the palindromic sequence demonstrates that sequence and its, environment act together to bind metal ions. A highly ionophilic half that, binds six metal ions allows, for the first time, the observation of a, disodium cluster in RNA. The comparison of the equivalent halves of the, duplex provides experimental evidences that ion binding correlates with, structural alterations and groove contraction.
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<StructureSection load='2r20' size='340' side='right'caption='[[2r20]], [[Resolution|resolution]] 1.30&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[2r20]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2R20 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2R20 FirstGlance]. <br>
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2R20 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=NA:'>NA</scene> and <scene name='pdbligand=MG:'>MG</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2R20 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]] 1.3&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=5BU:5-BROMO-URIDINE-5-MONOPHOSPHATE'>5BU</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
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==Reference==
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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=2r20 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2r20 OCA], [https://pdbe.org/2r20 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2r20 RCSB], [https://www.ebi.ac.uk/pdbsum/2r20 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2r20 ProSAT]</span></td></tr>
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The 1.3 A resolution structure of the RNA tridecamer r(GCGUUUGAAACGC): Metal ion binding correlates with base unstacking and groove contraction., Timsit Y, Bombard S, RNA. 2007 Dec;13(12):2098-107. Epub 2007 Oct 16. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=17940138 17940138]
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</table>
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[[Category: Protein complex]]
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__TOC__
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[[Category: Bombard, S.]]
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</StructureSection>
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[[Category: Timsit, Y.]]
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[[Category: Large Structures]]
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[[Category: MG]]
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[[Category: Bombard S]]
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[[Category: NA]]
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[[Category: Timsit Y]]
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[[Category: asymmetry]]
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[[Category: electrostatic]]
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[[Category: metal ion binding]]
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[[Category: rna]]
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[[Category: unstacking]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 23 11:57:43 2008''
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Current revision

Structure of the RNA brominated tridecamer r(GCGUU-5BUGAAACGC) at 1.3 A (Br2)

PDB ID 2r20

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