1sdr

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[[Image:1sdr.jpg|left|200px]]<br /><applet load="1sdr" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="1sdr, resolution 2.600&Aring;" />
 
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'''CRYSTAL STRUCTURE OF AN RNA DODECAMER CONTAINING THE ESCHERICHIA COLI SHINE-DALGARNO SEQUENCE'''<br />
 
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==Overview==
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==CRYSTAL STRUCTURE OF AN RNA DODECAMER CONTAINING THE ESCHERICHIA COLI SHINE-DALGARNO SEQUENCE==
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The synthetic dodecameric RNA fragment rUAAGGAGGUGAU resembles a region upstream of the initiation site in prokaryotic mRNAs whereas the pyrimidine-rich complementary strand is identical to the last 12 nucleotides of Escherichia coli 16 S rRNA. The complex thus serves as a model for the Shine-Dalgarno interaction which is required for proper initiation of translation. The crystal structure of rUAAGGAGGUGUA.rAUCACCUCCUUA has been determined at 2.6 A resolution and refined against 2957 1 sigma(F) structure amplitudes to an R-value of 0.195. The unit cell of the triclinic crystals contains two double-stranded RNA molecules. The conformation of the two duplexes is similar, with a root-mean-square deviation of 0.683 A between equivalent atoms, and resembles calf thymus A-DNA as determined by X-ray fiber diffraction methods. Both molecules from continuous helices that penetrate the entire crystal, but the dinucleotide step in between dodecameric duplexes has an unusual geometry with a negative twist angle. The long helices cross over each other in a characteristic manner by inserting the backbone of one molecule into the minor groove of another. These contacts are stabilized by several direct intermolecular hydrogen bonds most of which are mediated by 2'-hydroxyl groups of the ribose sugars suggesting a general mode for the interaction between RNA molecules which is different from DNA-DNA interactions.
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<StructureSection load='1sdr' size='340' side='right'caption='[[1sdr]], [[Resolution|resolution]] 2.60&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[1sdr]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1SDR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1SDR FirstGlance]. <br>
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1SDR 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=1SDR 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]] 2.6&#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=1sdr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sdr OCA], [https://pdbe.org/1sdr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1sdr RCSB], [https://www.ebi.ac.uk/pdbsum/1sdr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1sdr ProSAT]</span></td></tr>
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==Reference==
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</table>
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Crystal structure of an RNA dodecamer containing the Escherichia coli Shine-Dalgarno sequence., Schindelin H, Zhang M, Bald R, Furste JP, Erdmann VA, Heinemann U, J Mol Biol. 1995 Jun 9;249(3):595-603. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=7540215 7540215]
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__TOC__
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[[Category: Protein complex]]
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</StructureSection>
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[[Category: Bald, R.]]
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[[Category: Large Structures]]
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[[Category: Erdmann, V A.]]
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[[Category: Bald R]]
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[[Category: Fuerste, J P.]]
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[[Category: Erdmann VA]]
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[[Category: Heinemann, U.]]
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[[Category: Fuerste J-P]]
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[[Category: Schindelin, H.]]
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[[Category: Heinemann U]]
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[[Category: Zhang, M.]]
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[[Category: Schindelin H]]
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[[Category: a-rna]]
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[[Category: Zhang M]]
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[[Category: double helix]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 15:00:28 2008''
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Current revision

CRYSTAL STRUCTURE OF AN RNA DODECAMER CONTAINING THE ESCHERICHIA COLI SHINE-DALGARNO SEQUENCE

PDB ID 1sdr

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