1exd

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(New page: 200px<br /><applet load="1exd" size="450" color="white" frame="true" align="right" spinBox="true" caption="1exd, resolution 2.70&Aring;" /> '''CRYSTAL STRUCTURE OF...)
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[[Image:1exd.gif|left|200px]]<br /><applet load="1exd" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1exd, resolution 2.70&Aring;" />
 
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'''CRYSTAL STRUCTURE OF A TIGHT-BINDING GLUTAMINE TRNA BOUND TO GLUTAMINE AMINOACYL TRNA SYNTHETASE'''<br />
 
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==Overview==
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==CRYSTAL STRUCTURE OF A TIGHT-BINDING GLUTAMINE TRNA BOUND TO GLUTAMINE AMINOACYL TRNA SYNTHETASE==
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Guided by an in vitro selection experiment designed to obtain tight, binding aptamers of Escherichia coli glutamine specific tRNA (tRNAGln) for, glutaminyl-tRNA synthetase (GlnRS), we have engineered a tRNA mutant in, which the five-nucleotide variable loop sequence 5'-44CAUUC48-3' is, replaced by 5'-44AGGU48-3'. This mutant tRNA binds to GlnRS with 30-fold, improved affinity compared to the wild type. The 2.7 A cocrystal structure, of the RNA aptamer-GlnRS complex reveals major rearrangements in the, central tertiary core of the tRNA, while maintaining an RNA-protein, interface identical to the wild type. The repacked RNA core features a, novel hydrogen bonding arrangement of the trans Levitt pair G15-U48, a new, sulfate binding pocket in the major groove, and increased hydrophobic, stacking interactions among the bases. These data suggest that enhanced, protein binding to a mutant globular RNA can arise from stabilization of, RNA tertiary interactions rather than optimization of RNA-protein, contacts.
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<StructureSection load='1exd' size='340' side='right'caption='[[1exd]], [[Resolution|resolution]] 2.70&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1exd]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EXD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1EXD FirstGlance]. <br>
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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]] 2.7&#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=AMP:ADENOSINE+MONOPHOSPHATE'>AMP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=1exd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1exd OCA], [https://pdbe.org/1exd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1exd RCSB], [https://www.ebi.ac.uk/pdbsum/1exd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1exd ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/SYQ_ECOLI SYQ_ECOLI]
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ex/1exd_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1exd ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Guided by an in vitro selection experiment designed to obtain tight binding aptamers of Escherichia coli glutamine specific tRNA (tRNAGln) for glutaminyl-tRNA synthetase (GlnRS), we have engineered a tRNA mutant in which the five-nucleotide variable loop sequence 5'-44CAUUC48-3' is replaced by 5'-44AGGU48-3'. This mutant tRNA binds to GlnRS with 30-fold improved affinity compared to the wild type. The 2.7 A cocrystal structure of the RNA aptamer-GlnRS complex reveals major rearrangements in the central tertiary core of the tRNA, while maintaining an RNA-protein interface identical to the wild type. The repacked RNA core features a novel hydrogen bonding arrangement of the trans Levitt pair G15-U48, a new sulfate binding pocket in the major groove, and increased hydrophobic stacking interactions among the bases. These data suggest that enhanced protein binding to a mutant globular RNA can arise from stabilization of RNA tertiary interactions rather than optimization of RNA-protein contacts.
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==About this Structure==
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Tertiary core rearrangements in a tight binding transfer RNA aptamer.,Bullock TL, Sherlin LD, Perona JJ Nat Struct Biol. 2000 Jun;7(6):497-504. PMID:10881199<ref>PMID:10881199</ref>
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1EXD is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] with SO4 and A as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Glutamine--tRNA_ligase Glutamine--tRNA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.18 6.1.1.18] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1EXD OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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Tertiary core rearrangements in a tight binding transfer RNA aptamer., Bullock TL, Sherlin LD, Perona JJ, Nat Struct Biol. 2000 Jun;7(6):497-504. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10881199 10881199]
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</div>
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[[Category: Escherichia coli]]
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<div class="pdbe-citations 1exd" style="background-color:#fffaf0;"></div>
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[[Category: Glutamine--tRNA ligase]]
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[[Category: Single protein]]
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[[Category: Bullock, T.L.]]
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[[Category: Perona, J.J.]]
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[[Category: Sherlin, L.D.]]
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[[Category: A]]
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[[Category: SO4]]
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[[Category: engineered trna]]
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[[Category: trna aptamer]]
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[[Category: trna-protein complex]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 14:23:59 2007''
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==See Also==
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*[[Aminoacyl tRNA synthetase 3D structures|Aminoacyl tRNA synthetase 3D structures]]
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*[[Transfer RNA (tRNA)|Transfer RNA (tRNA)]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Escherichia coli]]
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[[Category: Large Structures]]
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[[Category: Bullock TL]]
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[[Category: Perona JJ]]
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[[Category: Sherlin LD]]

Current revision

CRYSTAL STRUCTURE OF A TIGHT-BINDING GLUTAMINE TRNA BOUND TO GLUTAMINE AMINOACYL TRNA SYNTHETASE

PDB ID 1exd

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