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==Model of tRNA(Leu)-EF-Tu in the ribosomal pre-accommodated state revealed by cryo-EM==
==Model of tRNA(Leu)-EF-Tu in the ribosomal pre-accommodated state revealed by cryo-EM==
<StructureSection load='3eq4' size='340' side='right' caption='[[3eq4]], [[Resolution|resolution]] 12.00&Aring;' scene=''>
<SX load='3eq4' size='340' side='right' viewer='molstar' caption='[[3eq4]], [[Resolution|resolution]] 12.00&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3eq4]] is a 9 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli_k-12 Escherichia coli k-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EQ4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EQ4 FirstGlance]. <br>
<table><tr><td colspan='2'>[[3eq4]] is a 9 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EQ4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EQ4 FirstGlance]. <br>
</td></tr><tr><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2avy|2avy]], [[2aw4|2aw4]], [[1qza|1qza]], [[1ob2|1ob2]], [[3ep2|3ep2]], [[3eq3|3eq3]]</td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 12&#8491;</td></tr>
<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3eq4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eq4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3eq4 RCSB], [http://www.ebi.ac.uk/pdbsum/3eq4 PDBsum]</span></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=3eq4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eq4 OCA], [https://pdbe.org/3eq4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3eq4 RCSB], [https://www.ebi.ac.uk/pdbsum/3eq4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3eq4 ProSAT]</span></td></tr>
<table>
</table>
== Function ==
[https://www.uniprot.org/uniprot/RL11_ECOLI RL11_ECOLI] This protein binds directly to 23S ribosomal RNA. Forms the L11 stalk, which is mobile in the ribosome, indicating its contribution to the activity of initiation, elongation and release factors.[HAMAP-Rule:MF_00736_B]
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
Check<jmol>
   <jmolCheckbox>
   <jmolCheckbox>
     <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/eq/3eq4_consurf.spt"</scriptWhenChecked>
     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/eq/3eq4_consurf.spt"</scriptWhenChecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
     <text>to colour the structure by Evolutionary Conservation</text>
   </jmolCheckbox>
   </jmolCheckbox>
</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/chain_selection.php?pdb_ID=2ata ConSurf].
</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=3eq4 ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The accuracy of ribosomal translation is achieved by an initial selection and a proofreading step, mediated by EF-Tu, which forms a ternary complex with aminoacyl(aa)-tRNA. To study the binding modes of different aa-tRNAs, we compared cryo-EM maps of the kirromycin-stalled ribosome bound with ternary complexes containing Phe-tRNA(Phe), Trp-tRNA(Trp), or Leu-tRNA(LeuI). The three maps suggest a common binding manner of cognate aa-tRNAs in their specific binding with both the ribosome and EF-Tu. All three aa-tRNAs have the same 'loaded spring' conformation with a kink and twist between the D-stem and anticodon stem. The three complexes are similarly integrated in an interaction network, extending from the anticodon loop through h44 and protein S12 to the EF-Tu-binding CCA end of aa-tRNA, proposed to signal cognate codon-anticodon interaction to the GTPase centre and tune the accuracy of aa-tRNA selection.
Recognition of aminoacyl-tRNA: a common molecular mechanism revealed by cryo-EM.,Li W, Agirrezabala X, Lei J, Bouakaz L, Brunelle JL, Ortiz-Meoz RF, Green R, Sanyal S, Ehrenberg M, Frank J EMBO J. 2008 Dec 17;27(24):3322-31. Epub 2008 Nov 20. PMID:19020518<ref>PMID:19020518</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>


==See Also==
==See Also==
*[[Elongation factor|Elongation factor]]
*[[Elongation factor 3D structures|Elongation factor 3D structures]]
*[[Ribosomal protein L11|Ribosomal protein L11]]
*[[Ribosomal protein L11 3D structures|Ribosomal protein L11 3D structures]]
== References ==
*[[Ribosomal protein S12|Ribosomal protein S12]]
<references/>
*[[Transfer RNA (tRNA)|Transfer RNA (tRNA)]]
__TOC__
__TOC__
</StructureSection>
</SX>
[[Category: Escherichia coli k-12]]
[[Category: Escherichia coli K-12]]
[[Category: Agirrezabala, X.]]
[[Category: Large Structures]]
[[Category: Frank, J.]]
[[Category: Agirrezabala X]]
[[Category: Li, W.]]
[[Category: Frank J]]
[[Category: A/t-trna]]
[[Category: Li W]]
[[Category: Antibiotic resistance]]
[[Category: Automated data collection]]
[[Category: Elongation factor]]
[[Category: Gtp-binding]]
[[Category: Membrane]]
[[Category: Methylation]]
[[Category: Nucleotide-binding]]
[[Category: Phosphoprotein]]
[[Category: Protein biosynthesis]]
[[Category: Protein translation]]
[[Category: Ribonucleoprotein]]
[[Category: Ribosomal protein]]
[[Category: Ribosomal protein-rna complex]]
[[Category: Rna-binding]]
[[Category: Rrna-binding]]
[[Category: Ternary complex]]
[[Category: Trna-binding]]

Latest revision as of 09:49, 21 February 2024

Model of tRNA(Leu)-EF-Tu in the ribosomal pre-accommodated state revealed by cryo-EM

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