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1y69

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[[Image:1y69.gif|left|200px]]
 
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==RRF domain I in complex with the 50S ribosomal subunit from Deinococcus radiodurans==
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The line below this paragraph, containing "STRUCTURE_1y69", creates the "Structure Box" on the page.
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<StructureSection load='1y69' size='340' side='right'caption='[[1y69]], [[Resolution|resolution]] 3.33&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[1y69]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Deinococcus_radiodurans_R1 Deinococcus radiodurans R1] and [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=1Y69 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Y69 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]] 3.33&#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=1y69 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1y69 OCA], [https://pdbe.org/1y69 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1y69 RCSB], [https://www.ebi.ac.uk/pdbsum/1y69 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1y69 ProSAT]</span></td></tr>
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{{STRUCTURE_1y69| PDB=1y69 | SCENE= }}
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/RL16_DEIRA RL16_DEIRA] Binds the 5S and 23S rRNAs and is also seen to make contacts with the A and P site tRNAs. Interacts with A site tRNA mimics, and is probably one of the key factors, along with a helix of the 23S rRNA, in positioning tRNA stems in the peptidyl-transferase center.[HAMAP-Rule:MF_01342]
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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/y6/1y69_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=1y69 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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This study presents the crystal structure of domain I of the Escherichia coli ribosome recycling factor (RRF) bound to the Deinococcus radiodurans 50S subunit. The orientation of RRF is consistent with the position determined on a 70S-RRF complex by cryoelectron microscopy (cryo-EM). Alignment, however, requires a rotation of 7 degrees and a shift of the cryo-EM RRF by a complete turn of an alpha-helix, redefining the contacts established with ribosomal components. At 3.3 A resolution, RRF is seen to interact exclusively with ribosomal elements associated with tRNA binding and/or translocation. Furthermore, these results now provide a high-resolution structural description of the conformational changes that were suspected to occur on the 70S-RRF complex, which has implications for the synergistic action of RRF with elongation factor G (EF-G). Specifically, the tip of the universal bridge element H69 is shifted by 20 A toward h44 of the 30S subunit, suggesting that RRF primes the intersubunit bridge B2a for the action of EF-G. Collectively, our data enable a model to be proposed for the dual action of EF-G and RRF during ribosome recycling.
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'''RRF domain I in complex with the 50S ribosomal subunit from Deinococcus radiodurans'''
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X-ray crystallography study on ribosome recycling: the mechanism of binding and action of RRF on the 50S ribosomal subunit.,Wilson DN, Schluenzen F, Harms JM, Yoshida T, Ohkubo T, Albrecht R, Buerger J, Kobayashi Y, Fucini P EMBO J. 2005 Jan 26;24(2):251-60. Epub 2004 Dec 23. PMID:15616575<ref>PMID:15616575</ref>
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==Overview==
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This study presents the crystal structure of domain I of the Escherichia coli ribosome recycling factor (RRF) bound to the Deinococcus radiodurans 50S subunit. The orientation of RRF is consistent with the position determined on a 70S-RRF complex by cryoelectron microscopy (cryo-EM). Alignment, however, requires a rotation of 7 degrees and a shift of the cryo-EM RRF by a complete turn of an alpha-helix, redefining the contacts established with ribosomal components. At 3.3 A resolution, RRF is seen to interact exclusively with ribosomal elements associated with tRNA binding and/or translocation. Furthermore, these results now provide a high-resolution structural description of the conformational changes that were suspected to occur on the 70S-RRF complex, which has implications for the synergistic action of RRF with elongation factor G (EF-G). Specifically, the tip of the universal bridge element H69 is shifted by 20 A toward h44 of the 30S subunit, suggesting that RRF primes the intersubunit bridge B2a for the action of EF-G. Collectively, our data enable a model to be proposed for the dual action of EF-G and RRF during ribosome recycling.
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==About this Structure==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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1Y69 is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Deinococcus_radiodurans Deinococcus radiodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y69 OCA].
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</div>
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<div class="pdbe-citations 1y69" style="background-color:#fffaf0;"></div>
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==Reference==
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==See Also==
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X-ray crystallography study on ribosome recycling: the mechanism of binding and action of RRF on the 50S ribosomal subunit., Wilson DN, Schluenzen F, Harms JM, Yoshida T, Ohkubo T, Albrecht R, Buerger J, Kobayashi Y, Fucini P, EMBO J. 2005 Jan 26;24(2):251-60. Epub 2004 Dec 23. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15616575 15616575]
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*[[Ribosomal protein L16|Ribosomal protein L16]]
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[[Category: Deinococcus radiodurans]]
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*[[Ribosomal protein L27|Ribosomal protein L27]]
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[[Category: Protein complex]]
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*[[Ribosome recycling factor|Ribosome recycling factor]]
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[[Category: Albrecht, R.]]
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== References ==
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[[Category: Buerger, J.]]
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<references/>
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[[Category: Fucini, P.]]
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__TOC__
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[[Category: Harms, J M.]]
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</StructureSection>
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[[Category: Kobayashi, Y.]]
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[[Category: Deinococcus radiodurans R1]]
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[[Category: Ohkubo, T.]]
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[[Category: Escherichia coli K-12]]
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[[Category: Schluenzen, F.]]
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[[Category: Large Structures]]
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[[Category: Wilson, D N.]]
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[[Category: Albrecht R]]
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[[Category: Yoshida, T.]]
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[[Category: Buerger J]]
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[[Category: 50]]
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[[Category: Fucini P]]
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[[Category: Recycling factor]]
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[[Category: Harms JM]]
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[[Category: Ribosome]]
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[[Category: Kobayashi Y]]
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[[Category: Rrf]]
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[[Category: Ohkubo T]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 15:55:19 2008''
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[[Category: Schluenzen F]]
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[[Category: Wilson DN]]
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[[Category: Yoshida T]]

Current revision

RRF domain I in complex with the 50S ribosomal subunit from Deinococcus radiodurans

PDB ID 1y69

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