2noq: Difference between revisions

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-[[Image:2noq.gif|left|200px]]
-<!--
-The line below this paragraph, containing "STRUCTURE_2noq", creates the "Structure Box" on the page.
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-or leave the SCENE parameter empty for the default display.
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-{{STRUCTURE_2noq|  PDB=2noq  |  SCENE=  }}
-'''Structure of ribosome-bound cricket paralysis virus IRES RNA'''
+==Structure of ribosome-bound cricket paralysis virus IRES RNA==
+<SX load='2noq' size='340' side='right' viewer='molstar' caption='[[2noq]], [[Resolution|resolution]] 7.30&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[2noq]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Cricket_paralysis_virus Cricket paralysis virus] and [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NOQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2NOQ FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 7.3&#8491;</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=2noq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2noq OCA], [https://pdbe.org/2noq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2noq RCSB], [https://www.ebi.ac.uk/pdbsum/2noq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2noq ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/RS5_YEAST RS5_YEAST]
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/no/2noq_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </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/main_output.php?pdb_ID=2noq ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Internal ribosome entry sites (IRESs) facilitate an alternative, end-independent pathway of translation initiation. A particular family of dicistroviral IRESs can assemble elongation-competent 80S ribosomal complexes in the absence of canonical initiation factors and initiator transfer RNA. We present here a cryo-EM reconstruction of a dicistroviral IRES bound to the 80S ribosome. The resolution of the cryo-EM reconstruction, in the subnanometer range, allowed the molecular structure of the complete IRES in its active, ribosome-bound state to be solved. The structure, harboring three pseudoknot-containing domains, each with a specific functional role, shows how defined elements of the IRES emerge from a compactly folded core and interact with the key ribosomal components that form the A, P and E sites, where tRNAs normally bind. Our results exemplify the molecular strategy for recruitment of an IRES and reveal the dynamic features necessary for internal initiation.
-==Overview==
+Structure of the ribosome-bound cricket paralysis virus IRES RNA.,Schuler M, Connell SR, Lescoute A, Giesebrecht J, Dabrowski M, Schroeer B, Mielke T, Penczek PA, Westhof E, Spahn CM Nat Struct Mol Biol. 2006 Dec;13(12):1092-6. Epub 2006 Nov 19. PMID:17115051<ref>PMID:17115051</ref>
-Internal ribosome entry sites (IRESs) facilitate an alternative, end-independent pathway of translation initiation. A particular family of dicistroviral IRESs can assemble elongation-competent 80S ribosomal complexes in the absence of canonical initiation factors and initiator transfer RNA. We present here a cryo-EM reconstruction of a dicistroviral IRES bound to the 80S ribosome. The resolution of the cryo-EM reconstruction, in the subnanometer range, allowed the molecular structure of the complete IRES in its active, ribosome-bound state to be solved. The structure, harboring three pseudoknot-containing domains, each with a specific functional role, shows how defined elements of the IRES emerge from a compactly folded core and interact with the key ribosomal components that form the A, P and E sites, where tRNAs normally bind. Our results exemplify the molecular strategy for recruitment of an IRES and reveal the dynamic features necessary for internal initiation.
-==About this Structure==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-NOQ is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NOQ OCA].
+</div>
+<div class="pdbe-citations 2noq" style="background-color:#fffaf0;"></div>
-==Reference==
+==See Also==
-Structure of the ribosome-bound cricket paralysis virus IRES RNA., Schuler M, Connell SR, Lescoute A, Giesebrecht J, Dabrowski M, Schroeer B, Mielke T, Penczek PA, Westhof E, Spahn CM, Nat Struct Mol Biol. 2006 Dec;13(12):1092-6. Epub 2006 Nov 19. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17115051 17115051]
+*[[Ribosomal protein L1|Ribosomal protein L1]]
-[[Category: Protein complex]]
+*[[Ribosomal protein S5|Ribosomal protein S5]]
+== References ==
+<references/>
+__TOC__
+</SX>
+[[Category: Cricket paralysis virus]]
+[[Category: Large Structures]]
 [[Category: Saccharomyces cerevisiae]]
-[[Category: Connell, S R.]]
+[[Category: Connell SR]]
-[[Category: Dabrowski, M.]]
+[[Category: Dabrowski M]]
-[[Category: Giesebrecht, J.]]
+[[Category: Giesebrecht J]]
-[[Category: Lescoute, A.]]
+[[Category: Lescoute A]]
-[[Category: Mielke, T.]]
+[[Category: Mielke T]]
-[[Category: Penczek, P A.]]
+[[Category: Penczek PA]]
-[[Category: Schroeer, B.]]
+[[Category: Schroeer B]]
-[[Category: Schuler, M.]]
+[[Category: Schuler M]]
-[[Category: Spahn, C M.T.]]
+[[Category: Spahn CMT]]
-[[Category: Westhof, E.]]
+[[Category: Westhof E]]
-[[Category: Internal initiation]]
-[[Category: Ires rna]]
-[[Category: Ribosome]]
-[[Category: Translation]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 09:42:57 2008''