1yz9: Difference between revisions

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-[[Image:1yz9.gif|left|200px]]
-<!--
-The line below this paragraph, containing "STRUCTURE_1yz9", creates the "Structure Box" on the page.
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-{{STRUCTURE_1yz9|  PDB=1yz9  |  SCENE=  }}
-'''Crystal structure of RNase III mutant E110Q from Aquifex aeolicus complexed with double stranded RNA at 2.1-Angstrom Resolution'''
+==Crystal structure of RNase III mutant E110Q from Aquifex aeolicus complexed with double stranded RNA at 2.1-Angstrom Resolution==
+<StructureSection load='1yz9' size='340' side='right'caption='[[1yz9]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1yz9]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Aquifex_aeolicus Aquifex aeolicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YZ9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YZ9 FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=1yz9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yz9 OCA], [https://pdbe.org/1yz9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yz9 RCSB], [https://www.ebi.ac.uk/pdbsum/1yz9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yz9 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/RNC_AQUAE RNC_AQUAE] Digests double-stranded RNA. Involved in the processing of primary rRNA transcript to yield the immediate precursors to the large and small rRNAs (23S and 16S). Also processes some mRNAs, and tRNAs when they are encoded in the rRNA operon.<ref>PMID:21138964</ref> <ref>PMID:16439209</ref>
+== 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/yz/1yz9_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=1yz9 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Bacterial ribonuclease III (RNase III) can affect RNA structure and gene expression in either of two ways: as a processing enzyme that cleaves double-stranded (ds) RNA, or as a binding protein that binds but does not cleave dsRNA. We previously proposed a model of the catalytic complex of RNase III with dsRNA based on three crystal structures, including the endonuclease domain of RNase III with and without bound metal ions and a dsRNA binding protein complexed with dsRNA. We also reported a noncatalytic assembly observed in the crystal structure of an RNase III mutant, which binds but does not cleave dsRNA, complexed with dsRNA. We hypothesize that the RNase III*dsRNA complex can exist in two functional forms, a catalytic complex and a noncatalytic assembly, and that in between the two forms there may be intermediate states. Here, we present four crystal structures of RNase III complexed with dsRNA, representing possible intermediates.
-==Overview==
+Intermediate states of ribonuclease III in complex with double-stranded RNA.,Gan J, Tropea JE, Austin BP, Court DL, Waugh DS, Ji X Structure. 2005 Oct;13(10):1435-42. PMID:16216575<ref>PMID:16216575</ref>
-Bacterial ribonuclease III (RNase III) can affect RNA structure and gene expression in either of two ways: as a processing enzyme that cleaves double-stranded (ds) RNA, or as a binding protein that binds but does not cleave dsRNA. We previously proposed a model of the catalytic complex of RNase III with dsRNA based on three crystal structures, including the endonuclease domain of RNase III with and without bound metal ions and a dsRNA binding protein complexed with dsRNA. We also reported a noncatalytic assembly observed in the crystal structure of an RNase III mutant, which binds but does not cleave dsRNA, complexed with dsRNA. We hypothesize that the RNase III*dsRNA complex can exist in two functional forms, a catalytic complex and a noncatalytic assembly, and that in between the two forms there may be intermediate states. Here, we present four crystal structures of RNase III complexed with dsRNA, representing possible intermediates.
-==About this Structure==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-YZ9 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Aquifex_aeolicus Aquifex aeolicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YZ9 OCA].
+</div>
+<div class="pdbe-citations 1yz9" style="background-color:#fffaf0;"></div>
-==Reference==
+==See Also==
-Intermediate states of ribonuclease III in complex with double-stranded RNA., Gan J, Tropea JE, Austin BP, Court DL, Waugh DS, Ji X, Structure. 2005 Oct;13(10):1435-42. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16216575 16216575]
+*[[Ribonuclease 3D structures|Ribonuclease 3D structures]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Aquifex aeolicus]]
-[[Category: Ribonuclease III]]
+[[Category: Large Structures]]
-[[Category: Single protein]]
+[[Category: Austin BP]]
-[[Category: Austin, B P.]]
+[[Category: Court DL]]
-[[Category: Court, D L.]]
+[[Category: Gan J]]
-[[Category: Gan, J.]]
+[[Category: Ji X]]
-[[Category: Ji, X.]]
+[[Category: Tropea JE]]
-[[Category: Tropea, J E.]]
+[[Category: Waugh DS]]
-[[Category: Waugh, D S.]]
-[[Category: Double-stranded rna]]
-[[Category: Endonucleolytic cleavage]]
-[[Category: Ribonuclease iii]]
-[[Category: Rna interference]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 16:59:33 2008''