2c1w: Difference between revisions

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-[[Image:2c1w.gif|left|200px]]
-<!--
+==The structure of XendoU: a splicing independent snoRNA processing endoribonuclease==
-The line below this paragraph, containing "STRUCTURE_2c1w", creates the "Structure Box" on the page.
+<StructureSection load='2c1w' size='340' side='right'caption='[[2c1w]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[2c1w]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Xenopus_laevis Xenopus laevis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2C1W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2C1W FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.2&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-{{STRUCTURE_2c1w|  PDB=2c1w  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2c1w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2c1w OCA], [https://pdbe.org/2c1w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2c1w RCSB], [https://www.ebi.ac.uk/pdbsum/2c1w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2c1w ProSAT]</span></td></tr>
+</table>
-'''THE STRUCTURE OF XENDOU: A SPLICING INDEPENDENT SNORNA PROCESSING ENDORIBONUCLEASE'''
+== Function ==
+[https://www.uniprot.org/uniprot/ENDUA_XENLA ENDUA_XENLA] Poly(U)-specific endoribonuclease involved in the biosynthesis of intron-encoded box C/D snoRNAs, such as U16 and U86. Releases products that have 2'-3'-cyclic phosphate termini.<ref>PMID:12571235</ref> <ref>PMID:15755742</ref> <ref>PMID:7513048</ref> <ref>PMID:9144568</ref>
+== Evolutionary Conservation ==
-==Overview==
+[[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/c1/2c1w_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=2c1w ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
 Small nucleolar RNAs (snoRNAs) play a key role in eukaryotic ribosome biogenesis. In most cases, snoRNAs are encoded in introns and are released through the splicing reaction. Some snoRNAs are, instead, produced by an alternative pathway consisting of endonucleolytic processing of pre-mRNA. XendoU, the endoribonuclease responsible for this activity, is a U-specific, metal-dependent enzyme that releases products with 2'-3' cyclic phosphate termini. XendoU is broadly conserved among eukaryotes, and it is a genetic marker of nidoviruses, including the severe acute respiratory syndrome coronavirus, where it is essential for replication and transcription. We have determined by crystallography the structure of XendoU that, by refined search methodologies, appears to display a unique fold. Based on sequence conservation, mutagenesis, and docking simulations, we have identified the active site. The conserved structural determinants of this site may provide a framework for attempting to design antiviral drugs to interfere with the infectious nidovirus life cycle.
-==About this Structure==
+The structure of the endoribonuclease XendoU: From small nucleolar RNA processing to severe acute respiratory syndrome coronavirus replication.,Renzi F, Caffarelli E, Laneve P, Bozzoni I, Brunori M, Vallone B Proc Natl Acad Sci U S A. 2006 Aug 15;103(33):12365-70. Epub 2006 Aug 8. PMID:16895992<ref>PMID:16895992</ref>
-C1W is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Xenopus_laevis Xenopus laevis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2C1W OCA].
-==Reference==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-The structure of the endoribonuclease XendoU: From small nucleolar RNA processing to severe acute respiratory syndrome coronavirus replication., Renzi F, Caffarelli E, Laneve P, Bozzoni I, Brunori M, Vallone B, Proc Natl Acad Sci U S A. 2006 Aug 15;103(33):12365-70. Epub 2006 Aug 8. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16895992 16895992]
+</div>
-[[Category: Single protein]]
+<div class="pdbe-citations 2c1w" style="background-color:#fffaf0;"></div>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Xenopus laevis]]
-[[Category: Bozzoni, I.]]
+[[Category: Bozzoni I]]
-[[Category: Brunori, M.]]
+[[Category: Brunori M]]
-[[Category: Caffarelli, E.]]
+[[Category: Caffarelli E]]
-[[Category: Laneve, P.]]
+[[Category: Laneve P]]
-[[Category: Renzi, F.]]
+[[Category: Renzi F]]
-[[Category: Vallone, B.]]
+[[Category: Vallone B]]
-[[Category: Endoribonuclease]]
-[[Category: Nuclease]]
-[[Category: Snorna]]
-[[Category: Splicing independent processing]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 21:07:15 2008''