2fub: Difference between revisions

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-{{Seed}}
-[[Image:2fub.png|left|200px]]
-<!--
+==Crystal structure of urate oxidase at 140 MPa==
-The line below this paragraph, containing "STRUCTURE_2fub", creates the "Structure Box" on the page.
+<StructureSection load='2fub' size='340' side='right'caption='[[2fub]], [[Resolution|resolution]] 2.30&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'>[[2fub]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Aspergillus_flavus Aspergillus flavus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FUB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FUB 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]] 2.3&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AZA:8-AZAXANTHINE'>AZA</scene>, <scene name='pdbligand=CYS:CYSTEINE'>CYS</scene></td></tr>
-{{STRUCTURE_2fub|  PDB=2fub  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2fub FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fub OCA], [https://pdbe.org/2fub PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2fub RCSB], [https://www.ebi.ac.uk/pdbsum/2fub PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2fub ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/URIC_ASPFL URIC_ASPFL] Catalyzes the oxidation of uric acid to 5-hydroxyisourate, which is further processed to form (S)-allantoin.
+== 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/fu/2fub_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=2fub ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+We report the three-dimensional structure determined by high-pressure macromolecular crystallography (HPMX) of a 135-kDa homo-tetrameric enzyme, urate oxidase from Aspergillus flavus complexed with its potent inhibitor 8-azaxanthin. Urate oxidase crystals are quite sensitive to pressure, as three-dimensional order is lost at about 180 MPa. A highly complete 2.3 A resolution data set was collected at 140 MPa, close to the critical pressure. Crystal structures at atmospheric pressure and at high pressure were refined in the orthorhombic space group I222 with final crystallographic R factors 14.1% and 16.1%, respectively. The effect of pressure on temperature factors, ordered water molecules, hydrogen bond lengths, contacts, buried surface areas as well as cavity volume was investigated. Results suggest that the onset of disruption of the tetrameric assembly by pressure has been captured in the crystalline state.
-===Crystal structure of urate oxidase at 140 MPa===
+High pressure macromolecular crystallography: the 140-MPa crystal structure at 2.3 A resolution of urate oxidase, a 135-kDa tetrameric assembly.,Colloc'h N, Girard E, Dhaussy AC, Kahn R, Ascone I, Mezouar M, Fourme R Biochim Biophys Acta. 2006 Mar;1764(3):391-7. Epub 2006 Jan 26. PMID:16478683<ref>PMID:16478683</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 2fub" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_16478683}}, adds the Publication Abstract to the page
+*[[Urate oxidase 3D structures|Urate oxidase 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 16478683 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_16478683}}
+__TOC__
+</StructureSection>
-==About this Structure==
-FUB is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Aspergillus_flavus Aspergillus flavus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FUB OCA].
-==Reference==
-High pressure macromolecular crystallography: the 140-MPa crystal structure at 2.3 A resolution of urate oxidase, a 135-kDa tetrameric assembly., Colloc'h N, Girard E, Dhaussy AC, Kahn R, Ascone I, Mezouar M, Fourme R, Biochim Biophys Acta. 2006 Mar;1764(3):391-7. Epub 2006 Jan 26. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16478683 16478683]
 [[Category: Aspergillus flavus]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: Urate oxidase]]
+[[Category: Colloc'h N]]
-[[Category: Fourme, R.]]
+[[Category: Fourme R]]
-[[Category: Girard, E.]]
+[[Category: Girard E]]
-[[Category: H, N Colloc.]]
-[[Category: High pressure]]
-[[Category: Tetramer]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 13:20:01 2008''