3bk8: Difference between revisions

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-{{Seed}}
-[[Image:3bk8.jpg|left|200px]]
-<!--
+==Urate oxidase aza-xanthine complex in cyanide==
-The line below this paragraph, containing "STRUCTURE_3bk8", creates the "Structure Box" on the page.
+<StructureSection load='3bk8' size='340' side='right'caption='[[3bk8]], [[Resolution|resolution]] 1.60&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'>[[3bk8]] 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=3BK8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BK8 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]] 1.6&#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=NA:SODIUM+ION'>NA</scene></td></tr>
-{{STRUCTURE_3bk8|  PDB=3bk8  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3bk8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bk8 OCA], [https://pdbe.org/3bk8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bk8 RCSB], [https://www.ebi.ac.uk/pdbsum/3bk8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bk8 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/bk/3bk8_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=3bk8 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+BACKGROUND: Urate oxidase (EC 1.7.3.3 or UOX) catalyzes the conversion of uric acid and gaseous molecular oxygen to 5-hydroxyisourate and hydrogen peroxide, in the absence of cofactor or particular metal cation. The functional enzyme is a homo-tetramer with four active sites located at dimeric interfaces. RESULTS: The catalytic mechanism was investigated through a ternary complex formed between the enzyme, uric acid, and cyanide that stabilizes an intermediate state of the reaction. When uric acid is replaced by a competitive inhibitor, no complex with cyanide is formed. CONCLUSION: The X-ray structure of this compulsory ternary complex led to a number of mechanistic evidences that support a sequential mechanism in which the two reagents, dioxygen and a water molecule, process through a common site located 3.3 A above the mean plane of the ligand. This site is built by the side chains of Asn 254, and Thr 57, two conserved residues belonging to two different subunits of the homo-tetramer. The absence of a ternary complex between the enzyme, a competitive inhibitor, and cyanide suggests that cyanide inhibits the hydroxylation step of the reaction, after the initial formation of a hydroperoxyde type intermediate.
-===Urate oxidase aza-xanthine complex in cyanide===
+Structural analysis of urate oxidase in complex with its natural substrate inhibited by cyanide: mechanistic implications.,Gabison L, Prange T, Colloc'h N, El Hajji M, Castro B, Chiadmi M BMC Struct Biol. 2008 Jul 20;8:32. PMID:18638417<ref>PMID:18638417</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3bk8" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_18638417}}, adds the Publication Abstract to the page
+*[[Urate Oxidase|Urate Oxidase]]
-(as it appears on PubMed at http://www.pubmed.gov), where 18638417 is the PubMed ID number.
+*[[Urate oxidase 3D structures|Urate oxidase 3D structures]]
--->
+== References ==
-{{ABSTRACT_PUBMED_18638417}}
+<references/>
+__TOC__
-==About this Structure==
+</StructureSection>
-BK8 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=3BK8 OCA].
-==Reference==
-Structural analysis of urate oxidase in complex with its natural substrate inhibited by cyanide: mechanistic implications., Gabison L, Prange T, Colloc'h N, El Hajji M, Castro B, Chiadmi M, BMC Struct Biol. 2008 Jul 20;8:32. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18638417 18638417]
 [[Category: Aspergillus flavus]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: Urate oxidase]]
+[[Category: Castro B]]
-[[Category: Castro, B.]]
+[[Category: Chiadmi M]]
-[[Category: Chiadmi, M.]]
+[[Category: Colloc'h N]]
-[[Category: Gabison, L.]]
+[[Category: El Hajji M]]
-[[Category: Hajji, M El.]]
+[[Category: Gabison L]]
-[[Category: Prange, T.]]
+[[Category: Prange T]]
-[[Category: H, N Colloc.]]
-[[Category: Acetylation]]
-[[Category: Cyanide]]
-[[Category: Degradation mechanism]]
-[[Category: Inhibition]]
-[[Category: Oxidoreductase]]
-[[Category: Peroxisome]]
-[[Category: Purine metabolism]]
-[[Category: Uric acid]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Aug 13 14:02:28 2008''