2e1q: Difference between revisions

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-[[Image:2e1q.jpg|left|200px]]
-<!--
+==Crystal Structure of Human Xanthine Oxidoreductase mutant, Glu803Val==
-The line below this paragraph, containing "STRUCTURE_2e1q", creates the "Structure Box" on the page.
+<StructureSection load='2e1q' size='340' side='right'caption='[[2e1q]], [[Resolution|resolution]] 2.60&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'>[[2e1q]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E1Q OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2E1Q 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]] 2.6&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene>, <scene name='pdbligand=MOM:HYDROXY(DIOXO)MOLYBDENUM'>MOM</scene>, <scene name='pdbligand=MTE:PHOSPHONIC+ACIDMONO-(2-AMINO-5,6-DIMERCAPTO-4-OXO-3,7,8A,9,10,10A-HEXAHYDRO-4H-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-7-YLMETHYL)ESTER'>MTE</scene>, <scene name='pdbligand=SAL:2-HYDROXYBENZOIC+ACID'>SAL</scene></td></tr>
-{{STRUCTURE_2e1q|  PDB=2e1q  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2e1q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e1q OCA], [https://pdbe.org/2e1q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2e1q RCSB], [https://www.ebi.ac.uk/pdbsum/2e1q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2e1q ProSAT]</span></td></tr>
+</table>
-'''Crystal Structure of Human Xanthine Oxidoreductase mutant, Glu803Val'''
+== Disease ==
+[https://www.uniprot.org/uniprot/XDH_HUMAN XDH_HUMAN] Defects in XDH are the cause of xanthinuria type 1 (XU1) [MIM:[https://omim.org/entry/278300 278300]. Xanthinuria is characterized by excretion of very large amounts of xanthine in the urine and a tendency to form xanthine stones. Uric acid is strikingly diminished in serum and urine. XU1 is due to isolated xanthine dehydrogenase. XU1 patients can metabolize allopurinol.<ref>PMID:9153281</ref> <ref>PMID:10844591</ref> <ref>PMID:11379872</ref> <ref>PMID:14551354</ref>
+== Function ==
-==Overview==
+[https://www.uniprot.org/uniprot/XDH_HUMAN XDH_HUMAN] Key enzyme in purine degradation. Catalyzes the oxidation of hypoxanthine to xanthine. Catalyzes the oxidation of xanthine to uric acid. Contributes to the generation of reactive oxygen species. Has also low oxidase activity towards aldehydes (in vitro).<ref>PMID:17301077</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/e1/2e1q_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=2e1q ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
 Xanthine oxidase (oxidoreductase; XOR) and aldehyde oxidase (AO) are similar in protein structure and prosthetic group composition, but differ in substrate preference. Here we show that mutation of two amino acid residues in the active site of human XOR for purine substrates results in conversion of the substrate preference to AO type. Human XOR and its Glu803-to-valine (E803V) and Arg881-to-methionine (R881M) mutants were expressed in an Escherichia coli system. The E803V mutation almost completely abrogated the activity towards hypoxanthine as a substrate, but very weak activity towards xanthine remained. On the other hand, the R881M mutant lacked activity towards xanthine, but retained slight activity towards hypoxanthine. Both mutants, however, exhibited significant aldehyde oxidase activity. The crystal structure of E803V mutant of human XOR was determined at 2.6 A resolution. The overall molybdopterin domain structure of this mutant closely resembles that of bovine milk XOR; amino acid residues in the active centre pocket are situated at very similar positions and in similar orientations, except that Glu803 was replaced by valine, indicating that the decrease in activity towards purine substrate is not due to large conformational change in the mutant enzyme. Unlike wild-type XOR, the mutants were not subject to time-dependent inhibition by allopurinol.
-==About this Structure==
+Human xanthine oxidase changes its substrate specificity to aldehyde oxidase type upon mutation of amino acid residues in the active site: roles of active site residues in binding and activation of purine substrate.,Yamaguchi Y, Matsumura T, Ichida K, Okamoto K, Nishino T J Biochem. 2007 Apr;141(4):513-24. Epub 2007 Feb 14. PMID:17301077<ref>PMID:17301077</ref>
-E1Q is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E1Q OCA].
-==Reference==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-Human xanthine oxidase changes its substrate specificity to aldehyde oxidase type upon mutation of amino acid residues in the active site: roles of active site residues in binding and activation of purine substrate., Yamaguchi Y, Matsumura T, Ichida K, Okamoto K, Nishino T, J Biochem. 2007 Apr;141(4):513-24. Epub 2007 Feb 14. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17301077 17301077]
+</div>
+<div class="pdbe-citations 2e1q" style="background-color:#fffaf0;"></div>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Homo sapiens]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: Ichida, K.]]
+[[Category: Ichida K]]
-[[Category: Matsumura, T.]]
+[[Category: Matsumura T]]
-[[Category: Nishino, T.]]
+[[Category: Nishino T]]
-[[Category: Okamoto, K.]]
+[[Category: Okamoto K]]
-[[Category: Yamaguchi, Y.]]
+[[Category: Yamaguchi Y]]
-[[Category: 2fe-2]]
-[[Category: Fad]]
-[[Category: Molybdenum cofactor]]
-[[Category: Oxidoreductase]]
-[[Category: Xanthine oxidase]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 01:45:40 2008''