2okd

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{{Seed}}
 
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[[Image:2okd.png|left|200px]]
 
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==High Resolution Crystal Structures of Vaccinia Virus dUTPase==
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The line below this paragraph, containing "STRUCTURE_2okd", creates the "Structure Box" on the page.
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<StructureSection load='2okd' size='340' side='right'caption='[[2okd]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[2okd]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Vaccinia_virus Vaccinia virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OKD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2OKD FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.4&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
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{{STRUCTURE_2okd| PDB=2okd | SCENE= }}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2okd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2okd OCA], [https://pdbe.org/2okd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2okd RCSB], [https://www.ebi.ac.uk/pdbsum/2okd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2okd ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/DUT_VACCW DUT_VACCW] This enzyme is involved in nucleotide metabolism: it produces dUMP, the immediate precursor of thymidine nucleotides and it decreases the intracellular concentration of dUTP so that uracil cannot be incorporated into DNA.<ref>PMID:18321387</ref>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ok/2okd_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=2okd ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Deoxyuridine triphosphate nucleotidohydrolase (dUTPase) catalyzes the hydrolysis of dUTP to dUMP and pyrophosphate in the presence of Mg(2+) ions. The enzyme plays multiple cellular roles by maintaining a low dUTP:dTTP ratio and by synthesizing the substrate for thymidylate synthase in the biosynthesis of dTTP. Although dUTPase is an essential enzyme and has been established as a valid target for drug design, the high degree of homology of vaccinia virus dUTPase to the human enzyme makes the identification of selective inhibitors difficult. The crystal structure of vaccinia virus dUTPase has been solved and the active site has been mapped by crystallographic analysis of the apo enzyme and of complexes with the substrate-analog dUMPNPP, with the product dUMP and with dUDP, which acts as an inhibitor. Analyses of these structures reveal subtle differences between the viral and human enzymes. In particular, the much larger size of the central channel at the trimer interface suggests new possibilities for structure-based drug design. Vaccinia virus is a prototype of the poxviruses.
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===High Resolution Crystal Structures of Vaccinia Virus dUTPase===
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Structures of vaccinia virus dUTPase and its nucleotide complexes.,Samal A, Schormann N, Cook WJ, DeLucas LJ, Chattopadhyay D Acta Crystallogr D Biol Crystallogr. 2007 May;63(Pt 5):571-80. Epub 2007, Apr 21. PMID:17452782<ref>PMID:17452782</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 2okd" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_17452782}}, adds the Publication Abstract to the page
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*[[DUTPase 3D structures|DUTPase 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 17452782 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_17452782}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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2OKD is a 3 chains structure of sequences from [http://en.wikipedia.org/wiki/Vaccinia_virus Vaccinia virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OKD OCA].
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==Reference==
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<ref group="xtra">PMID:17452782</ref><references group="xtra"/>
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[[Category: Vaccinia virus]]
[[Category: Vaccinia virus]]
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[[Category: DUTP diphosphatase]]
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[[Category: Chattopadhyay D]]
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[[Category: Chattopadhyay, D.]]
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[[Category: Schormann N]]
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[[Category: Schormann, N.]]
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[[Category: Dutpase-like]]
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[[Category: Fold]]
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[[Category: Forms tight trimer through an additional beta-sheet in each subunit]]
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[[Category: Jelly-roll]]
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[[Category: Subunit beta-sheets are orthogonally packed around the three-fold axis]]
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[[Category: Superfamily]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 15:56:30 2009''
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Current revision

High Resolution Crystal Structures of Vaccinia Virus dUTPase

PDB ID 2okd

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