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1dun

From Proteopedia

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[[Image:1dun.gif|left|200px]]<br /><applet load="1dun" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="1dun, resolution 1.9&Aring;" />
 
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'''EIAV DUTPASE NATIVE'''<br />
 
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==Overview==
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==EIAV DUTPASE NATIVE==
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The X-ray structures of dUTPase from equine infectious anaemia virus (EIAV) in unliganded and complexed forms have been determined to 1.9 and 2.0 A resolution, respectively. The structures were solved by molecular replacement using Escherichia coli dUTPase as search model. The exploitation of a relatively novel refinement approach for the initial model, combining maximum likelihood refinement with stereochemically unrestrained updating of the model, proved to be of crucial importance and should be of general relevance.EIAV dUTPase is a homotrimer where each subunit folds into a twisted antiparallel beta-barrel with the N and C-terminal portions interacting with adjacent subunits. The C-terminal 14 and 17 amino acid residues are disordered in the crystal structure of the unliganded and complexed enzyme, respectively. Interactions along the 3-fold axis include a water-containing volume (size 207 A3) which has no contact with bulk solvent.It has earlier been shown that a divalent metal ion is essential for catalysis. For the first time, a putative binding site for such a metal ion, in this case Sr2+, is established. The positions of the inhibitor (the non-hydrolysable substrate analogue dUDP) and the metal ion in the complex are consistent with the location of the active centre established for trimeric dUTPase structures, in which subunit interfaces form three surface clefts lined with evolutionary conserved residues. However, a detailed comparison of the active sites of the EIAV and E. coli enzymes reveals some structural differences. The viral enzyme undergoes a small conformational change in the uracil-binding beta-hairpin structure upon dUDP binding not observed in the other known dUTPase structures.
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<StructureSection load='1dun' size='340' side='right'caption='[[1dun]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1dun]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Equine_infectious_anemia_virus Equine infectious anemia virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DUN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DUN FirstGlance]. <br>
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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]] 1.9&#8491;</td></tr>
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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=1dun FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dun OCA], [https://pdbe.org/1dun PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dun RCSB], [https://www.ebi.ac.uk/pdbsum/1dun PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dun ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/POL_EIAV9 POL_EIAV9] During replicative cycle of retroviruses, the reverse-transcribed viral DNA is integrated into the host chromosome by the viral integrase enzyme. RNase H activity is associated with the reverse transcriptase.
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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/du/1dun_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=1dun ConSurf].
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<div style="clear:both"></div>
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==About this Structure==
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==See Also==
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1DUN is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Equine_infectious_anemia_virus Equine infectious anemia virus]. Active as [http://en.wikipedia.org/wiki/dUTP_diphosphatase dUTP diphosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.1.23 3.6.1.23] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DUN OCA].
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*[[DUTPase 3D structures|DUTPase 3D structures]]
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__TOC__
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==Reference==
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</StructureSection>
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Crystal structure of dUTPase from equine infectious anaemia virus; active site metal binding in a substrate analogue complex., Dauter Z, Persson R, Rosengren AM, Nyman PO, Wilson KS, Cedergren-Zeppezauer ES, J Mol Biol. 1999 Jan 15;285(2):655-73. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=9878436 9878436]
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[[Category: Equine infectious anemia virus]]
[[Category: Equine infectious anemia virus]]
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[[Category: Single protein]]
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[[Category: Large Structures]]
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[[Category: dUTP diphosphatase]]
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[[Category: Cedergren-Zeppezauer ES]]
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[[Category: Cedergren-Zeppezauer, E S.]]
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[[Category: Dauter Z]]
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[[Category: Dauter, Z.]]
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[[Category: Nyman PO]]
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[[Category: Nyman, P O.]]
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[[Category: Persson R]]
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[[Category: Persson, R.]]
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[[Category: Rosengren AM]]
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[[Category: Rosengren, A M.]]
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[[Category: Wilson KS]]
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[[Category: Wilson, K S.]]
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[[Category: aspartyl protease]]
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[[Category: dutpase]]
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[[Category: eiav]]
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[[Category: hydrolase]]
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[[Category: trimeric enzyme]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 12:20:37 2008''
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Current revision

EIAV DUTPASE NATIVE

PDB ID 1dun

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