1wq2: Difference between revisions

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-[[Image:1wq2.gif|left|200px]]<br /><applet load="1wq2" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="1wq2, resolution 2.4&Aring;" />
-'''Neutron Crystal Structure Of Dissimilatory Sulfite Reductase D (DsrD)'''<br />
-==Overview==
+==Neutron Crystal Structure Of Dissimilatory Sulfite Reductase D (DsrD)==
-Dissimilatory sulfite reductase D (DsrD) from Desulfovibrio vulgaris has, been crystallized for a neutron diffraction study. The initial crystals, obtained were too small for the neutron experiment. In order to obtain a, larger crystal (&gt;1 mm3), a combination of two techniques was developed to, determine the optimum crystallization conditions: a crystallization phase, diagram was obtained, followed by crystal-quality assessment via X-ray, diffraction. Using conditions determined in this manner, a large single, crystal (1.7 mm3) of DsrD protein was subsequently grown in D(2)O solution, by the macroseeding technique. A neutron diffraction experiment was, carried out using the BIX-3 diffractometer at the Japan Atomic Energy, Research Institute (JAERI), collecting data to 2.4 A resolution from an, optimized crystal.
+<StructureSection load='1wq2' size='340' side='right'caption='[[1wq2]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1wq2]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Desulfovibrio_vulgaris Desulfovibrio vulgaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WQ2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1WQ2 FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Neutron Diffraction, [[Resolution|Resolution]] 2.4&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DOD:DEUTERATED+WATER'>DOD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1wq2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1wq2 OCA], [https://pdbe.org/1wq2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1wq2 RCSB], [https://www.ebi.ac.uk/pdbsum/1wq2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1wq2 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/DSVD_DESVH DSVD_DESVH] May play an essential role in dissimilatory sulfite reduction.
+== 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/wq/1wq2_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=1wq2 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Dissimilatory sulfite reductase D (DsrD) from Desulfovibrio vulgaris has been crystallized for a neutron diffraction study. The initial crystals obtained were too small for the neutron experiment. In order to obtain a larger crystal (&gt;1 mm3), a combination of two techniques was developed to determine the optimum crystallization conditions: a crystallization phase diagram was obtained, followed by crystal-quality assessment via X-ray diffraction. Using conditions determined in this manner, a large single crystal (1.7 mm3) of DsrD protein was subsequently grown in D(2)O solution by the macroseeding technique. A neutron diffraction experiment was carried out using the BIX-3 diffractometer at the Japan Atomic Energy Research Institute (JAERI), collecting data to 2.4 A resolution from an optimized crystal.
-==About this Structure==
+Crystallization and preliminary neutron analysis of the dissimilatory sulfite reductase D (DsrD) protein from the sulfate-reducing bacterium Desulfovibrio vulgaris.,Chatake T, Mizuno N, Voordouw G, Higuchi Y, Arai S, Tanaka I, Niimura N Acta Crystallogr D Biol Crystallogr. 2003 Dec;59(Pt 12):2306-9. Epub 2003, Nov 27. PMID:14646103<ref>PMID:14646103</ref>
-WQ2 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Desulfovibrio_vulgaris Desulfovibrio vulgaris] with SO4 and DOD as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1WQ2 OCA].
-==Reference==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-Crystallization and preliminary neutron analysis of the dissimilatory sulfite reductase D (DsrD) protein from the sulfate-reducing bacterium Desulfovibrio vulgaris., Chatake T, Mizuno N, Voordouw G, Higuchi Y, Arai S, Tanaka I, Niimura N, Acta Crystallogr D Biol Crystallogr. 2003 Dec;59(Pt 12):2306-9. Epub 2003, Nov 27. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=14646103 14646103]
+</div>
+<div class="pdbe-citations 1wq2" style="background-color:#fffaf0;"></div>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Desulfovibrio vulgaris]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: Arai, S.]]
+[[Category: Arai S]]
-[[Category: Chatake, T.]]
+[[Category: Chatake T]]
-[[Category: Higuchi, Y.]]
+[[Category: Higuchi Y]]
-[[Category: Mizuno, N.]]
+[[Category: Mizuno N]]
-[[Category: Niimura, N.]]
+[[Category: Niimura N]]
-[[Category: Tanaka, I.]]
+[[Category: Tanaka I]]
-[[Category: Voordouw, G.]]
+[[Category: Voordouw G]]
-[[Category: DOD]]
-[[Category: SO4]]
-[[Category: neutron hydrogen hydration protein]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 05:35:54 2007''