1ucr: Difference between revisions

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-{{Seed}}
-[[Image:1ucr.png|left|200px]]
-<!--
+==Three-dimensional crystal structure of dissimilatory sulfite reductase D (DsrD)==
-The line below this paragraph, containing "STRUCTURE_1ucr", creates the "Structure Box" on the page.
+<StructureSection load='1ucr' size='340' side='right'caption='[[1ucr]], [[Resolution|resolution]] 1.20&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'>[[1ucr]] 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=1UCR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UCR 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]] 1.2&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-{{STRUCTURE_1ucr|  PDB=1ucr  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ucr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ucr OCA], [https://pdbe.org/1ucr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ucr RCSB], [https://www.ebi.ac.uk/pdbsum/1ucr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ucr 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/uc/1ucr_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=1ucr ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The crystal structure of DsrD from Desulfovibrio vulgaris Hildenborough has been determined at 1.2 A resolution. DsrD is in a dimeric form in the crystal, and five sulfate anions were located on the surface. The structure of DsrD comprises a winged-helix motif, which shows the highest structural homology to similar motifs found in Z-DNA binding proteins and some B-DNA binding proteins. The core structure of the molecule is constructed by intramolecular interactions of hydrophobic residues, which are well conserved in DNA binding proteins, suggesting that these proteins belong to the same superfamily on the basis of the structure. These results indicate a possible role of DsrD in transcription or translation of genes for enzymes catalyzing dissimilatory sulfite reduction.
-===Three-dimensional crystal structure of dissimilatory sulfite reductase D (DsrD)===
+Crystal structure of dissimilatory sulfite reductase D (DsrD) protein--possible interaction with B- and Z-DNA by its winged-helix motif.,Mizuno N, Voordouw G, Miki K, Sarai A, Higuchi Y Structure. 2003 Sep;11(9):1133-40. PMID:12962631<ref>PMID:12962631</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-<!--
+</div>
-The line below this paragraph, {{ABSTRACT_PUBMED_12962631}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 1ucr" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 12962631 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_12962631}}
+__TOC__
+</StructureSection>
-==About this Structure==
-UCR is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Desulfovibrio_vulgaris Desulfovibrio vulgaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UCR OCA].
-==Reference==
-<ref group="xtra">PMID:12962631</ref><references group="xtra"/>
 [[Category: Desulfovibrio vulgaris]]
-[[Category: Higuchi, Y.]]
+[[Category: Large Structures]]
-[[Category: Miki, K.]]
+[[Category: Higuchi Y]]
-[[Category: Mizuno, N.]]
+[[Category: Miki K]]
-[[Category: Sarai, A.]]
+[[Category: Mizuno N]]
-[[Category: Voordouw, G.]]
+[[Category: Sarai A]]
-[[Category: Crystal structure]]
+[[Category: Voordouw G]]
-[[Category: Dissimilatory sulfite reductase d]]
-[[Category: Dna binding motif]]
-[[Category: Sulfate-reducing bacteria]]
-[[Category: Winged-helix motif]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 17:04:30 2009''