1nqz: Difference between revisions

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-{{Seed}}
-[[Image:1nqz.png|left|200px]]
-<!--
+==The structure of a CoA pyrophosphatase from D. Radiodurans complexed with a magnesium ion==
-The line below this paragraph, containing "STRUCTURE_1nqz", creates the "Structure Box" on the page.
+<StructureSection load='1nqz' size='340' side='right'caption='[[1nqz]], [[Resolution|resolution]] 1.70&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'>[[1nqz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Deinococcus_radiodurans Deinococcus radiodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NQZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NQZ 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]] 1.7&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-{{STRUCTURE_1nqz|  PDB=1nqz  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1nqz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nqz OCA], [https://pdbe.org/1nqz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1nqz RCSB], [https://www.ebi.ac.uk/pdbsum/1nqz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1nqz ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Y1184_DEIRA Y1184_DEIRA]
+== 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/nq/1nqz_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=1nqz ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Gene Dr1184 from Deinococcus radiodurans codes for a Nudix enzyme (DR-CoAse) that hydrolyzes the pyrophosphate moiety of coenzyme A (CoA). Nudix enzymes with the same specificity have been found in yeast, humans, and mice. The three-dimensional structure of DR-CoAse, the first of a Nudix hydrolase with this specificity, reveals that this enzyme contains, in addition to the fold observed in other Nudix enzymes, insertions that are characteristic of a CoA-hydrolyzing Nudix subfamily. The structure of the complex of the enzyme with Mg(2+), its activating cation, reveals the position of the catalytic site. A helix, part of the N-terminal insertion, partially occludes the binding site and has to change its position to permit substrate binding. Comparison of the structure of DR-CoAse to those of other Nudix enzymes, together with the location in the structure of the sequence characteristic of CoAses, suggests a mode of binding of the substrate to the enzyme that is compatible with all available data.
-===The structure of a CoA pyrophosphatase from D. Radiodurans complexed with a magnesium ion===
+Structure of a coenzyme A pyrophosphatase from Deinococcus radiodurans: a member of the Nudix family.,Kang LW, Gabelli SB, Bianchet MA, Xu WL, Bessman MJ, Amzel LM J Bacteriol. 2003 Jul;185(14):4110-8. PMID:12837785<ref>PMID:12837785</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_12837785}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 1nqz" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 12837785 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_12837785}}
+__TOC__
+</StructureSection>
-==About this Structure==
-NQZ is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Deinococcus_radiodurans Deinococcus radiodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NQZ OCA].
-==Reference==
-Structure of a coenzyme A pyrophosphatase from Deinococcus radiodurans: a member of the Nudix family., Kang LW, Gabelli SB, Bianchet MA, Xu WL, Bessman MJ, Amzel LM, J Bacteriol. 2003 Jul;185(14):4110-8. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12837785 12837785]
 [[Category: Deinococcus radiodurans]]
-[[Category: Nucleotide diphosphatase]]
+[[Category: Large Structures]]
-[[Category: Single protein]]
+[[Category: Amzel LM]]
-[[Category: Amzel, L M.]]
+[[Category: Bessman MJ]]
-[[Category: Bessman, M J.]]
+[[Category: Bianchet MA]]
-[[Category: Bianchet, M A.]]
+[[Category: Gabelli SB]]
-[[Category: Gabelli, S B.]]
+[[Category: Kang LW]]
-[[Category: Kang, L W.]]
+[[Category: Xu WL]]
-[[Category: Xu, W L.]]
-[[Category: Coa]]
-[[Category: D radioduran]]
-[[Category: Mutt]]
-[[Category: Nudix]]
-[[Category: Pyrophosphatase]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 18:39:25 2008''