2qdy: Difference between revisions

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-[[Image:2qdy.png|left|200px]]
-{{STRUCTURE_2qdy|  PDB=2qdy  |  SCENE=  }}
+==Crystal Structure of Fe-type NHase from Rhodococcus erythropolis AJ270==
+<StructureSection load='2qdy' size='340' side='right'caption='[[2qdy]], [[Resolution|resolution]] 1.30&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[2qdy]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Rhodococcus_erythropolis Rhodococcus erythropolis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QDY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QDY FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.3&#8491;</td></tr>
+<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=CSD:3-SULFINOALANINE'>CSD</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IBN:2-METHYLPROPAN-1-AMINE'>IBN</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=2qdy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qdy OCA], [https://pdbe.org/2qdy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2qdy RCSB], [https://www.ebi.ac.uk/pdbsum/2qdy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2qdy ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/NHAA_RHOER NHAA_RHOER] NHase catalyzes the hydration of various nitrile compounds to the corresponding amides. Industrial production of acrylamide is now being developed using some of the enzymes of this class.
+== 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/qd/2qdy_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=2qdy ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The crystal structure of Fe-type nitrile hydratase from Rhodococcus erythropolis AJ270 was determined at 1.3A resolution. The two cysteine residues (alphaCys(112) and alphaCys(114)) equatorially coordinated to the ferric ion were post-translationally modified to cysteine sulfinic acids. A glutamine residue (alphaGln(90)) in the active center gave double conformations. Based on the interactions among the enzyme, substrate and water molecules, a new mechanism of biocatalysis of nitrile hydratase was proposed, in which the water molecule activated by the glutamine residue performed as the nucleophile to attack on the nitrile which was simultaneously interacted by another water molecule coordinated to the ferric ion.
-===Crystal Structure of Fe-type NHase from Rhodococcus erythropolis AJ270===
+High resolution X-ray molecular structure of the nitrile hydratase from Rhodococcus erythropolis AJ270 reveals posttranslational oxidation of two cysteines into sulfinic acids and a novel biocatalytic nitrile hydration mechanism.,Song L, Wang M, Shi J, Xue Z, Wang MX, Qian S Biochem Biophys Res Commun. 2007 Oct 19;362(2):319-24. Epub 2007 Aug 14. PMID:17716629<ref>PMID:17716629</ref>
-{{ABSTRACT_PUBMED_17716629}}
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 2qdy" style="background-color:#fffaf0;"></div>
-==About this Structure==
+==See Also==
-[[2qdy]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhodococcus_erythropolis Rhodococcus erythropolis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QDY OCA].
+*[[Nitrile hydratase|Nitrile hydratase]]
+== References ==
-==Reference==
+<references/>
-<ref group="xtra">PMID:017716629</ref><references group="xtra"/>
+__TOC__
-[[Category: Nitrile hydratase]]
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Rhodococcus erythropolis]]
-[[Category: Qian, S.]]
+[[Category: Qian S]]
-[[Category: Shi, J.]]
+[[Category: Shi J]]
-[[Category: Song, L.]]
+[[Category: Song L]]
-[[Category: Wang, M X.]]
+[[Category: Wang M-X]]
-[[Category: Xue, Z.]]
+[[Category: Xue Z]]
-[[Category: Lyase]]
-[[Category: Nitrile hydratase]]
-[[Category: Post translation]]