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| | ==Crystal Structure of Mutant Chlorite Dismutase from Candidatus Nitrospira defluvii W145V== | | ==Crystal Structure of Mutant Chlorite Dismutase from Candidatus Nitrospira defluvii W145V== |
| - | <StructureSection load='4m08' size='340' side='right' caption='[[4m08]], [[Resolution|resolution]] 2.80Å' scene=''> | + | <StructureSection load='4m08' size='340' side='right'caption='[[4m08]], [[Resolution|resolution]] 2.80Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[4m08]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/"candidatus_nitrospira_defluvii"_spieck_et_al._2006 "candidatus nitrospira defluvii" spieck et al. 2006]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M08 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4M08 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[4m08]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Nitrospira_defluvii Nitrospira defluvii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M08 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4M08 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.799Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4m05|4m05]], [[4m06|4m06]], [[4m07|4m07]], [[4m09|4m09]]</td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">cld, cld1, NIDE1387 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=330214 "Candidatus Nitrospira defluvii" Spieck et al. 2006])</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=4m08 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4m08 OCA], [https://pdbe.org/4m08 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4m08 RCSB], [https://www.ebi.ac.uk/pdbsum/4m08 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4m08 ProSAT]</span></td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Chlorite_O(2)-lyase Chlorite O(2)-lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.49 1.13.11.49] </span></td></tr> | + | |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4m08 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4m08 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4m08 RCSB], [http://www.ebi.ac.uk/pdbsum/4m08 PDBsum]</span></td></tr> | + | |
| | </table> | | </table> |
| - | <div style="background-color:#fffaf0;">
| + | == Function == |
| - | == Publication Abstract from PubMed == | + | [https://www.uniprot.org/uniprot/B3U4H7_9BACT B3U4H7_9BACT] |
| - | Chlorite dismutases (Clds) are heme b containing oxidoreductases that convert chlorite to chloride and molecular oxygen. In order to elucidate the role of conserved heme cavity residues in the catalysis of this reaction comprehensive mutational and biochemical analyses of Cld from "Candidatus Nitrospira defluvii" (NdCld) were performed. Particularly, point mutations of the cavity-forming residues R173, K141, W145, W146, and E210 were performed. The effect of manipulation in 12 single and double mutants was probed by UV-vis spectroscopy, spectroelectrochemistry, pre-steady-state and steady-state kinetics, and X-ray crystallography. Resulting biochemical data are discussed with respect to the known crystal structure of wild-type NdCld and the variants R173A and R173K as well as the structures of R173E, W145V, W145F, and the R173Q/W146Y solved in this work. The findings allow a critical analysis of the role of these heme cavity residues in the reaction mechanism of chlorite degradation that is proposed to involve hypohalous acid as transient intermediate and formation of an O horizontal lineO bond. The distal R173 is shown to be important (but not fully essential) for the reaction with chlorite, and, upon addition of cyanide, it acts as a proton acceptor in the formation of the resulting low-spin complex. The proximal H-bonding network including K141-E210-H160 keeps the enzyme in its ferric (E degrees ' = -113 mV) and mainly five-coordinated high-spin state and is very susceptible to perturbation.
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| - | Manipulating conserved heme cavity residues of chlorite dismutase: effect on structure, redox chemistry, and reactivity.,Hofbauer S, Gysel K, Bellei M, Hagmuller A, Schaffner I, Mlynek G, Kostan J, Pirker KF, Daims H, Furtmuller PG, Battistuzzi G, Djinovic-Carugo K, Obinger C Biochemistry. 2014 Jan 14;53(1):77-89. doi: 10.1021/bi401042z. Epub 2014 Jan 3. PMID:24364531<ref>PMID:24364531</ref>
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| - | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
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| - | </div>
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| - | == References ==
| + | |
| - | <references/>
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Candidatus nitrospira defluvii spieck et al. 2006]] | + | [[Category: Large Structures]] |
| - | [[Category: Djinovic-Carugo, K]] | + | [[Category: Nitrospira defluvii]] |
| - | [[Category: Gysel, K]] | + | [[Category: Djinovic-Carugo K]] |
| - | [[Category: Hagmueller, A]] | + | [[Category: Gysel K]] |
| - | [[Category: Ferredoxin-like fold]]
| + | [[Category: Hagmueller A]] |
| - | [[Category: Oxidoreductase]]
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