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| | <StructureSection load='3nn2' size='340' side='right'caption='[[3nn2]], [[Resolution|resolution]] 1.94Å' scene=''> | | <StructureSection load='3nn2' size='340' side='right'caption='[[3nn2]], [[Resolution|resolution]] 1.94Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[3nn2]] 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=3NN2 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=3NN2 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[3nn2]] 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=3NN2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3NN2 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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]] 1.94Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3nn1|3nn1]], [[3nn3|3nn3]], [[3nn4|3nn4]]</td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></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'>[https://proteopedia.org/fgij/fg.htm?mol=3nn2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3nn2 OCA], [https://pdbe.org/3nn2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3nn2 RCSB], [https://www.ebi.ac.uk/pdbsum/3nn2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3nn2 ProSAT]</span></td></tr> |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=3nn2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3nn2 OCA], [http://pdbe.org/3nn2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3nn2 RCSB], [http://www.ebi.ac.uk/pdbsum/3nn2 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3nn2 ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/B3U4H7_9BACT B3U4H7_9BACT] |
| | == Evolutionary Conservation == | | == Evolutionary Conservation == |
| | [[Image:Consurf_key_small.gif|200px|right]] | | [[Image:Consurf_key_small.gif|200px|right]] |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Candidatus nitrospira defluvii spieck et al. 2006]] | |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Daims, H]] | + | [[Category: Nitrospira defluvii]] |
| - | [[Category: Djinovic-Carugo, K]] | + | [[Category: Daims H]] |
| - | [[Category: Furtmueller, P G]] | + | [[Category: Djinovic-Carugo K]] |
| - | [[Category: Kostan, J]] | + | [[Category: Furtmueller PG]] |
| - | [[Category: Maixner, F]] | + | [[Category: Kostan J]] |
| - | [[Category: Mlynek, G]] | + | [[Category: Maixner F]] |
| - | [[Category: Obinger, C]] | + | [[Category: Mlynek G]] |
| - | [[Category: Sjoeblom, B]] | + | [[Category: Obinger C]] |
| - | [[Category: Wagner, M]] | + | [[Category: Sjoeblom B]] |
| - | [[Category: Chlorite dismutation]]
| + | [[Category: Wagner M]] |
| - | [[Category: Ferredoxin like fold]]
| + | |
| - | [[Category: Oxidoreductase]]
| + | |
| - | [[Category: Periplasmatic]]
| + | |
| Structural highlights
Function
B3U4H7_9BACT
Evolutionary Conservation
Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.
Publication Abstract from PubMed
Chlorite dismutase (Cld) is a unique heme enzyme which transforms chlorite to chloride and molecular oxygen (reaction: ClO(2)(-)-->Cl(-)+O(2)). Since bacteria with Cld play significant roles in the bioremediation of industrially contaminated sites and also in wastewater treatment, it is of high interest to understand the molecular mechanism of chlorite detoxification. Here we investigate a highly active Cld from Candidatus Nitrospira defluvii (NdCld), a key nitrifier in biological wastewater treatment, using a comprehensive structural, biochemical and bioinformatics approach. We determined the crystal structure of Cld from Candidatus Nitrospira defluvii and showed that functional NdCld is a homopentamer possessing a fold found in other Clds and Cld-like enzymes. To investigate the Cld function in more detail, site-directed mutagenesis of a catalytically important residue (Arg173) was performed and two enzyme mutants were structurally and biochemically characterized. Arginine 173 is demonstrated to play a key role in (i) controlling of ligand and substrate access and binding and (ii) in chlorite dismutation reaction. The flexible residue modulates the electrostatic potential and size of the active site entrance and might be involved in keeping transiently formed hypochlorite in place for final molecular oxygen and chloride formation. Furthermore, using a structure-based sequence alignment, we show that the residue corresponding to Arg173 is conserved in all known active forms of Cld and propose it as a marker for Cld activity in yet uncharacterized Cld-like proteins. Finally, our analysis indicates that all Clds and Cld-like enzymes employ a non-covalently bound heme as a cofactor.
Structural and functional characterisation of the chlorite dismutase from the nitrite-oxidizing bacterium "Candidatus Nitrospira defluvii": Identification of a catalytically important amino acid residue.,Kostan J, Sjoblom B, Maixner F, Mlynek G, Furtmuller PG, Obinger C, Wagner M, Daims H, Djinovic-Carugo K J Struct Biol. 2010 Jun 22. PMID:20600954[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Kostan J, Sjoblom B, Maixner F, Mlynek G, Furtmuller PG, Obinger C, Wagner M, Daims H, Djinovic-Carugo K. Structural and functional characterisation of the chlorite dismutase from the nitrite-oxidizing bacterium "Candidatus Nitrospira defluvii": Identification of a catalytically important amino acid residue. J Struct Biol. 2010 Jun 22. PMID:20600954 doi:10.1016/j.jsb.2010.06.014
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