1ogy

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[[Image:1ogy.png|left|200px]]
 
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{{STRUCTURE_1ogy| PDB=1ogy | SCENE= }}
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==Crystal structure of the heterodimeric nitrate reductase from Rhodobacter sphaeroides==
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<StructureSection load='1ogy' size='340' side='right'caption='[[1ogy]], [[Resolution|resolution]] 3.20&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1ogy]] is a 16 chain structure with sequence from [https://en.wikipedia.org/wiki/Cereibacter_sphaeroides Cereibacter sphaeroides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OGY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1OGY FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.2&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEC:HEME+C'>HEC</scene>, <scene name='pdbligand=MGD:2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE+GUANOSINE+DINUCLEOTIDE'>MGD</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ogy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ogy OCA], [https://pdbe.org/1ogy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ogy RCSB], [https://www.ebi.ac.uk/pdbsum/1ogy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ogy ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/NAPA_CERS4 NAPA_CERS4] Catalytic subunit of the periplasmic nitrate reductase complex NapAB. Receives electrons from NapB and catalyzes the reduction of nitrate to nitrite.[HAMAP-Rule:MF_01630]<ref>PMID:14528294</ref>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/og/1ogy_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=1ogy ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The structure of the respiratory nitrate reductase (NapAB) from Rhodobacter sphaeroides, the periplasmic heterodimeric enzyme responsible for the first step in the denitrification process, has been determined at a resolution of 3.2 A. The di-heme electron transfer small subunit NapB binds to the large subunit with heme II in close proximity to the [4Fe-4S] cluster of NapA. A total of 57 residues at the N- and C-terminal extremities of NapB adopt an extended conformation, embracing the NapA subunit and largely contributing to the total area of 5,900 A(2) buried in the complex. Complex formation was studied further by measuring the variation of the redox potentials of all the cofactors upon binding. The marked effects observed are interpreted in light of the three-dimensional structure and depict a plasticity that contributes to an efficient electron transfer in the complex from the heme I of NapB to the molybdenum catalytic site of NapA.
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===CRYSTAL STRUCTURE OF THE HETERODIMERIC NITRATE REDUCTASE FROM RHODOBACTER SPHAEROIDES===
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Structural and redox plasticity in the heterodimeric periplasmic nitrate reductase.,Arnoux P, Sabaty M, Alric J, Frangioni B, Guigliarelli B, Adriano JM, Pignol D Nat Struct Biol. 2003 Nov;10(11):928-34. Epub 2003 Oct 5. PMID:14528294<ref>PMID:14528294</ref>
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{{ABSTRACT_PUBMED_14528294}}
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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==About this Structure==
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<div class="pdbe-citations 1ogy" style="background-color:#fffaf0;"></div>
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[[1ogy]] is a 16 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhodobacter_sphaeroides Rhodobacter sphaeroides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OGY OCA].
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==See Also==
==See Also==
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*[[Cytochrome c|Cytochrome c]]
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*[[Cytochrome C 3D structures|Cytochrome C 3D structures]]
*[[Nitrate reductase|Nitrate reductase]]
*[[Nitrate reductase|Nitrate reductase]]
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== References ==
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==Reference==
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<references/>
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<ref group="xtra">PMID:014528294</ref><ref group="xtra">PMID:011939777</ref><references group="xtra"/>
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__TOC__
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[[Category: Nitrate reductase]]
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</StructureSection>
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[[Category: Rhodobacter sphaeroides]]
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[[Category: Cereibacter sphaeroides]]
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[[Category: Adriano, J M.]]
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[[Category: Large Structures]]
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[[Category: Alric, J.]]
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[[Category: Adriano J-M]]
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[[Category: Arnoux, P.]]
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[[Category: Alric J]]
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[[Category: Frangioni, B.]]
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[[Category: Arnoux P]]
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[[Category: Guigliarelli, B.]]
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[[Category: Frangioni B]]
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[[Category: Pignol, D.]]
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[[Category: Guigliarelli B]]
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[[Category: Sabaty, M.]]
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[[Category: Pignol D]]
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[[Category: Nitrate reductase]]
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[[Category: Sabaty M]]
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[[Category: Oxidoreductase]]
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Current revision

Crystal structure of the heterodimeric nitrate reductase from Rhodobacter sphaeroides

PDB ID 1ogy

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