1zch

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{{Seed}}
 
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[[Image:1zch.png|left|200px]]
 
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==Structure of the hypothetical oxidoreductase YcnD from Bacillus subtilis==
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The line below this paragraph, containing "STRUCTURE_1zch", creates the "Structure Box" on the page.
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<StructureSection load='1zch' size='340' side='right'caption='[[1zch]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[1zch]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZCH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ZCH FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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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]] 1.85&#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=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene></td></tr>
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{{STRUCTURE_1zch| PDB=1zch | SCENE= }}
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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=1zch FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zch OCA], [https://pdbe.org/1zch PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1zch RCSB], [https://www.ebi.ac.uk/pdbsum/1zch PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1zch ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/NFRA2_BACSU NFRA2_BACSU] Reduces FMNH(2) to FMN, with NADH or NADPH as reductant. It also reduces nitroaromatic compounds, quinones, chromates and azo dyes. It could supply the reduced form of FMN to luciferase-like protein and contribute to the degradation of aromatic compounds.<ref>PMID:16229462</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/zc/1zch_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=1zch 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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YcnD from the gram-positive bacterium Bacillus subtilis is a member of a family of bacterial proteins that act as NADH- and/or NADPH-dependent oxidoreductases. Here, we report for the first time on the biochemical characterization of the purified protein, demonstrating that YcnD is an FMN-containing enzyme that can be reduced by NADH or NADPH (Km = 6.4 and 4.4 microM, respectively). In the presence of free FMN as the electron-accepting substrate, the latter reductant showed a ping-pong Bi-Bi reaction mechanism, whereas utilization of NADH is competitively inhibited by this substrate. This finding suggests that NADPH is the physiological reductant of the enzyme. We also show that YcnD reduces nitro-organic compounds, chromate, and a series of azo dyes. The reduction of azo dyes appears to be mediated by free reduced FMN because the reaction is considerably slower in its absence. Structure determination by X-ray crystallography revealed that YcnD folds into a three layer alpha-beta-alpha sandwich strongly resembling the topology of the NADH oxidase superfamily. Similar to homologous bacterial oxidoreductase, YcnD forms homodimers with an extended dimer interface. The biochemical data and the structure are discussed in light of the putative physiological function of YcnD as an oxidoreductase delivering reduced FMN to enzymes that require the reduced cofactor for activity.
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===Structure of the hypothetical oxidoreductase YcnD from Bacillus subtilis===
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Structure and function of YcnD from Bacillus subtilis, a flavin-containing oxidoreductase.,Morokutti A, Lyskowski A, Sollner S, Pointner E, Fitzpatrick TB, Kratky C, Gruber K, Macheroux P Biochemistry. 2005 Oct 25;44(42):13724-33. PMID:16229462<ref>PMID:16229462</ref>
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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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The line below this paragraph, {{ABSTRACT_PUBMED_16229462}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 1zch" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 16229462 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_16229462}}
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__TOC__
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</StructureSection>
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==About this Structure==
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1ZCH is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZCH OCA].
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==Reference==
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Structure and function of YcnD from Bacillus subtilis, a flavin-containing oxidoreductase., Morokutti A, Lyskowski A, Sollner S, Pointner E, Fitzpatrick TB, Kratky C, Gruber K, Macheroux P, Biochemistry. 2005 Oct 25;44(42):13724-33. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16229462 16229462]
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[[Category: Bacillus subtilis]]
[[Category: Bacillus subtilis]]
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[[Category: Single protein]]
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[[Category: Large Structures]]
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[[Category: Fitzpatrick, T B.]]
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[[Category: Fitzpatrick TB]]
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[[Category: Gruber, K.]]
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[[Category: Gruber K]]
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[[Category: Kratky, C.]]
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[[Category: Kratky C]]
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[[Category: Lyskowski, A.]]
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[[Category: Lyskowski A]]
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[[Category: Macheroux, P.]]
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[[Category: Macheroux P]]
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[[Category: Morokutti, A.]]
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[[Category: Morokutti A]]
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[[Category: Pointner, E.]]
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[[Category: Pointner E]]
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[[Category: Sollner, S.]]
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[[Category: Sollner S]]
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[[Category: Nadh-oxidase]]
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[[Category: Nitroreductase]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 05:55:24 2008''
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Current revision

Structure of the hypothetical oxidoreductase YcnD from Bacillus subtilis

PDB ID 1zch

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