2wd4

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[[Image:2wd4.png|left|200px]]
 
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==Ascorbate Peroxidase as a heme oxygenase: w41A variant product with t-butyl peroxide==
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The line below this paragraph, containing "STRUCTURE_2wd4", creates the "Structure Box" on the page.
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<StructureSection load='2wd4' size='340' side='right'caption='[[2wd4]], [[Resolution|resolution]] 1.40&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'>[[2wd4]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Glycine_max Glycine max]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WD4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2WD4 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]] 1.4&#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=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TBV:3-[2-[[3-(2-CARBOXYETHYL)-5-[[3-ETHENYL-4-METHYL-5-[(2-METHYLPROPAN-2-YL)OXY]-1H-PYRROL-2-YL]METHYL]-4-METHYL-1H-PYRROL+-2-YL]METHYL]-5-[(Z)-(4-ETHENYL-3-METHYL-5-OXO-PYRROL-2-YLIDENE)METHYL]-4-METHYL-1H-PYRROL-3-YL]PROPANOIC+ACID'>TBV</scene></td></tr>
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{{STRUCTURE_2wd4| PDB=2wd4 | 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=2wd4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wd4 OCA], [https://pdbe.org/2wd4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2wd4 RCSB], [https://www.ebi.ac.uk/pdbsum/2wd4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2wd4 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/Q43758_SOYBN Q43758_SOYBN]
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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/wd/2wd4_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=2wd4 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 heme peroxidases and heme oxygenase enzymes share a common heme prosthetic group but catalyse fundamentally different reactions, the first being H2O2-dependent oxidation of substrate using an oxidised Compound I intermediate, the second O2-dependent degradation of heme. It has been proposed that these enzymes utilise a common reaction intermediate, a ferric hydroperoxide species, that sits at a crossroads in the mechanism and beyond which there are two mutually exclusive mechanistic pathways. Here, we present evidence to support this proposal in a heme peroxidase. Hence, we describe kinetic data for a variant of ascorbate peroxidase (W41A) which reacts slowly with t-butylhydroperoxide and does not form the usual peroxidase Compound I intermediate; instead, structural data show that a product is formed in which the heme has been cleaved at the alpha-meso position, analogous to the heme oxygenase mechanism. We interpret this to mean that the Compound I (peroxidase) pathway is shut down, so that instead the reaction intermediate diverts through the alternative (heme oxygenase) route. A mechanism for formation of the product is proposed and discussed in the light of what is known about the heme oxygenase reaction mechanism.
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===ASCORBATE PEROXIDASE AS A HEME OXYGENASE: W41A VARIANT PRODUCT WITH T-BUTYL PEROXIDE===
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Evidence for Heme Oxygenase Activity in a Heme Peroxidase.,Raven E, Badyal S, Eaton G, Mistry S, Pipirou Z, Basran J, Metcalfe C, Gumiero A, Handa S, Moody P Biochemistry. 2009 Mar 23. PMID:19309109<ref>PMID:19309109</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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<div class="pdbe-citations 2wd4" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_19309109}}, adds the Publication Abstract to the page
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*[[Ascorbate peroxidase 3D structures|Ascorbate peroxidase 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 19309109 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_19309109}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[2wd4]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Glycine_max Glycine max]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WD4 OCA].
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==Reference==
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<ref group="xtra">PMID:19309109</ref><references group="xtra"/>
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[[Category: Glycine max]]
[[Category: Glycine max]]
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[[Category: L-ascorbate peroxidase]]
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[[Category: Large Structures]]
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[[Category: Badyal, S K.]]
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[[Category: Badyal SK]]
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[[Category: Gumiero, A.]]
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[[Category: Gumiero A]]
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[[Category: Metcalfe, C L.]]
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[[Category: Metcalfe CL]]
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[[Category: Moody, P C.E.]]
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[[Category: Moody PCE]]
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[[Category: Raven, E L.]]
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[[Category: Raven EL]]

Current revision

Ascorbate Peroxidase as a heme oxygenase: w41A variant product with t-butyl peroxide

PDB ID 2wd4

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OCA

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