2ghc: Difference between revisions

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-[[Image:2ghc.gif|left|200px]]<br /><applet load="2ghc" size="350" color="white" frame="true" align="right" spinBox="true"
-caption="2ghc, resolution 1.25&Aring;" />
-'''Conformational mobility in the active site of a heme peroxidase'''<br />
-==Overview==
+==Conformational mobility in the active site of a heme peroxidase==
-Conformational mobility of the distal histidine residue has been, implicated for several different heme peroxidase enzymes, but unambiguous, structural evidence is not available. In this work, we present, mechanistic, spectroscopic, and structural evidence for peroxide- and, ligand-induced conformational mobility of the distal histidine residue, (His-42) in a site-directed variant of ascorbate peroxidase (W41A). In, this variant, His-42 binds "on" to the heme in the oxidized form, duplicating the active site structure of the cytochromes b but, in, contrast to the cytochromes b, is able to swing "off" the iron during, catalysis. This conformational flexibility between the on and off forms is, fully reversible and is used as a means to overcome the inherently, unreactive nature of the on form toward peroxide, so that essentially, complete catalytic activity is maintained. Contrary to the widely adopted, view of heme enzyme catalysis, these data indicate that strong, coordination of the distal histidine to the heme iron does not, automatically undermine catalytic activity. The data add a new dimension, to our wider appreciation of structure/activity correlations in other heme, enzymes.
+<StructureSection load='2ghc' size='340' side='right'caption='[[2ghc]], [[Resolution|resolution]] 1.25&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[2ghc]] 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=2GHC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2GHC FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.25&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NO:NITRIC+OXIDE'>NO</scene></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=2ghc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ghc OCA], [https://pdbe.org/2ghc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ghc RCSB], [https://www.ebi.ac.uk/pdbsum/2ghc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ghc ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q43758_SOYBN Q43758_SOYBN]
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/gh/2ghc_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </jmolCheckbox>
+</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=2ghc ConSurf].
+<div style="clear:both"></div>
-==About this Structure==
+==See Also==
-GHC is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Glycine_max Glycine max] with <scene name='pdbligand=NA:'>NA</scene>, <scene name='pdbligand=HEM:'>HEM</scene> and <scene name='pdbligand=NO:'>NO</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/L-ascorbate_peroxidase L-ascorbate peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.11 1.11.1.11] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GHC OCA].
+*[[Ascorbate peroxidase 3D structures|Ascorbate peroxidase 3D structures]]
+*[[Plasmid segregation protein ParM|Plasmid segregation protein ParM]]
-==Reference==
+__TOC__
-Conformational mobility in the active site of a heme peroxidase., Badyal SK, Joyce MG, Sharp KH, Seward HE, Mewies M, Basran J, Macdonald IK, Moody PC, Raven EL, J Biol Chem. 2006 Aug 25;281(34):24512-20. Epub 2006 Jun 7. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16762924 16762924]
+</StructureSection>
 [[Category: Glycine max]]
-[[Category: L-ascorbate peroxidase]]
+[[Category: Large Structures]]
-[[Category: Single protein]]
+[[Category: Badyal SK]]
-[[Category: Badyal, S.K.]]
+[[Category: Joyce MG]]
-[[Category: Joyce, M.G.]]
+[[Category: Moody PC]]
-[[Category: Moody, P.C.]]
+[[Category: Raven EL]]
-[[Category: Raven, E.L.]]
+[[Category: Sharp KH]]
-[[Category: Sharp, K.H.]]
-[[Category: HEM]]
-[[Category: NA]]
-[[Category: NO]]
-[[Category: orthogonal bundle]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jan 29 19:59:27 2008''