2w23 - Revision history

OCA at 15:40, 13 December 2023

OCA — Wed, 13 Dec 2023 15:40:32 GMT

←Older revision		Revision as of 15:40, 13 December 2023
Line 3:		Line 3:
	<StructureSection load='2w23' size='340' side='right'caption='[[2w23]], [[Resolution\|resolution]] 1.94Å' scene=''>		<StructureSection load='2w23' size='340' side='right'caption='[[2w23]], [[Resolution\|resolution]] 1.94Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2w23]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Boletus_of_the_steppes Boletus of the steppes~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W23 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2W23 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2w23]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pleurotus_eryngii Pleurotus eryngii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W23 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2W23 FirstGlance]. <br>
-	</td></tr><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=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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"><div style='overflow: auto; max-height: 3em;'>[[2boq\|2boq]], [[2vka\|2vka]]</div></td></tr>~~	+	<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=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Versatile_peroxidase Versatile peroxidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.16 1.11.1.16] </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=2w23 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w23 OCA], [https://pdbe.org/2w23 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2w23 RCSB], [https://www.ebi.ac.uk/pdbsum/2w23 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2w23 ProSAT]</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=2w23 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w23 OCA], [https://pdbe.org/2w23 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2w23 RCSB], [https://www.ebi.ac.uk/pdbsum/2w23 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2w23 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/VPL2_PLEER VPL2_PLEER]] A versatile ligninolytic peroxidase that combines the substrate specificity characteristics of the two other ligninolytic peroxidases, manganese peroxidase and lignin peroxidase.<ref>PMID:9987124</ref>	+	[https://www.uniprot.org/uniprot/VPL2_PLEER VPL2_PLEER] A versatile ligninolytic peroxidase that combines the substrate specificity characteristics of the two other ligninolytic peroxidases, manganese peroxidase and lignin peroxidase.<ref>PMID:9987124</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Boletus of the steppes]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Versatile peroxidase~~]]	+	[[Category: Pleurotus eryngii]]
-	[[Category: Basosi, R]]	+	[[Category: Basosi R]]
-	[[Category: Giansanti, S]]	+	[[Category: Giansanti S]]
-	[[Category: Martinez~~, A T~~]]	+	[[Category: Martinez AT]]
-	[[Category: Martinez~~, M J~~]]	+	[[Category: Martinez MJ]]
-	[[Category: Mate~~, M J~~]]	+	[[Category: Mate MJ]]
-	[[Category: Morales, M]]	+	[[Category: Morales M]]
-	[[Category: Pogni, R]]	+	[[Category: Pogni R]]
-	[[Category: Romero, A]]	+	[[Category: Romero A]]
-	[[Category: Ruiz-Duenas~~, F J]]~~	+	[[Category: Ruiz-Duenas FJ]]
-	~~[[Category: Calcium]]~~	+
-	~~[[Category: Electron transfer]]~~	+
-	~~[[Category: Glycoprotein]]~~	+
-	~~[[Category: Heme]]~~	+
-	~~[[Category: Hydrogen peroxide]]~~	+
-	~~[[Category: Iron]]~~	+
-	~~[[Category: Lignin degradation]]~~	+
-	~~[[Category: Manganese]]~~	+
-	~~[[Category: Manganese peroxidase]]~~	+
-	~~[[Category: Metal-binding]]~~	+
-	~~[[Category: Organic radical]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Peroxidase]]~~	+
-	~~[[Category: Protein radical]]~~	+
-	~~[[Category: Secreted]]~~	+
-	~~[[Category: Zymogen~~]]	+

OCA at 11:51, 30 March 2022

OCA — Wed, 30 Mar 2022 11:51:18 GMT

←Older revision		Revision as of 11:51, 30 March 2022
Line 3:		Line 3:
	<StructureSection load='2w23' size='340' side='right'caption='[[2w23]], [[Resolution\|resolution]] 1.94Å' scene=''>		<StructureSection load='2w23' size='340' side='right'caption='[[2w23]], [[Resolution\|resolution]] 1.94Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2w23]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Boletus_of_the_steppes Boletus of the steppes]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W23 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2W23 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2w23]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Boletus_of_the_steppes Boletus of the steppes]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W23 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2W23 FirstGlance]. <br>
	</td></tr><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=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><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=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2boq\|2boq]], [[2vka\|2vka]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2boq\|2boq]], [[2vka\|2vka]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Versatile_peroxidase Versatile peroxidase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.16 1.11.1.16] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Versatile_peroxidase Versatile peroxidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.16 1.11.1.16] </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=2w23 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w23 OCA], [~~http~~://pdbe.org/2w23 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2w23 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2w23 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2w23 ProSAT]</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=2w23 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w23 OCA], [https://pdbe.org/2w23 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2w23 RCSB], [https://www.ebi.ac.uk/pdbsum/2w23 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2w23 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/VPL2_PLEER VPL2_PLEER]] A versatile ligninolytic peroxidase that combines the substrate specificity characteristics of the two other ligninolytic peroxidases, manganese peroxidase and lignin peroxidase.<ref>PMID:9987124</ref>	+	[[https://www.uniprot.org/uniprot/VPL2_PLEER VPL2_PLEER]] A versatile ligninolytic peroxidase that combines the substrate specificity characteristics of the two other ligninolytic peroxidases, manganese peroxidase and lignin peroxidase.<ref>PMID:9987124</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 08:50, 25 June 2020

OCA — Thu, 25 Jun 2020 08:50:19 GMT

←Older revision		Revision as of 08:50, 25 June 2020
Line 1:		Line 1:

	==Structure of mutant W169Y of Pleurotus eryngii versatile peroxidase (VP)==		==Structure of mutant W169Y of Pleurotus eryngii versatile peroxidase (VP)==
-	<StructureSection load='2w23' size='340' side='right' caption='[[2w23]], [[Resolution\|resolution]] 1.94Å' scene=''>	+	<StructureSection load='2w23' size='340' side='right'caption='[[2w23]], [[Resolution\|resolution]] 1.94Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2w23]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Boletus_of_the_steppes Boletus of the steppes]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W23 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2W23 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2w23]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Boletus_of_the_steppes Boletus of the steppes]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W23 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2W23 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</td></tr><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=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2boq\|2boq]], [[2vka\|2vka]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2boq\|2boq]], [[2vka\|2vka]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Versatile_peroxidase Versatile peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.16 1.11.1.16] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Versatile_peroxidase Versatile peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.16 1.11.1.16] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2w23 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w23 OCA], [http://pdbe.org/2w23 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2w23 RCSB], [http://www.ebi.ac.uk/pdbsum/2w23 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2w23 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=2w23 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w23 OCA], [http://pdbe.org/2w23 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2w23 RCSB], [http://www.ebi.ac.uk/pdbsum/2w23 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2w23 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 35:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Boletus of the steppes]]		[[Category: Boletus of the steppes]]
		+	[[Category: Large Structures]]
	[[Category: Versatile peroxidase]]		[[Category: Versatile peroxidase]]
	[[Category: Basosi, R]]		[[Category: Basosi, R]]

OCA at 20:50, 19 September 2018

OCA — Wed, 19 Sep 2018 20:50:25 GMT

←Older revision		Revision as of 20:50, 19 September 2018
Line 1:		Line 1:
-	==~~STRUCTURE OF MUTANT~~ W169Y ~~OF PLEUROTUS ERYNGII VERSATILE PEROXIDASE~~ (VP)==	+
		+	==Structure of mutant W169Y of Pleurotus eryngii versatile peroxidase (VP)==
	<StructureSection load='2w23' size='340' side='right' caption='[[2w23]], [[Resolution\|resolution]] 1.94Å' scene=''>		<StructureSection load='2w23' size='340' side='right' caption='[[2w23]], [[Resolution\|resolution]] 1.94Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2boq\|2boq]], [[2vka\|2vka]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2boq\|2boq]], [[2vka\|2vka]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Versatile_peroxidase Versatile peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.16 1.11.1.16] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Versatile_peroxidase Versatile peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.16 1.11.1.16] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2w23 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w23 OCA], [http://pdbe.org/2w23 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2w23 RCSB], [http://www.ebi.ac.uk/pdbsum/2w23 PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2w23 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w23 OCA], [http://pdbe.org/2w23 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2w23 RCSB], [http://www.ebi.ac.uk/pdbsum/2w23 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2w23 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 14:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/w2/2w23_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/w2/2w23_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 44:		Line 45:
	[[Category: Romero, A]]		[[Category: Romero, A]]
	[[Category: Ruiz-Duenas, F J]]		[[Category: Ruiz-Duenas, F J]]
		+	[[Category: Calcium]]
	[[Category: Electron transfer]]		[[Category: Electron transfer]]
	[[Category: Glycoprotein]]		[[Category: Glycoprotein]]
Line 53:		Line 55:
	[[Category: Manganese peroxidase]]		[[Category: Manganese peroxidase]]
	[[Category: Metal-binding]]		[[Category: Metal-binding]]
		+	[[Category: Organic radical]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
	[[Category: Peroxidase]]		[[Category: Peroxidase]]

OCA at 14:46, 8 February 2016

OCA — Mon, 08 Feb 2016 14:46:08 GMT

←Older revision		Revision as of 14:46, 8 February 2016
Line 2:		Line 2:
	<StructureSection load='2w23' size='340' side='right' caption='[[2w23]], [[Resolution\|resolution]] 1.94Å' scene=''>		<StructureSection load='2w23' size='340' side='right' caption='[[2w23]], [[Resolution\|resolution]] 1.94Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2w23]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Pleurotus_eryngii Pleurotus eryngii~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W23 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2W23 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2w23]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Boletus_of_the_steppes Boletus of the steppes]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W23 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2W23 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2boq\|2boq]], [[2vka\|2vka]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2boq\|2boq]], [[2vka\|2vka]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Versatile_peroxidase Versatile peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.16 1.11.1.16] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Versatile_peroxidase Versatile peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.16 1.11.1.16] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2w23 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w23 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2w23 RCSB], [http://www.ebi.ac.uk/pdbsum/2w23 PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2w23 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w23 OCA], [http://pdbe.org/2w23 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2w23 RCSB], [http://www.ebi.ac.uk/pdbsum/2w23 PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 18:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</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/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</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=2w23 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 28:		Line 28:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 2w23" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Pleurotus eryngii~~]]	+	[[Category: Boletus of the steppes]]
	[[Category: Versatile peroxidase]]		[[Category: Versatile peroxidase]]
	[[Category: Basosi, R]]		[[Category: Basosi, R]]

OCA at 00:06, 25 December 2014

OCA — Thu, 25 Dec 2014 00:06:51 GMT

←Older revision		Revision as of 00:06, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2w23]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pleurotus_eryngii Pleurotus eryngii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W23 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2W23 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2w23]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pleurotus_eryngii Pleurotus eryngii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W23 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2W23 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2boq\|2boq]], [[2vka\|2vka]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2boq\|2boq]], [[2vka\|2vka]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Versatile_peroxidase Versatile peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.16 1.11.1.16] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Versatile_peroxidase Versatile peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.16 1.11.1.16] </span></td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2w23 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w23 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2w23 RCSB], [http://www.ebi.ac.uk/pdbsum/2w23 PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2w23 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w23 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2w23 RCSB], [http://www.ebi.ac.uk/pdbsum/2w23 PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/VPL2_PLEER VPL2_PLEER]] A versatile ligninolytic peroxidase that combines the substrate specificity characteristics of the two other ligninolytic peroxidases, manganese peroxidase and lignin peroxidase.<ref>PMID:9987124</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 34:
	[[Category: Pleurotus eryngii]]		[[Category: Pleurotus eryngii]]
	[[Category: Versatile peroxidase]]		[[Category: Versatile peroxidase]]
-	[[Category: Basosi, R.]]	+	[[Category: Basosi, R]]
-	[[Category: Giansanti, S.]]	+	[[Category: Giansanti, S]]
-	[[Category: Martinez, A T.]]	+	[[Category: Martinez, A T]]
-	[[Category: Martinez, M J.]]	+	[[Category: Martinez, M J]]
-	[[Category: Mate, M J.]]	+	[[Category: Mate, M J]]
-	[[Category: Morales, M.]]	+	[[Category: Morales, M]]
-	[[Category: Pogni, R.]]	+	[[Category: Pogni, R]]
-	[[Category: Romero, A.]]	+	[[Category: Romero, A]]
-	[[Category: Ruiz-Duenas, F J.]]	+	[[Category: Ruiz-Duenas, F J]]
	[[Category: Electron transfer]]		[[Category: Electron transfer]]
	[[Category: Glycoprotein]]		[[Category: Glycoprotein]]

OCA at 01:59, 1 October 2014

OCA — Wed, 01 Oct 2014 01:59:09 GMT

←Older revision		Revision as of 01:59, 1 October 2014
Line 1:		Line 1:
-	[[~~Image:~~2w23.~~png~~\|~~left~~\|200px]]	+	==STRUCTURE OF MUTANT W169Y OF PLEUROTUS ERYNGII VERSATILE PEROXIDASE (VP)==
		+	<StructureSection load='2w23' size='340' side='right' caption='[[2w23]], [[Resolution\|resolution]] 1.94Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2w23]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pleurotus_eryngii Pleurotus eryngii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W23 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2W23 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2boq\|2boq]], [[2vka\|2vka]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Versatile_peroxidase Versatile peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.16 1.11.1.16] </span></td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2w23 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w23 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2w23 RCSB], [http://www.ebi.ac.uk/pdbsum/2w23 PDBsum]</span></td></tr>
		+	<table>
		+	== 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/w2/2w23_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/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Lignin-degrading peroxidases, a group of biotechnologically-interesting enzymes,?oxidize high redox-potential aromatics via an exposed protein radical. Low-temperature EPR of Pleurotus eryngii versatile peroxidase (VP) revealed, for the first time in a fungal peroxidase, the presence of a tryptophanyl radical in both the two-electron (VPI) and one-electron (VPII) activated forms of the enzyme. Site-directed mutagenesis was used to substitute this tryptophan (Trp164) by tyrosine and histidine residues. No changes in the crystal structure were observed indicating that the modified behavior was due exclusively to the mutations introduced. EPR revealed the formation of tyrosyl radicals in both VPI and VPII of the W164Y variant. However, no protein radical was detected in the W164H variant, whose VPI spectrum indicated a porphyrin radical identical to that of the inactive W164S. Stopped-flow spectrophotometry showed that the W164Y mutation reduced 10-fold the apparent second-order rate constant for VPI reduction (k2app) by veratryl alcohol (VA), compared with over 50-fold reduction in W164S, revealing some catalytic activity of the tyrosine radical. Its first-order rate constant (k2) was more affected than the dissociation constant (KD2). Moreover, VPII reduction by VA was impaired by the above mutations revealing that the Trp164 radical was involved in catalysis by both VPI and VPII. The low first-order rate constant (k3) values were similar for the W164Y, W164H and W164S variants, indicating that the tyrosyl radical in VPII was not able to oxidize VA (in contrast with that observed for VPI). VPII self-reduction was also suppressed revealing that Trp164 is involved in this autocatalytic process.

-	~~{{STRUCTURE_2w23\| PDB=2w23 \| SCENE= }}~~	+	Protein radicals in fungal versatile peroxidase: Catalytic tryptophan radical in both Compound-I and Compound-II and studies on W164Y, W164H and W164S variants.,Ruiz-Duenas FJ, Pogni R, Morales M, Giansanti S, Mate MJ, Romero A, Martinez MJ, Basosi R, Martinez AT J Biol Chem. 2009 Jan 21. PMID:19158088<ref>PMID:19158088</ref>

-	~~===STRUCTURE OF MUTANT W169Y OF PLEUROTUS ERYNGII VERSATILE PEROXIDASE (VP)===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_19158088}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2w23]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Pleurotus_eryngii Pleurotus eryngii]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2W23 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:019158088<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Pleurotus eryngii]]		[[Category: Pleurotus eryngii]]
	[[Category: Versatile peroxidase]]		[[Category: Versatile peroxidase]]

OCA: Protected "2w23" [edit=sysop:move=sysop]

OCA — Mon, 07 Jan 2013 20:08:00 GMT

Protected "2w23" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:08, 7 January 2013

OCA at 20:07, 7 January 2013

OCA — Mon, 07 Jan 2013 20:07:57 GMT

←Older revision		Revision as of 20:07, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2w23.png\|left\|200px]]		[[Image:2w23.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2w23", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_2w23\| PDB=2w23 \| SCENE= }}		{{STRUCTURE_2w23\| PDB=2w23 \| SCENE= }}

	===STRUCTURE OF MUTANT W169Y OF PLEUROTUS ERYNGII VERSATILE PEROXIDASE (VP)===		===STRUCTURE OF MUTANT W169Y OF PLEUROTUS ERYNGII VERSATILE PEROXIDASE (VP)===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19158088}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19158088 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_19158088}}		{{ABSTRACT_PUBMED_19158088}}

	==About this Structure==		==About this Structure==
-	~~2W23~~ is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pleurotus_eryngii Pleurotus eryngii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W23 OCA].	+	[[2w23]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pleurotus_eryngii Pleurotus eryngii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W23 OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19158088~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019158088</ref><references group="xtra"/>
	[[Category: Pleurotus eryngii]]		[[Category: Pleurotus eryngii]]
	[[Category: Versatile peroxidase]]		[[Category: Versatile peroxidase]]
Line 35:		Line 23:
	[[Category: Romero, A.]]		[[Category: Romero, A.]]
	[[Category: Ruiz-Duenas, F J.]]		[[Category: Ruiz-Duenas, F J.]]
-	[[Category: Calcium]]
	[[Category: Electron transfer]]		[[Category: Electron transfer]]
	[[Category: Glycoprotein]]		[[Category: Glycoprotein]]
Line 45:		Line 32:
	[[Category: Manganese peroxidase]]		[[Category: Manganese peroxidase]]
	[[Category: Metal-binding]]		[[Category: Metal-binding]]
-	[[Category: Organic radical]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
	[[Category: Peroxidase]]		[[Category: Peroxidase]]
Line 51:		Line 37:
	[[Category: Secreted]]		[[Category: Secreted]]
	[[Category: Zymogen]]		[[Category: Zymogen]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 22 11:38:58 2010''

OCA at 08:30, 22 September 2010

OCA — Wed, 22 Sep 2010 08:30:00 GMT

←Older revision		Revision as of 08:30, 22 September 2010
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2W23 is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Pleurotus_eryngii Pleurotus eryngii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W23 OCA].	+	2W23 is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pleurotus_eryngii Pleurotus eryngii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W23 OCA].

	==Reference==		==Reference==
-	Protein radicals in fungal versatile peroxidase: Catalytic tryptophan radical in both Compound-I and Compound-II and studies on W164Y, W164H and W164S variants., Ruiz-Duenas FJ, Pogni R, Morales M, Giansanti S, Mate MJ, Romero A, Martinez MJ, Basosi R, Martinez AT, J Biol Chem. 2009 Jan 21. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/19158088 19158088]~~	+	<ref group="xtra">PMID:19158088</ref><references group="xtra"/>
	[[Category: Pleurotus eryngii]]		[[Category: Pleurotus eryngii]]
-	[[Category: Single protein]]
	[[Category: Versatile peroxidase]]		[[Category: Versatile peroxidase]]
-	[[Category: ~~Pdbx_ordinal=~~, ~~<PDBx~~:~~audit_author~~.]]	+	[[Category: Basosi, R.]]
		+	[[Category: Giansanti, S.]]
		+	[[Category: Martinez, A T.]]
		+	[[Category: Martinez, M J.]]
		+	[[Category: Mate, M J.]]
		+	[[Category: Morales, M.]]
		+	[[Category: Pogni, R.]]
		+	[[Category: Romero, A.]]
		+	[[Category: Ruiz-Duenas, F J.]]
	[[Category: Calcium]]		[[Category: Calcium]]
	[[Category: Electron transfer]]		[[Category: Electron transfer]]
Line 45:		Line 52:
	[[Category: Zymogen]]		[[Category: Zymogen]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Mar 25 21~~:00:~~53 2009~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 22 11:38:58 2010''