2iiz - Revision history

OCA at 14:54, 20 September 2023

OCA — Wed, 20 Sep 2023 14:54:55 GMT

←Older revision		Revision as of 14:54, 20 September 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2iiz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Shewanella_oneidensis Shewanella oneidensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IIZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2IIZ FirstGlance]. <br>		<table><tr><td colspan='2'>[[2iiz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Shewanella_oneidensis Shewanella oneidensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IIZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2IIZ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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]] 2.3Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=2iiz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iiz OCA], [https://pdbe.org/2iiz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2iiz RCSB], [https://www.ebi.ac.uk/pdbsum/2iiz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2iiz ProSAT], [https://www.topsan.org/Proteins/JCSG/2iiz TOPSAN]</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=2iiz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iiz OCA], [https://pdbe.org/2iiz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2iiz RCSB], [https://www.ebi.ac.uk/pdbsum/2iiz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2iiz ProSAT], [https://www.topsan.org/Proteins/JCSG/2iiz TOPSAN]</span></td></tr>
	</table>		</table>

OCA at 06:46, 25 January 2023

OCA — Wed, 25 Jan 2023 06:46:53 GMT

←Older revision		Revision as of 06:46, 25 January 2023
Line 3:		Line 3:
	<StructureSection load='2iiz' size='340' side='right'caption='[[2iiz]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='2iiz' size='340' side='right'caption='[[2iiz]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2iiz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_700550 Atcc 700550~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IIZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2IIZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2iiz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Shewanella_oneidensis Shewanella oneidensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IIZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2IIZ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=NA:~~SODIUM+ION~~'>NA</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	~~<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=~~MSE~~:~~SELENOMETHIONINE~~'>~~MSE~~</scene>~~</td></tr>~~	+
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NP_716371.1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=70863 ATCC 700550])~~</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=2iiz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iiz OCA], [https://pdbe.org/2iiz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2iiz RCSB], [https://www.ebi.ac.uk/pdbsum/2iiz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2iiz ProSAT], [https://www.topsan.org/Proteins/JCSG/2iiz TOPSAN]</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=2iiz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iiz OCA], [https://pdbe.org/2iiz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2iiz RCSB], [https://www.ebi.ac.uk/pdbsum/2iiz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2iiz ProSAT], [https://www.topsan.org/Proteins/JCSG/2iiz TOPSAN]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q8EIU4_SHEON Q8EIU4_SHEON]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 32:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Atcc 700550]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Structural genomic]]~~	+	[[Category: Shewanella oneidensis]]
-	~~[[Category: Jcsg]]~~	+
-	~~[[Category: Np_716371 1]]~~	+
-	~~[[Category: PSI, Protein structure initiative]]~~	+
-	~~[[Category: Putative melanin biosynthesis protein tyra~~]]	+

OCA at 11:17, 31 March 2021

OCA — Wed, 31 Mar 2021 11:17:04 GMT

←Older revision		Revision as of 11:17, 31 March 2021
Line 1:		Line 1:

	==Crystal structure of putative melanin biosynthesis protein TyrA with bound heme (NP_716371.1) from Shewanella Oneidensis at 2.30 A resolution==		==Crystal structure of putative melanin biosynthesis protein TyrA with bound heme (NP_716371.1) from Shewanella Oneidensis at 2.30 A resolution==
-	<StructureSection load='2iiz' size='340' side='right' caption='[[2iiz]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='2iiz' size='340' side='right'caption='[[2iiz]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2iiz]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_700550 Atcc 700550]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IIZ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2IIZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2iiz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_700550 Atcc 700550]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IIZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2IIZ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NP_716371.1 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=70863 ATCC 700550])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NP_716371.1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=70863 ATCC 700550])</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=2iiz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iiz OCA], [~~http~~://pdbe.org/2iiz PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2iiz RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2iiz PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2iiz ProSAT], [~~http~~://www.topsan.org/Proteins/JCSG/2iiz TOPSAN]</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=2iiz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iiz OCA], [https://pdbe.org/2iiz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2iiz RCSB], [https://www.ebi.ac.uk/pdbsum/2iiz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2iiz ProSAT], [https://www.topsan.org/Proteins/JCSG/2iiz TOPSAN]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 13:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ii/2iiz_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ii/2iiz_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 33:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 700550]]		[[Category: Atcc 700550]]
		+	[[Category: Large Structures]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
	[[Category: Jcsg]]		[[Category: Jcsg]]

OCA at 08:31, 18 October 2017

OCA — Wed, 18 Oct 2017 08:31:26 GMT

←Older revision		Revision as of 08:31, 18 October 2017
Line 1:		Line 1:
		+
	==Crystal structure of putative melanin biosynthesis protein TyrA with bound heme (NP_716371.1) from Shewanella Oneidensis at 2.30 A resolution==		==Crystal structure of putative melanin biosynthesis protein TyrA with bound heme (NP_716371.1) from Shewanella Oneidensis at 2.30 A resolution==
	<StructureSection load='2iiz' size='340' side='right' caption='[[2iiz]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='2iiz' size='340' side='right' caption='[[2iiz]], [[Resolution\|resolution]] 2.30Å' scene=''>
Line 6:		Line 7:
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NP_716371.1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=70863 ATCC 700550])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NP_716371.1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=70863 ATCC 700550])</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=2iiz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iiz OCA], [http://pdbe.org/2iiz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2iiz RCSB], [http://www.ebi.ac.uk/pdbsum/2iiz PDBsum], [http://www.topsan.org/Proteins/JCSG/2iiz TOPSAN]</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=2iiz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iiz OCA], [http://pdbe.org/2iiz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2iiz RCSB], [http://www.ebi.ac.uk/pdbsum/2iiz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2iiz ProSAT], [http://www.topsan.org/Proteins/JCSG/2iiz TOPSAN]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 06:34, 10 February 2016

OCA — Wed, 10 Feb 2016 06:34:22 GMT

←Older revision		Revision as of 06:34, 10 February 2016
Line 16:		Line 16:
	<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=2iiz ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 06:19, 11 September 2015

OCA — Fri, 11 Sep 2015 06:19:09 GMT

←Older revision		Revision as of 06:19, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='2iiz' size='340' side='right' caption='[[2iiz]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='2iiz' size='340' side='right' caption='[[2iiz]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2iiz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Shewanella_oneidensis Shewanella oneidensis~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IIZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2IIZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2iiz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_700550 Atcc 700550]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IIZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2IIZ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NP_716371.1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=70863 ~~Shewanella oneidensis~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NP_716371.1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=70863 ATCC 700550])</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=2iiz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iiz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2iiz RCSB], [http://www.ebi.ac.uk/pdbsum/2iiz PDBsum], [http://www.topsan.org/Proteins/JCSG/2iiz TOPSAN]</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=2iiz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iiz OCA], [http://pdbe.org/2iiz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2iiz RCSB], [http://www.ebi.ac.uk/pdbsum/2iiz PDBsum], [http://www.topsan.org/Proteins/JCSG/2iiz TOPSAN]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 26:		Line 26:
	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 2iiz" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Shewanella oneidensis~~]]	+	[[Category: Atcc 700550]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
	[[Category: Jcsg]]		[[Category: Jcsg]]

OCA at 08:25, 16 January 2015

OCA — Fri, 16 Jan 2015 08:25:16 GMT

←Older revision		Revision as of 08:25, 16 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2iiz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Shewanella_oneidensis Shewanella oneidensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IIZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2IIZ FirstGlance]. <br>		<table><tr><td colspan='2'>[[2iiz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Shewanella_oneidensis Shewanella oneidensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IIZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2IIZ FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NP_716371.1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=70863 Shewanella oneidensis])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NP_716371.1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=70863 Shewanella oneidensis])</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=2iiz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iiz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2iiz RCSB], [http://www.ebi.ac.uk/pdbsum/2iiz PDBsum], [http://www.topsan.org/Proteins/JCSG/2iiz TOPSAN]</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=2iiz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iiz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2iiz RCSB], [http://www.ebi.ac.uk/pdbsum/2iiz PDBsum], [http://www.topsan.org/Proteins/JCSG/2iiz TOPSAN]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 31:		Line 31:
	</StructureSection>		</StructureSection>
	[[Category: Shewanella oneidensis]]		[[Category: Shewanella oneidensis]]
-	[[Category: ~~JCSG, Joint Center for~~ Structural ~~Genomics.~~]]	+	[[Category: Structural genomic]]
	[[Category: Jcsg]]		[[Category: Jcsg]]
-	[[Category: Joint center for structural genomic]]
	[[Category: Np_716371 1]]		[[Category: Np_716371 1]]
-	[[Category: Protein structure initiative]]	+	[[Category: PSI, Protein structure initiative]]
-	~~[[Category: Psi-2~~]]	+
	[[Category: Putative melanin biosynthesis protein tyra]]		[[Category: Putative melanin biosynthesis protein tyra]]
-	[[Category: Structural genomic]]
-	[[Category: Structural genomics-unknown function complex]]

OCA at 09:36, 30 September 2014

OCA — Tue, 30 Sep 2014 09:36:07 GMT

←Older revision		Revision as of 09:36, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2iiz.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of putative melanin biosynthesis protein TyrA with bound heme (NP_716371.1) from Shewanella Oneidensis at 2.30 A resolution==
		+	<StructureSection load='2iiz' size='340' side='right' caption='[[2iiz]], [[Resolution\|resolution]] 2.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2iiz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Shewanella_oneidensis Shewanella oneidensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IIZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2IIZ FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NP_716371.1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=70863 Shewanella oneidensis])</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=2iiz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iiz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2iiz RCSB], [http://www.ebi.ac.uk/pdbsum/2iiz PDBsum], [http://www.topsan.org/Proteins/JCSG/2iiz TOPSAN]</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/ii/2iiz_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 ==
		+	TyrA is a member of the dye-decolorizing peroxidase (DyP) family, a new family of heme-dependent peroxidase recently identified in fungi and bacteria. Here, we report the crystal structure of TyrA in complex with iron protoporphyrin (IX) at 2.3 A. TyrA is a dimer, with each monomer exhibiting a two-domain, alpha/beta ferredoxin-like fold. Both domains contribute to the heme-binding site. Co-crystallization in the presence of an excess of iron protoporphyrin (IX) chloride allowed for the unambiguous location of the active site and the specific residues involved in heme binding. The structure reveals a Fe-His-Asp triad essential for heme positioning, as well as a novel conformation of one of the heme propionate moieties compared to plant peroxidases. Structural comparison to the canonical DyP family member, DyP from Thanatephorus cucumeris (Dec 1), demonstrates conservation of this novel heme conformation, as well as residues important for heme binding. Structural comparisons with representative members from all classes of the plant, bacterial, and fungal peroxidase superfamily demonstrate that TyrA, and by extension the DyP family, adopts a fold different from all other structurally characterized heme peroxidases. We propose that a new superfamily be added to the peroxidase classification scheme to encompass the DyP family of heme peroxidases.

-	~~{{STRUCTURE_2iiz\| PDB=2iiz \| SCENE= }}~~	+	Identification and structural characterization of heme binding in a novel dye-decolorizing peroxidase, TyrA.,Zubieta C, Joseph R, Krishna SS, McMullan D, Kapoor M, Axelrod HL, Miller MD, Abdubek P, Acosta C, Astakhova T, Carlton D, Chiu HJ, Clayton T, Deller MC, Duan L, Elias Y, Elsliger MA, Feuerhelm J, Grzechnik SK, Hale J, Han GW, Jaroszewski L, Jin KK, Klock HE, Knuth MW, Kozbial P, Kumar A, Marciano D, Morse AT, Murphy KD, Nigoghossian E, Okach L, Oommachen S, Reyes R, Rife CL, Schimmel P, Trout CV, van den Bedem H, Weekes D, White A, Xu Q, Hodgson KO, Wooley J, Deacon AM, Godzik A, Lesley SA, Wilson IA Proteins. 2007 Nov 1;69(2):234-43. PMID:17654547<ref>PMID:17654547</ref>

-	~~===Crystal structure~~ of ~~putative melanin biosynthesis protein TyrA with bound heme (NP_716371~~.~~1) from Shewanella Oneidensis at 2~~.~~30 A resolution===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_17654547}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2iiz]] is a 1 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Shewanella_oneidensis Shewanella oneidensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IIZ OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:017654547<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Shewanella oneidensis]]		[[Category: Shewanella oneidensis]]
	[[Category: JCSG, Joint Center for Structural Genomics.]]		[[Category: JCSG, Joint Center for Structural Genomics.]]

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

OCA — Mon, 07 Jan 2013 11:51:16 GMT

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

←Older revision

Revision as of 11:51, 7 January 2013

OCA at 11:51, 7 January 2013

OCA — Mon, 07 Jan 2013 11:51:13 GMT

←Older revision		Revision as of 11:51, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2iiz.png\|left\|200px]]		[[Image:2iiz.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2iiz", 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_2iiz\| PDB=2iiz \| SCENE= }}		{{STRUCTURE_2iiz\| PDB=2iiz \| SCENE= }}

	===Crystal structure of putative melanin biosynthesis protein TyrA with bound heme (NP_716371.1) from Shewanella Oneidensis at 2.30 A resolution===		===Crystal structure of putative melanin biosynthesis protein TyrA with bound heme (NP_716371.1) from Shewanella Oneidensis at 2.30 A resolution===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17654547}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17654547 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_17654547}}		{{ABSTRACT_PUBMED_17654547}}

	==About this Structure==		==About this Structure==
-	~~2IIZ~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Shewanella_oneidensis Shewanella oneidensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IIZ OCA].	+	[[2iiz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Shewanella_oneidensis Shewanella oneidensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IIZ OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~17654547~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017654547</ref><references group="xtra"/>
	[[Category: Shewanella oneidensis]]		[[Category: Shewanella oneidensis]]
	[[Category: JCSG, Joint Center for Structural Genomics.]]		[[Category: JCSG, Joint Center for Structural Genomics.]]
Line 33:		Line 21:
	[[Category: Putative melanin biosynthesis protein tyra]]		[[Category: Putative melanin biosynthesis protein tyra]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
-	[[Category: Structural genomics/unknown function complex]]	+	[[Category: Structural genomics-unknown function complex]]
-		+
-	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 16:11:00 2009''~~	+