1dvb - Revision history

OCA at 05:57, 9 August 2023

2023-08-09T05:57:59Z

← Older revision		Revision as of 05:57, 9 August 2023
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	<StructureSection load='1dvb' size='340' side='right'caption='[[1dvb]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='1dvb' size='340' side='right'caption='[[1dvb]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1dvb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Desulfovibrio_vulgaris_subsp~~.~~_vulgaris_str._hildenborough~~ Desulfovibrio ~~vulgaris subsp.~~ vulgaris str. ~~hildenborough~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DVB FirstGlance]. <br>		<table><tr><td colspan='2'>[[1dvb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Desulfovibrio_vulgaris_str._Hildenborough Desulfovibrio vulgaris str. Hildenborough]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DVB FirstGlance]. <br>
	</td></tr><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=ZN:ZINC+ION'>ZN</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]] 1.9Å</td></tr>
			<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=ZN:ZINC+ION'>ZN</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=1dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvb OCA], [https://pdbe.org/1dvb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dvb RCSB], [https://www.ebi.ac.uk/pdbsum/1dvb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dvb 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=1dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvb OCA], [https://pdbe.org/1dvb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dvb RCSB], [https://www.ebi.ac.uk/pdbsum/1dvb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dvb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/RUBY_DESVH RUBY_DESVH]] May provide oxidative stress protection via catalytic reduction of intracellular hydrogen peroxide (By similarity).		[https://www.uniprot.org/uniprot/RUBY_DESVH RUBY_DESVH] May provide oxidative stress protection via catalytic reduction of intracellular hydrogen peroxide (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Desulfovibrio ~~vulgaris subsp.~~ vulgaris str. ~~hildenborough~~]]		[[Category: Desulfovibrio vulgaris str. Hildenborough]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Holmes, M]]		[[Category: Holmes M]]
	[[Category: ~~Legall, J~~]]		[[Category: Le Trong I]]
	[[Category: ~~Liu, M Y~~]]		[[Category: Legall J]]
	[[Category: ~~Sieker, L C~~]]		[[Category: Liu MY]]
	[[Category: ~~Stenkamp, R E~~]]		[[Category: Sieker LC]]
	[[Category: ~~Trong, I Le~~]]		[[Category: Stenkamp RE]]
	[[Category: Turley, S]]		[[Category: Turley S]]
	~~[[Category: Electron transport]]~~
	~~[[Category: Ferroxidase]]~~
	~~[[Category: Iron~~]]

OCA at 09:31, 21 July 2021

2021-07-21T09:31:49Z

← Older revision		Revision as of 09:31, 21 July 2021
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	<StructureSection load='1dvb' size='340' side='right'caption='[[1dvb]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='1dvb' size='340' side='right'caption='[[1dvb]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1dvb]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Desulfovibrio_vulgaris_subsp._vulgaris_str._hildenborough Desulfovibrio vulgaris subsp. vulgaris str. hildenborough]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1DVB FirstGlance]. <br>		<table><tr><td colspan='2'>[[1dvb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Desulfovibrio_vulgaris_subsp._vulgaris_str._hildenborough Desulfovibrio vulgaris subsp. vulgaris str. hildenborough]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DVB FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><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=ZN:ZINC+ION'>ZN</scene></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=1dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvb OCA], [~~http~~://pdbe.org/1dvb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1dvb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1dvb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1dvb 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=1dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvb OCA], [https://pdbe.org/1dvb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dvb RCSB], [https://www.ebi.ac.uk/pdbsum/1dvb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dvb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/RUBY_DESVH RUBY_DESVH]] May provide oxidative stress protection via catalytic reduction of intracellular hydrogen peroxide (By similarity).		[[https://www.uniprot.org/uniprot/RUBY_DESVH RUBY_DESVH]] May provide oxidative stress protection via catalytic reduction of intracellular hydrogen peroxide (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 14:07, 16 October 2019

2019-10-16T14:07:46Z

← Older revision		Revision as of 14:07, 16 October 2019
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	==RUBRERYTHRIN==		==RUBRERYTHRIN==
	<StructureSection load='1dvb' size='340' side='right' caption='[[1dvb]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='1dvb' size='340' side='right'caption='[[1dvb]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1dvb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Desulfovibrio_vulgaris_subsp._vulgaris_str._hildenborough Desulfovibrio vulgaris subsp. vulgaris str. hildenborough]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVB FirstGlance]. <br>		<table><tr><td colspan='2'>[[1dvb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Desulfovibrio_vulgaris_subsp._vulgaris_str._hildenborough Desulfovibrio vulgaris subsp. vulgaris str. hildenborough]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVB FirstGlance]. <br>
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	</StructureSection>		</StructureSection>
	[[Category: Desulfovibrio vulgaris subsp. vulgaris str. hildenborough]]		[[Category: Desulfovibrio vulgaris subsp. vulgaris str. hildenborough]]
			[[Category: Large Structures]]
	[[Category: Holmes, M]]		[[Category: Holmes, M]]
	[[Category: Legall, J]]		[[Category: Legall, J]]

OCA at 07:59, 13 December 2017

2017-12-13T07:59:15Z

← Older revision		Revision as of 07:59, 13 December 2017
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	==RUBRERYTHRIN==		==RUBRERYTHRIN==
	<StructureSection load='1dvb' size='340' side='right' caption='[[1dvb]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='1dvb' size='340' side='right' caption='[[1dvb]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1dvb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Desulfovibrio_vulgaris_str~~._hildenborough Desulfovibrio vulgaris str. hildenborough]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVB FirstGlance]. <br>		<table><tr><td colspan='2'>[[1dvb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Desulfovibrio_vulgaris_subsp._vulgaris_str._hildenborough Desulfovibrio vulgaris subsp. vulgaris str. hildenborough]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVB FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=1dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvb OCA], [http://pdbe.org/1dvb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1dvb RCSB], [http://www.ebi.ac.uk/pdbsum/1dvb 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=1dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvb OCA], [http://pdbe.org/1dvb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1dvb RCSB], [http://www.ebi.ac.uk/pdbsum/1dvb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1dvb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dv/1dvb_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dv/1dvb_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>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Desulfovibrio vulgaris str. hildenborough]]		[[Category: Desulfovibrio vulgaris subsp. vulgaris str. hildenborough]]
	[[Category: Holmes, M]]		[[Category: Holmes, M]]
	[[Category: Legall, J]]		[[Category: Legall, J]]

OCA at 17:48, 9 February 2016

2016-02-09T17:48:45Z

← Older revision		Revision as of 17:48, 9 February 2016
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	<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=1dvb ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 00:35, 11 September 2015

2015-09-11T00:35:02Z

← Older revision		Revision as of 00:35, 11 September 2015
Line 4:		Line 4:
	<table><tr><td colspan='2'>[[1dvb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Desulfovibrio_vulgaris_str._hildenborough Desulfovibrio vulgaris str. hildenborough]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVB FirstGlance]. <br>		<table><tr><td colspan='2'>[[1dvb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Desulfovibrio_vulgaris_str._hildenborough Desulfovibrio vulgaris str. hildenborough]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVB FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=1dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dvb RCSB], [http://www.ebi.ac.uk/pdbsum/1dvb 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=1dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvb OCA], [http://pdbe.org/1dvb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1dvb RCSB], [http://www.ebi.ac.uk/pdbsum/1dvb PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	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 1dvb" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 08:26, 25 December 2014

2014-12-25T08:26:39Z

← Older revision		Revision as of 08:26, 25 December 2014
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	<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=1dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dvb RCSB], [http://www.ebi.ac.uk/pdbsum/1dvb 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=1dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dvb RCSB], [http://www.ebi.ac.uk/pdbsum/1dvb PDBsum]</span></td></tr>
	</table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/RUBY_DESVH RUBY_DESVH]] May provide oxidative stress protection via catalytic reduction of intracellular hydrogen peroxide (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 20:42, 22 December 2014

2014-12-22T20:42:17Z

← Older revision		Revision as of 20:42, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1dvb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Desulfovibrio_vulgaris_str._hildenborough Desulfovibrio vulgaris str. hildenborough]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVB FirstGlance]. <br>		<table><tr><td colspan='2'>[[1dvb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Desulfovibrio_vulgaris_str._hildenborough Desulfovibrio vulgaris str. hildenborough]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVB FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=1dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dvb RCSB], [http://www.ebi.ac.uk/pdbsum/1dvb 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=1dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dvb RCSB], [http://www.ebi.ac.uk/pdbsum/1dvb PDBsum]</span></td></tr>
	<table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Desulfovibrio vulgaris str. hildenborough]]		[[Category: Desulfovibrio vulgaris str. hildenborough]]
	[[Category: Holmes, M.]]		[[Category: Holmes, M]]
	[[Category: Legall, J.]]		[[Category: Legall, J]]
	[[Category: Liu, M Y.]]		[[Category: Liu, M Y]]
	[[Category: Sieker, L C.]]		[[Category: Sieker, L C]]
	[[Category: Stenkamp, R E.]]		[[Category: Stenkamp, R E]]
	[[Category: Trong, I Le.]]		[[Category: Trong, I Le]]
	[[Category: Turley, S.]]		[[Category: Turley, S]]
	[[Category: Electron transport]]		[[Category: Electron transport]]
	[[Category: Ferroxidase]]		[[Category: Ferroxidase]]
	[[Category: Iron]]		[[Category: Iron]]

OCA at 10:50, 10 September 2014

2014-09-10T10:50:49Z

← Older revision		Revision as of 10:50, 10 September 2014
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	[[Image:~~1dvb~~.~~png~~\|~~left~~\|~~200px~~]]		==RUBRERYTHRIN==
			<StructureSection load='1dvb' size='340' side='right' caption='[[1dvb]], [[Resolution\|resolution]] 1.90Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[1dvb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Desulfovibrio_vulgaris_str._hildenborough Desulfovibrio vulgaris str. hildenborough]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DVB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DVB FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
			<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=1dvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dvb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dvb RCSB], [http://www.ebi.ac.uk/pdbsum/1dvb 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/dv/1dvb_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 ==
			Rubrerythrin is a non-heme iron dimeric protein isolated from the sulfate-reducing bacterium Desulfovibrio vulgaris. Each monomer has one mononuclear iron center similar to rubredoxin and one dinuclear metal center similar to hemerythrin or ribonucleotide reductase. The 1.88 A X-ray structure of the "as isolated" molecule and a uranyl heavy atom derivative have been solved by molecular replacement techniques. The resulting model of the native "as isolated" molecule, including 164 water molecules, has been refined giving a final R factor of 0.197 (R(free) = 0.255). The structure has the same general protein fold, domain structure, and dimeric interactions as previously found for rubrerythrin [1, 2], but it also has some interesting undetected differences at the metal centers. The refined model of the protein structure has a cis peptide between residues 78 and 79. The Fe-Cys4 center has a previously undetected strong seventh N-H...S hydrogen bond in addition to the six N-H...S bonds usually found in rubredoxin. The dinuclear metal center has a hexacoordinate Fe atom and a tetracoordinate Zn atom. Each metal is coordinated by a GluXXHis polypeptide chain segment. The Zn atom binds at a site distinctly different from that found in the structure of a diiron rubrerythrin. Difference electron density for the uranyl derivative shows an extremely large peak adjacent to and replacing the Zn atom, indicating that this particular site is capable of binding other atoms. This feature/ability may give rise to some of the confusing activities ascribed to this molecule.

	~~{{STRUCTURE_1dvb\| PDB=1dvb \| SCENE= }}~~		The 1.9 A crystal structure of the "as isolated" rubrerythrin from Desulfovibrio vulgaris: some surprising results.,Sieker LC, Holmes M, Le Trong I, Turley S, Liu MY, LeGall J, Stenkamp RE J Biol Inorg Chem. 2000 Aug;5(4):505-13. PMID:10968622<ref>PMID:10968622</ref>

	~~===RUBRERYTHRIN===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_10968622}}~~		== References ==
			<references/>
	~~==About this Structure==~~		__TOC__
	~~[[1dvb]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Desulfovibrio_vulgaris_str~~.~~_hildenborough Desulfovibrio vulgaris str. hildenborough]. Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1DVB OCA].~~		</StructureSection>

	==~~Reference~~==
	<~~ref group="xtra">PMID:010968622<~~/~~ref~~><~~references group="xtra"~~/>
	[[Category: Desulfovibrio vulgaris str. hildenborough]]		[[Category: Desulfovibrio vulgaris str. hildenborough]]
	[[Category: Holmes, M.]]		[[Category: Holmes, M.]]

OCA: Protected "1dvb" [edit=sysop:move=sysop]

2012-10-31T09:58:02Z

Protected "1dvb" [edit=sysop:move=sysop]

← Older revision	Revision as of 09:58, 31 October 2012
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