2clb - Revision history

OCA at 00:50, 21 November 2024

2024-11-21T00:50:55Z

← Older revision		Revision as of 00:50, 21 November 2024
Line 8:		Line 8:
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2clb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2clb OCA], [https://pdbe.org/2clb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2clb RCSB], [https://www.ebi.ac.uk/pdbsum/2clb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2clb 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=2clb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2clb OCA], [https://pdbe.org/2clb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2clb RCSB], [https://www.ebi.ac.uk/pdbsum/2clb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2clb ProSAT]</span></td></tr>
	</table>		</table>
	~~== Function ==~~
	[https://www.uniprot.org/uniprot/DPS_SACS2 DPS_SACS2] Protects DNA from oxidative damage by sequestering intracellular Fe(2+) ion and storing it in the form of Fe(3+) oxyhydroxide mineral. One hydrogen peroxide oxidizes two Fe(2+) ions, which prevents hydroxyl radical production by the Fenton reaction (By similarity). In vitro, it efficiently oxidizes Fe(2+) in the presence of hydrogen peroxide and stores it as a mineral core.<ref>PMID:16024730</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 15:		Line 13:
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cl/2clb_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cl/2clb_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/~~initialview01~~.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>

OCA at 11:27, 22 May 2024

2024-05-22T11:27:11Z

← Older revision		Revision as of 11:27, 22 May 2024
Line 3:		Line 3:
	<StructureSection load='2clb' size='340' side='right'caption='[[2clb]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2clb' size='340' side='right'caption='[[2clb]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2clb]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Sulso Sulso~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CLB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CLB FirstGlance]. <br>		<table><tr><td colspan='2'>[[2clb]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharolobus_solfataricus_P2 Saccharolobus solfataricus P2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CLB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CLB 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]] 2.4Å</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='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=MSE:SELENOMETHIONINE'>MSE</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=2clb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2clb OCA], [https://pdbe.org/2clb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2clb RCSB], [https://www.ebi.ac.uk/pdbsum/2clb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2clb 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=2clb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2clb OCA], [https://pdbe.org/2clb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2clb RCSB], [https://www.ebi.ac.uk/pdbsum/2clb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2clb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/~~DPS_SULSO DPS_SULSO]~~] Protects DNA from oxidative damage by sequestering intracellular Fe(2+) ion and storing it in the form of Fe(3+) oxyhydroxide mineral. One hydrogen peroxide oxidizes two Fe(2+) ions, which prevents hydroxyl radical production by the Fenton reaction (By similarity). In vitro, it efficiently oxidizes Fe(2+) in the presence of hydrogen peroxide and stores it as a mineral core.<ref>PMID:16024730</ref>		[https://www.uniprot.org/uniprot/DPS_SACS2 DPS_SACS2] Protects DNA from oxidative damage by sequestering intracellular Fe(2+) ion and storing it in the form of Fe(3+) oxyhydroxide mineral. One hydrogen peroxide oxidizes two Fe(2+) ions, which prevents hydroxyl radical production by the Fenton reaction (By similarity). In vitro, it efficiently oxidizes Fe(2+) in the presence of hydrogen peroxide and stores it as a mineral core.<ref>PMID:16024730</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Sulso~~]]		[[Category: Saccharolobus solfataricus P2]]
	[[Category: Benas, P]]		[[Category: Benas P]]
	[[Category: Douglas, T]]		[[Category: Douglas T]]
	[[Category: Gauss~~, G H~~]]		[[Category: Gauss GH]]
	[[Category: Lawrence~~, C M~~]]		[[Category: Lawrence CM]]
	[[Category: Wiedenheft, B]]		[[Category: Wiedenheft B]]
	[[Category: Young, M]]		[[Category: Young M]]
	~~[[Category: Archaea]]~~
	~~[[Category: Bacterioferritin]]~~
	~~[[Category: Di-iron carboxylate]]~~
	~~[[Category: Dp]]~~
	~~[[Category: Dps- like]]~~
	~~[[Category: Hydrogen peroxide]]~~
	~~[[Category: Hypothetical protein]]~~
	~~[[Category: Metal binding protein]]~~
	~~[[Category: Oxidative stress~~]]

OCA at 06:57, 1 December 2021

2021-12-01T06:57:48Z

← Older revision		Revision as of 06:57, 1 December 2021
Line 3:		Line 3:
	<StructureSection load='2clb' size='340' side='right'caption='[[2clb]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2clb' size='340' side='right'caption='[[2clb]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2clb]] is a 8 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Sulso Sulso]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CLB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2CLB FirstGlance]. <br>		<table><tr><td colspan='2'>[[2clb]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Sulso Sulso]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CLB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CLB 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='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='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=2clb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2clb OCA], [~~http~~://pdbe.org/2clb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2clb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2clb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2clb 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=2clb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2clb OCA], [https://pdbe.org/2clb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2clb RCSB], [https://www.ebi.ac.uk/pdbsum/2clb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2clb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/DPS_SULSO DPS_SULSO]] Protects DNA from oxidative damage by sequestering intracellular Fe(2+) ion and storing it in the form of Fe(3+) oxyhydroxide mineral. One hydrogen peroxide oxidizes two Fe(2+) ions, which prevents hydroxyl radical production by the Fenton reaction (By similarity). In vitro, it efficiently oxidizes Fe(2+) in the presence of hydrogen peroxide and stores it as a mineral core.<ref>PMID:16024730</ref>		[[https://www.uniprot.org/uniprot/DPS_SULSO DPS_SULSO]] Protects DNA from oxidative damage by sequestering intracellular Fe(2+) ion and storing it in the form of Fe(3+) oxyhydroxide mineral. One hydrogen peroxide oxidizes two Fe(2+) ions, which prevents hydroxyl radical production by the Fenton reaction (By similarity). In vitro, it efficiently oxidizes Fe(2+) in the presence of hydrogen peroxide and stores it as a mineral core.<ref>PMID:16024730</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 10:55, 26 February 2020

2020-02-26T10:55:48Z

← Older revision		Revision as of 10:55, 26 February 2020
Line 1:		Line 1:

	==The structure of the DPS-like protein from Sulfolobus solfataricus reveals a bacterioferritin-like di-metal binding site within a Dps- like dodecameric assembly==		==The structure of the DPS-like protein from Sulfolobus solfataricus reveals a bacterioferritin-like di-metal binding site within a Dps- like dodecameric assembly==
	<StructureSection load='2clb' size='340' side='right' caption='[[2clb]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2clb' size='340' side='right'caption='[[2clb]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2clb]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Sulso Sulso]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CLB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CLB FirstGlance]. <br>		<table><tr><td colspan='2'>[[2clb]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Sulso Sulso]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CLB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CLB FirstGlance]. <br>
Line 33:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Large Structures]]
	[[Category: Sulso]]		[[Category: Sulso]]
	[[Category: Benas, P]]		[[Category: Benas, P]]

OCA at 08:16, 23 May 2018

2018-05-23T08:16:16Z

← Older revision		Revision as of 08:16, 23 May 2018
Line 1:		Line 1:
	==~~THE STRUCTURE OF THE~~ DPS-~~LIKE PROTEIN FROM SULFOLOBUS SOLFATARICUS REVEALS A BACTERIOFERRITIN~~-~~LIKE DI~~-~~METAL BINDING SITE WITHIN A DPS~~-~~LIKE DODECAMERIC ASSEMBLY~~==
			==The structure of the DPS-like protein from Sulfolobus solfataricus reveals a bacterioferritin-like di-metal binding site within a Dps- like dodecameric assembly==
	<StructureSection load='2clb' size='340' side='right' caption='[[2clb]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2clb' size='340' side='right' caption='[[2clb]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
Line 5:		Line 6:
	</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='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='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=2clb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2clb OCA], [http://pdbe.org/2clb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2clb RCSB], [http://www.ebi.ac.uk/pdbsum/2clb 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=2clb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2clb OCA], [http://pdbe.org/2clb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2clb RCSB], [http://www.ebi.ac.uk/pdbsum/2clb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2clb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cl/2clb_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cl/2clb_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>

OCA at 09:29, 9 February 2016

2016-02-09T09:29:43Z

← Older revision		Revision as of 09:29, 9 February 2016
Line 17:		Line 17:
	<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=2clb ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 20:54, 10 September 2015

2015-09-10T20:54:04Z

← Older revision		Revision as of 20:54, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2clb' size='340' side='right' caption='[[2clb]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2clb' size='340' side='right' caption='[[2clb]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2clb]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Sulfolobus_solfataricus Sulfolobus solfataricus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CLB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CLB FirstGlance]. <br>		<table><tr><td colspan='2'>[[2clb]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Sulso Sulso]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CLB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CLB 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='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='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=2clb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2clb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2clb RCSB], [http://www.ebi.ac.uk/pdbsum/2clb 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=2clb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2clb OCA], [http://pdbe.org/2clb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2clb RCSB], [http://www.ebi.ac.uk/pdbsum/2clb PDBsum]</span></td></tr>
	</table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/DPS_SULSO DPS_SULSO]] Protects DNA from oxidative damage by sequestering intracellular Fe(2+) ion and storing it in the form of Fe(3+) oxyhydroxide mineral. One hydrogen peroxide oxidizes two Fe(2+) ions, which prevents hydroxyl radical production by the Fenton reaction (By similarity). In vitro, it efficiently oxidizes Fe(2+) in the presence of hydrogen peroxide and stores it as a mineral core.<ref>PMID:16024730</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 25:		Line 27:
	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 2clb" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Sulfolobus solfataricus~~]]		[[Category: Sulso]]
	[[Category: Benas, P]]		[[Category: Benas, P]]
	[[Category: Douglas, T]]		[[Category: Douglas, T]]

OCA at 16:31, 15 January 2015

2015-01-15T16:31:25Z

← Older revision		Revision as of 16:31, 15 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2clb]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Sulfolobus_solfataricus Sulfolobus solfataricus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CLB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CLB FirstGlance]. <br>		<table><tr><td colspan='2'>[[2clb]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Sulfolobus_solfataricus Sulfolobus solfataricus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CLB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CLB 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>[[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>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2clb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2clb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2clb RCSB], [http://www.ebi.ac.uk/pdbsum/2clb 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=2clb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2clb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2clb RCSB], [http://www.ebi.ac.uk/pdbsum/2clb PDBsum]</span></td></tr>
	<table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 30:		Line 30:
	</StructureSection>		</StructureSection>
	[[Category: Sulfolobus solfataricus]]		[[Category: Sulfolobus solfataricus]]
	[[Category: Benas, P.]]		[[Category: Benas, P]]
	[[Category: Douglas, T.]]		[[Category: Douglas, T]]
	[[Category: Gauss, G H.]]		[[Category: Gauss, G H]]
	[[Category: Lawrence, C M.]]		[[Category: Lawrence, C M]]
	[[Category: Wiedenheft, B.]]		[[Category: Wiedenheft, B]]
	[[Category: Young, M.]]		[[Category: Young, M]]
	[[Category: Archaea]]		[[Category: Archaea]]
	[[Category: Bacterioferritin]]		[[Category: Bacterioferritin]]

OCA at 01:47, 30 September 2014

2014-09-30T01:47:21Z

← Older revision		Revision as of 01:47, 30 September 2014
Line 1:		Line 1:
	[[Image:~~2clb~~.~~png~~\|~~left~~\|~~200px~~]]		==THE STRUCTURE OF THE DPS-LIKE PROTEIN FROM SULFOLOBUS SOLFATARICUS REVEALS A BACTERIOFERRITIN-LIKE DI-METAL BINDING SITE WITHIN A DPS-LIKE DODECAMERIC ASSEMBLY==
			<StructureSection load='2clb' size='340' side='right' caption='[[2clb]], [[Resolution\|resolution]] 2.40Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[2clb]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Sulfolobus_solfataricus Sulfolobus solfataricus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CLB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CLB 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>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</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=2clb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2clb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2clb RCSB], [http://www.ebi.ac.uk/pdbsum/2clb 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/cl/2clb_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 ==
			The superfamily of ferritin-like proteins has recently expanded to include a phylogenetically distinct class of proteins termed DPS-like (DPSL) proteins. Despite their distinct genetic signatures, members of this subclass share considerable similarity to previously recognized DPS proteins. Like DPS, these proteins are expressed in response to oxidative stress, form dodecameric cage-like particles, preferentially utilize H(2)O(2) in the controlled oxidation of Fe(2+), and possess a short N-terminal extension implicated in stabilizing cellular DNA. Given these extensive similarities, the functional properties responsible for the preservation of the DPSL signature in the genomes of diverse prokaryotes have been unclear. Here, we describe the crystal structure of a DPSL protein from the thermoacidophilic archaeon Sulfolobus solfataricus. Although the overall fold of the polypeptide chain and the oligomeric state of this protein are indistinguishable from those of authentic DPS proteins, several important differences are observed. First, rather than a ferroxidase site at the subunit interface, as is observed in all other DPS proteins, the ferroxidase site in SsDPSL is buried within the four-helix bundle, similar to bacterioferritin. Second, the structure reveals a channel leading from the exterior surface of SsDPSL to the bacterioferritin-like dimetal binding site, possibly allowing divalent cations and/or H(2)O(2) to access the active site. Third, a pair of cysteine residues unique to DPSL proteins is found adjacent to the dimetal binding site juxtaposed between the exterior surface of the protein and the active site channel. The cysteine residues in this thioferritin motif may play a redox active role, possibly serving to recycle iron at the ferroxidase center.

	~~{{STRUCTURE_2clb\| PDB=2clb \| SCENE= }}~~		Structure of the DPS-like protein from Sulfolobus solfataricus reveals a bacterioferritin-like dimetal binding site within a DPS-like dodecameric assembly.,Gauss GH, Benas P, Wiedenheft B, Young M, Douglas T, Lawrence CM Biochemistry. 2006 Sep 12;45(36):10815-27. PMID:16953567<ref>PMID:16953567</ref>

	~~===THE STRUCTURE OF THE DPS-LIKE PROTEIN FROM SULFOLOBUS SOLFATARICUS REVEALS A BACTERIOFERRITIN-LIKE DI-METAL BINDING SITE WITHIN A DPS-LIKE DODECAMERIC ASSEMBLY===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_16953567}}~~		== References ==
			<references/>
	~~==About this Structure==~~		__TOC__
	~~[[2clb]] is~~ a ~~8 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Sulfolobus_solfataricus Sulfolobus solfataricus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2CLB OCA].~~		</StructureSection>

	==~~Reference~~==
	<~~ref group="xtra">PMID:016953567<~~/~~ref~~><~~references group="xtra"~~/>
	[[Category: Sulfolobus solfataricus]]		[[Category: Sulfolobus solfataricus]]
	[[Category: Benas, P.]]		[[Category: Benas, P.]]

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

2013-01-06T11:01:51Z

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

← Older revision	Revision as of 11:01, 6 January 2013
(No difference)