2cv4 - Revision history

OCA at 11:31, 22 May 2024

2024-05-22T11:31:31Z

←Older revision		Revision as of 11:31, 22 May 2024
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	<StructureSection load='2cv4' size='340' side='right'caption='[[2cv4]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='2cv4' size='340' side='right'caption='[[2cv4]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2cv4]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Aerpe Aerpe~~]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1vgs 1vgs]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CV4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CV4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2cv4]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Aeropyrum_pernix_K1 Aeropyrum pernix K1]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1vgs 1vgs]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CV4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CV4 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>~~, ~~<scene name='pdbligand=MES:~~2~~-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</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='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=OCS:CYSTEINESULFONIC+ACID'>OCS</scene></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=OCS:CYSTEINESULFONIC+ACID'>OCS</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=2cv4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cv4 OCA], [https://pdbe.org/2cv4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2cv4 RCSB], [https://www.ebi.ac.uk/pdbsum/2cv4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2cv4 ProSAT], [https://www.topsan.org/Proteins/RSGI/2cv4 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=2cv4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cv4 OCA], [https://pdbe.org/2cv4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2cv4 RCSB], [https://www.ebi.ac.uk/pdbsum/2cv4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2cv4 ProSAT], [https://www.topsan.org/Proteins/RSGI/2cv4 TOPSAN]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/TDXH_AERPE TDXH_AERPE]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Aerpe~~]]	+	[[Category: Aeropyrum pernix K1]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Fusatomi, E]]	+	[[Category: Fusatomi E]]
-	[[Category: Mizohata, E]]	+	[[Category: Mizohata E]]
-	[[Category: Murayama, K]]	+	[[Category: Murayama K]]
-	~~[[Category: Structural genomic~~]]	+	[[Category: Sakai H]]
-	[[Category: Sakai, H]]	+	[[Category: Shirouzu M]]
-	[[Category: Shirouzu, M]]	+	[[Category: Terada T]]
-	[[Category: Terada, T]]	+	[[Category: Yokoyama S]]
-	[[Category: Yokoyama, S]]	+
-	~~[[Category: Cysteine sulfonic acid]]~~	+
-	~~[[Category: National project on protein structural and functional analyse]]~~	+
-	~~[[Category: Nppsfa]]~~	+
-	~~[[Category: Oxygen storage-transport complex]]~~	+
-	~~[[Category: Reactive oxigen scavenging system]]~~	+
-	~~[[Category: Rsgi]]~~	+
-	~~[[Category: Thioredoxin fold]]~~	+
-	~~[[Category: Thioredoxin peroxidase~~]]	+

OCA at 07:01, 1 December 2021

2021-12-01T07:01:06Z

←Older revision		Revision as of 07:01, 1 December 2021
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	<StructureSection load='2cv4' size='340' side='right'caption='[[2cv4]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='2cv4' size='340' side='right'caption='[[2cv4]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2cv4]] is a 10 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Aerpe Aerpe]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1vgs 1vgs]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CV4 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2CV4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2cv4]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Aerpe Aerpe]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1vgs 1vgs]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CV4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CV4 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</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>, <scene name='pdbligand=OCS:CYSTEINESULFONIC+ACID'>OCS</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>, <scene name='pdbligand=OCS:CYSTEINESULFONIC+ACID'>OCS</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=2cv4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cv4 OCA], [~~http~~://pdbe.org/2cv4 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2cv4 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2cv4 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2cv4 ProSAT], [~~http~~://www.topsan.org/Proteins/RSGI/2cv4 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=2cv4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cv4 OCA], [https://pdbe.org/2cv4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2cv4 RCSB], [https://www.ebi.ac.uk/pdbsum/2cv4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2cv4 ProSAT], [https://www.topsan.org/Proteins/RSGI/2cv4 TOPSAN]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 10:44, 26 February 2020

2020-02-26T10:44:02Z

←Older revision		Revision as of 10:44, 26 February 2020
Line 1:		Line 1:

	==Crystal Structure of an Archaeal Peroxiredoxin from the Aerobic Hyperthermophilic Crenarchaeon Aeropyrum pernix K1==		==Crystal Structure of an Archaeal Peroxiredoxin from the Aerobic Hyperthermophilic Crenarchaeon Aeropyrum pernix K1==
-	<StructureSection load='2cv4' size='340' side='right' caption='[[2cv4]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='2cv4' size='340' side='right'caption='[[2cv4]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2cv4]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Aerpe Aerpe]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1vgs 1vgs]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CV4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CV4 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2cv4]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Aerpe Aerpe]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1vgs 1vgs]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CV4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CV4 FirstGlance]. <br>
Line 29:		Line 29:

	==See Also==		==See Also==
-	*[[Peroxiredoxin\|Peroxiredoxin]]	+	*[[Peroxiredoxin 3D structures\|Peroxiredoxin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 35:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Aerpe]]		[[Category: Aerpe]]
		+	[[Category: Large Structures]]
	[[Category: Fusatomi, E]]		[[Category: Fusatomi, E]]
	[[Category: Mizohata, E]]		[[Category: Mizohata, E]]

OCA at 07:57, 23 May 2018

2018-05-23T07:57:56Z

←Older revision		Revision as of 07:57, 23 May 2018
Line 1:		Line 1:
		+
	==Crystal Structure of an Archaeal Peroxiredoxin from the Aerobic Hyperthermophilic Crenarchaeon Aeropyrum pernix K1==		==Crystal Structure of an Archaeal Peroxiredoxin from the Aerobic Hyperthermophilic Crenarchaeon Aeropyrum pernix K1==
	<StructureSection load='2cv4' size='340' side='right' caption='[[2cv4]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='2cv4' size='340' side='right' caption='[[2cv4]], [[Resolution\|resolution]] 2.30Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</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>, <scene name='pdbligand=OCS:CYSTEINESULFONIC+ACID'>OCS</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>, <scene name='pdbligand=OCS:CYSTEINESULFONIC+ACID'>OCS</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=2cv4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cv4 OCA], [http://pdbe.org/2cv4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2cv4 RCSB], [http://www.ebi.ac.uk/pdbsum/2cv4 PDBsum], [http://www.topsan.org/Proteins/RSGI/2cv4 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=2cv4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cv4 OCA], [http://pdbe.org/2cv4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2cv4 RCSB], [http://www.ebi.ac.uk/pdbsum/2cv4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2cv4 ProSAT], [http://www.topsan.org/Proteins/RSGI/2cv4 TOPSAN]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 11:		Line 12:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cv/2cv4_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cv/2cv4_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 03:46, 9 February 2016

2016-02-09T03:46:56Z

←Older revision		Revision as of 03:46, 9 February 2016
Line 15:		Line 15:
	<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=2cv4 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 18:19, 10 September 2015

2015-09-10T18:19:20Z

←Older revision		Revision as of 18:19, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2cv4' size='340' side='right' caption='[[2cv4]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='2cv4' size='340' side='right' caption='[[2cv4]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2cv4]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Aeropyrum_pernix Aeropyrum pernix~~]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1vgs 1vgs]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CV4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CV4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2cv4]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Aerpe Aerpe]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1vgs 1vgs]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CV4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CV4 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</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>, <scene name='pdbligand=OCS:CYSTEINESULFONIC+ACID'>OCS</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>, <scene name='pdbligand=OCS:CYSTEINESULFONIC+ACID'>OCS</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=2cv4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cv4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2cv4 RCSB], [http://www.ebi.ac.uk/pdbsum/2cv4 PDBsum], [http://www.topsan.org/Proteins/RSGI/2cv4 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=2cv4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cv4 OCA], [http://pdbe.org/2cv4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2cv4 RCSB], [http://www.ebi.ac.uk/pdbsum/2cv4 PDBsum], [http://www.topsan.org/Proteins/RSGI/2cv4 TOPSAN]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 25:		Line 25:
	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 2cv4" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 32:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Aeropyrum pernix~~]]	+	[[Category: Aerpe]]
	[[Category: Fusatomi, E]]		[[Category: Fusatomi, E]]
	[[Category: Mizohata, E]]		[[Category: Mizohata, E]]

OCA at 17:24, 15 January 2015

2015-01-15T17:24:26Z

←Older revision		Revision as of 17:24, 15 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2cv4]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Aeropyrum_pernix Aeropyrum pernix]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1vgs 1vgs]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CV4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CV4 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2cv4]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Aeropyrum_pernix Aeropyrum pernix]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1vgs 1vgs]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CV4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CV4 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</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>, <scene name='pdbligand=OCS:CYSTEINESULFONIC+ACID'>OCS</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>, <scene name='pdbligand=OCS:CYSTEINESULFONIC+ACID'>OCS</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=2cv4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cv4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2cv4 RCSB], [http://www.ebi.ac.uk/pdbsum/2cv4 PDBsum], [http://www.topsan.org/Proteins/RSGI/2cv4 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=2cv4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cv4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2cv4 RCSB], [http://www.ebi.ac.uk/pdbsum/2cv4 PDBsum], [http://www.topsan.org/Proteins/RSGI/2cv4 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 33:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Aeropyrum pernix]]		[[Category: Aeropyrum pernix]]
-	[[Category: Fusatomi, E.]]	+	[[Category: Fusatomi, E]]
-	[[Category: Mizohata, E.]]	+	[[Category: Mizohata, E]]
-	[[Category: Murayama, K.]]	+	[[Category: Murayama, K]]
-	[[Category: ~~RSGI, RIKEN~~ Structural ~~Genomics/Proteomics Initiative.~~]]	+	[[Category: Structural genomic]]
-	[[Category: Sakai, H.]]	+	[[Category: Sakai, H]]
-	[[Category: Shirouzu, M.]]	+	[[Category: Shirouzu, M]]
-	[[Category: Terada, T.]]	+	[[Category: Terada, T]]
-	[[Category: Yokoyama, S.]]	+	[[Category: Yokoyama, S]]
	[[Category: Cysteine sulfonic acid]]		[[Category: Cysteine sulfonic acid]]
	[[Category: National project on protein structural and functional analyse]]		[[Category: National project on protein structural and functional analyse]]
Line 46:		Line 46:
	[[Category: Oxygen storage-transport complex]]		[[Category: Oxygen storage-transport complex]]
	[[Category: Reactive oxigen scavenging system]]		[[Category: Reactive oxigen scavenging system]]
-	[[Category: Riken structural genomics/proteomics initiative]]
	[[Category: Rsgi]]		[[Category: Rsgi]]
-	[[Category: Structural genomic]]
	[[Category: Thioredoxin fold]]		[[Category: Thioredoxin fold]]
	[[Category: Thioredoxin peroxidase]]		[[Category: Thioredoxin peroxidase]]

OCA at 03:50, 29 September 2014

2014-09-29T03:50:26Z

←Older revision		Revision as of 03:50, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2cv4.~~png~~\|~~left~~\|200px]]	+	==Crystal Structure of an Archaeal Peroxiredoxin from the Aerobic Hyperthermophilic Crenarchaeon Aeropyrum pernix K1==
		+	<StructureSection load='2cv4' size='340' side='right' caption='[[2cv4]], [[Resolution\|resolution]] 2.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2cv4]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Aeropyrum_pernix Aeropyrum pernix]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1vgs 1vgs]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CV4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CV4 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=OCS:CYSTEINESULFONIC+ACID'>OCS</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=2cv4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cv4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2cv4 RCSB], [http://www.ebi.ac.uk/pdbsum/2cv4 PDBsum], [http://www.topsan.org/Proteins/RSGI/2cv4 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/cv/2cv4_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 ==
		+	Peroxiredoxins (Prxs) are thiol-dependent peroxidases that catalyze the detoxification of various peroxide substrates such as H2O2, peroxinitrite, and hydroperoxides, and control some signal transduction in eukaryotic cells. Prxs are found in all cellular organisms and represent an enormous superfamily. Recent genome sequencing projects and biochemical studies have identified a novel subfamily, the archaeal Prxs. Their primary sequences are similar to those of the 1-Cys Prxs, which use only one cysteine residue in catalysis, while their catalytic properties resemble those of the typical 2-Cys Prxs, which utilize two cysteine residues from adjacent monomers within a dimer in catalysis. We present here the X-ray crystal structure of an archaeal Prx from the aerobic hyperthermophilic crenarchaeon, Aeropyrum pernix K1, determined at 2.3 A resolution (Rwork of 17.8% and Rfree of 23.0%). The overall subunit arrangement of the A.pernix archaeal Prx is a toroid-shaped pentamer of homodimers, or an (alpha2)5 decamer, as observed in the previously reported crystal structures of decameric Prxs. The basic folding topology and the peroxidatic active site structure are essentially the same as those of the 1-Cys Prx, hORF6, except that the C-terminal extension of the A.pernix archaeal Prx forms a unique helix with its flanking loops. The thiol group of the peroxidatic cysteine C50 is overoxidized to sulfonic acid. Notably, the resolving cysteine C213 forms the intra-monomer disulfide bond with the third cysteine, C207, which should be a unique structural characteristic in the many archaeal Prxs that retain two conserved cysteine residues in the C-terminal region. The conformational flexibility near the intra-monomer disulfide linkage might be necessary for the dramatic structural rearrangements that occur in the catalytic cycle.

-	~~{{STRUCTURE_2cv4\| PDB=2cv4 \| SCENE= }}~~	+	Crystal structure of an archaeal peroxiredoxin from the aerobic hyperthermophilic crenarchaeon Aeropyrum pernix K1.,Mizohata E, Sakai H, Fusatomi E, Terada T, Murayama K, Shirouzu M, Yokoyama S J Mol Biol. 2005 Nov 25;354(2):317-29. Epub 2005 Sep 22. PMID:16214169<ref>PMID:16214169</ref>

-	~~===Crystal Structure~~ of ~~an Archaeal Peroxiredoxin from~~ the ~~Aerobic Hyperthermophilic Crenarchaeon Aeropyrum pernix K1===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_16214169}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2cv4]] is a 10 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Aeropyrum_pernix Aeropyrum pernix]~~. ~~This structure supersedes the now removed PDB entry [http:~~/~~/oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1vgs 1vgs]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CV4 OCA].~~	+

	==See Also==		==See Also==
	*[[Peroxiredoxin\|Peroxiredoxin]]		*[[Peroxiredoxin\|Peroxiredoxin]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:016214169<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Aeropyrum pernix]]		[[Category: Aeropyrum pernix]]
	[[Category: Fusatomi, E.]]		[[Category: Fusatomi, E.]]

OCA at 12:32, 20 October 2012

2012-10-20T12:32:18Z

←Older revision		Revision as of 12:32, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2cv4]] is a 10 chain structure ~~of [[Peroxiredoxin]]~~ with sequence from [http://en.wikipedia.org/wiki/Aeropyrum_pernix Aeropyrum pernix]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1vgs 1vgs]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CV4 OCA].	+	[[2cv4]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Aeropyrum_pernix Aeropyrum pernix]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1vgs 1vgs]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CV4 OCA].

	==See Also==		==See Also==

OCA: Protected "2cv4" [edit=sysop:move=sysop]

2012-07-26T09:02:24Z

Protected "2cv4" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:02, 26 July 2012