3cyi - Revision history

OCA at 09:39, 21 February 2024

OCA — Wed, 21 Feb 2024 09:39:20 GMT

←Older revision		Revision as of 09:39, 21 February 2024
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	<StructureSection load='3cyi' size='340' side='right'caption='[[3cyi]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='3cyi' size='340' side='right'caption='[[3cyi]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3cyi]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CYI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3CYI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3cyi]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CYI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3CYI FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ATP:ADENOSINE~~-~~5-TRIPHOSPHATE'>ATP</scene>~~, ~~<scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 1.8Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[2rii\|2rii]], [[1xw4\|1xw4]], [[1xw3\|1xw3]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>SRXN1, C20orf139, SRX ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~9606 HUMAN])</td~~><~~/tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/Sulfiredoxin Sulfiredoxin], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.8.98.2 1.8.98.2]~~ </~~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=3cyi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cyi OCA], [https://pdbe.org/3cyi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3cyi RCSB], [https://www.ebi.ac.uk/pdbsum/3cyi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3cyi 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=3cyi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cyi OCA], [https://pdbe.org/3cyi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3cyi RCSB], [https://www.ebi.ac.uk/pdbsum/3cyi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3cyi ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/SRXN1_HUMAN SRXN1_HUMAN]] Contributes to oxidative stress resistance by reducing cysteine-sulfinic acid formed under exposure to oxidants in the peroxiredoxins PRDX1, PRDX2, PRDX3 and PRDX4. Does not act on PRDX5 or PRDX6. May catalyze the reduction in a multi-step process by acting both as a specific phosphotransferase and a thioltransferase.<ref>PMID:15448164</ref> <ref>PMID:15590625</ref>	+	[https://www.uniprot.org/uniprot/SRXN1_HUMAN SRXN1_HUMAN] Contributes to oxidative stress resistance by reducing cysteine-sulfinic acid formed under exposure to oxidants in the peroxiredoxins PRDX1, PRDX2, PRDX3 and PRDX4. Does not act on PRDX5 or PRDX6. May catalyze the reduction in a multi-step process by acting both as a specific phosphotransferase and a thioltransferase.<ref>PMID:15448164</ref> <ref>PMID:15590625</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</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=3cyi 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=3cyi ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Sulfiredoxin (Srx) catalyzes a novel enzymatic reaction, the reduction of protein cysteine sulfinic acid, Cys-SO(2)(-). This reaction is unique to the typical 2-Cys peroxiredoxins (Prx) and plays a role in peroxide-mediated signaling by regulating the activity of Prxs. Two mechanistic schemes have been proposed that differ regarding the first step of the reaction. This step involves either the direct transfer of the gamma-phosphate of ATP to the Prx molecule or through Srx acting as a phosphorylated intermediary. In an effort to clarify this step of the Srx reaction, we have determined the 1.8A resolution crystal structure of Srx in complex with ATP and Mg(2+). This structure reveals the role of the Mg(2+) ion to position the gamma-phosphate toward solvent, thus preventing an in-line attack by the catalytic residue Cys-99 of Srx. A model of the quaternary complex is consistent with this proposal. Furthermore, phosphorylation studies on several site-directed mutants of Srx and Prx, including the Prx-Asp mimic of the Prx-SO(2)(-) species, support a mechanism where phosphorylation of Prx-SO(2)(-) is the first chemical step.
-
-	Reduction of cysteine sulfinic acid in peroxiredoxin by sulfiredoxin proceeds directly through a sulfinic phosphoryl ester intermediate.,Jonsson TJ, Murray MS, Johnson LC, Lowther WT J Biol Chem. 2008 Aug 29;283(35):23846-51. Epub 2008 Jun 24. PMID:18579529<ref>PMID:18579529</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 3cyi" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Sulfiredoxin]]~~	+	[[Category: Johnson LC]]
-	[[Category: Johnson~~, L C~~]]	+	[[Category: Jonsson TJ]]
-	[[Category: Jonsson~~, T J~~]]	+	[[Category: Lowther WT]]
-	[[Category: Lowther~~, W T~~]]	+	[[Category: Murray MS]]
-	[[Category: Murray~~, M S]]~~	+
-	~~[[Category: Antioxidant]]~~	+
-	~~[[Category: Atp-binding]]~~	+
-	~~[[Category: Cys sulfinic acid reduction]]~~	+
-	~~[[Category: Cytoplasm]]~~	+
-	~~[[Category: Magnesium]]~~	+
-	~~[[Category: Nucleotide-binding]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 19:16, 20 October 2021

OCA — Wed, 20 Oct 2021 19:16:40 GMT

←Older revision		Revision as of 19:16, 20 October 2021
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	==Crystal Structure of Human Sulfiredoxin (Srx) in Complex with ATP:Mg2+==		==Crystal Structure of Human Sulfiredoxin (Srx) in Complex with ATP:Mg2+==
-	<StructureSection load='3cyi' size='340' side='right' caption='[[3cyi]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='3cyi' size='340' side='right'caption='[[3cyi]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3cyi]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CYI OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3CYI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3cyi]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CYI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3CYI FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2rii\|2rii]], [[1xw4\|1xw4]], [[1xw3\|1xw3]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2rii\|2rii]], [[1xw4\|1xw4]], [[1xw3\|1xw3]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SRXN1, C20orf139, SRX ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SRXN1, C20orf139, SRX ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Sulfiredoxin Sulfiredoxin], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.8.98.2 1.8.98.2] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Sulfiredoxin Sulfiredoxin], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.8.98.2 1.8.98.2] </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=3cyi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cyi OCA], [~~http~~://pdbe.org/3cyi PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3cyi RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3cyi PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3cyi 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=3cyi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cyi OCA], [https://pdbe.org/3cyi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3cyi RCSB], [https://www.ebi.ac.uk/pdbsum/3cyi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3cyi ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/SRXN1_HUMAN SRXN1_HUMAN]] Contributes to oxidative stress resistance by reducing cysteine-sulfinic acid formed under exposure to oxidants in the peroxiredoxins PRDX1, PRDX2, PRDX3 and PRDX4. Does not act on PRDX5 or PRDX6. May catalyze the reduction in a multi-step process by acting both as a specific phosphotransferase and a thioltransferase.<ref>PMID:15448164</ref> <ref>PMID:15590625</ref>	+	[[https://www.uniprot.org/uniprot/SRXN1_HUMAN SRXN1_HUMAN]] Contributes to oxidative stress resistance by reducing cysteine-sulfinic acid formed under exposure to oxidants in the peroxiredoxins PRDX1, PRDX2, PRDX3 and PRDX4. Does not act on PRDX5 or PRDX6. May catalyze the reduction in a multi-step process by acting both as a specific phosphotransferase and a thioltransferase.<ref>PMID:15448164</ref> <ref>PMID:15590625</ref>
	== 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: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Sulfiredoxin]]		[[Category: Sulfiredoxin]]
	[[Category: Johnson, L C]]		[[Category: Johnson, L C]]

OCA at 19:13, 24 January 2018

OCA — Wed, 24 Jan 2018 19:13:25 GMT

←Older revision		Revision as of 19:13, 24 January 2018
Line 1:		Line 1:
		+
	==Crystal Structure of Human Sulfiredoxin (Srx) in Complex with ATP:Mg2+==		==Crystal Structure of Human Sulfiredoxin (Srx) in Complex with ATP:Mg2+==
	<StructureSection load='3cyi' size='340' side='right' caption='[[3cyi]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='3cyi' size='340' side='right' caption='[[3cyi]], [[Resolution\|resolution]] 1.80Å' scene=''>
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	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SRXN1, C20orf139, SRX ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SRXN1, C20orf139, SRX ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sulfiredoxin Sulfiredoxin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.8.98.2 1.8.98.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sulfiredoxin Sulfiredoxin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.8.98.2 1.8.98.2] </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=3cyi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cyi OCA], [http://pdbe.org/3cyi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3cyi RCSB], [http://www.ebi.ac.uk/pdbsum/3cyi 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=3cyi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cyi OCA], [http://pdbe.org/3cyi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3cyi RCSB], [http://www.ebi.ac.uk/pdbsum/3cyi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3cyi ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 15:		Line 16:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cy/3cyi_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cy/3cyi_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 43:		Line 44:
	[[Category: Atp-binding]]		[[Category: Atp-binding]]
	[[Category: Cys sulfinic acid reduction]]		[[Category: Cys sulfinic acid reduction]]
		+	[[Category: Cytoplasm]]
	[[Category: Magnesium]]		[[Category: Magnesium]]
	[[Category: Nucleotide-binding]]		[[Category: Nucleotide-binding]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

OCA at 10:36, 7 February 2016

OCA — Sun, 07 Feb 2016 10:36:16 GMT

←Older revision		Revision as of 10:36, 7 February 2016
Line 2:		Line 2:
	<StructureSection load='3cyi' size='340' side='right' caption='[[3cyi]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='3cyi' size='340' side='right' caption='[[3cyi]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3cyi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Homo_sapiens Homo sapiens~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CYI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3CYI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3cyi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CYI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3CYI FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2rii\|2rii]], [[1xw4\|1xw4]], [[1xw3\|1xw3]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2rii\|2rii]], [[1xw4\|1xw4]], [[1xw3\|1xw3]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SRXN1, C20orf139, SRX ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 ~~Homo sapiens~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SRXN1, C20orf139, SRX ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sulfiredoxin Sulfiredoxin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.8.98.2 1.8.98.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sulfiredoxin Sulfiredoxin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.8.98.2 1.8.98.2] </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=3cyi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cyi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3cyi RCSB], [http://www.ebi.ac.uk/pdbsum/3cyi 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=3cyi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cyi OCA], [http://pdbe.org/3cyi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3cyi RCSB], [http://www.ebi.ac.uk/pdbsum/3cyi PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 19:
	<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=3cyi ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 29:		Line 29:
	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 3cyi" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Sulfiredoxin]]		[[Category: Sulfiredoxin]]
	[[Category: Johnson, L C]]		[[Category: Johnson, L C]]

OCA at 14:27, 24 December 2014

OCA — Wed, 24 Dec 2014 14:27:51 GMT

←Older revision		Revision as of 14:27, 24 December 2014
Line 9:		Line 9:
	<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=3cyi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cyi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3cyi RCSB], [http://www.ebi.ac.uk/pdbsum/3cyi 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=3cyi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cyi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3cyi RCSB], [http://www.ebi.ac.uk/pdbsum/3cyi PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/SRXN1_HUMAN SRXN1_HUMAN]] Contributes to oxidative stress resistance by reducing cysteine-sulfinic acid formed under exposure to oxidants in the peroxiredoxins PRDX1, PRDX2, PRDX3 and PRDX4. Does not act on PRDX5 or PRDX6. May catalyze the reduction in a multi-step process by acting both as a specific phosphotransferase and a thioltransferase.<ref>PMID:15448164</ref> <ref>PMID:15590625</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 35:
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Sulfiredoxin]]		[[Category: Sulfiredoxin]]
-	[[Category: Johnson, L C.]]	+	[[Category: Johnson, L C]]
	[[Category: Jonsson, T J]]		[[Category: Jonsson, T J]]
-	[[Category: Lowther, W T.]]	+	[[Category: Lowther, W T]]
-	[[Category: Murray, M S.]]	+	[[Category: Murray, M S]]
	[[Category: Antioxidant]]		[[Category: Antioxidant]]
	[[Category: Atp-binding]]		[[Category: Atp-binding]]

OCA at 09:26, 5 November 2014

OCA — Wed, 05 Nov 2014 09:26:56 GMT

←Older revision		Revision as of 09:26, 5 November 2014
Line 1:		Line 1:
-	[[~~Image:~~3cyi.~~png~~\|~~left~~\|200px]]	+	==Crystal Structure of Human Sulfiredoxin (Srx) in Complex with ATP:Mg2+==
		+	<StructureSection load='3cyi' size='340' side='right' caption='[[3cyi]], [[Resolution\|resolution]] 1.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3cyi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CYI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3CYI FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2rii\|2rii]], [[1xw4\|1xw4]], [[1xw3\|1xw3]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SRXN1, C20orf139, SRX ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Sulfiredoxin Sulfiredoxin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.8.98.2 1.8.98.2] </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=3cyi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cyi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3cyi RCSB], [http://www.ebi.ac.uk/pdbsum/3cyi 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/cy/3cyi_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 ==
		+	Sulfiredoxin (Srx) catalyzes a novel enzymatic reaction, the reduction of protein cysteine sulfinic acid, Cys-SO(2)(-). This reaction is unique to the typical 2-Cys peroxiredoxins (Prx) and plays a role in peroxide-mediated signaling by regulating the activity of Prxs. Two mechanistic schemes have been proposed that differ regarding the first step of the reaction. This step involves either the direct transfer of the gamma-phosphate of ATP to the Prx molecule or through Srx acting as a phosphorylated intermediary. In an effort to clarify this step of the Srx reaction, we have determined the 1.8A resolution crystal structure of Srx in complex with ATP and Mg(2+). This structure reveals the role of the Mg(2+) ion to position the gamma-phosphate toward solvent, thus preventing an in-line attack by the catalytic residue Cys-99 of Srx. A model of the quaternary complex is consistent with this proposal. Furthermore, phosphorylation studies on several site-directed mutants of Srx and Prx, including the Prx-Asp mimic of the Prx-SO(2)(-) species, support a mechanism where phosphorylation of Prx-SO(2)(-) is the first chemical step.

-	~~{{STRUCTURE_3cyi\| PDB=3cyi \| SCENE= }}~~	+	Reduction of cysteine sulfinic acid in peroxiredoxin by sulfiredoxin proceeds directly through a sulfinic phosphoryl ester intermediate.,Jonsson TJ, Murray MS, Johnson LC, Lowther WT J Biol Chem. 2008 Aug 29;283(35):23846-51. Epub 2008 Jun 24. PMID:18579529<ref>PMID:18579529</ref>

-	~~===Crystal Structure~~ of ~~Human Sulfiredoxin (Srx) in Complex with ATP:Mg2+===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18579529}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[3cyi]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Homo_sapiens Homo sapiens]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3CYI OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:018579529<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Sulfiredoxin]]		[[Category: Sulfiredoxin]]

OCA: Protected "3cyi" [edit=sysop:move=sysop]

OCA — Mon, 07 Jan 2013 20:45:23 GMT

Protected "3cyi" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:45, 7 January 2013

OCA at 20:45, 7 January 2013

OCA — Mon, 07 Jan 2013 20:45:20 GMT

←Older revision		Revision as of 20:45, 7 January 2013
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-	{{Seed}}
	[[Image:3cyi.png\|left\|200px]]		[[Image:3cyi.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3cyi", 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_3cyi\| PDB=3cyi \| SCENE= }}		{{STRUCTURE_3cyi\| PDB=3cyi \| SCENE= }}

	===Crystal Structure of Human Sulfiredoxin (Srx) in Complex with ATP:Mg2+===		===Crystal Structure of Human Sulfiredoxin (Srx) in Complex with ATP:Mg2+===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18579529}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18579529 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18579529}}		{{ABSTRACT_PUBMED_18579529}}

	==About this Structure==		==About this Structure==
-	~~3CYI~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CYI OCA].	+	[[3cyi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CYI OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18579529~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018579529</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Sulfiredoxin]]		[[Category: Sulfiredoxin]]
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	[[Category: Atp-binding]]		[[Category: Atp-binding]]
	[[Category: Cys sulfinic acid reduction]]		[[Category: Cys sulfinic acid reduction]]
-	[[Category: Cytoplasm]]
	[[Category: Magnesium]]		[[Category: Magnesium]]
	[[Category: Nucleotide-binding]]		[[Category: Nucleotide-binding]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 13:13:57 2009''

OCA at 11:13, 16 February 2009

OCA — Mon, 16 Feb 2009 11:13:57 GMT

←Older revision		Revision as of 11:13, 16 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	3CYI is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CYI OCA].	+	3CYI is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CYI OCA].

	==Reference==		==Reference==
-	Reduction of Cysteine Sulfinic Acid in Peroxiredoxin by Sulfiredoxin Proceeds Directly through a Sulfinic Phosphoryl Ester Intermediate., Jonsson TJ, Murray MS, Johnson LC, Lowther WT, J Biol Chem. 2008 Aug 29;283(35):23846-51. Epub 2008 Jun 24. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18579529 18579529]~~	+	<ref group="xtra">PMID:18579529</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Single protein]]
	[[Category: Sulfiredoxin]]		[[Category: Sulfiredoxin]]
	[[Category: Johnson, L C.]]		[[Category: Johnson, L C.]]
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	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Sep 10 08~~:59:~~31 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 13:13:57 2009''

OCA at 05:59, 10 September 2008

OCA — Wed, 10 Sep 2008 05:59:31 GMT

←Older revision		Revision as of 05:59, 10 September 2008
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	{{Seed}}		{{Seed}}
-	[[Image:3cyi.~~jpg~~\|left\|200px]]	+	[[Image:3cyi.png\|left\|200px]]

	<!--		<!--
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	===Crystal Structure of Human Sulfiredoxin (Srx) in Complex with ATP:Mg2+===		===Crystal Structure of Human Sulfiredoxin (Srx) in Complex with ATP:Mg2+===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_18579529}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 18579529 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_18579529}}

	==About this Structure==		==About this Structure==
	3CYI is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CYI OCA].		3CYI is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CYI OCA].
		+
		+	==Reference==
		+	Reduction of Cysteine Sulfinic Acid in Peroxiredoxin by Sulfiredoxin Proceeds Directly through a Sulfinic Phosphoryl Ester Intermediate., Jonsson TJ, Murray MS, Johnson LC, Lowther WT, J Biol Chem. 2008 Aug 29;283(35):23846-51. Epub 2008 Jun 24. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18579529 18579529]
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Single protein]]		[[Category: Single protein]]
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	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Thu Jul 3 11:30~~:59 2008''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 10 08:59:31 2008''