2gh2 - Revision history

OCA at 09:40, 30 August 2023

2023-08-30T09:40:42Z

←Older revision		Revision as of 09:40, 30 August 2023
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	<StructureSection load='2gh2' size='340' side='right'caption='[[2gh2]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='2gh2' size='340' side='right'caption='[[2gh2]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2gh2]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Buffalo_rat Buffalo rat~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GH2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2GH2 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2gh2]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GH2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2GH2 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=SO4:SULFATE+ION'>SO4</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]] 1.5Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[2b5h\|2b5h]]</div>~~</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=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>Cdo1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~10116 Buffalo rat])</td~~><~~/tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/Cysteine_dioxygenase Cysteine dioxygenase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.20 1.13.11.20]~~ </~~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=2gh2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gh2 OCA], [https://pdbe.org/2gh2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2gh2 RCSB], [https://www.ebi.ac.uk/pdbsum/2gh2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2gh2 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=2gh2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gh2 OCA], [https://pdbe.org/2gh2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2gh2 RCSB], [https://www.ebi.ac.uk/pdbsum/2gh2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2gh2 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/CDO1_RAT CDO1_RAT]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Buffalo rat]]
-	[[Category: Cysteine dioxygenase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Karplus, P A~~]]	+	[[Category: Rattus norvegicus]]
-	[[Category: ~~Simmons, C R~~]]	+	[[Category: Karplus PA]]
-	[[Category: ~~Stipanuk, M H~~]]	+	[[Category: Simmons CR]]
-	[[Category: ~~Beta-sandwich]]~~	+	[[Category: Stipanuk MH]]
-	~~[[Category: Cupin]]~~	+
-	~~[[Category: Cysteinyl-tyrosine]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Tetrahedral iron coordination]]~~	+
-	~~[[Category: Thioether~~]]	+

OCA at 19:03, 10 March 2021

2021-03-10T19:03:05Z

←Older revision		Revision as of 19:03, 10 March 2021
Line 1:		Line 1:

	==1.5 A Resolution R. Norvegicus Cysteine Dioxygenase Structure Crystallized in the Presence of Cysteine==		==1.5 A Resolution R. Norvegicus Cysteine Dioxygenase Structure Crystallized in the Presence of Cysteine==
-	<StructureSection load='2gh2' size='340' side='right' caption='[[2gh2]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='2gh2' size='340' side='right'caption='[[2gh2]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2gh2]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GH2 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2GH2 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2gh2]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GH2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2GH2 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=SO4:SULFATE+ION'>SO4</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=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b5h\|2b5h]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2b5h\|2b5h]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cdo1 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cdo1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Cysteine_dioxygenase Cysteine dioxygenase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.20 1.13.11.20] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Cysteine_dioxygenase Cysteine dioxygenase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.20 1.13.11.20] </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=2gh2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gh2 OCA], [~~http~~://pdbe.org/2gh2 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2gh2 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2gh2 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2gh2 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=2gh2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gh2 OCA], [https://pdbe.org/2gh2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2gh2 RCSB], [https://www.ebi.ac.uk/pdbsum/2gh2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2gh2 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 29:		Line 29:
	</div>		</div>
	<div class="pdbe-citations 2gh2" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2gh2" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Dioxygenase 3D structures\|Dioxygenase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 35:		Line 38:
	[[Category: Buffalo rat]]		[[Category: Buffalo rat]]
	[[Category: Cysteine dioxygenase]]		[[Category: Cysteine dioxygenase]]
		+	[[Category: Large Structures]]
	[[Category: Karplus, P A]]		[[Category: Karplus, P A]]
	[[Category: Simmons, C R]]		[[Category: Simmons, C R]]

OCA at 18:50, 24 January 2018

2018-01-24T18:50:06Z

←Older revision		Revision as of 18:50, 24 January 2018
Line 1:		Line 1:
		+
	==1.5 A Resolution R. Norvegicus Cysteine Dioxygenase Structure Crystallized in the Presence of Cysteine==		==1.5 A Resolution R. Norvegicus Cysteine Dioxygenase Structure Crystallized in the Presence of Cysteine==
	<StructureSection load='2gh2' size='340' side='right' caption='[[2gh2]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='2gh2' size='340' side='right' caption='[[2gh2]], [[Resolution\|resolution]] 1.50Å' scene=''>
Line 7:		Line 8:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cdo1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cdo1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cysteine_dioxygenase Cysteine dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.20 1.13.11.20] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cysteine_dioxygenase Cysteine dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.20 1.13.11.20] </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=2gh2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gh2 OCA], [http://pdbe.org/2gh2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2gh2 RCSB], [http://www.ebi.ac.uk/pdbsum/2gh2 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=2gh2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gh2 OCA], [http://pdbe.org/2gh2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2gh2 RCSB], [http://www.ebi.ac.uk/pdbsum/2gh2 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2gh2 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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/gh/2gh2_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/gh/2gh2_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>
	</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=2gh2 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 28:		Line 29:
	</div>		</div>
	<div class="pdbe-citations 2gh2" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2gh2" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Dioxygenase\|Dioxygenase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 23:03, 11 September 2015

2015-09-11T23:03:24Z

←Older revision		Revision as of 23:03, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='2gh2' size='340' side='right' caption='[[2gh2]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='2gh2' size='340' side='right' caption='[[2gh2]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2gh2]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Rattus_norvegicus Rattus norvegicus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GH2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2GH2 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2gh2]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GH2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2GH2 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=SO4:SULFATE+ION'>SO4</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=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b5h\|2b5h]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b5h\|2b5h]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cdo1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 ~~Rattus norvegicus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cdo1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cysteine_dioxygenase Cysteine dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.20 1.13.11.20] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cysteine_dioxygenase Cysteine dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.20 1.13.11.20] </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=2gh2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gh2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2gh2 RCSB], [http://www.ebi.ac.uk/pdbsum/2gh2 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=2gh2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gh2 OCA], [http://pdbe.org/2gh2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2gh2 RCSB], [http://www.ebi.ac.uk/pdbsum/2gh2 PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 27:		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 2gh2" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Buffalo rat]]
	[[Category: Cysteine dioxygenase]]		[[Category: Cysteine dioxygenase]]
-	[[Category: Rattus norvegicus]]
	[[Category: Karplus, P A]]		[[Category: Karplus, P A]]
	[[Category: Simmons, C R]]		[[Category: Simmons, C R]]

OCA at 09:05, 16 January 2015

2015-01-16T09:05:05Z

←Older revision		Revision as of 09:05, 16 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2gh2]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GH2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2GH2 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2gh2]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GH2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2GH2 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=SO4:SULFATE+ION'>SO4</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=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b5h\|2b5h]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b5h\|2b5h]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cdo1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Rattus norvegicus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cdo1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Rattus norvegicus])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cysteine_dioxygenase Cysteine dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.20 1.13.11.20] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cysteine_dioxygenase Cysteine dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.20 1.13.11.20] </span></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=2gh2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gh2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2gh2 RCSB], [http://www.ebi.ac.uk/pdbsum/2gh2 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=2gh2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gh2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2gh2 RCSB], [http://www.ebi.ac.uk/pdbsum/2gh2 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 36:		Line 36:
	[[Category: Cysteine dioxygenase]]		[[Category: Cysteine dioxygenase]]
	[[Category: Rattus norvegicus]]		[[Category: Rattus norvegicus]]
-	[[Category: Karplus, P A.]]	+	[[Category: Karplus, P A]]
-	[[Category: Simmons, C R.]]	+	[[Category: Simmons, C R]]
	[[Category: Stipanuk, M H]]		[[Category: Stipanuk, M H]]
	[[Category: Beta-sandwich]]		[[Category: Beta-sandwich]]

OCA at 10:35, 30 September 2014

2014-09-30T10:35:49Z

←Older revision		Revision as of 10:35, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2gh2.~~png~~\|~~left~~\|200px]]	+	==1.5 A Resolution R. Norvegicus Cysteine Dioxygenase Structure Crystallized in the Presence of Cysteine==
		+	<StructureSection load='2gh2' size='340' side='right' caption='[[2gh2]], [[Resolution\|resolution]] 1.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2gh2]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GH2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2GH2 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=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2b5h\|2b5h]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cdo1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Rattus norvegicus])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cysteine_dioxygenase Cysteine dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.20 1.13.11.20] </span></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=2gh2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gh2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2gh2 RCSB], [http://www.ebi.ac.uk/pdbsum/2gh2 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/gh/2gh2_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 ==
		+	Cysteine dioxygenase is a mononuclear iron-dependent enzyme responsible for the oxidation of cysteine with molecular oxygen to form cysteine sulfinate. This reaction commits cysteine to either catabolism to sulfate and pyruvate or the taurine biosynthetic pathway. Cysteine dioxygenase is a member of the cupin superfamily of proteins. The crystal structure of recombinant rat cysteine dioxygenase has been determined to 1.5-A resolution, and these results confirm the canonical cupin beta-sandwich fold and the rare cysteinyltyrosine intramolecular cross-link (between Cys(93) and Tyr(157)) seen in the recently reported murine cysteine dioxygenase structure. In contrast to the catalytically inactive mononuclear Ni(II) metallocenter present in the murine structure, crystallization of a catalytically competent preparation of rat cysteine dioxygenase revealed a novel tetrahedrally coordinated mononuclear iron center involving three histidines (His(86), His(88), and His(140)) and a water molecule. Attempts to acquire a structure with bound ligand using either cocrystallization or soaking crystals with cysteine revealed the formation of a mixed disulfide involving Cys(164) near the active site, which may explain previously observed substrate inhibition. This work provides a framework for understanding the molecular mechanisms involved in thiol dioxygenation and sets the stage for exploration of the chemistry of both the novel mononuclear iron center and the catalytic role of the cysteinyl-tyrosine linkage.

-	~~{{STRUCTURE_2gh2\| PDB=2gh2 \| SCENE= }}~~	+	Crystal structure of mammalian cysteine dioxygenase. A novel mononuclear iron center for cysteine thiol oxidation.,Simmons CR, Liu Q, Huang Q, Hao Q, Begley TP, Karplus PA, Stipanuk MH J Biol Chem. 2006 Jul 7;281(27):18723-33. Epub 2006 Apr 11. PMID:16611640<ref>PMID:16611640</ref>

-	~~===1~~.~~5 A Resolution R~~. ~~Norvegicus Cysteine Dioxygenase Structure Crystallized in the Presence~~ of ~~Cysteine===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_16611640}}~~	+	==See Also==
-		+	*[[Dioxygenase\|Dioxygenase]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~2gh2~~]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GH2 OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:016611640<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Cysteine dioxygenase]]		[[Category: Cysteine dioxygenase]]
	[[Category: Rattus norvegicus]]		[[Category: Rattus norvegicus]]

OCA: Protected "2gh2" [edit=sysop:move=sysop]

2013-01-07T12:25:18Z

Protected "2gh2" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:25, 7 January 2013

OCA at 12:25, 7 January 2013

2013-01-07T12:25:16Z

←Older revision		Revision as of 12:25, 7 January 2013
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-	{{Seed}}
	[[Image:2gh2.png\|left\|200px]]		[[Image:2gh2.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2gh2", 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_2gh2\| PDB=2gh2 \| SCENE= }}		{{STRUCTURE_2gh2\| PDB=2gh2 \| SCENE= }}

	===1.5 A Resolution R. Norvegicus Cysteine Dioxygenase Structure Crystallized in the Presence of Cysteine===		===1.5 A Resolution R. Norvegicus Cysteine Dioxygenase Structure Crystallized in the Presence of Cysteine===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_16611640}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 16611640 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_16611640}}		{{ABSTRACT_PUBMED_16611640}}

	==About this Structure==		==About this Structure==
-	~~2GH2~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GH2 OCA].	+	[[2gh2]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GH2 OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~16611640~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:016611640</ref><references group="xtra"/>
	[[Category: Cysteine dioxygenase]]		[[Category: Cysteine dioxygenase]]
	[[Category: Rattus norvegicus]]		[[Category: Rattus norvegicus]]
Line 32:		Line 20:
	[[Category: Cupin]]		[[Category: Cupin]]
	[[Category: Cysteinyl-tyrosine]]		[[Category: Cysteinyl-tyrosine]]
		+	[[Category: Oxidoreductase]]
	[[Category: Tetrahedral iron coordination]]		[[Category: Tetrahedral iron coordination]]
	[[Category: Thioether]]		[[Category: Thioether]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 06:28:49 2009''

OCA at 04:28, 18 February 2009

2009-02-18T04:28:50Z

←Older revision		Revision as of 04:28, 18 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2GH2 is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GH2 OCA].	+	2GH2 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GH2 OCA].

	==Reference==		==Reference==
-	Crystal structure of mammalian cysteine dioxygenase. A novel mononuclear iron center for cysteine thiol oxidation., Simmons CR, Liu Q, Huang Q, Hao Q, Begley TP, Karplus PA, Stipanuk MH, J Biol Chem. 2006 Jul 7;281(27):18723-33. Epub 2006 Apr 11. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/16611640 16611640]~~	+	<ref group="xtra">PMID:16611640</ref><references group="xtra"/>
	[[Category: Cysteine dioxygenase]]		[[Category: Cysteine dioxygenase]]
	[[Category: Rattus norvegicus]]		[[Category: Rattus norvegicus]]
-	[[Category: Single protein]]
	[[Category: Karplus, P A.]]		[[Category: Karplus, P A.]]
	[[Category: Simmons, C R.]]		[[Category: Simmons, C R.]]
Line 36:		Line 35:
	[[Category: Thioether]]		[[Category: Thioether]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Tue Jul 29 13~~:11:~~26 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 06:28:49 2009''

OCA at 10:11, 29 July 2008

2008-07-29T10:11:30Z

←Older revision		Revision as of 10:11, 29 July 2008
Line 1:		Line 1:
-	[[Image:2gh2.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:2gh2.png\|left\|200px]]

	<!--		<!--
Line 9:		Line 10:
	{{STRUCTURE_2gh2\| PDB=2gh2 \| SCENE= }}		{{STRUCTURE_2gh2\| PDB=2gh2 \| SCENE= }}

-	~~'''~~1.5 A Resolution R. Norvegicus Cysteine Dioxygenase Structure Crystallized in the Presence of Cysteine~~'''~~	+	===1.5 A Resolution R. Norvegicus Cysteine Dioxygenase Structure Crystallized in the Presence of Cysteine===


-	~~==Overview==~~	+	<!--
-	Cysteine dioxygenase is a mononuclear iron-dependent enzyme responsible for the oxidation of cysteine with molecular oxygen to form cysteine sulfinate. This reaction commits cysteine to either catabolism to sulfate and pyruvate or the taurine biosynthetic pathway. Cysteine dioxygenase is a member of the cupin superfamily of proteins. The ~~crystal structure of recombinant rat cysteine dioxygenase has been determined to 1.5-A resolution~~, ~~and these results confirm~~ the ~~canonical cupin beta-sandwich fold and~~ the ~~rare cysteinyltyrosine intramolecular cross-link~~ (~~between Cys(93) and Tyr(157)) seen in the recently reported murine cysteine dioxygenase structure~~. ~~In contrast to the catalytically inactive mononuclear Ni(II~~) ~~metallocenter present in the murine structure~~, crystallization of a catalytically competent preparation of rat cysteine dioxygenase revealed a novel tetrahedrally coordinated mononuclear iron center involving three histidines (His(86), His(88), and His(140)) and a water molecule. Attempts to acquire a structure with bound ligand using either cocrystallization or soaking crystals with cysteine revealed the ~~formation of a mixed disulfide involving Cys(164) near the active site, which may explain previously observed substrate inhibition~~. This work provides a framework for understanding the molecular mechanisms involved in thiol dioxygenation and sets the stage for exploration of the chemistry of both the novel mononuclear iron center and the catalytic role of the cysteinyl-~~tyrosine linkage.~~	+	The line below this paragraph, {{ABSTRACT_PUBMED_16611640}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 16611640 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_16611640}}

	==About this Structure==		==About this Structure==
Line 31:		Line 35:
	[[Category: Tetrahedral iron coordination]]		[[Category: Tetrahedral iron coordination]]
	[[Category: Thioether]]		[[Category: Thioether]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun May 4 05~~:05:58 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 13:11:26 2008''