2zka - Revision history

OCA at 13:40, 1 November 2023

2023-11-01T13:40:47Z

←Older revision		Revision as of 13:40, 1 November 2023
Line 3:		Line 3:
	<StructureSection load='2zka' size='340' side='right'caption='[[2zka]], [[Resolution\|resolution]] 1.61Å' scene=''>		<StructureSection load='2zka' size='340' side='right'caption='[[2zka]], [[Resolution\|resolution]] 1.61Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zka]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Aspfl Aspfl~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZKA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZKA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zka]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Aspergillus_flavus Aspergillus flavus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZKA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZKA FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=AZA:8~~-~~AZAXANTHINE'>AZA</scene>~~, ~~<scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</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]] 1.61Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=AZA:8-AZAXANTHINE'>AZA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene></td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b></td><td class="sblockDat"><div style='overflow: auto; max~~-~~height: 3em;~~'>~~[[2zkb\|2zkb]]~~</~~div~~><~~/td></tr>~~	+
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></~~td><td class="sblockDat"~~>~~uaZ~~, ~~uox ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5059 ASPFL])~~<~~/td></tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[https://en.wikipedia.org/wiki/Factor_independent_urate_hydroxylase Factor independent urate hydroxylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.3.3 1.7.3.3]~~ </~~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=2zka FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zka OCA], [https://pdbe.org/2zka PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zka RCSB], [https://www.ebi.ac.uk/pdbsum/2zka PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zka 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=2zka FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zka OCA], [https://pdbe.org/2zka PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zka RCSB], [https://www.ebi.ac.uk/pdbsum/2zka PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zka ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/URIC_ASPFL URIC_ASPFL]] Catalyzes the oxidation of uric acid to 5-hydroxyisourate, which is further processed to form (S)-allantoin.	+	[https://www.uniprot.org/uniprot/URIC_ASPFL URIC_ASPFL] Catalyzes the oxidation of uric acid to 5-hydroxyisourate, which is further processed to form (S)-allantoin.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 31:

	==See Also==		==See Also==
-	*[[Urate ~~Oxidase~~\|Urate ~~Oxidase~~]]	+	*[[Urate oxidase 3D structures\|Urate oxidase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Aspfl]]~~	+	[[Category: Aspergillus flavus]]
-	~~[[Category: Factor independent urate hydroxylase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Abraini~~, J H~~]]	+	[[Category: Abraini JH]]
-	[[Category: Chiadmi, M]]	+	[[Category: Chiadmi M]]
-	[[Category: ~~Gabison, L]]~~	+	[[Category: Colloc'h N]]
-	~~[[Category: Prange, T]]~~	+	[[Category: Gabison L]]
-	~~[[Category: H,~~ N ~~Colloc~~]]	+	[[Category: Prange T]]
-	[[Category: ~~Acetylation]]~~	+
-	~~[[Category: Gaz-protein complex]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Peroxisome]]~~	+
-	~~[[Category: Purine metabolism~~]]	+
-	[[Category: T~~-fold domaun]]~~	+
-	~~[[Category: Tetramer]]~~	+
-	~~[[Category: Uric acid degradation~~]]	+

OCA at 17:31, 15 December 2021

2021-12-15T17:31:51Z

←Older revision		Revision as of 17:31, 15 December 2021
Line 1:		Line 1:

	==Urate oxidase complexed with 8-azaxanthine under 1.0 MPa oxygen pressure==		==Urate oxidase complexed with 8-azaxanthine under 1.0 MPa oxygen pressure==
-	<StructureSection load='2zka' size='340' side='right' caption='[[2zka]], [[Resolution\|resolution]] 1.61Å' scene=''>	+	<StructureSection load='2zka' size='340' side='right'caption='[[2zka]], [[Resolution\|resolution]] 1.61Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zka]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Aspfl Aspfl]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZKA OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2ZKA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zka]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Aspfl Aspfl]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZKA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZKA FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AZA:8-AZAXANTHINE'>AZA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AZA:8-AZAXANTHINE'>AZA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zkb\|2zkb]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2zkb\|2zkb]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">uaZ, uox ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5059 ASPFL])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">uaZ, uox ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5059 ASPFL])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Factor_independent_urate_hydroxylase Factor independent urate hydroxylase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.3.3 1.7.3.3] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Factor_independent_urate_hydroxylase Factor independent urate hydroxylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.3.3 1.7.3.3] </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=2zka FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zka OCA], [~~http~~://pdbe.org/2zka PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2zka RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2zka PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2zka 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=2zka FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zka OCA], [https://pdbe.org/2zka PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zka RCSB], [https://www.ebi.ac.uk/pdbsum/2zka PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zka ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/URIC_ASPFL URIC_ASPFL]] Catalyzes the oxidation of uric acid to 5-hydroxyisourate, which is further processed to form (S)-allantoin.	+	[[https://www.uniprot.org/uniprot/URIC_ASPFL URIC_ASPFL]] Catalyzes the oxidation of uric acid to 5-hydroxyisourate, which is further processed to form (S)-allantoin.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 41:		Line 41:
	[[Category: Aspfl]]		[[Category: Aspfl]]
	[[Category: Factor independent urate hydroxylase]]		[[Category: Factor independent urate hydroxylase]]
		+	[[Category: Large Structures]]
	[[Category: Abraini, J H]]		[[Category: Abraini, J H]]
	[[Category: Chiadmi, M]]		[[Category: Chiadmi, M]]

OCA at 07:03, 18 October 2018

2018-10-18T07:03:29Z

←Older revision		Revision as of 07:03, 18 October 2018
Line 1:		Line 1:
		+
	==Urate oxidase complexed with 8-azaxanthine under 1.0 MPa oxygen pressure==		==Urate oxidase complexed with 8-azaxanthine under 1.0 MPa oxygen pressure==
	<StructureSection load='2zka' size='340' side='right' caption='[[2zka]], [[Resolution\|resolution]] 1.61Å' scene=''>		<StructureSection load='2zka' size='340' side='right' caption='[[2zka]], [[Resolution\|resolution]] 1.61Å' scene=''>
Line 8:		Line 9:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">uaZ, uox ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5059 ASPFL])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">uaZ, uox ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5059 ASPFL])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Factor_independent_urate_hydroxylase Factor independent urate hydroxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.3.3 1.7.3.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Factor_independent_urate_hydroxylase Factor independent urate hydroxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.3.3 1.7.3.3] </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=2zka FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zka OCA], [http://pdbe.org/2zka PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zka RCSB], [http://www.ebi.ac.uk/pdbsum/2zka 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=2zka FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zka OCA], [http://pdbe.org/2zka PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zka RCSB], [http://www.ebi.ac.uk/pdbsum/2zka PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2zka ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 16:		Line 17:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zk/2zka_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zk/2zka_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 45:		Line 46:
	[[Category: Prange, T]]		[[Category: Prange, T]]
	[[Category: H, N Colloc]]		[[Category: H, N Colloc]]
		+	[[Category: Acetylation]]
	[[Category: Gaz-protein complex]]		[[Category: Gaz-protein complex]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

OCA at 18:37, 9 February 2016

2016-02-09T18:37:05Z

←Older revision		Revision as of 18:37, 9 February 2016
Line 2:		Line 2:
	<StructureSection load='2zka' size='340' side='right' caption='[[2zka]], [[Resolution\|resolution]] 1.61Å' scene=''>		<StructureSection load='2zka' size='340' side='right' caption='[[2zka]], [[Resolution\|resolution]] 1.61Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2zka]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Aspergillus_flavus Aspergillus flavus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZKA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZKA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2zka]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspfl Aspfl]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZKA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZKA FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AZA:8-AZAXANTHINE'>AZA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AZA:8-AZAXANTHINE'>AZA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zkb\|2zkb]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zkb\|2zkb]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">uaZ, uox ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5059 ~~Aspergillus flavus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">uaZ, uox ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5059 ASPFL])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/~~Urate_oxidase Urate oxidase~~], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.3.3 1.7.3.3] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Factor_independent_urate_hydroxylase Factor independent urate hydroxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.3.3 1.7.3.3] </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=2zka FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zka OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zka RCSB], [http://www.ebi.ac.uk/pdbsum/2zka 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=2zka FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zka OCA], [http://pdbe.org/2zka PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2zka RCSB], [http://www.ebi.ac.uk/pdbsum/2zka PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 20:		Line 20:
	<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=2zka ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 30:		Line 30:
	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 2zka" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 37:		Line 38:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Aspergillus flavus~~]]	+	[[Category: Aspfl]]
-	[[Category: ~~Urate oxidase~~]]	+	[[Category: Factor independent urate hydroxylase]]
	[[Category: Abraini, J H]]		[[Category: Abraini, J H]]
	[[Category: Chiadmi, M]]		[[Category: Chiadmi, M]]

OCA at 08:43, 25 December 2014

2014-12-25T08:43:52Z

←Older revision		Revision as of 08:43, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2zka]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspergillus_flavus Aspergillus flavus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZKA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZKA FirstGlance]. <br>		<table><tr><td colspan='2'>[[2zka]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspergillus_flavus Aspergillus flavus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZKA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZKA FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AZA:8-AZAXANTHINE'>AZA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AZA:8-AZAXANTHINE'>AZA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zkb\|2zkb]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zkb\|2zkb]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">uaZ, uox ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5059 Aspergillus flavus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">uaZ, uox ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5059 Aspergillus flavus])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Urate_oxidase Urate oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.3.3 1.7.3.3] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Urate_oxidase Urate oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.3.3 1.7.3.3] </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=2zka FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zka OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zka RCSB], [http://www.ebi.ac.uk/pdbsum/2zka 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=2zka FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zka OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zka RCSB], [http://www.ebi.ac.uk/pdbsum/2zka PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/URIC_ASPFL URIC_ASPFL]] Catalyzes the oxidation of uric acid to 5-hydroxyisourate, which is further processed to form (S)-allantoin.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 37:		Line 39:
	[[Category: Aspergillus flavus]]		[[Category: Aspergillus flavus]]
	[[Category: Urate oxidase]]		[[Category: Urate oxidase]]
-	[[Category: Abraini, J H.]]	+	[[Category: Abraini, J H]]
-	[[Category: Chiadmi, M.]]	+	[[Category: Chiadmi, M]]
-	[[Category: Gabison, L.]]	+	[[Category: Gabison, L]]
-	[[Category: Prange, T.]]	+	[[Category: Prange, T]]
-	[[Category: H, N Colloc.]]	+	[[Category: H, N Colloc]]
	[[Category: Gaz-protein complex]]		[[Category: Gaz-protein complex]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

OCA at 09:43, 29 September 2014

2014-09-29T09:43:37Z

←Older revision		Revision as of 09:43, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2zka.~~png~~\|~~left~~\|200px]]	+	==Urate oxidase complexed with 8-azaxanthine under 1.0 MPa oxygen pressure==
		+	<StructureSection load='2zka' size='340' side='right' caption='[[2zka]], [[Resolution\|resolution]] 1.61Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2zka]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspergillus_flavus Aspergillus flavus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZKA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZKA FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AZA:8-AZAXANTHINE'>AZA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2zkb\|2zkb]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">uaZ, uox ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5059 Aspergillus flavus])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Urate_oxidase Urate oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.7.3.3 1.7.3.3] </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=2zka FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zka OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zka RCSB], [http://www.ebi.ac.uk/pdbsum/2zka 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/zk/2zka_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The localization of dioxygen sites in oxygen-binding proteins is a nontrivial experimental task and is often suggested through indirect methods such as using xenon or halide anions as oxygen probes. In this study, a straightforward method based on x-ray crystallography under high pressure of pure oxygen has been developed. An application is given on urate oxidase (UOX), a cofactorless enzyme that catalyzes the oxidation of uric acid to 5-hydroxyisourate in the presence of dioxygen. UOX crystals in complex with a competitive inhibitor of its natural substrate are submitted to an increasing pressure of 1.0, 2.5, or 4.0 MPa of gaseous oxygen. The results clearly show that dioxygen binds within the active site at a location where a water molecule is usually observed but does not bind in the already characterized specific hydrophobic pocket of xenon. Moreover, crystallizing UOX in the presence of a large excess of chloride (NaCl) shows that one chloride ion goes at the same location as the oxygen. The dioxygen hydrophilic environment (an asparagine, a histidine, and a threonine residues), its absence within the xenon binding site, and its location identical to a water molecule or a chloride ion suggest that the dioxygen site is mainly polar. The implication of the dioxygen location on the mechanism is discussed with respect to the experimentally suggested transient intermediates during the reaction cascade.

-	~~{{STRUCTURE_2zka\| PDB=2zka \| SCENE= }}~~	+	Oxygen pressurized X-ray crystallography: probing the dioxygen binding site in cofactorless urate oxidase and implications for its catalytic mechanism.,Colloc'h N, Gabison L, Monard G, Altarsha M, Chiadmi M, Marassio G, Sopkova-de Oliveira Santos J, El Hajji M, Castro B, Abraini JH, Prange T Biophys J. 2008 Sep;95(5):2415-22. Epub 2008 Mar 28. PMID:18375516<ref>PMID:18375516</ref>

-	~~===Urate oxidase complexed with 8-azaxanthine under 1.0 MPa oxygen pressure===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18375516}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2zka]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Aspergillus_flavus Aspergillus flavus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2ZKA OCA].~~	+

	==See Also==		==See Also==
	*[[Urate Oxidase\|Urate Oxidase]]		*[[Urate Oxidase\|Urate Oxidase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:018375516<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Aspergillus flavus]]		[[Category: Aspergillus flavus]]
	[[Category: Urate oxidase]]		[[Category: Urate oxidase]]

OCA at 14:45, 20 October 2012

2012-10-20T14:45:29Z

←Older revision		Revision as of 14:45, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2zka]] is a 1 chain structure ~~of [[Urate Oxidase]]~~ with sequence from [http://en.wikipedia.org/wiki/Aspergillus_flavus Aspergillus flavus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZKA OCA].	+	[[2zka]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspergillus_flavus Aspergillus flavus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZKA OCA].

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

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

2012-07-26T16:09:06Z

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

←Older revision

Revision as of 16:09, 26 July 2012

OCA at 16:09, 26 July 2012

2012-07-26T16:09:04Z

←Older revision		Revision as of 16:09, 26 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2zka.png\|left\|200px]]		[[Image:2zka.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2zka", 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_2zka\| PDB=2zka \| SCENE= }}		{{STRUCTURE_2zka\| PDB=2zka \| SCENE= }}

	===Urate oxidase complexed with 8-azaxanthine under 1.0 MPa oxygen pressure===		===Urate oxidase complexed with 8-azaxanthine under 1.0 MPa oxygen pressure===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18375516}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18375516 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18375516}}		{{ABSTRACT_PUBMED_18375516}}

	==About this Structure==		==About this Structure==
-	~~2ZKA~~ is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspergillus_flavus Aspergillus flavus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZKA OCA].	+	[[2zka]] is a 1 chain structure of [[Urate Oxidase]] with sequence from [http://en.wikipedia.org/wiki/Aspergillus_flavus Aspergillus flavus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZKA OCA].
		+
		+	==See Also==
		+	*[[Urate Oxidase\|Urate Oxidase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18375516~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018375516</ref><references group="xtra"/>
	[[Category: Aspergillus flavus]]		[[Category: Aspergillus flavus]]
	[[Category: Urate oxidase]]		[[Category: Urate oxidase]]
Line 31:		Line 22:
	[[Category: Prange, T.]]		[[Category: Prange, T.]]
	[[Category: H, N Colloc.]]		[[Category: H, N Colloc.]]
-	[[Category: Acetylation]]
	[[Category: Gaz-protein complex]]		[[Category: Gaz-protein complex]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
Line 39:		Line 29:
	[[Category: Tetramer]]		[[Category: Tetramer]]
	[[Category: Uric acid degradation]]		[[Category: Uric acid degradation]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 22 11:35:07 2010''

OCA at 08:26, 22 September 2010

2010-09-22T08:26:08Z

←Older revision		Revision as of 08:26, 22 September 2010
Line 20:		Line 20:

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

	==Reference==		==Reference==
-	Oxygen pressurized X-ray crystallography: probing the dioxygen binding site in cofactorless urate oxidase and implications for its catalytic mechanism., Colloc'h N, Gabison L, Monard G, Altarsha M, Chiadmi M, Marassio G, Sopkova-de Oliveira Santos J, El Hajji M, Castro B, Abraini JH, Prange T, Biophys J. 2008 Sep;95(5):2415-22. Epub 2008 Mar 28. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18375516 18375516]~~	+	<ref group="xtra">PMID:18375516</ref><references group="xtra"/>
	[[Category: Aspergillus flavus]]		[[Category: Aspergillus flavus]]
-	[[Category: Single protein]]
	[[Category: Urate oxidase]]		[[Category: Urate oxidase]]
-	[[Category: ~~Pdbx_ordinal=~~, ~~<PDBx~~:~~audit_author~~.]]	+	[[Category: Abraini, J H.]]
		+	[[Category: Chiadmi, M.]]
		+	[[Category: Gabison, L.]]
		+	[[Category: Prange, T.]]
		+	[[Category: H, N Colloc.]]
	[[Category: Acetylation]]		[[Category: Acetylation]]
	[[Category: Gaz-protein complex]]		[[Category: Gaz-protein complex]]
Line 37:		Line 40:
	[[Category: Uric acid degradation]]		[[Category: Uric acid degradation]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Mar 18 20~~:13:~~59 2009~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 22 11:35:07 2010''