2iba - Revision history

OCA at 08:52, 25 October 2023

2023-10-25T08:52:44Z

←Older revision		Revision as of 08:52, 25 October 2023
Line 3:		Line 3:
	<StructureSection load='2iba' size='340' side='right'caption='[[2iba]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='2iba' size='340' side='right'caption='[[2iba]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2iba]] 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=2IBA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2IBA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2iba]] 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=2IBA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2IBA 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>~~</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='~~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></td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b></td><td class="sblockDat"><div style='overflow: auto; max~~-~~height: 3em;~~'>~~[[1r51\|1r51]]~~</~~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=2iba FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iba OCA], [https://pdbe.org/2iba PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2iba RCSB], [https://www.ebi.ac.uk/pdbsum/2iba PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2iba 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=2iba FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iba OCA], [https://pdbe.org/2iba PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2iba RCSB], [https://www.ebi.ac.uk/pdbsum/2iba PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2iba 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: ~~Prange, T]]~~	+	[[Category: Colloc'h N]]
-	~~[[Category: Retailleau, P]]~~	+	[[Category: Prange T]]
-	~~[[Category: Santos, J Sopkova-de Oliveira]]~~	+	[[Category: Retailleau P]]
-	~~[[Category: H,~~ N ~~Colloc]]~~	+	[[Category: Sopkova-de Oliveira Santos J]]
-	~~[[Category: Oxidoreductase~~]]	+
-	[[Category: T~~-fold domain~~]]	+
-	[[Category: ~~Tetrameric enzyme~~]]	+
-	[[Category: ~~Uric acid degradation~~]]	+

OCA at 11:12, 31 March 2021

2021-03-31T11:12:19Z

←Older revision		Revision as of 11:12, 31 March 2021
Line 1:		Line 1:

	==Urate oxidase from Aspergillus flavus complexed with its inhibitor 8-azaxanthine==		==Urate oxidase from Aspergillus flavus complexed with its inhibitor 8-azaxanthine==
-	<StructureSection load='2iba' size='340' side='right' caption='[[2iba]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='2iba' size='340' side='right'caption='[[2iba]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2iba]] 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=2IBA OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2IBA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2iba]] 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=2IBA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2IBA 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></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></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">[[1r51\|1r51]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1r51\|1r51]]</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=2iba FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iba OCA], [~~http~~://pdbe.org/2iba PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2iba RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2iba PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2iba 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=2iba FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iba OCA], [https://pdbe.org/2iba PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2iba RCSB], [https://www.ebi.ac.uk/pdbsum/2iba PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2iba 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]]
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ib/2iba_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ib/2iba_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 32:		Line 32:
	</div>		</div>
	<div class="pdbe-citations 2iba" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2iba" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Urate Oxidase\|Urate Oxidase]]
	== References ==		== References ==
	<references/>		<references/>
Line 38:		Line 41:
	[[Category: Aspfl]]		[[Category: Aspfl]]
	[[Category: Factor independent urate hydroxylase]]		[[Category: Factor independent urate hydroxylase]]
		+	[[Category: Large Structures]]
	[[Category: Prange, T]]		[[Category: Prange, T]]
	[[Category: Retailleau, P]]		[[Category: Retailleau, P]]

OCA at 08:26, 18 October 2017

2017-10-18T08:26:08Z

←Older revision		Revision as of 08:26, 18 October 2017
Line 1:		Line 1:
		+
	==Urate oxidase from Aspergillus flavus complexed with its inhibitor 8-azaxanthine==		==Urate oxidase from Aspergillus flavus complexed with its inhibitor 8-azaxanthine==
	<StructureSection load='2iba' size='340' side='right' caption='[[2iba]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='2iba' size='340' side='right' caption='[[2iba]], [[Resolution\|resolution]] 1.50Å' 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=2iba FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iba OCA], [http://pdbe.org/2iba PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2iba RCSB], [http://www.ebi.ac.uk/pdbsum/2iba 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=2iba FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iba OCA], [http://pdbe.org/2iba PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2iba RCSB], [http://www.ebi.ac.uk/pdbsum/2iba PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2iba ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 31:		Line 32:
	</div>		</div>
	<div class="pdbe-citations 2iba" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2iba" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Urate Oxidase\|Urate Oxidase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 04:47, 7 February 2016

2016-02-07T04:47:49Z

←Older revision		Revision as of 04:47, 7 February 2016
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=2iba ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 21:59, 9 September 2015

2015-09-09T21:59:03Z

←Older revision		Revision as of 21:59, 9 September 2015
Line 2:		Line 2:
	<StructureSection load='2iba' size='340' side='right' caption='[[2iba]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='2iba' size='340' side='right' caption='[[2iba]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2iba]] 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=2IBA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2IBA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2iba]] 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=2IBA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2IBA 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></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></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">[[1r51\|1r51]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1r51\|1r51]]</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=2iba FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iba OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2iba RCSB], [http://www.ebi.ac.uk/pdbsum/2iba 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=2iba FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iba OCA], [http://pdbe.org/2iba PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2iba RCSB], [http://www.ebi.ac.uk/pdbsum/2iba PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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 2iba" 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: Prange, T]]		[[Category: Prange, T]]
	[[Category: Retailleau, P]]		[[Category: Retailleau, P]]

OCA at 07:58, 24 December 2014

2014-12-24T07:58:02Z

←Older revision		Revision as of 07:58, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2iba]] 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=2IBA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2IBA FirstGlance]. <br>		<table><tr><td colspan='2'>[[2iba]] 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=2IBA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2IBA 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><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></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">[[1r51\|1r51]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1r51\|1r51]]</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=2iba FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iba OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2iba RCSB], [http://www.ebi.ac.uk/pdbsum/2iba 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=2iba FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iba OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2iba RCSB], [http://www.ebi.ac.uk/pdbsum/2iba 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: Prange, T.]]	+	[[Category: Prange, T]]
-	[[Category: Retailleau, P.]]	+	[[Category: Retailleau, P]]
-	[[Category: Santos, J Sopkova-de Oliveira.]]	+	[[Category: Santos, J Sopkova-de Oliveira]]
-	[[Category: H, N Colloc.]]	+	[[Category: H, N Colloc]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
	[[Category: T-fold domain]]		[[Category: T-fold domain]]
	[[Category: Tetrameric enzyme]]		[[Category: Tetrameric enzyme]]
	[[Category: Uric acid degradation]]		[[Category: Uric acid degradation]]

OCA at 02:59, 29 September 2014

2014-09-29T02:59:44Z

←Older revision		Revision as of 02:59, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2iba.~~png~~\|~~left~~\|200px]]	+	==Urate oxidase from Aspergillus flavus complexed with its inhibitor 8-azaxanthine==
		+	<StructureSection load='2iba' size='340' side='right' caption='[[2iba]], [[Resolution\|resolution]] 1.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2iba]] 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=2IBA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2IBA 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><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">[[1r51\|1r51]]</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=2iba FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2iba OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2iba RCSB], [http://www.ebi.ac.uk/pdbsum/2iba 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/ib/2iba_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 ==
		+	In contrast with most inhalational anesthetics, the anesthetic gases xenon (Xe) and nitrous oxide (N(2)O) act by blocking the N-methyl-d-aspartate (NMDA) receptor. Using x-ray crystallography, we examined the binding characteristics of these two gases on two soluble proteins as structural models: urate oxidase, which is a prototype of a variety of intracellular globular proteins, and annexin V, which has structural and functional characteristics that allow it to be considered as a prototype for the NMDA receptor. The structure of these proteins complexed with Xe and N(2)O were determined. One N(2)O molecule or one Xe atom binds to the same main site in both proteins. A second subsite is observed for N(2)O in each case. The gas-binding sites are always hydrophobic flexible cavities buried within the monomer. Comparison of the effects of Xe and N(2)O on urate oxidase and annexin V reveals an interesting relationship with the in vivo pharmacological effects of these gases, the ratio of the gas-binding sites' volume expansion and the ratio of the narcotic potency being similar. Given these data, we propose that alterations of cytosolic globular protein functions by general anesthetics would be responsible for the early stages of anesthesia such as amnesia and hypnosis and that additional alterations of ion-channel membrane receptor functions are required for deeper effects that progress to "surgical" anesthesia.

-	~~{{STRUCTURE_2iba\| PDB=2iba \| SCENE= }}~~	+	Protein crystallography under xenon and nitrous oxide pressure: comparison with in vivo pharmacology studies and implications for the mechanism of inhaled anesthetic action.,Colloc'h N, Sopkova-de Oliveira Santos J, Retailleau P, Vivares D, Bonnete F, Langlois d'Estainto B, Gallois B, Brisson A, Risso JJ, Lemaire M, Prange T, Abraini JH Biophys J. 2007 Jan 1;92(1):217-24. Epub 2006 Oct 6. PMID:17028130<ref>PMID:17028130</ref>

-	~~===Urate oxidase from Aspergillus flavus complexed with its inhibitor 8-azaxanthine===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_17028130}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2iba]] 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=2IBA OCA].~~	+

	==See Also==		==See Also==
	*[[Urate Oxidase\|Urate Oxidase]]		*[[Urate Oxidase\|Urate Oxidase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:017028130<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Aspergillus flavus]]		[[Category: Aspergillus flavus]]
	[[Category: Urate oxidase]]		[[Category: Urate oxidase]]

OCA at 05:37, 20 October 2012

2012-10-20T05:37:07Z

←Older revision		Revision as of 05:37, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2iba]] 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=2IBA OCA].	+	[[2iba]] 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=2IBA OCA].

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

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

2012-07-25T10:38:41Z

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

←Older revision

Revision as of 10:38, 25 July 2012

OCA at 10:38, 25 July 2012

2012-07-25T10:38:40Z

←Older revision		Revision as of 10:38, 25 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2iba.png\|left\|200px]]		[[Image:2iba.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2iba", 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_2iba\| PDB=2iba \| SCENE= }}		{{STRUCTURE_2iba\| PDB=2iba \| SCENE= }}

	===Urate oxidase from Aspergillus flavus complexed with its inhibitor 8-azaxanthine===		===Urate oxidase from Aspergillus flavus complexed with its inhibitor 8-azaxanthine===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17028130}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17028130 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_17028130}}		{{ABSTRACT_PUBMED_17028130}}

	==About this Structure==		==About this Structure==
-	~~2IBA~~ is a 1 chain 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=2IBA OCA].	+	[[2iba]] 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=2IBA OCA].
		+
		+	==See Also==
		+	*[[Urate Oxidase\|Urate Oxidase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~17028130~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017028130</ref><references group="xtra"/>
	[[Category: Aspergillus flavus]]		[[Category: Aspergillus flavus]]
	[[Category: Urate oxidase]]		[[Category: Urate oxidase]]
Line 30:		Line 21:
	[[Category: Santos, J Sopkova-de Oliveira.]]		[[Category: Santos, J Sopkova-de Oliveira.]]
	[[Category: H, N Colloc.]]		[[Category: H, N Colloc.]]
		+	[[Category: Oxidoreductase]]
	[[Category: T-fold domain]]		[[Category: T-fold domain]]
	[[Category: Tetrameric enzyme]]		[[Category: Tetrameric enzyme]]
	[[Category: Uric acid degradation]]		[[Category: Uric acid degradation]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 11:25:40 2009''