1v51 - Revision history

OCA at 07:46, 25 October 2023

OCA — Wed, 25 Oct 2023 07:46:59 GMT

←Older revision		Revision as of 07:46, 25 October 2023
Line 3:		Line 3:
	<StructureSection load='1v51' size='340' side='right'caption='[[1v51]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='1v51' size='340' side='right'caption='[[1v51]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1v51]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Alcfa Alcfa~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V51 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1V51 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1v51]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Alcaligenes_faecalis Alcaligenes faecalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V51 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1V51 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>~~, ~~<scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 1.6Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[1m7j\|1m7j]], [[1v4y\|1v4y]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>DA1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~511 ALCFA])</td~~><~~/tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/N-acyl-D-amino-acid_deacylase N-acyl-D-amino-acid deacylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.81 3.5.1.81]~~ </~~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=1v51 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v51 OCA], [https://pdbe.org/1v51 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1v51 RCSB], [https://www.ebi.ac.uk/pdbsum/1v51 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1v51 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=1v51 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v51 OCA], [https://pdbe.org/1v51 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1v51 RCSB], [https://www.ebi.ac.uk/pdbsum/1v51 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1v51 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q9AGH8_ALCFA Q9AGH8_ALCFA]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 37:		Line 37:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Alcfa~~]]	+	[[Category: Alcaligenes faecalis]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: N-acyl-D-amino-acid deacylase]]~~	+	[[Category: Chou LY]]
-	[[Category: Chou~~, L Y~~]]	+	[[Category: Lai WL]]
-	[[Category: Lai~~, W L~~]]	+	[[Category: Liaw SH]]
-	[[Category: Liaw~~, S H~~]]	+	[[Category: Ting CY]]
-	[[Category: Ting~~, C Y~~]]	+	[[Category: Tsai YC]]
-	[[Category: Tsai~~, Y C]]~~	+
-	~~[[Category: Beta barrel]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Insertion]]~~	+
-	~~[[Category: Tim barrel~~]]	+

OCA at 15:24, 3 March 2021

OCA — Wed, 03 Mar 2021 15:24:35 GMT

←Older revision		Revision as of 15:24, 3 March 2021
Line 1:		Line 1:

	==The functional role of the binuclear metal center in D-aminoacylase. One-metal activation and second-metal attenuation==		==The functional role of the binuclear metal center in D-aminoacylase. One-metal activation and second-metal attenuation==
-	<StructureSection load='1v51' size='340' side='right' caption='[[1v51]], [[Resolution\|resolution]] 1.60Å' scene=''>	+	<StructureSection load='1v51' size='340' side='right'caption='[[1v51]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1v51]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Alcfa Alcfa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V51 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1V51 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1v51]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Alcfa Alcfa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V51 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1V51 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1m7j\|1m7j]], [[1v4y\|1v4y]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1m7j\|1m7j]], [[1v4y\|1v4y]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DA1 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=511 ALCFA])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DA1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=511 ALCFA])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/N-acyl-D-amino-acid_deacylase N-acyl-D-amino-acid deacylase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.81 3.5.1.81] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/N-acyl-D-amino-acid_deacylase N-acyl-D-amino-acid deacylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.81 3.5.1.81] </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=1v51 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v51 OCA], [~~http~~://pdbe.org/1v51 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1v51 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1v51 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1v51 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=1v51 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v51 OCA], [https://pdbe.org/1v51 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1v51 RCSB], [https://www.ebi.ac.uk/pdbsum/1v51 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1v51 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 31:		Line 31:

	==See Also==		==See Also==
-	*[[~~D-aminoacylase~~\|~~D-aminoacylase~~]]	+	*[[Aminoacylase\|Aminoacylase]]
		+	*[[Aminoacylase 3D structures\|Aminoacylase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 37:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Alcfa]]		[[Category: Alcfa]]
		+	[[Category: Large Structures]]
	[[Category: N-acyl-D-amino-acid deacylase]]		[[Category: N-acyl-D-amino-acid deacylase]]
	[[Category: Chou, L Y]]		[[Category: Chou, L Y]]

OCA at 07:37, 28 March 2018

OCA — Wed, 28 Mar 2018 07:37:38 GMT

←Older revision		Revision as of 07:37, 28 March 2018
Line 1:		Line 1:
		+
	==The functional role of the binuclear metal center in D-aminoacylase. One-metal activation and second-metal attenuation==		==The functional role of the binuclear metal center in D-aminoacylase. One-metal activation and second-metal attenuation==
	<StructureSection load='1v51' size='340' side='right' caption='[[1v51]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='1v51' size='340' side='right' caption='[[1v51]], [[Resolution\|resolution]] 1.60Å' scene=''>
Line 7:		Line 8:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DA1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=511 ALCFA])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DA1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=511 ALCFA])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/N-acyl-D-amino-acid_deacylase N-acyl-D-amino-acid deacylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.81 3.5.1.81] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/N-acyl-D-amino-acid_deacylase N-acyl-D-amino-acid deacylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.81 3.5.1.81] </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=1v51 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v51 OCA], [http://pdbe.org/1v51 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1v51 RCSB], [http://www.ebi.ac.uk/pdbsum/1v51 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=1v51 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v51 OCA], [http://pdbe.org/1v51 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1v51 RCSB], [http://www.ebi.ac.uk/pdbsum/1v51 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1v51 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/v5/1v51_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/v5/1v51_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=1v51 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 22:52, 11 September 2015

OCA — Fri, 11 Sep 2015 22:52:49 GMT

←Older revision		Revision as of 22:52, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1v51' size='340' side='right' caption='[[1v51]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='1v51' size='340' side='right' caption='[[1v51]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1v51]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Alcaligenes_faecalis Alcaligenes faecalis~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V51 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1V51 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1v51]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Alcfa Alcfa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V51 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1V51 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1m7j\|1m7j]], [[1v4y\|1v4y]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1m7j\|1m7j]], [[1v4y\|1v4y]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DA1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=511 ~~Alcaligenes faecalis~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DA1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=511 ALCFA])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/N-acyl-D-amino-acid_deacylase N-acyl-D-amino-acid deacylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.81 3.5.1.81] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/N-acyl-D-amino-acid_deacylase N-acyl-D-amino-acid deacylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.81 3.5.1.81] </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=1v51 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v51 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1v51 RCSB], [http://www.ebi.ac.uk/pdbsum/1v51 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=1v51 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v51 OCA], [http://pdbe.org/1v51 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1v51 RCSB], [http://www.ebi.ac.uk/pdbsum/1v51 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 1v51" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Alcaligenes faecalis~~]]	+	[[Category: Alcfa]]
	[[Category: N-acyl-D-amino-acid deacylase]]		[[Category: N-acyl-D-amino-acid deacylase]]
	[[Category: Chou, L Y]]		[[Category: Chou, L Y]]

OCA at 13:25, 6 January 2015

OCA — Tue, 06 Jan 2015 13:25:31 GMT

←Older revision		Revision as of 13:25, 6 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1v51]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Alcaligenes_faecalis Alcaligenes faecalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V51 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1V51 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1v51]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Alcaligenes_faecalis Alcaligenes faecalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V51 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1V51 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1m7j\|1m7j]], [[1v4y\|1v4y]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1m7j\|1m7j]], [[1v4y\|1v4y]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DA1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=511 Alcaligenes faecalis])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DA1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=511 Alcaligenes faecalis])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/N-acyl-D-amino-acid_deacylase N-acyl-D-amino-acid deacylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.81 3.5.1.81] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/N-acyl-D-amino-acid_deacylase N-acyl-D-amino-acid deacylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.81 3.5.1.81] </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=1v51 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v51 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1v51 RCSB], [http://www.ebi.ac.uk/pdbsum/1v51 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=1v51 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v51 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1v51 RCSB], [http://www.ebi.ac.uk/pdbsum/1v51 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: Alcaligenes faecalis]]		[[Category: Alcaligenes faecalis]]
	[[Category: N-acyl-D-amino-acid deacylase]]		[[Category: N-acyl-D-amino-acid deacylase]]
-	[[Category: Chou, L Y.]]	+	[[Category: Chou, L Y]]
-	[[Category: Lai, W L.]]	+	[[Category: Lai, W L]]
-	[[Category: Liaw, S H.]]	+	[[Category: Liaw, S H]]
-	[[Category: Ting, C Y.]]	+	[[Category: Ting, C Y]]
-	[[Category: Tsai, Y C.]]	+	[[Category: Tsai, Y C]]
	[[Category: Beta barrel]]		[[Category: Beta barrel]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Insertion]]		[[Category: Insertion]]
	[[Category: Tim barrel]]		[[Category: Tim barrel]]

OCA at 19:52, 29 September 2014

OCA — Mon, 29 Sep 2014 19:52:26 GMT

←Older revision		Revision as of 19:52, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1v51.~~png~~\|~~left~~\|200px]]	+	==The functional role of the binuclear metal center in D-aminoacylase. One-metal activation and second-metal attenuation==
		+	<StructureSection load='1v51' size='340' side='right' caption='[[1v51]], [[Resolution\|resolution]] 1.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1v51]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Alcaligenes_faecalis Alcaligenes faecalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V51 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1V51 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1m7j\|1m7j]], [[1v4y\|1v4y]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DA1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=511 Alcaligenes faecalis])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/N-acyl-D-amino-acid_deacylase N-acyl-D-amino-acid deacylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.81 3.5.1.81] </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=1v51 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v51 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1v51 RCSB], [http://www.ebi.ac.uk/pdbsum/1v51 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/v5/1v51_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 ==
		+	Our structural comparison of the TIM barrel metal-dependent hydrolase(-like) superfamily suggests a classification of their divergent active sites into four types: alphabeta-binuclear, alpha-mononuclear, beta-mononuclear, and metal-independent subsets. The d-aminoacylase from Alcaligenes faecalis DA1 belongs to the beta-mononuclear subset due to the fact that the catalytically essential Zn(2+) is tightly bound at the beta site with coordination by Cys(96), His(220), and His(250), even though it possesses a binuclear active site with a weak alpha binding site. Additional Zn(2+), Cd(2+), and Cu(2+), but not Ni(2+), Co(2+), Mg(2+), Mn(2+), and Ca(2+), can inhibit enzyme activity. Crystal structures of these metal derivatives show that Zn(2+) and Cd(2+) bind at the alpha(1) subsite ligated by His(67), His(69), and Asp(366), while Cu(2+) at the alpha(2) subsite is chelated by His(67), His(69) and Cys(96). Unexpectedly, the crystal structure of the inactive H220A mutant displays that the endogenous Zn(2+) shifts to the alpha(3) subsite coordinated by His(67), His(69), Cys(96), and Asp(366), revealing that elimination of the beta site changes the coordination geometry of the alpha ion with an enhanced affinity. Kinetic studies of the metal ligand mutants such as C96D indicate the uniqueness of the unusual bridging cysteine and its involvement in catalysis. Therefore, the two metal-binding sites in the d-aminoacylase are interactive with partially mutual exclusion, thus resulting in widely different affinities for the activation/attenuation mechanism, in which the enzyme is activated by the metal ion at the beta site, but inhibited by the subsequent binding of the second ion at the alpha site.

-	~~{{STRUCTURE_1v51\| PDB=1v51 \| SCENE= }}~~	+	The functional role of the binuclear metal center in D-aminoacylase: one-metal activation and second-metal attenuation.,Lai WL, Chou LY, Ting CY, Kirby R, Tsai YC, Wang AH, Liaw SH J Biol Chem. 2004 Apr 2;279(14):13962-7. Epub 2004 Jan 21. PMID:14736882<ref>PMID:14736882</ref>

-	~~===The functional role~~ of the ~~binuclear metal center in D-aminoacylase~~. ~~One-metal activation and second-metal attenuation===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_14736882}}~~	+	==See Also==
-		+	*[[D-aminoacylase\|D-aminoacylase]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~1v51~~]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Alcaligenes_faecalis Alcaligenes faecalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V51 OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:014736882<~~/~~ref~~><~~ref group="xtra">PMID:012454005</ref><ref group="xtra">PMID:012381838</ref><references group="xtra"~~/>	+
	[[Category: Alcaligenes faecalis]]		[[Category: Alcaligenes faecalis]]
	[[Category: N-acyl-D-amino-acid deacylase]]		[[Category: N-acyl-D-amino-acid deacylase]]

OCA at 09:34, 16 January 2013

OCA — Wed, 16 Jan 2013 09:34:47 GMT

←Older revision		Revision as of 09:34, 16 January 2013
Line 1:		Line 1:
	[[Image:1v51.png\|left\|200px]]		[[Image:1v51.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1v51", 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_1v51\| PDB=1v51 \| SCENE= }}		{{STRUCTURE_1v51\| PDB=1v51 \| SCENE= }}

	===The functional role of the binuclear metal center in D-aminoacylase. One-metal activation and second-metal attenuation===		===The functional role of the binuclear metal center in D-aminoacylase. One-metal activation and second-metal attenuation===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_14736882}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 14736882 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_14736882}}		{{ABSTRACT_PUBMED_14736882}}

Line 22:		Line 11:

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~14736882~~</ref><ref group="xtra">PMID:~~12454005~~</ref><ref group="xtra">PMID:~~12381838~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:014736882</ref><ref group="xtra">PMID:012454005</ref><ref group="xtra">PMID:012381838</ref><references group="xtra"/>
	[[Category: Alcaligenes faecalis]]		[[Category: Alcaligenes faecalis]]
	[[Category: N-acyl-D-amino-acid deacylase]]		[[Category: N-acyl-D-amino-acid deacylase]]

OCA: Protected "1v51" [edit=sysop:move=sysop]

OCA — Mon, 14 Mar 2011 23:19:17 GMT

Protected "1v51" [edit=sysop:move=sysop]

←Older revision

Revision as of 23:19, 14 March 2011

OCA at 23:19, 14 March 2011

OCA — Mon, 14 Mar 2011 23:19:16 GMT

←Older revision		Revision as of 23:19, 14 March 2011
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1v51.png\|left\|200px]]		[[Image:1v51.png\|left\|200px]]

Line 20:		Line 19:

	==About this Structure==		==About this Structure==
-	~~1V51~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Alcaligenes_faecalis Alcaligenes faecalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V51 OCA].	+	[[1v51]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Alcaligenes_faecalis Alcaligenes faecalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V51 OCA].

	==Reference==		==Reference==
Line 32:		Line 31:
	[[Category: Tsai, Y C.]]		[[Category: Tsai, Y C.]]
	[[Category: Beta barrel]]		[[Category: Beta barrel]]
		+	[[Category: Hydrolase]]
	[[Category: Insertion]]		[[Category: Insertion]]
	[[Category: Tim barrel]]		[[Category: Tim barrel]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 06:19:52 2009''

OCA at 04:19, 18 February 2009

OCA — Wed, 18 Feb 2009 04:19:54 GMT

←Older revision		Revision as of 04:19, 18 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	1V51 is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Alcaligenes_faecalis Alcaligenes faecalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V51 OCA].	+	1V51 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Alcaligenes_faecalis Alcaligenes faecalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V51 OCA].

	==Reference==		==Reference==
-	The functional role of the binuclear metal center in D-aminoacylase: one-metal activation and second-metal attenuation., Lai WL, Chou LY, Ting CY, Kirby R, Tsai YC, Wang AH, Liaw SH, J Biol Chem. 2004 Apr 2;279(14):13962-7. Epub 2004 Jan 21. PMID:~~[http:~~/~~/www.ncbi.nlm.nih.gov/pubmed/14736882 14736882]~~	+	<ref group="xtra">PMID:14736882</ref><ref group="xtra">PMID:12454005</ref><ref group="xtra">PMID:12381838</ref><references group="xtra"/>
-		+
-	Crystal structure of D-aminoacylase from Alcaligenes faecalis DA1. A novel subset of amidohydrolases and insights into the enzyme mechanism., Liaw SH, Chen SJ, Ko TP, Hsu CS, Chen CJ, Wang AH, Tsai YC, J Biol Chem. 2003 Feb 14;278(7):4957-62. Epub 2002 Nov 25. PMID:~~[http:~~/~~/www.ncbi.nlm.nih.gov/pubmed/12454005 12454005]~~	+
-		+
-	~~Structural-based mutational analysis of D-aminoacylase from Alcaligenes faecalis DA1., Hsu CS, Lai WL, Chang WW, Liaw SH, Tsai YC, Protein Sci. 2002 Nov;11(11):2545-50.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/12381838 12381838]~~	+
	[[Category: Alcaligenes faecalis]]		[[Category: Alcaligenes faecalis]]
	[[Category: N-acyl-D-amino-acid deacylase]]		[[Category: N-acyl-D-amino-acid deacylase]]
-	[[Category: Single protein]]
	[[Category: Chou, L Y.]]		[[Category: Chou, L Y.]]
	[[Category: Lai, W L.]]		[[Category: Lai, W L.]]
Line 40:		Line 35:
	[[Category: Tim barrel]]		[[Category: Tim barrel]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Tue Jul 29 13:02~~:19 ~~2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 06:19:52 2009''