1yr2 - Revision history

OCA at 07:00, 23 August 2023

2023-08-23T07:00:25Z

←Older revision		Revision as of 07:00, 23 August 2023
Line 3:		Line 3:
	<StructureSection load='1yr2' size='340' side='right'caption='[[1yr2]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1yr2' size='340' side='right'caption='[[1yr2]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1yr2]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_14666 Atcc 14666~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YR2 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1YR2 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1yr2]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Novosphingobium_capsulatum Novosphingobium capsulatum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YR2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YR2 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.8Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>ATCC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~13688 ATCC 14666])</td~~><~~/tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[http://en.wikipedia.org/wiki/Prolyl_oligopeptidase Prolyl oligopeptidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.26 3.4.21.26]~~ </~~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=1yr2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yr2 OCA], [https://pdbe.org/1yr2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yr2 RCSB], [https://www.ebi.ac.uk/pdbsum/1yr2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yr2 ProSAT]</span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=1yr2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yr2 OCA], [~~http~~://pdbe.org/1yr2 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1yr2 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1yr2 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1yr2 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q9ZNM8_9SPHN Q9ZNM8_9SPHN]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Atcc 14666]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Prolyl oligopeptidase~~]]	+	[[Category: Novosphingobium capsulatum]]
-	[[Category: Khosla, C]]	+	[[Category: Khosla C]]
-	[[Category: Mathews~~, I I~~]]	+	[[Category: Mathews II]]
-	[[Category: Shan, L]]	+	[[Category: Shan L]]
-	~~[[Category: Celiac sprue]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Mechanistic study]]~~	+
-	~~[[Category: Prolyl endopeptidase~~]]	+

OCA at 08:50, 20 January 2021

2021-01-20T08:50:45Z

←Older revision		Revision as of 08:50, 20 January 2021
Line 1:		Line 1:

	==Structural and Mechanistic Analysis of Two Prolyl Endopeptidases: Role of Inter-Domain Dynamics in Catalysis and Specificity==		==Structural and Mechanistic Analysis of Two Prolyl Endopeptidases: Role of Inter-Domain Dynamics in Catalysis and Specificity==
-	<StructureSection load='1yr2' size='340' side='right' caption='[[1yr2]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='1yr2' size='340' side='right'caption='[[1yr2]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1yr2]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_14666 Atcc 14666]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YR2 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1YR2 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1yr2]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_14666 Atcc 14666]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YR2 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1YR2 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ATCC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13688 ATCC 14666])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ATCC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13688 ATCC 14666])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Prolyl_oligopeptidase Prolyl oligopeptidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.26 3.4.21.26] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Prolyl_oligopeptidase Prolyl oligopeptidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.26 3.4.21.26] </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=1yr2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yr2 OCA], [http://pdbe.org/1yr2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1yr2 RCSB], [http://www.ebi.ac.uk/pdbsum/1yr2 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1yr2 ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=1yr2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yr2 OCA], [http://pdbe.org/1yr2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1yr2 RCSB], [http://www.ebi.ac.uk/pdbsum/1yr2 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1yr2 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 36:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 14666]]		[[Category: Atcc 14666]]
		+	[[Category: Large Structures]]
	[[Category: Prolyl oligopeptidase]]		[[Category: Prolyl oligopeptidase]]
	[[Category: Khosla, C]]		[[Category: Khosla, C]]

OCA at 06:31, 25 April 2018

2018-04-25T06:31:46Z

←Older revision		Revision as of 06:31, 25 April 2018
Line 1:		Line 1:
		+
	==Structural and Mechanistic Analysis of Two Prolyl Endopeptidases: Role of Inter-Domain Dynamics in Catalysis and Specificity==		==Structural and Mechanistic Analysis of Two Prolyl Endopeptidases: Role of Inter-Domain Dynamics in Catalysis and Specificity==
	<StructureSection load='1yr2' size='340' side='right' caption='[[1yr2]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1yr2' size='340' side='right' caption='[[1yr2]], [[Resolution\|resolution]] 1.80Å' scene=''>
Line 6:		Line 7:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ATCC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13688 ATCC 14666])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ATCC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13688 ATCC 14666])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Prolyl_oligopeptidase Prolyl oligopeptidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.26 3.4.21.26] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Prolyl_oligopeptidase Prolyl oligopeptidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.26 3.4.21.26] </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=1yr2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yr2 OCA], [http://pdbe.org/1yr2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1yr2 RCSB], [http://www.ebi.ac.uk/pdbsum/1yr2 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=1yr2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yr2 OCA], [http://pdbe.org/1yr2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1yr2 RCSB], [http://www.ebi.ac.uk/pdbsum/1yr2 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1yr2 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 12:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/yr/1yr2_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/yr/1yr2_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=1yr2 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 23:43, 11 September 2015

2015-09-11T23:43:50Z

←Older revision		Revision as of 23:43, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1yr2' size='340' side='right' caption='[[1yr2]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='1yr2' size='340' side='right' caption='[[1yr2]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1yr2]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Novosphingobium_capsulatum Novosphingobium capsulatum~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YR2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YR2 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1yr2]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_14666 Atcc 14666]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YR2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YR2 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ATCC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13688 ~~Novosphingobium capsulatum~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ATCC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13688 ATCC 14666])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Prolyl_oligopeptidase Prolyl oligopeptidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.26 3.4.21.26] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Prolyl_oligopeptidase Prolyl oligopeptidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.26 3.4.21.26] </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=1yr2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yr2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1yr2 RCSB], [http://www.ebi.ac.uk/pdbsum/1yr2 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=1yr2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yr2 OCA], [http://pdbe.org/1yr2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1yr2 RCSB], [http://www.ebi.ac.uk/pdbsum/1yr2 PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 26:		Line 26:
	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 1yr2" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 33:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Novosphingobium capsulatum~~]]	+	[[Category: Atcc 14666]]
	[[Category: Prolyl oligopeptidase]]		[[Category: Prolyl oligopeptidase]]
	[[Category: Khosla, C]]		[[Category: Khosla, C]]

OCA at 09:03, 8 January 2015

2015-01-08T09:03:51Z

←Older revision		Revision as of 09:03, 8 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1yr2]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Novosphingobium_capsulatum Novosphingobium capsulatum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YR2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YR2 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1yr2]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Novosphingobium_capsulatum Novosphingobium capsulatum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YR2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YR2 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ATCC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13688 Novosphingobium capsulatum])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ATCC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13688 Novosphingobium capsulatum])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Prolyl_oligopeptidase Prolyl oligopeptidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.26 3.4.21.26] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Prolyl_oligopeptidase Prolyl oligopeptidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.26 3.4.21.26] </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=1yr2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yr2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1yr2 RCSB], [http://www.ebi.ac.uk/pdbsum/1yr2 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=1yr2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yr2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1yr2 RCSB], [http://www.ebi.ac.uk/pdbsum/1yr2 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 35:		Line 35:
	[[Category: Novosphingobium capsulatum]]		[[Category: Novosphingobium capsulatum]]
	[[Category: Prolyl oligopeptidase]]		[[Category: Prolyl oligopeptidase]]
-	[[Category: Khosla, C.]]	+	[[Category: Khosla, C]]
-	[[Category: Mathews, I I.]]	+	[[Category: Mathews, I I]]
-	[[Category: Shan, L.]]	+	[[Category: Shan, L]]
	[[Category: Celiac sprue]]		[[Category: Celiac sprue]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Mechanistic study]]		[[Category: Mechanistic study]]
	[[Category: Prolyl endopeptidase]]		[[Category: Prolyl endopeptidase]]

OCA at 20:22, 29 September 2014

2014-09-29T20:22:35Z

←Older revision		Revision as of 20:22, 29 September 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_1yr2\| PDB=1yr2 \| SCENE= }}~~	+	==Structural and Mechanistic Analysis of Two Prolyl Endopeptidases: Role of Inter-Domain Dynamics in Catalysis and Specificity==
-	===Structural and Mechanistic Analysis of Two Prolyl Endopeptidases: Role of Inter-Domain Dynamics in Catalysis and Specificity===	+	<StructureSection load='1yr2' size='340' side='right' caption='[[1yr2]], [[Resolution\|resolution]] 1.80Å' scene=''>
-	~~{{ABSTRACT_PUBMED_15738423}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1yr2]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Novosphingobium_capsulatum Novosphingobium capsulatum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YR2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YR2 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ATCC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13688 Novosphingobium capsulatum])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Prolyl_oligopeptidase Prolyl oligopeptidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.26 3.4.21.26] </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=1yr2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yr2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1yr2 RCSB], [http://www.ebi.ac.uk/pdbsum/1yr2 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/yr/1yr2_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 ==
		+	Prolyl endopeptidases (PEPs) are a unique class of serine proteases with considerable therapeutic potential for the treatment of celiac sprue. The crystal structures of two didomain PEPs have been solved in alternative configurations, thereby providing insights into the mode of action of these enzymes. The structure of the Sphingomonas capsulata PEP, solved and refined to 1.8-A resolution, revealed an open configuration of the active site. In contrast, the inhibitor-bound PEP from Myxococcus xanthus was crystallized (1.5-A resolution) in a closed form. Comparative analysis of the two structures highlights a critical role for the domain interface in regulating interdomain dynamics and substrate specificity. Structure-based mutagenesis of the M. xanthus PEP confirms an important role for several interfacial residues. A salt bridge between Arg-572 and Asp-196/Glu-197 appears to act as a latch for opening or closing the didomain enzyme, and Arg-572 and Ile-575 may also help secure the incoming peptide substrate to the open form of the enzyme. Arg-618 and Asp-145 are responsible for anchoring the invariant proline residue in the active site of this postproline-cleaving enzyme. A model is proposed for the docking of a representative substrate PQPQLPYPQPQLP in the active site, where the N-terminal substrate residues interact extensively with the catalytic domain, and the C-terminal residues stretch into the propeller domain. Given the promise of the M. xanthus PEP as an oral therapeutic enzyme for treating celiac sprue, our results provide a strong foundation for further optimization of the PEP's clinically useful features.

-	~~==About this Structure==~~	+	Structural and mechanistic analysis of two prolyl endopeptidases: role of interdomain dynamics in catalysis and specificity.,Shan L, Mathews II, Khosla C Proc Natl Acad Sci U S A. 2005 Mar 8;102(10):3599-604. Epub 2005 Feb 28. PMID:15738423<ref>PMID:15738423</ref>
-	~~[[1yr2]] is a 1 chain structure with sequence from [http~~:~~//en~~.~~wikipedia~~.~~org/wiki/Novosphingobium_capsulatum Novosphingobium capsulatum]~~. ~~Full crystallographic information is available from [http~~://~~oca~~.~~weizmann~~.ac.il/~~oca-bin/ocashort?id=1YR2 OCA].~~	+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

	==See Also==		==See Also==
	*[[Prolyl Endopeptidase\|Prolyl Endopeptidase]]		*[[Prolyl Endopeptidase\|Prolyl Endopeptidase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:015738423<~~/~~ref~~><~~ref group="xtra">PMID:015245330</ref><references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Novosphingobium capsulatum]]		[[Category: Novosphingobium capsulatum]]
	[[Category: Prolyl oligopeptidase]]		[[Category: Prolyl oligopeptidase]]

OCA at 09:13, 11 March 2013

2013-03-11T09:13:28Z

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	{{STRUCTURE_1yr2\| PDB=1yr2 \| SCENE= }}		{{STRUCTURE_1yr2\| PDB=1yr2 \| SCENE= }}
-
	===Structural and Mechanistic Analysis of Two Prolyl Endopeptidases: Role of Inter-Domain Dynamics in Catalysis and Specificity===		===Structural and Mechanistic Analysis of Two Prolyl Endopeptidases: Role of Inter-Domain Dynamics in Catalysis and Specificity===
-
	{{ABSTRACT_PUBMED_15738423}}		{{ABSTRACT_PUBMED_15738423}}

OCA at 12:23, 23 January 2013

2013-01-23T12:23:17Z

←Older revision		Revision as of 12:23, 23 January 2013
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	[[Image:1yr2.png\|left\|200px]]		[[Image:1yr2.png\|left\|200px]]

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	{{STRUCTURE_1yr2\| PDB=1yr2 \| SCENE= }}		{{STRUCTURE_1yr2\| PDB=1yr2 \| SCENE= }}

	===Structural and Mechanistic Analysis of Two Prolyl Endopeptidases: Role of Inter-Domain Dynamics in Catalysis and Specificity===		===Structural and Mechanistic Analysis of Two Prolyl Endopeptidases: Role of Inter-Domain Dynamics in Catalysis and Specificity===

-
-	<!--
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	{{ABSTRACT_PUBMED_15738423}}		{{ABSTRACT_PUBMED_15738423}}

	==About this Structure==		==About this Structure==
	[[1yr2]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Novosphingobium_capsulatum Novosphingobium capsulatum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YR2 OCA].		[[1yr2]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Novosphingobium_capsulatum Novosphingobium capsulatum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YR2 OCA].
		+
		+	==See Also==
		+	*[[Prolyl Endopeptidase\|Prolyl Endopeptidase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~15738423~~</ref><ref group="xtra">PMID:~~15245330</ref><ref group="xtra">PMID:11915948~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:015738423</ref><ref group="xtra">PMID:015245330</ref><references group="xtra"/>
	[[Category: Novosphingobium capsulatum]]		[[Category: Novosphingobium capsulatum]]
	[[Category: Prolyl oligopeptidase]]		[[Category: Prolyl oligopeptidase]]
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	[[Category: Shan, L.]]		[[Category: Shan, L.]]
	[[Category: Celiac sprue]]		[[Category: Celiac sprue]]
-	[[Category: Crystal structure]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Mechanistic study]]		[[Category: Mechanistic study]]
	[[Category: Prolyl endopeptidase]]		[[Category: Prolyl endopeptidase]]

OCA: Protected "1yr2" [edit=sysop:move=sysop]

2011-03-14T18:07:57Z

Protected "1yr2" [edit=sysop:move=sysop]

←Older revision

Revision as of 18:07, 14 March 2011

OCA at 18:07, 14 March 2011

2011-03-14T18:07:56Z

←Older revision		Revision as of 18:07, 14 March 2011
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-	{{Seed}}
	[[Image:1yr2.png\|left\|200px]]		[[Image:1yr2.png\|left\|200px]]

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	==About this Structure==		==About this Structure==
-	~~1YR2~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Novosphingobium_capsulatum Novosphingobium capsulatum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YR2 OCA].	+	[[1yr2]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Novosphingobium_capsulatum Novosphingobium capsulatum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YR2 OCA].

	==Reference==		==Reference==
Line 31:		Line 30:
	[[Category: Celiac sprue]]		[[Category: Celiac sprue]]
	[[Category: Crystal structure]]		[[Category: Crystal structure]]
		+	[[Category: Hydrolase]]
	[[Category: Mechanistic study]]		[[Category: Mechanistic study]]
	[[Category: Prolyl endopeptidase]]		[[Category: Prolyl endopeptidase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 07:02:09 2009''