1o8l - Revision history

OCA at 12:31, 13 December 2023

OCA — Wed, 13 Dec 2023 12:31:09 GMT

←Older revision		Revision as of 12:31, 13 December 2023
Line 3:		Line 3:
	<StructureSection load='1o8l' size='340' side='right'caption='[[1o8l]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1o8l' size='340' side='right'caption='[[1o8l]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1o8l]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"erwinia_carotovora_var._chrysanthemi"_(burkholder_et_al._1953)_dye_1969 "erwinia carotovora var.~~ chrysanthemi~~" (burkholder et al. 1953) dye 1969~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O8L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1O8L FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1o8l]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Dickeya_chrysanthemi Dickeya chrysanthemi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O8L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1O8L FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CA:CALCIUM+ION'>CA</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]] 2.2Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1air\|1air]], [[1o88\|1o88]], [[1o8d\|1o8d]], [[1o8e\|1o8e]], [[1o8f\|1o8f]], [[1o8g\|1o8g]], [[1o8h\|1o8h]], [[1o8i\|1o8i]], [[1o8j\|1o8j]], [[1o8k\|1o8k]], [[1o8m\|1o8m]], [[1plu\|1plu]], [[2pec\|2pec]]</div></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
-	~~<tr~~ id~~='activity'><td class~~="~~sblockLbl~~"><~~b>Activity:</b></td><td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/Pectate_lyase Pectate lyase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.2.2 4.2.2.2]~~ </~~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=1o8l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o8l OCA], [https://pdbe.org/1o8l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1o8l RCSB], [https://www.ebi.ac.uk/pdbsum/1o8l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1o8l 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=1o8l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o8l OCA], [https://pdbe.org/1o8l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1o8l RCSB], [https://www.ebi.ac.uk/pdbsum/1o8l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1o8l ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/PLYC_DICCH PLYC_DICCH]] Involved in maceration and soft-rotting of plant tissue.	+	[https://www.uniprot.org/uniprot/PLYC_DICCH PLYC_DICCH] Involved in maceration and soft-rotting of plant tissue.
	== 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: Dickeya chrysanthemi]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Pectate lyase]]~~	+	[[Category: Herron SR]]
-	[[Category: Herron~~, S R~~]]	+	[[Category: Jurnak FA]]
-	[[Category: Jurnak~~, F A]]~~	+
-	~~[[Category: Calcium binding]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Lyase]]~~	+
-	~~[[Category: Parallel beta- helix]]~~	+
-	~~[[Category: Pectate lyase cleavage~~]]	+

OCA at 15:53, 22 December 2021

OCA — Wed, 22 Dec 2021 15:53:43 GMT

←Older revision		Revision as of 15:53, 22 December 2021
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	<StructureSection load='1o8l' size='340' side='right'caption='[[1o8l]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1o8l' size='340' side='right'caption='[[1o8l]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1o8l]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"erwinia_carotovora_var._chrysanthemi"_(burkholder_et_al._1953)_dye_1969 "erwinia carotovora var. chrysanthemi" (burkholder et al. 1953) dye 1969]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O8L OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1O8L FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1o8l]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"erwinia_carotovora_var._chrysanthemi"_(burkholder_et_al._1953)_dye_1969 "erwinia carotovora var. chrysanthemi" (burkholder et al. 1953) dye 1969]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O8L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1O8L FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1air\|1air]], [[1o88\|1o88]], [[1o8d\|1o8d]], [[1o8e\|1o8e]], [[1o8f\|1o8f]], [[1o8g\|1o8g]], [[1o8h\|1o8h]], [[1o8i\|1o8i]], [[1o8j\|1o8j]], [[1o8k\|1o8k]], [[1o8m\|1o8m]], [[1plu\|1plu]], [[2pec\|2pec]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1air\|1air]], [[1o88\|1o88]], [[1o8d\|1o8d]], [[1o8e\|1o8e]], [[1o8f\|1o8f]], [[1o8g\|1o8g]], [[1o8h\|1o8h]], [[1o8i\|1o8i]], [[1o8j\|1o8j]], [[1o8k\|1o8k]], [[1o8m\|1o8m]], [[1plu\|1plu]], [[2pec\|2pec]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Pectate_lyase Pectate lyase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.2.2 4.2.2.2] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Pectate_lyase Pectate lyase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.2.2 4.2.2.2] </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=1o8l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o8l OCA], [~~http~~://pdbe.org/1o8l PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1o8l RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1o8l PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1o8l 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=1o8l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o8l OCA], [https://pdbe.org/1o8l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1o8l RCSB], [https://www.ebi.ac.uk/pdbsum/1o8l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1o8l ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/PLYC_DICCH PLYC_DICCH]] Involved in maceration and soft-rotting of plant tissue.	+	[[https://www.uniprot.org/uniprot/PLYC_DICCH PLYC_DICCH]] Involved in maceration and soft-rotting of plant tissue.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 10:38, 18 March 2020

OCA — Wed, 18 Mar 2020 10:38:14 GMT

←Older revision		Revision as of 10:38, 18 March 2020
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	==Pectate Lyase C from Erwinia Chrysanthemi at pH 4.5 with 5mM CA2+==		==Pectate Lyase C from Erwinia Chrysanthemi at pH 4.5 with 5mM CA2+==
-	<StructureSection load='1o8l' size='340' side='right' caption='[[1o8l]], [[Resolution\|resolution]] 2.20Å' scene=''>	+	<StructureSection load='1o8l' size='340' side='right'caption='[[1o8l]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1o8l]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"erwinia_carotovora_var._chrysanthemi"_(burkholder_et_al._1953)_dye_1969 "erwinia carotovora var. chrysanthemi" (burkholder et al. 1953) dye 1969]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O8L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1O8L FirstGlance]. <br>		<table><tr><td colspan='2'>[[1o8l]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"erwinia_carotovora_var._chrysanthemi"_(burkholder_et_al._1953)_dye_1969 "erwinia carotovora var. chrysanthemi" (burkholder et al. 1953) dye 1969]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O8L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1O8L FirstGlance]. <br>
Line 34:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Pectate lyase]]		[[Category: Pectate lyase]]
	[[Category: Herron, S R]]		[[Category: Herron, S R]]

OCA at 07:49, 14 June 2018

OCA — Thu, 14 Jun 2018 07:49:11 GMT

←Older revision		Revision as of 07:49, 14 June 2018
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-	==~~PECTATE LYASE~~ C ~~FROM ERWINIA CHRYSANTHEMI AT PH~~ 4.5 ~~WITH 5MM~~ CA2+==	+	==Pectate Lyase C from Erwinia Chrysanthemi at pH 4.5 with 5mM CA2+==
	<StructureSection load='1o8l' size='340' side='right' caption='[[1o8l]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1o8l' size='340' side='right' caption='[[1o8l]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==

OCA at 07:31, 7 February 2018

OCA — Wed, 07 Feb 2018 07:31:44 GMT

←Older revision		Revision as of 07:31, 7 February 2018
Line 1:		Line 1:
		+
	==PECTATE LYASE C FROM ERWINIA CHRYSANTHEMI AT PH 4.5 WITH 5MM CA2+==		==PECTATE LYASE C FROM ERWINIA CHRYSANTHEMI AT PH 4.5 WITH 5MM CA2+==
	<StructureSection load='1o8l' size='340' side='right' caption='[[1o8l]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1o8l' size='340' side='right' caption='[[1o8l]], [[Resolution\|resolution]] 2.20Å' scene=''>
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1air\|1air]], [[1o88\|1o88]], [[1o8d\|1o8d]], [[1o8e\|1o8e]], [[1o8f\|1o8f]], [[1o8g\|1o8g]], [[1o8h\|1o8h]], [[1o8i\|1o8i]], [[1o8j\|1o8j]], [[1o8k\|1o8k]], [[1o8m\|1o8m]], [[1plu\|1plu]], [[2pec\|2pec]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1air\|1air]], [[1o88\|1o88]], [[1o8d\|1o8d]], [[1o8e\|1o8e]], [[1o8f\|1o8f]], [[1o8g\|1o8g]], [[1o8h\|1o8h]], [[1o8i\|1o8i]], [[1o8j\|1o8j]], [[1o8k\|1o8k]], [[1o8m\|1o8m]], [[1plu\|1plu]], [[2pec\|2pec]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pectate_lyase Pectate lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.2.2 4.2.2.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pectate_lyase Pectate lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.2.2 4.2.2.2] </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=1o8l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o8l OCA], [http://pdbe.org/1o8l PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1o8l RCSB], [http://www.ebi.ac.uk/pdbsum/1o8l 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=1o8l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o8l OCA], [http://pdbe.org/1o8l PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1o8l RCSB], [http://www.ebi.ac.uk/pdbsum/1o8l PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1o8l ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/o8/1o8l_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/o8/1o8l_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>

OCA at 11:43, 7 February 2016

OCA — Sun, 07 Feb 2016 11:43:33 GMT

←Older revision		Revision as of 11:43, 7 February 2016
Line 18:		Line 18:
	<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=1o8l ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 01:10, 10 September 2015

OCA — Thu, 10 Sep 2015 01:10:09 GMT

←Older revision		Revision as of 01:10, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1o8l' size='340' side='right' caption='[[1o8l]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='1o8l' size='340' side='right' caption='[[1o8l]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1o8l]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Erwinia_chrysanthemi Erwinia~~ chrysanthemi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O8L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1O8L FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1o8l]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"erwinia_carotovora_var._chrysanthemi"_(burkholder_et_al._1953)_dye_1969 "erwinia carotovora var. chrysanthemi" (burkholder et al. 1953) dye 1969]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O8L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1O8L FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1air\|1air]], [[1o88\|1o88]], [[1o8d\|1o8d]], [[1o8e\|1o8e]], [[1o8f\|1o8f]], [[1o8g\|1o8g]], [[1o8h\|1o8h]], [[1o8i\|1o8i]], [[1o8j\|1o8j]], [[1o8k\|1o8k]], [[1o8m\|1o8m]], [[1plu\|1plu]], [[2pec\|2pec]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1air\|1air]], [[1o88\|1o88]], [[1o8d\|1o8d]], [[1o8e\|1o8e]], [[1o8f\|1o8f]], [[1o8g\|1o8g]], [[1o8h\|1o8h]], [[1o8i\|1o8i]], [[1o8j\|1o8j]], [[1o8k\|1o8k]], [[1o8m\|1o8m]], [[1plu\|1plu]], [[2pec\|2pec]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pectate_lyase Pectate lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.2.2 4.2.2.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pectate_lyase Pectate lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.2.2 4.2.2.2] </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=1o8l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o8l OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1o8l RCSB], [http://www.ebi.ac.uk/pdbsum/1o8l 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=1o8l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o8l OCA], [http://pdbe.org/1o8l PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1o8l RCSB], [http://www.ebi.ac.uk/pdbsum/1o8l PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/~~PELC_ERWCH PELC_ERWCH~~]] Involved in maceration and soft-rotting of plant tissue.	+	[[http://www.uniprot.org/uniprot/PLYC_DICCH PLYC_DICCH]] Involved in maceration and soft-rotting of plant tissue.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 28:		Line 28:
	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 1o8l" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Erwinia chrysanthemi]]
	[[Category: Pectate lyase]]		[[Category: Pectate lyase]]
	[[Category: Herron, S R]]		[[Category: Herron, S R]]

OCA at 14:49, 24 December 2014

OCA — Wed, 24 Dec 2014 14:49:29 GMT

←Older revision		Revision as of 14:49, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1o8l]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Erwinia_chrysanthemi Erwinia chrysanthemi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O8L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1O8L FirstGlance]. <br>		<table><tr><td colspan='2'>[[1o8l]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Erwinia_chrysanthemi Erwinia chrysanthemi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O8L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1O8L FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1air\|1air]], [[1o88\|1o88]], [[1o8d\|1o8d]], [[1o8e\|1o8e]], [[1o8f\|1o8f]], [[1o8g\|1o8g]], [[1o8h\|1o8h]], [[1o8i\|1o8i]], [[1o8j\|1o8j]], [[1o8k\|1o8k]], [[1o8m\|1o8m]], [[1plu\|1plu]], [[2pec\|2pec]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1air\|1air]], [[1o88\|1o88]], [[1o8d\|1o8d]], [[1o8e\|1o8e]], [[1o8f\|1o8f]], [[1o8g\|1o8g]], [[1o8h\|1o8h]], [[1o8i\|1o8i]], [[1o8j\|1o8j]], [[1o8k\|1o8k]], [[1o8m\|1o8m]], [[1plu\|1plu]], [[2pec\|2pec]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pectate_lyase Pectate lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.2.2 4.2.2.2] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pectate_lyase Pectate lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.2.2 4.2.2.2] </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=1o8l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o8l OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1o8l RCSB], [http://www.ebi.ac.uk/pdbsum/1o8l 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=1o8l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o8l OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1o8l RCSB], [http://www.ebi.ac.uk/pdbsum/1o8l PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PELC_ERWCH PELC_ERWCH]] Involved in maceration and soft-rotting of plant tissue.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 34:
	[[Category: Erwinia chrysanthemi]]		[[Category: Erwinia chrysanthemi]]
	[[Category: Pectate lyase]]		[[Category: Pectate lyase]]
-	[[Category: Herron, S R.]]	+	[[Category: Herron, S R]]
-	[[Category: Jurnak, F A.]]	+	[[Category: Jurnak, F A]]
	[[Category: Calcium binding]]		[[Category: Calcium binding]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 15:46, 28 September 2014

OCA — Sun, 28 Sep 2014 15:46:02 GMT

←Older revision		Revision as of 15:46, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1o8l.~~png~~\|~~left~~\|200px]]	+	==PECTATE LYASE C FROM ERWINIA CHRYSANTHEMI AT PH 4.5 WITH 5MM CA2+==
		+	<StructureSection load='1o8l' size='340' side='right' caption='[[1o8l]], [[Resolution\|resolution]] 2.20Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1o8l]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Erwinia_chrysanthemi Erwinia chrysanthemi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O8L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1O8L FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1air\|1air]], [[1o88\|1o88]], [[1o8d\|1o8d]], [[1o8e\|1o8e]], [[1o8f\|1o8f]], [[1o8g\|1o8g]], [[1o8h\|1o8h]], [[1o8i\|1o8i]], [[1o8j\|1o8j]], [[1o8k\|1o8k]], [[1o8m\|1o8m]], [[1plu\|1plu]], [[2pec\|2pec]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pectate_lyase Pectate lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.2.2 4.2.2.2] </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=1o8l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o8l OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1o8l RCSB], [http://www.ebi.ac.uk/pdbsum/1o8l 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/o8/1o8l_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 ==
		+	Ca(2+) is essential for in vitro activity of Erwinia chrysanthemi pectate lyase C (PelC). Crystallographic analyses of 11 PelC-Ca(2+) complexes, formed at pH 4.5, 9.5, and 11.2 under varying Ca(2+) concentrations, have been solved and refined at a resolution of 2.2 A. The Ca(2+) site represents a new motif for Ca(2+), consisting primarily of beta-turns and beta-strands. The principal differences between PelC and the PelC-Ca(2+) structures at all pH values are the side-chain conformations of Asp-129 and Glu-166 as well as the occupancies of four water molecules. According to calculations of pK(a) values, the presence of Ca(2+) and associated structural changes lower the pK(a) of Arg-218, the amino acid responsible for proton abstraction during catalysis. The Ca(2+) affinity for PelC is weak, as the K(d) was estimated to be 0.132 (+/-0.004) mm at pH 9.5, 1.09 (+/-0.29) mm at pH 11.2, and 5.84 (+/-0.41) mm at pH 4.5 from x-ray diffraction studies and 0.133 (+/-0.045) mm at pH 9.5 from intrinsic tryptophan fluorescence measurements. Given the pH dependence of Ca(2+) affinity, PelC activity at pH 4.5 has been reexamined. At saturating Ca(2+) concentrations, PelC activity increases 10-fold at pH 4.5 but is less than 1% of maximal activity at pH 9.5. Taken together, the studies suggest that the primary Ca(2+) ion in PelC has multiple functions.

-	~~{{STRUCTURE_1o8l\| PDB=1o8l \| SCENE= }}~~	+	Characterization and implications of Ca2+ binding to pectate lyase C.,Herron SR, Scavetta RD, Garrett M, Legner M, Jurnak F J Biol Chem. 2003 Apr 4;278(14):12271-7. Epub 2003 Jan 22. PMID:12540845<ref>PMID:12540845</ref>

-	~~===PECTATE LYASE C FROM ERWINIA CHRYSANTHEMI AT PH 4.5 WITH 5MM CA2+===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_12540845}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1o8l]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Erwinia_chrysanthemi Erwinia chrysanthemi]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1O8L OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:012540845<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Erwinia chrysanthemi]]		[[Category: Erwinia chrysanthemi]]
	[[Category: Pectate lyase]]		[[Category: Pectate lyase]]

OCA: Protected "1o8l" [edit=sysop:move=sysop]

OCA — Wed, 12 Dec 2012 21:58:35 GMT

Protected "1o8l" [edit=sysop:move=sysop]

←Older revision

Revision as of 21:58, 12 December 2012