1uy3 - Revision history

OCA at 13:03, 13 December 2023

2023-12-13T13:03:42Z

←Older revision		Revision as of 13:03, 13 December 2023
Line 3:		Line 3:
	<StructureSection load='1uy3' size='340' side='right'caption='[[1uy3]], [[Resolution\|resolution]] 1.89Å' scene=''>		<StructureSection load='1uy3' size='340' side='right'caption='[[1uy3]], [[Resolution\|resolution]] 1.89Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1uy3]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_35414 Atcc 35414~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UY3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UY3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1uy3]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermoclostridium_stercorarium Thermoclostridium stercorarium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UY3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UY3 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>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=~~XYP~~:~~BETA~~-D-~~XYLOPYRANOSE~~'>~~XYP~~</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]] 1.89Å</td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b></td><td class="sblockDat"><div style='overflow: auto; max~~-~~height: 3em;~~'>~~[[1nae\|1nae]], [[1od3\|1od3]], [[1uy1\|1uy1]], [[1uy2\|1uy2]], [[1uy4\|1uy4]]~~</~~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>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PRD_900117:4beta-beta-xylotriose'>PRD_900117</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</scene></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=1uy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uy3 OCA], [https://pdbe.org/1uy3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1uy3 RCSB], [https://www.ebi.ac.uk/pdbsum/1uy3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1uy3 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=1uy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uy3 OCA], [https://pdbe.org/1uy3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1uy3 RCSB], [https://www.ebi.ac.uk/pdbsum/1uy3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1uy3 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/XYNA1_THEST XYNA1_THEST] Endoxylanase that degrades arabinoxylan and glucuronoxylan to xylobiose and xylotriose (in vitro).<ref>PMID:11849546</ref> <ref>PMID:15256568</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 31:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Atcc 35414]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Boraston, A B~~]]	+	[[Category: Thermoclostridium stercorarium]]
-	[[Category: ~~Bueren, A L.Van~~]]	+	[[Category: Boraston AB]]
-	[[Category: ~~Carbohydrate-binding module]]~~	+	[[Category: Van Bueren AL]]
-	~~[[Category: Protein structure]]~~	+
-	~~[[Category: Protein-carbohydrate interaction]]~~	+
-	~~[[Category: Thermodynamic]]~~	+
-	~~[[Category: Xylan~~]]	+

OCA at 09:56, 26 May 2021

2021-05-26T09:56:14Z

←Older revision		Revision as of 09:56, 26 May 2021
Line 3:		Line 3:
	<StructureSection load='1uy3' size='340' side='right'caption='[[1uy3]], [[Resolution\|resolution]] 1.89Å' scene=''>		<StructureSection load='1uy3' size='340' side='right'caption='[[1uy3]], [[Resolution\|resolution]] 1.89Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1uy3]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_35414 Atcc 35414]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UY3 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1UY3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1uy3]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_35414 Atcc 35414]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UY3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UY3 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>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</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>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nae\|1nae]], [[1od3\|1od3]], [[1uy1\|1uy1]], [[1uy2\|1uy2]], [[1uy4\|1uy4]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1nae\|1nae]], [[1od3\|1od3]], [[1uy1\|1uy1]], [[1uy2\|1uy2]], [[1uy4\|1uy4]]</div></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=1uy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uy3 OCA], [~~http~~://pdbe.org/1uy3 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1uy3 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1uy3 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1uy3 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=1uy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uy3 OCA], [https://pdbe.org/1uy3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1uy3 RCSB], [https://www.ebi.ac.uk/pdbsum/1uy3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1uy3 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 07:28, 21 August 2019

2019-08-21T07:28:48Z

←Older revision		Revision as of 07:28, 21 August 2019
Line 1:		Line 1:

	==Binding sub-site dissection of a family 6 carbohydrate-binding module by X-ray crystallography and isothermal titration calorimetry==		==Binding sub-site dissection of a family 6 carbohydrate-binding module by X-ray crystallography and isothermal titration calorimetry==
-	<StructureSection load='1uy3' size='340' side='right' caption='[[1uy3]], [[Resolution\|resolution]] 1.89Å' scene=''>	+	<StructureSection load='1uy3' size='340' side='right'caption='[[1uy3]], [[Resolution\|resolution]] 1.89Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1uy3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_35414 Atcc 35414]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UY3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UY3 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1uy3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_35414 Atcc 35414]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UY3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UY3 FirstGlance]. <br>
Line 12:		Line 12:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/uy/1uy3_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/uy/1uy3_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 32:		Line 32:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 35414]]		[[Category: Atcc 35414]]
		+	[[Category: Large Structures]]
	[[Category: Boraston, A B]]		[[Category: Boraston, A B]]
	[[Category: Bueren, A L.Van]]		[[Category: Bueren, A L.Van]]

OCA at 07:08, 16 November 2017

2017-11-16T07:08:27Z

←Older revision		Revision as of 07:08, 16 November 2017
Line 1:		Line 1:
-	==~~BINDING SUB~~-~~SITE DISSECTION OF A FAMILY~~ 6 ~~CARBOHYDRATE~~-~~BINDING MODULE BY~~ X-~~RAY CRYSTALLOGRAPHY AND ISOTHERMAL TITRATION CALORIMETRY~~==	+
		+	==Binding sub-site dissection of a family 6 carbohydrate-binding module by X-ray crystallography and isothermal titration calorimetry==
	<StructureSection load='1uy3' size='340' side='right' caption='[[1uy3]], [[Resolution\|resolution]] 1.89Å' scene=''>		<StructureSection load='1uy3' size='340' side='right' caption='[[1uy3]], [[Resolution\|resolution]] 1.89Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</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>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nae\|1nae]], [[1od3\|1od3]], [[1uy1\|1uy1]], [[1uy2\|1uy2]], [[1uy4\|1uy4]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nae\|1nae]], [[1od3\|1od3]], [[1uy1\|1uy1]], [[1uy2\|1uy2]], [[1uy4\|1uy4]]</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=1uy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uy3 OCA], [http://pdbe.org/1uy3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1uy3 RCSB], [http://www.ebi.ac.uk/pdbsum/1uy3 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=1uy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uy3 OCA], [http://pdbe.org/1uy3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1uy3 RCSB], [http://www.ebi.ac.uk/pdbsum/1uy3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1uy3 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 01:37, 10 February 2016

2016-02-10T01:37:37Z

←Older revision		Revision as of 01:37, 10 February 2016
Line 15:		Line 15:
	<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=1uy3 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 04:04, 11 September 2015

2015-09-11T04:04:59Z

←Older revision		Revision as of 04:04, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1uy3' size='340' side='right' caption='[[1uy3]], [[Resolution\|resolution]] 1.89Å' scene=''>		<StructureSection load='1uy3' size='340' side='right' caption='[[1uy3]], [[Resolution\|resolution]] 1.89Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1uy3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Clostridium_stercorarium Clostridium stercorarium~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UY3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UY3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1uy3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_35414 Atcc 35414]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UY3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UY3 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>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</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>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nae\|1nae]], [[1od3\|1od3]], [[1uy1\|1uy1]], [[1uy2\|1uy2]], [[1uy4\|1uy4]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nae\|1nae]], [[1od3\|1od3]], [[1uy1\|1uy1]], [[1uy2\|1uy2]], [[1uy4\|1uy4]]</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=1uy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uy3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1uy3 RCSB], [http://www.ebi.ac.uk/pdbsum/1uy3 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=1uy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uy3 OCA], [http://pdbe.org/1uy3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1uy3 RCSB], [http://www.ebi.ac.uk/pdbsum/1uy3 PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 25:		Line 25:
	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 1uy3" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Clostridium stercorarium~~]]	+	[[Category: Atcc 35414]]
	[[Category: Boraston, A B]]		[[Category: Boraston, A B]]
	[[Category: Bueren, A L.Van]]		[[Category: Bueren, A L.Van]]

OCA at 13:42, 6 January 2015

2015-01-06T13:42:16Z

←Older revision		Revision as of 13:42, 6 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1uy3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Clostridium_stercorarium Clostridium stercorarium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UY3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UY3 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1uy3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Clostridium_stercorarium Clostridium stercorarium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UY3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UY3 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</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>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nae\|1nae]], [[1od3\|1od3]], [[1uy1\|1uy1]], [[1uy2\|1uy2]], [[1uy4\|1uy4]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nae\|1nae]], [[1od3\|1od3]], [[1uy1\|1uy1]], [[1uy2\|1uy2]], [[1uy4\|1uy4]]</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=1uy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uy3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1uy3 RCSB], [http://www.ebi.ac.uk/pdbsum/1uy3 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=1uy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uy3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1uy3 RCSB], [http://www.ebi.ac.uk/pdbsum/1uy3 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 30:		Line 30:
	</StructureSection>		</StructureSection>
	[[Category: Clostridium stercorarium]]		[[Category: Clostridium stercorarium]]
-	[[Category: Boraston, A B.]]	+	[[Category: Boraston, A B]]
-	[[Category: Bueren, A L.Van.]]	+	[[Category: Bueren, A L.Van]]
	[[Category: Carbohydrate-binding module]]		[[Category: Carbohydrate-binding module]]
	[[Category: Protein structure]]		[[Category: Protein structure]]

OCA at 21:55, 29 September 2014

2014-09-29T21:55:29Z

←Older revision		Revision as of 21:55, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1uy3.~~png~~\|~~left~~\|200px]]	+	==BINDING SUB-SITE DISSECTION OF A FAMILY 6 CARBOHYDRATE-BINDING MODULE BY X-RAY CRYSTALLOGRAPHY AND ISOTHERMAL TITRATION CALORIMETRY==
		+	<StructureSection load='1uy3' size='340' side='right' caption='[[1uy3]], [[Resolution\|resolution]] 1.89Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1uy3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Clostridium_stercorarium Clostridium stercorarium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UY3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UY3 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1nae\|1nae]], [[1od3\|1od3]], [[1uy1\|1uy1]], [[1uy2\|1uy2]], [[1uy4\|1uy4]]</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=1uy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uy3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1uy3 RCSB], [http://www.ebi.ac.uk/pdbsum/1uy3 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/uy/1uy3_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The optimal ligands for many carbohydrate-binding proteins are often oligosaccharides comprising two, three, or more monosaccharide units. The binding affinity for these sugars is increased incrementally by contributions from binding subsites on the protein that accommodate the individual monosaccharide residues of the oligosaccharide. Here, we use CsCBM6-1, a xylan-specific type B carbohydrate-binding module (CBM) from Clostridium stercorarium falling into amino acid sequence family CBM6, as a model system to investigate the structural and thermodynamic contributions of binding subsites in this protein to carbohydrate recognition. The three-dimensional structures of uncomplexed CsCBM6-1 (at 1.8 A resolution) and bound to the oligosaccharides xylobiose, xylotriose, and xylotetraose (at 1.70 A, 1.89 A, and 1.69 A resolution, respectively) revealed the sequential occupation of four subsites within the binding site in the order of subsites 2, 3, 4 then 1. Overall, binding to all of the xylooligosaccharides tested was enthalpically favourable and entropically unfavourable, like most protein-carbohydrate interactions, with the primary subsites 2 and 3 providing the bulk of the free energy and enthalpy of binding. In contrast, the contributions to the changes in entropy of the non-primary subsites 1 and 4 to xylotriose and xylotetraose binding, respectively, were positive. This observation is remarkable, in that it shows that the 10-20-fold improvement in association constants for oligosaccharides longer than a disaccharide is facilitated by favourable entropic contributions from the non-primary binding subsites.

-	~~{{STRUCTURE_1uy3\| PDB=1uy3 \| SCENE= }}~~	+	Binding sub-site dissection of a carbohydrate-binding module reveals the contribution of entropy to oligosaccharide recognition at "non-primary" binding subsites.,Lammerts van Bueren A, Boraston AB J Mol Biol. 2004 Jul 16;340(4):869-79. PMID:15223327<ref>PMID:15223327</ref>

-	~~===BINDING SUB-SITE DISSECTION OF A FAMILY 6 CARBOHYDRATE-BINDING MODULE BY X-RAY CRYSTALLOGRAPHY AND ISOTHERMAL TITRATION CALORIMETRY===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_15223327}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1uy3]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Clostridium_stercorarium Clostridium stercorarium]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1UY3 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:015223327<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Clostridium stercorarium]]		[[Category: Clostridium stercorarium]]
	[[Category: Boraston, A B.]]		[[Category: Boraston, A B.]]

OCA: Protected "1uy3" [edit=sysop:move=sysop]

2013-01-05T13:31:13Z

Protected "1uy3" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:31, 5 January 2013

OCA at 13:31, 5 January 2013

2013-01-05T13:31:10Z

←Older revision		Revision as of 13:31, 5 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1uy3.png\|left\|200px]]		[[Image:1uy3.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1uy3", 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_1uy3\| PDB=1uy3 \| SCENE= }}		{{STRUCTURE_1uy3\| PDB=1uy3 \| SCENE= }}

	===BINDING SUB-SITE DISSECTION OF A FAMILY 6 CARBOHYDRATE-BINDING MODULE BY X-RAY CRYSTALLOGRAPHY AND ISOTHERMAL TITRATION CALORIMETRY===		===BINDING SUB-SITE DISSECTION OF A FAMILY 6 CARBOHYDRATE-BINDING MODULE BY X-RAY CRYSTALLOGRAPHY AND ISOTHERMAL TITRATION CALORIMETRY===

		+	{{ABSTRACT_PUBMED_15223327}}

	==About this Structure==		==About this Structure==
-	~~1UY3~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Clostridium_stercorarium Clostridium stercorarium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UY3 OCA].	+	[[1uy3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Clostridium_stercorarium Clostridium stercorarium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UY3 OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:015223327</ref><references group="xtra"/>
	[[Category: Clostridium stercorarium]]		[[Category: Clostridium stercorarium]]
	[[Category: Boraston, A B.]]		[[Category: Boraston, A B.]]
Line 23:		Line 20:
	[[Category: Thermodynamic]]		[[Category: Thermodynamic]]
	[[Category: Xylan]]		[[Category: Xylan]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 14:22:16 2009''