2b4f - Revision history

OCA at 07:51, 30 October 2024

2024-10-30T07:51:38Z

← Older revision		Revision as of 07:51, 30 October 2024
Line 15:		Line 15:
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/b4/2b4f_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/b4/2b4f_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/~~initialview01~~.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>

OCA at 07:33, 23 August 2023

2023-08-23T07:33:44Z

← Older revision		Revision as of 07:33, 23 August 2023
Line 3:		Line 3:
	<StructureSection load='2b4f' size='340' side='right'caption='[[2b4f]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='2b4f' size='340' side='right'caption='[[2b4f]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2b4f]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"alteromonas_marinopraesens"_(zobell_and_upham_1944)_baumann_et_al._1972 "alteromonas marinopraesens" (zobell and upham 1944) baumann et al. 1972~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B4F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2B4F FirstGlance]. <br>		<table><tr><td colspan='2'>[[2b4f]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudoalteromonas_haloplanktis Pseudoalteromonas haloplanktis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B4F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2B4F FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<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]] 1.95Å</td></tr>
	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[1h12\|1h12]], [[1h13\|1h13]], [[1h14\|1h14]]</div></td></tr>~~		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</scene></td></tr>
	~~<tr~~ id~~='activity'><td class~~="~~sblockLbl~~"><~~b>Activity:</b></td><td class~~=~~"sblockDat"><span class~~=~~'plainlinks'>[https~~:~~//en.wikipedia.org/wiki/Endo~~-~~1,4~~-~~beta-xylanase Endo-1,4-beta-xylanase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.8 3.2.1.8]~~ </~~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=2b4f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b4f OCA], [https://pdbe.org/2b4f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2b4f RCSB], [https://www.ebi.ac.uk/pdbsum/2b4f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2b4f 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=2b4f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b4f OCA], [https://pdbe.org/2b4f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2b4f RCSB], [https://www.ebi.ac.uk/pdbsum/2b4f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2b4f ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/Q8RJN8_PSEHA Q8RJN8_PSEHA]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	~~[[Category: Endo-1,4-beta-xylanase]]~~
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Beeumen, J J.Van~~]]		[[Category: Pseudoalteromonas haloplanktis]]
	[[Category: Collins, T]]		[[Category: Collins T]]
	[[Category: ~~Feller, G]]~~		[[Category: De Vos D]]
	~~[[Category: Savvides, S N]]~~		[[Category: Feller G]]
	~~[[Category:~~ Vos, D De]]		[[Category: Savvides SN]]
	[[Category: ~~Cold adaptation~~]]		[[Category: Van Beeumen JJ]]
	[[Category: ~~Family 8~~]]
	[[Category: ~~Glycosyl hydrolase]]~~
	~~[[Category: Hydrolase]]~~
	~~[[Category: Psychrophilic]]~~
	~~[[Category: Temperature]]~~
	~~[[Category: Xylan degradation~~]]

OCA at 17:14, 20 October 2021

2021-10-20T17:14:55Z

← Older revision		Revision as of 17:14, 20 October 2021
Line 3:		Line 3:
	<StructureSection load='2b4f' size='340' side='right'caption='[[2b4f]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='2b4f' size='340' side='right'caption='[[2b4f]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2b4f]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"alteromonas_marinopraesens"_(zobell_and_upham_1944)_baumann_et_al._1972 "alteromonas marinopraesens" (zobell and upham 1944) baumann et al. 1972]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B4F OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2B4F FirstGlance]. <br>		<table><tr><td colspan='2'>[[2b4f]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"alteromonas_marinopraesens"_(zobell_and_upham_1944)_baumann_et_al._1972 "alteromonas marinopraesens" (zobell and upham 1944) baumann et al. 1972]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B4F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2B4F FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><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=XYP:BETA-D-XYLOPYRANOSE'>XYP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1h12\|1h12]], [[1h13\|1h13]], [[1h14\|1h14]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1h12\|1h12]], [[1h13\|1h13]], [[1h14\|1h14]]</div></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Endo-1,4-beta-xylanase Endo-1,4-beta-xylanase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.8 3.2.1.8] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Endo-1,4-beta-xylanase Endo-1,4-beta-xylanase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.8 3.2.1.8] </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=2b4f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b4f OCA], [~~http~~://pdbe.org/2b4f PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2b4f RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2b4f PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2b4f 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=2b4f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b4f OCA], [https://pdbe.org/2b4f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2b4f RCSB], [https://www.ebi.ac.uk/pdbsum/2b4f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2b4f ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 08:06, 19 February 2020

2020-02-19T08:06:35Z

← Older revision		Revision as of 08:06, 19 February 2020
Line 1:		Line 1:

	==Structure Of A Cold-Adapted Family 8 Xylanase in complex with substrate==		==Structure Of A Cold-Adapted Family 8 Xylanase in complex with substrate==
	<StructureSection load='2b4f' size='340' side='right' caption='[[2b4f]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='2b4f' size='340' side='right'caption='[[2b4f]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2b4f]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"alteromonas_marinopraesens"_(zobell_and_upham_1944)_baumann_et_al._1972 "alteromonas marinopraesens" (zobell and upham 1944) baumann et al. 1972]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B4F OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B4F FirstGlance]. <br>		<table><tr><td colspan='2'>[[2b4f]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"alteromonas_marinopraesens"_(zobell_and_upham_1944)_baumann_et_al._1972 "alteromonas marinopraesens" (zobell and upham 1944) baumann et al. 1972]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B4F OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B4F FirstGlance]. <br>
Line 33:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Endo-1,4-beta-xylanase]]		[[Category: Endo-1,4-beta-xylanase]]
			[[Category: Large Structures]]
	[[Category: Beeumen, J J.Van]]		[[Category: Beeumen, J J.Van]]
	[[Category: Collins, T]]		[[Category: Collins, T]]

OCA at 06:31, 16 May 2018

2018-05-16T06:31:55Z

← Older revision		Revision as of 06:31, 16 May 2018
Line 1:		Line 1:

	==Structure Of A Cold-Adapted Family 8 Xylanase in complex with substrate==		==Structure Of A Cold-Adapted Family 8 Xylanase in complex with substrate==
	<StructureSection load='2b4f' size='340' side='right' caption='[[2b4f]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='2b4f' size='340' side='right' caption='[[2b4f]], [[Resolution\|resolution]] 1.95Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1h12\|1h12]], [[1h13\|1h13]], [[1h14\|1h14]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1h12\|1h12]], [[1h13\|1h13]], [[1h14\|1h14]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endo-1,4-beta-xylanase Endo-1,4-beta-xylanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.8 3.2.1.8] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endo-1,4-beta-xylanase Endo-1,4-beta-xylanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.8 3.2.1.8] </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=2b4f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b4f OCA], [http://pdbe.org/2b4f PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2b4f RCSB], [http://www.ebi.ac.uk/pdbsum/2b4f 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=2b4f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b4f OCA], [http://pdbe.org/2b4f PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2b4f RCSB], [http://www.ebi.ac.uk/pdbsum/2b4f PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2b4f 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/b4/2b4f_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/b4/2b4f_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 21:53, 8 February 2016

2016-02-08T21:53:18Z

← Older revision		Revision as of 21:53, 8 February 2016
Line 6:		Line 6:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1h12\|1h12]], [[1h13\|1h13]], [[1h14\|1h14]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1h12\|1h12]], [[1h13\|1h13]], [[1h14\|1h14]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endo-1,4-beta-xylanase Endo-1,4-beta-xylanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.8 3.2.1.8] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endo-1,4-beta-xylanase Endo-1,4-beta-xylanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.8 3.2.1.8] </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=2b4f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b4f OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2b4f RCSB], [http://www.ebi.ac.uk/pdbsum/2b4f 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=2b4f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b4f OCA], [http://pdbe.org/2b4f PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2b4f RCSB], [http://www.ebi.ac.uk/pdbsum/2b4f PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 16:		Line 16:
	<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=2b4f ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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 2b4f" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 12:23, 18 March 2015

2015-03-18T12:23:43Z

← Older revision		Revision as of 12:23, 18 March 2015
Line 2:		Line 2:
	<StructureSection load='2b4f' size='340' side='right' caption='[[2b4f]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='2b4f' size='340' side='right' caption='[[2b4f]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2b4f]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Pseudoalteromonas_haloplanktis Pseudoalteromonas haloplanktis~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B4F OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B4F FirstGlance]. <br>		<table><tr><td colspan='2'>[[2b4f]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"alteromonas_marinopraesens"_(zobell_and_upham_1944)_baumann_et_al._1972 "alteromonas marinopraesens" (zobell and upham 1944) baumann et al. 1972]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B4F OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B4F FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><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=XYP:BETA-D-XYLOPYRANOSE'>XYP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1h12\|1h12]], [[1h13\|1h13]], [[1h14\|1h14]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1h12\|1h12]], [[1h13\|1h13]], [[1h14\|1h14]]</td></tr>
Line 31:		Line 31:
	</StructureSection>		</StructureSection>
	[[Category: Endo-1,4-beta-xylanase]]		[[Category: Endo-1,4-beta-xylanase]]
	~~[[Category: Pseudoalteromonas haloplanktis]]~~
	[[Category: Beeumen, J J.Van]]		[[Category: Beeumen, J J.Van]]
	[[Category: Collins, T]]		[[Category: Collins, T]]

OCA at 10:18, 8 January 2015

2015-01-08T10:18:24Z

← Older revision		Revision as of 10:18, 8 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2b4f]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudoalteromonas_haloplanktis Pseudoalteromonas haloplanktis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B4F OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B4F FirstGlance]. <br>		<table><tr><td colspan='2'>[[2b4f]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudoalteromonas_haloplanktis Pseudoalteromonas haloplanktis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B4F OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B4F FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><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=XYP:BETA-D-XYLOPYRANOSE'>XYP</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1h12\|1h12]], [[1h13\|1h13]], [[1h14\|1h14]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1h12\|1h12]], [[1h13\|1h13]], [[1h14\|1h14]]</td></tr>
	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endo-1,4-beta-xylanase Endo-1,4-beta-xylanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.8 3.2.1.8] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endo-1,4-beta-xylanase Endo-1,4-beta-xylanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.8 3.2.1.8] </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=2b4f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b4f OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2b4f RCSB], [http://www.ebi.ac.uk/pdbsum/2b4f 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=2b4f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b4f OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2b4f RCSB], [http://www.ebi.ac.uk/pdbsum/2b4f 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 32:		Line 32:
	[[Category: Endo-1,4-beta-xylanase]]		[[Category: Endo-1,4-beta-xylanase]]
	[[Category: Pseudoalteromonas haloplanktis]]		[[Category: Pseudoalteromonas haloplanktis]]
	[[Category: Beeumen, J J.Van.]]		[[Category: Beeumen, J J.Van]]
	[[Category: Collins, T.]]		[[Category: Collins, T]]
	[[Category: Feller, G.]]		[[Category: Feller, G]]
	[[Category: Savvides, S N.]]		[[Category: Savvides, S N]]
	[[Category: Vos, D De.]]		[[Category: Vos, D De]]
	[[Category: Cold adaptation]]		[[Category: Cold adaptation]]
	[[Category: Family 8]]		[[Category: Family 8]]

OCA at 02:41, 30 September 2014

2014-09-30T02:41:20Z

← Older revision		Revision as of 02:41, 30 September 2014
Line 1:		Line 1:
	[[Image:~~2b4f~~.~~png~~\|~~left~~\|~~200px~~]]		==Structure Of A Cold-Adapted Family 8 Xylanase in complex with substrate==
			<StructureSection load='2b4f' size='340' side='right' caption='[[2b4f]], [[Resolution\|resolution]] 1.95Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[2b4f]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudoalteromonas_haloplanktis Pseudoalteromonas haloplanktis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B4F OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B4F FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</scene><br>
			<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1h12\|1h12]], [[1h13\|1h13]], [[1h14\|1h14]]</td></tr>
			<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endo-1,4-beta-xylanase Endo-1,4-beta-xylanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.8 3.2.1.8] </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=2b4f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b4f OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2b4f RCSB], [http://www.ebi.ac.uk/pdbsum/2b4f 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/b4/2b4f_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 structures of inactive mutants D144A and E78Q of the glycoside hydrolase family 8 (GH-8) endo-beta-1,4-d-xylanase (pXyl) from the Antarctic bacterium Pseudoalteromonas haloplanktis TAH3a in complex with its substrate xylopentaose (at 1.95 A resolution) and product xylotriose (at 1.9 A resolution) have been determined by X-ray crystallography. A detailed comparative analysis of these with the apo-enzyme and with other GH-8 structures indicates an induced fit mechanism upon ligand binding whereby a number of conformational changes and, in particular, a repositioning of the proton donor into a more catalytically competent position occurs. This has also allowed for the description of protein-ligand interactions in this enzyme and for the demarcation of subsites -3 to +3. An in-depth analysis of each of these subsites gives an insight into the structure-function relationship of this enzyme and the basis of xylose/glucose discrimination in family 8 glycoside hydrolases. Furthermore, the structure of the -1/+1 subsite spanning complex reveals that the substrate is distorted from its ground state conformation. Indeed, structural analysis and in silico docking studies indicate that substrate hydrolysis in GH-8 members is preceded by a conformational change, away from the substrate ground-state chair conformation, to a pretransition state local minimum (2)S(O) conformation.

	~~{{STRUCTURE_2b4f\| PDB=2b4f \| SCENE= }}~~		Oligosaccharide binding in family 8 glycosidases: crystal structures of active-site mutants of the beta-1,4-xylanase pXyl from Pseudoaltermonas haloplanktis TAH3a in complex with substrate and product.,De Vos D, Collins T, Nerinckx W, Savvides SN, Claeyssens M, Gerday C, Feller G, Van Beeumen J Biochemistry. 2006 Apr 18;45(15):4797-807. PMID:16605248<ref>PMID:16605248</ref>

	~~===Structure Of A Cold-Adapted Family 8 Xylanase in complex with substrate===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_16605248}}~~		== References ==
			<references/>
	~~==About this Structure==~~		__TOC__
	~~[[2b4f]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Pseudoalteromonas_haloplanktis Pseudoalteromonas haloplanktis]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2B4F OCA].~~		</StructureSection>

	==~~Reference~~==
	<~~ref group="xtra">PMID:016605248<~~/~~ref~~><~~references group="xtra"~~/>
	[[Category: Endo-1,4-beta-xylanase]]		[[Category: Endo-1,4-beta-xylanase]]
	[[Category: Pseudoalteromonas haloplanktis]]		[[Category: Pseudoalteromonas haloplanktis]]

OCA: Protected "2b4f" [edit=sysop:move=sysop]

2013-01-06T11:53:46Z

Protected "2b4f" [edit=sysop:move=sysop]

← Older revision	Revision as of 11:53, 6 January 2013
(No difference)