4w8l - Revision history

OCA at 10:41, 10 January 2024

OCA — Wed, 10 Jan 2024 10:41:11 GMT

←Older revision		Revision as of 10:41, 10 January 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4w8l]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Paenibacillus_barcinonensis Paenibacillus barcinonensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4W8L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4W8L FirstGlance]. <br>		<table><tr><td colspan='2'>[[4w8l]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Paenibacillus_barcinonensis Paenibacillus barcinonensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4W8L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4W8L 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></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]] 1.76Å</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></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=4w8l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4w8l OCA], [https://pdbe.org/4w8l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4w8l RCSB], [https://www.ebi.ac.uk/pdbsum/4w8l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4w8l 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=4w8l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4w8l OCA], [https://pdbe.org/4w8l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4w8l RCSB], [https://www.ebi.ac.uk/pdbsum/4w8l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4w8l ProSAT]</span></td></tr>
	</table>		</table>

OCA at 06:57, 7 April 2023

OCA — Fri, 07 Apr 2023 06:57:09 GMT

←Older revision		Revision as of 06:57, 7 April 2023
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	<StructureSection load='4w8l' size='340' side='right'caption='[[4w8l]], [[Resolution\|resolution]] 1.76Å' scene=''>		<StructureSection load='4w8l' size='340' side='right'caption='[[4w8l]], [[Resolution\|resolution]] 1.76Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4w8l]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Bacillus_sp._bp-23 Bacillus sp. bp-23~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4W8L OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4W8L FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4w8l]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Paenibacillus_barcinonensis Paenibacillus barcinonensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4W8L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4W8L 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~~></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></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">xynC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=198119 Bacillus sp. BP-23])</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=4w8l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4w8l OCA], [https://pdbe.org/4w8l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4w8l RCSB], [https://www.ebi.ac.uk/pdbsum/4w8l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4w8l ProSAT]</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=4w8l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4w8l OCA], [~~http~~://pdbe.org/4w8l PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4w8l RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4w8l PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4w8l ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/XYNC_PAEBA XYNC_PAEBA]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacillus sp. bp-23]]
-	[[Category: Endo-1,4-beta-xylanase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Sainz-Polo, M A~~]]	+	[[Category: Paenibacillus barcinonensis]]
-	[[Category: ~~Sanz~~-~~Aparicio, J~~]]	+	[[Category: Sainz-Polo MA]]
-	[[Category: ~~Glycoside hydrolase]]~~	+	[[Category: Sanz-Aparicio J]]
-	~~[[Category: Hydrolase~~]]	+

OCA at 07:51, 23 May 2019

OCA — Thu, 23 May 2019 07:51:23 GMT

←Older revision		Revision as of 07:51, 23 May 2019
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	==Structure of GH10 from Paenibacillus barcinonensis==		==Structure of GH10 from Paenibacillus barcinonensis==
-	<StructureSection load='4w8l' size='340' side='right' caption='[[4w8l]], [[Resolution\|resolution]] 1.76Å' scene=''>	+	<StructureSection load='4w8l' size='340' side='right'caption='[[4w8l]], [[Resolution\|resolution]] 1.76Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4w8l]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4W8L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4W8L FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4w8l]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_sp._bp-23 Bacillus sp. bp-23]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4W8L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4W8L 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></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></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">xynC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=198119 Bacillus sp. BP-23])</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=4w8l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4w8l OCA], [http://pdbe.org/4w8l PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4w8l RCSB], [http://www.ebi.ac.uk/pdbsum/4w8l PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4w8l ProSAT]</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=4w8l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4w8l OCA], [http://pdbe.org/4w8l PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4w8l RCSB], [http://www.ebi.ac.uk/pdbsum/4w8l PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4w8l ProSAT]</span></td></tr>
Line 21:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus sp. bp-23]]
	[[Category: Endo-1,4-beta-xylanase]]		[[Category: Endo-1,4-beta-xylanase]]
		+	[[Category: Large Structures]]
	[[Category: Sainz-Polo, M A]]		[[Category: Sainz-Polo, M A]]
	[[Category: Sanz-Aparicio, J]]		[[Category: Sanz-Aparicio, J]]
	[[Category: Glycoside hydrolase]]		[[Category: Glycoside hydrolase]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 14:17, 27 April 2017

OCA — Thu, 27 Apr 2017 14:17:15 GMT

←Older revision		Revision as of 14:17, 27 April 2017
Line 1:		Line 1:
		+
	==Structure of GH10 from Paenibacillus barcinonensis==		==Structure of GH10 from Paenibacillus barcinonensis==
	<StructureSection load='4w8l' size='340' side='right' caption='[[4w8l]], [[Resolution\|resolution]] 1.76Å' scene=''>		<StructureSection load='4w8l' size='340' side='right' caption='[[4w8l]], [[Resolution\|resolution]] 1.76Å' scene=''>
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></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></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=4w8l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4w8l OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4w8l RCSB], [http://www.ebi.ac.uk/pdbsum/4w8l 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=4w8l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4w8l OCA], [http://pdbe.org/4w8l PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4w8l RCSB], [http://www.ebi.ac.uk/pdbsum/4w8l PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4w8l ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	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 4w8l" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 12:33, 3 June 2015

OCA — Wed, 03 Jun 2015 12:33:14 GMT

←Older revision		Revision as of 12:33, 3 June 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Structure of GH10 from Paenibacillus barcinonensis==
		+	<StructureSection load='4w8l' size='340' side='right' caption='[[4w8l]], [[Resolution\|resolution]] 1.76Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4w8l]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4W8L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4W8L 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></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=4w8l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4w8l OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4w8l RCSB], [http://www.ebi.ac.uk/pdbsum/4w8l PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Elucidating the molecular mechanisms regulating multimodularity is a challenging task. Paenibacillus barcinonensis Xyn10C is a 120 kD modular enzyme that presents the CBM22/GH10/CBM9 architecture found in a subset of large xylanases. We report here the three-dimensional structure of the Xyn10C N-terminal region, containing the xylan-binding CBM22-1-CBM22-2 tandem (Xyn10C-XBD), which represents the first solved crystal structure of two contiguous CBM22. Xyn10C-XBD is folded into two separate CBM22 modules linked by a flexible segment that endows the tandem with extraordinary plasticity. Each isolated domain have been expressed and crystallized and their binding abilities have been investigated. Both domains contain the RW/YYYE motif required for xylan binding. However, crystallographic analysis of CBM22-2 complexes shows Trp308 as an additional binding determinant. The long loop containing Trp308 creates a platform that possibly contributes to recognize precise decorations at subsite S2. CBM22-2 may thus define a subset of xylan-binding CBM22s directed to particular regions of the polysaccharide. Affinity electrophoresis reveals Xyn10C-XBD binds arabinoxylans more tightly, more apparent when CBM22-2 is tested against highly substituted xylan. The crystal structure of the catalytic domain, also reported, shows the capacity of the active site to accommodate xylan substitutions at almost all subsites. The structural differences found at both Xyn10C-XBD domains are consistent with the ITC experiments showing two sites with different affinities in the tandem. On the basis of the CBM22 distinct characteristics, a deliver strategy of Xyn10C mediated by Xyn10C-XBD is proposed.

-	~~The entry 4w8l is ON HOLD until Paper Publication~~	+	Exploring multimodularity in plant cell wall deconstruction: structural and functional analysis of Xyn10C containing the CBM22-1-CBM22-2 tandem.,Sainz-Polo MA, Gonzalez B, Menendez M, Pastor FI, Sanz-Aparicio J J Biol Chem. 2015 May 22. pii: jbc.M115.659300. PMID:26001782<ref>PMID:26001782</ref>

-	~~Authors: Sainz-Polo~~, M.A.~~, Sanz-Aparicio, J~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description: Structure of GH10 from Paenibacillus barcinonensis~~	+	== References ==
-	[[Category: ~~Unreleased Structures~~]]	+	<references/>
-	[[Category: Sainz-Polo, M.A]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Endo-1,4-beta-xylanase]]
		+	[[Category: Sainz-Polo, M A]]
	[[Category: Sanz-Aparicio, J]]		[[Category: Sanz-Aparicio, J]]
		+	[[Category: Glycoside hydrolase]]
		+	[[Category: Hydrolase]]

OCA at 14:27, 28 January 2015

OCA — Wed, 28 Jan 2015 14:27:54 GMT

←Older revision		Revision as of 14:27, 28 January 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4w8l is ON HOLD	+	The entry 4w8l is ON HOLD until Paper Publication

	Authors: Sainz-Polo, M.A., Sanz-Aparicio, J.		Authors: Sainz-Polo, M.A., Sanz-Aparicio, J.

OCA at 19:12, 24 December 2014

OCA — Wed, 24 Dec 2014 19:12:32 GMT

←Older revision		Revision as of 19:12, 24 December 2014
Line 6:		Line 6:

	Description: Structure of GH10 from Paenibacillus barcinonensis		Description: Structure of GH10 from Paenibacillus barcinonensis
		+	[[Category: Unreleased Structures]]
		+	[[Category: Sainz-Polo, M.A]]
		+	[[Category: Sanz-Aparicio, J]]

OCA: Protected "4w8l" [edit=sysop:move=sysop]

OCA — Thu, 04 Sep 2014 04:48:30 GMT

Protected "4w8l" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:48, 4 September 2014

OCA: New page: '''Unreleased structure''' The entry 4w8l is ON HOLD Authors: Sainz-Polo, M.A., Sanz-Aparicio, J. Description: Structure of GH10 from Paenibacillus barcinonensis

OCA — Thu, 04 Sep 2014 04:48:28 GMT

New page: '''Unreleased structure''' The entry 4w8l is ON HOLD Authors: Sainz-Polo, M.A., Sanz-Aparicio, J. Description: Structure of GH10 from Paenibacillus barcinonensis

New page

'''Unreleased structure'''

The entry 4w8l is ON HOLD

Authors: Sainz-Polo, M.A., Sanz-Aparicio, J.

Description: Structure of GH10 from Paenibacillus barcinonensis