3rdk - Revision history

OCA at 10:53, 21 February 2024

2024-02-21T10:53:52Z

← Older revision		Revision as of 10:53, 21 February 2024
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	<StructureSection load='3rdk' size='340' side='right'caption='[[3rdk]], [[Resolution\|resolution]] 1.49Å' scene=''>		<StructureSection load='3rdk' size='340' side='right'caption='[[3rdk]], [[Resolution\|resolution]] 1.49Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3rdk]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Paesj Paesj~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RDK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RDK FirstGlance]. <br>		<table><tr><td colspan='2'>[[3rdk]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Paenibacillus_sp._JDR-2 Paenibacillus sp. JDR-2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RDK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RDK FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~"><~~scene name='pdbligand=CL:CHLORIDE+ION'~~>CL</~~scene~~>, <~~scene name~~='~~pdbligand~~=~~GOL~~:~~GLYCEROL'~~>~~GOL~~</~~scene~~>, <~~scene name~~=~~'pdbligand~~=~~MG:MAGNESIUM+ION'~~>~~MG</scene>,~~ <scene name='pdbligand=~~XYS~~:~~XYLOPYRANOSE~~'>~~XYS~~</scene>, <scene name='pdbligand=GCV:4-O-METHYL-ALPHA-D-GLUCURONIC+ACID'>GCV</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]] 1.49Å</td></tr>
	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td><~~td class~~=~~"sblockDat">Pjdr2_0221 ([https~~:~~//www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=324057 PAESJ])</td~~></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GCV:4-O-METHYL-ALPHA-D-GLUCURONIC+ACID'>GCV</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</scene>, <scene name='pdbligand=XYS:XYLOPYRANOSE'>XYS</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=3rdk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rdk OCA], [https://pdbe.org/3rdk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3rdk RCSB], [https://www.ebi.ac.uk/pdbsum/3rdk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3rdk 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=3rdk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rdk OCA], [https://pdbe.org/3rdk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3rdk RCSB], [https://www.ebi.ac.uk/pdbsum/3rdk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3rdk ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/XYNA1_PAESJ XYNA1_PAESJ]] Catalyzes the depolymerization of methylglucuronoxylan (MeGAXn), a beta-1,4 xylan in which 10% to 20% of the xylose residues are substituted with alpha-1,2-4-O-methylglucuronate (MeGA) residues, which is predominant in hemicellulose fractions of hardwood and crop residues. Generates xylobiose (X2) and aldotetrauronate (MeGAX3) as the predominant products of MeGAXn hydrolysis; these products are then directly assimilated by the bacterium for subsequent metabolism. Thus, allows the bacterium to efficiently use polymeric MeGAXn as a growth substrate.<ref>PMID:16461704</ref>		[https://www.uniprot.org/uniprot/XYNA1_PAESJ XYNA1_PAESJ] Catalyzes the depolymerization of methylglucuronoxylan (MeGAXn), a beta-1,4 xylan in which 10% to 20% of the xylose residues are substituted with alpha-1,2-4-O-methylglucuronate (MeGA) residues, which is predominant in hemicellulose fractions of hardwood and crop residues. Generates xylobiose (X2) and aldotetrauronate (MeGAX3) as the predominant products of MeGAXn hydrolysis; these products are then directly assimilated by the bacterium for subsequent metabolism. Thus, allows the bacterium to efficiently use polymeric MeGAXn as a growth substrate.<ref>PMID:16461704</ref>
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	The Gram-positive bacterium Paenibacillus sp. JDR-2 (PbJDR2) has been shown to have novel properties in the utilization of the abundant but chemically complex hemicellulosic sugar glucuronoxylan. Xylanase A1 of PbJDR2 (PbXynA1) has been implicated in an efficient process in which extracellular depolymerization of this polysaccharide is coupled to assimilation and intracellular metabolism. PbXynA1is a 154kDa cell wall anchored multimodular glycosyl hydrolase family 10 (GH10) xylanase. In this work, the 38kDa catalytic module of PbXynA1 has been structurally characterized revealing several new features not previously observed in structures of GH10 xylanases. These features are thought to facilitate hydrolysis of highly substituted, chemically complex xylans that may be the form found in close proximity to the cell wall of PbJDR2, an organism shown to have a preference for growth on polymeric glucuronoxylan.

	Novel structural features of xylanase A1 from Paenibacillus sp. JDR-2.,St John FJ, Preston JF, Pozharski E J Struct Biol. 2012 Sep 18. pii: S1047-8477(12)00249-3. doi:, 10.1016/j.jsb.2012.09.007. PMID:23000703<ref>PMID:23000703</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 3rdk" style="background-color:#fffaf0;"></div~~>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	~~[[Category: Endo-1,4-beta-xylanase]]~~
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Paesj]]~~		[[Category: Paenibacillus sp. JDR-2]]
	~~[[Category: John, F J~~.St]]		[[Category: Pozharski E]]
	[[Category: Pozharski, E]]		[[Category: St John FJ]]
	[[Category: ~~Gh10]]~~
	~~[[Category: Hydrolase]]~~
	~~[[Category: Xylanase~~]]

OCA at 05:59, 15 June 2022

2022-06-15T05:59:06Z

← Older revision		Revision as of 05:59, 15 June 2022
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	==Protein crystal structure of xylanase A1 of Paenibacillus sp. JDR-2==		==Protein crystal structure of xylanase A1 of Paenibacillus sp. JDR-2==
	<StructureSection load='3rdk' size='340' side='right' caption='[[3rdk]], [[Resolution\|resolution]] 1.49Å' scene=''>		<StructureSection load='3rdk' size='340' side='right'caption='[[3rdk]], [[Resolution\|resolution]] 1.49Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3rdk]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Paesj Paesj]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RDK OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3RDK FirstGlance]. <br>		<table><tr><td colspan='2'>[[3rdk]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Paesj Paesj]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RDK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RDK FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=~~GCV~~:~~4-O-METHYL-ALPHA-D-GLUCURONIC+ACID~~'>~~GCV~~</scene>, <scene name='pdbligand=~~GOL~~:~~GLYCEROL~~'>~~GOL~~</scene>, <scene name='pdbligand=MG:~~MAGNESIUM+ION~~'>MG</scene>, <scene name='pdbligand=~~XYP~~:~~BETA~~-D-~~XYLOPYRANOSE~~'>~~XYP~~</scene>, <scene name='pdbligand=~~XYS~~:XYLOPYRANOSE'>~~XYS~~</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=XYS:XYLOPYRANOSE'>XYS</scene>, <scene name='pdbligand=GCV:4-O-METHYL-ALPHA-D-GLUCURONIC+ACID'>GCV</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pjdr2_0221 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=324057 PAESJ])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pjdr2_0221 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=324057 PAESJ])</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=3rdk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rdk OCA], [~~http~~://pdbe.org/3rdk PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3rdk RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3rdk PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3rdk 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=3rdk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rdk OCA], [https://pdbe.org/3rdk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3rdk RCSB], [https://www.ebi.ac.uk/pdbsum/3rdk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3rdk ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/XYNA1_PAESJ XYNA1_PAESJ]] Catalyzes the depolymerization of methylglucuronoxylan (MeGAXn), a beta-1,4 xylan in which 10% to 20% of the xylose residues are substituted with alpha-1,2-4-O-methylglucuronate (MeGA) residues, which is predominant in hemicellulose fractions of hardwood and crop residues. Generates xylobiose (X2) and aldotetrauronate (MeGAX3) as the predominant products of MeGAXn hydrolysis; these products are then directly assimilated by the bacterium for subsequent metabolism. Thus, allows the bacterium to efficiently use polymeric MeGAXn as a growth substrate.<ref>PMID:16461704</ref>		[[https://www.uniprot.org/uniprot/XYNA1_PAESJ XYNA1_PAESJ]] Catalyzes the depolymerization of methylglucuronoxylan (MeGAXn), a beta-1,4 xylan in which 10% to 20% of the xylose residues are substituted with alpha-1,2-4-O-methylglucuronate (MeGA) residues, which is predominant in hemicellulose fractions of hardwood and crop residues. Generates xylobiose (X2) and aldotetrauronate (MeGAX3) as the predominant products of MeGAXn hydrolysis; these products are then directly assimilated by the bacterium for subsequent metabolism. Thus, allows the bacterium to efficiently use polymeric MeGAXn as a growth substrate.<ref>PMID:16461704</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 25:		Line 25:
	</StructureSection>		</StructureSection>
	[[Category: Endo-1,4-beta-xylanase]]		[[Category: Endo-1,4-beta-xylanase]]
			[[Category: Large Structures]]
	[[Category: Paesj]]		[[Category: Paesj]]
	[[Category: John, F J.St]]		[[Category: John, F J.St]]

OCA at 09:40, 25 October 2017

2017-10-25T09:40:44Z

← Older revision		Revision as of 09:40, 25 October 2017
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3rdk]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Paesj Paesj]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RDK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RDK FirstGlance]. <br>		<table><tr><td colspan='2'>[[3rdk]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Paesj Paesj]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RDK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RDK FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=~~GOL~~:~~GLYCEROL~~'>~~GOL~~</scene>, <scene name='pdbligand=MG:~~MAGNESIUM+ION~~'>MG</scene>, <scene name='pdbligand=~~XYS~~:~~XYLOPYRANOSE~~'>~~XYS~~</scene>, <scene name='pdbligand=~~GCV~~:~~4-O-METHYL-ALPHA~~-D-~~GLUCURONIC+ACID~~'>~~GCV~~</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=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GCV:4-O-METHYL-ALPHA-D-GLUCURONIC+ACID'>GCV</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</scene>, <scene name='pdbligand=XYS:XYLOPYRANOSE'>XYS</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pjdr2_0221 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=324057 PAESJ])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pjdr2_0221 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=324057 PAESJ])</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>

OCA at 18:28, 4 August 2016

2016-08-04T18:28:59Z

← Older revision		Revision as of 18:28, 4 August 2016
Line 1:		Line 1:

	==Protein crystal structure of xylanase A1 of Paenibacillus sp. JDR-2==		==Protein crystal structure of xylanase A1 of Paenibacillus sp. JDR-2==
	<StructureSection load='3rdk' size='340' side='right' caption='[[3rdk]], [[Resolution\|resolution]] 1.49Å' scene=''>		<StructureSection load='3rdk' size='340' side='right' caption='[[3rdk]], [[Resolution\|resolution]] 1.49Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3rdk]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Paenibacillus_sp._jdr-2 Paenibacillus sp. jdr-2~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RDK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RDK FirstGlance]. <br>		<table><tr><td colspan='2'>[[3rdk]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Paesj Paesj]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RDK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RDK FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=XYS:XYLOPYRANOSE'>XYS</scene>, <scene name='pdbligand=GCV:4-O-METHYL-ALPHA-D-GLUCURONIC+ACID'>GCV</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=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=XYS:XYLOPYRANOSE'>XYS</scene>, <scene name='pdbligand=GCV:4-O-METHYL-ALPHA-D-GLUCURONIC+ACID'>GCV</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pjdr2_0221 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=324057 ~~Paenibacillus sp. JDR-2~~])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pjdr2_0221 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=324057 PAESJ])</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=3rdk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rdk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3rdk RCSB], [http://www.ebi.ac.uk/pdbsum/3rdk 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=3rdk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rdk OCA], [http://pdbe.org/3rdk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3rdk RCSB], [http://www.ebi.ac.uk/pdbsum/3rdk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3rdk ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	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 3rdk" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
Line 23:		Line 25:
	</StructureSection>		</StructureSection>
	[[Category: Endo-1,4-beta-xylanase]]		[[Category: Endo-1,4-beta-xylanase]]
	[[Category: ~~Paenibacillus sp. jdr-2~~]]		[[Category: Paesj]]
	[[Category: John, F J.St]]		[[Category: John, F J.St]]
	[[Category: Pozharski, E]]		[[Category: Pozharski, E]]

OCA at 11:54, 25 December 2014

2014-12-25T11:54:48Z

← Older revision		Revision as of 11:54, 25 December 2014
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	<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=3rdk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rdk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3rdk RCSB], [http://www.ebi.ac.uk/pdbsum/3rdk 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=3rdk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rdk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3rdk RCSB], [http://www.ebi.ac.uk/pdbsum/3rdk PDBsum]</span></td></tr>
	</table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/XYNA1_PAESJ XYNA1_PAESJ]] Catalyzes the depolymerization of methylglucuronoxylan (MeGAXn), a beta-1,4 xylan in which 10% to 20% of the xylose residues are substituted with alpha-1,2-4-O-methylglucuronate (MeGA) residues, which is predominant in hemicellulose fractions of hardwood and crop residues. Generates xylobiose (X2) and aldotetrauronate (MeGAX3) as the predominant products of MeGAXn hydrolysis; these products are then directly assimilated by the bacterium for subsequent metabolism. Thus, allows the bacterium to efficiently use polymeric MeGAXn as a growth substrate.<ref>PMID:16461704</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 13:10, 9 December 2014

2014-12-09T13:10:06Z

← Older revision		Revision as of 13:10, 9 December 2014
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	[[~~Image~~:~~3rdk~~.~~png~~\|~~left~~\|~~200px~~]]		==Protein crystal structure of xylanase A1 of Paenibacillus sp. JDR-2==
			<StructureSection load='3rdk' size='340' side='right' caption='[[3rdk]], [[Resolution\|resolution]] 1.49Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[3rdk]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Paenibacillus_sp._jdr-2 Paenibacillus sp. jdr-2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RDK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RDK FirstGlance]. <br>
			</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=XYS:XYLOPYRANOSE'>XYS</scene>, <scene name='pdbligand=GCV:4-O-METHYL-ALPHA-D-GLUCURONIC+ACID'>GCV</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</scene></td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pjdr2_0221 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=324057 Paenibacillus sp. JDR-2])</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=3rdk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rdk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3rdk RCSB], [http://www.ebi.ac.uk/pdbsum/3rdk PDBsum]</span></td></tr>
			</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			The Gram-positive bacterium Paenibacillus sp. JDR-2 (PbJDR2) has been shown to have novel properties in the utilization of the abundant but chemically complex hemicellulosic sugar glucuronoxylan. Xylanase A1 of PbJDR2 (PbXynA1) has been implicated in an efficient process in which extracellular depolymerization of this polysaccharide is coupled to assimilation and intracellular metabolism. PbXynA1is a 154kDa cell wall anchored multimodular glycosyl hydrolase family 10 (GH10) xylanase. In this work, the 38kDa catalytic module of PbXynA1 has been structurally characterized revealing several new features not previously observed in structures of GH10 xylanases. These features are thought to facilitate hydrolysis of highly substituted, chemically complex xylans that may be the form found in close proximity to the cell wall of PbJDR2, an organism shown to have a preference for growth on polymeric glucuronoxylan.

	~~{{STRUCTURE_3rdk\| PDB=3rdk \| SCENE= }}~~		Novel structural features of xylanase A1 from Paenibacillus sp. JDR-2.,St John FJ, Preston JF, Pozharski E J Struct Biol. 2012 Sep 18. pii: S1047-8477(12)00249-3. doi:, 10.1016/j.jsb.2012.09.007. PMID:23000703<ref>PMID:23000703</ref>

	~~===Protein crystal structure~~ of ~~xylanase A1~~ of ~~Paenibacillus sp~~. ~~JDR-2===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_23000703}}~~		== References ==
			<references/>
	==~~About this Structure~~==		__TOC__
	~~[[3rdk]] is a 2 chain structure with sequence from [http:~~//~~en.wikipedia.org/wiki/Paenibacillus_sp._jdr-2 Paenibacillus sp. jdr-2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RDK OCA].~~		</StructureSection>
	[[Category: Endo-1,4-beta-xylanase]]		[[Category: Endo-1,4-beta-xylanase]]
	[[Category: Paenibacillus sp. jdr-2]]		[[Category: Paenibacillus sp. jdr-2]]
	[[Category: John, F J.St.]]		[[Category: John, F J.St]]
	[[Category: Pozharski, E.]]		[[Category: Pozharski, E]]
	[[Category: Gh10]]		[[Category: Gh10]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Xylanase]]		[[Category: Xylanase]]

OCA at 10:28, 14 November 2012

2012-11-14T10:28:42Z

← Older revision		Revision as of 10:28, 14 November 2012
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	===Protein crystal structure of xylanase A1 of Paenibacillus sp. JDR-2===		===Protein crystal structure of xylanase A1 of Paenibacillus sp. JDR-2===

			{{ABSTRACT_PUBMED_23000703}}

	==About this Structure==		==About this Structure==

OCA at 07:05, 14 November 2012

2012-11-14T07:05:44Z

← Older revision		Revision as of 07:05, 14 November 2012
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	===Protein crystal structure of xylanase A1 of Paenibacillus sp. JDR-2===		===Protein crystal structure of xylanase A1 of Paenibacillus sp. JDR-2===

	~~{{ABSTRACT_PUBMED_23000703}}~~

	==About this Structure==		==About this Structure==
	[[3rdk]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RDK OCA].		[[3rdk]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Paenibacillus_sp._jdr-2 Paenibacillus sp. jdr-2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RDK OCA].
	[[Category: Endo-1,4-beta-xylanase]]		[[Category: Endo-1,4-beta-xylanase]]
			[[Category: Paenibacillus sp. jdr-2]]
	[[Category: John, F J.St.]]		[[Category: John, F J.St.]]
	[[Category: Pozharski, E.]]		[[Category: Pozharski, E.]]

OCA at 06:15, 10 October 2012

2012-10-10T06:15:55Z

← Older revision		Revision as of 06:15, 10 October 2012
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	[[Image:3rdk.~~jpg~~\|left\|200px]]		[[Image:3rdk.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_3rdk", 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_3rdk\| PDB=3rdk \| SCENE= }}		{{STRUCTURE_3rdk\| PDB=3rdk \| SCENE= }}

	===Protein crystal structure of xylanase A1 of Paenibacillus sp. JDR-2===		===Protein crystal structure of xylanase A1 of Paenibacillus sp. JDR-2===

			{{ABSTRACT_PUBMED_23000703}}

	==About this Structure==		==About this Structure==
	[[3rdk]] is a 2 chain structure ~~with sequence from [http://en.wikipedia.org/wiki/Bacteria Bacteria]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RDK OCA].		[[3rdk]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RDK OCA].
	~~[[Category: Bacteria]]~~
	[[Category: Endo-1,4-beta-xylanase]]		[[Category: Endo-1,4-beta-xylanase]]
	[[Category: John, F J.St.]]		[[Category: John, F J.St.]]

OCA at 06:12, 4 April 2012

2012-04-04T06:12:24Z

← Older revision		Revision as of 06:12, 4 April 2012
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	~~'''Unreleased structure'''~~		[[Image:3rdk.jpg\|left\|200px]]

	The ~~entry~~ 3rdk ~~is ON HOLD~~ ~~until Paper Publication~~		<!--
			The line below this paragraph, containing "STRUCTURE_3rdk", 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_3rdk\| PDB=3rdk \| SCENE= }}

	~~Authors: Pozharski, E., St John, F.J~~.		===Protein crystal structure of xylanase A1 of Paenibacillus sp. JDR-2===

	~~Description~~: ~~Protein crystal structure of~~ xylanase ~~A1 of Paenibacillus sp~~. ~~JDR-2~~
			==About this Structure==
			[[3rdk]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacteria Bacteria]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RDK OCA].
			[[Category: Bacteria]]
			[[Category: Endo-1,4-beta-xylanase]]
			[[Category: John, F J.St.]]
			[[Category: Pozharski, E.]]
			[[Category: Gh10]]
			[[Category: Hydrolase]]
			[[Category: Xylanase]]