5l6g - Revision history

OCA at 16:08, 4 October 2023

OCA — Wed, 04 Oct 2023 16:08:44 GMT

←Older revision		Revision as of 16:08, 4 October 2023
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	==Xylooligosaccharide oxidase from Myceliophthora thermophila C1 in complex with Xylose==		==Xylooligosaccharide oxidase from Myceliophthora thermophila C1 in complex with Xylose==
-	<StructureSection load='5l6g' size='340' side='right' caption='[[5l6g]], [[Resolution\|resolution]] 1.79Å' scene=''>	+	<StructureSection load='5l6g' size='340' side='right'caption='[[5l6g]], [[Resolution\|resolution]] 1.79Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5l6g]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Myctt Myctt~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5L6G OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5L6G FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5l6g]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermothelomyces_thermophilus_ATCC_42464 Thermothelomyces thermophilus ATCC 42464]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5L6G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5L6G FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</scene>, <scene name='pdbligand=XYS:XYLOPYRANOSE'>XYS</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]] 1.79Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5k8e\|5k8e]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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">MYCTH_102971 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=573729 MYCTT])~~</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=5l6g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5l6g OCA], [https://pdbe.org/5l6g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5l6g RCSB], [https://www.ebi.ac.uk/pdbsum/5l6g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5l6g 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=5l6g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5l6g OCA], [~~http~~://pdbe.org/5l6g PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5l6g RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5l6g PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5l6g ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/XYLO_MYCTT XYLO_MYCTT] Catalyzes the selective oxidation of C1 hydroxyl moieties on mono-, oligo- and polysaccharides with concomitant reduction of molecular oxygen to hydrogen peroxide. This results in the formation of the corresponding lactones, which typically undergo spontaneous hydrolysis. Xylooligosaccharide oxidase is able to oxidize a variety of substrates including D-xylose, D-cellobiose, lactose and arabinose. The enzyme acts primarily on xylooligosaccharides, indicating that it prefers pentose-based oligosaccharides over hexose-based oligosaccharides.<ref>PMID:27629413</ref>
	<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: ~~Myctt~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Ferrari, A R~~]]	+	[[Category: Thermothelomyces thermophilus ATCC 42464]]
-	[[Category: ~~Fraaije, M W~~]]	+	[[Category: Ferrari AR]]
-	[[Category: ~~Rozeboom, H J~~]]	+	[[Category: Fraaije MW]]
-	[[Category: ~~Cazy]]~~	+	[[Category: Rozeboom HJ]]
-	~~[[Category: Fad]]~~	+
-	~~[[Category: Oligosaccharide]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Xylan]]~~	+
-	~~[[Category: Xylose~~]]	+

OCA at 07:25, 29 November 2017

OCA — Wed, 29 Nov 2017 07:25:35 GMT

←Older revision		Revision as of 07:25, 29 November 2017
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	<StructureSection load='5l6g' size='340' side='right' caption='[[5l6g]], [[Resolution\|resolution]] 1.79Å' scene=''>		<StructureSection load='5l6g' size='340' side='right' caption='[[5l6g]], [[Resolution\|resolution]] 1.79Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5l6g]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5L6G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5L6G FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5l6g]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Myctt Myctt]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5L6G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5L6G FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</scene>, <scene name='pdbligand=XYS:XYLOPYRANOSE'>XYS</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[~~d_1000221519~~\|~~d_1000221519~~]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5k8e\|5k8e]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MYCTH_102971 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=573729 MYCTT])</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=5l6g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5l6g OCA], [http://pdbe.org/5l6g PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5l6g RCSB], [http://www.ebi.ac.uk/pdbsum/5l6g PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5l6g 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=5l6g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5l6g OCA], [http://pdbe.org/5l6g PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5l6g RCSB], [http://www.ebi.ac.uk/pdbsum/5l6g PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5l6g ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Myctt]]
	[[Category: Ferrari, A R]]		[[Category: Ferrari, A R]]
	[[Category: Fraaije, M W]]		[[Category: Fraaije, M W]]

OCA at 09:05, 3 October 2016

OCA — Mon, 03 Oct 2016 09:05:33 GMT

←Older revision		Revision as of 09:05, 3 October 2016
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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=5l6g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5l6g OCA], [http://pdbe.org/5l6g PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5l6g RCSB], [http://www.ebi.ac.uk/pdbsum/5l6g PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5l6g 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=5l6g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5l6g OCA], [http://pdbe.org/5l6g PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5l6g RCSB], [http://www.ebi.ac.uk/pdbsum/5l6g PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5l6g ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	By inspection of the predicted proteome of the fungus Myceliophthora thermophila C1 for VAO-type flavoprotein oxidases, a putative oligosaccharide oxidase was identified. By homologous expression and subsequent purification the respective protein could be obtained. The protein was found to contain a bicovalently bound FAD cofactor. By screening a large number of carbohydrates, several mono- and oligosaccharides could be identified as substrate. The enzyme exhibits a strong substrate preference towards xylooligosaccharides, hence it is named xylooligosaccharide oxidase (XylO). Chemical analyses of the product formed upon oxidation of xylobiose revealed that the oxidation occurs at C1, yielding xylobionate as product. By elucidation of several XylO crystal structures (in complex with a substrate mimic, xylose and xylobiose), the residues that tune the unique substrate specificity and regioselectivity could be identified. The discovery of this novel oligosaccharide oxidase reveals that the VAO-type flavoprotein family harbors oxidases tuned for specific oligosaccharides. The unique substrate profile of XylO hints to a role in the degradation of xylan derived oligosaccharides by the fungus M. thermophila C1.
		+
		+	Discovery of a xylooligosaccharide oxidase from Myceliophthora thermophila C1.,Ferrari AR, Rozeboom HJ, Dobruchowska JM, van Leeuwen SS, Vugts AS, Koetsier MJ, Visser J, Fraaije MW J Biol Chem. 2016 Sep 14. pii: jbc.M116.741173. PMID:27629413<ref>PMID:27629413</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5l6g" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 13:58, 21 September 2016

OCA — Wed, 21 Sep 2016 13:58:34 GMT

←Older revision		Revision as of 13:58, 21 September 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5l6g is ~~ON HOLD until Paper Publication~~	+	==Xylooligosaccharide oxidase from Myceliophthora thermophila C1 in complex with Xylose==
-		+	<StructureSection load='5l6g' size='340' side='right' caption='[[5l6g]], [[Resolution\|resolution]] 1.79Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5l6g]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5L6G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5L6G FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</scene>, <scene name='pdbligand=XYS:XYLOPYRANOSE'>XYS</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[d_1000221519\|d_1000221519]]</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=5l6g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5l6g OCA], [http://pdbe.org/5l6g PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5l6g RCSB], [http://www.ebi.ac.uk/pdbsum/5l6g PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5l6g ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Ferrari, A R]]
		+	[[Category: Fraaije, M W]]
		+	[[Category: Rozeboom, H J]]
		+	[[Category: Cazy]]
		+	[[Category: Fad]]
		+	[[Category: Oligosaccharide]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Xylan]]
		+	[[Category: Xylose]]

OCA: Protected "5l6g" [edit=sysop:move=sysop]

OCA — Mon, 20 Jun 2016 13:56:26 GMT

Protected "5l6g" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:56, 20 June 2016

OCA: New page: '''Unreleased structure''' The entry 5l6g is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Mon, 20 Jun 2016 13:56:24 GMT

New page: '''Unreleased structure''' The entry 5l6g is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5l6g is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]