2ydq - Revision history

OCA at 14:03, 1 February 2024

OCA — Thu, 01 Feb 2024 14:03:45 GMT

←Older revision		Revision as of 14:03, 1 February 2024
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	<StructureSection load='2ydq' size='340' side='right'caption='[[2ydq]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='2ydq' size='340' side='right'caption='[[2ydq]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ydq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_perfringens"_veillon_and_zuber_1898 "bacillus~~ perfringens~~" veillon~~ and ~~zuber 1898~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YDQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2YDQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ydq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens] and [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YDQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2YDQ FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>~~, ~~<scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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]] 2.6Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[2cbi\|2cbi]], [[2vur\|2vur]], [[2x0y\|2x0y]], [[2xpk\|2xpk]], [[2j62\|2j62]], [[2jh2\|2jh2]], [[2wb5\|2wb5]], [[2v5c\|2v5c]], [[2cbj\|2cbj]], [[2v5d\|2v5d]], [[2yds\|2yds]], [[2ydr\|2ydr]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Beta-~~N-~~acetylhexosaminidase Beta~~-N-~~acetylhexosaminidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.52 3.2.1.52]~~ </~~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=2ydq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ydq OCA], [https://pdbe.org/2ydq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ydq RCSB], [https://www.ebi.ac.uk/pdbsum/2ydq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ydq 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=2ydq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ydq OCA], [https://pdbe.org/2ydq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ydq RCSB], [https://www.ebi.ac.uk/pdbsum/2ydq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ydq ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/OGA_CLOP1 OGA_CLOP1]] Biological function unknown. Capable of hydrolyzing the glycosidic link of O-GlcNAcylated proteins. [[https://www.uniprot.org/uniprot/NCOAT_HUMAN NCOAT_HUMAN]] Cleaves GlcNAc but not GalNAc from glycopeptides. Can use p-nitrophenyl-beta-GlcNAc as substrate but not p-nitrophenyl-beta-GalNAc or p-nitrophenyl-alpha-GlcNAc. Possesses hyaluronidase activity. Acetylates 'Lys-8' of histone H4 and 'Lys-14' of histone H3.<ref>PMID:11148210</ref> <ref>PMID:11788610</ref>	+	[https://www.uniprot.org/uniprot/OGA_CLOP1 OGA_CLOP1] Biological function unknown. Capable of hydrolyzing the glycosidic link of O-GlcNAcylated proteins.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 27:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus~~ perfringens ~~veillon and zuber 1898~~]]	+	[[Category: Clostridium perfringens]]
-	[[Category: ~~Beta-N-acetylhexosaminidase~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Aalten, D M.F van]]~~	+	[[Category: Borodkin VS]]
-	[[Category: Borodkin~~, V S~~]]	+	[[Category: Gray LJ]]
-	[[Category: Gray~~, L J~~]]	+	[[Category: Schimpl M]]
-	[[Category: Schimpl, M]]	+	[[Category: Van Aalten DMF]]
-	[[Category: ~~Hydrolase-peptide complex~~]]	+

OCA at 12:27, 27 April 2022

OCA — Wed, 27 Apr 2022 12:27:28 GMT

←Older revision		Revision as of 12:27, 27 April 2022
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	<StructureSection load='2ydq' size='340' side='right'caption='[[2ydq]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='2ydq' size='340' side='right'caption='[[2ydq]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ydq]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_perfringens"_veillon_and_zuber_1898 "bacillus perfringens" veillon and zuber 1898]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YDQ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2YDQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ydq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_perfringens"_veillon_and_zuber_1898 "bacillus perfringens" veillon and zuber 1898]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YDQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2YDQ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2cbi\|2cbi]], [[2vur\|2vur]], [[2x0y\|2x0y]], [[2xpk\|2xpk]], [[2j62\|2j62]], [[2jh2\|2jh2]], [[2wb5\|2wb5]], [[2v5c\|2v5c]], [[2cbj\|2cbj]], [[2v5d\|2v5d]], [[2yds\|2yds]], [[2ydr\|2ydr]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2cbi\|2cbi]], [[2vur\|2vur]], [[2x0y\|2x0y]], [[2xpk\|2xpk]], [[2j62\|2j62]], [[2jh2\|2jh2]], [[2wb5\|2wb5]], [[2v5c\|2v5c]], [[2cbj\|2cbj]], [[2v5d\|2v5d]], [[2yds\|2yds]], [[2ydr\|2ydr]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Beta-N-acetylhexosaminidase Beta-N-acetylhexosaminidase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.52 3.2.1.52] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Beta-N-acetylhexosaminidase Beta-N-acetylhexosaminidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.52 3.2.1.52] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=2ydq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ydq OCA], [~~http~~://pdbe.org/2ydq PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2ydq RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2ydq PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2ydq 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=2ydq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ydq OCA], [https://pdbe.org/2ydq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ydq RCSB], [https://www.ebi.ac.uk/pdbsum/2ydq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ydq ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/OGA_CLOP1 OGA_CLOP1]] Biological function unknown. Capable of hydrolyzing the glycosidic link of O-GlcNAcylated proteins. [[~~http~~://www.uniprot.org/uniprot/NCOAT_HUMAN NCOAT_HUMAN]] Cleaves GlcNAc but not GalNAc from glycopeptides. Can use p-nitrophenyl-beta-GlcNAc as substrate but not p-nitrophenyl-beta-GalNAc or p-nitrophenyl-alpha-GlcNAc. Possesses hyaluronidase activity. Acetylates 'Lys-8' of histone H4 and 'Lys-14' of histone H3.<ref>PMID:11148210</ref> <ref>PMID:11788610</ref>	+	[[https://www.uniprot.org/uniprot/OGA_CLOP1 OGA_CLOP1]] Biological function unknown. Capable of hydrolyzing the glycosidic link of O-GlcNAcylated proteins. [[https://www.uniprot.org/uniprot/NCOAT_HUMAN NCOAT_HUMAN]] Cleaves GlcNAc but not GalNAc from glycopeptides. Can use p-nitrophenyl-beta-GlcNAc as substrate but not p-nitrophenyl-beta-GalNAc or p-nitrophenyl-alpha-GlcNAc. Possesses hyaluronidase activity. Acetylates 'Lys-8' of histone H4 and 'Lys-14' of histone H3.<ref>PMID:11148210</ref> <ref>PMID:11788610</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 20:
	</div>		</div>
	<div class="pdbe-citations 2ydq" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2ydq" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[O-GlcNAcase\|O-GlcNAcase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 12:45, 22 July 2020

OCA — Wed, 22 Jul 2020 12:45:39 GMT

←Older revision		Revision as of 12:45, 22 July 2020
Line 1:		Line 1:

	==CpOGA D298N in complex with hOGA-derived O-GlcNAc peptide==		==CpOGA D298N in complex with hOGA-derived O-GlcNAc peptide==
-	<StructureSection load='2ydq' size='340' side='right' caption='[[2ydq]], [[Resolution\|resolution]] 2.60Å' scene=''>	+	<StructureSection load='2ydq' size='340' side='right'caption='[[2ydq]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ydq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_perfringens"_veillon_and_zuber_1898 "bacillus perfringens" veillon and zuber 1898]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YDQ OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2YDQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ydq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_perfringens"_veillon_and_zuber_1898 "bacillus perfringens" veillon and zuber 1898]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YDQ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2YDQ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2cbi\|2cbi]], [[2vur\|2vur]], [[2x0y\|2x0y]], [[2xpk\|2xpk]], [[2j62\|2j62]], [[2jh2\|2jh2]], [[2wb5\|2wb5]], [[2v5c\|2v5c]], [[2cbj\|2cbj]], [[2v5d\|2v5d]], [[2yds\|2yds]], [[2ydr\|2ydr]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2cbi\|2cbi]], [[2vur\|2vur]], [[2x0y\|2x0y]], [[2xpk\|2xpk]], [[2j62\|2j62]], [[2jh2\|2jh2]], [[2wb5\|2wb5]], [[2v5c\|2v5c]], [[2cbj\|2cbj]], [[2v5d\|2v5d]], [[2yds\|2yds]], [[2ydr\|2ydr]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-N-acetylhexosaminidase Beta-N-acetylhexosaminidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.52 3.2.1.52] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-N-acetylhexosaminidase Beta-N-acetylhexosaminidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.52 3.2.1.52] </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=2ydq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ydq OCA], [http://pdbe.org/2ydq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ydq RCSB], [http://www.ebi.ac.uk/pdbsum/2ydq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2ydq ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=2ydq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ydq OCA], [http://pdbe.org/2ydq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ydq RCSB], [http://www.ebi.ac.uk/pdbsum/2ydq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2ydq ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 26:		Line 26:
	[[Category: Bacillus perfringens veillon and zuber 1898]]		[[Category: Bacillus perfringens veillon and zuber 1898]]
	[[Category: Beta-N-acetylhexosaminidase]]		[[Category: Beta-N-acetylhexosaminidase]]
		+	[[Category: Large Structures]]
	[[Category: Aalten, D M.F van]]		[[Category: Aalten, D M.F van]]
	[[Category: Borodkin, V S]]		[[Category: Borodkin, V S]]

OCA at 09:19, 10 October 2018

OCA — Wed, 10 Oct 2018 09:19:32 GMT

←Older revision		Revision as of 09:19, 10 October 2018
Line 26:		Line 26:
	[[Category: Bacillus perfringens veillon and zuber 1898]]		[[Category: Bacillus perfringens veillon and zuber 1898]]
	[[Category: Beta-N-acetylhexosaminidase]]		[[Category: Beta-N-acetylhexosaminidase]]
-	[[Category: Aalten, D M.F ~~Van~~]]	+	[[Category: Aalten, D M.F van]]
	[[Category: Borodkin, V S]]		[[Category: Borodkin, V S]]
	[[Category: Gray, L J]]		[[Category: Gray, L J]]
	[[Category: Schimpl, M]]		[[Category: Schimpl, M]]
	[[Category: Hydrolase-peptide complex]]		[[Category: Hydrolase-peptide complex]]

OCA at 13:41, 5 August 2016

OCA — Fri, 05 Aug 2016 13:41:28 GMT

←Older revision		Revision as of 13:41, 5 August 2016
Line 1:		Line 1:
		+
	==CpOGA D298N in complex with hOGA-derived O-GlcNAc peptide==		==CpOGA D298N in complex with hOGA-derived O-GlcNAc peptide==
	<StructureSection load='2ydq' size='340' side='right' caption='[[2ydq]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='2ydq' size='340' side='right' caption='[[2ydq]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ydq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Clostridium_perfringens Clostridium~~ perfringens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YDQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2YDQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ydq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_perfringens"_veillon_and_zuber_1898 "bacillus perfringens" veillon and zuber 1898]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YDQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2YDQ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2cbi\|2cbi]], [[2vur\|2vur]], [[2x0y\|2x0y]], [[2xpk\|2xpk]], [[2j62\|2j62]], [[2jh2\|2jh2]], [[2wb5\|2wb5]], [[2v5c\|2v5c]], [[2cbj\|2cbj]], [[2v5d\|2v5d]], [[2yds\|2yds]], [[2ydr\|2ydr]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2cbi\|2cbi]], [[2vur\|2vur]], [[2x0y\|2x0y]], [[2xpk\|2xpk]], [[2j62\|2j62]], [[2jh2\|2jh2]], [[2wb5\|2wb5]], [[2v5c\|2v5c]], [[2cbj\|2cbj]], [[2v5d\|2v5d]], [[2yds\|2yds]], [[2ydr\|2ydr]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-N-acetylhexosaminidase Beta-N-acetylhexosaminidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.52 3.2.1.52] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-N-acetylhexosaminidase Beta-N-acetylhexosaminidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.52 3.2.1.52] </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=2ydq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ydq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ydq RCSB], [http://www.ebi.ac.uk/pdbsum/2ydq 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=2ydq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ydq OCA], [http://pdbe.org/2ydq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ydq RCSB], [http://www.ebi.ac.uk/pdbsum/2ydq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2ydq 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 2ydq" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus perfringens veillon and zuber 1898]]
	[[Category: Beta-N-acetylhexosaminidase]]		[[Category: Beta-N-acetylhexosaminidase]]
-	[[Category: Clostridium perfringens]]
	[[Category: Aalten, D M.F Van]]		[[Category: Aalten, D M.F Van]]
	[[Category: Borodkin, V S]]		[[Category: Borodkin, V S]]

OCA at 19:16, 25 December 2014

OCA — Thu, 25 Dec 2014 19:16:39 GMT

←Older revision		Revision as of 19:16, 25 December 2014
Line 2:		Line 2:
	<StructureSection load='2ydq' size='340' side='right' caption='[[2ydq]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='2ydq' size='340' side='right' caption='[[2ydq]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ydq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YDQ OCA]. <br>	+	<table><tr><td colspan='2'>[[2ydq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YDQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2YDQ FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2cbi\|2cbi]], [[2vur\|2vur]], [[2x0y\|2x0y]], [[2xpk\|2xpk]], [[2j62\|2j62]], [[2jh2\|2jh2]], [[2wb5\|2wb5]], [[2v5c\|2v5c]], [[2cbj\|2cbj]], [[2v5d\|2v5d]], [[2yds\|2yds]], [[2ydr\|2ydr]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2cbi\|2cbi]], [[2vur\|2vur]], [[2x0y\|2x0y]], [[2xpk\|2xpk]], [[2j62\|2j62]], [[2jh2\|2jh2]], [[2wb5\|2wb5]], [[2v5c\|2v5c]], [[2cbj\|2cbj]], [[2v5d\|2v5d]], [[2yds\|2yds]], [[2ydr\|2ydr]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/~~Glucokinase Glucokinase~~], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-N-acetylhexosaminidase Beta-N-acetylhexosaminidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.52 3.2.1.52] </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=2ydq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ydq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ydq RCSB], [http://www.ebi.ac.uk/pdbsum/2ydq 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=2ydq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ydq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ydq RCSB], [http://www.ebi.ac.uk/pdbsum/2ydq PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/OGA_CLOP1 OGA_CLOP1]] Biological function unknown. Capable of hydrolyzing the glycosidic link of O-GlcNAcylated proteins. [[http://www.uniprot.org/uniprot/NCOAT_HUMAN NCOAT_HUMAN]] Cleaves GlcNAc but not GalNAc from glycopeptides. Can use p-nitrophenyl-beta-GlcNAc as substrate but not p-nitrophenyl-beta-GalNAc or p-nitrophenyl-alpha-GlcNAc. Possesses hyaluronidase activity. Acetylates 'Lys-8' of histone H4 and 'Lys-14' of histone H3.<ref>PMID:11148210</ref> <ref>PMID:11788610</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 14:		Line 16:
	Synergy of Peptide and Sugar in O-GlcNAcase Substrate Recognition.,Schimpl M, Borodkin VS, Gray LJ, van Aalten DM Chem Biol. 2012 Feb 24;19(2):173-8. PMID:22365600<ref>PMID:22365600</ref>		Synergy of Peptide and Sugar in O-GlcNAcase Substrate Recognition.,Schimpl M, Borodkin VS, Gray LJ, van Aalten DM Chem Biol. 2012 Feb 24;19(2):173-8. PMID:22365600<ref>PMID:22365600</ref>

-	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, 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>
	== References ==		== References ==
Line 22:		Line 24:
	[[Category: Beta-N-acetylhexosaminidase]]		[[Category: Beta-N-acetylhexosaminidase]]
	[[Category: Clostridium perfringens]]		[[Category: Clostridium perfringens]]
-	[[Category: Aalten, D M.F Van.]]	+	[[Category: Aalten, D M.F Van]]
-	[[Category: Borodkin, V S.]]	+	[[Category: Borodkin, V S]]
-	[[Category: Gray, L J.]]	+	[[Category: Gray, L J]]
-	[[Category: Schimpl, M.]]	+	[[Category: Schimpl, M]]
	[[Category: Hydrolase-peptide complex]]		[[Category: Hydrolase-peptide complex]]

OCA at 07:41, 14 May 2014

OCA — Wed, 14 May 2014 07:41:01 GMT

←Older revision		Revision as of 07:41, 14 May 2014
Line 1:		Line 1:
-	[[~~Image:~~2ydq.~~jpg~~\|~~left~~\|~~200px~~]]	+	==CpOGA D298N in complex with hOGA-derived O-GlcNAc peptide==
		+	<StructureSection load='2ydq' size='340' side='right' caption='[[2ydq]], [[Resolution\|resolution]] 2.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2ydq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YDQ OCA]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2cbi\|2cbi]], [[2vur\|2vur]], [[2x0y\|2x0y]], [[2xpk\|2xpk]], [[2j62\|2j62]], [[2jh2\|2jh2]], [[2wb5\|2wb5]], [[2v5c\|2v5c]], [[2cbj\|2cbj]], [[2v5d\|2v5d]], [[2yds\|2yds]], [[2ydr\|2ydr]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucokinase Glucokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </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=2ydq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ydq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ydq RCSB], [http://www.ebi.ac.uk/pdbsum/2ydq PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Protein O-GlcNAcylation is an essential reversible posttranslational modification in higher eukaryotes. O-GlcNAc addition and removal is catalyzed by O-GlcNAc transferase and O-GlcNAcase, respectively. We report the molecular details of the interaction of a bacterial O-GlcNAcase homolog with three different synthetic glycopeptides derived from characterized O-GlcNAc sites in the human proteome. Strikingly, the peptides bind a conserved O-GlcNAcase substrate binding groove with similar orientation and conformation. In addition to extensive contacts with the sugar, O-GlcNAcase recognizes the peptide backbone through hydrophobic interactions and intramolecular hydrogen bonds, while avoiding interactions with the glycopeptide side chains. These findings elucidate the molecular basis of O-GlcNAcase substrate specificity, explaining how a single enzyme achieves cycling of the complete O-GlcNAc proteome. In addition, this work will aid development of O-GlcNAcase inhibitors that target the peptide binding site.

-	<!--	+	Synergy of Peptide and Sugar in O-GlcNAcase Substrate Recognition.,Schimpl M, Borodkin VS, Gray LJ, van Aalten DM Chem Biol. 2012 Feb 24;19(2):173-8. PMID:22365600<ref>PMID:22365600</ref>
-	~~The line below this paragraph~~, ~~containing "STRUCTURE_2ydq"~~, ~~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_2ydq\| PDB=2ydq \| SCENE= }}~~	+

-	~~===CpOGA D298N in complex with hOGA-derived O-GlcNAc peptide===~~	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-		+	== References ==
-	~~<!--~~	+	<references/>
-	~~The line below this paragraph~~, ~~{{ABSTRACT_PUBMED_22365600}}, adds~~ the ~~Publication Abstract to the page~~	+	__TOC__
-	~~(as it appears on PubMed at http://www~~.~~pubmed~~.~~gov), where 22365600 is the PubMed ID number~~.	+	</StructureSection>
-	-->	+
-	~~{{ABSTRACT_PUBMED_22365600}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2ydq]] is a 2 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YDQ OCA].~~	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:022365600<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Beta-N-acetylhexosaminidase]]		[[Category: Beta-N-acetylhexosaminidase]]
	[[Category: Clostridium perfringens]]		[[Category: Clostridium perfringens]]

OCA at 06:31, 14 March 2012

OCA — Wed, 14 Mar 2012 06:31:25 GMT

←Older revision		Revision as of 06:31, 14 March 2012
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:2ydq.jpg\|left\|200px]]

-	The ~~entry 2ydq~~ is ~~ON HOLD~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_2ydq", 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_2ydq\| PDB=2ydq \| SCENE= }}

-	~~Authors: Schimpl, M., Borodkin, V.S., Gray, L.J., van Aalten, D.M.F.~~	+	===CpOGA D298N in complex with hOGA-derived O-GlcNAc peptide===

-	~~Description~~: ~~CpOGA D298N in complex~~ with ~~hOGA~~-~~derived O~~-~~GlcNAc~~ peptide	+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_22365600}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 22365600 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_22365600}}
		+
		+	==About this Structure==
		+	[[2ydq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YDQ OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:022365600</ref><references group="xtra"/>
		+	[[Category: Beta-N-acetylhexosaminidase]]
		+	[[Category: Clostridium perfringens]]
		+	[[Category: Aalten, D M.F Van.]]
		+	[[Category: Borodkin, V S.]]
		+	[[Category: Gray, L J.]]
		+	[[Category: Schimpl, M.]]
		+	[[Category: Hydrolase-peptide complex]]

OCA at 18:24, 23 November 2011

OCA — Wed, 23 Nov 2011 18:24:19 GMT

←Older revision		Revision as of 18:24, 23 November 2011
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 2ydq is ON HOLD ~~until sometime in the future~~	+	The entry 2ydq is ON HOLD

	Authors: Schimpl, M., Borodkin, V.S., Gray, L.J., van Aalten, D.M.F.		Authors: Schimpl, M., Borodkin, V.S., Gray, L.J., van Aalten, D.M.F.

	Description: CpOGA D298N in complex with hOGA-derived O-GlcNAc peptide		Description: CpOGA D298N in complex with hOGA-derived O-GlcNAc peptide

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

OCA — Wed, 30 Mar 2011 07:37:08 GMT

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

←Older revision

Revision as of 07:37, 30 March 2011