3d50 - Revision history

OCA at 07:53, 2 February 2022

OCA — Wed, 02 Feb 2022 07:53:57 GMT

←Older revision		Revision as of 07:53, 2 February 2022
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	<StructureSection load='3d50' size='340' side='right'caption='[[3d50]], [[Resolution\|resolution]] 1.79Å' scene=''>		<StructureSection load='3d50' size='340' side='right'caption='[[3d50]], [[Resolution\|resolution]] 1.79Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3d50]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Drome Drome]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D50 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3D50 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3d50]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Drome Drome]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D50 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3D50 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=OEV:(1S,2S,3R,6R)-4-(HYDROXYMETHYL)-6-(OCTYLAMINO)CYCLOHEX-4-ENE-1,2,3-TRIOL'>OEV</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=OEV:(1S,2S,3R,6R)-4-(HYDROXYMETHYL)-6-(OCTYLAMINO)CYCLOHEX-4-ENE-1,2,3-TRIOL'>OEV</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hty\|1hty]], [[1hww\|1hww]], [[1hxk\|1hxk]], [[1ps2\|1ps2]], [[1qwn\|1qwn]], [[1qwu\|1qwu]], [[1qx1\|1qx1]], [[1r33\|1r33]], [[1r34\|1r34]], [[2alw\|2alw]], [[2f7o\|2f7o]], [[2f7p\|2f7p]], [[2f7q\|2f7q]], [[2f7r\|2f7r]], [[3bub\|3bub]], [[3bud\|3bud]], [[3bui\|3bui]], [[3bup\|3bup]], [[3buq\|3buq]], [[3bvt\|3bvt]], [[3bvu\|3bvu]], [[3bvv\|3bvv]], [[3bvw\|3bvw]], [[3bvx\|3bvx]], [[3cv5\|3cv5]], [[3czn\|3czn]], [[3czs\|3czs]], [[3d4y\|3d4y]], [[3d4z\|3d4z]], [[3d51\|3d51]], [[3d52\|3d52]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1hty\|1hty]], [[1hww\|1hww]], [[1hxk\|1hxk]], [[1ps2\|1ps2]], [[1qwn\|1qwn]], [[1qwu\|1qwu]], [[1qx1\|1qx1]], [[1r33\|1r33]], [[1r34\|1r34]], [[2alw\|2alw]], [[2f7o\|2f7o]], [[2f7p\|2f7p]], [[2f7q\|2f7q]], [[2f7r\|2f7r]], [[3bub\|3bub]], [[3bud\|3bud]], [[3bui\|3bui]], [[3bup\|3bup]], [[3buq\|3buq]], [[3bvt\|3bvt]], [[3bvu\|3bvu]], [[3bvv\|3bvv]], [[3bvw\|3bvw]], [[3bvx\|3bvx]], [[3cv5\|3cv5]], [[3czn\|3czn]], [[3czs\|3czs]], [[3d4y\|3d4y]], [[3d4z\|3d4z]], [[3d51\|3d51]], [[3d52\|3d52]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">alpha-Man-II, GmII ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7227 DROME])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">alpha-Man-II, GmII ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7227 DROME])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Mannosyl-oligosaccharide_1,3-1,6-alpha-mannosidase Mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.114 3.2.1.114] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Mannosyl-oligosaccharide_1,3-1,6-alpha-mannosidase Mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.114 3.2.1.114] </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=3d50 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3d50 OCA], [~~http~~://pdbe.org/3d50 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3d50 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3d50 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3d50 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=3d50 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3d50 OCA], [https://pdbe.org/3d50 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3d50 RCSB], [https://www.ebi.ac.uk/pdbsum/3d50 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3d50 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/MAN2_DROME MAN2_DROME]] Catalyzes the first committed step in the biosynthesis of complex N-glycans. It controls conversion of high mannose to complex N-glycans; the final hydrolytic step in the N-glycan maturation pathway (By similarity).	+	[[https://www.uniprot.org/uniprot/MAN2_DROME MAN2_DROME]] Catalyzes the first committed step in the biosynthesis of complex N-glycans. It controls conversion of high mannose to complex N-glycans; the final hydrolytic step in the N-glycan maturation pathway (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	==See Also==		==See Also==
-	*[[Mannosidase\|Mannosidase]]	+	*[[Mannosidase 3D structures\|Mannosidase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 07:56, 24 July 2019

OCA — Wed, 24 Jul 2019 07:56:11 GMT

←Older revision		Revision as of 07:56, 24 July 2019
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	==GOLGI MANNOSIDASE II complex with N-octyl-6-epi-valienamine==		==GOLGI MANNOSIDASE II complex with N-octyl-6-epi-valienamine==
-	<StructureSection load='3d50' size='340' side='right' caption='[[3d50]], [[Resolution\|resolution]] 1.79Å' scene=''>	+	<StructureSection load='3d50' size='340' side='right'caption='[[3d50]], [[Resolution\|resolution]] 1.79Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3d50]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Drome Drome]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D50 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3D50 FirstGlance]. <br>		<table><tr><td colspan='2'>[[3d50]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Drome Drome]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D50 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3D50 FirstGlance]. <br>
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	</StructureSection>		</StructureSection>
	[[Category: Drome]]		[[Category: Drome]]
		+	[[Category: Large Structures]]
	[[Category: Mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase]]		[[Category: Mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase]]
	[[Category: Kuntz, D A]]		[[Category: Kuntz, D A]]

OCA at 09:15, 14 November 2018

OCA — Wed, 14 Nov 2018 09:15:26 GMT

←Older revision		Revision as of 09:15, 14 November 2018
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/d5/3d50_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/d5/3d50_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 14:20, 5 August 2016

OCA — Fri, 05 Aug 2016 14:20:32 GMT

←Older revision		Revision as of 14:20, 5 August 2016
Line 1:		Line 1:
		+
	==GOLGI MANNOSIDASE II complex with N-octyl-6-epi-valienamine==		==GOLGI MANNOSIDASE II complex with N-octyl-6-epi-valienamine==
	<StructureSection load='3d50' size='340' side='right' caption='[[3d50]], [[Resolution\|resolution]] 1.79Å' scene=''>		<StructureSection load='3d50' size='340' side='right' caption='[[3d50]], [[Resolution\|resolution]] 1.79Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3d50]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Drosophila_melanogaster Drosophila melanogaster~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D50 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3D50 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3d50]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Drome Drome]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D50 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3D50 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=OEV:(1S,2S,3R,6R)-4-(HYDROXYMETHYL)-6-(OCTYLAMINO)CYCLOHEX-4-ENE-1,2,3-TRIOL'>OEV</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=OEV:(1S,2S,3R,6R)-4-(HYDROXYMETHYL)-6-(OCTYLAMINO)CYCLOHEX-4-ENE-1,2,3-TRIOL'>OEV</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hty\|1hty]], [[1hww\|1hww]], [[1hxk\|1hxk]], [[1ps2\|1ps2]], [[1qwn\|1qwn]], [[1qwu\|1qwu]], [[1qx1\|1qx1]], [[1r33\|1r33]], [[1r34\|1r34]], [[2alw\|2alw]], [[2f7o\|2f7o]], [[2f7p\|2f7p]], [[2f7q\|2f7q]], [[2f7r\|2f7r]], [[3bub\|3bub]], [[3bud\|3bud]], [[3bui\|3bui]], [[3bup\|3bup]], [[3buq\|3buq]], [[3bvt\|3bvt]], [[3bvu\|3bvu]], [[3bvv\|3bvv]], [[3bvw\|3bvw]], [[3bvx\|3bvx]], [[3cv5\|3cv5]], [[3czn\|3czn]], [[3czs\|3czs]], [[3d4y\|3d4y]], [[3d4z\|3d4z]], [[3d51\|3d51]], [[3d52\|3d52]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hty\|1hty]], [[1hww\|1hww]], [[1hxk\|1hxk]], [[1ps2\|1ps2]], [[1qwn\|1qwn]], [[1qwu\|1qwu]], [[1qx1\|1qx1]], [[1r33\|1r33]], [[1r34\|1r34]], [[2alw\|2alw]], [[2f7o\|2f7o]], [[2f7p\|2f7p]], [[2f7q\|2f7q]], [[2f7r\|2f7r]], [[3bub\|3bub]], [[3bud\|3bud]], [[3bui\|3bui]], [[3bup\|3bup]], [[3buq\|3buq]], [[3bvt\|3bvt]], [[3bvu\|3bvu]], [[3bvv\|3bvv]], [[3bvw\|3bvw]], [[3bvx\|3bvx]], [[3cv5\|3cv5]], [[3czn\|3czn]], [[3czs\|3czs]], [[3d4y\|3d4y]], [[3d4z\|3d4z]], [[3d51\|3d51]], [[3d52\|3d52]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">alpha-Man-II, GmII ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7227 ~~Drosophila melanogaster~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">alpha-Man-II, GmII ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7227 DROME])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mannosyl-oligosaccharide_1,3-1,6-alpha-mannosidase Mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.114 3.2.1.114] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mannosyl-oligosaccharide_1,3-1,6-alpha-mannosidase Mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.114 3.2.1.114] </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=3d50 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3d50 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3d50 RCSB], [http://www.ebi.ac.uk/pdbsum/3d50 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=3d50 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3d50 OCA], [http://pdbe.org/3d50 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3d50 RCSB], [http://www.ebi.ac.uk/pdbsum/3d50 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3d50 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3d50 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<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 3d50" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 36:		Line 38:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Drosophila melanogaster~~]]	+	[[Category: Drome]]
	[[Category: Mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase]]		[[Category: Mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase]]
	[[Category: Kuntz, D A]]		[[Category: Kuntz, D A]]

OCA at 19:31, 25 December 2014

OCA — Thu, 25 Dec 2014 19:31:29 GMT

←Older revision		Revision as of 19:31, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3d50]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D50 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3D50 FirstGlance]. <br>		<table><tr><td colspan='2'>[[3d50]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D50 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3D50 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=OEV:(1S,2S,3R,6R)-4-(HYDROXYMETHYL)-6-(OCTYLAMINO)CYCLOHEX-4-ENE-1,2,3-TRIOL'>OEV</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=OEV:(1S,2S,3R,6R)-4-(HYDROXYMETHYL)-6-(OCTYLAMINO)CYCLOHEX-4-ENE-1,2,3-TRIOL'>OEV</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hty\|1hty]], [[1hww\|1hww]], [[1hxk\|1hxk]], [[1ps2\|1ps2]], [[1qwn\|1qwn]], [[1qwu\|1qwu]], [[1qx1\|1qx1]], [[1r33\|1r33]], [[1r34\|1r34]], [[2alw\|2alw]], [[2f7o\|2f7o]], [[2f7p\|2f7p]], [[2f7q\|2f7q]], [[2f7r\|2f7r]], [[3bub\|3bub]], [[3bud\|3bud]], [[3bui\|3bui]], [[3bup\|3bup]], [[3buq\|3buq]], [[3bvt\|3bvt]], [[3bvu\|3bvu]], [[3bvv\|3bvv]], [[3bvw\|3bvw]], [[3bvx\|3bvx]], [[3cv5\|3cv5]], [[3czn\|3czn]], [[3czs\|3czs]], [[3d4y\|3d4y]], [[3d4z\|3d4z]], [[3d51\|3d51]], [[3d52\|3d52]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hty\|1hty]], [[1hww\|1hww]], [[1hxk\|1hxk]], [[1ps2\|1ps2]], [[1qwn\|1qwn]], [[1qwu\|1qwu]], [[1qx1\|1qx1]], [[1r33\|1r33]], [[1r34\|1r34]], [[2alw\|2alw]], [[2f7o\|2f7o]], [[2f7p\|2f7p]], [[2f7q\|2f7q]], [[2f7r\|2f7r]], [[3bub\|3bub]], [[3bud\|3bud]], [[3bui\|3bui]], [[3bup\|3bup]], [[3buq\|3buq]], [[3bvt\|3bvt]], [[3bvu\|3bvu]], [[3bvv\|3bvv]], [[3bvw\|3bvw]], [[3bvx\|3bvx]], [[3cv5\|3cv5]], [[3czn\|3czn]], [[3czs\|3czs]], [[3d4y\|3d4y]], [[3d4z\|3d4z]], [[3d51\|3d51]], [[3d52\|3d52]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">alpha-Man-II, GmII ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7227 Drosophila melanogaster])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">alpha-Man-II, GmII ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7227 Drosophila melanogaster])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mannosyl-oligosaccharide_1,3-1,6-alpha-mannosidase Mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.114 3.2.1.114] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mannosyl-oligosaccharide_1,3-1,6-alpha-mannosidase Mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.114 3.2.1.114] </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=3d50 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3d50 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3d50 RCSB], [http://www.ebi.ac.uk/pdbsum/3d50 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=3d50 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3d50 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3d50 RCSB], [http://www.ebi.ac.uk/pdbsum/3d50 PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/MAN2_DROME MAN2_DROME]] Catalyzes the first committed step in the biosynthesis of complex N-glycans. It controls conversion of high mannose to complex N-glycans; the final hydrolytic step in the N-glycan maturation pathway (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 38:
	[[Category: Drosophila melanogaster]]		[[Category: Drosophila melanogaster]]
	[[Category: Mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase]]		[[Category: Mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase]]
-	[[Category: Kuntz, D A.]]	+	[[Category: Kuntz, D A]]
-	[[Category: Rose, D R.]]	+	[[Category: Rose, D R]]
-	[[Category: Tarling, C A.]]	+	[[Category: Tarling, C A]]
-	[[Category: Withers, S G.]]	+	[[Category: Withers, S G]]
	[[Category: Gh38 glycosidase]]		[[Category: Gh38 glycosidase]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 07:17, 29 September 2014

OCA — Mon, 29 Sep 2014 07:17:48 GMT

←Older revision		Revision as of 07:17, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~3d50.~~png~~\|~~left~~\|200px]]	+	==GOLGI MANNOSIDASE II complex with N-octyl-6-epi-valienamine==
		+	<StructureSection load='3d50' size='340' side='right' caption='[[3d50]], [[Resolution\|resolution]] 1.79Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3d50]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D50 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3D50 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=OEV:(1S,2S,3R,6R)-4-(HYDROXYMETHYL)-6-(OCTYLAMINO)CYCLOHEX-4-ENE-1,2,3-TRIOL'>OEV</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hty\|1hty]], [[1hww\|1hww]], [[1hxk\|1hxk]], [[1ps2\|1ps2]], [[1qwn\|1qwn]], [[1qwu\|1qwu]], [[1qx1\|1qx1]], [[1r33\|1r33]], [[1r34\|1r34]], [[2alw\|2alw]], [[2f7o\|2f7o]], [[2f7p\|2f7p]], [[2f7q\|2f7q]], [[2f7r\|2f7r]], [[3bub\|3bub]], [[3bud\|3bud]], [[3bui\|3bui]], [[3bup\|3bup]], [[3buq\|3buq]], [[3bvt\|3bvt]], [[3bvu\|3bvu]], [[3bvv\|3bvv]], [[3bvw\|3bvw]], [[3bvx\|3bvx]], [[3cv5\|3cv5]], [[3czn\|3czn]], [[3czs\|3czs]], [[3d4y\|3d4y]], [[3d4z\|3d4z]], [[3d51\|3d51]], [[3d52\|3d52]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">alpha-Man-II, GmII ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7227 Drosophila melanogaster])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mannosyl-oligosaccharide_1,3-1,6-alpha-mannosidase Mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.114 3.2.1.114] </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=3d50 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3d50 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3d50 RCSB], [http://www.ebi.ac.uk/pdbsum/3d50 PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/d5/3d50_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The N-glycosylation pathway is a target for pharmaceutical intervention in a number of pathological conditions including cancer. Golgi alpha-mannosidase II (GMII) is the final glycoside hydrolase in the pathway and has been the target for a number of synthetic efforts aimed at providing more selective and effective inhibitors. Drosophila GMII (dGMII) has been extensively studied due to the ease of obtaining high resolution structural data, allowing the observation of substrate distortion upon binding and after formation of a trapped covalent reaction intermediate. However, attempts to find new inhibitor leads by high-throughput screening of large commercial libraries or through in silico docking were unsuccessful. In this paper we provide a kinetic and structural analysis of five inhibitors derived from a small glycosidase-focused library. Surprisingly, four of these were known inhibitors of beta-glucosidases. X-ray crystallographic analysis of the dGMII:inhibitor complexes highlights the ability of the zinc-containing GMII active site to deform compounds, even ones designed as conformationally restricted transition-state mimics of beta-glucosidases, into binding entities that have inhibitory activity. Although these deformed conformations do not appear to be on the expected conformational itinerary of the enzyme, and are thus not transition-state mimics of GMII, they allow positioning of the three vicinal hydroxyls of the bound gluco-inhibitors into similar locations to those found with mannose-containing substrates, underlining the importance of these hydrogen bonds for binding. Further, these studies show the utility of targeting the acid-base catalyst using appropriately positioned positively charged nitrogen atoms, as well as the challenges associated with aglycon substitutions.

-	~~{{STRUCTURE_3d50\| PDB=3d50 \| SCENE= }}~~	+	Structural analysis of Golgi alpha-mannosidase II inhibitors identified from a focused glycosidase inhibitor screen.,Kuntz DA, Tarling CA, Withers SG, Rose DR Biochemistry. 2008 Sep 23;47(38):10058-68. Epub 2008 Aug 30. PMID:18759458<ref>PMID:18759458</ref>

-	~~===GOLGI MANNOSIDASE II complex with N-octyl-6-epi-valienamine===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18759458}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3d50]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Drosophila_melanogaster Drosophila melanogaster]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3D50 OCA].~~	+

	==See Also==		==See Also==
	*[[Mannosidase\|Mannosidase]]		*[[Mannosidase\|Mannosidase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:018759458<~~/~~ref~~><~~ref group="xtra">PMID:019101978</ref><references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Drosophila melanogaster]]		[[Category: Drosophila melanogaster]]
	[[Category: Mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase]]		[[Category: Mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase]]

OCA at 20:34, 20 October 2012

OCA — Sat, 20 Oct 2012 20:34:23 GMT

←Older revision		Revision as of 20:34, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3d50]] is a 1 chain structure ~~of [[Mannosidase]]~~ with sequence from [http://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D50 OCA].	+	[[3d50]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D50 OCA].

	==See Also==		==See Also==

OCA: Protected "3d50" [edit=sysop:move=sysop]

OCA — Fri, 27 Jul 2012 10:56:38 GMT

Protected "3d50" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:56, 27 July 2012

OCA at 10:56, 27 July 2012

OCA — Fri, 27 Jul 2012 10:56:36 GMT

←Older revision		Revision as of 10:56, 27 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:3d50.png\|left\|200px]]		[[Image:3d50.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3d50", 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_3d50\| PDB=3d50 \| SCENE= }}		{{STRUCTURE_3d50\| PDB=3d50 \| SCENE= }}

	===GOLGI MANNOSIDASE II complex with N-octyl-6-epi-valienamine===		===GOLGI MANNOSIDASE II complex with N-octyl-6-epi-valienamine===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18759458}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18759458 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18759458}}		{{ABSTRACT_PUBMED_18759458}}

	==About this Structure==		==About this Structure==
-	~~3D50~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D50 OCA].	+	[[3d50]] is a 1 chain structure of [[Mannosidase]] with sequence from [http://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D50 OCA].
		+
		+	==See Also==
		+	*[[Mannosidase\|Mannosidase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18759458~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018759458</ref><ref group="xtra">PMID:019101978</ref><references group="xtra"/>
	[[Category: Drosophila melanogaster]]		[[Category: Drosophila melanogaster]]
	[[Category: Mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase]]		[[Category: Mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase]]
Line 32:		Line 23:
	[[Category: Gh38 glycosidase]]		[[Category: Gh38 glycosidase]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 04:36:04 2009''

OCA at 02:36, 18 February 2009

OCA — Wed, 18 Feb 2009 02:36:06 GMT

←Older revision		Revision as of 02:36, 18 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	3D50 is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D50 OCA].	+	3D50 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3D50 OCA].

	==Reference==		==Reference==
-	Structural analysis of Golgi alpha-mannosidase II inhibitors identified from a focused glycosidase inhibitor screen., Kuntz DA, Tarling CA, Withers SG, Rose DR, Biochemistry. 2008 Sep 23;47(38):10058-68. Epub 2008 Aug 30. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18759458 18759458]~~	+	<ref group="xtra">PMID:18759458</ref><references group="xtra"/>
	[[Category: Drosophila melanogaster]]		[[Category: Drosophila melanogaster]]
	[[Category: Mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase]]		[[Category: Mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase]]
-	[[Category: Single protein]]
	[[Category: Kuntz, D A.]]		[[Category: Kuntz, D A.]]
	[[Category: Rose, D R.]]		[[Category: Rose, D R.]]
Line 34:		Line 33:
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Oct 8 09~~:06:~~44 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 04:36:04 2009''