3bub - Revision history

OCA at 09:43, 6 November 2024

2024-11-06T09:43:51Z

← Older revision		Revision as of 09:43, 6 November 2024
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	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bu/3bub_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bu/3bub_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/~~initialview01~~.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>

OCA at 12:15, 30 August 2023

2023-08-30T12:15:16Z

← Older revision		Revision as of 12:15, 30 August 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3bub]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BUB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BUB FirstGlance]. <br>		<table><tr><td colspan='2'>[[3bub]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BUB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BUB FirstGlance]. <br>
	</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=ZN:ZINC+ION'>ZN</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]] 1.38Å</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]], [[1qx1\|1qx1]], [[1r33\|1r33]], [[1r34\|1r34]], [[1tqs\|1tqs]], [[1tqt\|1tqt]], [[1tqu\|1tqu]], [[1tqv\|1tqv]], [[1tqw\|1tqw]], [[2alw\|2alw]], [[2f18\|2f18]], [[2f1a\|2f1a]], [[2f1b\|2f1b]], [[2f7o\|2f7o]], [[2f7p\|2f7p]], [[2f7q\|2f7q]], [[2f7r\|2f7r]], [[3bud\|3bud]], [[3bui\|3bui]]</~~div~~><~~/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=ZN:ZINC+ION'>ZN</scene></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 Drosophila melanogaster])</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'>[https://proteopedia.org/fgij/fg.htm?mol=3bub FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bub OCA], [https://pdbe.org/3bub PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bub RCSB], [https://www.ebi.ac.uk/pdbsum/3bub PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bub 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=3bub FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bub OCA], [https://pdbe.org/3bub PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bub RCSB], [https://www.ebi.ac.uk/pdbsum/3bub PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bub ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[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).		[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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	[[Category: Drosophila melanogaster]]		[[Category: Drosophila melanogaster]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	~~[[Category: Mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase]]~~		[[Category: Kuntz DA]]
	[[Category: Kuntz~~, D A~~]]		[[Category: Rose DR]]
	[[Category: Rose~~, D R]]~~
	~~[[Category: Glycosidase]]~~
	~~[[Category: Glycosyl hydrolase family 38]]~~
	~~[[Category: Golgi apparatus]]~~
	~~[[Category: Hydrolase]]~~
	~~[[Category: Membrane]]~~
	~~[[Category: Signal-anchor]]~~
	~~[[Category: Transmembrane~~]]

OCA at 08:25, 19 January 2022

2022-01-19T08:25:30Z

← Older revision		Revision as of 08:25, 19 January 2022
Line 1:		Line 1:

	==Golgi alpha-mannosidase II with an empty active site==		==Golgi alpha-mannosidase II with an empty active site==
	<StructureSection load='3bub' size='340' side='right' caption='[[3bub]], [[Resolution\|resolution]] 1.38Å' scene=''>		<StructureSection load='3bub' size='340' side='right'caption='[[3bub]], [[Resolution\|resolution]] 1.38Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3bub]] 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=3BUB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3BUB FirstGlance]. <br>		<table><tr><td colspan='2'>[[3bub]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BUB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BUB 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=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=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]], [[1qx1\|1qx1]], [[1r33\|1r33]], [[1r34\|1r34]], [[1tqs\|1tqs]], [[1tqt\|1tqt]], [[1tqu\|1tqu]], [[1tqv\|1tqv]], [[1tqw\|1tqw]], [[2alw\|2alw]], [[2f18\|2f18]], [[2f1a\|2f1a]], [[2f1b\|2f1b]], [[2f7o\|2f7o]], [[2f7p\|2f7p]], [[2f7q\|2f7q]], [[2f7r\|2f7r]], [[3bud\|3bud]], [[3bui\|3bui]]</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]], [[1qx1\|1qx1]], [[1r33\|1r33]], [[1r34\|1r34]], [[1tqs\|1tqs]], [[1tqt\|1tqt]], [[1tqu\|1tqu]], [[1tqv\|1tqv]], [[1tqw\|1tqw]], [[2alw\|2alw]], [[2f18\|2f18]], [[2f1a\|2f1a]], [[2f1b\|2f1b]], [[2f7o\|2f7o]], [[2f7p\|2f7p]], [[2f7q\|2f7q]], [[2f7r\|2f7r]], [[3bud\|3bud]], [[3bui\|3bui]]</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 Drosophila melanogaster])</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 Drosophila melanogaster])</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=3bub FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bub OCA], [~~http~~://pdbe.org/3bub PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3bub RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3bub PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3bub 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=3bub FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bub OCA], [https://pdbe.org/3bub PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bub RCSB], [https://www.ebi.ac.uk/pdbsum/3bub PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bub 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]]
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bu/3bub_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bu/3bub_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>
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	</div>		</div>
	<div class="pdbe-citations 3bub" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3bub" style="background-color:#fffaf0;"></div>

			==See Also==
			*[[Mannosidase 3D structures\|Mannosidase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Drosophila melanogaster]]		[[Category: Drosophila melanogaster]]
			[[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 08:11, 25 October 2017

2017-10-25T08:11:21Z

← Older revision		Revision as of 08:11, 25 October 2017
Line 1:		Line 1:

	==Golgi alpha-mannosidase II with an empty active site==		==Golgi alpha-mannosidase II with an empty active site==
	<StructureSection load='3bub' size='340' side='right' caption='[[3bub]], [[Resolution\|resolution]] 1.38Å' scene=''>		<StructureSection load='3bub' size='340' side='right' caption='[[3bub]], [[Resolution\|resolution]] 1.38Å' scene=''>
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	<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 Drosophila melanogaster])</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=3bub FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bub OCA], [http://pdbe.org/3bub PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3bub RCSB], [http://www.ebi.ac.uk/pdbsum/3bub 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=3bub FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bub OCA], [http://pdbe.org/3bub PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3bub RCSB], [http://www.ebi.ac.uk/pdbsum/3bub PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3bub ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	</div>		</div>
	<div class="pdbe-citations 3bub" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3bub" style="background-color:#fffaf0;"></div>

	~~==See Also==~~
	*[[Mannosidase\|Mannosidase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 13:43, 8 February 2016

2016-02-08T13:43:39Z

← Older revision		Revision as of 13:43, 8 February 2016
Line 7:		Line 7:
	<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 Drosophila melanogaster])</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=3bub FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bub OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bub RCSB], [http://www.ebi.ac.uk/pdbsum/3bub 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=3bub FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bub OCA], [http://pdbe.org/3bub PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3bub RCSB], [http://www.ebi.ac.uk/pdbsum/3bub PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 19:
	<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=3bub 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 3bub" style="background-color:#fffaf0;"></div>

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

OCA at 23:44, 24 December 2014

2014-12-24T23:44:32Z

← Older revision		Revision as of 23:44, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3bub]] 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=3BUB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BUB FirstGlance]. <br>		<table><tr><td colspan='2'>[[3bub]] 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=3BUB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BUB 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=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=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]], [[1qx1\|1qx1]], [[1r33\|1r33]], [[1r34\|1r34]], [[1tqs\|1tqs]], [[1tqt\|1tqt]], [[1tqu\|1tqu]], [[1tqv\|1tqv]], [[1tqw\|1tqw]], [[2alw\|2alw]], [[2f18\|2f18]], [[2f1a\|2f1a]], [[2f1b\|2f1b]], [[2f7o\|2f7o]], [[2f7p\|2f7p]], [[2f7q\|2f7q]], [[2f7r\|2f7r]], [[3bud\|3bud]], [[3bui\|3bui]]</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]], [[1qx1\|1qx1]], [[1r33\|1r33]], [[1r34\|1r34]], [[1tqs\|1tqs]], [[1tqt\|1tqt]], [[1tqu\|1tqu]], [[1tqv\|1tqv]], [[1tqw\|1tqw]], [[2alw\|2alw]], [[2f18\|2f18]], [[2f1a\|2f1a]], [[2f1b\|2f1b]], [[2f7o\|2f7o]], [[2f7p\|2f7p]], [[2f7q\|2f7q]], [[2f7r\|2f7r]], [[3bud\|3bud]], [[3bui\|3bui]]</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=3bub FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bub OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bub RCSB], [http://www.ebi.ac.uk/pdbsum/3bub 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=3bub FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bub OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bub RCSB], [http://www.ebi.ac.uk/pdbsum/3bub 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: Glycosidase]]		[[Category: Glycosidase]]
	[[Category: Glycosyl hydrolase family 38]]		[[Category: Glycosyl hydrolase family 38]]

OCA at 09:14, 29 September 2014

2014-09-29T09:14:21Z

← Older revision		Revision as of 09:14, 29 September 2014
Line 1:		Line 1:
	[[Image:~~3bub~~.~~png~~\|~~left~~\|~~200px~~]]		==Golgi alpha-mannosidase II with an empty active site==
			<StructureSection load='3bub' size='340' side='right' caption='[[3bub]], [[Resolution\|resolution]] 1.38Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[3bub]] 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=3BUB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BUB 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=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]], [[1qx1\|1qx1]], [[1r33\|1r33]], [[1r34\|1r34]], [[1tqs\|1tqs]], [[1tqt\|1tqt]], [[1tqu\|1tqu]], [[1tqv\|1tqv]], [[1tqw\|1tqw]], [[2alw\|2alw]], [[2f18\|2f18]], [[2f1a\|2f1a]], [[2f1b\|2f1b]], [[2f7o\|2f7o]], [[2f7p\|2f7p]], [[2f7q\|2f7q]], [[2f7r\|2f7r]], [[3bud\|3bud]], [[3bui\|3bui]]</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=3bub FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bub OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3bub RCSB], [http://www.ebi.ac.uk/pdbsum/3bub 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/bu/3bub_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 ==
			Inhibition of Golgi alpha-mannosidase II (GMII), which acts late in the N-glycan processing pathway, provides a route to blocking cancer-induced changes in cell surface oligosaccharide structures. To probe the substrate requirements of GMII, oligosaccharides were synthesized that contained an alpha(1,3)- or alpha(1,6)-linked 1-thiomannoside. Surprisingly, these oligosaccharides were not observed in X-ray crystal structures of native Drosophila GMII (dGMII). However, a mutant enzyme in which the catalytic nucleophilic aspartate was changed to alanine (D204A) allowed visualization of soaked oligosaccharides and led to the identification of the binding site for the alpha(1,3)-linked mannoside of the natural substrate. These studies also indicate that the conformational change of the bound mannoside to a high-energy B 2,5 conformation is facilitated by steric hindrance from, and the formation of strong hydrogen bonds to, Asp204. The observation that 1-thio-linked mannosides are not well tolerated by the catalytic site of dGMII led to the synthesis of a pentasaccharide containing the alpha(1,6)-linked Man of the natural substrate and the beta(1,2)-linked GlcNAc moiety proposed to be accommodated by the extended binding site of the enzyme. A cocrystal structure of this compound with the D204A enzyme revealed the molecular interactions with the beta(1,2)-linked GlcNAc. The structure is consistent with the approximately 80-fold preference of dGMII for the cleavage of substrates containing a nonreducing beta(1,2)-linked GlcNAc. By contrast, the lysosomal mannosidase lacks an equivalent GlcNAc binding site and kinetic analysis indicates oligomannoside substrates without non-reducing-terminal GlcNAc modifications are preferred, suggesting that selective inhibitors for GMII could exploit the additional binding specificity of the GlcNAc binding site.

	~~{{STRUCTURE_3bub\| PDB=3bub \| SCENE= }}~~		Probing the Substrate Specificity of Golgi alpha-Mannosidase II by Use of Synthetic Oligosaccharides and a Catalytic Nucleophile Mutant.,Zhong W, Kuntz DA, Ember B, Singh H, Moremen KW, Rose DR, Boons GJ J Am Chem Soc. 2008 Jun 18;. PMID:18558690<ref>PMID:18558690</ref>

	~~===Golgi alpha-mannosidase II with an empty active site===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_18558690}}~~

	~~==About this Structure==~~
	~~[[3bub]] 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=3BUB OCA].~~

	==See Also==		==See Also==
	*[[Mannosidase\|Mannosidase]]		*[[Mannosidase\|Mannosidase]]
			== References ==
	==~~Reference~~==		<references/>
	<~~ref group="xtra">PMID:018558690<~~/~~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 10:20, 20 October 2012

2012-10-20T10:20:55Z

← Older revision		Revision as of 10:20, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
	[[3bub]] 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=3BUB OCA].		[[3bub]] 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=3BUB OCA].

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

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

2012-07-26T01:48:14Z

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

← Older revision	Revision as of 01:48, 26 July 2012
(No difference)

OCA at 01:48, 26 July 2012

2012-07-26T01:48:13Z

← Older revision		Revision as of 01:48, 26 July 2012
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	~~{{Seed}}~~
	[[Image:3bub.png\|left\|200px]]		[[Image:3bub.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_3bub", 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_3bub\| PDB=3bub \| SCENE= }}		{{STRUCTURE_3bub\| PDB=3bub \| SCENE= }}

	===Golgi alpha-mannosidase II with an empty active site===		===Golgi alpha-mannosidase II with an empty active site===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_18558690}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at http://www.pubmed.gov), where 18558690 is the PubMed ID number.~~
	~~-->~~
	{{ABSTRACT_PUBMED_18558690}}		{{ABSTRACT_PUBMED_18558690}}

	==About this Structure==		==About this Structure==
	~~3BUB~~ 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=3BUB OCA].		[[3bub]] 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=3BUB OCA].

			==See Also==
			*[[Mannosidase\|Mannosidase]]

	==Reference==		==Reference==
	<ref group="xtra">PMID:~~18558690~~</ref><references group="xtra"/>		<ref group="xtra">PMID:018558690</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 31:		Line 22:
	[[Category: Glycosyl hydrolase family 38]]		[[Category: Glycosyl hydrolase family 38]]
	[[Category: Golgi apparatus]]		[[Category: Golgi apparatus]]
			[[Category: Hydrolase]]
	[[Category: Membrane]]		[[Category: Membrane]]
	[[Category: Signal-anchor]]		[[Category: Signal-anchor]]
	[[Category: Transmembrane]]		[[Category: Transmembrane]]

	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 22:56:31 2009''~~