2ri8 - Revision history

OCA at 04:26, 2 July 2021

2021-07-02T04:26:21Z

←Older revision		Revision as of 04:26, 2 July 2021
Line 1:		Line 1:

	==Penicillium citrinum alpha-1,2-mannosidase complex with glycerol==		==Penicillium citrinum alpha-1,2-mannosidase complex with glycerol==
-	<StructureSection load='2ri8' size='340' side='right' caption='[[2ri8]], [[Resolution\|resolution]] 2.16Å' scene=''>	+	<StructureSection load='2ri8' size='340' side='right'caption='[[2ri8]], [[Resolution\|resolution]] 2.16Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ri8]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_1109 Atcc 1109]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RI8 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2RI8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ri8]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_1109 Atcc 1109]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RI8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2RI8 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</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=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</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">[[1kkt\|1kkt]], [[1kre\|1kre]], [[1krf\|1krf]], [[2ri9\|2ri9]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1kkt\|1kkt]], [[1kre\|1kre]], [[1krf\|1krf]], [[2ri9\|2ri9]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MSDC ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5077 ATCC 1109])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MSDC ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5077 ATCC 1109])</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_1,2-alpha-mannosidase Mannosyl-oligosaccharide 1,2-alpha-mannosidase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.113 3.2.1.113] </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_1,2-alpha-mannosidase Mannosyl-oligosaccharide 1,2-alpha-mannosidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.113 3.2.1.113] </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=2ri8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ri8 OCA], [~~http~~://pdbe.org/2ri8 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2ri8 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2ri8 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2ri8 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=2ri8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ri8 OCA], [https://pdbe.org/2ri8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ri8 RCSB], [https://www.ebi.ac.uk/pdbsum/2ri8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ri8 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/MAN12_PENCI MAN12_PENCI]] Involved in the maturation of Asn-linked oligosaccharides. Progressively trim alpha-1,2-linked mannose residues from Man(9)GlcNAc(2) to produce Man(5)GlcNAc(2).	+	[[https://www.uniprot.org/uniprot/MAN12_PENCI MAN12_PENCI]] Involved in the maturation of Asn-linked oligosaccharides. Progressively trim alpha-1,2-linked mannose residues from Man(9)GlcNAc(2) to produce Man(5)GlcNAc(2).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</div>		</div>
	<div class="pdbe-citations 2ri8" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2ri8" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Mannosidase 3D structures\|Mannosidase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 36:		Line 39:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 1109]]		[[Category: Atcc 1109]]
		+	[[Category: Large Structures]]
	[[Category: Mannosyl-oligosaccharide 1,2-alpha-mannosidase]]		[[Category: Mannosyl-oligosaccharide 1,2-alpha-mannosidase]]
	[[Category: Claeyssens, M]]		[[Category: Claeyssens, M]]

OCA at 19:01, 24 January 2018

2018-01-24T19:01:39Z

←Older revision		Revision as of 19:01, 24 January 2018
Line 1:		Line 1:
		+
	==Penicillium citrinum alpha-1,2-mannosidase complex with glycerol==		==Penicillium citrinum alpha-1,2-mannosidase complex with glycerol==
	<StructureSection load='2ri8' size='340' side='right' caption='[[2ri8]], [[Resolution\|resolution]] 2.16Å' scene=''>		<StructureSection load='2ri8' size='340' side='right' caption='[[2ri8]], [[Resolution\|resolution]] 2.16Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ri8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Penci Penci~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RI8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2RI8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ri8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_1109 Atcc 1109]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RI8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2RI8 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</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=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</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">[[1kkt\|1kkt]], [[1kre\|1kre]], [[1krf\|1krf]], [[2ri9\|2ri9]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kkt\|1kkt]], [[1kre\|1kre]], [[1krf\|1krf]], [[2ri9\|2ri9]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MSDC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5077 ~~PENCI~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MSDC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5077 ATCC 1109])</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_1,2-alpha-mannosidase Mannosyl-oligosaccharide 1,2-alpha-mannosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.113 3.2.1.113] </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_1,2-alpha-mannosidase Mannosyl-oligosaccharide 1,2-alpha-mannosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.113 3.2.1.113] </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=2ri8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ri8 OCA], [http://pdbe.org/2ri8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ri8 RCSB], [http://www.ebi.ac.uk/pdbsum/2ri8 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=2ri8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ri8 OCA], [http://pdbe.org/2ri8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ri8 RCSB], [http://www.ebi.ac.uk/pdbsum/2ri8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2ri8 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 15:		Line 16:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ri/2ri8_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ri/2ri8_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>
Line 30:		Line 31:
	</div>		</div>
	<div class="pdbe-citations 2ri8" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2ri8" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Mannosidase\|Mannosidase]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Atcc 1109]]
	[[Category: Mannosyl-oligosaccharide 1,2-alpha-mannosidase]]		[[Category: Mannosyl-oligosaccharide 1,2-alpha-mannosidase]]
-	[[Category: Penci]]
	[[Category: Claeyssens, M]]		[[Category: Claeyssens, M]]
	[[Category: Desmet, T]]		[[Category: Desmet, T]]

OCA at 12:47, 7 February 2016

2016-02-07T12:47:18Z

←Older revision		Revision as of 12:47, 7 February 2016
Line 2:		Line 2:
	<StructureSection load='2ri8' size='340' side='right' caption='[[2ri8]], [[Resolution\|resolution]] 2.16Å' scene=''>		<StructureSection load='2ri8' size='340' side='right' caption='[[2ri8]], [[Resolution\|resolution]] 2.16Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ri8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Penicillium_citrinum Penicillium citrinum~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RI8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2RI8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ri8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Penci Penci]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RI8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2RI8 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</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=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</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">[[1kkt\|1kkt]], [[1kre\|1kre]], [[1krf\|1krf]], [[2ri9\|2ri9]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kkt\|1kkt]], [[1kre\|1kre]], [[1krf\|1krf]], [[2ri9\|2ri9]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MSDC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5077 ~~Penicillium citrinum~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MSDC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5077 PENCI])</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_1,2-alpha-mannosidase Mannosyl-oligosaccharide 1,2-alpha-mannosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.113 3.2.1.113] </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_1,2-alpha-mannosidase Mannosyl-oligosaccharide 1,2-alpha-mannosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.113 3.2.1.113] </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=2ri8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ri8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ri8 RCSB], [http://www.ebi.ac.uk/pdbsum/2ri8 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=2ri8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ri8 OCA], [http://pdbe.org/2ri8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ri8 RCSB], [http://www.ebi.ac.uk/pdbsum/2ri8 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=2ri8 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 29:		Line 29:
	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 2ri8" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 37:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Mannosyl-oligosaccharide 1,2-alpha-mannosidase]]		[[Category: Mannosyl-oligosaccharide 1,2-alpha-mannosidase]]
-	[[Category: ~~Penicillium citrinum~~]]	+	[[Category: Penci]]
	[[Category: Claeyssens, M]]		[[Category: Claeyssens, M]]
	[[Category: Desmet, T]]		[[Category: Desmet, T]]

OCA at 15:13, 24 December 2014

2014-12-24T15:13:26Z

←Older revision		Revision as of 15:13, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2ri8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Penicillium_citrinum Penicillium citrinum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RI8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2RI8 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2ri8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Penicillium_citrinum Penicillium citrinum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RI8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2RI8 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</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=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</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">[[1kkt\|1kkt]], [[1kre\|1kre]], [[1krf\|1krf]], [[2ri9\|2ri9]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kkt\|1kkt]], [[1kre\|1kre]], [[1krf\|1krf]], [[2ri9\|2ri9]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MSDC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5077 Penicillium citrinum])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MSDC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5077 Penicillium citrinum])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mannosyl-oligosaccharide_1,2-alpha-mannosidase Mannosyl-oligosaccharide 1,2-alpha-mannosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.113 3.2.1.113] </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_1,2-alpha-mannosidase Mannosyl-oligosaccharide 1,2-alpha-mannosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.113 3.2.1.113] </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=2ri8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ri8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ri8 RCSB], [http://www.ebi.ac.uk/pdbsum/2ri8 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=2ri8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ri8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ri8 RCSB], [http://www.ebi.ac.uk/pdbsum/2ri8 PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/MAN12_PENCI MAN12_PENCI]] Involved in the maturation of Asn-linked oligosaccharides. Progressively trim alpha-1,2-linked mannose residues from Man(9)GlcNAc(2) to produce Man(5)GlcNAc(2).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 38:
	[[Category: Mannosyl-oligosaccharide 1,2-alpha-mannosidase]]		[[Category: Mannosyl-oligosaccharide 1,2-alpha-mannosidase]]
	[[Category: Penicillium citrinum]]		[[Category: Penicillium citrinum]]
-	[[Category: Claeyssens, M.]]	+	[[Category: Claeyssens, M]]
-	[[Category: Desmet, T.]]	+	[[Category: Desmet, T]]
-	[[Category: Herscovics, A.]]	+	[[Category: Herscovics, A]]
	[[Category: Howell, P L]]		[[Category: Howell, P L]]
-	[[Category: Lobsanov, Y D.]]	+	[[Category: Lobsanov, Y D]]
-	[[Category: Nerinckx, W.]]	+	[[Category: Nerinckx, W]]
-	[[Category: Yip, P.]]	+	[[Category: Yip, P]]
-	[[Category: Yoshida, T.]]	+	[[Category: Yoshida, T]]
	[[Category: Alternative conformation]]		[[Category: Alternative conformation]]
	[[Category: Glycoprotein]]		[[Category: Glycoprotein]]

OCA at 07:40, 29 September 2014

2014-09-29T07:40:51Z

←Older revision		Revision as of 07:40, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2ri8.~~png~~\|~~left~~\|200px]]	+	==Penicillium citrinum alpha-1,2-mannosidase complex with glycerol==
		+	<StructureSection load='2ri8' size='340' side='right' caption='[[2ri8]], [[Resolution\|resolution]] 2.16Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2ri8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Penicillium_citrinum Penicillium citrinum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RI8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2RI8 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</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">[[1kkt\|1kkt]], [[1kre\|1kre]], [[1krf\|1krf]], [[2ri9\|2ri9]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MSDC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5077 Penicillium citrinum])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mannosyl-oligosaccharide_1,2-alpha-mannosidase Mannosyl-oligosaccharide 1,2-alpha-mannosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.113 3.2.1.113] </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=2ri8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ri8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ri8 RCSB], [http://www.ebi.ac.uk/pdbsum/2ri8 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/ri/2ri8_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 ==
		+	Class I alpha-mannosidases (glycoside hydrolase family GH47) play key roles in the maturation of N-glycans and the ER-associated degradation of unfolded glycoproteins. The 1.95 A resolution structure of a fungal alpha-1,2-mannosidase in complex with the substrate analogue methyl-alpha-D-lyxopyranosyl-(1',2)-alpha-D-mannopyranoside (LM) shows the intact disaccharide spanning the -1/+1 subsites, with the D-lyxoside ring in the -1 subsite in the 1C4 chair conformation, and provides insight into the mechanism of catalysis. The absence of the C5' hydroxymethyl group on the D-lyxoside moiety results in the side chain of Arg407 adopting two alternative conformations: the minor one interacting with Asp375 and the major one interacting with both the D-lyxoside and the catalytic base Glu409, thus disrupting its function. Chemical modification of Asp375 has previously been shown to inactivate the enzyme. Taken together, the data suggest that Arg407, which belongs to the conserved sequence motif RPExxE, may act to modulate the activity of the enzyme. The proposed mechanism for modulating the activity is potentially a general mechanism for this superfamily.

-	~~{{STRUCTURE_2ri8\| PDB=2ri8 \| SCENE= }}~~	+	Modulation of activity by Arg407: structure of a fungal alpha-1,2-mannosidase in complex with a substrate analogue.,Lobsanov YD, Yoshida T, Desmet T, Nerinckx W, Yip P, Claeyssens M, Herscovics A, Howell PL Acta Crystallogr D Biol Crystallogr. 2008 Mar;64(Pt 3):227-36. Epub 2008, Feb 20. PMID:18323617<ref>PMID:18323617</ref>

-	~~===Penicillium citrinum alpha-1~~,~~2-mannosidase complex with glycerol===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18323617}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2ri8]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Penicillium_citrinum Penicillium citrinum]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2RI8 OCA].~~	+

	==See Also==		==See Also==
	*[[Mannosidase\|Mannosidase]]		*[[Mannosidase\|Mannosidase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:018323617<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Mannosyl-oligosaccharide 1,2-alpha-mannosidase]]		[[Category: Mannosyl-oligosaccharide 1,2-alpha-mannosidase]]
	[[Category: Penicillium citrinum]]		[[Category: Penicillium citrinum]]

OCA at 06:41, 20 October 2012

2012-10-20T06:41:45Z

←Older revision		Revision as of 06:41, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2ri8]] is a 2 chain structure ~~of [[Mannosidase]]~~ with sequence from [http://en.wikipedia.org/wiki/Penicillium_citrinum Penicillium citrinum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RI8 OCA].	+	[[2ri8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Penicillium_citrinum Penicillium citrinum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RI8 OCA].

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

OCA: Protected "2ri8" [edit=sysop:move=sysop]

2012-07-25T14:01:07Z

Protected "2ri8" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:01, 25 July 2012

OCA at 14:01, 25 July 2012

2012-07-25T14:01:05Z

←Older revision		Revision as of 14:01, 25 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2ri8.png\|left\|200px]]		[[Image:2ri8.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2ri8", 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),
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	{{STRUCTURE_2ri8\| PDB=2ri8 \| SCENE= }}		{{STRUCTURE_2ri8\| PDB=2ri8 \| SCENE= }}

	===Penicillium citrinum alpha-1,2-mannosidase complex with glycerol===		===Penicillium citrinum alpha-1,2-mannosidase complex with glycerol===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18323617}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18323617 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18323617}}		{{ABSTRACT_PUBMED_18323617}}

	==About this Structure==		==About this Structure==
-	~~2RI8~~ is a 2 ~~chains~~ structure of ~~sequences~~ from [http://en.wikipedia.org/wiki/Penicillium_citrinum Penicillium citrinum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RI8 OCA].	+	[[2ri8]] is a 2 chain structure of [[Mannosidase]] with sequence from [http://en.wikipedia.org/wiki/Penicillium_citrinum Penicillium citrinum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RI8 OCA].
		+
		+	==See Also==
		+	*[[Mannosidase\|Mannosidase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18323617~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018323617</ref><references group="xtra"/>
	[[Category: Mannosyl-oligosaccharide 1,2-alpha-mannosidase]]		[[Category: Mannosyl-oligosaccharide 1,2-alpha-mannosidase]]
	[[Category: Penicillium citrinum]]		[[Category: Penicillium citrinum]]
Line 40:		Line 31:
	[[Category: Modulation of activity]]		[[Category: Modulation of activity]]
	[[Category: Secreted]]		[[Category: Secreted]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 13:54:18 2009''

OCA at 11:54, 16 February 2009

2009-02-16T11:54:19Z

←Older revision		Revision as of 11:54, 16 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2RI8 is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Penicillium_citrinum Penicillium citrinum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RI8 OCA].	+	2RI8 is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Penicillium_citrinum Penicillium citrinum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RI8 OCA].

	==Reference==		==Reference==
-	Modulation of activity by Arg407: structure of a fungal alpha-1,2-mannosidase in complex with a substrate analogue., Lobsanov YD, Yoshida T, Desmet T, Nerinckx W, Yip P, Claeyssens M, Herscovics A, Howell PL, Acta Crystallogr D Biol Crystallogr. 2008 Mar;64(Pt 3):227-36. Epub 2008, Feb 20. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18323617 18323617]~~	+	<ref group="xtra">PMID:18323617</ref><references group="xtra"/>
	[[Category: Mannosyl-oligosaccharide 1,2-alpha-mannosidase]]		[[Category: Mannosyl-oligosaccharide 1,2-alpha-mannosidase]]
	[[Category: Penicillium citrinum]]		[[Category: Penicillium citrinum]]
-	[[Category: Single protein]]
	[[Category: Claeyssens, M.]]		[[Category: Claeyssens, M.]]
	[[Category: Desmet, T.]]		[[Category: Desmet, T.]]
Line 42:		Line 41:
	[[Category: Secreted]]		[[Category: Secreted]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun Jul 27~~ 16:26:~~46 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 13:54:18 2009''

OCA at 13:26, 27 July 2008

2008-07-27T13:26:47Z

←Older revision		Revision as of 13:26, 27 July 2008
Line 1:		Line 1:
-	[[Image:2ri8.~~jpg~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:2ri8.png\|left\|200px]]

	<!--		<!--
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	{{STRUCTURE_2ri8\| PDB=2ri8 \| SCENE= }}		{{STRUCTURE_2ri8\| PDB=2ri8 \| SCENE= }}

-	~~'''~~Penicillium citrinum alpha-1,2-mannosidase complex with glycerol~~'''~~	+	===Penicillium citrinum alpha-1,2-mannosidase complex with glycerol===


-	~~==Overview==~~	+	<!--
-	~~Class I alpha~~-~~mannosidases (glycoside hydrolase family GH47) play key roles in the maturation of N~~-~~glycans and the ER-associated degradation of unfolded glycoproteins.~~ The ~~1.95 A resolution structure of a fungal alpha-1~~,~~2-mannosidase in complex with the substrate analogue methyl-alpha-D-lyxopyranosyl-(1'~~,~~2)-alpha-D-mannopyranoside (LM) shows~~ the ~~intact disaccharide spanning the -1/+1 subsites, with the D-lyxoside ring in the -1 subsite in~~ the (~~1)C(4) chair conformation, and provides insight into the mechanism of catalysis. The absence of the C5' hydroxymethyl group~~ on ~~the D-lyxoside moiety results in the side chain of Arg407 adopting two alternative conformations~~: ~~the minor one interacting with Asp375 and the major one interacting with both the D-lyxoside and the catalytic base Glu409, thus disrupting its function~~. ~~Chemical modification of Asp375 has previously been shown to inactivate the enzyme~~. ~~Taken together~~, the data suggest that Arg407, which belongs to the conserved sequence motif RPExxE, may act to modulate the activity of the enzyme. The proposed mechanism for modulating the activity is potentially a general mechanism for this superfamily.	+	The line below this paragraph, {{ABSTRACT_PUBMED_18323617}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 18323617 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_18323617}}

	==About this Structure==		==About this Structure==
Line 37:		Line 41:
	[[Category: Modulation of activity]]		[[Category: Modulation of activity]]
	[[Category: Secreted]]		[[Category: Secreted]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun ~~May 4~~ 16:57:19 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 16:26:46 2008''