6sni - Revision history

OCA at 10:27, 18 March 2020

OCA — Wed, 18 Mar 2020 10:27:43 GMT

←Older revision		Revision as of 10:27, 18 March 2020
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	<StructureSection load='6sni' size='340' side='right'caption='[[6sni]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='6sni' size='340' side='right'caption='[[6sni]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6sni]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6SNI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6SNI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6sni]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824] and [http://en.wikipedia.org/wiki/Synthetic_construct_sequences Synthetic construct sequences]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6SNI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6SNI FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PTY:PHOSPHATIDYLETHANOLAMINE'>PTY</scene>, <scene name='pdbligand=Y01:CHOLESTEROL+HEMISUCCINATE'>Y01</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PTY:PHOSPHATIDYLETHANOLAMINE'>PTY</scene>, <scene name='pdbligand=Y01:CHOLESTEROL+HEMISUCCINATE'>Y01</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ALG6, YOR002W, UNA544 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dolichyl-P-Glc:Man(9)GlcNAc(2)-PP-dolichol_alpha-1,3-glucosyltransferase Dolichyl-P-Glc:Man(9)GlcNAc(2)-PP-dolichol alpha-1,3-glucosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.1.267 2.4.1.267] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dolichyl-P-Glc:Man(9)GlcNAc(2)-PP-dolichol_alpha-1,3-glucosyltransferase Dolichyl-P-Glc:Man(9)GlcNAc(2)-PP-dolichol alpha-1,3-glucosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.1.267 2.4.1.267] </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=6sni FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6sni OCA], [http://pdbe.org/6sni PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6sni RCSB], [http://www.ebi.ac.uk/pdbsum/6sni PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6sni ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6sni FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6sni OCA], [http://pdbe.org/6sni PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6sni RCSB], [http://www.ebi.ac.uk/pdbsum/6sni PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6sni ProSAT]</span></td></tr>
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	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/ALG6_YEAST ALG6_YEAST]] Adds the first glucose residue to the lipid-linked oligosaccharide precursor for N-linked glycosylation. Transfers glucose from dolichyl phosphate glucose (Dol-P-Glc) onto the lipid-linked oligosaccharide Man(9)GlcNAc(2)-PP-Dol.<ref>PMID:8877369</ref>		[[http://www.uniprot.org/uniprot/ALG6_YEAST ALG6_YEAST]] Adds the first glucose residue to the lipid-linked oligosaccharide precursor for N-linked glycosylation. Transfers glucose from dolichyl phosphate glucose (Dol-P-Glc) onto the lipid-linked oligosaccharide Man(9)GlcNAc(2)-PP-Dol.<ref>PMID:8877369</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	In eukaryotic protein N-glycosylation, a series of glycosyltransferases catalyse the biosynthesis of a dolichylpyrophosphate-linked oligosaccharide before its transfer onto acceptor proteins(1). The final seven steps occur in the lumen of the endoplasmic reticulum (ER) and require dolichylphosphate-activated mannose and glucose as donor substrates(2). The responsible enzymes-ALG3, ALG9, ALG12, ALG6, ALG8 and ALG10-are glycosyltransferases of the C-superfamily (GT-Cs), which are loosely defined as containing membrane-spanning helices and processing an isoprenoid-linked carbohydrate donor substrate(3,4). Here we present the cryo-electron microscopy structure of yeast ALG6 at 3.0 A resolution, which reveals a previously undescribed transmembrane protein fold. Comparison with reported GT-C structures suggests that GT-C enzymes contain a modular architecture with a conserved module and a variable module, each with distinct functional roles. We used synthetic analogues of dolichylphosphate-linked and dolichylpyrophosphate-linked sugars and enzymatic glycan extension to generate donor and acceptor substrates using purified enzymes of the ALG pathway to recapitulate the activity of ALG6 in vitro. A second cryo-electron microscopy structure of ALG6 bound to an analogue of dolichylphosphate-glucose at 3.9 A resolution revealed the active site of the enzyme. Functional analysis of ALG6 variants identified a catalytic aspartate residue that probably acts as a general base. This residue is conserved in the GT-C superfamily. Our results define the architecture of ER-luminal GT-C enzymes and provide a structural basis for understanding their catalytic mechanisms.
		+
		+	Structure and mechanism of the ER-based glucosyltransferase ALG6.,Bloch JS, Pesciullesi G, Boilevin J, Nosol K, Irobalieva RN, Darbre T, Aebi M, Kossiakoff AA, Reymond JL, Locher KP Nature. 2020 Feb 26. pii: 10.1038/s41586-020-2044-z. doi:, 10.1038/s41586-020-2044-z. PMID:32103179<ref>PMID:32103179</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6sni" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Atcc 18824]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Synthetic construct sequences]]
	[[Category: Aebi, M]]		[[Category: Aebi, M]]
	[[Category: Bloch, J S]]		[[Category: Bloch, J S]]

OCA at 07:27, 11 March 2020

OCA — Wed, 11 Mar 2020 07:27:17 GMT

←Older revision		Revision as of 07:27, 11 March 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6sni is ~~ON HOLD until Paper Publication~~	+	==Cryo-EM structure of nanodisc reconstituted yeast ALG6 in complex with 6AG9 Fab==
-		+	<StructureSection load='6sni' size='340' side='right'caption='[[6sni]], [[Resolution\|resolution]] 3.00Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6sni]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6SNI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6SNI FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PTY:PHOSPHATIDYLETHANOLAMINE'>PTY</scene>, <scene name='pdbligand=Y01:CHOLESTEROL+HEMISUCCINATE'>Y01</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dolichyl-P-Glc:Man(9)GlcNAc(2)-PP-dolichol_alpha-1,3-glucosyltransferase Dolichyl-P-Glc:Man(9)GlcNAc(2)-PP-dolichol alpha-1,3-glucosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.1.267 2.4.1.267] </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=6sni FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6sni OCA], [http://pdbe.org/6sni PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6sni RCSB], [http://www.ebi.ac.uk/pdbsum/6sni PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6sni ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/ALG6_YEAST ALG6_YEAST]] Adds the first glucose residue to the lipid-linked oligosaccharide precursor for N-linked glycosylation. Transfers glucose from dolichyl phosphate glucose (Dol-P-Glc) onto the lipid-linked oligosaccharide Man(9)GlcNAc(2)-PP-Dol.<ref>PMID:8877369</ref>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Aebi, M]]
		+	[[Category: Bloch, J S]]
		+	[[Category: Boilevin, J]]
		+	[[Category: Darbre, T]]
		+	[[Category: Irobalieva, R N]]
		+	[[Category: Kossiakoff, A A]]
		+	[[Category: Locher, K P]]
		+	[[Category: Nosol, K]]
		+	[[Category: Pesciullesi, G]]
		+	[[Category: Reymond, J L]]
		+	[[Category: Glucosyltransferase]]
		+	[[Category: Glycosyltransferase]]
		+	[[Category: Gt-c]]
		+	[[Category: Membrane protein]]
		+	[[Category: N-glycosylation]]

OCA at 08:04, 26 February 2020

OCA — Wed, 26 Feb 2020 08:04:55 GMT

←Older revision		Revision as of 08:04, 26 February 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6sni is ON HOLD until ~~Aug 24 2021~~	+	The entry 6sni is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6sni" [edit=sysop:move=sysop]

OCA — Wed, 02 Oct 2019 07:26:39 GMT

Protected "6sni" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:26, 2 October 2019

OCA: New page: '''Unreleased structure''' The entry 6sni is ON HOLD until Aug 24 2021 Authors: Description: Category: Unreleased Structures

OCA — Wed, 02 Oct 2019 07:26:37 GMT

New page: '''Unreleased structure''' The entry 6sni is ON HOLD until Aug 24 2021 Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6sni is ON HOLD until Aug 24 2021

Authors:

Description:
[[Category: Unreleased Structures]]