5mm1 - Revision history

OCA at 17:37, 8 November 2023

2023-11-08T17:37:34Z

←Older revision		Revision as of 17:37, 8 November 2023
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	<StructureSection load='5mm1' size='340' side='right'caption='[[5mm1]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='5mm1' size='340' side='right'caption='[[5mm1]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5mm1]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MM1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5MM1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5mm1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_furiosus_DSM_3638 Pyrococcus furiosus DSM 3638]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MM1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5MM1 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=MJC:dolichyl+phosphate+mannose'>MJC</scene></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.6Å</td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5mm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mm1 OCA], [~~http~~://pdbe.org/5mm1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5mm1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5mm1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5mm1 ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=MJC:dolichyl+phosphate+mannose'>MJC</scene></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=5mm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mm1 OCA], [https://pdbe.org/5mm1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5mm1 RCSB], [https://www.ebi.ac.uk/pdbsum/5mm1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5mm1 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/DPM1_PYRFU DPM1_PYRFU] Transfers mannose from GDP-mannose to dolichol monophosphate to form dolichol phosphate mannose (Dol-P-Man) which is the mannosyl donor in pathways leading to N-glycosylation, glycosyl phosphatidylinositol membrane anchoring, and O-mannosylation of proteins.<ref>PMID:28743912</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Divne, C~~]]	+	[[Category: Pyrococcus furiosus DSM 3638]]
-	[[Category: ~~Gandini, R~~]]	+	[[Category: Divne C]]
-	[[Category: ~~Reichenbach, T~~]]	+	[[Category: Gandini R]]
-	[[Category: ~~Tan,~~ T C]]	+	[[Category: Reichenbach T]]
-	[[Category: ~~Dolichol phosphate mannose synthase]]~~	+	[[Category: Tan TC]]
-	~~[[Category: Dolichyl phosphate mannose]]~~	+
-	~~[[Category: Enzyme]]~~	+
-	~~[[Category: Gdp]]~~	+
-	~~[[Category: Integral membrane protein]]~~	+
-	~~[[Category: Membrane protein]]~~	+
-	~~[[Category: Product complex]]~~	+
-	~~[[Category: Protein glycosylation~~]]	+

OCA at 07:23, 19 August 2020

2020-08-19T07:23:13Z

←Older revision		Revision as of 07:23, 19 August 2020
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	==Dolichyl phosphate mannose synthase in complex with GDP and dolichyl phosphate mannose==		==Dolichyl phosphate mannose synthase in complex with GDP and dolichyl phosphate mannose==
-	<StructureSection load='5mm1' size='340' side='right' caption='[[5mm1]], [[Resolution\|resolution]] 2.60Å' scene=''>	+	<StructureSection load='5mm1' size='340' side='right'caption='[[5mm1]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5mm1]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MM1 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5MM1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5mm1]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MM1 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5MM1 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=MJC:dolichyl+phosphate+mannose'>MJC</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=MJC:dolichyl+phosphate+mannose'>MJC</scene></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=5mm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mm1 OCA], [http://pdbe.org/5mm1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mm1 RCSB], [http://www.ebi.ac.uk/pdbsum/5mm1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mm1 ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5mm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mm1 OCA], [http://pdbe.org/5mm1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mm1 RCSB], [http://www.ebi.ac.uk/pdbsum/5mm1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mm1 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Divne, C]]		[[Category: Divne, C]]
	[[Category: Gandini, R]]		[[Category: Gandini, R]]

OCA at 09:02, 9 August 2017

2017-08-09T09:02:28Z

←Older revision		Revision as of 09:02, 9 August 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5mm1 is ~~ON HOLD until Paper~~ Publication	+	==Dolichyl phosphate mannose synthase in complex with GDP and dolichyl phosphate mannose==
		+	<StructureSection load='5mm1' size='340' side='right' caption='[[5mm1]], [[Resolution\|resolution]] 2.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5mm1]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MM1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5MM1 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=MJC:dolichyl+phosphate+mannose'>MJC</scene></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=5mm1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mm1 OCA], [http://pdbe.org/5mm1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mm1 RCSB], [http://www.ebi.ac.uk/pdbsum/5mm1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mm1 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Protein glycosylation is a critical protein modification. In biogenic membranes of eukaryotes and archaea, these reactions require activated mannose in the form of the lipid conjugate dolichylphosphate mannose (Dol-P-Man). The membrane protein dolichylphosphate mannose synthase (DPMS) catalyzes the reaction whereby mannose is transferred from GDP-mannose to the dolichol carrier Dol-P, to yield Dol-P-Man. Failure to produce or utilize Dol-P-Man compromises organism viability, and in humans, several mutations in the human dpm1 gene lead to congenital disorders of glycosylation (CDG). Here, we report three high-resolution crystal structures of archaeal DPMS from Pyrococcus furiosus, in complex with nucleotide, donor, and glycolipid product. The structures offer snapshots along the catalytic cycle, and reveal how lipid binding couples to movements of interface helices, metal binding, and acceptor loop dynamics to control critical events leading to Dol-P-Man synthesis. The structures also rationalize the loss of dolichylphosphate mannose synthase function in dpm1-associated CDG.The generation of glycolipid dolichylphosphate mannose (Dol-P-Man) is a critical step for protein glycosylation and GPI anchor synthesis. Here the authors report the structure of dolichylphosphate mannose synthase in complex with bound nucleotide and donor to provide insight into the mechanism of Dol-P-Man synthesis.

-	~~Authors~~:	+	Structural basis for dolichylphosphate mannose biosynthesis.,Gandini R, Reichenbach T, Tan TC, Divne C Nat Commun. 2017 Jul 25;8(1):120. doi: 10.1038/s41467-017-00187-2. PMID:28743912<ref>PMID:28743912</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5mm1" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Divne, C]]
		+	[[Category: Gandini, R]]
		+	[[Category: Reichenbach, T]]
		+	[[Category: Tan, T C]]
		+	[[Category: Dolichol phosphate mannose synthase]]
		+	[[Category: Dolichyl phosphate mannose]]
		+	[[Category: Enzyme]]
		+	[[Category: Gdp]]
		+	[[Category: Integral membrane protein]]
		+	[[Category: Membrane protein]]
		+	[[Category: Product complex]]
		+	[[Category: Protein glycosylation]]

OCA at 14:59, 1 February 2017

2017-02-01T14:59:13Z

←Older revision		Revision as of 14:59, 1 February 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5mm1 is ON HOLD	+	The entry 5mm1 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "5mm1" [edit=sysop:move=sysop]

2016-12-15T16:29:09Z

Protected "5mm1" [edit=sysop:move=sysop]

←Older revision

Revision as of 16:29, 15 December 2016

OCA: New page: '''Unreleased structure''' The entry 5mm1 is ON HOLD Authors: Description: Category: Unreleased Structures

2016-12-15T16:29:08Z

New page: '''Unreleased structure''' The entry 5mm1 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5mm1 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]