7uld - Revision history

OCA at 11:37, 23 October 2024

2024-10-23T11:37:23Z

← Older revision		Revision as of 11:37, 23 October 2024
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	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/COFE_ARCFU COFE_ARCFU] Catalyzes the GTP-dependent successive addition of two L-glutamates to the L-lactyl phosphodiester of 7,8-didemethyl-8-hydroxy-5-deazariboflavin (F420-0) to form coenzyme F420-0-glutamyl-glutamate (F420-2), with a gamma-linkage between the two glutamates. May be able to add up to four gamma-linked glutamates, since F420-4 is a species that was isolated from A.fulgidus.<ref>PMID:17669425</ref>		[https://www.uniprot.org/uniprot/COFE_ARCFU COFE_ARCFU] Catalyzes the GTP-dependent successive addition of two L-glutamates to the L-lactyl phosphodiester of 7,8-didemethyl-8-hydroxy-5-deazariboflavin (F420-0) to form coenzyme F420-0-glutamyl-glutamate (F420-2), with a gamma-linkage between the two glutamates. May be able to add up to four gamma-linked glutamates, since F420-4 is a species that was isolated from A.fulgidus.<ref>PMID:17669425</ref>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Poly-gamma-glutamate tails are a distinctive feature of archaeal, bacterial, and eukaryotic cofactors, including the folates and F(420). Despite decades of research, key mechanistic questions remain as to how enzymes successively add glutamates to poly-gamma-glutamate chains while maintaining cofactor specificity. Here, we show how poly-gamma-glutamylation of folate and F(420) by folylpolyglutamate synthases and gamma-glutamyl ligases, non-homologous enzymes, occurs via processive addition of L-glutamate onto growing gamma-glutamyl chain termini. We further reveal structural snapshots of the archaeal gamma-glutamyl ligase (CofE) in action, crucially including a bulged-chain product that shows how the cofactor is retained while successive glutamates are added to the chain terminus. This bulging substrate model of processive poly-gamma-glutamylation by terminal extension is arguably ubiquitous in such biopolymerisation reactions, including addition to folates, and demonstrates convergent evolution in diverse species from archaea to humans.

			Poly-gamma-glutamylation of biomolecules.,Bashiri G, Bulloch EMM, Bramley WR, Davidson M, Stuteley SM, Young PG, Harris PWR, Naqvi MSH, Middleditch MJ, Schmitz M, Chang WC, Baker EN, Squire CJ Nat Commun. 2024 Feb 12;15(1):1310. doi: 10.1038/s41467-024-45632-1. PMID:38346985<ref>PMID:38346985</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 7uld" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 09:54, 25 October 2023

2023-10-25T09:54:57Z

← Older revision		Revision as of 09:54, 25 October 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7uld]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Archaeoglobus_fulgidus_DSM_4304 Archaeoglobus fulgidus DSM 4304]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7ULD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7ULD FirstGlance]. <br>		<table><tr><td colspan='2'>[[7uld]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Archaeoglobus_fulgidus_DSM_4304 Archaeoglobus fulgidus DSM 4304]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7ULD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7ULD FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CO3:CARBONATE+ION'>CO3</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.3Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CO3:CARBONATE+ION'>CO3</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=7uld FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7uld OCA], [https://pdbe.org/7uld PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7uld RCSB], [https://www.ebi.ac.uk/pdbsum/7uld PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7uld 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=7uld FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7uld OCA], [https://pdbe.org/7uld PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7uld RCSB], [https://www.ebi.ac.uk/pdbsum/7uld PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7uld ProSAT]</span></td></tr>
	</table>		</table>

OCA at 20:26, 12 April 2023

2023-04-12T20:26:55Z

← Older revision		Revision as of 20:26, 12 April 2023
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	~~'''Unreleased structure'''~~

	~~The entry~~ 7uld is ~~ON HOLD until Paper Publication~~		==GTP complex of F420-gamma glutamyl ligase (CofE) from Archaeoglobus fulgidus==
			<StructureSection load='7uld' size='340' side='right'caption='[[7uld]], [[Resolution\|resolution]] 1.30Å' scene=''>
	~~Authors~~:		== Structural highlights ==
			<table><tr><td colspan='2'>[[7uld]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Archaeoglobus_fulgidus_DSM_4304 Archaeoglobus fulgidus DSM 4304]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7ULD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7ULD FirstGlance]. <br>
	~~Description~~:		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CO3:CARBONATE+ION'>CO3</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	[[Category: ~~Unreleased~~ Structures]]		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=7uld FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7uld OCA], [https://pdbe.org/7uld PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7uld RCSB], [https://www.ebi.ac.uk/pdbsum/7uld PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7uld ProSAT]</span></td></tr>
			</table>
			== Function ==
			[https://www.uniprot.org/uniprot/COFE_ARCFU COFE_ARCFU] Catalyzes the GTP-dependent successive addition of two L-glutamates to the L-lactyl phosphodiester of 7,8-didemethyl-8-hydroxy-5-deazariboflavin (F420-0) to form coenzyme F420-0-glutamyl-glutamate (F420-2), with a gamma-linkage between the two glutamates. May be able to add up to four gamma-linked glutamates, since F420-4 is a species that was isolated from A.fulgidus.<ref>PMID:17669425</ref>
			== References ==
			<references/>
			__TOC__
			</StructureSection>
			[[Category: Archaeoglobus fulgidus DSM 4304]]
			[[Category: Large Structures]]
			[[Category: Bashiri G]]
			[[Category: Squire CJ]]

OCA: Protected "7uld" [edit=sysop:move=sysop]

2022-04-13T08:35:24Z

Protected "7uld" [edit=sysop:move=sysop]

← Older revision	Revision as of 08:35, 13 April 2022
(No difference)

OCA: New page: '''Unreleased structure''' The entry 7uld is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

2022-04-13T08:35:23Z

New page: '''Unreleased structure''' The entry 7uld is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7uld is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]