6zqh - Revision history

OCA at 11:56, 1 February 2024

OCA — Thu, 01 Feb 2024 11:56:21 GMT

←Older revision		Revision as of 11:56, 1 February 2024
Line 1:		Line 1:

-	====	+	==Yeast Uba1 in complex with ubiquitin==
-	<StructureSection load='6zqh' size='340' side='right'caption='[[6zqh]]' scene=''>	+	<StructureSection load='6zqh' size='340' side='right'caption='[[6zqh]], [[Resolution\|resolution]] 2.03Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6zqh]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ZQH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6ZQH FirstGlance]. <br>
-	</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=6zqh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zqh OCA], [https://pdbe.org/6zqh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6zqh RCSB], [https://www.ebi.ac.uk/pdbsum/6zqh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6zqh ProSAT]</span></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]] 2.032Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</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=6zqh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zqh OCA], [https://pdbe.org/6zqh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6zqh RCSB], [https://www.ebi.ac.uk/pdbsum/6zqh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6zqh ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/UBA1_YEAST UBA1_YEAST] Activates ubiquitin by first adenylating its C-terminal glycine residue with ATP, and thereafter linking this residue to the side chain of a cysteine residue in E1, yielding an ubiquitin-E1 thioester and free AMP.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Legionnaires' disease is caused by infection with the intracellularly replicating Gram-negative bacterium Legionella pneumophila. This pathogen uses an unconventional way of ubiquitinating host proteins by generating a phosphoribosyl linkage between substrate proteins and ubiquitin by making use of an ADPribosylated ubiquitin (Ub(ADPr) ) intermediate. The family of SidE effector enzymes that catalyze this reaction is counteracted by Legionella hydrolases, which are called Dups. This unusual ubiquitination process is important for Legionella proliferation and understanding these processes on a molecular level might prove invaluable in finding new treatments. Herein, a modular approach is used for the synthesis of triazole-linked Ub(ADPr) , and analogues thereof, and their affinity towards the hydrolase DupA is determined and hydrolysis rates are compared to natively linked Ub(ADPr) . The inhibitory effects of modified Ub on the canonical eukaryotic E1-enzyme Uba1 are investigated and rationalized in the context of a high-resolution crystal structure reported herein. Finally, it is shown that synthetic Ub(ADPr) analogues can be used to effectively pull-down overexpressed DupA from cell lysate.
		+
		+	Development of ADPribosyl Ubiquitin Analogues to Study Enzymes Involved in Legionella Infection.,Kim RQ, Misra M, Gonzalez A, Tomaskovic I, Shin D, Schindelin H, Filippov DV, Ovaa H, Dikic I, van der Heden van Noort GJ Chemistry. 2021 Feb 1;27(7):2506-2512. doi: 10.1002/chem.202004590. Epub 2020 Dec , 23. PMID:33075184<ref>PMID:33075184</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6zqh" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[3D structures of Ubiquitin activating enzyme\|3D structures of Ubiquitin activating enzyme]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Saccharomyces cerevisiae]]
		+	[[Category: Misra M]]
		+	[[Category: Schindelin H]]

OCA at 14:59, 3 March 2021

OCA — Wed, 03 Mar 2021 14:59:51 GMT

←Older revision		Revision as of 14:59, 3 March 2021
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	<StructureSection load='6zqh' size='340' side='right'caption='[[6zqh]]' scene=''>		<StructureSection load='6zqh' size='340' side='right'caption='[[6zqh]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	</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=6zqh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zqh OCA], [~~http~~://pdbe.org/6zqh PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6zqh RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6zqh PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6zqh ProSAT]</span></td></tr>	+	</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=6zqh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zqh OCA], [https://pdbe.org/6zqh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6zqh RCSB], [https://www.ebi.ac.uk/pdbsum/6zqh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6zqh ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__

OCA at 07:25, 4 November 2020

OCA — Wed, 04 Nov 2020 07:25:01 GMT

←Older revision		Revision as of 07:25, 4 November 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6zqh ~~is ON HOLD until Jul 09 2022~~	+	====
-		+	<StructureSection load='6zqh' size='340' side='right'caption='[[6zqh]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	~~Description~~:	+	</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=6zqh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zqh OCA], [http://pdbe.org/6zqh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6zqh RCSB], [http://www.ebi.ac.uk/pdbsum/6zqh PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6zqh ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA at 08:11, 12 August 2020

OCA — Wed, 12 Aug 2020 08:11:22 GMT

←Older revision		Revision as of 08:11, 12 August 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6zqh is ON HOLD	+	The entry 6zqh is ON HOLD until Jul 09 2022

	Authors:		Authors:

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

OCA — Wed, 22 Jul 2020 08:13:02 GMT

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

←Older revision

Revision as of 08:13, 22 July 2020

OCA: New page: '''Unreleased structure''' The entry 6zqh is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 22 Jul 2020 08:13:00 GMT

New page: '''Unreleased structure''' The entry 6zqh is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6zqh is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]