OCA at 10:06, 14 December 2022

OCA — Wed, 14 Dec 2022 10:06:29 GMT

←Older revision		Revision as of 10:06, 14 December 2022
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7ykt is ~~ON HOLD until Paper~~ Publication	+	==Cryo-EM structure of Drg1 hexamer in helical state treated with ADP/AMPPNP/benzo-diazaborine==
		+	<StructureSection load='7ykt' size='340' side='right'caption='[[7ykt]], [[Resolution\|resolution]] 5.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[7ykt]] is a 6 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=7YKT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7YKT FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</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=7ykt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ykt OCA], [https://pdbe.org/7ykt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ykt RCSB], [https://www.ebi.ac.uk/pdbsum/7ykt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ykt ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/AFG2_YEAST AFG2_YEAST] ATP-dependent chaperone which uses the energy provided by ATP hydrolysis to generate mechanical force to disassemble protein complexes (PubMed:12006565, PubMed:17646390, PubMed:23185031, PubMed:24371142). Plays an essential role in the cytoplasmic maturation steps of pre-60S ribosomal particles by promoting the release of shuttling protein RLP24 from the pre-ribosomal particles (PubMed:17646390, PubMed:23185031, PubMed:24371142). This step facilitates the subsequent release of other shuttling proteins such as NOG1 and allows the transition of the pre-ribosomal particles to later maturation forms that bind REI1 (PubMed:17646390, PubMed:23185031, PubMed:24371142). Essential for viability (PubMed:8109176, PubMed:24371142).<ref>PMID:12006565</ref> <ref>PMID:17646390</ref> <ref>PMID:23185031</ref> <ref>PMID:24371142</ref> <ref>PMID:8109176</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The type II AAA + ATPase Drg1 is a ribosome assembly factor, functioning to release Rlp24 from the pre-60S particle just exported from nucleus, and its activity in can be inhibited by a drug molecule diazaborine. However, molecular mechanisms of Drg1-mediated Rlp24 removal and diazaborine-mediated inhibition are not fully understood. Here, we report Drg1 structures in different nucleotide-binding and benzo-diazaborine treated states. Drg1 hexamers transits between two extreme conformations (planar or helical arrangement of protomers). By forming covalent adducts with ATP molecules in both ATPase domain, benzo-diazaborine locks Drg1 hexamers in a symmetric and non-productive conformation to inhibits both inter-protomer and inter-ring communication of Drg1 hexamers. We also obtained a substrate-engaged mutant Drg1 structure, in which conserved pore-loops form a spiral staircase to interact with the polypeptide through a sequence-independent manner. Structure-based mutagenesis data highlight the functional importance of the pore-loop, the D1-D2 linker and the inter-subunit signaling motif of Drg1, which share similar regulatory mechanisms with p97. Our results suggest that Drg1 may function as an unfoldase that threads a substrate protein within the pre-60S particle.

-	~~Authors~~:	+	Structural dynamics of AAA + ATPase Drg1 and mechanism of benzo-diazaborine inhibition.,Ma C, Wu D, Chen Q, Gao N Nat Commun. 2022 Nov 9;13(1):6765. doi: 10.1038/s41467-022-34511-2. PMID:36351914<ref>PMID:36351914</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 7ykt" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Saccharomyces cerevisiae]]
		+	[[Category: Chen Q]]
		+	[[Category: Gao N]]
		+	[[Category: Ma CY]]
		+	[[Category: Wu DM]]

OCA at 05:00, 7 December 2022

OCA — Wed, 07 Dec 2022 05:00:03 GMT

←Older revision		Revision as of 05:00, 7 December 2022
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7ykt is ON HOLD	+	The entry 7ykt is ON HOLD until Paper Publication

	Authors:		Authors:

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

OCA — Wed, 03 Aug 2022 03:39:57 GMT

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

←Older revision

Revision as of 03:39, 3 August 2022

OCA: New page: '''Unreleased structure''' The entry 7ykt is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 03 Aug 2022 03:39:56 GMT

New page: '''Unreleased structure''' The entry 7ykt is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7ykt is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]

7ykt - Revision history

OCA at 10:06, 14 December 2022

OCA at 05:00, 7 December 2022

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

OCA: New page: '''Unreleased structure''' The entry 7ykt is ON HOLD Authors: Description: Category: Unreleased Structures