OCA at 05:56, 23 August 2023

OCA — Wed, 23 Aug 2023 05:56:25 GMT

←Older revision		Revision as of 05:56, 23 August 2023
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-	'''Unreleased structure'''

-	~~The entry~~ 8sp0 is ~~ON HOLD until Paper~~ Publication	+	==Symmetric dimer of MapSPARTA bound with gRNA/tDNA hybrid==
		+	<StructureSection load='8sp0' size='340' side='right'caption='[[8sp0]], [[Resolution\|resolution]] 3.33Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[8sp0]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Maribacter_polysiphoniae Maribacter polysiphoniae] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8SP0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8SP0 FirstGlance]. <br>
		+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution\|Resolution]] 3.33Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=8sp0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8sp0 OCA], [https://pdbe.org/8sp0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8sp0 RCSB], [https://www.ebi.ac.uk/pdbsum/8sp0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8sp0 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A316E683_9FLAO A0A316E683_9FLAO]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	While eukaryotic Argonautes and long prokaryotic Argonautes (pAgos) cleave nucleic acids, some short pAgos lack nuclease activity and hydrolyze NAD(P)(+) to induce bacterial cell death(1). We present a hierarchical activation pathway for SPARTA, a short pAgo consisting of an Ago protein and an associated protein TIR-APAZ(2). SPARTA progresses through distinct oligomeric forms, including a monomeric apo state, a monomeric RNA/DNA-bound state, two dimeric RNA/DNA-bound states, and a tetrameric RNA/DNA-bound active state. These snapshots together identify oligomerization as a mechanistic principle of SPARTA activation. Apo SPARTA is inactive, its RNA/DNA-binding channel occupied an auto-inhibitory motif in TIR-APAZ. Upon RNA/DNA binding, SPARTA transitions from a monomer to a symmetric and then an asymmetric dimer, in which two TIR domains interact via charge and shape complementarity. Next, two dimers assemble into a tetramer with a central TIR cluster responsible for hydrolyzing NAD(P)(+). Additionally, we observed unique features of SPARTA-RNA/DNA interactions, including competition between the DNA 3' end and the auto-inhibitory motif, interactions between the RNA G2 nucleotide and Ago, and splaying of the RNA-DNA duplex by two loops exclusive to short pAgos. Together, our findings contribute a mechanistic basis for the activation of short pAgos, a large section of the Ago superfamily.

-	~~Authors~~:	+	Oligomerization-mediated activation of a short prokaryotic Argonaute.,Shen Z, Yang XY, Xia S, Huang W, Taylor DJ, Nakanishi K, Fu TM Nature. 2023 Jul 26. doi: 10.1038/s41586-023-06456-z. PMID:37494956<ref>PMID:37494956</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 8sp0" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Maribacter polysiphoniae]]
		+	[[Category: Synthetic construct]]
		+	[[Category: Fu TM]]
		+	[[Category: Shen ZF]]
		+	[[Category: Yang XY]]

OCA at 04:12, 9 August 2023

OCA — Wed, 09 Aug 2023 04:12:11 GMT

←Older revision		Revision as of 04:12, 9 August 2023
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 8sp0 is ON HOLD	+	The entry 8sp0 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "8sp0" [edit=sysop:move=sysop]

OCA — Wed, 10 May 2023 05:23:37 GMT

Protected "8sp0" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:23, 10 May 2023

OCA: New page: '''Unreleased structure''' The entry 8sp0 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 10 May 2023 05:23:34 GMT

New page: '''Unreleased structure''' The entry 8sp0 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 8sp0 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]

8sp0 - Revision history

OCA at 05:56, 23 August 2023

OCA at 04:12, 9 August 2023

OCA: Protected "8sp0" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 8sp0 is ON HOLD Authors: Description: Category: Unreleased Structures