8ea3 - Revision history

OCA at 06:33, 19 June 2024

2024-06-19T06:33:42Z

← Older revision		Revision as of 06:33, 19 June 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[8ea3]] is a 28 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli], [https://en.wikipedia.org/wiki/Scytonema_hofmannii Scytonema hofmannii] 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=8EA3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8EA3 FirstGlance]. <br>		<table><tr><td colspan='2'>[[8ea3]] is a 28 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli], [https://en.wikipedia.org/wiki/Scytonema_hofmannii Scytonema hofmannii] 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=8EA3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8EA3 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution\|Resolution]] 3.7Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <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=8ea3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8ea3 OCA], [https://pdbe.org/8ea3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8ea3 RCSB], [https://www.ebi.ac.uk/pdbsum/8ea3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8ea3 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=8ea3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8ea3 OCA], [https://pdbe.org/8ea3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8ea3 RCSB], [https://www.ebi.ac.uk/pdbsum/8ea3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8ea3 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/~~A0A8J0PCL3_9CYAN A0A8J0PCL3_9CYAN~~]		[https://www.uniprot.org/uniprot/RS15_ECOLI RS15_ECOLI] One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it helps nucleate assembly of the platform of the 30S subunit by binding and bridging several RNA helices of the 16S rRNA.[HAMAP-Rule:MF_01343] In the E.coli 70S ribosome it has been modeled (PubMed:12809609) to contact the 23S rRNA of the 50S subunit forming part of bridge B4. In the two 3.5 A resolved ribosome structures (PubMed:16272117) there are minor differences between side-chain conformations.[HAMAP-Rule:MF_01343]
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			CRISPR-associated transposons (CAST) are programmable mobile genetic elements that insert large DNA cargos using an RNA-guided mechanism(1-3). CAST elements contain multiple conserved proteins: a CRISPR effector (Cas12k or Cascade), a AAA+ regulator (TnsC), a transposase (TnsA-TnsB) and a target-site-associated factor (TniQ). These components are thought to cooperatively integrate DNA via formation of a multisubunit transposition integration complex (transpososome). Here we reconstituted the approximately 1 MDa type V-K CAST transpososome from Scytonema hofmannii (ShCAST) and determined its structure using single-particle cryo-electon microscopy. The architecture of this transpososome reveals modular association between the components. Cas12k forms a complex with ribosomal subunit S15 and TniQ, stabilizing formation of a full R-loop. TnsC has dedicated interaction interfaces with TniQ and TnsB. Of note, we observe TnsC-TnsB interactions at the C-terminal face of TnsC, which contribute to the stimulation of ATPase activity. Although the TnsC oligomeric assembly deviates slightly from the helical configuration found in isolation, the TnsC-bound target DNA conformation differs markedly in the transpososome. As a consequence, TnsC makes new protein-DNA interactions throughout the transpososome that are important for transposition activity. Finally, we identify two distinct transpososome populations that differ in their DNA contacts near TniQ. This suggests that associations with the CRISPR effector can be flexible. This ShCAST transpososome structure enhances our understanding of CAST transposition systems and suggests ways to improve CAST transposition for precision genome-editing applications.

			Structures of the holo CRISPR RNA-guided transposon integration complex.,Park JU, Tsai AW, Rizo AN, Truong VH, Wellner TX, Schargel RD, Kellogg EH Nature. 2023 Jan;613(7945):775-782. doi: 10.1038/s41586-022-05573-5. Epub 2022 , Nov 28. PMID:36442503<ref>PMID:36442503</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 8ea3" style="background-color:#fffaf0;"></div>
			== References ==
			<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 10:47, 30 November 2022

2022-11-30T10:47:13Z

← Older revision		Revision as of 10:47, 30 November 2022
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	~~'''Unreleased structure'''~~

	~~The entry~~ 8ea3 ~~is ON HOLD until Paper Publication~~		==V-K CAST Transpososome from Scytonema hofmanni, major configuration==
			<StructureSection load='8ea3' size='340' side='right'caption='[[8ea3]], [[Resolution\|resolution]] 3.70Å' scene=''>
	~~Authors~~: ~~Rizo~~, A.N., ~~Park~~, J.-U., ~~Tsai~~, A.W., ~~Kellogg, E~~.H.		== Structural highlights ==
			<table><tr><td colspan='2'>[[8ea3]] is a 28 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli], [https://en.wikipedia.org/wiki/Scytonema_hofmannii Scytonema hofmannii] 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=8EA3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8EA3 FirstGlance]. <br>
	~~Description~~: ~~V-K CAST Transpososome from~~ Scytonema ~~hofmanni, major configuration~~		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=8ea3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8ea3 OCA], [https://pdbe.org/8ea3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8ea3 RCSB], [https://www.ebi.ac.uk/pdbsum/8ea3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8ea3 ProSAT]</span></td></tr>
	[[Category: Kellogg~~, E.H~~]]		</table>
	[[Category: Park, J.-U]]		== Function ==
	[[Category: ~~Tsai, A.W~~]]		[https://www.uniprot.org/uniprot/A0A8J0PCL3_9CYAN A0A8J0PCL3_9CYAN]
	[[Category: ~~Rizo, A.N~~]]		__TOC__
			</StructureSection>
			[[Category: Escherichia coli]]
			[[Category: Large Structures]]
			[[Category: Scytonema hofmannii]]
			[[Category: Synthetic construct]]
			[[Category: Kellogg EH]]
			[[Category: Park J-U]]
			[[Category: Rizo AN]]
			[[Category: Tsai AW]]

OCA at 03:57, 26 October 2022

2022-10-26T03:57:30Z

← Older revision		Revision as of 03:57, 26 October 2022
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	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 8ea3 is ON HOLD		The entry 8ea3 is ON HOLD until Paper Publication

	Authors: Rizo, A.N., Park, J.-U., Tsai, A.W., Kellogg, E.H.		Authors: Rizo, A.N., Park, J.-U., Tsai, A.W., Kellogg, E.H.

OCA: Protected "8ea3" [edit=sysop:move=sysop]

2022-09-07T15:34:59Z

Protected "8ea3" [edit=sysop:move=sysop]

← Older revision	Revision as of 15:34, 7 September 2022
(No difference)

OCA: New page: '''Unreleased structure''' The entry 8ea3 is ON HOLD Authors: Rizo, A.N., Park, J.-U., Tsai, A.W., Kellogg, E.H. Description: V-K CAST Transpososome from Scytonema hofmanni, major conf...

2022-09-07T15:34:58Z

New page: '''Unreleased structure''' The entry 8ea3 is ON HOLD Authors: Rizo, A.N., Park, J.-U., Tsai, A.W., Kellogg, E.H. Description: V-K CAST Transpososome from Scytonema hofmanni, major conf...

New page

'''Unreleased structure'''

The entry 8ea3 is ON HOLD

Authors: Rizo, A.N., Park, J.-U., Tsai, A.W., Kellogg, E.H.

Description: V-K CAST Transpososome from Scytonema hofmanni, major configuration
[[Category: Unreleased Structures]]
[[Category: Kellogg, E.H]]
[[Category: Park, J.-U]]
[[Category: Tsai, A.W]]
[[Category: Rizo, A.N]]