OCA at 16:46, 18 October 2023

2023-10-18T16:46:42Z

← Older revision		Revision as of 16:46, 18 October 2023
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	==Structure of DNA-free SgrAI==		==Structure of DNA-free SgrAI==
	<StructureSection load='7s8d' size='340' side='right'caption='[[7s8d]]' scene=''>		<StructureSection load='7s8d' size='340' side='right'caption='[[7s8d]], [[Resolution\|resolution]] 2.02Å' 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=7S8D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7S8D FirstGlance]. <br>		<table><tr><td colspan='2'>[[7s8d]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_griseus Streptomyces griseus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7S8D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7S8D 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=7s8d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7s8d OCA], [https://pdbe.org/7s8d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7s8d RCSB], [https://www.ebi.ac.uk/pdbsum/7s8d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7s8d 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]] 2.02Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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=7s8d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7s8d OCA], [https://pdbe.org/7s8d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7s8d RCSB], [https://www.ebi.ac.uk/pdbsum/7s8d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7s8d ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/Q9F6L0_STRGR Q9F6L0_STRGR]
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Enzyme filamentation is a widespread phenomenon that mediates enzyme regulation and function. For the filament-forming sequence-specific DNA endonuclease SgrAI, the process of filamentation both accelerates its DNA cleavage activity and expands its DNA sequence specificity, thus allowing for many additional DNA sequences to be rapidly cleaved. Both outcomes-the acceleration of DNA cleavage and the expansion of sequence specificity-are proposed to regulate critical processes in bacterial innate immunity. However, the mechanistic bases underlying these events remain unclear. Herein, we describe two new structures of the SgrAI enzyme that shed light on its catalytic function. First, we present the cryo-EM structure of filamentous SgrAI bound to intact primary site DNA and Ca(2+) resolved to approximately 2.5 A within the catalytic center, which represents the trapped enzyme-DNA complex prior to the DNA cleavage reaction. This structure reveals important conformational changes that contribute to the catalytic mechanism and the binding of a second divalent cation in the enzyme active site, which is expected to contribute to increased DNA cleavage activity of SgrAI in the filamentous state. Second, we present an X-ray crystal structure of DNA-free (apo) SgrAI resolved to 2.0 A resolution, which reveals a disordered loop involved in DNA recognition. Collectively, these multiple new observations clarify the mechanism of expansion of DNA sequence specificity of SgrAI, including the indirect readout of sequence-dependent DNA structure, changes in protein-DNA interactions, and the disorder-to-order transition of a crucial DNA recognition element.

			Pretransition state and apo structures of the filament-forming enzyme SgrAI elucidate mechanisms of activation and substrate specificity.,Shan Z, Ghadirian N, Lyumkis D, Horton NC J Biol Chem. 2022 Apr;298(4):101760. doi: 10.1016/j.jbc.2022.101760. Epub 2022, Feb 21. PMID:35202658<ref>PMID:35202658</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 7s8d" style="background-color:#fffaf0;"></div>
			== References ==
			<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
			[[Category: Streptomyces griseus]]
	[[Category: Horton NC]]		[[Category: Horton NC]]

OCA at 04:49, 25 August 2022

2022-08-25T04:49:05Z

← Older revision		Revision as of 04:49, 25 August 2022
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	~~'''Unreleased structure'''~~

	~~The entry~~ 7s8d is ~~ON HOLD until Paper Publication~~		==Structure of DNA-free SgrAI==
			<StructureSection load='7s8d' size='340' side='right'caption='[[7s8d]]' scene=''>
	~~Authors:~~		== Structural highlights ==
			<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7S8D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7S8D FirstGlance]. <br>
	~~Description~~:		</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=7s8d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7s8d OCA], [https://pdbe.org/7s8d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7s8d RCSB], [https://www.ebi.ac.uk/pdbsum/7s8d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7s8d ProSAT]</span></td></tr>
	[[Category: ~~Unreleased Structures~~]]		</table>
			__TOC__
			</StructureSection>
			[[Category: Large Structures]]
			[[Category: Horton NC]]

OCA at 12:40, 27 October 2021

2021-10-27T12:40:11Z

← Older revision		Revision as of 12:40, 27 October 2021
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	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 7s8d is ON HOLD		The entry 7s8d is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7s8d" [edit=sysop:move=sysop]

2021-09-29T07:46:44Z

Protected "7s8d" [edit=sysop:move=sysop]

← Older revision	Revision as of 07:46, 29 September 2021
(No difference)

OCA: New page: '''Unreleased structure''' The entry 7s8d is ON HOLD Authors: Description: Category: Unreleased Structures

2021-09-29T07:46:43Z

New page: '''Unreleased structure''' The entry 7s8d is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7s8d is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]

7s8d - Revision history

OCA at 16:46, 18 October 2023

OCA at 04:49, 25 August 2022

OCA at 12:40, 27 October 2021

OCA: Protected "7s8d" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 7s8d is ON HOLD Authors: Description: Category: Unreleased Structures