6wxw - Revision history

OCA at 14:47, 6 March 2024

OCA — Wed, 06 Mar 2024 14:47:27 GMT

←Older revision		Revision as of 14:47, 6 March 2024
Line 3:		Line 3:
	<StructureSection load='6wxw' size='340' side='right'caption='[[6wxw]], [[Resolution\|resolution]] 2.32Å' scene=''>		<StructureSection load='6wxw' size='340' side='right'caption='[[6wxw]], [[Resolution\|resolution]] 2.32Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6wxw]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Tres6 Tres6~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6WXW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6WXW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6wxw]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Treponema_succinifaciens_DSM_2489 Treponema succinifaciens DSM 2489]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6WXW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6WXW FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~Tresu_2185 (~~[~~https://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=869209 TRES6])~~</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]] 2.32Å</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=6wxw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wxw OCA], [https://pdbe.org/6wxw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6wxw RCSB], [https://www.ebi.ac.uk/pdbsum/6wxw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6wxw 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=6wxw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wxw OCA], [https://pdbe.org/6wxw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6wxw RCSB], [https://www.ebi.ac.uk/pdbsum/6wxw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6wxw ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/F2NWD3_TRES6 F2NWD3_TRES6]
-	In the type III CRISPR-Cas immune response of prokaryotes, infection triggers the production of cyclic oligoadenylates that bind and activate proteins that contain a CARF domain(1,2). Many type III loci are associated with proteins in which the CRISPR-associated Rossman fold (CARF) domain is fused to a restriction endonuclease-like domain(3,4). However, with the exception of the well-characterized Csm6 and Csx1 ribonucleases(5,6), whether and how these inducible effectors provide defence is not known. Here we investigated a type III CRISPR accessory protein, which we name cyclic-oligoadenylate-activated single-stranded ribonuclease and single-stranded deoxyribonuclease 1 (Card1). Card1 forms a symmetrical dimer that has a large central cavity between its CRISPR-associated Rossmann fold and restriction endonuclease domains that binds cyclic tetra-adenylate. The binding of ligand results in a conformational change comprising the rotation of individual monomers relative to each other to form a more compact dimeric scaffold, in which a manganese cation coordinates the catalytic residues and activates the cleavage of single-stranded-but not double-stranded-nucleic acids (both DNA and RNA). In vivo, activation of Card1 induces dormancy of the infected hosts to provide immunity against phage infection and plasmids. Our results highlight the diversity of strategies used in CRISPR systems to provide immunity.	+
-		+
-	~~The Card1 nuclease provides defence during type III CRISPR immunity.,Rostol JT, Xie W, Kuryavyi V, Maguin P, Kao K, Froom R, Patel DJ, Marraffini LA Nature. 2021 Feb;590(7847)~~:~~624-629. doi: 10.1038~~/~~s41586-021-03206-x. Epub 2021, Jan 18. PMID:33461211<ref>PMID:33461211<~~/~~ref>~~	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U~~.S. ~~National Library of Medicine.<br>~~	+
-	</~~div>~~	+
-	~~<div class="pdbe-citations 6wxw" style="background-color:#fffaf0;"></div>~~	+
-	~~== References ==~~	+
-	~~<references~~/>	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Tres6~~]]	+	[[Category: Treponema succinifaciens DSM 2489]]
-	[[Category: Marraffini, L]]	+	[[Category: Marraffini L]]
-	[[Category: Patel~~, D J~~]]	+	[[Category: Patel DJ]]
-	[[Category: Rostol, J]]	+	[[Category: Rostol J]]
-	[[Category: Xie, W]]	+	[[Category: Xie W]]
-	~~[[Category: Card1]]~~	+
-	~~[[Category: Cyclic oligoadenylate]]~~	+
-	~~[[Category: Dna binding protein]]~~	+
-	~~[[Category: Dnase~~]]	+

OCA at 17:52, 10 March 2021

OCA — Wed, 10 Mar 2021 17:52:00 GMT

←Older revision		Revision as of 17:52, 10 March 2021
Line 1:		Line 1:

-	==crystal structure of apo ~~Cad1~~==	+	==crystal structure of apo Card1==
-	<StructureSection load='6wxw' size='340' side='right'caption='[[6wxw]]' scene=''>	+	<StructureSection load='6wxw' size='340' side='right'caption='[[6wxw]], [[Resolution\|resolution]] 2.32Å' 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=6WXW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6WXW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6wxw]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Tres6 Tres6]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6WXW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6WXW 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=6wxw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wxw OCA], [https://pdbe.org/6wxw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6wxw RCSB], [https://www.ebi.ac.uk/pdbsum/6wxw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6wxw ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Tresu_2185 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=869209 TRES6])</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=6wxw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wxw OCA], [https://pdbe.org/6wxw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6wxw RCSB], [https://www.ebi.ac.uk/pdbsum/6wxw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6wxw ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	In the type III CRISPR-Cas immune response of prokaryotes, infection triggers the production of cyclic oligoadenylates that bind and activate proteins that contain a CARF domain(1,2). Many type III loci are associated with proteins in which the CRISPR-associated Rossman fold (CARF) domain is fused to a restriction endonuclease-like domain(3,4). However, with the exception of the well-characterized Csm6 and Csx1 ribonucleases(5,6), whether and how these inducible effectors provide defence is not known. Here we investigated a type III CRISPR accessory protein, which we name cyclic-oligoadenylate-activated single-stranded ribonuclease and single-stranded deoxyribonuclease 1 (Card1). Card1 forms a symmetrical dimer that has a large central cavity between its CRISPR-associated Rossmann fold and restriction endonuclease domains that binds cyclic tetra-adenylate. The binding of ligand results in a conformational change comprising the rotation of individual monomers relative to each other to form a more compact dimeric scaffold, in which a manganese cation coordinates the catalytic residues and activates the cleavage of single-stranded-but not double-stranded-nucleic acids (both DNA and RNA). In vivo, activation of Card1 induces dormancy of the infected hosts to provide immunity against phage infection and plasmids. Our results highlight the diversity of strategies used in CRISPR systems to provide immunity.
		+
		+	The Card1 nuclease provides defence during type III CRISPR immunity.,Rostol JT, Xie W, Kuryavyi V, Maguin P, Kao K, Froom R, Patel DJ, Marraffini LA Nature. 2021 Feb;590(7847):624-629. doi: 10.1038/s41586-021-03206-x. Epub 2021, Jan 18. PMID:33461211<ref>PMID:33461211</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6wxw" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Marraffini L]]	+	[[Category: Tres6]]
-	[[Category: Patel DJ]]	+	[[Category: Marraffini, L]]
-	[[Category: Rostol J]]	+	[[Category: Patel, D J]]
-	[[Category: Xie W]]	+	[[Category: Rostol, J]]
		+	[[Category: Xie, W]]
		+	[[Category: Card1]]
		+	[[Category: Cyclic oligoadenylate]]
		+	[[Category: Dna binding protein]]
		+	[[Category: Dnase]]

OCA at 10:04, 17 February 2021

OCA — Wed, 17 Feb 2021 10:04:41 GMT

←Older revision		Revision as of 10:04, 17 February 2021
Line 1:		Line 1:

-	==crystal structure of apo ~~Card1~~==	+	==crystal structure of apo Cad1==
-	<StructureSection load='6wxw' size='340' side='right'caption='[[6wxw]]~~, [[Resolution\|resolution]] 2.32Å~~' scene=''>	+	<StructureSection load='6wxw' size='340' side='right'caption='[[6wxw]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>~~[[6wxw]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Tres6 Tres6].~~ Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6WXW OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6WXW FirstGlance]. <br>	+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6WXW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6WXW FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Tresu_2185 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=869209 TRES6])</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=6wxw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wxw OCA], [https://pdbe.org/6wxw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6wxw RCSB], [https://www.ebi.ac.uk/pdbsum/6wxw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6wxw ProSAT]</span></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=6wxw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wxw OCA], [~~http~~://pdbe.org/6wxw PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6wxw RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6wxw PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6wxw ProSAT]</span></td></tr>	+
	</table>		</table>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Tres6]]~~	+	[[Category: Marraffini L]]
-	[[Category: Marraffini, L]]	+	[[Category: Patel DJ]]
-	[[Category: Patel~~, D J~~]]	+	[[Category: Rostol J]]
-	[[Category: Rostol, J]]	+	[[Category: Xie W]]
-	[[Category: Xie, W]]	+
-	~~[[Category: Card1]]~~	+
-	~~[[Category: Cyclic oligoadenylate]]~~	+
-	~~[[Category: Dna binding protein]]~~	+
-	~~[[Category: Dnase~~]]	+

OCA at 08:23, 20 January 2021

OCA — Wed, 20 Jan 2021 08:23:05 GMT

←Older revision		Revision as of 08:23, 20 January 2021
Line 1:		Line 1:

-	==crystal structure of apo ~~Cad1~~==	+	==crystal structure of apo Card1==
-	<StructureSection load='6wxw' size='340' side='right'caption='[[6wxw]]' scene=''>	+	<StructureSection load='6wxw' size='340' side='right'caption='[[6wxw]], [[Resolution\|resolution]] 2.32Å' 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=6WXW OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6WXW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6wxw]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Tres6 Tres6]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6WXW OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6WXW 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=6wxw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wxw OCA], [http://pdbe.org/6wxw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6wxw RCSB], [http://www.ebi.ac.uk/pdbsum/6wxw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6wxw ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Tresu_2185 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=869209 TRES6])</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=6wxw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wxw OCA], [http://pdbe.org/6wxw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6wxw RCSB], [http://www.ebi.ac.uk/pdbsum/6wxw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6wxw ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Marraffini L]]	+	[[Category: Tres6]]
-	[[Category: Patel DJ]]	+	[[Category: Marraffini, L]]
-	[[Category: Rostol J]]	+	[[Category: Patel, D J]]
-	[[Category: Xie W]]	+	[[Category: Rostol, J]]
		+	[[Category: Xie, W]]
		+	[[Category: Card1]]
		+	[[Category: Cyclic oligoadenylate]]
		+	[[Category: Dna binding protein]]
		+	[[Category: Dnase]]

OCA at 06:44, 30 December 2020

OCA — Wed, 30 Dec 2020 06:44:19 GMT

←Older revision		Revision as of 06:44, 30 December 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6wxw is ~~ON HOLD until Paper Publication~~	+	==crystal structure of apo Cad1==
-		+	<StructureSection load='6wxw' size='340' side='right'caption='[[6wxw]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6WXW OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6WXW 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=6wxw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wxw OCA], [http://pdbe.org/6wxw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6wxw RCSB], [http://www.ebi.ac.uk/pdbsum/6wxw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6wxw ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Marraffini L]]
		+	[[Category: Patel DJ]]
		+	[[Category: Rostol J]]
		+	[[Category: Xie W]]

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

OCA — Wed, 20 May 2020 04:20:34 GMT

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

←Older revision

Revision as of 04:20, 20 May 2020

OCA: New page: '''Unreleased structure''' The entry 6wxw is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Wed, 20 May 2020 04:20:33 GMT

New page: '''Unreleased structure''' The entry 6wxw is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6wxw is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]