6ifl - Revision history

OCA at 10:33, 27 March 2024

OCA — Wed, 27 Mar 2024 10:33:04 GMT

←Older revision		Revision as of 10:33, 27 March 2024
Line 3:		Line 3:
	<SX load='6ifl' size='340' side='right' viewer='molstar' caption='[[6ifl]], [[Resolution\|resolution]] 3.16Å' scene=''>		<SX load='6ifl' size='340' side='right' viewer='molstar' caption='[[6ifl]], [[Resolution\|resolution]] 3.16Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ifl]] is a 10 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_19258 Atcc 19258~~] and [~~http~~://en.wikipedia.org/wiki/~~Strtn Strtn~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IFL OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6IFL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ifl]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_thermophilus Streptococcus thermophilus] and [https://en.wikipedia.org/wiki/Streptococcus_thermophilus_ND03 Streptococcus thermophilus ND03]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IFL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6IFL FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>cas10 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~767463 STRTN])~~, ~~csm2 (~~[~~http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=767463 STRTN]), csm3 (~~[~~http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=767463 STRTN~~]~~), csm4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=767463 STRTN~~]~~), csm5, DID82_08845 ([http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=1308 ATCC 19258])~~</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]] 3.16Å</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=6ifl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ifl OCA], [~~http~~://pdbe.org/6ifl PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6ifl RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6ifl PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6ifl 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=6ifl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ifl OCA], [https://pdbe.org/6ifl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ifl RCSB], [https://www.ebi.ac.uk/pdbsum/6ifl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ifl ProSAT]</span></td></tr>
	</table>		</table>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Csm, a type III-A CRISPR-Cas interference complex, is a CRISPR RNA (crRNA)-guided RNase that also possesses target RNA-dependent DNase and cyclic oligoadenylate (cOA) synthetase activities. However, the structural features allowing target RNA-binding-dependent activation of DNA cleavage and cOA generation remain unknown. Here, we report the structure of Csm in complex with crRNA together with structures of cognate or non-cognate target RNA bound Csm complexes. We show that depending on complementarity with the 5' tag of crRNA, the 3' anti-tag region of target RNA binds at two distinct sites of the Csm complex. Importantly, the interaction between the non-complementary anti-tag region of cognate target RNA and Csm1 induces a conformational change at the Csm1 subunit that allosterically activates DNA cleavage and cOA generation. Together, our structural studies provide crucial insights into the mechanistic processes required for crRNA-meditated sequence-specific RNA cleavage, RNA target-dependent non-specific DNA cleavage, and cOA generation.
-
-	Structure Studies of the CRISPR-Csm Complex Reveal Mechanism of Co-transcriptional Interference.,You L, Ma J, Wang J, Artamonova D, Wang M, Liu L, Xiang H, Severinov K, Zhang X, Wang Y Cell. 2018 Nov 26. pii: S0092-8674(18)31451-X. doi: 10.1016/j.cell.2018.10.052. PMID:30503210<ref>PMID:30503210</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 6ifl" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</SX>		</SX>
-	[[Category: Atcc 19258]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Strtn~~]]	+	[[Category: Streptococcus thermophilus]]
-	[[Category: Ma, J]]	+	[[Category: Streptococcus thermophilus ND03]]
-	[[Category: Wang, J]]	+	[[Category: Ma J]]
-	[[Category: Wang, Y]]	+	[[Category: Wang J]]
-	[[Category: You, L]]	+	[[Category: Wang Y]]
-	[[Category: Zhang, X]]	+	[[Category: You L]]
-	~~[[Category: Crispr-cas system]]~~	+	[[Category: Zhang X]]
-	~~[[Category: Csm complex]]~~	+
-	~~[[Category: Rna binding protein]]~~	+
-	~~[[Category: Type iii-a~~]]	+

OCA at 01:44, 11 April 2020

OCA — Sat, 11 Apr 2020 01:44:24 GMT

←Older revision		Revision as of 01:44, 11 April 2020
Line 3:		Line 3:
	<SX load='6ifl' size='340' side='right' viewer='molstar' caption='[[6ifl]], [[Resolution\|resolution]] 3.16Å' scene=''>		<SX load='6ifl' size='340' side='right' viewer='molstar' caption='[[6ifl]], [[Resolution\|resolution]] 3.16Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ifl]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_19258 Atcc 19258] and [http://en.wikipedia.org/wiki/Strtn Strtn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IFL OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6IFL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ifl]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_19258 Atcc 19258] and [http://en.wikipedia.org/wiki/Strtn Strtn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IFL OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6IFL FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cas10 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=767463 STRTN]), csm2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=767463 STRTN]), csm3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=767463 STRTN]), csm4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=767463 STRTN]), csm5, DID82_08845 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1308 ATCC 19258])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cas10 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=767463 STRTN]), csm2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=767463 STRTN]), csm3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=767463 STRTN]), csm4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=767463 STRTN]), csm5, DID82_08845 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1308 ATCC 19258])</td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6ifl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ifl OCA], [http://pdbe.org/6ifl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ifl RCSB], [http://www.ebi.ac.uk/pdbsum/6ifl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ifl 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=6ifl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ifl OCA], [http://pdbe.org/6ifl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ifl RCSB], [http://www.ebi.ac.uk/pdbsum/6ifl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ifl ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 22:05, 6 March 2020

OCA — Fri, 06 Mar 2020 22:05:27 GMT

←Older revision		Revision as of 22:05, 6 March 2020
Line 1:		Line 1:

	==Cryo-EM structure of type III-A Csm-NTR complex==		==Cryo-EM structure of type III-A Csm-NTR complex==
-	<~~StructureSection~~ load='6ifl' size='340' side='right' caption='[[6ifl]], [[Resolution\|resolution]] 3.16Å' scene=''>	+	<SX load='6ifl' size='340' side='right' viewer='molstar' caption='[[6ifl]], [[Resolution\|resolution]] 3.16Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6ifl]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_19258 Atcc 19258] and [http://en.wikipedia.org/wiki/Strtn Strtn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IFL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6IFL FirstGlance]. <br>		<table><tr><td colspan='2'>[[6ifl]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_19258 Atcc 19258] and [http://en.wikipedia.org/wiki/Strtn Strtn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IFL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6IFL FirstGlance]. <br>
Line 19:		Line 19:
	<references/>		<references/>
	__TOC__		__TOC__
-	</~~StructureSection~~>	+	</SX>
	[[Category: Atcc 19258]]		[[Category: Atcc 19258]]
		+	[[Category: Large Structures]]
	[[Category: Strtn]]		[[Category: Strtn]]
	[[Category: Ma, J]]		[[Category: Ma, J]]

OCA at 09:03, 19 December 2018

OCA — Wed, 19 Dec 2018 09:03:53 GMT

←Older revision		Revision as of 09:03, 19 December 2018
Line 3:		Line 3:
	<StructureSection load='6ifl' size='340' side='right' caption='[[6ifl]], [[Resolution\|resolution]] 3.16Å' scene=''>		<StructureSection load='6ifl' size='340' side='right' caption='[[6ifl]], [[Resolution\|resolution]] 3.16Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ifl]] is a 10 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IFL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6IFL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ifl]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_19258 Atcc 19258] and [http://en.wikipedia.org/wiki/Strtn Strtn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IFL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6IFL FirstGlance]. <br>
-	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6ifl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ifl OCA], [http://pdbe.org/6ifl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ifl RCSB], [http://www.ebi.ac.uk/pdbsum/6ifl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ifl ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cas10 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=767463 STRTN]), csm2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=767463 STRTN]), csm3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=767463 STRTN]), csm4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=767463 STRTN]), csm5, DID82_08845 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1308 ATCC 19258])</td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6ifl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ifl OCA], [http://pdbe.org/6ifl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ifl RCSB], [http://www.ebi.ac.uk/pdbsum/6ifl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ifl ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Csm, a type III-A CRISPR-Cas interference complex, is a CRISPR RNA (crRNA)-guided RNase that also possesses target RNA-dependent DNase and cyclic oligoadenylate (cOA) synthetase activities. However, the structural features allowing target RNA-binding-dependent activation of DNA cleavage and cOA generation remain unknown. Here, we report the structure of Csm in complex with crRNA together with structures of cognate or non-cognate target RNA bound Csm complexes. We show that depending on complementarity with the 5' tag of crRNA, the 3' anti-tag region of target RNA binds at two distinct sites of the Csm complex. Importantly, the interaction between the non-complementary anti-tag region of cognate target RNA and Csm1 induces a conformational change at the Csm1 subunit that allosterically activates DNA cleavage and cOA generation. Together, our structural studies provide crucial insights into the mechanistic processes required for crRNA-meditated sequence-specific RNA cleavage, RNA target-dependent non-specific DNA cleavage, and cOA generation.
		+
		+	Structure Studies of the CRISPR-Csm Complex Reveal Mechanism of Co-transcriptional Interference.,You L, Ma J, Wang J, Artamonova D, Wang M, Liu L, Xiang H, Severinov K, Zhang X, Wang Y Cell. 2018 Nov 26. pii: S0092-8674(18)31451-X. doi: 10.1016/j.cell.2018.10.052. PMID:30503210<ref>PMID:30503210</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6ifl" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Atcc 19258]]
		+	[[Category: Strtn]]
	[[Category: Ma, J]]		[[Category: Ma, J]]
	[[Category: Wang, J]]		[[Category: Wang, J]]

OCA at 06:54, 12 December 2018

OCA — Wed, 12 Dec 2018 06:54:16 GMT

←Older revision		Revision as of 06:54, 12 December 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry 6ifl is ON HOLD until Paper Publication~~	+	==Cryo-EM structure of type III-A Csm-NTR complex==
-		+	<StructureSection load='6ifl' size='340' side='right' caption='[[6ifl]], [[Resolution\|resolution]] 3.16Å' scene=''>
-	~~Authors: You, L., Ma, J., Wang, J., Zhang, X., Wang, Y.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6ifl]] is a 10 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IFL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6IFL FirstGlance]. <br>
-	~~Description:~~ Cryo-EM structure of type III-A Csm-NTR complex	+	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6ifl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ifl OCA], [http://pdbe.org/6ifl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ifl RCSB], [http://www.ebi.ac.uk/pdbsum/6ifl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ifl ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[~~Category~~: ~~You~~, L]]	+	__TOC__
		+	</StructureSection>
	[[Category: Ma, J]]		[[Category: Ma, J]]
		+	[[Category: Wang, J]]
	[[Category: Wang, Y]]		[[Category: Wang, Y]]
-	[[Category: ~~Wang~~, J]]	+	[[Category: You, L]]
	[[Category: Zhang, X]]		[[Category: Zhang, X]]
		+	[[Category: Crispr-cas system]]
		+	[[Category: Csm complex]]
		+	[[Category: Rna binding protein]]
		+	[[Category: Type iii-a]]

OCA at 04:18, 24 October 2018

OCA — Wed, 24 Oct 2018 04:18:31 GMT

←Older revision		Revision as of 04:18, 24 October 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6ifl is ON HOLD	+	The entry 6ifl is ON HOLD until Paper Publication

	Authors: You, L., Ma, J., Wang, J., Zhang, X., Wang, Y.		Authors: You, L., Ma, J., Wang, J., Zhang, X., Wang, Y.

OCA at 06:22, 17 October 2018

OCA — Wed, 17 Oct 2018 06:22:17 GMT

←Older revision		Revision as of 06:22, 17 October 2018
Line 5:		Line 5:
	Authors: You, L., Ma, J., Wang, J., Zhang, X., Wang, Y.		Authors: You, L., Ma, J., Wang, J., Zhang, X., Wang, Y.

-	Description: Cryo-EM structure of Csm-NTR complex	+	Description: Cryo-EM structure of type III-A Csm-NTR complex
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: You, L]]		[[Category: You, L]]

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

OCA — Wed, 26 Sep 2018 06:23:22 GMT

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

←Older revision

Revision as of 06:23, 26 September 2018

OCA: New page: '''Unreleased structure''' The entry 6ifl is ON HOLD Authors: You, L., Ma, J., Wang, J., Zhang, X., Wang, Y. Description: Cryo-EM structure of Csm-NTR complex [[Category: Unreleased St...

OCA — Wed, 26 Sep 2018 06:23:20 GMT

New page: '''Unreleased structure''' The entry 6ifl is ON HOLD Authors: You, L., Ma, J., Wang, J., Zhang, X., Wang, Y. Description: Cryo-EM structure of Csm-NTR complex [[Category: Unreleased St...

New page

'''Unreleased structure'''

The entry 6ifl is ON HOLD

Authors: You, L., Ma, J., Wang, J., Zhang, X., Wang, Y.

Description: Cryo-EM structure of Csm-NTR complex
[[Category: Unreleased Structures]]
[[Category: You, L]]
[[Category: Ma, J]]
[[Category: Wang, Y]]
[[Category: Wang, J]]
[[Category: Zhang, X]]