6joo - Revision history

OCA at 08:17, 21 May 2019

OCA — Tue, 21 May 2019 08:17:50 GMT

←Older revision		Revision as of 08:17, 21 May 2019
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	<StructureSection load='6joo' size='340' side='right'caption='[[6joo]], [[Resolution\|resolution]] 2.90Å' scene=''>		<StructureSection load='6joo' size='340' side='right'caption='[[6joo]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6joo]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JOO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6JOO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6joo]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Cordi Cordi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JOO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6JOO FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cas9 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=257309 CORDI])</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=6joo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6joo OCA], [http://pdbe.org/6joo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6joo RCSB], [http://www.ebi.ac.uk/pdbsum/6joo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6joo ProSAT]</span></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=6joo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6joo OCA], [http://pdbe.org/6joo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6joo RCSB], [http://www.ebi.ac.uk/pdbsum/6joo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6joo ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The RNA-guided DNA endonuclease Cas9 cleaves double-stranded DNA targets bearing a protospacer adjacent motif (PAM) and complementarity to an RNA guide. Unlike other Cas9 orthologs, Corynebacterium diphtheriae Cas9 (CdCas9) recognizes the promiscuous NNRHHHY PAM. However, the CdCas9-mediated PAM recognition mechanism remains unknown. Here, we report the crystal structure of CdCas9 in complex with the guide RNA and its target DNA at 2.9 A resolution. The structure reveals that CdCas9 recognizes the NNRHHHY PAM via a combination of van der Waals interactions and base-specific hydrogen bonds. Moreover, we find that CdCas9 exhibits robust DNA cleavage activity with the optimal 22-nucleotide length guide RNAs. Our findings highlight the mechanistic diversity of the PAM recognition by Cas9 orthologs, and provide a basis for the further engineering of the CRISPR-Cas9 genome-editor nucleases.
		+
		+	Structural basis for the promiscuous PAM recognition by Corynebacterium diphtheriae Cas9.,Hirano S, Abudayyeh OO, Gootenberg JS, Horii T, Ishitani R, Hatada I, Zhang F, Nishimasu H, Nureki O Nat Commun. 2019 Apr 29;10(1):1968. doi: 10.1038/s41467-019-09741-6. PMID:31036811<ref>PMID:31036811</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6joo" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Cordi]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Hirano, S]]		[[Category: Hirano, S]]

OCA at 06:01, 17 April 2019

OCA — Wed, 17 Apr 2019 06:01:08 GMT

←Older revision		Revision as of 06:01, 17 April 2019
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-	'''Unreleased structure'''

-	~~The entry 6joo is ON HOLD~~	+	==Crystal structure of Corynebacterium diphtheriae Cas9 in complex with sgRNA and target DNA==
-		+	<StructureSection load='6joo' size='340' side='right'caption='[[6joo]], [[Resolution\|resolution]] 2.90Å' scene=''>
-	~~Authors: Hirano, S., Ishitani, R., Nishimasu, H., Nureki, O.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6joo]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6JOO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6JOO FirstGlance]. <br>
-	~~Description:~~ Crystal structure of Corynebacterium diphtheriae Cas9 in complex with sgRNA and target DNA	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	[[~~Category~~: ~~Nureki~~, O]]	+	<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=6joo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6joo OCA], [http://pdbe.org/6joo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6joo RCSB], [http://www.ebi.ac.uk/pdbsum/6joo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6joo ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Hirano, S]]		[[Category: Hirano, S]]
		+	[[Category: Ishitani, R]]
	[[Category: Nishimasu, H]]		[[Category: Nishimasu, H]]
-	[[Category: ~~Ishitani~~, R]]	+	[[Category: Nureki, O]]
		+	[[Category: Cas9]]
		+	[[Category: Crispr-ca]]
		+	[[Category: Dna endonuclease]]
		+	[[Category: Hydrolase-dna-rna complex]]
		+	[[Category: Pam]]
		+	[[Category: Ribonucleoprotein]]

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

OCA — Wed, 27 Mar 2019 04:54:49 GMT

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

←Older revision

Revision as of 04:54, 27 March 2019

OCA: New page: '''Unreleased structure''' The entry 6joo is ON HOLD Authors: Hirano, S., Ishitani, R., Nishimasu, H., Nureki, O. Description: Crystal structure of Corynebacterium diphtheriae Cas9 in ...

OCA — Wed, 27 Mar 2019 04:54:47 GMT

New page: '''Unreleased structure''' The entry 6joo is ON HOLD Authors: Hirano, S., Ishitani, R., Nishimasu, H., Nureki, O. Description: Crystal structure of Corynebacterium diphtheriae Cas9 in ...

New page

'''Unreleased structure'''

The entry 6joo is ON HOLD

Authors: Hirano, S., Ishitani, R., Nishimasu, H., Nureki, O.

Description: Crystal structure of Corynebacterium diphtheriae Cas9 in complex with sgRNA and target DNA
[[Category: Unreleased Structures]]
[[Category: Nureki, O]]
[[Category: Hirano, S]]
[[Category: Nishimasu, H]]
[[Category: Ishitani, R]]