5n6i - Revision history

OCA at 12:29, 15 November 2023

OCA — Wed, 15 Nov 2023 12:29:35 GMT

←Older revision		Revision as of 12:29, 15 November 2023
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	<StructureSection load='5n6i' size='340' side='right'caption='[[5n6i]], [[Resolution\|resolution]] 3.60Å' scene=''>		<StructureSection load='5n6i' size='340' side='right'caption='[[5n6i]], [[Resolution\|resolution]] 3.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5n6i]] is a 14 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Lk3_transgenic_mice Lk3 transgenic mice~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5N6I OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5N6I FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5n6i]] is a 14 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus] 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=5N6I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5N6I FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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]] 3.6Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">Mb21d1 ([http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=10090 LK3 transgenic mice])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks~~'>~~[http://en.wikipedia.org/wiki/Cyclic_GMP-AMP_synthase Cyclic GMP-AMP synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.86 2.7.7.86]~~ </~~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=5n6i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5n6i OCA], [https://pdbe.org/5n6i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5n6i RCSB], [https://www.ebi.ac.uk/pdbsum/5n6i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5n6i 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=5n6i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5n6i OCA], [~~http~~://pdbe.org/5n6i PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5n6i RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5n6i PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5n6i ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/CGAS_MOUSE CGAS_MOUSE]] Nucleotidyltransferase that catalyzes formation of cyclic GMP-AMP (cGAMP) from ATP and GTP and exhibits antiviral activity. Has antiviral activity by acting as a key cytosolic DNA sensor, the presence of DNA in the cytoplasm being a danger signal that triggers the immune responses. Binds cytosolic DNA directly, leading to activation and synthesis of cGAMP, a second messenger that binds to and activates TMEM173/STING, thereby triggering type-I interferon production.	+	[https://www.uniprot.org/uniprot/CGAS_MOUSE CGAS_MOUSE] Nucleotidyltransferase that catalyzes formation of cyclic GMP-AMP (cGAMP) from ATP and GTP and exhibits antiviral activity. Has antiviral activity by acting as a key cytosolic DNA sensor, the presence of DNA in the cytoplasm being a danger signal that triggers the immune responses. Binds cytosolic DNA directly, leading to activation and synthesis of cGAMP, a second messenger that binds to and activates TMEM173/STING, thereby triggering type-I interferon production.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Cyclic GMP-AMP synthase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Lk3 transgenic mice~~]]	+	[[Category: Mus musculus]]
-	[[Category: ~~Andreeva, L~~]]	+	[[Category: Synthetic construct]]
-	[[Category: ~~Hopfner, K P~~]]	+	[[Category: Andreeva L]]
-	[[Category: ~~Kostrewa, D]]~~	+	[[Category: Hopfner K-P]]
-	~~[[Category: Activator dna]]~~	+	[[Category: Kostrewa D]]
-	~~[[Category: Cga]]~~	+
-	~~[[Category: Cyclic gmp~~-~~amp synthase~~]]	+
-	[[Category: ~~Dna-binding]]~~	+
-	~~[[Category: Innate immune response]]~~	+
-	~~[[Category: Nucleotidyltransferase]]~~	+
-	~~[[Category: Pattern recognition receptor]]~~	+
-	~~[[Category: Transferase]]~~	+
-	~~[[Category: Viral dna recognition~~]]	+

OCA at 06:42, 16 October 2019

OCA — Wed, 16 Oct 2019 06:42:31 GMT

←Older revision		Revision as of 06:42, 16 October 2019
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	==Crystal structure of mouse cGAS in complex with 39 bp DNA==		==Crystal structure of mouse cGAS in complex with 39 bp DNA==
-	<StructureSection load='5n6i' size='340' side='right' caption='[[5n6i]], [[Resolution\|resolution]] 3.60Å' scene=''>	+	<StructureSection load='5n6i' size='340' side='right'caption='[[5n6i]], [[Resolution\|resolution]] 3.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5n6i]] is a 14 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5N6I OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5N6I FirstGlance]. <br>		<table><tr><td colspan='2'>[[5n6i]] is a 14 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5N6I OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5N6I FirstGlance]. <br>
Line 20:		Line 20:
	</div>		</div>
	<div class="pdbe-citations 5n6i" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5n6i" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Cyclic GMP-AMP synthase 3D synthase\|Cyclic GMP-AMP synthase 3D synthase]]
	== References ==		== References ==
	<references/>		<references/>
Line 25:		Line 28:
	</StructureSection>		</StructureSection>
	[[Category: Cyclic GMP-AMP synthase]]		[[Category: Cyclic GMP-AMP synthase]]
		+	[[Category: Large Structures]]
	[[Category: Lk3 transgenic mice]]		[[Category: Lk3 transgenic mice]]
	[[Category: Andreeva, L]]		[[Category: Andreeva, L]]

OCA at 20:42, 24 January 2018

OCA — Wed, 24 Jan 2018 20:42:08 GMT

←Older revision		Revision as of 20:42, 24 January 2018
Line 3:		Line 3:
	<StructureSection load='5n6i' size='340' side='right' caption='[[5n6i]], [[Resolution\|resolution]] 3.60Å' scene=''>		<StructureSection load='5n6i' size='340' side='right' caption='[[5n6i]], [[Resolution\|resolution]] 3.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5n6i]] is a 14 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5N6I OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5N6I FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5n6i]] is a 14 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5N6I OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5N6I FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><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=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Mb21d1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cyclic_GMP-AMP_synthase Cyclic GMP-AMP synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.86 2.7.7.86] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cyclic_GMP-AMP_synthase Cyclic GMP-AMP synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.86 2.7.7.86] </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=5n6i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5n6i OCA], [http://pdbe.org/5n6i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5n6i RCSB], [http://www.ebi.ac.uk/pdbsum/5n6i PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5n6i 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=5n6i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5n6i OCA], [http://pdbe.org/5n6i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5n6i RCSB], [http://www.ebi.ac.uk/pdbsum/5n6i PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5n6i ProSAT]</span></td></tr>
Line 24:		Line 25:
	</StructureSection>		</StructureSection>
	[[Category: Cyclic GMP-AMP synthase]]		[[Category: Cyclic GMP-AMP synthase]]
		+	[[Category: Lk3 transgenic mice]]
	[[Category: Andreeva, L]]		[[Category: Andreeva, L]]
	[[Category: Hopfner, K P]]		[[Category: Hopfner, K P]]

OCA at 09:38, 27 September 2017

OCA — Wed, 27 Sep 2017 09:38:13 GMT

←Older revision		Revision as of 09:38, 27 September 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5n6i is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of mouse cGAS in complex with 39 bp DNA==
		+	<StructureSection load='5n6i' size='340' side='right' caption='[[5n6i]], [[Resolution\|resolution]] 3.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5n6i]] is a 14 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5N6I OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5N6I FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cyclic_GMP-AMP_synthase Cyclic GMP-AMP synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.86 2.7.7.86] </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=5n6i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5n6i OCA], [http://pdbe.org/5n6i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5n6i RCSB], [http://www.ebi.ac.uk/pdbsum/5n6i PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5n6i ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CGAS_MOUSE CGAS_MOUSE]] Nucleotidyltransferase that catalyzes formation of cyclic GMP-AMP (cGAMP) from ATP and GTP and exhibits antiviral activity. Has antiviral activity by acting as a key cytosolic DNA sensor, the presence of DNA in the cytoplasm being a danger signal that triggers the immune responses. Binds cytosolic DNA directly, leading to activation and synthesis of cGAMP, a second messenger that binds to and activates TMEM173/STING, thereby triggering type-I interferon production.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Cytosolic DNA arising from intracellular pathogens triggers a powerful innate immune response. It is sensed by cyclic GMP-AMP synthase (cGAS), which elicits the production of type I interferons by generating the second messenger 2'3'-cyclic-GMP-AMP (cGAMP). Endogenous nuclear or mitochondrial DNA can also be sensed by cGAS under certain conditions, resulting in sterile inflammation. The cGAS dimer binds two DNA ligands shorter than 20 base pairs side-by-side, but 20-base-pair DNA fails to activate cGAS in vivo and is a poor activator in vitro. Here we show that cGAS is activated in a strongly DNA length-dependent manner both in vitro and in human cells. We also show that cGAS dimers form ladder-like networks with DNA, leading to cooperative sensing of DNA length: assembly of the pioneering cGAS dimer between two DNA molecules is ineffective; but, once formed, it prearranges the flanking DNA to promote binding of subsequent cGAS dimers. Remarkably, bacterial and mitochondrial nucleoid proteins HU and mitochondrial transcription factor A (TFAM), as well as high-mobility group box 1 protein (HMGB1), can strongly stimulate long DNA sensing by cGAS. U-turns and bends in DNA induced by these proteins pre-structure DNA to nucleate cGAS dimers. Our results suggest a nucleation-cooperativity-based mechanism for sensitive detection of mitochondrial DNA and pathogen genomes, and identify HMGB/TFAM proteins as DNA-structuring host factors. They provide an explanation for the peculiar cGAS dimer structure and suggest that cGAS preferentially binds incomplete nucleoid-like structures or bent DNA.

-	~~Authors: Andreeva~~, L., Kostrewa, D., ~~Hopfner~~, K.-P.	+	cGAS senses long and HMGB/TFAM-bound U-turn DNA by forming protein-DNA ladders.,Andreeva L, Hiller B, Kostrewa D, Lassig C, de Oliveira Mann CC, Jan Drexler D, Maiser A, Gaidt M, Leonhardt H, Hornung V, Hopfner KP Nature. 2017 Sep 21;549(7672):394-398. doi: 10.1038/nature23890. Epub 2017 Sep, 13. PMID:28902841<ref>PMID:28902841</ref>

-	~~Description: Crystal structure~~ of ~~protein~~-~~DNA complex~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: ~~Hopfner, K.~~-~~P]]~~	+	<div class="pdbe-citations 5n6i" style="background-color:#fffaf0;"></div>
-	~~[[Category: Kostrewa, D~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Cyclic GMP-AMP synthase]]
	[[Category: Andreeva, L]]		[[Category: Andreeva, L]]
		+	[[Category: Hopfner, K P]]
		+	[[Category: Kostrewa, D]]
		+	[[Category: Activator dna]]
		+	[[Category: Cga]]
		+	[[Category: Cyclic gmp-amp synthase]]
		+	[[Category: Dna-binding]]
		+	[[Category: Innate immune response]]
		+	[[Category: Nucleotidyltransferase]]
		+	[[Category: Pattern recognition receptor]]
		+	[[Category: Transferase]]
		+	[[Category: Viral dna recognition]]

OCA: Protected "5n6i" [edit=sysop:move=sysop]

OCA — Thu, 09 Mar 2017 12:10:35 GMT

Protected "5n6i" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:10, 9 March 2017

OCA: New page: '''Unreleased structure''' The entry 5n6i is ON HOLD until Paper Publication Authors: Andreeva, L., Kostrewa, D., Hopfner, K.-P. Description: Crystal structure of protein-DNA complex [...

OCA — Thu, 09 Mar 2017 12:10:34 GMT

New page: '''Unreleased structure''' The entry 5n6i is ON HOLD until Paper Publication Authors: Andreeva, L., Kostrewa, D., Hopfner, K.-P. Description: Crystal structure of protein-DNA complex [...

New page

'''Unreleased structure'''

The entry 5n6i is ON HOLD until Paper Publication

Authors: Andreeva, L., Kostrewa, D., Hopfner, K.-P.

Description: Crystal structure of protein-DNA complex
[[Category: Unreleased Structures]]
[[Category: Hopfner, K.-P]]
[[Category: Kostrewa, D]]
[[Category: Andreeva, L]]