5gmg - Revision history

OCA at 11:36, 2 August 2023

2023-08-02T11:36:25Z

←Older revision		Revision as of 11:36, 2 August 2023
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	<StructureSection load='5gmg' size='340' side='right'caption='[[5gmg]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='5gmg' size='340' side='right'caption='[[5gmg]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5gmg]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Macmu Macmu~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GMG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5GMG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5gmg]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Macaca_mulatta Macaca mulatta]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GMG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5GMG FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SDL:2-AZANYL-9-[(2~{R},3~{R},4~{S},5~{R})-5-(HYDROXYMETHYL)-3,4-BIS(OXIDANYL)OXOLAN-2-YL]-7-PROP-2-ENYL-1~{H}-PURINE-6,8-DIONE'>SDL</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]] 2.6Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5gmf\|5gmf]], [[5gmh\|5gmh]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SDL:2-AZANYL-9-[(2~{R},3~{R},4~{S},5~{R})-5-(HYDROXYMETHYL)-3,4-BIS(OXIDANYL)OXOLAN-2-YL]-7-PROP-2-ENYL-1~{H}-PURINE-6,8-DIONE'>SDL</scene></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TLR7 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9544 MACMU])~~</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=5gmg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gmg OCA], [https://pdbe.org/5gmg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5gmg RCSB], [https://www.ebi.ac.uk/pdbsum/5gmg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5gmg 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=5gmg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gmg OCA], [~~http~~://pdbe.org/5gmg PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5gmg RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5gmg PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5gmg ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/B3Y653_MACMU B3Y653_MACMU]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	==See Also==		==See Also==
-	*[[Toll-like ~~Receptors~~\|Toll-like ~~Receptors~~]]	+	*[[Toll-like Receptor 3D structures\|Toll-like Receptor 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Macmu~~]]	+	[[Category: Macaca mulatta]]
-	[[Category: Ohto, U]]	+	[[Category: Ohto U]]
-	[[Category: Shimizu, T]]	+	[[Category: Shimizu T]]
-	[[Category: Zhang, Z]]	+	[[Category: Zhang Z]]
-	~~[[Category: Immune system]]~~	+
-	~~[[Category: Immune system-rna complex]]~~	+
-	~~[[Category: Innate immunity]]~~	+
-	~~[[Category: Ssrna recogniton]]~~	+
-	~~[[Category: Tlr7~~]]	+

OCA at 10:08, 26 February 2020

2020-02-26T10:08:39Z

←Older revision		Revision as of 10:08, 26 February 2020
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	==Crystal structure of monkey TLR7 in complex with loxoribine and polyU==		==Crystal structure of monkey TLR7 in complex with loxoribine and polyU==
-	<StructureSection load='5gmg' size='340' side='right' caption='[[5gmg]], [[Resolution\|resolution]] 2.60Å' scene=''>	+	<StructureSection load='5gmg' size='340' side='right'caption='[[5gmg]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5gmg]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GMG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5GMG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5gmg]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Macmu Macmu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GMG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5GMG FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SDL:2-AZANYL-9-[(2~{R},3~{R},4~{S},5~{R})-5-(HYDROXYMETHYL)-3,4-BIS(OXIDANYL)OXOLAN-2-YL]-7-PROP-2-ENYL-1~{H}-PURINE-6,8-DIONE'>SDL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SDL:2-AZANYL-9-[(2~{R},3~{R},4~{S},5~{R})-5-(HYDROXYMETHYL)-3,4-BIS(OXIDANYL)OXOLAN-2-YL]-7-PROP-2-ENYL-1~{H}-PURINE-6,8-DIONE'>SDL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5gmf\|5gmf]], [[5gmh\|5gmh]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5gmf\|5gmf]], [[5gmh\|5gmh]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TLR7 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9544 MACMU])</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=5gmg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gmg OCA], [http://pdbe.org/5gmg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gmg RCSB], [http://www.ebi.ac.uk/pdbsum/5gmg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gmg 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=5gmg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gmg OCA], [http://pdbe.org/5gmg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gmg RCSB], [http://www.ebi.ac.uk/pdbsum/5gmg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gmg ProSAT]</span></td></tr>
	</table>		</table>
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	</div>		</div>
	<div class="pdbe-citations 5gmg" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5gmg" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Toll-like Receptors\|Toll-like Receptors]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Macmu]]
	[[Category: Ohto, U]]		[[Category: Ohto, U]]
	[[Category: Shimizu, T]]		[[Category: Shimizu, T]]

OCA at 18:14, 2 November 2016

2016-11-02T18:14:08Z

←Older revision		Revision as of 18:14, 2 November 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5gmg is ~~ON HOLD~~	+	==Crystal structure of monkey TLR7 in complex with loxoribine and polyU==
		+	<StructureSection load='5gmg' size='340' side='right' caption='[[5gmg]], [[Resolution\|resolution]] 2.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5gmg]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GMG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5GMG FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SDL:2-AZANYL-9-[(2~{R},3~{R},4~{S},5~{R})-5-(HYDROXYMETHYL)-3,4-BIS(OXIDANYL)OXOLAN-2-YL]-7-PROP-2-ENYL-1~{H}-PURINE-6,8-DIONE'>SDL</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5gmf\|5gmf]], [[5gmh\|5gmh]]</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=5gmg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gmg OCA], [http://pdbe.org/5gmg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gmg RCSB], [http://www.ebi.ac.uk/pdbsum/5gmg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gmg ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Toll-like receptor 7 (TLR7) is a single-stranded RNA (ssRNA) sensor in innate immunity and also responds to guanosine and chemical ligands, such as imidazoquinoline compounds. However, TLR7 activation mechanism by these ligands remain largely unknown. Here, we generated crystal structures of three TLR7 complexes, and found that all formed an activated m-shaped dimer with two ligand-binding sites. The first site conserved in TLR7 and TLR8 was used for small ligand-binding essential for its activation. The second site spatially distinct from that of TLR8 was used for a ssRNA-binding that enhanced the affinity of the first-site ligands. The first site preferentially recognized guanosine and the second site specifically bound to uridine moieties in ssRNA. Our structural, biochemical, and mutagenesis studies indicated that TLR7 is a dual receptor for guanosine and uridine-containing ssRNA. Our findings have important implications for understanding of TLR7 function, as well as for therapeutic manipulation of TLR7 activation.

-	~~Authors: Zhang~~, Z., Ohto, U., ~~Shimizu~~, T.	+	Structural Analysis Reveals that Toll-like Receptor 7 Is a Dual Receptor for Guanosine and Single-Stranded RNA.,Zhang Z, Ohto U, Shibata T, Krayukhina E, Taoka M, Yamauchi Y, Tanji H, Isobe T, Uchiyama S, Miyake K, Shimizu T Immunity. 2016 Oct 18;45(4):737-748. doi: 10.1016/j.immuni.2016.09.011. Epub 2016, Oct 11. PMID:27742543<ref>PMID:27742543</ref>

-	~~Description: Crystal structure~~ of ~~monkey TLR7 in complex with loxoribine and polyU~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Zhang, Z]]~~	+	<div class="pdbe-citations 5gmg" style="background-color:#fffaf0;"></div>
-	~~[[Category: Shimizu, T]]~~	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Ohto, U]]		[[Category: Ohto, U]]
		+	[[Category: Shimizu, T]]
		+	[[Category: Zhang, Z]]
		+	[[Category: Immune system]]
		+	[[Category: Immune system-rna complex]]
		+	[[Category: Innate immunity]]
		+	[[Category: Ssrna recogniton]]
		+	[[Category: Tlr7]]

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

2016-07-26T09:46:46Z

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

←Older revision

Revision as of 09:46, 26 July 2016

OCA: New page: '''Unreleased structure''' The entry 5gmg is ON HOLD Authors: Zhang, Z., Ohto, U., Shimizu, T. Description: Crystal structure of monkey TLR7 in complex with loxoribine and polyU [[Cate...

2016-07-26T09:46:45Z

New page: '''Unreleased structure''' The entry 5gmg is ON HOLD Authors: Zhang, Z., Ohto, U., Shimizu, T. Description: Crystal structure of monkey TLR7 in complex with loxoribine and polyU [[Cate...

New page

'''Unreleased structure'''

The entry 5gmg is ON HOLD

Authors: Zhang, Z., Ohto, U., Shimizu, T.

Description: Crystal structure of monkey TLR7 in complex with loxoribine and polyU
[[Category: Unreleased Structures]]
[[Category: Zhang, Z]]
[[Category: Shimizu, T]]
[[Category: Ohto, U]]