4r0a - Revision history

OCA at 14:02, 22 February 2023

OCA — Wed, 22 Feb 2023 14:02:12 GMT

←Older revision		Revision as of 14:02, 22 February 2023
Line 3:		Line 3:
	<StructureSection load='4r0a' size='340' side='right'caption='[[4r0a]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='4r0a' size='340' side='right'caption='[[4r0a]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4r0a]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4R0A OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4R0A FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4r0a]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4R0A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4R0A FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=URI:URIDINE'>URI</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=URI:URIDINE'>URI</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4r07\|4r07]], [[4r08\|4r08]], [[4r09\|4r09]]</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=4r0a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4r0a OCA], [https://pdbe.org/4r0a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4r0a RCSB], [https://www.ebi.ac.uk/pdbsum/4r0a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4r0a ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TLR8, UNQ249/PRO286 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])~~</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=4r0a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4r0a OCA], [~~http~~://pdbe.org/4r0a PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4r0a RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4r0a PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4r0a ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/TLR8_HUMAN TLR8_HUMAN]] Key component of innate and adaptive immunity. TLRs (Toll-like receptors) control host immune response against pathogens through recognition of molecular patterns specific to microorganisms. Acts via MYD88 and TRAF6, leading to NF-kappa-B activation, cytokine secretion and the inflammatory response.<ref>PMID:17932028</ref>	+	[https://www.uniprot.org/uniprot/TLR8_HUMAN TLR8_HUMAN] Key component of innate and adaptive immunity. TLRs (Toll-like receptors) control host immune response against pathogens through recognition of molecular patterns specific to microorganisms. Acts via MYD88 and TRAF6, leading to NF-kappa-B activation, cytokine secretion and the inflammatory response.<ref>PMID:17932028</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 20:

	==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: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Ohto, U]]	+	[[Category: Ohto U]]
-	[[Category: Shimizu, T]]	+	[[Category: Shimizu T]]
-	[[Category: Tanji, H]]	+	[[Category: Tanji H]]
-	~~[[Category: Antitumor drug binding]]~~	+
-	~~[[Category: Antiviral binding]]~~	+
-	~~[[Category: Glycosylation]]~~	+
-	~~[[Category: Immune system]]~~	+
-	~~[[Category: Innate immunity]]~~	+
-	~~[[Category: Leucine rich repeat]]~~	+
-	~~[[Category: Rna binding]]~~	+
-	~~[[Category: Rna receptor]]~~	+
-	~~[[Category: Rna recognition]]~~	+
-	~~[[Category: Ssrna~~]]	+

OCA at 09:20, 24 April 2019

OCA — Wed, 24 Apr 2019 09:20:28 GMT

←Older revision		Revision as of 09:20, 24 April 2019
Line 1:		Line 1:

	==Crystal structure of human TLR8 in complex with uridine mononucleoside==		==Crystal structure of human TLR8 in complex with uridine mononucleoside==
-	<StructureSection load='4r0a' size='340' side='right' caption='[[4r0a]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='4r0a' size='340' side='right'caption='[[4r0a]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4r0a]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4R0A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4R0A FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4r0a]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4R0A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4R0A FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=~~NAG~~:~~N-ACETYL~~-D-~~GLUCOSAMINE~~'>~~NAG~~</scene>, <scene name='pdbligand=~~URI~~:~~URIDINE~~'>~~URI~~</scene>, <scene name='pdbligand=~~MAN~~:~~ALPHA-D-MANNOSE~~'>~~MAN~~</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=URI:URIDINE'>URI</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4r07\|4r07]], [[4r08\|4r08]], [[4r09\|4r09]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4r07\|4r07]], [[4r08\|4r08]], [[4r09\|4r09]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TLR8, UNQ249/PRO286 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=4r0a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4r0a OCA], [http://pdbe.org/4r0a PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4r0a RCSB], [http://www.ebi.ac.uk/pdbsum/4r0a PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4r0a 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=4r0a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4r0a OCA], [http://pdbe.org/4r0a PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4r0a RCSB], [http://www.ebi.ac.uk/pdbsum/4r0a PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4r0a ProSAT]</span></td></tr>
	</table>		</table>
Line 26:		Line 27:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Ohto, U]]		[[Category: Ohto, U]]
	[[Category: Shimizu, T]]		[[Category: Shimizu, T]]

OCA at 17:22, 18 January 2017

OCA — Wed, 18 Jan 2017 17:22:25 GMT

←Older revision		Revision as of 17:22, 18 January 2017
Line 1:		Line 1:
		+
	==Crystal structure of human TLR8 in complex with uridine mononucleoside==		==Crystal structure of human TLR8 in complex with uridine mononucleoside==
	<StructureSection load='4r0a' size='340' side='right' caption='[[4r0a]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='4r0a' size='340' side='right' caption='[[4r0a]], [[Resolution\|resolution]] 1.90Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=URI:URIDINE'>URI</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=URI:URIDINE'>URI</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4r07\|4r07]], [[4r08\|4r08]], [[4r09\|4r09]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4r07\|4r07]], [[4r08\|4r08]], [[4r09\|4r09]]</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=4r0a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4r0a OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4r0a RCSB], [http://www.ebi.ac.uk/pdbsum/4r0a PDBsum]</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=4r0a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4r0a OCA], [http://pdbe.org/4r0a PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4r0a RCSB], [http://www.ebi.ac.uk/pdbsum/4r0a PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4r0a ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 18:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4r0a" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Toll-like Receptors\|Toll-like Receptors]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 07:29, 18 February 2015

OCA — Wed, 18 Feb 2015 07:29:09 GMT

←Older revision		Revision as of 07:29, 18 February 2015
Line 9:		Line 9:
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/TLR8_HUMAN TLR8_HUMAN]] Key component of innate and adaptive immunity. TLRs (Toll-like receptors) control host immune response against pathogens through recognition of molecular patterns specific to microorganisms. Acts via MYD88 and TRAF6, leading to NF-kappa-B activation, cytokine secretion and the inflammatory response.<ref>PMID:17932028</ref>		[[http://www.uniprot.org/uniprot/TLR8_HUMAN TLR8_HUMAN]] Key component of innate and adaptive immunity. TLRs (Toll-like receptors) control host immune response against pathogens through recognition of molecular patterns specific to microorganisms. Acts via MYD88 and TRAF6, leading to NF-kappa-B activation, cytokine secretion and the inflammatory response.<ref>PMID:17932028</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Toll-like receptor 8 (TLR8) recognizes viral or bacterial single-stranded RNA (ssRNA) and activates innate immune systems. TLR8 is activated by uridine- and guanosine-rich ssRNA as well as by certain synthetic chemicals; however, the molecular basis for ssRNA recognition has remained unknown. In this study, to elucidate the recognition mechanism of ssRNA, we determined the crystal structures of human TLR8 in complex with ssRNA. TLR8 recognized two degradation products of ssRNA-uridine and a short oligonucleotide-at two distinct sites: uridine bound the site on the dimerization interface where small chemical ligands are recognized, whereas short oligonucleotides bound a newly identified site on the concave surface of the TLR8 horseshoe structure. Site-directed mutagenesis revealed that both binding sites were essential for activation of TLR8 by ssRNA. These results demonstrate that TLR8 is a sensor for both uridine and a short oligonucleotide derived from RNA.
		+
		+	Toll-like receptor 8 senses degradation products of single-stranded RNA.,Tanji H, Ohto U, Shibata T, Taoka M, Yamauchi Y, Isobe T, Miyake K, Shimizu T Nat Struct Mol Biol. 2015 Feb;22(2):109-15. doi: 10.1038/nsmb.2943. Epub 2015 Jan, 19. PMID:25599397<ref>PMID:25599397</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 13:43, 14 January 2015

OCA — Wed, 14 Jan 2015 13:43:48 GMT

←Older revision		Revision as of 13:43, 14 January 2015
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==Crystal structure of human TLR8 in complex with uridine mononucleoside==
-		+	<StructureSection load='4r0a' size='340' side='right' caption='[[4r0a]], [[Resolution\|resolution]] 1.90Å' scene=''>
-	~~The entry~~ 4r0a is ~~ON HOLD~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4r0a]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4R0A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4R0A FirstGlance]. <br>
-	~~Authors~~: ~~Tanji~~, H., ~~Ohto~~, U., ~~Shimizu~~, T.	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=URI:URIDINE'>URI</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene></td></tr>
-		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4r07\|4r07]], [[4r08\|4r08]], [[4r09\|4r09]]</td></tr>
-	~~Description~~: ~~Crystal structure of human TLR8 in complex with uridine mononucleoside~~	+	<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=4r0a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4r0a OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4r0a RCSB], [http://www.ebi.ac.uk/pdbsum/4r0a PDBsum]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[~~Category~~: ~~Tanji, H~~]]	+	== Function ==
		+	[[http://www.uniprot.org/uniprot/TLR8_HUMAN TLR8_HUMAN]] Key component of innate and adaptive immunity. TLRs (Toll-like receptors) control host immune response against pathogens through recognition of molecular patterns specific to microorganisms. Acts via MYD88 and TRAF6, leading to NF-kappa-B activation, cytokine secretion and the inflammatory response.<ref>PMID:17932028</ref>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Ohto, U]]		[[Category: Ohto, U]]
	[[Category: Shimizu, T]]		[[Category: Shimizu, T]]
		+	[[Category: Tanji, H]]
		+	[[Category: Antitumor drug binding]]
		+	[[Category: Antiviral binding]]
		+	[[Category: Glycosylation]]
		+	[[Category: Immune system]]
		+	[[Category: Innate immunity]]
		+	[[Category: Leucine rich repeat]]
		+	[[Category: Rna binding]]
		+	[[Category: Rna receptor]]
		+	[[Category: Rna recognition]]
		+	[[Category: Ssrna]]

OCA at 16:19, 24 December 2014

OCA — Wed, 24 Dec 2014 16:19:41 GMT

←Older revision		Revision as of 16:19, 24 December 2014
Line 6:		Line 6:

	Description: Crystal structure of human TLR8 in complex with uridine mononucleoside		Description: Crystal structure of human TLR8 in complex with uridine mononucleoside
		+	[[Category: Unreleased Structures]]
		+	[[Category: Tanji, H]]
		+	[[Category: Ohto, U]]
		+	[[Category: Shimizu, T]]

OCA: Protected "4r0a" [edit=sysop:move=sysop]

OCA — Thu, 07 Aug 2014 01:16:56 GMT

Protected "4r0a" [edit=sysop:move=sysop]

←Older revision

Revision as of 01:16, 7 August 2014

OCA: New page: '''Unreleased structure''' The entry 4r0a is ON HOLD Authors: Tanji, H., Ohto, U., Shimizu, T. Description: Crystal structure of human TLR8 in complex with uridine mononucleoside

OCA — Thu, 07 Aug 2014 01:16:54 GMT

New page: '''Unreleased structure''' The entry 4r0a is ON HOLD Authors: Tanji, H., Ohto, U., Shimizu, T. Description: Crystal structure of human TLR8 in complex with uridine mononucleoside

New page

'''Unreleased structure'''

The entry 4r0a is ON HOLD

Authors: Tanji, H., Ohto, U., Shimizu, T.

Description: Crystal structure of human TLR8 in complex with uridine mononucleoside