5gy2 - Revision history

OCA at 11:45, 2 August 2023

OCA — Wed, 02 Aug 2023 11:45:51 GMT

←Older revision		Revision as of 11:45, 2 August 2023
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	<StructureSection load='5gy2' size='340' side='right'caption='[[5gy2]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='5gy2' size='340' side='right'caption='[[5gy2]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5gy2]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Bacpz Bacpz~~] and [~~http~~://en.wikipedia.org/wiki/~~Bdellostoma_burgeri Bdellostoma~~ burgeri]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GY2 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5GY2 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5gy2]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis_subsp._spizizenii_str._W23 Bacillus subtilis subsp. spizizenii str. W23], [https://en.wikipedia.org/wiki/Danio_rerio Danio rerio] and [https://en.wikipedia.org/wiki/Eptatretus_burgeri Eptatretus burgeri]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GY2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5GY2 FirstGlance]. <br>
-	</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=PG4:TETRAETHYLENE+GLYCOL'>PG4</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]] 2.1Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~VLRB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=7764 Bdellostoma burgeri]), hag, BSUW23_17335 ([http~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=655816 BACPZ])~~</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=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene></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=5gy2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gy2 OCA], [~~http~~://pdbe.org/5gy2 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5gy2 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5gy2 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5gy2 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=5gy2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gy2 OCA], [https://pdbe.org/5gy2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5gy2 RCSB], [https://www.ebi.ac.uk/pdbsum/5gy2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5gy2 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~E0U497_BACPZ E0U497_BACPZ~~]~~] Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella.~~[~~RuleBase~~:~~RU362073~~]	+	[https://www.uniprot.org/uniprot/B3DIN1_DANRE B3DIN1_DANRE] [https://www.uniprot.org/uniprot/Q4G1L2_EPTBU Q4G1L2_EPTBU]
	<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: ~~Bacpz~~]]	+	[[Category: Bacillus subtilis subsp. spizizenii str. W23]]
-	[[Category: ~~Bdellostoma~~ burgeri]]	+	[[Category: Danio rerio]]
		+	[[Category: Eptatretus burgeri]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Song~~, W S~~]]	+	[[Category: Song WS]]
-	[[Category: Yoon~~, S I]]~~	+	[[Category: Yoon SI]]
-	~~[[Category: Bacterial protein immune receptor]]~~	+
-	~~[[Category: Immune system~~]]	+

OCA at 06:46, 20 May 2020

OCA — Wed, 20 May 2020 06:46:07 GMT

←Older revision		Revision as of 06:46, 20 May 2020
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	==Crystal structure of a complex between Bacillus subtilis flagellin and zebrafish Toll-like receptor 5==		==Crystal structure of a complex between Bacillus subtilis flagellin and zebrafish Toll-like receptor 5==
-	<StructureSection load='5gy2' size='340' side='right' caption='[[5gy2]], [[Resolution\|resolution]] 2.10Å' scene=''>	+	<StructureSection load='5gy2' size='340' side='right'caption='[[5gy2]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5gy2]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GY2 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5GY2 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5gy2]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacpz Bacpz] and [http://en.wikipedia.org/wiki/Bdellostoma_burgeri Bdellostoma burgeri]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GY2 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5GY2 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=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene></td></tr>	+	</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=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene></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=5gy2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gy2 OCA], [http://pdbe.org/5gy2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gy2 RCSB], [http://www.ebi.ac.uk/pdbsum/5gy2 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gy2 ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VLRB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7764 Bdellostoma burgeri]), hag, BSUW23_17335 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=655816 BACPZ])</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=5gy2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gy2 OCA], [http://pdbe.org/5gy2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gy2 RCSB], [http://www.ebi.ac.uk/pdbsum/5gy2 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gy2 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	</div>		</div>
	<div class="pdbe-citations 5gy2" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5gy2" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Flagellin 3D structures\|Flagellin 3D structures]]
		+	*[[Toll-like Receptor 3D structures\|Toll-like Receptor 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacpz]]
		+	[[Category: Bdellostoma burgeri]]
		+	[[Category: Large Structures]]
	[[Category: Song, W S]]		[[Category: Song, W S]]
	[[Category: Yoon, S I]]		[[Category: Yoon, S I]]
	[[Category: Bacterial protein immune receptor]]		[[Category: Bacterial protein immune receptor]]
	[[Category: Immune system]]		[[Category: Immune system]]

OCA at 17:37, 10 March 2017

OCA — Fri, 10 Mar 2017 17:37:33 GMT

←Older revision		Revision as of 17:37, 10 March 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5gy2 is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of a complex between Bacillus subtilis flagellin and zebrafish Toll-like receptor 5==
		+	<StructureSection load='5gy2' size='340' side='right' caption='[[5gy2]], [[Resolution\|resolution]] 2.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5gy2]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GY2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5GY2 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=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene></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=5gy2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gy2 OCA], [http://pdbe.org/5gy2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gy2 RCSB], [http://www.ebi.ac.uk/pdbsum/5gy2 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gy2 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/E0U497_BACPZ E0U497_BACPZ]] Flagellin is the subunit protein which polymerizes to form the filaments of bacterial flagella.[RuleBase:RU362073]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Flagellin is a bacterial protein that polymerizes into the flagellar filament and is essential for bacterial motility. When flagellated bacteria invade the host, flagellin is recognized by Toll-like receptor 5 (TLR5) as a pathogen invasion signal and eventually evokes the innate immune response. Here, we provide a conserved structural mechanism by which flagellins from Gram-negative gamma-proteobacteria and Gram-positive Firmicutes bacteria bind and activate TLR5. The comparative structural analysis using our crystal structure of a complex between Bacillus subtilis flagellin (bsflagellin) and TLR5 at 2.1 A resolution, combined with the alanine scanning analysis of the binding interface, reveals a common hot spot in flagellin for TLR5 activation. An arginine residue (bsflagellin R89) of the flagellin D1 domain and its adjacent residues (bsflagellin E114 and L93) constitute a hot spot that provides shape and chemical complementarity to a cavity generated by the loop of leucine-rich repeat 9 in TLR5. In addition to the flagellin D1 domain, the D0 domain also contributes to TLR5 activity through structurally dispersed regions, but not a single focal area. These results establish the groundwork for the future design of flagellin-based therapeutics.

-	~~Authors~~:	+	A conserved TLR5 binding and activation hot spot on flagellin.,Song WS, Jeon YJ, Namgung B, Hong M, Yoon SI Sci Rep. 2017 Jan 20;7:40878. doi: 10.1038/srep40878. PMID:28106112<ref>PMID:28106112</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5gy2" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Song, W S]]
		+	[[Category: Yoon, S I]]
		+	[[Category: Bacterial protein immune receptor]]
		+	[[Category: Immune system]]

OCA at 13:32, 9 December 2016

OCA — Fri, 09 Dec 2016 13:32:33 GMT

←Older revision		Revision as of 13:32, 9 December 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5gy2 is ON HOLD	+	The entry 5gy2 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "5gy2" [edit=sysop:move=sysop]

OCA — Mon, 03 Oct 2016 11:33:43 GMT

Protected "5gy2" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:33, 3 October 2016

OCA: New page: '''Unreleased structure''' The entry 5gy2 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Mon, 03 Oct 2016 11:33:42 GMT

New page: '''Unreleased structure''' The entry 5gy2 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5gy2 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]