5hg6 - Revision history

OCA: Redirecting to 5ijd

2016-05-11T03:23:19Z

Redirecting to 5ijd

←Older revision		Revision as of 03:23, 11 May 2016
Line 1:		Line 1:
-		+	#REDIRECT [[5ijd]] This PDB entry is obsolete and replaced by 5ijd
-	~~==The crystal structure of mouse TLR4/MD-2/lipid A complex==~~	+
-	~~<StructureSection load='5hg6' size='340' side='right' caption='~~[[~~5hg6]], [[Resolution\|resolution]] 2.70Å' scene=''>~~	+
-	~~== Structural highlights ==~~	+
-	~~<table><tr><td colspan='2'>[[5hg6~~]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HG6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5HG6 FirstGlance]. <br>	+
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DAO:LAURIC+ACID'>DAO</scene>, <scene name='pdbligand=LP4:2-DEOXY-3-O-[(3R)-3-HYDROXYTETRADECANOYL]-2-{[(3R)-3-HYDROXYTETRADECANOYL]AMINO}-4-O-PHOSPHONO-BETA-D-GLUCOPYRANOSE'>LP4</scene>, <scene name='pdbligand=LP5:(R)-((2R,3S,4R,5R,6R)-3-HYDROXY-2-(HYDROXYMETHYL)-5-((R)-3-HYDROXYTETRADECANAMIDO)-6-(PHOSPHONOOXY)TETRAHYDRO-2H-PYRAN-4-YL)+3-HYDROXYTETRADECANOATE'>LP5</scene>, <scene name='pdbligand=MYR:MYRISTIC+ACID'>MYR</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>	+
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5hg3\|5hg3]], [[5hg4\|5hg4]]</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=5hg6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hg6 OCA], [http://pdbe.org/5hg6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5hg6 RCSB], [http://www.ebi.ac.uk/pdbsum/5hg6 PDBsum]</span></td></tr>	+
-	~~</table>~~	+
-	~~== Disease ==~~	+
-	[[http://www.uniprot.org/uniprot/TLR4_MOUSE TLR4_MOUSE]] Note=The protein is encoded by the Lps locus, an important susceptibility locus, influencing the propensity to develop a disseminated Gram-negative infection.	+
-	~~== Function ==~~	+
-	~~[[http://www.uniprot.org/uniprot/TLR4_MOUSE TLR4_MOUSE]] Cooperates with LY96~~ and CD14 to mediate the innate immune response to bacterial lipopolysaccharide (LPS). Acts via MYD88, TIRAP and TRAF6, leading to NF-kappa-B activation, cytokine secretion and the inflammatory response (By similarity).<ref>PMID:10952994</ref> [[http://www.uniprot.org/uniprot/LY96_MOUSE LY96_MOUSE]] Cooperates with TLR4 in the innate immune response to bacterial lipopolysaccharide (LPS), and with TLR2 in the response to cell wall components from Gram-positive and Gram-negative bacteria. Enhances TLR4-dependent activation of NF-kappa-B. Cells expressing both MD2 and TLR4, but not TLR4 alone, respond to LPS (By similarity).	+
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	~~Structurally disparate molecules reportedly engage and activate Toll-like receptor (TLR) 4 and other TLRs, yet the interactions that mediate binding and activation~~ by dissimilar ligands remain unknown. We describe Neoseptins, chemically synthesized peptidomimetics that bear no structural similarity to the established TLR4 ligand, lipopolysaccharide (LPS), but productively engage the mouse TLR4 (mTLR4)/myeloid differentiation factor 2 (MD-2) complex. Neoseptin-3 activates mTLR4/MD-2 independently of CD14 and triggers canonical myeloid differentiation primary response gene 88 (MyD88)- and Toll-interleukin 1 receptor (TIR) domain-containing adaptor inducing IFN-beta (TRIF)-dependent signaling. The crystal structure mTLR4/MD-2/Neoseptin-3 at 2.57-A resolution reveals that Neoseptin-3 binds as an asymmetrical dimer within the hydrophobic pocket of MD-2, inducing an active receptor complex similar to that induced by lipid A. However, Neoseptin-3 and lipid A form dissimilar molecular contacts to achieve receptor activation; hence strong TLR4/MD-2 agonists need not mimic LPS.	+
-		+
-	TLR4/MD-2 activation by a synthetic agonist with no similarity to LPS.,Wang Y, Su L, Morin MD, Jones BT, Whitby LR, Surakattula MM, Huang H, Shi H, Choi JH, Wang KW, Moresco EM, Berger M, Zhan X, Zhang H, Boger DL, Beutler B Proc Natl Acad Sci U S A. 2016 Feb 16;113(7):E884-93. doi:, 10.1073/pnas.1525639113. Epub 2016 Feb 1. PMID:26831104<ref>PMID:26831104</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 5hg6" style="background-color:#fffaf0;"></div>~~	+
-	~~== References ==~~	+
-	~~<references/>~~	+
-	~~__TOC__~~	+
-	~~</StructureSection>~~	+
-	~~[[Category: Berger, M]]~~	+
-	~~[[Category: Beutler, B]]~~	+
-	~~[[Category: Boger, D L]]~~	+
-	~~[[Category: Choi, J H]]~~	+
-	~~[[Category: Huang, H]]~~	+
-	~~[[Category: Jones, B T]]~~	+
-	~~[[Category: Moresco, E M]]~~	+
-	~~[[Category: Morin, M D]]~~	+
-	~~[[Category: Shi, H]]~~	+
-	~~[[Category: Su, L]]~~	+
-	~~[[Category: Surakattula, M]]~~	+
-	~~[[Category: Wang, K]]~~	+
-	~~[[Category: Wang, Y]]~~	+
-	~~[[Category: Whitby, L R]]~~	+
-	~~[[Category: Zhan, X]]~~	+
-	~~[[Category: Zhang, H]]~~	+
-	~~[[Category: Immune response]]~~	+
-	~~[[Category: Immune system]]~~	+
-	~~[[Category: Natural agonist]]~~	+
-	~~[[Category: Protein complex]]~~	+

OCA at 18:55, 20 February 2016

2016-02-20T18:55:38Z

←Older revision		Revision as of 18:55, 20 February 2016
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		+
	==The crystal structure of mouse TLR4/MD-2/lipid A complex==		==The crystal structure of mouse TLR4/MD-2/lipid A complex==
	<StructureSection load='5hg6' size='340' side='right' caption='[[5hg6]], [[Resolution\|resolution]] 2.70Å' scene=''>		<StructureSection load='5hg6' size='340' side='right' caption='[[5hg6]], [[Resolution\|resolution]] 2.70Å' scene=''>
Line 11:		Line 12:
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/TLR4_MOUSE TLR4_MOUSE]] Cooperates with LY96 and CD14 to mediate the innate immune response to bacterial lipopolysaccharide (LPS). Acts via MYD88, TIRAP and TRAF6, leading to NF-kappa-B activation, cytokine secretion and the inflammatory response (By similarity).<ref>PMID:10952994</ref> [[http://www.uniprot.org/uniprot/LY96_MOUSE LY96_MOUSE]] Cooperates with TLR4 in the innate immune response to bacterial lipopolysaccharide (LPS), and with TLR2 in the response to cell wall components from Gram-positive and Gram-negative bacteria. Enhances TLR4-dependent activation of NF-kappa-B. Cells expressing both MD2 and TLR4, but not TLR4 alone, respond to LPS (By similarity).		[[http://www.uniprot.org/uniprot/TLR4_MOUSE TLR4_MOUSE]] Cooperates with LY96 and CD14 to mediate the innate immune response to bacterial lipopolysaccharide (LPS). Acts via MYD88, TIRAP and TRAF6, leading to NF-kappa-B activation, cytokine secretion and the inflammatory response (By similarity).<ref>PMID:10952994</ref> [[http://www.uniprot.org/uniprot/LY96_MOUSE LY96_MOUSE]] Cooperates with TLR4 in the innate immune response to bacterial lipopolysaccharide (LPS), and with TLR2 in the response to cell wall components from Gram-positive and Gram-negative bacteria. Enhances TLR4-dependent activation of NF-kappa-B. Cells expressing both MD2 and TLR4, but not TLR4 alone, respond to LPS (By similarity).
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Structurally disparate molecules reportedly engage and activate Toll-like receptor (TLR) 4 and other TLRs, yet the interactions that mediate binding and activation by dissimilar ligands remain unknown. We describe Neoseptins, chemically synthesized peptidomimetics that bear no structural similarity to the established TLR4 ligand, lipopolysaccharide (LPS), but productively engage the mouse TLR4 (mTLR4)/myeloid differentiation factor 2 (MD-2) complex. Neoseptin-3 activates mTLR4/MD-2 independently of CD14 and triggers canonical myeloid differentiation primary response gene 88 (MyD88)- and Toll-interleukin 1 receptor (TIR) domain-containing adaptor inducing IFN-beta (TRIF)-dependent signaling. The crystal structure mTLR4/MD-2/Neoseptin-3 at 2.57-A resolution reveals that Neoseptin-3 binds as an asymmetrical dimer within the hydrophobic pocket of MD-2, inducing an active receptor complex similar to that induced by lipid A. However, Neoseptin-3 and lipid A form dissimilar molecular contacts to achieve receptor activation; hence strong TLR4/MD-2 agonists need not mimic LPS.
		+
		+	TLR4/MD-2 activation by a synthetic agonist with no similarity to LPS.,Wang Y, Su L, Morin MD, Jones BT, Whitby LR, Surakattula MM, Huang H, Shi H, Choi JH, Wang KW, Moresco EM, Berger M, Zhan X, Zhang H, Boger DL, Beutler B Proc Natl Acad Sci U S A. 2016 Feb 16;113(7):E884-93. doi:, 10.1073/pnas.1525639113. Epub 2016 Feb 1. PMID:26831104<ref>PMID:26831104</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5hg6" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 15:58, 3 February 2016

2016-02-03T15:58:56Z

←Older revision		Revision as of 15:58, 3 February 2016
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==The crystal structure of mouse TLR4/MD-2/lipid A complex==
-		+	<StructureSection load='5hg6' size='340' side='right' caption='[[5hg6]], [[Resolution\|resolution]] 2.70Å' scene=''>
-	~~The entry~~ 5hg6 is ~~ON HOLD~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5hg6]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HG6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5HG6 FirstGlance]. <br>
-	~~Authors~~: ~~Wang, Y~~.~~, Su, L~~.~~, Morin, M~~.D.~~, Jones, B~~.T.~~, Whitby, L~~.R.~~, Surakattula, M~~., ~~Huang~~, H., ~~Shi~~, H., ~~Choi~~, ~~J.H., Wang, K., Moresco, E.M., Berger~~, ~~M., Zhan, X., Zhang, H., Boger, D.L., Beutler, B.~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DAO:LAURIC+ACID'>DAO</scene>, <scene name='pdbligand=LP4:2-DEOXY-3-O-[(3R)-3-HYDROXYTETRADECANOYL]-2-{[(3R)-3-HYDROXYTETRADECANOYL]AMINO}-4-O-PHOSPHONO-BETA-D-GLUCOPYRANOSE'>LP4</scene>, <scene name='pdbligand=LP5:(R)-((2R,3S,4R,5R,6R)-3-HYDROXY-2-(HYDROXYMETHYL)-5-((R)-3-HYDROXYTETRADECANAMIDO)-6-(PHOSPHONOOXY)TETRAHYDRO-2H-PYRAN-4-YL)+3-HYDROXYTETRADECANOATE'>LP5</scene>, <scene name='pdbligand=MYR:MYRISTIC+ACID'>MYR</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
-		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5hg3\|5hg3]], [[5hg4\|5hg4]]</td></tr>
-	~~Description~~: ~~The crystal structure of mouse TLR4~~/MD-2/~~lipid A complex~~	+	<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=5hg6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hg6 OCA], [http://pdbe.org/5hg6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5hg6 RCSB], [http://www.ebi.ac.uk/pdbsum/5hg6 PDBsum]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[~~Category: Zhang, H~~]]	+	== Disease ==
-	[[~~Category: Wang, Y~~]]	+	[[http://www.uniprot.org/uniprot/TLR4_MOUSE TLR4_MOUSE]] Note=The protein is encoded by the Lps locus, an important susceptibility locus, influencing the propensity to develop a disseminated Gram-negative infection.
-	[[~~Category~~: ~~Jones~~, B.T]]	+	== Function ==
-	[~~[Category~~: ~~Choi~~, J.H]]	+	[[http://www.uniprot.org/uniprot/TLR4_MOUSE TLR4_MOUSE]] Cooperates with LY96 and CD14 to mediate the innate immune response to bacterial lipopolysaccharide (LPS). Acts via MYD88, TIRAP and TRAF6, leading to NF-kappa-B activation, cytokine secretion and the inflammatory response (By similarity).<ref>PMID:10952994</ref> [[http://www.uniprot.org/uniprot/LY96_MOUSE LY96_MOUSE]] Cooperates with TLR4 in the innate immune response to bacterial lipopolysaccharide (LPS), and with TLR2 in the response to cell wall components from Gram-positive and Gram-negative bacteria. Enhances TLR4-dependent activation of NF-kappa-B. Cells expressing both MD2 and TLR4, but not TLR4 alone, respond to LPS (By similarity).
-	[[~~Category~~: ~~Whitby, L~~.R]]	+	== References ==
-	[[~~Category~~: ~~Beutler, B~~]]	+	<references/>
-	[[~~Category~~: ~~Wang, K~~]]	+	__TOC__
		+	</StructureSection>
	[[Category: Berger, M]]		[[Category: Berger, M]]
-	[[Category: ~~Zhan~~, X]]	+	[[Category: Beutler, B]]
		+	[[Category: Boger, D L]]
		+	[[Category: Choi, J H]]
	[[Category: Huang, H]]		[[Category: Huang, H]]
		+	[[Category: Jones, B T]]
		+	[[Category: Moresco, E M]]
		+	[[Category: Morin, M D]]
		+	[[Category: Shi, H]]
	[[Category: Su, L]]		[[Category: Su, L]]
	[[Category: Surakattula, M]]		[[Category: Surakattula, M]]
-	[[Category: ~~Boger~~, ~~D.L~~]]	+	[[Category: Wang, K]]
-	[[Category: ~~Morin~~, ~~M.D~~]]	+	[[Category: Wang, Y]]
-	[[Category: ~~Moresco~~, ~~E.M~~]]	+	[[Category: Whitby, L R]]
-	[[Category: ~~Shi~~, H]]	+	[[Category: Zhan, X]]
		+	[[Category: Zhang, H]]
		+	[[Category: Immune response]]
		+	[[Category: Immune system]]
		+	[[Category: Natural agonist]]
		+	[[Category: Protein complex]]

OCA: Protected "5hg6" [edit=sysop:move=sysop]

2016-01-13T19:01:14Z

Protected "5hg6" [edit=sysop:move=sysop]

←Older revision

Revision as of 19:01, 13 January 2016

OCA: New page: '''Unreleased structure''' The entry 5hg6 is ON HOLD Authors: Wang, Y., Su, L., Morin, M.D., Jones, B.T., Whitby, L.R., Surakattula, M., Huang, H., Shi, H., Choi, J.H., Wang, K., Moresc...

2016-01-13T19:01:13Z

New page: '''Unreleased structure''' The entry 5hg6 is ON HOLD Authors: Wang, Y., Su, L., Morin, M.D., Jones, B.T., Whitby, L.R., Surakattula, M., Huang, H., Shi, H., Choi, J.H., Wang, K., Moresc...

New page

'''Unreleased structure'''

The entry 5hg6 is ON HOLD

Authors: Wang, Y., Su, L., Morin, M.D., Jones, B.T., Whitby, L.R., Surakattula, M., Huang, H., Shi, H., Choi, J.H., Wang, K., Moresco, E.M., Berger, M., Zhan, X., Zhang, H., Boger, D.L., Beutler, B.

Description: The crystal structure of mouse TLR4/MD-2/lipid A complex
[[Category: Unreleased Structures]]
[[Category: Zhang, H]]
[[Category: Wang, Y]]
[[Category: Jones, B.T]]
[[Category: Choi, J.H]]
[[Category: Whitby, L.R]]
[[Category: Beutler, B]]
[[Category: Wang, K]]
[[Category: Berger, M]]
[[Category: Zhan, X]]
[[Category: Huang, H]]
[[Category: Su, L]]
[[Category: Surakattula, M]]
[[Category: Boger, D.L]]
[[Category: Morin, M.D]]
[[Category: Moresco, E.M]]
[[Category: Shi, H]]