1t2z - Revision history

OCA at 07:40, 22 September 2021

2021-09-22T07:40:56Z

←Older revision		Revision as of 07:40, 22 September 2021
Line 4:		Line 4:
	<StructureSection load='1t2z' size='340' side='right'caption='[[1t2z]]' scene=''>		<StructureSection load='1t2z' size='340' side='right'caption='[[1t2z]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1T2Z FirstGlance]. <br>	+	<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1T2Z FirstGlance]. <br>
-	</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=1t2z FirstGlance], [~~http~~://www.ebi.ac.uk/pdbsum/1t2z PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1t2z ProSAT]</span></td></tr>	+	</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=1t2z FirstGlance], [https://www.ebi.ac.uk/pdbsum/1t2z PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1t2z ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 14:07, 18 December 2019

2019-12-18T14:07:34Z

←Older revision		Revision as of 14:07, 18 December 2019
Line 2:		Line 2:

	==HUMAN MD-2 MODEL==		==HUMAN MD-2 MODEL==
-	<StructureSection load='1t2z' size='340' side='right' caption='[[1t2z]]' scene=''>	+	<StructureSection load='1t2z' size='340' side='right'caption='[[1t2z]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1T2Z FirstGlance]. <br>		<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1T2Z FirstGlance]. <br>
Line 21:		Line 21:
	</StructureSection>		</StructureSection>
	[[Category: Theoretical Model]]		[[Category: Theoretical Model]]
		+	[[Category: Large Structures]]
	[[Category: Gruber, A]]		[[Category: Gruber, A]]
	[[Category: Jerala, R]]		[[Category: Jerala, R]]

OCA at 07:48, 14 March 2018

2018-03-14T07:48:43Z

←Older revision		Revision as of 07:48, 14 March 2018
Line 5:		Line 5:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1T2Z FirstGlance]. <br>		<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1T2Z FirstGlance]. <br>
-	</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=1t2z FirstGlance], [http://www.ebi.ac.uk/pdbsum/1t2z PDBsum]</span></td></tr>	+	</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=1t2z FirstGlance], [http://www.ebi.ac.uk/pdbsum/1t2z PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1t2z ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 09:54, 11 February 2016

2016-02-11T09:54:07Z

←Older revision		Revision as of 09:54, 11 February 2016
Line 1:		Line 1:
		+	{{Theoretical_model}}
		+
	==HUMAN MD-2 MODEL==		==HUMAN MD-2 MODEL==
	<StructureSection load='1t2z' size='340' side='right' caption='[[1t2z]]' scene=''>		<StructureSection load='1t2z' size='340' side='right' caption='[[1t2z]]' scene=''>
Line 18:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Theoretical Model]]
	[[Category: Gruber, A]]		[[Category: Gruber, A]]
	[[Category: Jerala, R]]		[[Category: Jerala, R]]

OCA at 14:39, 11 September 2015

2015-09-11T14:39:56Z

←Older revision		Revision as of 14:39, 11 September 2015
Line 13:		Line 13:
	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 1t2z" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 08:09, 6 January 2015

2015-01-06T08:09:21Z

←Older revision		Revision as of 08:09, 6 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1T2Z FirstGlance]. <br>		<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1T2Z FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1t2z FirstGlance], [http://www.ebi.ac.uk/pdbsum/1t2z PDBsum]</span></td></tr>	+	</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=1t2z FirstGlance], [http://www.ebi.ac.uk/pdbsum/1t2z PDBsum]</span></td></tr>
-	<table>	+	</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 22:55, 28 September 2014

2014-09-28T22:55:23Z

←Older revision		Revision as of 22:55, 28 September 2014
Line 1:		Line 1:
-	~~{{Theoretical_model}}~~	+	==HUMAN MD-2 MODEL==
		+	<StructureSection load='1t2z' size='340' side='right' caption='[[1t2z]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1T2Z FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1t2z FirstGlance], [http://www.ebi.ac.uk/pdbsum/1t2z PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The receptor complex resulting from association of MD-2 and the ectodomain of Toll-like receptor 4 (TLR4) mediates lipopolysaccharide (LPS) signal transduction across the cell membrane. We prepared a tertiary structure model of MD-2, based on the known structures of homologous lipid-binding proteins. Analysis of circular dichroic spectra of purified bacterially expressed MD-2 indicates high content of beta-type secondary structure, in agreement with the structural model. Bacterially expressed MD-2 was able to confer LPS responsiveness to cells expressing TLR4 despite lacking glycosylation. We identified several clusters of basic residues on the surface of MD-2. Mutation of each of two clusters encompassing the residues Lys(89)-Arg(90)-Lys(91) and Lys(125)-Lys(125) significantly decreased the signal transduction of the respective MD-2 mutants either upon co-expression with TLR4 or upon addition as soluble protein into the supernatant of cells overexpressing TLR4. These basic clusters lie at the edge of the beta-sheet sandwich, which in cholesterol-binding protein connected to Niemann-Pick disease C2 (NPC2), dust mite allergen Der p2, and ganglioside GM2-activator protein form a hydrophobic pocket. In contrast, mutation of another basic cluster composed of Arg(69)-Lys(72), which according to the model lies further apart from the hydrophobic pocket only weakly decreased MD-2 activity. Furthermore, addition of the peptide, comprising the surface loop between Cys(95) and Cys(105), predicted by model, particularly in oxidized form, decreased LPS-induced production of tumor necrosis factor alpha and interleukin-8 upon application to monocytic cells and fibroblasts, respectively, supporting its involvement in LPS signaling. Our structural model of MD-2 is corroborated by biochemical analysis and contributes to the unraveling of molecular interactions in LPS recognition.

-	~~[[Image~~:~~1t2z~~.~~png\|left\|200px]]~~	+	Structural model of MD-2 and functional role of its basic amino acid clusters involved in cellular lipopolysaccharide recognition.,Gruber A, Mancek M, Wagner H, Kirschning CJ, Jerala R J Biol Chem. 2004 Jul 2;279(27):28475-82. Epub 2004 Apr 24. PMID:15111623<ref>PMID:15111623</ref>

-	~~{{STRUCTURE_1t2z\| PDB=1t2z \| SCENE= }}~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	==~~=HUMAN MD-2 MODEL===~~	+	== References ==
-		+	<references/>
-	~~{{ABSTRACT_PUBMED_15111623}}~~	+	__TOC__
-		+	</StructureSection>
-	~~==Reference~~==	+
-	<~~ref group="xtra">PMID:015111623<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Gruber, A]]		[[Category: Gruber, A]]
	[[Category: Jerala, R]]		[[Category: Jerala, R]]

OCA: Protected "1t2z" [edit=sysop:move=sysop]

2012-10-21T09:47:36Z

Protected "1t2z" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:47, 21 October 2012

OCA at 09:47, 21 October 2012

2012-10-21T09:47:32Z

←Older revision		Revision as of 09:47, 21 October 2012
Line 1:		Line 1:
	{{Theoretical_model}}		{{Theoretical_model}}
-	~~{{Seed}}~~	+
	[[Image:1t2z.png\|left\|200px]]		[[Image:1t2z.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1t2z", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_1t2z\| PDB=1t2z \| SCENE= }}		{{STRUCTURE_1t2z\| PDB=1t2z \| SCENE= }}

	===HUMAN MD-2 MODEL===		===HUMAN MD-2 MODEL===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_15111623}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 15111623 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_15111623}}		{{ABSTRACT_PUBMED_15111623}}
-
-	==About this Structure==
-	Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T2Z OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~15111623~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:015111623</ref><references group="xtra"/>
	[[Category: Gruber, A]]		[[Category: Gruber, A]]
	[[Category: Jerala, R]]		[[Category: Jerala, R]]
Line 30:		Line 16:
	[[Category: Mancek, M]]		[[Category: Mancek, M]]
	[[Category: Wagner, H]]		[[Category: Wagner, H]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Apr 8 08:58:55 2010''

OCA at 05:58, 8 April 2010

2010-04-08T05:58:56Z

←Older revision		Revision as of 05:58, 8 April 2010
Line 1:		Line 1:
-	~~'''Theoretical Model'''~~	+	{{Theoretical_model}}
		+	{{Seed}}
		+	[[Image:1t2z.png\|left\|200px]]

-	The ~~entry 1T2Z~~ is ~~a Theoretical Model titled 'human MD-2 model'~~.	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_1t2z", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_1t2z\| PDB=1t2z \| SCENE= }}

-	~~[[Category:Theoretical Model]]~~	+	===HUMAN MD-2 MODEL===


-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Jul 30 09~~:53:~~36 2008~~''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_15111623}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 15111623 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_15111623}}
		+
		+	==About this Structure==
		+	Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T2Z OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:15111623</ref><references group="xtra"/>
		+	[[Category: Gruber, A]]
		+	[[Category: Jerala, R]]
		+	[[Category: Kirschning, C J]]
		+	[[Category: Mancek, M]]
		+	[[Category: Wagner, H]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Apr 8 08:58:55 2010''