3quk - Revision history

OCA at 11:58, 14 March 2024

OCA — Thu, 14 Mar 2024 11:58:42 GMT

←Older revision		Revision as of 11:58, 14 March 2024
Line 3:		Line 3:
	<StructureSection load='3quk' size='340' side='right'caption='[[3quk]], [[Resolution\|resolution]] 2.41Å' scene=''>		<StructureSection load='3quk' size='340' side='right'caption='[[3quk]], [[Resolution\|resolution]] 2.41Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3quk]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Lk3_transgenic_mice Lk3 transgenic mice~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QUK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3QUK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3quk]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Lymphocytic_choriomeningitis_virus_(strain_WE) Lymphocytic choriomeningitis virus (strain WE)] and [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QUK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3QUK FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[1s7u\|1s7u]], [[1s7v\|1s7v]], [[1s7w\|1s7w]], [[1s7x\|1s7x]], [[3qul\|3qul]]</div></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]] 2.41Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">H2-D1 ([https://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=10090 LK3 transgenic mice]), B2m ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])~~</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=3quk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3quk OCA], [https://pdbe.org/3quk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3quk RCSB], [https://www.ebi.ac.uk/pdbsum/3quk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3quk 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=3quk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3quk OCA], [https://pdbe.org/3quk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3quk RCSB], [https://www.ebi.ac.uk/pdbsum/3quk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3quk ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/HA11_MOUSE HA11_MOUSE]] Involved in the presentation of foreign antigens to the immune system. [[https://www.uniprot.org/uniprot/GLYC_LYCVW GLYC_LYCVW]] The stable signal peptide (SSP) is cleaved and functions as a signal peptide. In addition, it is apparently retained as the third component of the GP complex. The SSP is required for efficient glycoprotein expression, post-translational maturation cleavage of GP1 and GP2, glycoprotein transport to the cell surface plasma membrane, formation of infectious virus particles, and acid pH-dependent glycoprotein-mediated cell fusion (By similarity). Glycoprotein G1 mediates virus attachment to host receptor alpha-dystroglycan DAG1. This attachment induces virion internalization predominantly through clathrin- and caveolin-independent endocytosis (By similarity). Glycoprotein G2 is a viral fusion protein. Membrane fusion is mediated by conformational changes induced upon acidification in the endosome (Potential). [[https://www.uniprot.org/uniprot/B2MG_MOUSE B2MG_MOUSE]] Component of the class I major histocompatibility complex (MHC). Involved in the presentation of peptide antigens to the immune system.	+	[https://www.uniprot.org/uniprot/HA11_MOUSE HA11_MOUSE] Involved in the presentation of foreign antigens to the immune system.
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	The molecular basis underlying T-cell recognition of MHC molecules presenting altered peptide ligands is still not well-established. A hierarchy of T-cell activation by MHC class I-restricted altered peptide ligands has been defined using the T-cell receptor P14 specific for H-2D(b) in complex with the immunodominant lymphocytic choriomeningitis virus peptide gp33 (KAVYNFATM). While substitution of tyrosine to phenylalanine (Y4F) or serine (Y4S) abolished recognition by P14, the TCR unexpectedly recognized H-2D(b) in complex with the alanine-substituted semiagonist Y4A, which displayed the most significant structural modification. The observed functional hierarchy gp33 > Y4A > Y4S = Y4F was neither due to higher stabilization capacity nor to differences in structural conformation. However, thermodynamic analysis demonstrated that while recognition of the full agonist H-2D(b) /gp33 was strictly enthalpy driven, recognition of the weak agonist H-2D(b) /Y4A was instead entropy driven with a large reduction in the favorable enthalpy term. The fourfold larger negative heat capacity derived for the interaction of P14 with H-2D(b) /gp33 compared with H-2D(b) /Y4A can possibly be explained by higher water entrapment at the TCR/MHC interface, which is also consistent with the measured opposite entropy contributions for the interactions of P14 with both MHCs. In conclusion, this study demonstrates that P14 makes use of different strategies to adapt to structural modifications in the MHC/peptide complex.	+
-		+
-	Unexpected T-cell recognition of an altered peptide ligand is driven by reversed thermodynamics.,Allerbring EB, Duru AD, Uchtenhagen H, Madhurantakam C, Tomek MB, Grimm S, Mazumdar PA, Friemann R, Uhlin M, Sandalova T, Nygren PA, Achour A Eur J Immunol. 2012 Nov;42(11):2990-3000. doi: 10.1002/eji.201242588. Epub 2012, Sep 20. PMID:22837158<ref>PMID:22837158</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 3quk" style="background-color:#fffaf0;"></div>~~	+

	==See Also==		==See Also==
	*[[Beta-2 microglobulin 3D structures\|Beta-2 microglobulin 3D structures]]		*[[Beta-2 microglobulin 3D structures\|Beta-2 microglobulin 3D structures]]
	*[[MHC 3D structures\|MHC 3D structures]]		*[[MHC 3D structures\|MHC 3D structures]]
-	~~== References ==~~	+	*[[MHC I 3D structures\|MHC I 3D structures]]
-	~~<references/>~~	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Lk3 transgenic mice~~]]	+	[[Category: Mus musculus]]
-	[[Category: Achour, A]]	+	[[Category: Achour A]]
-	[[Category: Allerbring, E]]	+	[[Category: Allerbring E]]
-	[[Category: Duru~~, A D~~]]	+	[[Category: Duru AD]]
-	[[Category: Friemann, R]]	+	[[Category: Friemann R]]
-	[[Category: Grimm, S]]	+	[[Category: Grimm S]]
-	[[Category: Madhurantakam, C]]	+	[[Category: Madhurantakam C]]
-	[[Category: Mazumdar~~, P A~~]]	+	[[Category: Mazumdar PA]]
-	[[Category: Nygren, P]]	+	[[Category: Nygren P]]
-	[[Category: Sandalova, T]]	+	[[Category: Sandalova T]]
-	[[Category: Spetz, A]]	+	[[Category: Spetz A]]
-	[[Category: Tomek~~, M B~~]]	+	[[Category: Tomek MB]]
-	[[Category: Uchtenhagen, H]]	+	[[Category: Uchtenhagen H]]
-	[[Category: Uhlin, M]]	+	[[Category: Uhlin M]]
-	~~[[Category: Beta2-microglobulin]]~~	+
-	~~[[Category: Cell surface]]~~	+
-	~~[[Category: Immune system]]~~	+
-	~~[[Category: Lcmv]]~~	+
-	~~[[Category: Murine mhc]]~~	+
-	~~[[Category: Receptor binding]]~~	+
-	~~[[Category: T cell receptor]]~~	+
-	~~[[Category: T cell recognition~~]]	+

OCA at 05:36, 15 June 2022

OCA — Wed, 15 Jun 2022 05:36:47 GMT

←Older revision		Revision as of 05:36, 15 June 2022
Line 1:		Line 1:

	==Crystal structures of the murine class I major histocompatibility complex H-2Db in complex with LCMV-derived gp33 altered peptide ligand (Y4A)==		==Crystal structures of the murine class I major histocompatibility complex H-2Db in complex with LCMV-derived gp33 altered peptide ligand (Y4A)==
-	<StructureSection load='3quk' size='340' side='right' caption='[[3quk]], [[Resolution\|resolution]] 2.41Å' scene=''>	+	<StructureSection load='3quk' size='340' side='right'caption='[[3quk]], [[Resolution\|resolution]] 2.41Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3quk]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QUK OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3QUK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3quk]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QUK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3QUK FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s7u\|1s7u]], [[1s7v\|1s7v]], [[1s7w\|1s7w]], [[1s7x\|1s7x]], [[3qul\|3qul]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1s7u\|1s7u]], [[1s7v\|1s7v]], [[1s7w\|1s7w]], [[1s7x\|1s7x]], [[3qul\|3qul]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">H2-D1 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice]), B2m ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">H2-D1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice]), B2m ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</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=3quk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3quk OCA], [~~http~~://pdbe.org/3quk PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3quk RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3quk PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3quk 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=3quk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3quk OCA], [https://pdbe.org/3quk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3quk RCSB], [https://www.ebi.ac.uk/pdbsum/3quk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3quk ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/HA11_MOUSE HA11_MOUSE]] Involved in the presentation of foreign antigens to the immune system. [[~~http~~://www.uniprot.org/uniprot/GLYC_LYCVW GLYC_LYCVW]] The stable signal peptide (SSP) is cleaved and functions as a signal peptide. In addition, it is apparently retained as the third component of the GP complex. The SSP is required for efficient glycoprotein expression, post-translational maturation cleavage of GP1 and GP2, glycoprotein transport to the cell surface plasma membrane, formation of infectious virus particles, and acid pH-dependent glycoprotein-mediated cell fusion (By similarity). Glycoprotein G1 mediates virus attachment to host receptor alpha-dystroglycan DAG1. This attachment induces virion internalization predominantly through clathrin- and caveolin-independent endocytosis (By similarity). Glycoprotein G2 is a viral fusion protein. Membrane fusion is mediated by conformational changes induced upon acidification in the endosome (Potential). [[~~http~~://www.uniprot.org/uniprot/B2MG_MOUSE B2MG_MOUSE]] Component of the class I major histocompatibility complex (MHC). Involved in the presentation of peptide antigens to the immune system.	+	[[https://www.uniprot.org/uniprot/HA11_MOUSE HA11_MOUSE]] Involved in the presentation of foreign antigens to the immune system. [[https://www.uniprot.org/uniprot/GLYC_LYCVW GLYC_LYCVW]] The stable signal peptide (SSP) is cleaved and functions as a signal peptide. In addition, it is apparently retained as the third component of the GP complex. The SSP is required for efficient glycoprotein expression, post-translational maturation cleavage of GP1 and GP2, glycoprotein transport to the cell surface plasma membrane, formation of infectious virus particles, and acid pH-dependent glycoprotein-mediated cell fusion (By similarity). Glycoprotein G1 mediates virus attachment to host receptor alpha-dystroglycan DAG1. This attachment induces virion internalization predominantly through clathrin- and caveolin-independent endocytosis (By similarity). Glycoprotein G2 is a viral fusion protein. Membrane fusion is mediated by conformational changes induced upon acidification in the endosome (Potential). [[https://www.uniprot.org/uniprot/B2MG_MOUSE B2MG_MOUSE]] Component of the class I major histocompatibility complex (MHC). Involved in the presentation of peptide antigens to the immune system.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 21:

	==See Also==		==See Also==
-	*[[Beta-2 microglobulin\|Beta-2 microglobulin]]	+	*[[Beta-2 microglobulin 3D structures\|Beta-2 microglobulin 3D structures]]
-	*[[~~Major histocompatibility complex~~\|~~Major histocompatibility complex~~]]	+	*[[MHC 3D structures\|MHC 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Lk3 transgenic mice]]		[[Category: Lk3 transgenic mice]]
	[[Category: Achour, A]]		[[Category: Achour, A]]

OCA at 05:43, 8 March 2018

OCA — Thu, 08 Mar 2018 05:43:31 GMT

←Older revision		Revision as of 05:43, 8 March 2018
Line 3:		Line 3:
	<StructureSection load='3quk' size='340' side='right' caption='[[3quk]], [[Resolution\|resolution]] 2.41Å' scene=''>		<StructureSection load='3quk' size='340' side='right' caption='[[3quk]], [[Resolution\|resolution]] 2.41Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3quk]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QUK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QUK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3quk]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QUK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QUK FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s7u\|1s7u]], [[1s7v\|1s7v]], [[1s7w\|1s7w]], [[1s7x\|1s7x]], [[3qul\|3qul]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s7u\|1s7u]], [[1s7v\|1s7v]], [[1s7w\|1s7w]], [[1s7x\|1s7x]], [[3qul\|3qul]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">H2-D1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice]), B2m ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</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=3quk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3quk OCA], [http://pdbe.org/3quk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3quk RCSB], [http://www.ebi.ac.uk/pdbsum/3quk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3quk 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=3quk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3quk OCA], [http://pdbe.org/3quk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3quk RCSB], [http://www.ebi.ac.uk/pdbsum/3quk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3quk ProSAT]</span></td></tr>
	</table>		</table>
Line 26:		Line 27:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Lk3 transgenic mice]]
	[[Category: Achour, A]]		[[Category: Achour, A]]
	[[Category: Allerbring, E]]		[[Category: Allerbring, E]]

OCA at 04:55, 12 April 2017

OCA — Wed, 12 Apr 2017 04:55:25 GMT

←Older revision		Revision as of 04:55, 12 April 2017
Line 3:		Line 3:
	<StructureSection load='3quk' size='340' side='right' caption='[[3quk]], [[Resolution\|resolution]] 2.41Å' scene=''>		<StructureSection load='3quk' size='340' side='right' caption='[[3quk]], [[Resolution\|resolution]] 2.41Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3quk]] is a 6 chain structure ~~with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QUK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QUK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3quk]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QUK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QUK FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s7u\|1s7u]], [[1s7v\|1s7v]], [[1s7w\|1s7w]], [[1s7x\|1s7x]], [[3qul\|3qul]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s7u\|1s7u]], [[1s7v\|1s7v]], [[1s7w\|1s7w]], [[1s7x\|1s7x]], [[3qul\|3qul]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">H2-D1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice]), B2m ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</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=3quk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3quk OCA], [http://pdbe.org/3quk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3quk RCSB], [http://www.ebi.ac.uk/pdbsum/3quk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3quk 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=3quk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3quk OCA], [http://pdbe.org/3quk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3quk RCSB], [http://www.ebi.ac.uk/pdbsum/3quk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3quk ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/HA11_MOUSE HA11_MOUSE]] Involved in the presentation of foreign antigens to the immune system. [[http://www.uniprot.org/uniprot/GLYC_LYCVW GLYC_LYCVW]] The stable signal peptide (SSP) is cleaved and functions as a signal peptide. In addition, it is apparently retained as the third component of the GP complex. The SSP is required for efficient glycoprotein expression, post-translational maturation cleavage of GP1 and GP2, glycoprotein transport to the cell surface plasma membrane, formation of infectious virus particles, and acid pH-dependent glycoprotein-mediated cell fusion (By similarity). Glycoprotein G1 mediates virus attachment to host receptor alpha-dystroglycan DAG1. This attachment induces virion internalization predominantly through clathrin- and caveolin-independent endocytosis (By similarity). Glycoprotein G2 is a viral fusion protein. Membrane fusion is mediated by conformational changes induced upon acidification in the endosome (Potential). [[http://www.uniprot.org/uniprot/B2MG_MOUSE B2MG_MOUSE]] Component of the class I major histocompatibility complex (MHC). Involved in the presentation of peptide antigens to the immune system.		[[http://www.uniprot.org/uniprot/HA11_MOUSE HA11_MOUSE]] Involved in the presentation of foreign antigens to the immune system. [[http://www.uniprot.org/uniprot/GLYC_LYCVW GLYC_LYCVW]] The stable signal peptide (SSP) is cleaved and functions as a signal peptide. In addition, it is apparently retained as the third component of the GP complex. The SSP is required for efficient glycoprotein expression, post-translational maturation cleavage of GP1 and GP2, glycoprotein transport to the cell surface plasma membrane, formation of infectious virus particles, and acid pH-dependent glycoprotein-mediated cell fusion (By similarity). Glycoprotein G1 mediates virus attachment to host receptor alpha-dystroglycan DAG1. This attachment induces virion internalization predominantly through clathrin- and caveolin-independent endocytosis (By similarity). Glycoprotein G2 is a viral fusion protein. Membrane fusion is mediated by conformational changes induced upon acidification in the endosome (Potential). [[http://www.uniprot.org/uniprot/B2MG_MOUSE B2MG_MOUSE]] Component of the class I major histocompatibility complex (MHC). Involved in the presentation of peptide antigens to the immune system.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The molecular basis underlying T-cell recognition of MHC molecules presenting altered peptide ligands is still not well-established. A hierarchy of T-cell activation by MHC class I-restricted altered peptide ligands has been defined using the T-cell receptor P14 specific for H-2D(b) in complex with the immunodominant lymphocytic choriomeningitis virus peptide gp33 (KAVYNFATM). While substitution of tyrosine to phenylalanine (Y4F) or serine (Y4S) abolished recognition by P14, the TCR unexpectedly recognized H-2D(b) in complex with the alanine-substituted semiagonist Y4A, which displayed the most significant structural modification. The observed functional hierarchy gp33 > Y4A > Y4S = Y4F was neither due to higher stabilization capacity nor to differences in structural conformation. However, thermodynamic analysis demonstrated that while recognition of the full agonist H-2D(b) /gp33 was strictly enthalpy driven, recognition of the weak agonist H-2D(b) /Y4A was instead entropy driven with a large reduction in the favorable enthalpy term. The fourfold larger negative heat capacity derived for the interaction of P14 with H-2D(b) /gp33 compared with H-2D(b) /Y4A can possibly be explained by higher water entrapment at the TCR/MHC interface, which is also consistent with the measured opposite entropy contributions for the interactions of P14 with both MHCs. In conclusion, this study demonstrates that P14 makes use of different strategies to adapt to structural modifications in the MHC/peptide complex.
		+
		+	Unexpected T-cell recognition of an altered peptide ligand is driven by reversed thermodynamics.,Allerbring EB, Duru AD, Uchtenhagen H, Madhurantakam C, Tomek MB, Grimm S, Mazumdar PA, Friemann R, Uhlin M, Sandalova T, Nygren PA, Achour A Eur J Immunol. 2012 Nov;42(11):2990-3000. doi: 10.1002/eji.201242588. Epub 2012, Sep 20. PMID:22837158<ref>PMID:22837158</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 3quk" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Beta-2 microglobulin\|Beta-2 microglobulin]]		*[[Beta-2 microglobulin\|Beta-2 microglobulin]]
	*[[Major histocompatibility complex\|Major histocompatibility complex]]		*[[Major histocompatibility complex\|Major histocompatibility complex]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Lk3 transgenic mice]]
	[[Category: Achour, A]]		[[Category: Achour, A]]
	[[Category: Allerbring, E]]		[[Category: Allerbring, E]]

OCA at 13:25, 4 August 2016

OCA — Thu, 04 Aug 2016 13:25:54 GMT

←Older revision		Revision as of 13:25, 4 August 2016
Line 1:		Line 1:
		+
	==Crystal structures of the murine class I major histocompatibility complex H-2Db in complex with LCMV-derived gp33 altered peptide ligand (Y4A)==		==Crystal structures of the murine class I major histocompatibility complex H-2Db in complex with LCMV-derived gp33 altered peptide ligand (Y4A)==
	<StructureSection load='3quk' size='340' side='right' caption='[[3quk]], [[Resolution\|resolution]] 2.41Å' scene=''>		<StructureSection load='3quk' size='340' side='right' caption='[[3quk]], [[Resolution\|resolution]] 2.41Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3quk]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Mus_musculus Mus musculus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QUK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QUK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3quk]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QUK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QUK FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s7u\|1s7u]], [[1s7v\|1s7v]], [[1s7w\|1s7w]], [[1s7x\|1s7x]], [[3qul\|3qul]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s7u\|1s7u]], [[1s7v\|1s7v]], [[1s7w\|1s7w]], [[1s7x\|1s7x]], [[3qul\|3qul]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">H2-D1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 ~~Mus musculus~~]), B2m ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 ~~Mus musculus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">H2-D1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice]), B2m ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</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=3quk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3quk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3quk RCSB], [http://www.ebi.ac.uk/pdbsum/3quk 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=3quk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3quk OCA], [http://pdbe.org/3quk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3quk RCSB], [http://www.ebi.ac.uk/pdbsum/3quk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3quk ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 15:		Line 16:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Mus musculus~~]]	+	[[Category: Lk3 transgenic mice]]
	[[Category: Achour, A]]		[[Category: Achour, A]]
	[[Category: Allerbring, E]]		[[Category: Allerbring, E]]

OCA at 15:01, 24 December 2014

OCA — Wed, 24 Dec 2014 15:01:36 GMT

←Older revision		Revision as of 15:01, 24 December 2014
Line 1:		Line 1:
-	~~[[Image:3quk.png\|left\|200px]]~~	+	==Crystal structures of the murine class I major histocompatibility complex H-2Db in complex with LCMV-derived gp33 altered peptide ligand (Y4A)==
-		+	<StructureSection load='3quk' size='340' side='right' caption='[[3quk]], [[Resolution\|resolution]] 2.41Å' scene=''>
-	~~{{STRUCTURE_3quk\| PDB=3quk \| SCENE= }}~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[3quk]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QUK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3QUK FirstGlance]. <br>
-	===Crystal structures of the murine class I major histocompatibility complex H-2Db in complex with LCMV-derived gp33 altered peptide ligand (Y4A)===	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s7u\|1s7u]], [[1s7v\|1s7v]], [[1s7w\|1s7w]], [[1s7x\|1s7x]], [[3qul\|3qul]]</td></tr>
-		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">H2-D1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus]), B2m ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])</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=3quk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3quk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3quk RCSB], [http://www.ebi.ac.uk/pdbsum/3quk PDBsum]</span></td></tr>
-	==~~About this Structure~~==	+	</table>
-	[[3quk]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QUK OCA].	+	== Function ==
		+	[[http://www.uniprot.org/uniprot/HA11_MOUSE HA11_MOUSE]] Involved in the presentation of foreign antigens to the immune system. [[http://www.uniprot.org/uniprot/GLYC_LYCVW GLYC_LYCVW]] The stable signal peptide (SSP) is cleaved and functions as a signal peptide. In addition, it is apparently retained as the third component of the GP complex. The SSP is required for efficient glycoprotein expression, post-translational maturation cleavage of GP1 and GP2, glycoprotein transport to the cell surface plasma membrane, formation of infectious virus particles, and acid pH-dependent glycoprotein-mediated cell fusion (By similarity). Glycoprotein G1 mediates virus attachment to host receptor alpha-dystroglycan DAG1. This attachment induces virion internalization predominantly through clathrin- and caveolin-independent endocytosis (By similarity). Glycoprotein G2 is a viral fusion protein. Membrane fusion is mediated by conformational changes induced upon acidification in the endosome (Potential). [[http://www.uniprot.org/uniprot/B2MG_MOUSE B2MG_MOUSE]] Component of the class I major histocompatibility complex (MHC). Involved in the presentation of peptide antigens to the immune system.

	==See Also==		==See Also==
	*[[Beta-2 microglobulin\|Beta-2 microglobulin]]		*[[Beta-2 microglobulin\|Beta-2 microglobulin]]
	*[[Major histocompatibility complex\|Major histocompatibility complex]]		*[[Major histocompatibility complex\|Major histocompatibility complex]]
		+	__TOC__
		+	</StructureSection>
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
-	[[Category: Achour, A.]]	+	[[Category: Achour, A]]
-	[[Category: Allerbring, E.]]	+	[[Category: Allerbring, E]]
-	[[Category: Duru, A D.]]	+	[[Category: Duru, A D]]
-	[[Category: Friemann, R.]]	+	[[Category: Friemann, R]]
-	[[Category: Grimm, S.]]	+	[[Category: Grimm, S]]
-	[[Category: Madhurantakam, C.]]	+	[[Category: Madhurantakam, C]]
-	[[Category: Mazumdar, P A.]]	+	[[Category: Mazumdar, P A]]
-	[[Category: Nygren, P.]]	+	[[Category: Nygren, P]]
	[[Category: Sandalova, T]]		[[Category: Sandalova, T]]
-	[[Category: Spetz, A.]]	+	[[Category: Spetz, A]]
-	[[Category: Tomek, M B.]]	+	[[Category: Tomek, M B]]
-	[[Category: Uchtenhagen, H.]]	+	[[Category: Uchtenhagen, H]]
-	[[Category: Uhlin, M.]]	+	[[Category: Uhlin, M]]
	[[Category: Beta2-microglobulin]]		[[Category: Beta2-microglobulin]]
	[[Category: Cell surface]]		[[Category: Cell surface]]

OCA at 06:37, 20 October 2012

OCA — Sat, 20 Oct 2012 06:37:03 GMT

←Older revision		Revision as of 06:37, 20 October 2012
Line 7:		Line 7:

	==About this Structure==		==About this Structure==
-	[[3quk]] is a 6 chain structure ~~of [[Beta-2 microglobulin]] and [[Major histocompatibility complex]]~~ with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QUK OCA].	+	[[3quk]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QUK OCA].

	==See Also==		==See Also==

OCA at 13:44, 25 July 2012

OCA — Wed, 25 Jul 2012 13:44:56 GMT

←Older revision		Revision as of 13:44, 25 July 2012
Line 1:		Line 1:
-	[[Image:3quk.~~jpg~~\|left\|200px]]	+	[[Image:3quk.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3quk", 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_3quk\| PDB=3quk \| SCENE= }}		{{STRUCTURE_3quk\| PDB=3quk \| SCENE= }}

Line 13:		Line 7:

	==About this Structure==		==About this Structure==
-	[[3quk]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QUK OCA].	+	[[3quk]] is a 6 chain structure of [[Beta-2 microglobulin]] and [[Major histocompatibility complex]] with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QUK OCA].
		+
		+	==See Also==
		+	*[[Beta-2 microglobulin\|Beta-2 microglobulin]]
		+	*[[Major histocompatibility complex\|Major histocompatibility complex]]
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
	[[Category: Achour, A.]]		[[Category: Achour, A.]]

OCA at 07:42, 21 March 2012

OCA — Wed, 21 Mar 2012 07:42:51 GMT

←Older revision		Revision as of 07:42, 21 March 2012
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3quk.jpg\|left\|200px]]

-	The ~~entry 3quk~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3quk", 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_3quk\| PDB=3quk \| SCENE= }}

-	~~Authors: Allerbring, E., Duru, A.D., Uchtenhagen,~~ H~~., Madhurantakam, C., Grimm, S., Tomek, M.B., Mazumdar, P.A., Spetz, A., Friemann, R., Sandalova, T, Uhlin, M., Nygren, P., Achour, A.~~	+	===Crystal structures of the murine class I major histocompatibility complex H-2Db in complex with LCMV-derived gp33 altered peptide ligand (Y4A)===

-	~~Description~~: ~~Crystal structures of the murine class I major histocompatibility complex~~ H-~~2Db in complex with LCMV-derived gp33 altered peptide ligand (Y4A)~~	+
		+	==About this Structure==
		+	[[3quk]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QUK OCA].
		+	[[Category: Mus musculus]]
		+	[[Category: Achour, A.]]
		+	[[Category: Allerbring, E.]]
		+	[[Category: Duru, A D.]]
		+	[[Category: Friemann, R.]]
		+	[[Category: Grimm, S.]]
		+	[[Category: Madhurantakam, C.]]
		+	[[Category: Mazumdar, P A.]]
		+	[[Category: Nygren, P.]]
		+	[[Category: Sandalova, T]]
		+	[[Category: Spetz, A.]]
		+	[[Category: Tomek, M B.]]
		+	[[Category: Uchtenhagen, H.]]
		+	[[Category: Uhlin, M.]]
		+	[[Category: Beta2-microglobulin]]
		+	[[Category: Cell surface]]
		+	[[Category: Immune system]]
		+	[[Category: Lcmv]]
		+	[[Category: Murine mhc]]
		+	[[Category: Receptor binding]]
		+	[[Category: T cell receptor]]
		+	[[Category: T cell recognition]]

OCA at 08:04, 16 March 2011

OCA — Wed, 16 Mar 2011 08:04:03 GMT

←Older revision		Revision as of 08:04, 16 March 2011
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3quk is ON HOLD	+	The entry 3quk is ON HOLD until Paper Publication

	Authors: Allerbring, E., Duru, A.D., Uchtenhagen, H., Madhurantakam, C., Grimm, S., Tomek, M.B., Mazumdar, P.A., Spetz, A., Friemann, R., Sandalova, T, Uhlin, M., Nygren, P., Achour, A.		Authors: Allerbring, E., Duru, A.D., Uchtenhagen, H., Madhurantakam, C., Grimm, S., Tomek, M.B., Mazumdar, P.A., Spetz, A., Friemann, R., Sandalova, T, Uhlin, M., Nygren, P., Achour, A.

	Description: Crystal structures of the murine class I major histocompatibility complex H-2Db in complex with LCMV-derived gp33 altered peptide ligand (Y4A)		Description: Crystal structures of the murine class I major histocompatibility complex H-2Db in complex with LCMV-derived gp33 altered peptide ligand (Y4A)