5gsx - Revision history

OCA at 11:41, 2 August 2023

2023-08-02T11:41:26Z

←Older revision		Revision as of 11:41, 2 August 2023
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	==Mouse MHC class I H-2Kd with a MERS-CoV-derived peptide 142-2==		==Mouse MHC class I H-2Kd with a MERS-CoV-derived peptide 142-2==
-	<StructureSection load='5gsx' size='340' side='right' caption='[[5gsx]], [[Resolution\|resolution]] 2.50Å' scene=''>	+	<StructureSection load='5gsx' size='340' side='right'caption='[[5gsx]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5gsx]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~] and [~~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=5GSX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5GSX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5gsx]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens], [https://en.wikipedia.org/wiki/Middle_East_respiratory_syndrome-related_coronavirus Middle East respiratory syndrome-related coronavirus] 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=5GSX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5GSX FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[5gsr\|5gsr]], [[5gsv\|5gsv]]</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]] 2.5Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">H2-K1, H2-K ([http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=~~5&~~id=10090 LK3 transgenic mice]), B2M, CDABP0092, HDCMA22P ([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'>[https://proteopedia.org/fgij/fg.htm?mol=5gsx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gsx OCA], [https://pdbe.org/5gsx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5gsx RCSB], [https://www.ebi.ac.uk/pdbsum/5gsx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5gsx 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=5gsx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gsx OCA], [~~http~~://pdbe.org/5gsx PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5gsx RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5gsx PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5gsx ProSAT]</span></td></tr>	+
	</table>		</table>
-	== Disease ==
-	[[http://www.uniprot.org/uniprot/B2MG_HUMAN B2MG_HUMAN]] Defects in B2M are the cause of hypercatabolic hypoproteinemia (HYCATHYP) [MIM:[http://omim.org/entry/241600 241600]]. Affected individuals show marked reduction in serum concentrations of immunoglobulin and albumin, probably due to rapid degradation.<ref>PMID:16549777</ref> Note=Beta-2-microglobulin may adopt the fibrillar configuration of amyloid in certain pathologic states. The capacity to assemble into amyloid fibrils is concentration dependent. Persistently high beta(2)-microglobulin serum levels lead to amyloidosis in patients on long-term hemodialysis.<ref>PMID:3532124</ref> <ref>PMID:1336137</ref> <ref>PMID:7554280</ref> <ref>PMID:4586824</ref> <ref>PMID:8084451</ref> <ref>PMID:12119416</ref> <ref>PMID:12796775</ref> <ref>PMID:16901902</ref> <ref>PMID:16491088</ref> <ref>PMID:17646174</ref> <ref>PMID:18835253</ref> <ref>PMID:18395224</ref> <ref>PMID:19284997</ref>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/HA1D_MOUSE HA1D_MOUSE]] Involved in the presentation of foreign ~~antigens to the immune system. [[http://www.uniprot.org/uniprot/B2MG_HUMAN B2MG_HUMAN]] 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/HA1D_MOUSE HA1D_MOUSE] Involved in the presentation of foreign 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 18:
	</div>		</div>
	<div class="pdbe-citations 5gsx" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5gsx" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Beta-2 microglobulin 3D structures\|Beta-2 microglobulin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
-	[[Category: ~~Lk3 transgenic mice~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Chai, Y~~]]	+	[[Category: Middle East respiratory syndrome-related coronavirus]]
-	[[Category: ~~Gao, G F~~]]	+	[[Category: Mus musculus]]
-	[[Category: ~~Liu, K~~]]	+	[[Category: Chai Y]]
-	[[Category: ~~Liu, W J~~]]	+	[[Category: Gao GF]]
-	[[Category: ~~Qi, J~~]]	+	[[Category: Liu K]]
-	[[Category: ~~Tan, W~~]]	+	[[Category: Liu WJ]]
-	[[Category: ~~H-2kd~~]]	+	[[Category: Qi J]]
-	[[Category: ~~Immune system]]~~	+	[[Category: Tan W]]
-	~~[[Category: Mers-cov]]~~	+
-	~~[[Category: Mourse]]~~	+
-	~~[[Category: T-cell~~]]	+

OCA at 10:40, 16 November 2017

2017-11-16T10:40:35Z

←Older revision		Revision as of 10:40, 16 November 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5gsx is ~~ON HOLD~~	+	==Mouse MHC class I H-2Kd with a MERS-CoV-derived peptide 142-2==
		+	<StructureSection load='5gsx' size='340' side='right' caption='[[5gsx]], [[Resolution\|resolution]] 2.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5gsx]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human] and [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=5GSX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5GSX FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5gsr\|5gsr]], [[5gsv\|5gsv]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">H2-K1, H2-K ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice]), B2M, CDABP0092, HDCMA22P ([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=5gsx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gsx OCA], [http://pdbe.org/5gsx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gsx RCSB], [http://www.ebi.ac.uk/pdbsum/5gsx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gsx ProSAT]</span></td></tr>
		+	</table>
		+	== Disease ==
		+	[[http://www.uniprot.org/uniprot/B2MG_HUMAN B2MG_HUMAN]] Defects in B2M are the cause of hypercatabolic hypoproteinemia (HYCATHYP) [MIM:[http://omim.org/entry/241600 241600]]. Affected individuals show marked reduction in serum concentrations of immunoglobulin and albumin, probably due to rapid degradation.<ref>PMID:16549777</ref> Note=Beta-2-microglobulin may adopt the fibrillar configuration of amyloid in certain pathologic states. The capacity to assemble into amyloid fibrils is concentration dependent. Persistently high beta(2)-microglobulin serum levels lead to amyloidosis in patients on long-term hemodialysis.<ref>PMID:3532124</ref> <ref>PMID:1336137</ref> <ref>PMID:7554280</ref> <ref>PMID:4586824</ref> <ref>PMID:8084451</ref> <ref>PMID:12119416</ref> <ref>PMID:12796775</ref> <ref>PMID:16901902</ref> <ref>PMID:16491088</ref> <ref>PMID:17646174</ref> <ref>PMID:18835253</ref> <ref>PMID:18395224</ref> <ref>PMID:19284997</ref>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/HA1D_MOUSE HA1D_MOUSE]] Involved in the presentation of foreign antigens to the immune system. [[http://www.uniprot.org/uniprot/B2MG_HUMAN B2MG_HUMAN]] 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 coordinated recognition of virus-derived T cell epitopes and MHC molecules by T cells plays a pivotal role in cellular immunity-mediated virus clearance. It has been demonstrated that the conformation of MHC class I (MHC I) molecules can be adjusted by the presented peptide, which impacts T cell activation. However, it is still largely unknown whether the conformational shift of MHC I influences the protective effect of virus-specific T cells. In this study, utilizing the Middle East respiratory syndrome coronavirus-infected mouse model, we observed that through the unusual secondary anchor Ile5, a CD8+ T cell epitope drove the conformational fit of Trp73 on the alpha1 helix of murine MHC I H-2Kd In vitro renaturation and circular dichroism assays indicated that this shift of the structure did not influence the peptide/MHC I binding affinity. Nevertheless, the T cell recognition and the protective effect of the peptide diminished when we made an Ile to Ala mutation at position 5 of the original peptide. The molecular bases of the concordant recognition of T cell epitopes and host MHC-dependent protection were demonstrated through both crystal structure determination and tetramer staining using the peptide-MHC complex. Our results indicate a coordinated MHC I/peptide interaction mechanism and provide a beneficial reference for T cell-oriented vaccine development against emerging viruses such as Middle East respiratory syndrome coronavirus.

-	~~Authors:~~ Liu, K., ~~Chai~~, Y., Qi, J., ~~Tan~~, W., ~~Liu~~, W.J.~~, Gao, G~~.F.	+	Protective T Cell Responses Featured by Concordant Recognition of Middle East Respiratory Syndrome Coronavirus-Derived CD8+ T Cell Epitopes and Host MHC.,Liu WJ, Lan J, Liu K, Deng Y, Yao Y, Wu S, Chen H, Bao L, Zhang H, Zhao M, Wang Q, Han L, Chai Y, Qi J, Zhao J, Meng S, Qin C, Gao GF, Tan W J Immunol. 2017 Jan 15;198(2):873-882. doi: 10.4049/jimmunol.1601542. Epub 2016, Nov 30. PMID:27903740<ref>PMID:27903740</ref>

-	~~Description: Mouse MHC~~ class ~~I H~~-~~2Kd with a MERS~~-~~CoV-derived peptide 142-2~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: ~~Liu, W.J~~]]	+	<div class="pdbe-citations 5gsx" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Gao, G.F~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Human]]
		+	[[Category: Lk3 transgenic mice]]
	[[Category: Chai, Y]]		[[Category: Chai, Y]]
		+	[[Category: Gao, G F]]
	[[Category: Liu, K]]		[[Category: Liu, K]]
-	[[Category: ~~Tan~~, W]]	+	[[Category: Liu, W J]]
	[[Category: Qi, J]]		[[Category: Qi, J]]
		+	[[Category: Tan, W]]
		+	[[Category: H-2kd]]
		+	[[Category: Immune system]]
		+	[[Category: Mers-cov]]
		+	[[Category: Mourse]]
		+	[[Category: T-cell]]

OCA at 09:05, 9 March 2017

2017-03-09T09:05:49Z

←Older revision		Revision as of 09:05, 9 March 2017
Line 7:		Line 7:
	Description: Mouse MHC class I H-2Kd with a MERS-CoV-derived peptide 142-2		Description: Mouse MHC class I H-2Kd with a MERS-CoV-derived peptide 142-2
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Gao, G.F]]
-	[[Category: Tan, W]]
	[[Category: Liu, W.J]]		[[Category: Liu, W.J]]
		+	[[Category: Gao, G.F]]
	[[Category: Chai, Y]]		[[Category: Chai, Y]]
	[[Category: Liu, K]]		[[Category: Liu, K]]
		+	[[Category: Tan, W]]
	[[Category: Qi, J]]		[[Category: Qi, J]]

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

2016-09-09T12:02:16Z

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

←Older revision

Revision as of 12:02, 9 September 2016

OCA: New page: '''Unreleased structure''' The entry 5gsx is ON HOLD Authors: Liu, K., Chai, Y., Qi, J., Tan, W., Liu, W.J., Gao, G.F. Description: Mouse MHC class I H-2Kd with a MERS-CoV-derived pept...

2016-09-09T12:02:15Z

New page: '''Unreleased structure''' The entry 5gsx is ON HOLD Authors: Liu, K., Chai, Y., Qi, J., Tan, W., Liu, W.J., Gao, G.F. Description: Mouse MHC class I H-2Kd with a MERS-CoV-derived pept...

New page

'''Unreleased structure'''

The entry 5gsx is ON HOLD

Authors: Liu, K., Chai, Y., Qi, J., Tan, W., Liu, W.J., Gao, G.F.

Description: Mouse MHC class I H-2Kd with a MERS-CoV-derived peptide 142-2
[[Category: Unreleased Structures]]
[[Category: Gao, G.F]]
[[Category: Tan, W]]
[[Category: Liu, W.J]]
[[Category: Chai, Y]]
[[Category: Liu, K]]
[[Category: Qi, J]]