5fk9 - Revision history

OCA at 06:55, 19 July 2023

OCA — Wed, 19 Jul 2023 06:55:07 GMT

←Older revision		Revision as of 06:55, 19 July 2023
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	<StructureSection load='5fk9' size='340' side='right'caption='[[5fk9]], [[Resolution\|resolution]] 3.10Å' scene=''>		<StructureSection load='5fk9' size='340' side='right'caption='[[5fk9]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5fk9]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"micrococcus_aureus"_(rosenbach_1884)_zopf_1885 "micrococcus aureus" (rosenbach 1884) zopf 1885~~] and [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FK9 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5FK9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5fk9]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FK9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5FK9 FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[5fka\|5fka]]</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]] 3.1Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">ENTA ([http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=1280 "Micrococcus aureus" (Rosenbach 1884) Zopf 1885])~~</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=5fk9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fk9 OCA], [https://pdbe.org/5fk9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5fk9 RCSB], [https://www.ebi.ac.uk/pdbsum/5fk9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5fk9 ProSAT]</span></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=5fk9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fk9 OCA], [~~http~~://pdbe.org/5fk9 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5fk9 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5fk9 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5fk9 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Disease ==
		+	[https://www.uniprot.org/uniprot/TRAC_HUMAN TRAC_HUMAN] TCR-alpha-beta-positive T-cell deficiency. The disease is caused by variants affecting the gene represented in this entry.
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~ETXA_STAAU ETXA_STAAU~~]~~] Staphylococcal enterotoxins cause~~ the ~~intoxication staphylococcal food poisoning syndrome~~. The ~~illness~~ is ~~characterized~~ by ~~high fever~~, ~~hypotension~~, ~~diarrhea~~, ~~shock~~, and in ~~some cases death~~.	+	[https://www.uniprot.org/uniprot/TVA22_HUMAN TVA22_HUMAN] V region of the variable domain of T cell receptor (TR) alpha chain that participates in the antigen recognition (PubMed:24600447). Alpha-beta T cell receptors are antigen specific receptors which are essential to the immune response and are present on the cell surface of T lymphocytes. Recognize peptide-major histocompatibility (MH) (pMH) complexes that are displayed by antigen presenting cells (APC), a prerequisite for efficient T cell adaptive immunity against pathogens (PubMed:25493333). Binding of alpha-beta TR to pMH complex initiates TR-CD3 clustering on the cell surface and intracellular activation of LCK that phosphorylates the ITAM motifs of CD3G, CD3D, CD3E and CD247 enabling the recruitment of ZAP70. In turn ZAP70 phosphorylates LAT, which recruits numerous signaling molecules to form the LAT signalosome. The LAT signalosome propagates signal branching to three major signaling pathways, the calcium, the mitogen-activated protein kinase (MAPK) kinase and the nuclear factor NF-kappa-B (NF-kB) pathways, leading to the mobilization of transcription factors that are critical for gene expression and essential for T cell growth and differentiation (PubMed:23524462). The T cell repertoire is generated in the thymus, by V-(D)-J rearrangement. This repertoire is then shaped by intrathymic selection events to generate a peripheral T cell pool of self-MH restricted, non-autoaggressive T cells. Post-thymic interaction of alpha-beta TR with the pMH complexes shapes TR structural and functional avidity (PubMed:15040585).<ref>PMID:15040585</ref> <ref>PMID:23524462</ref> <ref>PMID:24600447</ref> <ref>PMID:25493333</ref> [https://www.uniprot.org/uniprot/TRAC_HUMAN TRAC_HUMAN] Constant region of T cell receptor (TR) alpha chain (PubMed:24600447). Alpha-beta T cell receptors are antigen specific receptors which are essential to the immune response and are present on the cell surface of T lymphocytes. Recognize peptide-major histocompatibility (MH) (pMH) complexes that are displayed by antigen presenting cells (APC), a prerequisite for efficient T cell adaptive immunity against pathogens (PubMed:25493333). Binding of alpha-beta TR to pMH complex initiates TR-CD3 clustering on the cell surface and intracellular activation of LCK that phosphorylates the ITAM motifs of CD3G, CD3D, CD3E and CD247 enabling the recruitment of ZAP70. In turn, ZAP70 phosphorylates LAT, which recruits numerous signaling molecules to form the LAT signalosome. The LAT signalosome propagates signal branching to three major signaling pathways, the calcium, the mitogen-activated protein kinase (MAPK) kinase and the nuclear factor NF-kappa-B (NF-kB) pathways, leading to the mobilization of transcription factors that are critical for gene expression and essential for T cell growth and differentiation (PubMed:23524462). The T cell repertoire is generated in the thymus, by V-(D)-J rearrangement. This repertoire is then shaped by intrathymic selection events to generate a peripheral T cell pool of self-MH restricted, non-autoaggressive T cells. Post-thymic interaction of alpha-beta TR with the pMH complexes shapes TR structural and functional avidity (PubMed:15040585).<ref>PMID:15040585</ref> <ref>PMID:23524462</ref> <ref>PMID:24600447</ref> <ref>PMID:25493333</ref>
	<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: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Lindkvist-Petersson, K~~]]	+	[[Category: Staphylococcus aureus]]
-	[[Category: ~~Regenthal, P]]~~	+	[[Category: Lindkvist-Petersson K]]
-	~~[[Category: Rodstrom,~~ K ~~E.J~~]]	+	[[Category: Regenthal P]]
-	[[Category: ~~Immune system~~]]	+	[[Category: Rodstrom KEJ]]
-	[[Category: ~~Major histocompatibility complex]]~~	+
-	~~[[Category: Staphylcococcal enterotoxin]]~~	+
-	~~[[Category: Superantigen]]~~	+
-	~~[[Category: T cell receptor~~]]	+

OCA at 07:23, 6 May 2020

OCA — Wed, 06 May 2020 07:23:41 GMT

←Older revision		Revision as of 07:23, 6 May 2020
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	==Crystal structure of staphylococcal enterotoxin A F47A mutant in complex with a T cell receptor==		==Crystal structure of staphylococcal enterotoxin A F47A mutant in complex with a T cell receptor==
-	<StructureSection load='5fk9' size='340' side='right' caption='[[5fk9]], [[Resolution\|resolution]] 3.10Å' scene=''>	+	<StructureSection load='5fk9' size='340' side='right'caption='[[5fk9]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5fk9]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FK9 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5FK9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5fk9]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"micrococcus_aureus"_(rosenbach_1884)_zopf_1885 "micrococcus aureus" (rosenbach 1884) zopf 1885] and [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FK9 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5FK9 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5fka\|5fka]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5fka\|5fka]]</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=5fk9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fk9 OCA], [http://pdbe.org/5fk9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fk9 RCSB], [http://www.ebi.ac.uk/pdbsum/5fk9 PDBsum]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ENTA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 "Micrococcus aureus" (Rosenbach 1884) Zopf 1885])</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=5fk9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fk9 OCA], [http://pdbe.org/5fk9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fk9 RCSB], [http://www.ebi.ac.uk/pdbsum/5fk9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5fk9 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	</div>		</div>
	<div class="pdbe-citations 5fk9" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5fk9" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[T-cell receptor 3D structures\|T-cell receptor 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Lindkvist-Petersson, K]]		[[Category: Lindkvist-Petersson, K]]
	[[Category: Regenthal, P]]		[[Category: Regenthal, P]]

OCA at 07:40, 1 June 2016

OCA — Wed, 01 Jun 2016 07:40:00 GMT

←Older revision		Revision as of 07:40, 1 June 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5fk9 is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of staphylococcal enterotoxin A F47A mutant in complex with a T cell receptor==
		+	<StructureSection load='5fk9' size='340' side='right' caption='[[5fk9]], [[Resolution\|resolution]] 3.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5fk9]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FK9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5FK9 FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5fka\|5fka]]</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=5fk9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fk9 OCA], [http://pdbe.org/5fk9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fk9 RCSB], [http://www.ebi.ac.uk/pdbsum/5fk9 PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/ETXA_STAAU ETXA_STAAU]] Staphylococcal enterotoxins cause the intoxication staphylococcal food poisoning syndrome. The illness is characterized by high fever, hypotension, diarrhea, shock, and in some cases death.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Superantigens are toxins produced by Staphylococcus aureus, called staphylococcal enterotoxins (abbreviated SEA to SEU). They can cross-link the T cell receptor (TCR) and major histocompatibility complex class II, triggering a massive T cell activation and hence disease. Due to high stability and toxicity, superantigens are potential agents of bioterrorism. Hence, antagonists may not only be useful in the treatment of disease but also serve as countermeasures to biological warfare. Of particular interest are inhibitors against SEA and SEB. SEA is the main cause of food poisoning, while SEB is a common toxin manufactured as a biological weapon. Here, we present the crystal structures of SEA in complex with TCR and SEE in complex with the same TCR, complemented with computational alanine-scanning mutagenesis of SEA, SEB, SEC3, SEE, and SEH. We have identified two common areas that contribute to the general TCR binding for these superantigens. This paves the way for design of single antagonists directed towards multiple toxins.

-	~~Authors: Rodstrom, K.E.J~~., ~~Regenthal~~, P., Lindkvist-Petersson, K.	+	Two common structural motifs for TCR recognition by staphylococcal enterotoxins.,Rodstrom KE, Regenthal P, Bahl C, Ford A, Baker D, Lindkvist-Petersson K Sci Rep. 2016 May 16;6:25796. doi: 10.1038/srep25796. PMID:27180909<ref>PMID:27180909</ref>

-	~~Description: Crystal structure of staphylococcal enterotoxin A F47A mutant in complex with~~ a ~~T cell receptor~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
		+	<div class="pdbe-citations 5fk9" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Lindkvist-Petersson, K]]		[[Category: Lindkvist-Petersson, K]]
-	[[Category: Rodstrom, K.E.J]]
	[[Category: Regenthal, P]]		[[Category: Regenthal, P]]
		+	[[Category: Rodstrom, K E.J]]
		+	[[Category: Immune system]]
		+	[[Category: Major histocompatibility complex]]
		+	[[Category: Staphylcococcal enterotoxin]]
		+	[[Category: Superantigen]]
		+	[[Category: T cell receptor]]

OCA at 22:59, 10 May 2016

OCA — Tue, 10 May 2016 22:59:10 GMT

←Older revision		Revision as of 22:59, 10 May 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5fk9 is ON HOLD	+	The entry 5fk9 is ON HOLD until Paper Publication

	Authors: Rodstrom, K.E.J., Regenthal, P., Lindkvist-Petersson, K.		Authors: Rodstrom, K.E.J., Regenthal, P., Lindkvist-Petersson, K.

-	Description: Crystal structure of staphylococcal enterotoxin A in complex with a T cell receptor	+	Description: Crystal structure of staphylococcal enterotoxin A F47A mutant in complex with a T cell receptor
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Lindkvist-Petersson, K]]		[[Category: Lindkvist-Petersson, K]]
	[[Category: Rodstrom, K.E.J]]		[[Category: Rodstrom, K.E.J]]
	[[Category: Regenthal, P]]		[[Category: Regenthal, P]]

OCA at 03:30, 1 December 2015

OCA — Tue, 01 Dec 2015 03:30:25 GMT

←Older revision		Revision as of 03:30, 1 December 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5fk9 is ON HOLD ~~until sometime in the future~~	+	The entry 5fk9 is ON HOLD

	Authors: Rodstrom, K.E.J., Regenthal, P., Lindkvist-Petersson, K.		Authors: Rodstrom, K.E.J., Regenthal, P., Lindkvist-Petersson, K.

OCA: Protected "5fk9" [edit=sysop:move=sysop]

OCA — Thu, 22 Oct 2015 04:40:00 GMT

Protected "5fk9" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:40, 22 October 2015

OCA: New page: '''Unreleased structure''' The entry 5fk9 is ON HOLD until sometime in the future Authors: Rodstrom, K.E.J., Regenthal, P., Lindkvist-Petersson, K. Description: Crystal structure of st...

OCA — Thu, 22 Oct 2015 04:39:58 GMT

New page: '''Unreleased structure''' The entry 5fk9 is ON HOLD until sometime in the future Authors: Rodstrom, K.E.J., Regenthal, P., Lindkvist-Petersson, K. Description: Crystal structure of st...

New page

'''Unreleased structure'''

The entry 5fk9 is ON HOLD until sometime in the future

Authors: Rodstrom, K.E.J., Regenthal, P., Lindkvist-Petersson, K.

Description: Crystal structure of staphylococcal enterotoxin A in complex with a T cell receptor
[[Category: Unreleased Structures]]
[[Category: Lindkvist-Petersson, K]]
[[Category: Rodstrom, K.E.J]]
[[Category: Regenthal, P]]