4mo7 - Revision history

OCA at 09:57, 28 December 2022

OCA — Wed, 28 Dec 2022 09:57:11 GMT

←Older revision		Revision as of 09:57, 28 December 2022
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	==Crystal structure of superantigen PfiT==		==Crystal structure of superantigen PfiT==
-	<StructureSection load='4mo7' size='340' side='right' caption='[[4mo7]], [[Resolution\|resolution]] 1.70Å' scene=''>	+	<StructureSection load='4mo7' size='340' side='right'caption='[[4mo7]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4mo7]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Pseudomonas_fluorescens_a506~~ Pseudomonas fluorescens ~~a506~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4MO7 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4MO7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4mo7]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_fluorescens_A506 Pseudomonas fluorescens A506]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4MO7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4MO7 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, ~~<scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=CME:S,S-(2-HYDROXYETHYL)THIOCYSTEINE'>CME</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	~~<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=CME:S,S-(2-HYDROXYETHYL)THIOCYSTEINE'>CME</scene><~~/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=4mo7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4mo7 OCA], [https://pdbe.org/4mo7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4mo7 RCSB], [https://www.ebi.ac.uk/pdbsum/4mo7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4mo7 ProSAT]</span></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">pfiT, PflA506_3695 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1037911 Pseudomonas fluorescens A506])~~</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=4mo7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4mo7 OCA], [~~http~~://pdbe.org/4mo7 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4mo7 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4mo7 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4mo7 ProSAT]</span></td></tr>	+
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Pseudomonas fluorescens a506~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Chen, H~~]]	+	[[Category: Pseudomonas fluorescens A506]]
-	[[Category: ~~Li,~~ H M]]	+	[[Category: Chen H]]
-	[[Category: ~~Liu, L H~~]]	+	[[Category: Li HM]]
-	[[Category: ~~Superantigen]]~~	+	[[Category: Liu LH]]
-	~~[[Category: Tetr]]~~	+
-	~~[[Category: Transcription~~]]	+

OCA at 19:04, 5 August 2016

OCA — Fri, 05 Aug 2016 19:04:57 GMT

←Older revision		Revision as of 19:04, 5 August 2016
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		+
	==Crystal structure of superantigen PfiT==		==Crystal structure of superantigen PfiT==
	<StructureSection load='4mo7' size='340' side='right' caption='[[4mo7]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='4mo7' size='340' side='right' caption='[[4mo7]], [[Resolution\|resolution]] 1.70Å' scene=''>
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	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CME:S,S-(2-HYDROXYETHYL)THIOCYSTEINE'>CME</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CME:S,S-(2-HYDROXYETHYL)THIOCYSTEINE'>CME</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pfiT, PflA506_3695 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1037911 Pseudomonas fluorescens A506])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pfiT, PflA506_3695 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1037911 Pseudomonas fluorescens A506])</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=4mo7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4mo7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4mo7 RCSB], [http://www.ebi.ac.uk/pdbsum/4mo7 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=4mo7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4mo7 OCA], [http://pdbe.org/4mo7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4mo7 RCSB], [http://www.ebi.ac.uk/pdbsum/4mo7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4mo7 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	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 4mo7" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 17:15, 21 December 2014

OCA — Sun, 21 Dec 2014 17:15:17 GMT

←Older revision		Revision as of 17:15, 21 December 2014
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-	~~{{STRUCTURE_4mo7\| PDB~~=4mo7 \| ~~SCENE~~= }}	+	==Crystal structure of superantigen PfiT==
-	===~~Crystal~~ structure ~~of superantigen PfiT~~===	+	<StructureSection load='4mo7' size='340' side='right' caption='[[4mo7]], [[Resolution\|resolution]] 1.70Å' scene=''>
-	~~{{ABSTRACT_PUBMED_24385909}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4mo7]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_fluorescens_a506 Pseudomonas fluorescens a506]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4MO7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4MO7 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CME:S,S-(2-HYDROXYETHYL)THIOCYSTEINE'>CME</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pfiT, PflA506_3695 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1037911 Pseudomonas fluorescens A506])</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=4mo7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4mo7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4mo7 RCSB], [http://www.ebi.ac.uk/pdbsum/4mo7 PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	T cell responses to enteric bacteria are important in inflammatory bowel disease. I2, encoded by the pfiT gene of Pseudomonas fluorescens, is a T-cell superantigen associated with human Crohn's disease. Here we report the crystal structure of pfiT at 1.7A resolution and provide a functional analysis of the interaction of pfiT and its homolog, PA2885, with human class II MHC. Both pfiT and PA2885 bound to mammalian cells and stimulated the proliferation of human lymphocytes. This binding was greatly inhibited by anti-class II MHC HLA-DR antibodies, and to a lesser extent, by anti HLA-DQ and DP antibodies, indicating that the binding was class II MHC-specific. GST-pfiT efficiently precipitated both endogenous and in vitro purified recombinant HLA-DR1 molecules, indicating that pfiT directly interacted with HLA-DR1. Competition studies revealed that pfiT and the superantigen Mycoplasma arthritidis mitogen (MAM) competed for binding to HLA-DR, indicating that their binding sites overlap. Structural analyses established that pfiT belongs to the TetR-family of DNA-binding transcription regulators. The distinct structure of pfiT indicates that it represents a new family of T cell superantigens.

-	~~==About this Structure==~~	+	Pfit is a structurally novel Crohn's disease-associated superantigen.,Liu L, Chen H, Brecher MB, Li Z, Wei B, Nandi B, Zhang J, Ling H, Winslow G, Braun J, Li H PLoS Pathog. 2013 Dec;9(12):e1003837. doi: 10.1371/journal.ppat.1003837. Epub, 2013 Dec 26. PMID:24385909<ref>PMID:24385909</ref>
-	~~[[4mo7]]~~ is a ~~1 chain structure~~. ~~Full crystallographic information is available from [http~~:/~~/oca~~.~~weizmann~~.ac.~~il/oca-bin/ocashort?id=4MO7 OCA]~~.	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:024385909</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
-	[[Category: Chen, H.]]	+	== References ==
-	[[Category: Li, H M.]]	+	<references/>
-	[[Category: Liu, L H.]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Pseudomonas fluorescens a506]]
		+	[[Category: Chen, H]]
		+	[[Category: Li, H M]]
		+	[[Category: Liu, L H]]
	[[Category: Superantigen]]		[[Category: Superantigen]]
	[[Category: Tetr]]		[[Category: Tetr]]
	[[Category: Transcription]]		[[Category: Transcription]]

OCA at 11:11, 5 February 2014

OCA — Wed, 05 Feb 2014 11:11:24 GMT

←Older revision		Revision as of 11:11, 5 February 2014
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-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_4mo7\| PDB=4mo7 \| SCENE= }}
		+	===Crystal structure of superantigen PfiT===
		+	{{ABSTRACT_PUBMED_24385909}}

-	~~The entry~~ 4mo7 is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
		+	[[4mo7]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4MO7 OCA].

-	~~Authors~~: ~~Liu, L.H.,~~ Chen, H., Li, H.M.	+	==Reference==
-		+	<ref group="xtra">PMID:024385909</ref><references group="xtra"/><references/>
-	~~Description~~: ~~Crystal structure of superantigen PfiT~~	+	[[Category: Chen, H.]]
		+	[[Category: Li, H M.]]
		+	[[Category: Liu, L H.]]
		+	[[Category: Superantigen]]
		+	[[Category: Tetr]]
		+	[[Category: Transcription]]

OCA at 09:39, 27 November 2013

OCA — Wed, 27 Nov 2013 09:39:19 GMT

←Older revision		Revision as of 09:39, 27 November 2013
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4mo7 is ON HOLD	+	The entry 4mo7 is ON HOLD until Paper Publication

	Authors: Liu, L.H., Chen, H., Li, H.M.		Authors: Liu, L.H., Chen, H., Li, H.M.

	Description: Crystal structure of superantigen PfiT		Description: Crystal structure of superantigen PfiT

OCA: Protected "4mo7" [edit=sysop:move=sysop]

OCA — Fri, 20 Sep 2013 03:44:22 GMT

Protected "4mo7" [edit=sysop:move=sysop]

←Older revision

Revision as of 03:44, 20 September 2013

OCA: New page: '''Unreleased structure''' The entry 4mo7 is ON HOLD Authors: Liu, L.H., Chen, H., Li, H.M. Description: Crystal structure of superantigen PfiT

OCA — Fri, 20 Sep 2013 03:44:21 GMT

New page: '''Unreleased structure''' The entry 4mo7 is ON HOLD Authors: Liu, L.H., Chen, H., Li, H.M. Description: Crystal structure of superantigen PfiT

New page

'''Unreleased structure'''

The entry 4mo7 is ON HOLD

Authors: Liu, L.H., Chen, H., Li, H.M.

Description: Crystal structure of superantigen PfiT