5lq7 - Revision history

OCA at 18:41, 18 October 2023

OCA — Wed, 18 Oct 2023 18:41:09 GMT

←Older revision		Revision as of 18:41, 18 October 2023
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	<StructureSection load='5lq7' size='340' side='right'caption='[[5lq7]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='5lq7' size='340' side='right'caption='[[5lq7]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5lq7]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5LQ7 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5LQ7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5lq7]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Salmonella_enterica Salmonella enterica]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5LQ7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5LQ7 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></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]] 1.6Å</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=5lq7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5lq7 OCA], [~~http~~://pdbe.org/5lq7 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5lq7 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5lq7 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5lq7 ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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=5lq7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5lq7 OCA], [https://pdbe.org/5lq7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5lq7 RCSB], [https://www.ebi.ac.uk/pdbsum/5lq7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5lq7 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/VSDE_SALTY VSDE_SALTY]] Not known. This protein is involved in the virulence of salmonellas.	+	[https://www.uniprot.org/uniprot/VSDE_SALTY VSDE_SALTY] Not known. This protein is involved in the virulence of salmonellas.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Grabe, G J~~]]	+	[[Category: Salmonella enterica]]
-	[[Category: ~~Hare, S A~~]]	+	[[Category: Grabe GJ]]
-	[[Category: ~~Holden, D W~~]]	+	[[Category: Hare SA]]
-	[[Category: ~~Przydacz, M~~]]	+	[[Category: Holden DW]]
-	[[Category: ~~Effector]]~~	+	[[Category: Przydacz M]]
-	~~[[Category: Immunosuppressant]]~~	+
-	~~[[Category: Signaling protein~~]]	+

OCA at 10:46, 12 August 2020

OCA — Wed, 12 Aug 2020 10:46:32 GMT

←Older revision		Revision as of 10:46, 12 August 2020
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	==Salmonella effector SpvD - G161 variant==		==Salmonella effector SpvD - G161 variant==
-	<StructureSection load='5lq7' size='340' side='right' caption='[[5lq7]], [[Resolution\|resolution]] 1.60Å' scene=''>	+	<StructureSection load='5lq7' size='340' side='right'caption='[[5lq7]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5lq7]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5LQ7 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5LQ7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5lq7]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5LQ7 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5LQ7 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></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=5lq7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5lq7 OCA], [http://pdbe.org/5lq7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5lq7 RCSB], [http://www.ebi.ac.uk/pdbsum/5lq7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5lq7 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=5lq7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5lq7 OCA], [http://pdbe.org/5lq7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5lq7 RCSB], [http://www.ebi.ac.uk/pdbsum/5lq7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5lq7 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Grabe, G J]]		[[Category: Grabe, G J]]
	[[Category: Hare, S A]]		[[Category: Hare, S A]]

OCA at 20:09, 9 December 2016

OCA — Fri, 09 Dec 2016 20:09:15 GMT

←Older revision		Revision as of 20:09, 9 December 2016
Line 9:		Line 9:
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/VSDE_SALTY VSDE_SALTY]] Not known. This protein is involved in the virulence of salmonellas.		[[http://www.uniprot.org/uniprot/VSDE_SALTY VSDE_SALTY]] Not known. This protein is involved in the virulence of salmonellas.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Many bacterial pathogens secrete virulence (effector) proteins that interfere with immune signaling in their host. SpvD is a Salmonella enterica effector protein that we previously demonstrated to negatively regulate the NF-kappaB signaling pathway and promote virulence of S. enterica serovar Typhimurium in mice. To shed light on the mechanistic basis for these observations, we determined the crystal structure of SpvD and show that it adopts a papain-like fold with a characteristic cysteine-histidine-aspartate catalytic triad comprising C73, H162, and D182. SpvD possessed an in vitro deconjugative activity on aminoluciferin-linked peptide and protein substrates in vitro. A C73A mutation abolished SpvD activity, demonstrating that an intact catalytic triad is required for its function. Taken together, these results strongly suggest that SpvD is a cysteine protease. The amino acid sequence of SpvD is highly conserved across different S. enterica serovars, but residue 161, located close to the catalytic triad, is variable, with serovar Typhimurium SpvD having an arginine and serovar Enteritidis a glycine at this position. This variation affected hydrolytic activity of the enzyme on artificial substrates and can be explained by substrate accessibility to the active site. Interestingly, the SpvDG161 variant more potently inhibited NF-kappaB mediated immune responses in cells in vitro and increased virulence of serovar Typhimurium in mice. In summary, our results explain the biochemical basis for the effect of virulence protein SpvD and demonstrate that a single amino acid polymorphism can affect the overall virulence of a bacterial pathogen in its host.
		+
		+	The Salmonella Effector SpvD is a Cysteine Hydrolase with a Serovar-Specific Polymorphism Influencing Catalytic Activity, Suppression of Immune Responses and Bacterial Virulence.,Grabe GJ, Zhang Y, Przydacz M, Rolhion N, Yang Y, Pruneda JN, Komander D, Holden DW, Hare SA J Biol Chem. 2016 Oct 27. pii: jbc.M116.752782. PMID:27789710<ref>PMID:27789710</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5lq7" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 18:31, 2 November 2016

OCA — Wed, 02 Nov 2016 18:31:22 GMT

←Older revision		Revision as of 18:31, 2 November 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5lq7 is ~~ON HOLD~~	+	==Salmonella effector SpvD - G161 variant==
-		+	<StructureSection load='5lq7' size='340' side='right' caption='[[5lq7]], [[Resolution\|resolution]] 1.60Å' scene=''>
-	~~Authors~~: ~~Zhang~~, Y., ~~Przydacz~~, M., ~~Hare~~, S.A.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5lq7]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5LQ7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5LQ7 FirstGlance]. <br>
-	~~Description~~: ~~Bacterial effector G~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<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=5lq7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5lq7 OCA], [http://pdbe.org/5lq7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5lq7 RCSB], [http://www.ebi.ac.uk/pdbsum/5lq7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5lq7 ProSAT]</span></td></tr>
-	[[Category: Hare, S.A]]	+	</table>
-	[[Category: ~~Zhang~~, Y]]	+	== Function ==
		+	[[http://www.uniprot.org/uniprot/VSDE_SALTY VSDE_SALTY]] Not known. This protein is involved in the virulence of salmonellas.
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Grabe, G J]]
		+	[[Category: Hare, S A]]
		+	[[Category: Holden, D W]]
	[[Category: Przydacz, M]]		[[Category: Przydacz, M]]
		+	[[Category: Effector]]
		+	[[Category: Immunosuppressant]]
		+	[[Category: Signaling protein]]

OCA: Protected "5lq7" [edit=sysop:move=sysop]

OCA — Fri, 09 Sep 2016 15:11:00 GMT

Protected "5lq7" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:11, 9 September 2016

OCA: New page: '''Unreleased structure''' The entry 5lq7 is ON HOLD Authors: Zhang, Y., Przydacz, M., Hare, S.A. Description: Bacterial effector G Category: Unreleased Structures [[Category: Hare...

OCA — Fri, 09 Sep 2016 15:10:59 GMT

New page: '''Unreleased structure''' The entry 5lq7 is ON HOLD Authors: Zhang, Y., Przydacz, M., Hare, S.A. Description: Bacterial effector G Category: Unreleased Structures [[Category: Hare...

New page

'''Unreleased structure'''

The entry 5lq7 is ON HOLD

Authors: Zhang, Y., Przydacz, M., Hare, S.A.

Description: Bacterial effector G
[[Category: Unreleased Structures]]
[[Category: Hare, S.A]]
[[Category: Zhang, Y]]
[[Category: Przydacz, M]]