6ups - Revision history

OCA at 06:52, 14 April 2021

OCA — Wed, 14 Apr 2021 06:52:45 GMT

←Older revision		Revision as of 06:52, 14 April 2021
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	<StructureSection load='6ups' size='340' side='right'caption='[[6ups]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='6ups' size='340' side='right'caption='[[6ups]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ups]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UPS OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6UPS FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ups]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Oriti Oriti]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UPS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6UPS FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</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=6ups FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ups OCA], [~~http~~://pdbe.org/6ups PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6ups RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6ups PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6ups ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">OTT_1962 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=334380 ORITI])</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=6ups FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ups OCA], [https://pdbe.org/6ups PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ups RCSB], [https://www.ebi.ac.uk/pdbsum/6ups PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ups ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Ubiquitin mediated signaling contributes critically to host cell defenses during pathogen infection. Many pathogens manipulate the ubiquitin system to evade these defenses. Here we characterize a likely effector protein bearing a deubiquitylase (DUB) domain from the obligate intracellular bacterium Orientia tsutsugamushi, the causative agent of scrub typhus. The Ulp1-like DUB prefers ubiquitin substrates over ubiquitin-like proteins and efficiently cleaves polyubiquitin chains of three or more ubiquitins. The co-crystal structure of the DUB (OtDUB) domain with ubiquitin revealed three bound ubiquitins: one engages the S1 site, the second binds an S2 site contributing to chain specificity and the third binds a unique ubiquitin-binding domain (UBD). The UBD modulates OtDUB activity, undergoes a pronounced structural transition upon binding ubiquitin, and binds monoubiquitin with an unprecedented ~5 nM dissociation constant. The characterization and high-resolution structure determination of this enzyme should aid in its development as a drug target to counter Orientia infections.
		+
		+	A deubiquitylase with an unusually high-affinity ubiquitin-binding domain from the scrub typhus pathogen Orientia tsutsugamushi.,Berk JM, Lim C, Ronau JA, Chaudhuri A, Chen H, Beckmann JF, Loria JP, Xiong Y, Hochstrasser M Nat Commun. 2020 May 11;11(1):2343. doi: 10.1038/s41467-020-15985-4. PMID:32393759<ref>PMID:32393759</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6ups" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Oriti]]
	[[Category: Lim, C S]]		[[Category: Lim, C S]]
	[[Category: Ronau, J A]]		[[Category: Ronau, J A]]

OCA at 09:22, 1 April 2020

OCA — Wed, 01 Apr 2020 09:22:44 GMT

←Older revision		Revision as of 09:22, 1 April 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6ups is ~~ON HOLD until Paper Publication~~	+	==Crystal structure of the deubiquitylase domain from the Orientia tsutsugamushi protein OTT_1962 (OtDUB)==
-		+	<StructureSection load='6ups' size='340' side='right'caption='[[6ups]], [[Resolution\|resolution]] 2.00Å' scene=''>
-	~~Authors~~: ~~Ronau~~, J.A., ~~Lim~~, C.S., ~~Xiong~~, Y.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6ups]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UPS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6UPS FirstGlance]. <br>
-	~~Description: Crystal structure of the deubiquitylase domain from the Orientia tsutsugamushi protein OTT_1962 (OtDUB)~~	+	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</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=6ups FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ups OCA], [http://pdbe.org/6ups PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ups RCSB], [http://www.ebi.ac.uk/pdbsum/6ups PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ups ProSAT]</span></td></tr>
-	[[Category: Ronau, J.A]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Lim, C S]]
		+	[[Category: Ronau, J A]]
	[[Category: Xiong, Y]]		[[Category: Xiong, Y]]
-	[[Category: ~~Lim, C.S~~]]	+	[[Category: Ce clan]]
		+	[[Category: Deubiquitylase]]
		+	[[Category: Hydrolase]]
		+	[[Category: Orientia]]

OCA at 05:18, 6 November 2019

OCA — Wed, 06 Nov 2019 05:18:00 GMT

←Older revision		Revision as of 05:18, 6 November 2019
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6ups is ON HOLD	+	The entry 6ups is ON HOLD until Paper Publication

	Authors: Ronau, J.A., Lim, C.S., Xiong, Y.		Authors: Ronau, J.A., Lim, C.S., Xiong, Y.
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	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Ronau, J.A]]		[[Category: Ronau, J.A]]
-	[[Category: Lim, C.S]]
	[[Category: Xiong, Y]]		[[Category: Xiong, Y]]
		+	[[Category: Lim, C.S]]

OCA: Protected "6ups" [edit=sysop:move=sysop]

OCA — Wed, 30 Oct 2019 07:38:47 GMT

Protected "6ups" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:38, 30 October 2019

OCA: New page: '''Unreleased structure''' The entry 6ups is ON HOLD Authors: Ronau, J.A., Lim, C.S., Xiong, Y. Description: Crystal structure of the deubiquitylase domain from the Orientia tsutsugamu...

OCA — Wed, 30 Oct 2019 07:38:46 GMT

New page: '''Unreleased structure''' The entry 6ups is ON HOLD Authors: Ronau, J.A., Lim, C.S., Xiong, Y. Description: Crystal structure of the deubiquitylase domain from the Orientia tsutsugamu...

New page

'''Unreleased structure'''

The entry 6ups is ON HOLD

Authors: Ronau, J.A., Lim, C.S., Xiong, Y.

Description: Crystal structure of the deubiquitylase domain from the Orientia tsutsugamushi protein OTT_1962 (OtDUB)
[[Category: Unreleased Structures]]
[[Category: Ronau, J.A]]
[[Category: Lim, C.S]]
[[Category: Xiong, Y]]