6kju - Revision history

OCA at 10:35, 22 November 2023

OCA — Wed, 22 Nov 2023 10:35:04 GMT

←Older revision		Revision as of 10:35, 22 November 2023
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	<StructureSection load='6kju' size='340' side='right'caption='[[6kju]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='6kju' size='340' side='right'caption='[[6kju]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6kju]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6KJU OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6KJU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6kju]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibrio_cholerae Vibrio cholerae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6KJU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6KJU FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=A1U:3,5-dimethylpyrazin-2-ol'>A1U</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]] 1.75Å</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=6kju FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kju OCA], [~~http~~://pdbe.org/6kju PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6kju RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6kju PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6kju ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A1U:3,5-dimethylpyrazin-2-ol'>A1U</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=6kju FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kju OCA], [https://pdbe.org/6kju PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6kju RCSB], [https://www.ebi.ac.uk/pdbsum/6kju PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6kju ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q9KKM5_VIBCH Q9KKM5_VIBCH]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 6kju" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6kju" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Transcriptional activator 3D structures\|Transcriptional activator 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Guo~~, H J~~]]	+	[[Category: Vibrio cholerae]]
-	[[Category: He~~, J H~~]]	+	[[Category: Guo HJ]]
-	[[Category: Li~~, M J~~]]	+	[[Category: He JH]]
-	[[Category: Wang~~, W W~~]]	+	[[Category: Li MJ]]
-	[[Category: Wu, H]]	+	[[Category: Wang WW]]
-	[[Category: Xu~~, C Y~~]]	+	[[Category: Wu H]]
-	[[Category: Xu, Q]]	+	[[Category: Xu CY]]
-	[[Category: Yu, F]]	+	[[Category: Xu Q]]
-	[[Category: Zhou, H]]	+	[[Category: Yu F]]
-	~~[[Category: Quorum sensing]]~~	+	[[Category: Zhou H]]
-	~~[[Category: Transcription]]~~	+
-	~~[[Category: Transcription regulator]]~~	+
-	~~[[Category: Vibrio cholera~~]]	+

OCA at 11:00, 13 November 2019

OCA — Wed, 13 Nov 2019 11:00:46 GMT

←Older revision		Revision as of 11:00, 13 November 2019
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-	'''Unreleased structure'''

-	~~The entry~~ 6kju is ~~ON HOLD until Jul 23 2021~~	+	==Huge conformation shift of Vibrio cholerae VqmA dimer in the absence of target DNA provides insight into DNA-binding mechanisms of LuxR-type receptors==
		+	<StructureSection load='6kju' size='340' side='right'caption='[[6kju]], [[Resolution\|resolution]] 1.75Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6kju]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6KJU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6KJU FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=A1U:3,5-dimethylpyrazin-2-ol'>A1U</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=6kju FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kju OCA], [http://pdbe.org/6kju PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6kju RCSB], [http://www.ebi.ac.uk/pdbsum/6kju PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6kju ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Quorum sensing regulates the biofilm formation and expression of virulence factors in Vibrio cholerae, an obligate human pathogen that continues to imperil human health. Cytoplasmic transcription factor VqmA is a LuxR-type receptor ubiquitous in the Vibrio genus and one vibriophage VP882 and plays an important role in V. cholerae pathogenicity. Here we presented the X-ray crystal structure of V. cholerae VqmA-DPO complex and compared it with the previously determined VqmA-DPO-DNA complex. To our knowledge, this is the first report on the crystal structures of the same LuxR-type receptor with two conformations of binding to DNA and not binding to DNA. Based on the results of structural analysis and biochemical assays, we revealed the secondary structure of the linker region between two function domains changed significantly, and DNA binding domains were covalently linked by a disulfide bond formed by the highly conserved Cys134. Besides, the distance between two DBD monomers became longer than that in DNA-binding conformation, and two alpha8 helixes underwent a large conformation shift. The results of the structure-function analyses presented here improve our understanding of the complex mechanisms in the conformational changes of LuxR-type receptors caused by DNA binding.

-	~~Authors~~:	+	Large conformation shifts of Vibrio cholerae VqmA dimer in the absence of target DNA provide insight into DNA-binding mechanisms of LuxR-type receptors.,Wu H, Li M, Peng C, Yin Y, Guo H, Wang W, Xu Q, Zhou H, Xu C, Yu F, He J Biochem Biophys Res Commun. 2019 Dec 3;520(2):399-405. doi:, 10.1016/j.bbrc.2019.10.063. Epub 2019 Oct 9. PMID:31606206<ref>PMID:31606206</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6kju" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Guo, H J]]
		+	[[Category: He, J H]]
		+	[[Category: Li, M J]]
		+	[[Category: Wang, W W]]
		+	[[Category: Wu, H]]
		+	[[Category: Xu, C Y]]
		+	[[Category: Xu, Q]]
		+	[[Category: Yu, F]]
		+	[[Category: Zhou, H]]
		+	[[Category: Quorum sensing]]
		+	[[Category: Transcription]]
		+	[[Category: Transcription regulator]]
		+	[[Category: Vibrio cholera]]

OCA at 04:01, 21 August 2019

OCA — Wed, 21 Aug 2019 04:01:16 GMT

←Older revision		Revision as of 04:01, 21 August 2019
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6kju is ON HOLD	+	The entry 6kju is ON HOLD until Jul 23 2021

	Authors:		Authors:

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

OCA — Wed, 31 Jul 2019 04:37:58 GMT

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

←Older revision

Revision as of 04:37, 31 July 2019

OCA: New page: '''Unreleased structure''' The entry 6kju is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 31 Jul 2019 04:37:57 GMT

New page: '''Unreleased structure''' The entry 6kju is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6kju is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]