7cua - Revision history

OCA at 16:16, 29 November 2023

OCA — Wed, 29 Nov 2023 16:16:28 GMT

←Older revision		Revision as of 16:16, 29 November 2023
Line 3:		Line 3:
	<StructureSection load='7cua' size='340' side='right'caption='[[7cua]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='7cua' size='340' side='right'caption='[[7cua]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7cua]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Staa8 Staa8~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7CUA OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=7CUA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7cua]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_NCTC_8325 Staphylococcus aureus subsp. aureus NCTC 8325]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7CUA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7CUA FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.8Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~SAOUHSC_02691 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=93061 STAA8])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=7cua FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7cua OCA], [~~http~~://pdbe.org/7cua PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=7cua RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/7cua PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=7cua ProSAT]</span></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=7cua FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7cua OCA], [https://pdbe.org/7cua PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7cua RCSB], [https://www.ebi.ac.uk/pdbsum/7cua PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7cua ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q2G286_STAA8 Q2G286_STAA8]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 24:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Staa8~~]]	+	[[Category: Staphylococcus aureus subsp. aureus NCTC 8325]]
-	[[Category: Xue, L]]	+	[[Category: Xue L]]
-	[[Category: Yue, J]]	+	[[Category: Yue J]]
-	~~[[Category: Microbial rnase]]~~	+
-	~~[[Category: Staphylococcus aureus]]~~	+
-	~~[[Category: Toxin]]~~	+
-	~~[[Category: Toxin-antitoxin]]~~	+
-	~~[[Category: Yoeb~~]]	+

OCA at 08:44, 21 October 2020

OCA — Wed, 21 Oct 2020 08:44:39 GMT

←Older revision		Revision as of 08:44, 21 October 2020
Line 1:		Line 1:

	==The structure of YoeB dimer from Staphylococcus aureus==		==The structure of YoeB dimer from Staphylococcus aureus==
-	<StructureSection load='7cua' size='340' side='right'caption='[[7cua]]' scene=''>	+	<StructureSection load='7cua' size='340' side='right'caption='[[7cua]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7CUA OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=7CUA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7cua]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Staa8 Staa8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7CUA OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=7CUA FirstGlance]. <br>
-	</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=7cua FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7cua OCA], [http://pdbe.org/7cua PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=7cua RCSB], [http://www.ebi.ac.uk/pdbsum/7cua PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=7cua ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SAOUHSC_02691 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=93061 STAA8])</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=7cua FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7cua OCA], [http://pdbe.org/7cua PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=7cua RCSB], [http://www.ebi.ac.uk/pdbsum/7cua PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=7cua ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	YoeB-YefM, the widespread type II toxin-antitoxin (TA) module, binds to its own promoter to autoregulate its transcription: repress or induce transcription under normal or stress conditions, respectively. It remains unclear how YoeB-YefM regulates its transcription depending on the YoeB to YefM TA ratio. We find that YoeB-YefM complex from S.aureus exists as two distinct oligomeric assemblies: heterotetramer (YoeB-YefM2-YoeB) and heterohexamer (YoeB-YefM2-YefM2-YoeB) with low and high DNA-binding affinities, respectively. Structures of the heterotetramer alone and heterohexamer bound to promoter DNA reveals that YefM C-terminal domain undergoes disorder to order transition upon YoeB binding, which allosterically affects the conformation of N-terminal DNA-binding domain. At TA ratio of 1:2, unsaturated binding of YoeB to the C-terminal regions of YefM dimer forms an optimal heterohexamer for DNA binding, and two YefM dimers with N-terminal domains dock into the adjacent major grooves of DNA to specifically recognize the 5'-TTGTACAN6AGTACAA-3' palindromic sequence, resulting in transcriptional repression. In contrast, at TA ratio of 1:1, binding of two additional YoeB molecules onto the heterohexamer induces the completely ordered conformation of YefM and disassembles the heterohexamer into two heterotetramers, which are unable to bind the promoter DNA optimally due to steric clashes, hence derepresses TA operon transcription.
		+
		+	Distinct oligomeric structures of the YoeB-YefM complex provide insights into the conditional cooperativity of type II toxin-antitoxin system.,Xue L, Yue J, Ke J, Khan MH, Wen W, Sun B, Zhu Z, Niu L Nucleic Acids Res. 2020 Aug 26. pii: 5897335. doi: 10.1093/nar/gkaa706. PMID:32845304<ref>PMID:32845304</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7cua" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Xue L]]	+	[[Category: Staa8]]
-	[[Category: Yue J]]	+	[[Category: Xue, L]]
		+	[[Category: Yue, J]]
		+	[[Category: Microbial rnase]]
		+	[[Category: Staphylococcus aureus]]
		+	[[Category: Toxin]]
		+	[[Category: Toxin-antitoxin]]
		+	[[Category: Yoeb]]

OCA at 09:37, 9 September 2020

OCA — Wed, 09 Sep 2020 09:37:35 GMT

←Older revision		Revision as of 09:37, 9 September 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	The ~~entry~~ 7cua ~~is ON HOLD until Paper Publication~~	+	==The structure of YoeB dimer from Staphylococcus aureus==
-		+	<StructureSection load='7cua' size='340' side='right'caption='[[7cua]]' scene=''>
-	~~Authors~~: ~~Yue~~, J., ~~Xue~~, L.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7CUA OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=7CUA FirstGlance]. <br>
-	~~Description: The structure of YoeB dimer from Staphylococcus aureus~~	+	</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=7cua FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7cua OCA], [http://pdbe.org/7cua PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=7cua RCSB], [http://www.ebi.ac.uk/pdbsum/7cua PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=7cua ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: ~~Yue, J~~]]	+	__TOC__
-	[[Category: ~~Xue, L~~]]	+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Xue L]]
		+	[[Category: Yue J]]

OCA: Protected "7cua" [edit=sysop:move=sysop]

OCA — Wed, 02 Sep 2020 05:12:26 GMT

Protected "7cua" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:12, 2 September 2020

OCA: New page: '''Unreleased structure''' The entry 7cua is ON HOLD until Paper Publication Authors: Yue, J., Xue, L. Description: The structure of YoeB dimer from Staphylococcus aureus [[Category: U...

OCA — Wed, 02 Sep 2020 05:12:25 GMT

New page: '''Unreleased structure''' The entry 7cua is ON HOLD until Paper Publication Authors: Yue, J., Xue, L. Description: The structure of YoeB dimer from Staphylococcus aureus [[Category: U...

New page

'''Unreleased structure'''

The entry 7cua is ON HOLD until Paper Publication

Authors: Yue, J., Xue, L.

Description: The structure of YoeB dimer from Staphylococcus aureus
[[Category: Unreleased Structures]]
[[Category: Yue, J]]
[[Category: Xue, L]]