6l8f - Revision history

OCA at 10:53, 22 November 2023

OCA — Wed, 22 Nov 2023 10:53:04 GMT

←Older revision		Revision as of 10:53, 22 November 2023
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-	====	+	==Crystal structure of heterotetrameric complex of YoeB-YefM toxin-antitoxin from Staphylococcus aureus.==
-	<StructureSection load='6l8f' size='340' side='right'caption='[[6l8f]]' scene=''>	+	<StructureSection load='6l8f' size='340' side='right'caption='[[6l8f]], [[Resolution\|resolution]] 2.40Å' 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= OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6l8f]] is a 8 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=6L8F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6L8F 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=6l8f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6l8f OCA], [~~http~~://pdbe.org/6l8f PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6l8f RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6l8f PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6l8f ProSAT]</span></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]] 2.4Å</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=6l8f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6l8f OCA], [https://pdbe.org/6l8f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6l8f RCSB], [https://www.ebi.ac.uk/pdbsum/6l8f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6l8f ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q2G286_STAA8 Q2G286_STAA8]
		+	<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 6l8f" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Staphylococcus aureus subsp. aureus NCTC 8325]]
		+	[[Category: Xue L]]
		+	[[Category: Yue J]]

OCA at 06:46, 2 September 2020

OCA — Wed, 02 Sep 2020 06:46:56 GMT

←Older revision		Revision as of 06:46, 2 September 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6l8f ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='6l8f' size='340' side='right'caption='[[6l8f]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	~~Description~~:	+	</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=6l8f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6l8f OCA], [http://pdbe.org/6l8f PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6l8f RCSB], [http://www.ebi.ac.uk/pdbsum/6l8f PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6l8f ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA at 09:02, 26 August 2020

OCA — Wed, 26 Aug 2020 09:02:43 GMT

←Older revision		Revision as of 09:02, 26 August 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6l8f is ON HOLD	+	The entry 6l8f is ON HOLD until Paper Publication

	Authors:		Authors:

OCA at 08:05, 12 August 2020

OCA — Wed, 12 Aug 2020 08:05:19 GMT

←Older revision		Revision as of 08:05, 12 August 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6l8f is ON HOLD ~~until Paper Publication~~	+	The entry 6l8f is ON HOLD

	Authors:		Authors:

OCA at 05:25, 8 April 2020

OCA — Wed, 08 Apr 2020 05:25:41 GMT

←Older revision		Revision as of 05:25, 8 April 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6l8f is ON HOLD	+	The entry 6l8f is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6l8f" [edit=sysop:move=sysop]

OCA — Wed, 13 Nov 2019 09:17:13 GMT

Protected "6l8f" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:17, 13 November 2019

OCA: New page: '''Unreleased structure''' The entry 6l8f is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 13 Nov 2019 09:17:12 GMT

New page: '''Unreleased structure''' The entry 6l8f is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6l8f is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]