4xxe - Revision history

OCA at 09:02, 20 March 2024

OCA — Wed, 20 Mar 2024 09:02:57 GMT

←Older revision		Revision as of 09:02, 20 March 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4xxe]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_COL Staphylococcus aureus subsp. aureus COL] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XXE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4XXE FirstGlance]. <br>		<table><tr><td colspan='2'>[[4xxe]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_COL Staphylococcus aureus subsp. aureus COL] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XXE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4XXE FirstGlance]. <br>
-	</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=4xxe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xxe OCA], [https://pdbe.org/4xxe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4xxe RCSB], [https://www.ebi.ac.uk/pdbsum/4xxe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4xxe 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]] 3.2Å</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=4xxe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xxe OCA], [https://pdbe.org/4xxe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4xxe RCSB], [https://www.ebi.ac.uk/pdbsum/4xxe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4xxe ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/AGRA_STAAC AGRA_STAAC] Required for high-level post-exponential phase expression of a series of secreted proteins.		[https://www.uniprot.org/uniprot/AGRA_STAAC AGRA_STAAC] Required for high-level post-exponential phase expression of a series of secreted proteins.
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The intracellular trigger for the quorum sensing response mechanism in Staphylococcus aureus involves the phosphorylation of the response regulator AgrA by the membrane anchored histidine kinase AgrC. AgrA activates transcription from three promoter sequences (P1-P3). The promoter strength, conditional association of AgrA with these promoter elements and temporal delay in AgrA-mediated changes in gene expression contribute to the diversity of the quorum sensing response in different S. aureus strains. AgrA promoters comprise of imperfect direct repeats of DNA with a consensus sequence- [TA][AC][CA]GTTN[AG][TG]. Here we describe crystal structures of the DNA-binding (LytTR) domain of AgrA with different cognate DNA sequences that reveal a hitherto unanticipated feature of AgrA-DNA interactions. AgrA promoter interactions are asymmetric with fewer interactions at the binding site proximal to the -35 promoter element. Biochemical assays to evaluate AgrA-promoter interactions suggests that phosphorylation induced dimerization of AgrA can compensate for the asymmetry in AgrA-DNA interactions. The structures also provide a basis to rationalize mutations that were noted to alter AgrA activity without affecting protein-DNA interactions. Put together, the structural data, gene expression and mutational analysis reveal that promoter strength and AgrA phosphorylation enable quorum-sensing triggered transcriptional changes leading to a transition from the persistent to virulent phenotype.
-
-	Conformational features of the Staphylococcus aureus AgrA-promoter interactions rationalize quorum-sensing triggered gene expression.,Rajasree K, Fasim A, Gopal B Biochem Biophys Rep. 2016 Mar 23;6:124-134. doi: 10.1016/j.bbrep.2016.03.012., eCollection 2016 Jul. PMID:28955870<ref>PMID:28955870</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 4xxe" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 17:57, 26 April 2023

OCA — Wed, 26 Apr 2023 17:57:10 GMT

←Older revision		Revision as of 17:57, 26 April 2023
Line 3:		Line 3:
	<StructureSection load='4xxe' size='340' side='right'caption='[[4xxe]], [[Resolution\|resolution]] 3.20Å' scene=''>		<StructureSection load='4xxe' size='340' side='right'caption='[[4xxe]], [[Resolution\|resolution]] 3.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4xxe]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Staac Staac~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XXE OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4XXE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4xxe]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_COL Staphylococcus aureus subsp. aureus COL] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XXE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4XXE FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">agrA, SACOL2026 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=93062 STAAC])</td></tr>	+	</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=4xxe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xxe OCA], [https://pdbe.org/4xxe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4xxe RCSB], [https://www.ebi.ac.uk/pdbsum/4xxe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4xxe ProSAT]</span></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=4xxe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xxe OCA], [~~http~~://pdbe.org/4xxe PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4xxe RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4xxe PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4xxe ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/AGRA_STAAC AGRA_STAAC]] Required for high-level post-exponential phase expression of a series of secreted proteins.	+	[https://www.uniprot.org/uniprot/AGRA_STAAC AGRA_STAAC] Required for high-level post-exponential phase expression of a series of secreted proteins.
	<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: ~~Staac~~]]	+	[[Category: Staphylococcus aureus subsp. aureus COL]]
-	[[Category: ~~Gopal, B~~]]	+	[[Category: Synthetic construct]]
-	[[Category: ~~Rajasree, K~~]]	+	[[Category: Gopal B]]
-	[[Category: ~~Protein-dna complex]]~~	+	[[Category: Rajasree K]]
-	~~[[Category: Transcription-dna complex~~]]	+

OCA at 08:43, 18 December 2019

OCA — Wed, 18 Dec 2019 08:43:06 GMT

←Older revision		Revision as of 08:43, 18 December 2019
Line 9:		Line 9:
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/AGRA_STAAC AGRA_STAAC]] Required for high-level post-exponential phase expression of a series of secreted proteins.		[[http://www.uniprot.org/uniprot/AGRA_STAAC AGRA_STAAC]] Required for high-level post-exponential phase expression of a series of secreted proteins.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The intracellular trigger for the quorum sensing response mechanism in Staphylococcus aureus involves the phosphorylation of the response regulator AgrA by the membrane anchored histidine kinase AgrC. AgrA activates transcription from three promoter sequences (P1-P3). The promoter strength, conditional association of AgrA with these promoter elements and temporal delay in AgrA-mediated changes in gene expression contribute to the diversity of the quorum sensing response in different S. aureus strains. AgrA promoters comprise of imperfect direct repeats of DNA with a consensus sequence- [TA][AC][CA]GTTN[AG][TG]. Here we describe crystal structures of the DNA-binding (LytTR) domain of AgrA with different cognate DNA sequences that reveal a hitherto unanticipated feature of AgrA-DNA interactions. AgrA promoter interactions are asymmetric with fewer interactions at the binding site proximal to the -35 promoter element. Biochemical assays to evaluate AgrA-promoter interactions suggests that phosphorylation induced dimerization of AgrA can compensate for the asymmetry in AgrA-DNA interactions. The structures also provide a basis to rationalize mutations that were noted to alter AgrA activity without affecting protein-DNA interactions. Put together, the structural data, gene expression and mutational analysis reveal that promoter strength and AgrA phosphorylation enable quorum-sensing triggered transcriptional changes leading to a transition from the persistent to virulent phenotype.
		+
		+	Conformational features of the Staphylococcus aureus AgrA-promoter interactions rationalize quorum-sensing triggered gene expression.,Rajasree K, Fasim A, Gopal B Biochem Biophys Rep. 2016 Mar 23;6:124-134. doi: 10.1016/j.bbrep.2016.03.012., eCollection 2016 Jul. PMID:28955870<ref>PMID:28955870</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 4xxe" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 00:07, 6 June 2019

OCA — Thu, 06 Jun 2019 00:07:19 GMT

←Older revision		Revision as of 00:07, 6 June 2019
Line 1:		Line 1:

	==Structure of AgrA LytTR domain in complex with promoters==		==Structure of AgrA LytTR domain in complex with promoters==
-	<StructureSection load='4xxe' size='340' side='right' caption='[[4xxe]], [[Resolution\|resolution]] 3.20Å' scene=''>	+	<StructureSection load='4xxe' size='340' side='right'caption='[[4xxe]], [[Resolution\|resolution]] 3.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4xxe]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XXE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4XXE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4xxe]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Staac Staac]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XXE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4XXE FirstGlance]. <br>
-	</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=4xxe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xxe OCA], [http://pdbe.org/4xxe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4xxe RCSB], [http://www.ebi.ac.uk/pdbsum/4xxe PDBsum]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">agrA, SACOL2026 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=93062 STAAC])</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=4xxe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xxe OCA], [http://pdbe.org/4xxe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4xxe RCSB], [http://www.ebi.ac.uk/pdbsum/4xxe PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4xxe ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 10:		Line 11:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Staac]]
	[[Category: Gopal, B]]		[[Category: Gopal, B]]
	[[Category: Rajasree, K]]		[[Category: Rajasree, K]]
	[[Category: Protein-dna complex]]		[[Category: Protein-dna complex]]
	[[Category: Transcription-dna complex]]		[[Category: Transcription-dna complex]]

OCA at 04:01, 12 May 2016

OCA — Thu, 12 May 2016 04:01:39 GMT

←Older revision		Revision as of 04:01, 12 May 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 4xxe ~~is ON HOLD until Paper Publication~~	+	==Structure of AgrA LytTR domain in complex with promoters==
-		+	<StructureSection load='4xxe' size='340' side='right' caption='[[4xxe]], [[Resolution\|resolution]] 3.20Å' scene=''>
-	~~Authors~~: ~~Gopal~~, B., ~~Rajasree~~, K.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4xxe]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XXE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4XXE FirstGlance]. <br>
-	~~Description~~: ~~Structure~~ of ~~AgrA LytTR domain in complex with promoters~~	+	</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=4xxe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xxe OCA], [http://pdbe.org/4xxe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4xxe RCSB], [http://www.ebi.ac.uk/pdbsum/4xxe PDBsum]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/AGRA_STAAC AGRA_STAAC]] Required for high-level post-exponential phase expression of a series of secreted proteins.
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Gopal, B]]
	[[Category: Rajasree, K]]		[[Category: Rajasree, K]]
-	[[Category: ~~Gopal, B~~]]	+	[[Category: Protein-dna complex]]
		+	[[Category: Transcription-dna complex]]

OCA at 10:31, 15 April 2015

OCA — Wed, 15 Apr 2015 10:31:55 GMT

←Older revision		Revision as of 10:31, 15 April 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4xxe is ON HOLD	+	The entry 4xxe is ON HOLD until Paper Publication

	Authors: Gopal, B., Rajasree, K.		Authors: Gopal, B., Rajasree, K.

OCA: Protected "4xxe" [edit=sysop:move=sysop]

OCA — Sat, 07 Feb 2015 14:57:15 GMT

Protected "4xxe" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:57, 7 February 2015

OCA: New page: '''Unreleased structure''' The entry 4xxe is ON HOLD Authors: Gopal, B., Rajasree, K. Description: Structure of AgrA LytTR domain in complex with promoters [[Category: Unreleased Struc...

OCA — Sat, 07 Feb 2015 14:57:13 GMT

New page: '''Unreleased structure''' The entry 4xxe is ON HOLD Authors: Gopal, B., Rajasree, K. Description: Structure of AgrA LytTR domain in complex with promoters [[Category: Unreleased Struc...

New page

'''Unreleased structure'''

The entry 4xxe is ON HOLD

Authors: Gopal, B., Rajasree, K.

Description: Structure of AgrA LytTR domain in complex with promoters
[[Category: Unreleased Structures]]
[[Category: Rajasree, K]]
[[Category: Gopal, B]]