6od1 - Revision history

OCA at 14:51, 13 March 2024

OCA — Wed, 13 Mar 2024 14:51:34 GMT

←Older revision		Revision as of 14:51, 13 March 2024
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	<StructureSection load='6od1' size='340' side='right'caption='[[6od1]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='6od1' size='340' side='right'caption='[[6od1]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6od1]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Ecoli Ecoli~~] and [~~http~~://en.wikipedia.org/wiki/~~Escherichia_coli_907672~~ Escherichia coli ~~907672~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OD1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6OD1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6od1]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_907672 Escherichia coli 907672] and [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OD1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6OD1 FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~rssB~~, ~~HMPREF1595_01509 (~~[~~http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1268982 Escherichia coli 907672~~]~~), iraD, yjiD, b4326, JW5782 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=83333 ECOLI])~~</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]] 2Å</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=6od1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6od1 OCA], [~~http~~://pdbe.org/6od1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6od1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6od1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6od1 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=6od1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6od1 OCA], [https://pdbe.org/6od1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6od1 RCSB], [https://www.ebi.ac.uk/pdbsum/6od1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6od1 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/V0SNG0_ECOLX V0SNG0_ECOLX]] Regulates the turnover of the sigma S factor (RpoS) by promoting its proteolysis in exponentially growing cells. Acts by binding and delivering RpoS to the ClpXP protease. RssB is not co-degraded with RpoS, but is released from the complex and can initiate a new cycle of RpoS recognition and degradation.[HAMAP-Rule:MF_00958] [[http://www.uniprot.org/uniprot/IRAD_ECOLI IRAD_ECOLI]] Inhibits RpoS proteolysis by regulating RssB activity, thereby increasing the stability of the sigma stress factor RpoS during oxidative stress. Its effect on RpoS stability is due to its interaction with RssB, which probably blocks the interaction of RssB with RpoS, and the consequent delivery of the RssB-RpoS complex to the ClpXP protein degradation pathway.<ref>PMID:18383615</ref>	+	[https://www.uniprot.org/uniprot/V0SNG0_ECOLX V0SNG0_ECOLX] Regulates the turnover of the sigma S factor (RpoS) by promoting its proteolysis in exponentially growing cells. Acts by binding and delivering RpoS to the ClpXP protease. RssB is not co-degraded with RpoS, but is released from the complex and can initiate a new cycle of RpoS recognition and degradation.[HAMAP-Rule:MF_00958]
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	The stationary phase promoter specificity subunit sigma(S) (RpoS) is delivered to the ClpXP machinery for degradation dependent on the adaptor RssB. This adaptor-specific degradation of sigma(S) provides a major point for regulation and transcriptional reprogramming during the general stress response. RssB is an atypical response regulator and the only known ClpXP adaptor that is inhibited by multiple but dissimilar antiadaptors (IraD, IraP, and IraM). These are induced by distinct stress signals and bind to RssB in poorly understood manners to achieve stress-specific inhibition of sigma(S) turnover. Here we present the first crystal structure of RssB bound to an antiadaptor, the DNA damage-inducible IraD. The structure reveals that RssB adopts a compact closed architecture with extensive interactions between its N-terminal and C-terminal domains. The structural data, together with mechanistic studies, suggest that RssB plasticity, conferred by an interdomain glutamate-rich flexible linker, is critical for regulation of sigma(S) degradation. Structural modulation of interdomain linkers may thus constitute a general strategy for tuning response regulators.	+
-		+
-	Structural basis for inhibition of a response regulator of sigma(S) stability by a ClpXP antiadaptor.,Dorich V, Brugger C, Tripathi A, Hoskins JR, Tong S, Suhanovsky MM, Sastry A, Wickner S, Gottesman S, Deaconescu AM Genes Dev. 2019 Apr 11. pii: gad.320168.118. doi: 10.1101/gad.320168.118. PMID:30975721<ref>PMID:30975721</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 6od1" style="background-color:#fffaf0;"></div>~~	+
-	~~== References ==~~	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Ecoli]]
	[[Category: Escherichia coli 907672]]		[[Category: Escherichia coli 907672]]
		+	[[Category: Escherichia coli K-12]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Deaconescu~~, A M~~]]	+	[[Category: Deaconescu AM]]
-	[[Category: Dorich, V]]	+	[[Category: Dorich V]]
-	~~[[Category: Anti-adaptor]]~~	+
-	~~[[Category: Clpxp adaptor]]~~	+
-	~~[[Category: Dna damage]]~~	+
-	~~[[Category: Gp25]]~~	+
-	~~[[Category: Response regulator]]~~	+
-	~~[[Category: Signaling protein~~]]	+

OCA at 06:20, 12 June 2019

OCA — Wed, 12 Jun 2019 06:20:15 GMT

←Older revision		Revision as of 06:20, 12 June 2019
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	<StructureSection load='6od1' size='340' side='right'caption='[[6od1]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='6od1' size='340' side='right'caption='[[6od1]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6od1]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OD1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6OD1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6od1]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli] and [http://en.wikipedia.org/wiki/Escherichia_coli_907672 Escherichia coli 907672]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OD1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6OD1 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=6od1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6od1 OCA], [http://pdbe.org/6od1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6od1 RCSB], [http://www.ebi.ac.uk/pdbsum/6od1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6od1 ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">rssB, HMPREF1595_01509 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1268982 Escherichia coli 907672]), iraD, yjiD, b4326, JW5782 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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=6od1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6od1 OCA], [http://pdbe.org/6od1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6od1 RCSB], [http://www.ebi.ac.uk/pdbsum/6od1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6od1 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Ecoli]]
		+	[[Category: Escherichia coli 907672]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Deaconescu, A M]]		[[Category: Deaconescu, A M]]

OCA at 07:05, 24 April 2019

OCA — Wed, 24 Apr 2019 07:05:41 GMT

←Older revision		Revision as of 07:05, 24 April 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6od1 is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==IraD-bound to RssB D58P variant==
		+	<StructureSection load='6od1' size='340' side='right'caption='[[6od1]], [[Resolution\|resolution]] 2.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6od1]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OD1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6OD1 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=6od1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6od1 OCA], [http://pdbe.org/6od1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6od1 RCSB], [http://www.ebi.ac.uk/pdbsum/6od1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6od1 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/V0SNG0_ECOLX V0SNG0_ECOLX]] Regulates the turnover of the sigma S factor (RpoS) by promoting its proteolysis in exponentially growing cells. Acts by binding and delivering RpoS to the ClpXP protease. RssB is not co-degraded with RpoS, but is released from the complex and can initiate a new cycle of RpoS recognition and degradation.[HAMAP-Rule:MF_00958] [[http://www.uniprot.org/uniprot/IRAD_ECOLI IRAD_ECOLI]] Inhibits RpoS proteolysis by regulating RssB activity, thereby increasing the stability of the sigma stress factor RpoS during oxidative stress. Its effect on RpoS stability is due to its interaction with RssB, which probably blocks the interaction of RssB with RpoS, and the consequent delivery of the RssB-RpoS complex to the ClpXP protein degradation pathway.<ref>PMID:18383615</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The stationary phase promoter specificity subunit sigma(S) (RpoS) is delivered to the ClpXP machinery for degradation dependent on the adaptor RssB. This adaptor-specific degradation of sigma(S) provides a major point for regulation and transcriptional reprogramming during the general stress response. RssB is an atypical response regulator and the only known ClpXP adaptor that is inhibited by multiple but dissimilar antiadaptors (IraD, IraP, and IraM). These are induced by distinct stress signals and bind to RssB in poorly understood manners to achieve stress-specific inhibition of sigma(S) turnover. Here we present the first crystal structure of RssB bound to an antiadaptor, the DNA damage-inducible IraD. The structure reveals that RssB adopts a compact closed architecture with extensive interactions between its N-terminal and C-terminal domains. The structural data, together with mechanistic studies, suggest that RssB plasticity, conferred by an interdomain glutamate-rich flexible linker, is critical for regulation of sigma(S) degradation. Structural modulation of interdomain linkers may thus constitute a general strategy for tuning response regulators.

-	~~Authors~~:	+	Structural basis for inhibition of a response regulator of sigma(S) stability by a ClpXP antiadaptor.,Dorich V, Brugger C, Tripathi A, Hoskins JR, Tong S, Suhanovsky MM, Sastry A, Wickner S, Gottesman S, Deaconescu AM Genes Dev. 2019 Apr 11. pii: gad.320168.118. doi: 10.1101/gad.320168.118. PMID:30975721<ref>PMID:30975721</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6od1" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Deaconescu, A M]]
		+	[[Category: Dorich, V]]
		+	[[Category: Anti-adaptor]]
		+	[[Category: Clpxp adaptor]]
		+	[[Category: Dna damage]]
		+	[[Category: Gp25]]
		+	[[Category: Response regulator]]
		+	[[Category: Signaling protein]]

OCA at 04:07, 17 April 2019

OCA — Wed, 17 Apr 2019 04:07:24 GMT

←Older revision		Revision as of 04:07, 17 April 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6od1 is ON HOLD	+	The entry 6od1 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6od1" [edit=sysop:move=sysop]

OCA — Wed, 03 Apr 2019 04:41:50 GMT

Protected "6od1" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:41, 3 April 2019

OCA: New page: '''Unreleased structure''' The entry 6od1 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 03 Apr 2019 04:41:48 GMT

New page: '''Unreleased structure''' The entry 6od1 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6od1 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]