6ivu - Revision history

OCA at 10:52, 14 June 2023

OCA — Wed, 14 Jun 2023 10:52:10 GMT

←Older revision		Revision as of 10:52, 14 June 2023
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	==Solution structure of the Sigma-anti-sigma factor complex RsgI1N-SigI1C from Clostridium thermocellum==		==Solution structure of the Sigma-anti-sigma factor complex RsgI1N-SigI1C from Clostridium thermocellum==
-	<StructureSection load='6ivu' size='340' side='right'caption='[[6ivu~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='6ivu' size='340' side='right'caption='[[6ivu]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ivu]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Cloth Cloth~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IVU OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6IVU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ivu]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Acetivibrio_thermocellus_ATCC_27405 Acetivibrio thermocellus ATCC 27405]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IVU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6IVU FirstGlance]. <br>
-	</td></tr>~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6ivs\|6ivs]]</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=6ivu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ivu OCA], [https://pdbe.org/6ivu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ivu RCSB], [https://www.ebi.ac.uk/pdbsum/6ivu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ivu ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cthe_0059 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=203119 CLOTH]), sigI1, Cthe_0058 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=203119 CLOTH])</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=6ivu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ivu OCA], [~~http~~://pdbe.org/6ivu PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6ivu RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6ivu PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6ivu ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~RSGI1_CLOTH RSGI1_CLOTH]~~] Anti-sigma factor for SigI1. Negatively regulates SigI1 activity through direct interaction (PubMed:20937888). Binding of the polysaccharide substrate to the extracellular C-terminal sensing domain of RsgI1 may induce a conformational change in its N-terminal cytoplasmic region, leading to the release and activation of SigI1 (Probable).<ref>PMID:20937888</ref> <ref>PMID:20937888</ref> [[http://www.uniprot.org/uniprot/SIGI1_CLOTH SIGI1_CLOTH]] Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released (By similarity). This sigma factor is involved in regulation of cellulosomal genes via an external polysaccharide-sensing mechanism. SigI1 promotes transcription from sigI1 and celS promoters (PubMed:20937888).[HAMAP-Rule:MF_02064]<ref>PMID:20937888</ref>	+	[https://www.uniprot.org/uniprot/RSGI1_ACET2 RSGI1_ACET2] Anti-sigma factor for SigI1. Negatively regulates SigI1 activity through direct interaction (PubMed:20937888). Binding of the polysaccharide substrate to the extracellular C-terminal sensing domain of RsgI1 may induce a conformational change in its N-terminal cytoplasmic region, leading to the release and activation of SigI1 (Probable).<ref>PMID:20937888</ref> <ref>PMID:20937888</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 19:		Line 17:
	</div>		</div>
	<div class="pdbe-citations 6ivu" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6ivu" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Sigma factor 3D structures\|Sigma factor 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Cloth~~]]	+	[[Category: Acetivibrio thermocellus ATCC 27405]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Feng, Y]]	+	[[Category: Feng Y]]
-	[[Category: Wei, Z]]	+	[[Category: Wei Z]]
-	~~[[Category: Sigma factor]]~~	+
-	~~[[Category: Transcription~~]]	+

OCA at 23:05, 5 June 2019

OCA — Wed, 05 Jun 2019 23:05:27 GMT

←Older revision		Revision as of 23:05, 5 June 2019
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	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/RSGI1_CLOTH RSGI1_CLOTH]] Anti-sigma factor for SigI1. Negatively regulates SigI1 activity through direct interaction (PubMed:20937888). Binding of the polysaccharide substrate to the extracellular C-terminal sensing domain of RsgI1 may induce a conformational change in its N-terminal cytoplasmic region, leading to the release and activation of SigI1 (Probable).<ref>PMID:20937888</ref> <ref>PMID:20937888</ref> [[http://www.uniprot.org/uniprot/SIGI1_CLOTH SIGI1_CLOTH]] Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released (By similarity). This sigma factor is involved in regulation of cellulosomal genes via an external polysaccharide-sensing mechanism. SigI1 promotes transcription from sigI1 and celS promoters (PubMed:20937888).[HAMAP-Rule:MF_02064]<ref>PMID:20937888</ref>		[[http://www.uniprot.org/uniprot/RSGI1_CLOTH RSGI1_CLOTH]] Anti-sigma factor for SigI1. Negatively regulates SigI1 activity through direct interaction (PubMed:20937888). Binding of the polysaccharide substrate to the extracellular C-terminal sensing domain of RsgI1 may induce a conformational change in its N-terminal cytoplasmic region, leading to the release and activation of SigI1 (Probable).<ref>PMID:20937888</ref> <ref>PMID:20937888</ref> [[http://www.uniprot.org/uniprot/SIGI1_CLOTH SIGI1_CLOTH]] Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released (By similarity). This sigma factor is involved in regulation of cellulosomal genes via an external polysaccharide-sensing mechanism. SigI1 promotes transcription from sigI1 and celS promoters (PubMed:20937888).[HAMAP-Rule:MF_02064]<ref>PMID:20937888</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The sigma70 family alternative sigmaI factors and their cognate anti-sigmaI factors are widespread in Clostridia and Bacilli and play a role in heat stress response, virulence, and polysaccharide sensing. Multiple sigmaI/anti-sigmaI factors exist in some lignocellulolytic clostridial species, specifically for regulation of components of a multienzyme complex, termed the cellulosome. The sigmaI and anti-sigmaI factors are unique, because the C-terminal domain of sigmaI (SigIC) and the N-terminal inhibitory domain of anti-sigmaI (RsgIN) lack homology to known proteins. Here, we report structure and interaction studies of a pair of sigmaI and anti-sigmaI factors, SigI1 and RsgI1, from the cellulosome-producing bacterium, Clostridium thermocellum. In contrast to other known anti-sigma factors that have N-terminal helical structures, RsgIN has a beta-barrel structure. Unlike other anti-sigma factors that bind both sigma2 and sigma4 domains of the sigma factors, RsgIN binds SigIC specifically. Structural analysis showed that SigIC contains a positively charged surface region that recognizes the promoter -35 region, and the synergistic interactions among multiple interfacial residues result in the specificity displayed by different sigmaI/anti-sigmaI pairs. We suggest that the sigmaI/anti-sigmaI factors represent a distinctive mode of sigma/anti-sigma complex formation, which provides the structural basis for understanding the molecular mechanism of the intricate sigmaI/anti-sigmaI system.
		+
		+	Alternative sigmaI/anti-sigmaI factors represent a unique form of bacterial sigma/anti-sigma complex.,Wei Z, Chen C, Liu YJ, Dong S, Li J, Qi K, Liu S, Ding X, Ortiz de Ora L, Munoz-Gutierrez I, Li Y, Yao H, Lamed R, Bayer EA, Cui Q, Feng Y Nucleic Acids Res. 2019 May 20. pii: 5490815. doi: 10.1093/nar/gkz355. PMID:31106374<ref>PMID:31106374</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6ivu" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 07:28, 21 May 2019

OCA — Tue, 21 May 2019 07:28:07 GMT

←Older revision		Revision as of 07:28, 21 May 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6ivu is ~~ON HOLD until Paper Publication~~	+	==Solution structure of the Sigma-anti-sigma factor complex RsgI1N-SigI1C from Clostridium thermocellum==
-		+	<StructureSection load='6ivu' size='340' side='right'caption='[[6ivu]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
-	~~Authors~~: ~~Wei~~, Z., ~~Feng~~, Y.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6ivu]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Cloth Cloth]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IVU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6IVU FirstGlance]. <br>
-	~~Description~~: ~~Solution structure~~ of the ~~Sigma~~-~~anti~~-sigma factor ~~complex RsgI1N~~-~~SigI1C~~ from ~~Clostridium thermocellum~~	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6ivs\|6ivs]]</td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cthe_0059 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=203119 CLOTH]), sigI1, Cthe_0058 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=203119 CLOTH])</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=6ivu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ivu OCA], [http://pdbe.org/6ivu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ivu RCSB], [http://www.ebi.ac.uk/pdbsum/6ivu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ivu ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/RSGI1_CLOTH RSGI1_CLOTH]] Anti-sigma factor for SigI1. Negatively regulates SigI1 activity through direct interaction (PubMed:20937888). Binding of the polysaccharide substrate to the extracellular C-terminal sensing domain of RsgI1 may induce a conformational change in its N-terminal cytoplasmic region, leading to the release and activation of SigI1 (Probable).<ref>PMID:20937888</ref> <ref>PMID:20937888</ref> [[http://www.uniprot.org/uniprot/SIGI1_CLOTH SIGI1_CLOTH]] Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released (By similarity). This sigma factor is involved in regulation of cellulosomal genes via an external polysaccharide-sensing mechanism. SigI1 promotes transcription from sigI1 and celS promoters (PubMed:20937888).[HAMAP-Rule:MF_02064]<ref>PMID:20937888</ref>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Cloth]]
		+	[[Category: Large Structures]]
		+	[[Category: Feng, Y]]
	[[Category: Wei, Z]]		[[Category: Wei, Z]]
-	[[Category: ~~Feng, Y~~]]	+	[[Category: Sigma factor]]
		+	[[Category: Transcription]]

OCA at 06:26, 19 December 2018

OCA — Wed, 19 Dec 2018 06:26:02 GMT

←Older revision		Revision as of 06:26, 19 December 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Wei, Z., Feng, Y.		Authors: Wei, Z., Feng, Y.

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

OCA — Wed, 12 Dec 2018 05:13:25 GMT

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

←Older revision

Revision as of 05:13, 12 December 2018

OCA: New page: '''Unreleased structure''' The entry 6ivu is ON HOLD Authors: Wei, Z., Feng, Y. Description: Solution structure of the Sigma-anti-sigma factor complex RsgI1N-SigI1C from Clostridium th...

OCA — Wed, 12 Dec 2018 05:13:23 GMT

New page: '''Unreleased structure''' The entry 6ivu is ON HOLD Authors: Wei, Z., Feng, Y. Description: Solution structure of the Sigma-anti-sigma factor complex RsgI1N-SigI1C from Clostridium th...

New page

'''Unreleased structure'''

The entry 6ivu is ON HOLD

Authors: Wei, Z., Feng, Y.

Description: Solution structure of the Sigma-anti-sigma factor complex RsgI1N-SigI1C from Clostridium thermocellum
[[Category: Unreleased Structures]]
[[Category: Wei, Z]]
[[Category: Feng, Y]]