2ro5 - Revision history

OCA at 07:05, 1 May 2024

OCA — Wed, 01 May 2024 07:05:37 GMT

←Older revision		Revision as of 07:05, 1 May 2024
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	==RDC-refined solution structure of the N-terminal DNA recognition domain of the Bacillus subtilis transition-state regulator SpoVT==		==RDC-refined solution structure of the N-terminal DNA recognition domain of the Bacillus subtilis transition-state regulator SpoVT==
-	<StructureSection load='2ro5' size='340' side='right'caption='[[2ro5~~]], [[NMR_Ensembles_of_Models \| 10 NMR models~~]]' scene=''>	+	<StructureSection load='2ro5' size='340' side='right'caption='[[2ro5]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ro5]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"vibrio_subtilis"_ehrenberg_1835 "vibrio~~ subtilis~~" ehrenberg 1835~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RO5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2RO5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ro5]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RO5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2RO5 FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[1z0r\|1z0r]], [[2fy9\|2fy9]], [[2ro3\|2ro3]], [[2ro4\|2ro4]]</div></td></tr>~~	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spoVT ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Vibrio subtilis" Ehrenberg 1835])~~</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=2ro5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ro5 OCA], [https://pdbe.org/2ro5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ro5 RCSB], [https://www.ebi.ac.uk/pdbsum/2ro5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ro5 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=2ro5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ro5 OCA], [https://pdbe.org/2ro5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ro5 RCSB], [https://www.ebi.ac.uk/pdbsum/2ro5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ro5 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/~~SP5T_BACSU SP5T_BACSU~~]~~] Positive and negative transcriptional regulator~~ of sigma G-dependent genes. May provide a mechanism of feedback control that is important for forespore development.	+	[https://www.uniprot.org/uniprot/SPOVT_BACSU SPOVT_BACSU] Transcriptional factor that regulates positively or negatively the expression of a large number of forespore-specific sigma G-dependent genes. May provide a mechanism of feedback control that is important for forespore development (PubMed:8755877). SpoVT levels during spore formation have a major impact on the germination and the resistance of the resultant spores (PubMed:22522895).<ref>PMID:22522895</ref> <ref>PMID:8755877</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 20:		Line 19:
	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2ro5 ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2ro5 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Understanding the DNA recognition and binding by the AbrB-like family of transcriptional regulators is of significant interest since these proteins enable bacteria to elicit the appropriate response to diverse environmental stimuli. Although these "transition-state regulator" proteins have been well characterized at the genetic level, the general and specific mechanisms of DNA binding remain elusive. We present RDC-refined NMR solution structures and dynamic properties of the DNA-binding domains of three Bacillus subtilis transition-state regulators: AbrB, Abh, and SpoVT. We combined previously investigated DNase I footprinting, DNA methylation, gel-shift assays, and mutagenic and NMR studies to generate a structural model of the complex between AbrBN(55) and its cognate promoter, abrB8. These investigations have enabled us to generate a model for the specific nature of the transition-state regulator-DNA interaction, a structure that has remained elusive thus far.
-
-	Insights into the nature of DNA binding of AbrB-like transcription factors.,Sullivan DM, Bobay BG, Kojetin DJ, Thompson RJ, Rance M, Strauch MA, Cavanagh J Structure. 2008 Nov 12;16(11):1702-13. PMID:19000822<ref>PMID:19000822</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 2ro5" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Vibrio~~ subtilis ~~ehrenberg 1835~~]]	+	[[Category: Bacillus subtilis]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Bobay~~, B G~~]]	+	[[Category: Bobay BG]]
-	[[Category: Cavanagh, J]]	+	[[Category: Cavanagh J]]
-	[[Category: Kojetin~~, D J~~]]	+	[[Category: Kojetin DJ]]
-	[[Category: Rance, M]]	+	[[Category: Rance M]]
-	[[Category: Strauch~~, M A~~]]	+	[[Category: Strauch MA]]
-	[[Category: Sullivan~~, D M~~]]	+	[[Category: Sullivan DM]]
-	[[Category: Thompson~~, R J]]~~	+	[[Category: Thompson RJ]]
-	~~[[Category: Activator]]~~	+
-	~~[[Category: Dna-binding]]~~	+
-	~~[[Category: Repressor]]~~	+
-	~~[[Category: Sporulation]]~~	+
-	~~[[Category: Transcription]]~~	+
-	~~[[Category: Transcription regulation~~]]	+

OCA at 10:34, 7 July 2021

OCA — Wed, 07 Jul 2021 10:34:21 GMT

←Older revision		Revision as of 10:34, 7 July 2021
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	==RDC-refined solution structure of the N-terminal DNA recognition domain of the Bacillus subtilis transition-state regulator SpoVT==		==RDC-refined solution structure of the N-terminal DNA recognition domain of the Bacillus subtilis transition-state regulator SpoVT==
-	<StructureSection load='2ro5' size='340' side='right' caption='[[2ro5]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>	+	<StructureSection load='2ro5' size='340' side='right'caption='[[2ro5]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ro5]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RO5 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2RO5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ro5]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RO5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2RO5 FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1z0r\|1z0r]], [[2fy9\|2fy9]], [[2ro3\|2ro3]], [[2ro4\|2ro4]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1z0r\|1z0r]], [[2fy9\|2fy9]], [[2ro3\|2ro3]], [[2ro4\|2ro4]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spoVT ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Vibrio subtilis" Ehrenberg 1835])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spoVT ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Vibrio subtilis" Ehrenberg 1835])</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=2ro5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ro5 OCA], [~~http~~://pdbe.org/2ro5 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2ro5 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2ro5 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2ro5 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=2ro5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ro5 OCA], [https://pdbe.org/2ro5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ro5 RCSB], [https://www.ebi.ac.uk/pdbsum/2ro5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ro5 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/SP5T_BACSU SP5T_BACSU]] Positive and negative transcriptional regulator of sigma G-dependent genes. May provide a mechanism of feedback control that is important for forespore development.	+	[[https://www.uniprot.org/uniprot/SP5T_BACSU SP5T_BACSU]] Positive and negative transcriptional regulator of sigma G-dependent genes. May provide a mechanism of feedback control that is important for forespore development.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Vibrio subtilis ehrenberg 1835]]		[[Category: Vibrio subtilis ehrenberg 1835]]
		+	[[Category: Large Structures]]
	[[Category: Bobay, B G]]		[[Category: Bobay, B G]]
	[[Category: Cavanagh, J]]		[[Category: Cavanagh, J]]

OCA at 11:03, 5 September 2018

OCA — Wed, 05 Sep 2018 11:03:02 GMT

←Older revision		Revision as of 11:03, 5 September 2018
Line 1:		Line 1:
		+
	==RDC-refined solution structure of the N-terminal DNA recognition domain of the Bacillus subtilis transition-state regulator SpoVT==		==RDC-refined solution structure of the N-terminal DNA recognition domain of the Bacillus subtilis transition-state regulator SpoVT==
	<StructureSection load='2ro5' size='340' side='right' caption='[[2ro5]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>		<StructureSection load='2ro5' size='340' side='right' caption='[[2ro5]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ro5]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"~~bacillus_globigii~~"~~_migula_1900~~ "~~bacillus globigii~~" ~~migula 1900~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RO5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2RO5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ro5]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RO5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2RO5 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1z0r\|1z0r]], [[2fy9\|2fy9]], [[2ro3\|2ro3]], [[2ro4\|2ro4]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1z0r\|1z0r]], [[2fy9\|2fy9]], [[2ro3\|2ro3]], [[2ro4\|2ro4]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spoVT ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "~~Bacillus globigii~~" ~~Migula 1900~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spoVT ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Vibrio subtilis" Ehrenberg 1835])</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=2ro5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ro5 OCA], [http://pdbe.org/2ro5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ro5 RCSB], [http://www.ebi.ac.uk/pdbsum/2ro5 PDBsum]</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=2ro5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ro5 OCA], [http://pdbe.org/2ro5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ro5 RCSB], [http://www.ebi.ac.uk/pdbsum/2ro5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2ro5 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ro/2ro5_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ro/2ro5_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 32:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus globigii migula 1900~~]]	+	[[Category: Vibrio subtilis ehrenberg 1835]]
	[[Category: Bobay, B G]]		[[Category: Bobay, B G]]
	[[Category: Cavanagh, J]]		[[Category: Cavanagh, J]]

OCA at 07:36, 8 February 2016

OCA — Mon, 08 Feb 2016 07:36:59 GMT

←Older revision		Revision as of 07:36, 8 February 2016
Line 2:		Line 2:
	<StructureSection load='2ro5' size='340' side='right' caption='[[2ro5]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>		<StructureSection load='2ro5' size='340' side='right' caption='[[2ro5]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ro5]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Bacillus_subtilis Bacillus subtilis~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RO5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2RO5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ro5]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_globigii"_migula_1900 "bacillus globigii" migula 1900]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RO5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2RO5 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1z0r\|1z0r]], [[2fy9\|2fy9]], [[2ro3\|2ro3]], [[2ro4\|2ro4]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1z0r\|1z0r]], [[2fy9\|2fy9]], [[2ro3\|2ro3]], [[2ro4\|2ro4]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spoVT ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 Bacillus ~~subtilis~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spoVT ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Bacillus globigii" Migula 1900])</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=2ro5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ro5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ro5 RCSB], [http://www.ebi.ac.uk/pdbsum/2ro5 PDBsum]</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=2ro5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ro5 OCA], [http://pdbe.org/2ro5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ro5 RCSB], [http://www.ebi.ac.uk/pdbsum/2ro5 PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 17:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2ro5 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 27:		Line 27:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 2ro5" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacillus ~~subtilis~~]]	+	[[Category: Bacillus globigii migula 1900]]
	[[Category: Bobay, B G]]		[[Category: Bobay, B G]]
	[[Category: Cavanagh, J]]		[[Category: Cavanagh, J]]

OCA at 21:41, 24 December 2014

OCA — Wed, 24 Dec 2014 21:41:30 GMT

←Older revision		Revision as of 21:41, 24 December 2014
Line 7:		Line 7:
	<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=2ro5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ro5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ro5 RCSB], [http://www.ebi.ac.uk/pdbsum/2ro5 PDBsum]</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=2ro5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ro5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ro5 RCSB], [http://www.ebi.ac.uk/pdbsum/2ro5 PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/SP5T_BACSU SP5T_BACSU]] Positive and negative transcriptional regulator of sigma G-dependent genes. May provide a mechanism of feedback control that is important for forespore development.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Bacillus subtilis]]		[[Category: Bacillus subtilis]]
-	[[Category: Bobay, B G.]]	+	[[Category: Bobay, B G]]
-	[[Category: Cavanagh, J.]]	+	[[Category: Cavanagh, J]]
-	[[Category: Kojetin, D J.]]	+	[[Category: Kojetin, D J]]
-	[[Category: Rance, M.]]	+	[[Category: Rance, M]]
-	[[Category: Strauch, M A.]]	+	[[Category: Strauch, M A]]
-	[[Category: Sullivan, D M.]]	+	[[Category: Sullivan, D M]]
-	[[Category: Thompson, R J.]]	+	[[Category: Thompson, R J]]
	[[Category: Activator]]		[[Category: Activator]]
	[[Category: Dna-binding]]		[[Category: Dna-binding]]

OCA at 06:32, 10 October 2014

OCA — Fri, 10 Oct 2014 06:32:49 GMT

←Older revision		Revision as of 06:32, 10 October 2014
Line 2:		Line 2:
	<StructureSection load='2ro5' size='340' side='right' caption='[[2ro5]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>		<StructureSection load='2ro5' size='340' side='right' caption='[[2ro5]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ro5]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RO5 OCA]. <br>	+	<table><tr><td colspan='2'>[[2ro5]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RO5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2RO5 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1z0r\|1z0r]], [[2fy9\|2fy9]], [[2ro3\|2ro3]], [[2ro4\|2ro4]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1z0r\|1z0r]], [[2fy9\|2fy9]], [[2ro3\|2ro3]], [[2ro4\|2ro4]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spoVT ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 Bacillus subtilis])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spoVT ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 Bacillus subtilis])</td></tr>
-	<tr~~><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class~~='~~plainlinks~~'~~>[http://en.wikipedia.org/wiki/Glucokinase Glucokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </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=2ro5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ro5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ro5 RCSB], [http://www.ebi.ac.uk/pdbsum/2ro5 PDBsum]</span></td></tr>
-	~~<tr~~><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ro5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ro5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ro5 RCSB], [http://www.ebi.ac.uk/pdbsum/2ro5 PDBsum]</span></td></tr>	+	</table>
-	<table>	+
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 24:		Line 23:
	Insights into the nature of DNA binding of AbrB-like transcription factors.,Sullivan DM, Bobay BG, Kojetin DJ, Thompson RJ, Rance M, Strauch MA, Cavanagh J Structure. 2008 Nov 12;16(11):1702-13. PMID:19000822<ref>PMID:19000822</ref>		Insights into the nature of DNA binding of AbrB-like transcription factors.,Sullivan DM, Bobay BG, Kojetin DJ, Thompson RJ, Rance M, Strauch MA, Cavanagh J Structure. 2008 Nov 12;16(11):1702-13. PMID:19000822<ref>PMID:19000822</ref>

-	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, a database of the U.S. National Library of Medicine.<br>	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
	== References ==		== References ==

OCA at 08:41, 7 May 2014

OCA — Wed, 07 May 2014 08:41:11 GMT

←Older revision		Revision as of 08:41, 7 May 2014
Line 1:		Line 1:
-	[[~~Image:~~2ro5.~~png~~\|~~left~~\|200px]]	+	==RDC-refined solution structure of the N-terminal DNA recognition domain of the Bacillus subtilis transition-state regulator SpoVT==
		+	<StructureSection load='2ro5' size='340' side='right' caption='[[2ro5]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2ro5]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RO5 OCA]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1z0r\|1z0r]], [[2fy9\|2fy9]], [[2ro3\|2ro3]], [[2ro4\|2ro4]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spoVT ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 Bacillus subtilis])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucokinase Glucokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </span></td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ro5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ro5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ro5 RCSB], [http://www.ebi.ac.uk/pdbsum/2ro5 PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ro/2ro5_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Understanding the DNA recognition and binding by the AbrB-like family of transcriptional regulators is of significant interest since these proteins enable bacteria to elicit the appropriate response to diverse environmental stimuli. Although these "transition-state regulator" proteins have been well characterized at the genetic level, the general and specific mechanisms of DNA binding remain elusive. We present RDC-refined NMR solution structures and dynamic properties of the DNA-binding domains of three Bacillus subtilis transition-state regulators: AbrB, Abh, and SpoVT. We combined previously investigated DNase I footprinting, DNA methylation, gel-shift assays, and mutagenic and NMR studies to generate a structural model of the complex between AbrBN(55) and its cognate promoter, abrB8. These investigations have enabled us to generate a model for the specific nature of the transition-state regulator-DNA interaction, a structure that has remained elusive thus far.

-	<!--	+	Insights into the nature of DNA binding of AbrB-like transcription factors.,Sullivan DM, Bobay BG, Kojetin DJ, Thompson RJ, Rance M, Strauch MA, Cavanagh J Structure. 2008 Nov 12;16(11):1702-13. PMID:19000822<ref>PMID:19000822</ref>
-	~~The line below this paragraph~~, ~~containing "STRUCTURE_2ro5"~~, ~~creates the "~~Structure ~~Box" on the page~~.	+
-	~~You may change the PDB parameter~~ (~~which sets the PDB file loaded into the applet~~)	+
-	~~or the SCENE parameter (which sets the initial scene displayed when the page is loaded),~~	+
-	~~or leave the SCENE parameter empty for the default display~~.	+
-	-->	+
-	~~{{STRUCTURE_2ro5\| PDB=2ro5 \| SCENE= }}~~	+

-	~~===RDC-refined solution structure~~ of the ~~N-terminal DNA recognition domain of the Bacillus subtilis transition-state regulator SpoVT===~~	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-		+	== References ==
-	~~<!--~~	+	<references/>
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_19000822}}, adds the Publication Abstract to the page~~	+	__TOC__
-	~~(as it appears on PubMed at http://www~~.~~pubmed~~.~~gov), where 19000822 is the PubMed ID number~~.	+	</StructureSection>
-	-->	+
-	~~{{ABSTRACT_PUBMED_19000822}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2ro5]] is a 2 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RO5 OCA].~~	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:019000822<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Bacillus subtilis]]		[[Category: Bacillus subtilis]]
	[[Category: Bobay, B G.]]		[[Category: Bobay, B G.]]

OCA: Protected "2ro5" [edit=sysop:move=sysop]

OCA — Wed, 04 Apr 2012 05:14:12 GMT

Protected "2ro5" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:14, 4 April 2012

OCA at 05:14, 4 April 2012

OCA — Wed, 04 Apr 2012 05:14:10 GMT

←Older revision		Revision as of 05:14, 4 April 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2ro5.png\|left\|200px]]		[[Image:2ro5.png\|left\|200px]]

Line 12:		Line 11:
	===RDC-refined solution structure of the N-terminal DNA recognition domain of the Bacillus subtilis transition-state regulator SpoVT===		===RDC-refined solution structure of the N-terminal DNA recognition domain of the Bacillus subtilis transition-state regulator SpoVT===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_19000822}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 19000822 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_19000822}}

	==About this Structure==		==About this Structure==
-	~~2RO5~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RO5 OCA].	+	[[2ro5]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RO5 OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:019000822</ref><references group="xtra"/>
	[[Category: Bacillus subtilis]]		[[Category: Bacillus subtilis]]
	[[Category: Bobay, B G.]]		[[Category: Bobay, B G.]]
Line 29:		Line 37:
	[[Category: Transcription]]		[[Category: Transcription]]
	[[Category: Transcription regulation]]		[[Category: Transcription regulation]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Nov 20 07:52:59 2008''

OCA at 05:53, 20 November 2008

OCA — Thu, 20 Nov 2008 05:53:00 GMT

←Older revision		Revision as of 05:53, 20 November 2008
Line 14:		Line 14:

	==About this Structure==		==About this Structure==
-	2RO5 is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RO5 OCA].	+	2RO5 is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RO5 OCA].
	[[Category: Bacillus subtilis]]		[[Category: Bacillus subtilis]]
-	[[Category: Single protein]]
	[[Category: Bobay, B G.]]		[[Category: Bobay, B G.]]
	[[Category: Cavanagh, J.]]		[[Category: Cavanagh, J.]]
Line 31:		Line 30:
	[[Category: Transcription regulation]]		[[Category: Transcription regulation]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed~~ Nov 19 20:44:13 2008''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Nov 20 07:52:59 2008''