4rx6 - Revision history

OCA at 17:58, 20 September 2023

OCA — Wed, 20 Sep 2023 17:58:05 GMT

←Older revision		Revision as of 17:58, 20 September 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4rx6]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis_subsp._subtilis_str._168 Bacillus subtilis subsp. subtilis str. 168]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RX6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4RX6 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4rx6]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis_subsp._subtilis_str._168 Bacillus subtilis subsp. subtilis str. 168]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RX6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4RX6 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene></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]] 2.5994Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene></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=4rx6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rx6 OCA], [https://pdbe.org/4rx6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4rx6 RCSB], [https://www.ebi.ac.uk/pdbsum/4rx6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4rx6 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=4rx6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rx6 OCA], [https://pdbe.org/4rx6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4rx6 RCSB], [https://www.ebi.ac.uk/pdbsum/4rx6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4rx6 ProSAT]</span></td></tr>
	</table>		</table>

OCA at 08:32, 8 March 2023

OCA — Wed, 08 Mar 2023 08:32:30 GMT

←Older revision		Revision as of 08:32, 8 March 2023
Line 3:		Line 3:
	<StructureSection load='4rx6' size='340' side='right'caption='[[4rx6]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='4rx6' size='340' side='right'caption='[[4rx6]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4rx6]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Bacsu Bacsu~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RX6 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4RX6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4rx6]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis_subsp._subtilis_str._168 Bacillus subtilis subsp. subtilis str. 168]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RX6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4RX6 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4r25\|4r25]]</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=4rx6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rx6 OCA], [https://pdbe.org/4rx6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4rx6 RCSB], [https://www.ebi.ac.uk/pdbsum/4rx6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4rx6 ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nrgB, BSU36520 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=224308 BACSU])~~</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=4rx6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rx6 OCA], [~~http~~://pdbe.org/4rx6 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4rx6 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4rx6 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4rx6 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/NRGB_BACSU NRGB_BACSU]] Required for full induction of the nrgAB operon under conditions of ammonium limitation.<ref>PMID:14600241</ref>	+	[https://www.uniprot.org/uniprot/NRGB_BACSU NRGB_BACSU] Required for full induction of the nrgAB operon under conditions of ammonium limitation.<ref>PMID:14600241</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacsu~~]]	+	[[Category: Bacillus subtilis subsp. subtilis str. 168]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Chinnam~~, N G~~]]	+	[[Category: Chinnam NG]]
-	[[Category: Cuthbert, B]]	+	[[Category: Cuthbert B]]
-	[[Category: Schumacher~~, M A~~]]	+	[[Category: Schumacher MA]]
-	[[Category: Tonthat, N]]	+	[[Category: Tonthat N]]
-	[[Category: Whitfill, T]]	+	[[Category: Whitfill T]]
-	~~[[Category: Pii protein]]~~	+
-	~~[[Category: Transcription~~]]	+

OCA at 10:14, 1 May 2019

OCA — Wed, 01 May 2019 10:14:01 GMT

←Older revision		Revision as of 10:14, 1 May 2019
Line 1:		Line 1:
		+
	==Structure of B. subtilis GlnK-ATP complex to 2.6 Angstrom==		==Structure of B. subtilis GlnK-ATP complex to 2.6 Angstrom==
-	<StructureSection load='4rx6' size='340' side='right' caption='[[4rx6]], [[Resolution\|resolution]] 2.60Å' scene=''>	+	<StructureSection load='4rx6' size='340' side='right'caption='[[4rx6]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4rx6]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RX6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4RX6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4rx6]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacsu Bacsu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RX6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4RX6 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4r25\|4r25]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4r25\|4r25]]</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=4rx6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rx6 OCA], [http://pdbe.org/4rx6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4rx6 RCSB], [http://www.ebi.ac.uk/pdbsum/4rx6 PDBsum]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nrgB, BSU36520 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=224308 BACSU])</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=4rx6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rx6 OCA], [http://pdbe.org/4rx6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4rx6 RCSB], [http://www.ebi.ac.uk/pdbsum/4rx6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4rx6 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 22:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacsu]]
		+	[[Category: Large Structures]]
	[[Category: Chinnam, N G]]		[[Category: Chinnam, N G]]
	[[Category: Cuthbert, B]]		[[Category: Cuthbert, B]]

OCA at 19:31, 30 December 2015

OCA — Wed, 30 Dec 2015 19:31:15 GMT

←Older revision		Revision as of 19:31, 30 December 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Structure of B. subtilis GlnK-ATP complex to 2.6 Angstrom==
		+	<StructureSection load='4rx6' size='340' side='right' caption='[[4rx6]], [[Resolution\|resolution]] 2.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4rx6]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RX6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4RX6 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4r25\|4r25]]</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=4rx6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rx6 OCA], [http://pdbe.org/4rx6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4rx6 RCSB], [http://www.ebi.ac.uk/pdbsum/4rx6 PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/NRGB_BACSU NRGB_BACSU]] Required for full induction of the nrgAB operon under conditions of ammonium limitation.<ref>PMID:14600241</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	All cells must sense and adapt to changing nutrient availability. However, detailed molecular mechanisms coordinating such regulatory pathways remain poorly understood. In Bacillus subtilis, nitrogen homeostasis is controlled by a unique circuitry composed of the regulator TnrA, which is deactivated by feedback-inhibited glutamine synthetase (GS) during nitrogen excess and stabilized by GlnK upon nitrogen depletion, and the repressor GlnR. Here we describe a complete molecular dissection of this network. TnrA and GlnR, the global nitrogen homeostatic transcription regulators, are revealed as founders of a new structural family of dimeric DNA-binding proteins with C-terminal, flexible, effector-binding sensors that modulate their dimerization. Remarkably, the TnrA sensor domains insert into GS intersubunit catalytic pores, destabilizing the TnrA dimer and causing an unprecedented GS dodecamer-to-tetradecamer conversion, which concomitantly deactivates GS. In contrast, each subunit of the GlnK trimer "templates" active TnrA dimers. Unlike TnrA, GlnR sensors mediate an autoinhibitory dimer-destabilizing interaction alleviated by GS, which acts as a GlnR chaperone. Thus, these studies unveil heretofore unseen mechanisms by which inducible sensor domains drive metabolic reprograming in the model Gram-positive bacterium B. subtilis.

-	~~The entry 4rx6 is ON HOLD until Paper Publication~~	+	Structures of regulatory machinery reveal novel molecular mechanisms controlling B. subtilis nitrogen homeostasis.,Schumacher MA, Chinnam NB, Cuthbert B, Tonthat NK, Whitfill T Genes Dev. 2015 Feb 15;29(4):451-64. doi: 10.1101/gad.254714.114. PMID:25691471<ref>PMID:25691471</ref>

-	~~Authors: Schumacher~~, M.A.~~, Cuthbert, B., Tonthat, N., Chinnam, N.G., Whitfill, T~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description: Structure of B. subtilis GlnK~~-~~ATP complex to 2.6 Angstrom~~	+	<div class="pdbe-citations 4rx6" style="background-color:#fffaf0;"></div>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	== References ==
-	~~[[Category: Whitfill, T]]~~	+	<references/>
-	[[Category: Chinnam, N.G]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Chinnam, N G]]
	[[Category: Cuthbert, B]]		[[Category: Cuthbert, B]]
		+	[[Category: Schumacher, M A]]
	[[Category: Tonthat, N]]		[[Category: Tonthat, N]]
-	[[Category: ~~Schumacher~~, ~~M.A~~]]	+	[[Category: Whitfill, T]]
		+	[[Category: Pii protein]]
		+	[[Category: Transcription]]

OCA at 22:52, 30 November 2015

OCA — Mon, 30 Nov 2015 22:52:27 GMT

←Older revision		Revision as of 22:52, 30 November 2015
Line 7:		Line 7:
	Description: Structure of B. subtilis GlnK-ATP complex to 2.6 Angstrom		Description: Structure of B. subtilis GlnK-ATP complex to 2.6 Angstrom
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Cuthbert, B]]
-	[[Category: Schumacher, M.A]]
	[[Category: Whitfill, T]]		[[Category: Whitfill, T]]
	[[Category: Chinnam, N.G]]		[[Category: Chinnam, N.G]]
		+	[[Category: Cuthbert, B]]
	[[Category: Tonthat, N]]		[[Category: Tonthat, N]]
		+	[[Category: Schumacher, M.A]]

OCA at 07:59, 4 March 2015

OCA — Wed, 04 Mar 2015 07:59:10 GMT

←Older revision		Revision as of 07:59, 4 March 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4rx6 is ON HOLD	+	The entry 4rx6 is ON HOLD until Paper Publication

	Authors: Schumacher, M.A., Cuthbert, B., Tonthat, N., Chinnam, N.G., Whitfill, T.		Authors: Schumacher, M.A., Cuthbert, B., Tonthat, N., Chinnam, N.G., Whitfill, T.

OCA at 17:33, 24 December 2014

OCA — Wed, 24 Dec 2014 17:33:45 GMT

←Older revision		Revision as of 17:33, 24 December 2014
Line 6:		Line 6:

	Description: Structure of B. subtilis GlnK-ATP complex to 2.6 Angstrom		Description: Structure of B. subtilis GlnK-ATP complex to 2.6 Angstrom
		+	[[Category: Unreleased Structures]]
		+	[[Category: Cuthbert, B]]
		+	[[Category: Schumacher, M.A]]
		+	[[Category: Whitfill, T]]
		+	[[Category: Chinnam, N.G]]
		+	[[Category: Tonthat, N]]

OCA: Protected "4rx6" [edit=sysop:move=sysop]

OCA — Wed, 17 Dec 2014 11:08:27 GMT

Protected "4rx6" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:08, 17 December 2014

OCA: New page: '''Unreleased structure''' The entry 4rx6 is ON HOLD Authors: Schumacher, M.A., Cuthbert, B., Tonthat, N., Chinnam, N.G., Whitfill, T. Description: Structure of B. subtilis GlnK-ATP co...

OCA — Wed, 17 Dec 2014 11:08:25 GMT

New page: '''Unreleased structure''' The entry 4rx6 is ON HOLD Authors: Schumacher, M.A., Cuthbert, B., Tonthat, N., Chinnam, N.G., Whitfill, T. Description: Structure of B. subtilis GlnK-ATP co...

New page

'''Unreleased structure'''

The entry 4rx6 is ON HOLD

Authors: Schumacher, M.A., Cuthbert, B., Tonthat, N., Chinnam, N.G., Whitfill, T.

Description: Structure of B. subtilis GlnK-ATP complex to 2.6 Angstrom