5zz7 - Revision history

OCA at 10:30, 27 March 2024

OCA — Wed, 27 Mar 2024 10:30:04 GMT

←Older revision		Revision as of 10:30, 27 March 2024
Line 3:		Line 3:
	<StructureSection load='5zz7' size='340' side='right'caption='[[5zz7]], [[Resolution\|resolution]] 2.45Å' scene=''>		<StructureSection load='5zz7' size='340' side='right'caption='[[5zz7]], [[Resolution\|resolution]] 2.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5zz7]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZZ7 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5ZZ7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5zz7]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermotoga_maritima_MSB8 Thermotoga maritima MSB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZZ7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5ZZ7 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAI:1,4-DIHYDRONICOTINAMIDE+ADENINE+DINUCLEOTIDE'>NAI</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]] 2.45Å</td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5zz7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zz7 OCA], [~~http~~://pdbe.org/5zz7 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5zz7 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5zz7 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5zz7 ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAI:1,4-DIHYDRONICOTINAMIDE+ADENINE+DINUCLEOTIDE'>NAI</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=5zz7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zz7 OCA], [https://pdbe.org/5zz7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5zz7 RCSB], [https://www.ebi.ac.uk/pdbsum/5zz7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5zz7 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/REX1_THEMA REX1_THEMA]] Modulates transcription in response to changes in cellular NADH/NAD(+) redox state.	+	[https://www.uniprot.org/uniprot/REX1_THEMA REX1_THEMA] Modulates transcription in response to changes in cellular NADH/NAD(+) redox state.
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	The cellular redox state of organisms continues to fluctuate during the metabolism. All organisms have various sensors that help detect and adapt to changes in the redox state. Nicotinamide adenine dinucleotides (NAD(+)/NADH), which are involved in various cellular metabolic activities as cofactors, have been revealed as the key molecules sensing the intra-cellular redox state. The Rex family members are well conserved transcriptional repressors that regulate the expression of respiratory genes by sensing the redox state according to the intra-cellular NAD(+)/NADH balance. Herein, we reported crystal structures of apo and NAD(+)- and NADH-bound forms of Rex from Thermotoga maritima to analyse the structural basis of transcriptional regulation depending on either NAD(+) or NADH binding. The different orientation of the reduced nicotinamide group to helix alpha9 caused the rearrangement of N-terminal DNA binding domain, thus resulting in closed form of Rex to dissociate from cognate DNA. The structural data of Rex from T. maritima also support the previous redox-sensing mechanism models of Rex homologues.	+
-		+
-	Structural Analysis of Redox-sensing Transcriptional Repressor Rex from Thermotoga maritima.,Park YW, Jang YY, Joo HK, Lee JY Sci Rep. 2018 Sep 5;8(1):13244. doi: 10.1038/s41598-018-31676-z. PMID:30185822<ref>PMID:30185822</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 5zz7" style="background-color:#fffaf0;"></div>~~	+
-	~~== References ==~~	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Jang, Y Y~~]]	+	[[Category: Thermotoga maritima MSB8]]
-	[[Category: ~~Joo, H K~~]]	+	[[Category: Jang YY]]
-	[[Category: ~~Lee, J Y~~]]	+	[[Category: Joo HK]]
-	[[Category: ~~Park, Y W~~]]	+	[[Category: Lee JY]]
-	[[Category: ~~Gene regulation]]~~	+	[[Category: Park YW]]
-	~~[[Category: Redox sensing]]~~	+
-	~~[[Category: Transcription factor~~]]	+

OCA at 21:25, 28 October 2020

OCA — Wed, 28 Oct 2020 21:25:02 GMT

←Older revision		Revision as of 21:25, 28 October 2020
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	==Redox-sensing transcriptional repressor Rex==		==Redox-sensing transcriptional repressor Rex==
-	<StructureSection load='5zz7' size='340' side='right' caption='[[5zz7]], [[Resolution\|resolution]] 2.45Å' scene=''>	+	<StructureSection load='5zz7' size='340' side='right'caption='[[5zz7]], [[Resolution\|resolution]] 2.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5zz7]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZZ7 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5ZZ7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5zz7]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZZ7 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5ZZ7 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAI:1,4-DIHYDRONICOTINAMIDE+ADENINE+DINUCLEOTIDE'>NAI</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAI:1,4-DIHYDRONICOTINAMIDE+ADENINE+DINUCLEOTIDE'>NAI</scene></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=5zz7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zz7 OCA], [http://pdbe.org/5zz7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zz7 RCSB], [http://www.ebi.ac.uk/pdbsum/5zz7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zz7 ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5zz7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zz7 OCA], [http://pdbe.org/5zz7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zz7 RCSB], [http://www.ebi.ac.uk/pdbsum/5zz7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zz7 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 22:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Jang, Y Y]]		[[Category: Jang, Y Y]]
	[[Category: Joo, H K]]		[[Category: Joo, H K]]

OCA at 12:10, 7 November 2018

OCA — Wed, 07 Nov 2018 12:10:06 GMT

←Older revision		Revision as of 12:10, 7 November 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5zz7 is ~~ON HOLD until Paper~~ Publication	+	==Redox-sensing transcriptional repressor Rex==
		+	<StructureSection load='5zz7' size='340' side='right' caption='[[5zz7]], [[Resolution\|resolution]] 2.45Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5zz7]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZZ7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZZ7 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAI:1,4-DIHYDRONICOTINAMIDE+ADENINE+DINUCLEOTIDE'>NAI</scene></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=5zz7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zz7 OCA], [http://pdbe.org/5zz7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zz7 RCSB], [http://www.ebi.ac.uk/pdbsum/5zz7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zz7 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/REX1_THEMA REX1_THEMA]] Modulates transcription in response to changes in cellular NADH/NAD(+) redox state.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The cellular redox state of organisms continues to fluctuate during the metabolism. All organisms have various sensors that help detect and adapt to changes in the redox state. Nicotinamide adenine dinucleotides (NAD(+)/NADH), which are involved in various cellular metabolic activities as cofactors, have been revealed as the key molecules sensing the intra-cellular redox state. The Rex family members are well conserved transcriptional repressors that regulate the expression of respiratory genes by sensing the redox state according to the intra-cellular NAD(+)/NADH balance. Herein, we reported crystal structures of apo and NAD(+)- and NADH-bound forms of Rex from Thermotoga maritima to analyse the structural basis of transcriptional regulation depending on either NAD(+) or NADH binding. The different orientation of the reduced nicotinamide group to helix alpha9 caused the rearrangement of N-terminal DNA binding domain, thus resulting in closed form of Rex to dissociate from cognate DNA. The structural data of Rex from T. maritima also support the previous redox-sensing mechanism models of Rex homologues.

-	~~Authors:~~ Park~~, Y.W.~~, Jang~~, Y.Y.~~, Joo, H.K.~~, Lee, J~~.Y.	+	Structural Analysis of Redox-sensing Transcriptional Repressor Rex from Thermotoga maritima.,Park YW, Jang YY, Joo HK, Lee JY Sci Rep. 2018 Sep 5;8(1):13244. doi: 10.1038/s41598-018-31676-z. PMID:30185822<ref>PMID:30185822</ref>

-	~~Description: Redox-sensing transcriptional repressor Rex~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: ~~Park~~, Y.W]]	+	<div class="pdbe-citations 5zz7" style="background-color:#fffaf0;"></div>
-	[[Category: Joo, H.K]]	+	== References ==
-	[[Category: ~~Jang~~, Y.Y]]	+	<references/>
-	[[Category: ~~Lee~~, J.Y]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Jang, Y Y]]
		+	[[Category: Joo, H K]]
		+	[[Category: Lee, J Y]]
		+	[[Category: Park, Y W]]
		+	[[Category: Gene regulation]]
		+	[[Category: Redox sensing]]
		+	[[Category: Transcription factor]]

OCA at 05:04, 31 October 2018

OCA — Wed, 31 Oct 2018 05:04:57 GMT

←Older revision		Revision as of 05:04, 31 October 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5zz7 is ON HOLD	+	The entry 5zz7 is ON HOLD until Paper Publication

	Authors: Park, Y.W., Jang, Y.Y., Joo, H.K., Lee, J.Y.		Authors: Park, Y.W., Jang, Y.Y., Joo, H.K., Lee, J.Y.
Line 7:		Line 7:
	Description: Redox-sensing transcriptional repressor Rex		Description: Redox-sensing transcriptional repressor Rex
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Jang, Y.Y]]
-	[[Category: Lee, J.Y]]
	[[Category: Park, Y.W]]		[[Category: Park, Y.W]]
	[[Category: Joo, H.K]]		[[Category: Joo, H.K]]
		+	[[Category: Jang, Y.Y]]
		+	[[Category: Lee, J.Y]]

OCA: Protected "5zz7" [edit=sysop:move=sysop]

OCA — Wed, 06 Jun 2018 04:12:59 GMT

Protected "5zz7" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:12, 6 June 2018

OCA: New page: '''Unreleased structure''' The entry 5zz7 is ON HOLD Authors: Park, Y.W., Jang, Y.Y., Joo, H.K., Lee, J.Y. Description: Redox-sensing transcriptional repressor Rex [[Category: Unreleas...

OCA — Wed, 06 Jun 2018 04:12:58 GMT

New page: '''Unreleased structure''' The entry 5zz7 is ON HOLD Authors: Park, Y.W., Jang, Y.Y., Joo, H.K., Lee, J.Y. Description: Redox-sensing transcriptional repressor Rex [[Category: Unreleas...

New page

'''Unreleased structure'''

The entry 5zz7 is ON HOLD

Authors: Park, Y.W., Jang, Y.Y., Joo, H.K., Lee, J.Y.

Description: Redox-sensing transcriptional repressor Rex
[[Category: Unreleased Structures]]
[[Category: Jang, Y.Y]]
[[Category: Lee, J.Y]]
[[Category: Park, Y.W]]
[[Category: Joo, H.K]]