OCA at 05:46, 7 June 2023

OCA — Wed, 07 Jun 2023 05:46:43 GMT

←Older revision		Revision as of 05:46, 7 June 2023
Line 1:		Line 1:

-	====	+	==Crystal structure of (+)-pulegone reductase from Mentha piperita==
-	<StructureSection load='7vwy' size='340' side='right'caption='[[7vwy]]' scene=''>	+	<StructureSection load='7vwy' size='340' side='right'caption='[[7vwy]], [[Resolution\|resolution]] 4.57Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7vwy]] is a 9 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] 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=7VWY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7VWY FirstGlance]. <br>
-	</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=7vwy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7vwy OCA], [https://pdbe.org/7vwy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7vwy RCSB], [https://www.ebi.ac.uk/pdbsum/7vwy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7vwy ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=7vwy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7vwy OCA], [https://pdbe.org/7vwy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7vwy RCSB], [https://www.ebi.ac.uk/pdbsum/7vwy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7vwy ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/RPOA_ECOLI RPOA_ECOLI] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. This subunit plays an important role in subunit assembly since its dimerization is the first step in the sequential assembly of subunits to form the holoenzyme.[HAMAP-Rule:MF_00059]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Rob, which serves as a paradigm of the large AraC/XylS family transcription activators, regulates diverse subsets of genes involved in multidrug resistance and stress response. However, the underlying mechanism of how it engages bacterial RNA polymerase and promoter DNA to finely respond to environmental stimuli is still elusive. Here, we present two cryo-EM structures of Rob-dependent transcription activation complex (Rob-TAC) comprising of Escherichia coli RNA polymerase (RNAP), Rob-regulated promoter and Rob in alternative conformations. The structures show that a single Rob engages RNAP by interacting with RNAP alphaCTD and sigma70R4, revealing their generally important regulatory roles. Notably, by occluding sigma70R4 from binding to -35 element, Rob specifically binds to the conserved Rob binding box through its consensus HTH motifs, and retains DNA bending by aid of the accessory acidic loop. More strikingly, our ligand docking and biochemical analysis demonstrate that the large Rob C-terminal domain (Rob CTD) shares great structural similarity with the global Gyrl-like domains in effector binding and allosteric regulation, and coordinately promotes formation of competent Rob-TAC. Altogether, our structural and biochemical data highlight the detailed molecular mechanism of Rob-dependent transcription activation, and provide favorable evidences for understanding the physiological roles of the other AraC/XylS-family transcription factors.
		+
		+	Structural basis of transcription activation by Rob, a pleiotropic AraC/XylS family regulator.,Shi J, Wang F, Li F, Wang L, Xiong Y, Wen A, Jin Y, Jin S, Gao F, Feng Z, Li J, Zhang Y, Shang Z, Wang S, Feng Y, Lin W Nucleic Acids Res. 2022 Jun 10;50(10):5974-5987. doi: 10.1093/nar/gkac433. PMID:35641097<ref>PMID:35641097</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7vwy" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Escherichia coli]]
		+	[[Category: Escherichia coli K-12]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Feng Y]]
		+	[[Category: Lin W]]

OCA at 05:31, 8 June 2022

OCA — Wed, 08 Jun 2022 05:31:20 GMT

←Older revision		Revision as of 05:31, 8 June 2022
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-	'''Unreleased structure'''

-	~~The entry~~ 7vwy ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='7vwy' size='340' side='right'caption='[[7vwy]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	~~Description~~:	+	</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=7vwy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7vwy OCA], [https://pdbe.org/7vwy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7vwy RCSB], [https://www.ebi.ac.uk/pdbsum/7vwy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7vwy ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA at 12:31, 29 December 2021

OCA — Wed, 29 Dec 2021 12:31:24 GMT

←Older revision		Revision as of 12:31, 29 December 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7vwy is ON HOLD	+	The entry 7vwy is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7vwy" [edit=sysop:move=sysop]

OCA — Wed, 17 Nov 2021 12:22:50 GMT

Protected "7vwy" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:22, 17 November 2021

OCA: New page: '''Unreleased structure''' The entry 7vwy is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 17 Nov 2021 12:22:49 GMT

New page: '''Unreleased structure''' The entry 7vwy is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7vwy is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]

7vwy - Revision history

OCA at 05:46, 7 June 2023

OCA at 05:31, 8 June 2022

OCA at 12:31, 29 December 2021

OCA: Protected "7vwy" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 7vwy is ON HOLD Authors: Description: Category: Unreleased Structures