8g1s - Revision history

OCA at 12:54, 26 July 2023

OCA — Wed, 26 Jul 2023 12:54:17 GMT

←Older revision		Revision as of 12:54, 26 July 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[8g1s]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis] and [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8G1S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8G1S FirstGlance]. <br>		<table><tr><td colspan='2'>[[8g1s]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis] and [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8G1S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8G1S FirstGlance]. <br>
-	</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></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution\|Resolution]] 3.7Å</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></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=8g1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8g1s OCA], [https://pdbe.org/8g1s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8g1s RCSB], [https://www.ebi.ac.uk/pdbsum/8g1s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8g1s 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=8g1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8g1s OCA], [https://pdbe.org/8g1s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8g1s RCSB], [https://www.ebi.ac.uk/pdbsum/8g1s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8g1s ProSAT]</span></td></tr>
	</table>		</table>

OCA at 09:39, 21 June 2023

OCA — Wed, 21 Jun 2023 09:39:15 GMT

←Older revision		Revision as of 09:39, 21 June 2023
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-	'''Unreleased structure'''

-	~~The entry~~ 8g1s is ~~ON HOLD~~	+	==Cryo-EM structure of 3DVA component 1 of Escherichia coli que-PEC (paused elongation complex) RNA Polymerase minus preQ1 ligand==
		+	<StructureSection load='8g1s' size='340' side='right'caption='[[8g1s]], [[Resolution\|resolution]] 3.70Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[8g1s]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis] and [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8G1S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8G1S FirstGlance]. <br>
		+	</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></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=8g1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8g1s OCA], [https://pdbe.org/8g1s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8g1s RCSB], [https://www.ebi.ac.uk/pdbsum/8g1s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8g1s ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A5B9AW69_ECOLX A0A5B9AW69_ECOLX] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.[HAMAP-Rule:MF_00059]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Folding of nascent transcripts can be modulated by the RNA polymerase (RNAP) that carries out their transcription, and vice versa. A pause of RNAP during transcription of a preQ(1) riboswitch (termed que-PEC) is stabilized by a previously characterized template consensus sequence and the ligand-free conformation of the nascent RNA. Ligand binding to the riboswitch induces RNAP pause release and downstream transcription termination; however, the mechanism by which riboswitch folding modulates pausing is unclear. Here, we report single-particle cryo-electron microscopy reconstructions of que-PEC in ligand-free and ligand-bound states. In the absence of preQ(1), the RNA transcript is in an unexpected hyper-translocated state, preventing downstream nucleotide incorporation. Strikingly, on ligand binding, the riboswitch rotates around its helical axis, expanding the surrounding RNAP exit channel and repositioning the transcript for elongation. Our study reveals the tight coupling by which nascent RNA structures and their ligands can functionally regulate the macromolecular transcription machinery.

-	~~Authors: Porta, J.C~~., Chauvier, A., Deb, I., Ellinger, E~~., Frank, A.T.~~, Meze, K., Ohi, M.D.~~, Walter, N~~.G.	+	Structural basis for control of bacterial RNA polymerase pausing by a riboswitch and its ligand.,Chauvier A, Porta JC, Deb I, Ellinger E, Meze K, Frank AT, Ohi MD, Walter NG Nat Struct Mol Biol. 2023 Jun 1. doi: 10.1038/s41594-023-01002-x. PMID:37264140<ref>PMID:37264140</ref>

-	~~Description: Cryo-EM structure~~ of ~~3DVA component 1~~ of ~~Escherichia coli que~~-~~PEC (paused elongation complex) RNA Polymerase minus preQ1 ligand~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: ~~Porta, J.C~~]]	+	<div class="pdbe-citations 8g1s" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Meze, K~~]]	+	== References ==
-	[[Category: ~~Frank,~~ A.T]]	+	<references/>
-	[[Category: Deb, I]]	+	__TOC__
-	[[Category: Ellinger, E]]	+	</StructureSection>
-	[[Category: ~~Chauvier, A~~]]	+	[[Category: Bacillus subtilis]]
-	[[Category: ~~Walter, N.G~~]]	+	[[Category: Escherichia coli]]
-	[[Category: Ohi~~, M.D~~]]	+	[[Category: Large Structures]]
		+	[[Category: Chauvier A]]
		+	[[Category: Deb I]]
		+	[[Category: Ellinger E]]
		+	[[Category: Frank AT]]
		+	[[Category: Meze K]]
		+	[[Category: Ohi MD]]
		+	[[Category: Porta JC]]
		+	[[Category: Walter NG]]

OCA at 06:16, 14 June 2023

OCA — Wed, 14 Jun 2023 06:16:23 GMT

←Older revision		Revision as of 06:16, 14 June 2023
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 8g1s is ON HOLD ~~until Paper Publication~~	+	The entry 8g1s is ON HOLD

	Authors: Porta, J.C., Chauvier, A., Deb, I., Ellinger, E., Frank, A.T., Meze, K., Ohi, M.D., Walter, N.G.		Authors: Porta, J.C., Chauvier, A., Deb, I., Ellinger, E., Frank, A.T., Meze, K., Ohi, M.D., Walter, N.G.

-	Description: Cryo-EM structure of 3DVA ~~cluster~~ 1 ~~an E.~~ coli RNA Polymerase ~~with a pause-inducing riboswitch in the unliganded state~~	+	Description: Cryo-EM structure of 3DVA component 1 of Escherichia coli que-PEC (paused elongation complex) RNA Polymerase minus preQ1 ligand
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
		+	[[Category: Porta, J.C]]
	[[Category: Meze, K]]		[[Category: Meze, K]]
	[[Category: Frank, A.T]]		[[Category: Frank, A.T]]
		+	[[Category: Deb, I]]
		+	[[Category: Ellinger, E]]
	[[Category: Chauvier, A]]		[[Category: Chauvier, A]]
	[[Category: Walter, N.G]]		[[Category: Walter, N.G]]
	[[Category: Ohi, M.D]]		[[Category: Ohi, M.D]]
-	[[Category: Porta, J.C]]
-	[[Category: Deb, I]]
-	[[Category: Ellinger, E]]

OCA at 05:44, 8 March 2023

OCA — Wed, 08 Mar 2023 05:44:23 GMT

←Older revision		Revision as of 05:44, 8 March 2023
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 8g1s is ON HOLD	+	The entry 8g1s is ON HOLD until Paper Publication

	Authors: Porta, J.C., Chauvier, A., Deb, I., Ellinger, E., Frank, A.T., Meze, K., Ohi, M.D., Walter, N.G.		Authors: Porta, J.C., Chauvier, A., Deb, I., Ellinger, E., Frank, A.T., Meze, K., Ohi, M.D., Walter, N.G.

OCA at 08:44, 15 February 2023

OCA — Wed, 15 Feb 2023 08:44:49 GMT

←Older revision		Revision as of 08:44, 15 February 2023
Line 5:		Line 5:
	Authors: Porta, J.C., Chauvier, A., Deb, I., Ellinger, E., Frank, A.T., Meze, K., Ohi, M.D., Walter, N.G.		Authors: Porta, J.C., Chauvier, A., Deb, I., Ellinger, E., Frank, A.T., Meze, K., Ohi, M.D., Walter, N.G.

-	Description: Cryo-EM structure of 3DVA cluster 1 an E. coli RNA Polymerase with a pause-inducing riboswitch in the unliganded state.	+	Description: Cryo-EM structure of 3DVA cluster 1 an E. coli RNA Polymerase with a pause-inducing riboswitch in the unliganded state
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Meze, K]]		[[Category: Meze, K]]

OCA: Protected "8g1s" [edit=sysop:move=sysop]

OCA — Wed, 08 Feb 2023 05:20:11 GMT

Protected "8g1s" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:20, 8 February 2023

OCA: New page: '''Unreleased structure''' The entry 8g1s is ON HOLD Authors: Porta, J.C., Chauvier, A., Deb, I., Ellinger, E., Frank, A.T., Meze, K., Ohi, M.D., Walter, N.G. Description: Cryo-EM stru...

OCA — Wed, 08 Feb 2023 05:20:09 GMT

New page: '''Unreleased structure''' The entry 8g1s is ON HOLD Authors: Porta, J.C., Chauvier, A., Deb, I., Ellinger, E., Frank, A.T., Meze, K., Ohi, M.D., Walter, N.G. Description: Cryo-EM stru...

New page

'''Unreleased structure'''

The entry 8g1s is ON HOLD

Authors: Porta, J.C., Chauvier, A., Deb, I., Ellinger, E., Frank, A.T., Meze, K., Ohi, M.D., Walter, N.G.

Description: Cryo-EM structure of 3DVA cluster 1 an E. coli RNA Polymerase with a pause-inducing riboswitch in the unliganded state.
[[Category: Unreleased Structures]]
[[Category: Meze, K]]
[[Category: Frank, A.T]]
[[Category: Chauvier, A]]
[[Category: Walter, N.G]]
[[Category: Ohi, M.D]]
[[Category: Porta, J.C]]
[[Category: Deb, I]]
[[Category: Ellinger, E]]