6utv - Revision history

OCA at 07:58, 11 October 2023

2023-10-11T07:58:13Z

← Older revision		Revision as of 07:58, 11 October 2023
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	====		==E. coli sigma-S transcription initiation complex with a 6-nt RNA ("Fresh" crystal soaked with CTP, UTP, GTP, and ddATP for 150 seconds)==
	<StructureSection load='6utv' size='340' side='right'caption='[[6utv]]' scene=''>		<StructureSection load='6utv' size='340' side='right'caption='[[6utv]], [[Resolution\|resolution]] 3.45Å' 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 [~~http~~://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>		<table><tr><td colspan='2'>[[6utv]] is a 9 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli], [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UTV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6UTV FirstGlance]. <br>
	</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=6utv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6utv OCA], [~~http~~://pdbe.org/6utv PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6utv RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6utv PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6utv ProSAT]</span></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]] 3.45Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DPO:DIPHOSPHATE'>DPO</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <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=6utv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6utv OCA], [https://pdbe.org/6utv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6utv RCSB], [https://www.ebi.ac.uk/pdbsum/6utv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6utv ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/A0A377D9Q8_ECOLX A0A377D9Q8_ECOLX]
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			In bacteria, the dissociable sigma subunit of the RNA polymerase (RNAP) is responsible for initiating RNA synthesis from specific DNA sites. As nascent RNA grows, downstream DNA unwinds and is pulled into the RNAP, causing stress accumulation and initiation complex destabilization. Processive transcription elongation requires at least partial separation of the sigma factor from the RNAP core enzyme. Here, we present a series of transcription complexes captured between the early initiation and elongation phases via in-crystal RNA synthesis and cleavage. Crystal structures of these complexes indicate that stress accumulation during transcription initiation is not due to clashing of the growing nascent RNA with the sigma(3.2) loop, but results from scrunching of the template strand DNA that is contained inside the RNAP by the sigma(3) domain. Our results shed light on how scrunching of template-strand DNA drives both abortive initiation and sigma-RNAP core separation to transition transcription from initiation to elongation.

			Structural Insights into Transcription Initiation from De Novo RNA Synthesis to Transitioning into Elongation.,Zuo Y, De S, Feng Y, Steitz TA iScience. 2020 Aug 11;23(9):101445. doi: 10.1016/j.isci.2020.101445. PMID:32829286<ref>PMID:32829286</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 6utv" style="background-color:#fffaf0;"></div>

			==See Also==
			*[[Sigma factor 3D structures\|Sigma factor 3D structures]]
			== References ==
			<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Escherichia coli]]
			[[Category: Escherichia coli K-12]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Z-disk~~]]		[[Category: Synthetic construct]]
			[[Category: De S]]
			[[Category: Steitz TA]]
			[[Category: Zuo Y]]

OCA at 11:15, 26 August 2020

2020-08-26T11:15:37Z

← Older revision		Revision as of 11:15, 26 August 2020
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	~~'''Unreleased structure'''~~

	~~The entry~~ 6utv ~~is ON HOLD until Paper Publication~~		====
			<StructureSection load='6utv' size='340' side='right'caption='[[6utv]]' scene=''>
	~~Authors~~: ~~Zuo, Y~~.~~, De, S~~.~~, Steitz, T~~.A.		== 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 [http://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
	~~Description~~: E. ~~coli sigma-S transcription initiation complex with a 6-nt RNA (~~""~~Fresh~~"" ~~crystal soaked with CTP~~, ~~UTP~~, ~~GTP~~, ~~and ddATP for 150 seconds)~~		</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=6utv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6utv OCA], [http://pdbe.org/6utv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6utv RCSB], [http://www.ebi.ac.uk/pdbsum/6utv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6utv ProSAT]</span></td></tr>
	[[~~Category~~: ~~Unreleased Structures~~]]		</table>
	[[~~Category~~: ~~Steitz, T~~.A]]		__TOC__
	[[Category: ~~Zuo, Y~~]]		</StructureSection>
	[[Category: ~~De, S~~]]		[[Category: Large Structures]]
			[[Category: Z-disk]]

OCA at 06:05, 8 January 2020

2020-01-08T06:05:48Z

← Older revision		Revision as of 06:05, 8 January 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 6utv is ON HOLD		The entry 6utv is ON HOLD until Paper Publication

	Authors: Zuo, Y., De, S., Steitz, T.A.		Authors: Zuo, Y., De, S., Steitz, T.A.

OCA: Protected "6utv" [edit=sysop:move=sysop]

2019-11-06T05:23:31Z

Protected "6utv" [edit=sysop:move=sysop]

← Older revision	Revision as of 05:23, 6 November 2019
(No difference)

OCA: New page: '''Unreleased structure''' The entry 6utv is ON HOLD Authors: Zuo, Y., De, S., Steitz, T.A. Description: E. coli sigma-S transcription initiation complex with a 6-nt RNA (""Fresh"" cry...

2019-11-06T05:23:29Z

New page: '''Unreleased structure''' The entry 6utv is ON HOLD Authors: Zuo, Y., De, S., Steitz, T.A. Description: E. coli sigma-S transcription initiation complex with a 6-nt RNA (""Fresh"" cry...

New page

'''Unreleased structure'''

The entry 6utv is ON HOLD

Authors: Zuo, Y., De, S., Steitz, T.A.

Description: E. coli sigma-S transcription initiation complex with a 6-nt RNA (""Fresh"" crystal soaked with CTP, UTP, GTP, and ddATP for 150 seconds)
[[Category: Unreleased Structures]]
[[Category: Steitz, T.A]]
[[Category: Zuo, Y]]
[[Category: De, S]]