7ubk - Revision history

OCA at 17:13, 18 October 2023

OCA — Wed, 18 Oct 2023 17:13:33 GMT

←Older revision		Revision as of 17:13, 18 October 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7ubk]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_phage_Lambda Escherichia phage Lambda]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7UBK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7UBK FirstGlance]. <br>		<table><tr><td colspan='2'>[[7ubk]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_phage_Lambda Escherichia phage Lambda]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7UBK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7UBK FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 1.97Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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=7ubk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ubk OCA], [https://pdbe.org/7ubk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ubk RCSB], [https://www.ebi.ac.uk/pdbsum/7ubk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ubk 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=7ubk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ubk OCA], [https://pdbe.org/7ubk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ubk RCSB], [https://www.ebi.ac.uk/pdbsum/7ubk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ubk ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/REGQ_LAMBD REGQ_LAMBD]] Positively regulates expression of the phage early and late gene operons. Bacterial host RNA polymerase modified by antitermination proteins transcribes through termination sites that otherwise prevent expression of the regulated genes.	+	[https://www.uniprot.org/uniprot/REGQ_LAMBD REGQ_LAMBD] Positively regulates expression of the phage early and late gene operons. Bacterial host RNA polymerase modified by antitermination proteins transcribes through termination sites that otherwise prevent expression of the regulated genes.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 06:15, 28 September 2022

OCA — Wed, 28 Sep 2022 06:15:58 GMT

←Older revision		Revision as of 06:15, 28 September 2022
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7ubk is ~~ON HOLD until Paper~~ Publication	+	==Transcription antitermination factor Qlambda, type-II crystal==
		+	<StructureSection load='7ubk' size='340' side='right'caption='[[7ubk]], [[Resolution\|resolution]] 1.97Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[7ubk]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_phage_Lambda Escherichia phage Lambda]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7UBK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7UBK FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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=7ubk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ubk OCA], [https://pdbe.org/7ubk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ubk RCSB], [https://www.ebi.ac.uk/pdbsum/7ubk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ubk ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[https://www.uniprot.org/uniprot/REGQ_LAMBD REGQ_LAMBD]] Positively regulates expression of the phage early and late gene operons. Bacterial host RNA polymerase modified by antitermination proteins transcribes through termination sites that otherwise prevent expression of the regulated genes.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Lambdoid bacteriophage Q proteins are transcription antipausing and antitermination factors that enable RNA polymerase (RNAP) to read through pause and termination sites. Q proteins load onto RNAP engaged in promoter-proximal pausing at a Q binding element (QBE) and adjacent sigma-dependent pause element to yield a Q-loading complex, and they translocate with RNAP as a pausing-deficient, termination-deficient Q-loaded complex. In previous work, we showed that the Q protein of bacteriophage 21 (Q21) functions by forming a nozzle that narrows and extends the RNAP RNA-exit channel, preventing formation of pause and termination RNA hairpins. Here, we report atomic structures of four states on the pathway of antitermination by the Q protein of bacteriophage lambda (Qlambda), a Q protein that shows no sequence similarity to Q21 and that, unlike Q21, requires the transcription elongation factor NusA for efficient antipausing and antitermination. We report structures of Qlambda, the Qlambda-QBE complex, the NusA-free pre-engaged Qlambda-loading complex, and the NusA-containing engaged Qlambda-loading complex. The results show that Qlambda, like Q21, forms a nozzle that narrows and extends the RNAP RNA-exit channel, preventing formation of RNA hairpins. However, the results show that Qlambda has no three-dimensional structural similarity to Q21, employs a different mechanism of QBE recognition than Q21, and employs a more complex process for loading onto RNAP than Q21, involving recruitment of Qlambda to form a pre-engaged loading complex, followed by NusA-facilitated refolding of Qlambda to form an engaged loading complex. The results establish that Qlambda and Q21 are not structural homologs and are solely functional analogs.

-	~~Authors: Yin~~, Z., Ebright, R.H.	+	In transcription antitermination by Qlambda, NusA induces refolding of Qlambda to form a nozzle that extends the RNA polymerase RNA-exit channel.,Yin Z, Bird JG, Kaelber JT, Nickels BE, Ebright RH Proc Natl Acad Sci U S A. 2022 Aug 16;119(33):e2205278119. doi:, 10.1073/pnas.2205278119. Epub 2022 Aug 11. PMID:35951650<ref>PMID:35951650</ref>

-	~~Description: Transcription antitermination factor Qlambda~~, ~~type~~-~~II crystal~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
-	[[Category: Ebright~~, R.H~~]]	+	<div class="pdbe-citations 7ubk" style="background-color:#fffaf0;"></div>
-	[[Category: Yin, Z]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Escherichia phage Lambda]]
		+	[[Category: Large Structures]]
		+	[[Category: Ebright RH]]
		+	[[Category: Yin Z]]

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

OCA — Wed, 23 Mar 2022 09:52:04 GMT

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

←Older revision

Revision as of 09:52, 23 March 2022

OCA: New page: '''Unreleased structure''' The entry 7ubk is ON HOLD until Paper Publication Authors: Yin, Z., Ebright, R.H. Description: Transcription antitermination factor Qlambda, type-II crystal ...

OCA — Wed, 23 Mar 2022 09:52:02 GMT

New page: '''Unreleased structure''' The entry 7ubk is ON HOLD until Paper Publication Authors: Yin, Z., Ebright, R.H. Description: Transcription antitermination factor Qlambda, type-II crystal ...

New page

'''Unreleased structure'''

The entry 7ubk is ON HOLD until Paper Publication

Authors: Yin, Z., Ebright, R.H.

Description: Transcription antitermination factor Qlambda, type-II crystal
[[Category: Unreleased Structures]]
[[Category: Ebright, R.H]]
[[Category: Yin, Z]]