6yhz - Revision history

OCA at 11:08, 14 June 2023

OCA — Wed, 14 Jun 2023 11:08:22 GMT

←Older revision		Revision as of 11:08, 14 June 2023
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	==UvrD helicase RNA polymerase interactions are governed by UvrDs carboxy terminal Tudor domain.==		==UvrD helicase RNA polymerase interactions are governed by UvrDs carboxy terminal Tudor domain.==
-	<StructureSection load='6yhz' size='340' side='right'caption='[[6yhz~~]], [[NMR_Ensembles_of_Models \| 10 NMR models~~]]' scene=''>	+	<StructureSection load='6yhz' size='340' side='right'caption='[[6yhz]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6yhz]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_coli"_migula_1895 "bacillus~~ coli~~" migula 1895~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6YHZ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6YHZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6yhz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6YHZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6YHZ FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mfd, ELT49_18965 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>	+	</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=6yhz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6yhz OCA], [https://pdbe.org/6yhz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6yhz RCSB], [https://www.ebi.ac.uk/pdbsum/6yhz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6yhz 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=6yhz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6yhz OCA], [~~http~~://pdbe.org/6yhz PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6yhz RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6yhz PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6yhz ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~A0A5F0Q0Z8_ECOLX A0A5F0Q0Z8_ECOLX]~~] Couples transcription and DNA repair by recognizing RNA polymerase (RNAP) stalled at DNA lesions. Mediates ATP-dependent release of RNAP and its truncated transcript from the DNA, and recruitment of nucleotide excision repair machinery to the damaged site.~~[HAMAP-Rule~~:~~MF_00969]~~	+	[https://www.uniprot.org/uniprot/MFD_ECOLI MFD_ECOLI] Couples transcription and DNA repair by recognizing RNA polymerase (RNAP) stalled at DNA lesions. Mediates ATP-dependent release of RNAP and its truncated transcript from the DNA, and recruitment of nucleotide excision repair machinery to the damaged site. Can also dissociate RNAP that is blocked by low concentration of nucleoside triphosphates or by physical obstruction, such as bound proteins. In addition, can rescue arrested complexes by promoting forward translocation. Has ATPase activity, which is required for removal of stalled RNAP, but seems to lack helicase activity. May act through a translocase activity that rewinds upstream DNA, leading either to translocation or to release of RNAP when the enzyme active site can not continue elongation.<ref>PMID:8465200</ref> <ref>PMID:7876261</ref> <ref>PMID:7876262</ref> <ref>PMID:12086674</ref> <ref>PMID:19700770</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 18:		Line 17:
	</div>		</div>
	<div class="pdbe-citations 6yhz" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6yhz" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Helicase 3D structures\|Helicase 3D structures]]
		+	*[[Transcription-repair coupling factor 3D structures\|Transcription-repair coupling factor 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus~~ coli ~~migula 1895~~]]	+	[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Burmann~~, B B~~]]	+	[[Category: Burmann BB]]
-	[[Category: Kawale~~, A A]]~~	+	[[Category: Kawale AA]]
-	~~[[Category: Dna-repair]]~~	+
-	~~[[Category: Mfd]]~~	+
-	~~[[Category: Protein binding]]~~	+
-	~~[[Category: Tcr]]~~	+
-	~~[[Category: Tudor~~]]	+

OCA at 09:55, 18 November 2020

OCA — Wed, 18 Nov 2020 09:55:44 GMT

←Older revision		Revision as of 09:55, 18 November 2020
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	==UvrD helicase RNA polymerase interactions are governed by UvrDs carboxy terminal Tudor domain.==		==UvrD helicase RNA polymerase interactions are governed by UvrDs carboxy terminal Tudor domain.==
-	<StructureSection load='6yhz' size='340' side='right'caption='[[6yhz]]' scene=''>	+	<StructureSection load='6yhz' size='340' side='right'caption='[[6yhz]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' 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=6YHZ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6YHZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6yhz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6YHZ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6YHZ 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=6yhz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6yhz OCA], [http://pdbe.org/6yhz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6yhz RCSB], [http://www.ebi.ac.uk/pdbsum/6yhz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6yhz ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mfd, ELT49_18965 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=6yhz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6yhz OCA], [http://pdbe.org/6yhz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6yhz RCSB], [http://www.ebi.ac.uk/pdbsum/6yhz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6yhz ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/A0A5F0Q0Z8_ECOLX A0A5F0Q0Z8_ECOLX]] Couples transcription and DNA repair by recognizing RNA polymerase (RNAP) stalled at DNA lesions. Mediates ATP-dependent release of RNAP and its truncated transcript from the DNA, and recruitment of nucleotide excision repair machinery to the damaged site.[HAMAP-Rule:MF_00969]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	All living organisms have to cope with the constant threat of genome damage by UV light and other toxic reagents. To maintain the integrity of their genomes, organisms developed a variety of DNA repair pathways. One of these, the Transcription Coupled DNA-Repair (TCR) pathway, is triggered by stalled RNA Polymerase (RNAP) complexes at DNA damage sites on actively transcribed genes. A recently elucidated bacterial TCR pathway employs the UvrD helicase pulling back stalled RNAP complexes from the damage, stimulating recruitment of the DNA-repair machinery. However, structural and functional aspects of UvrD's interaction with RNA Polymerase remain elusive. Here we used advanced solution NMR spectroscopy to investigate UvrD's role within the TCR, identifying that the carboxy-terminal region of the UvrD helicase facilitates RNAP interactions by adopting a Tudor-domain like fold. Subsequently, we functionally analyzed this domain, identifying it as a crucial component for the UvrD-RNAP interaction besides having nucleic-acid affinity.
		+
		+	UvrD helicase-RNA polymerase interactions are governed by UvrD's carboxy-terminal Tudor domain.,Kawale AA, Burmann BM Commun Biol. 2020 Oct 23;3(1):607. doi: 10.1038/s42003-020-01332-2. PMID:33097771<ref>PMID:33097771</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6yhz" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus coli migula 1895]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Burmann BB]]	+	[[Category: Burmann, B B]]
-	[[Category: Kawale AA]]	+	[[Category: Kawale, A A]]
		+	[[Category: Dna-repair]]
		+	[[Category: Mfd]]
		+	[[Category: Protein binding]]
		+	[[Category: Tcr]]
		+	[[Category: Tudor]]

OCA at 08:15, 21 October 2020

OCA — Wed, 21 Oct 2020 08:15:20 GMT

←Older revision		Revision as of 08:15, 21 October 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6yhz ~~is ON HOLD until Paper Publication~~	+	==UvrD helicase RNA polymerase interactions are governed by UvrDs carboxy terminal Tudor domain.==
-		+	<StructureSection load='6yhz' size='340' side='right'caption='[[6yhz]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6YHZ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6YHZ FirstGlance]. <br>
-	~~Description~~:	+	</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=6yhz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6yhz OCA], [http://pdbe.org/6yhz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6yhz RCSB], [http://www.ebi.ac.uk/pdbsum/6yhz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6yhz ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Burmann BB]]
		+	[[Category: Kawale AA]]

OCA at 07:23, 22 July 2020

OCA — Wed, 22 Jul 2020 07:23:41 GMT

←Older revision		Revision as of 07:23, 22 July 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6yhz is ON HOLD	+	The entry 6yhz is ON HOLD until Paper Publication

	Authors:		Authors:

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

OCA — Wed, 08 Apr 2020 05:44:35 GMT

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

←Older revision

Revision as of 05:44, 8 April 2020

OCA: New page: '''Unreleased structure''' The entry 6yhz is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 08 Apr 2020 05:44:34 GMT

New page: '''Unreleased structure''' The entry 6yhz is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6yhz is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]