OCA at 16:53, 29 November 2023

OCA — Wed, 29 Nov 2023 16:53:23 GMT

←Older revision		Revision as of 16:53, 29 November 2023
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-	====	+	==The crystal structure of the C-terminal domain of T. thermophilus UvrD complexed with the N-terminal domain of UvrB==
-	<StructureSection load='7egt' size='340' side='right'caption='[[7egt]]' scene=''>	+	<StructureSection load='7egt' size='340' side='right'caption='[[7egt]], [[Resolution\|resolution]] 2.58Å' 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'>[[7egt]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus] and [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7EGT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7EGT 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=7egt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7egt OCA], [https://pdbe.org/7egt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7egt RCSB], [https://www.ebi.ac.uk/pdbsum/7egt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7egt 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]] 2.581Å</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=7egt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7egt OCA], [https://pdbe.org/7egt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7egt RCSB], [https://www.ebi.ac.uk/pdbsum/7egt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7egt ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/UVRB_THET8 UVRB_THET8] The UvrABC repair system catalyzes the recognition and processing of DNA lesions. A damage recognition complex composed of 2 UvrA and 2 UvrB subunits scans DNA for abnormalities. Upon binding of the UvrA(2)B(2) complex to a putative damaged site, the DNA wraps around one UvrB monomer. DNA wrap is dependent on ATP binding by UvrB and probably causes local melting of the DNA helix, facilitating insertion of UvrB beta-hairpin between the DNA strands. Then UvrB probes one DNA strand for the presence of a lesion. If a lesion is found the UvrA subunits dissociate and the UvrB-DNA preincision complex is formed. This complex is subsequently bound by UvrC and the second UvrB is released. If no lesion is found, the DNA wraps around the other UvrB subunit that will check the other stand for damage (By similarity).
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Transcription-coupled DNA repair (TCR) is presumed to be a minor sub-pathway of nucleotide excision repair (NER) in bacteria. Global genomic repair is thought to perform the bulk of repair independently of transcription. TCR is also believed to be mediated exclusively by Mfd-a DNA translocase of a marginal NER phenotype(1-3). Here we combined in cellulo cross-linking mass spectrometry with structural, biochemical and genetic approaches to map the interactions within the TCR complex (TCRC) and to determine the actual sequence of events that leads to NER in vivo. We show that RNA polymerase (RNAP) serves as the primary sensor of DNA damage and acts as a platform for the recruitment of NER enzymes. UvrA and UvrD associate with RNAP continuously, forming a surveillance pre-TCRC. In response to DNA damage, pre-TCRC recruits a second UvrD monomer to form a helicase-competent UvrD dimer that promotes backtracking of the TCRC. The weakening of UvrD-RNAP interactions renders cells sensitive to genotoxic stress. TCRC then recruits a second UvrA molecule and UvrB to initiate the repair process. Contrary to the conventional view, we show that TCR accounts for the vast majority of chromosomal repair events; that is, TCR thoroughly dominates over global genomic repair. We also show that TCR is largely independent of Mfd. We propose that Mfd has an indirect role in this process: it participates in removing obstructive RNAPs in front of TCRCs and also in recovering TCRCs from backtracking after repair has been completed.
		+
		+	Crucial role and mechanism of transcription-coupled DNA repair in bacteria.,Bharati BK, Gowder M, Zheng F, Alzoubi K, Svetlov V, Kamarthapu V, Weaver JW, Epshtein V, Vasilyev N, Shen L, Zhang Y, Nudler E Nature. 2022 Apr;604(7904):152-159. doi: 10.1038/s41586-022-04530-6. Epub 2022 , Mar 30. PMID:35355008<ref>PMID:35355008</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7egt" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Helicase 3D structures\|Helicase 3D structures]]
		+	*[[UvrABC\|UvrABC]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Thermus thermophilus]]
		+	[[Category: Thermus thermophilus HB8]]
		+	[[Category: Li L]]
		+	[[Category: Shen L]]
		+	[[Category: Zhang Y]]
		+	[[Category: Zheng F]]

OCA at 10:22, 6 April 2022

OCA — Wed, 06 Apr 2022 10:22:16 GMT

←Older revision		Revision as of 10:22, 6 April 2022
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-	'''Unreleased structure'''

-	~~The entry~~ 7egt ~~is ON HOLD until Jun 23 2023~~	+	====
-		+	<StructureSection load='7egt' size='340' side='right'caption='[[7egt]]' 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=7egt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7egt OCA], [https://pdbe.org/7egt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7egt RCSB], [https://www.ebi.ac.uk/pdbsum/7egt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7egt ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA at 09:26, 30 March 2022

OCA — Wed, 30 Mar 2022 09:26:04 GMT

←Older revision		Revision as of 09:26, 30 March 2022
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7egt is ON HOLD until ~~Paper Publication~~	+	The entry 7egt is ON HOLD until Jun 23 2023

	Authors:		Authors:

OCA at 04:29, 7 April 2021

OCA — Wed, 07 Apr 2021 04:29:54 GMT

←Older revision		Revision as of 04:29, 7 April 2021
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors:		Authors:

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

OCA — Wed, 31 Mar 2021 09:18:58 GMT

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

←Older revision

Revision as of 09:18, 31 March 2021

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

OCA — Wed, 31 Mar 2021 09:18:57 GMT

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

New page