6n9l - Revision history

OCA at 06:48, 11 October 2023

OCA — Wed, 11 Oct 2023 06:48:19 GMT

←Older revision		Revision as of 06:48, 11 October 2023
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	<StructureSection load='6n9l' size='340' side='right'caption='[[6n9l]], [[Resolution\|resolution]] 2.01Å' scene=''>		<StructureSection load='6n9l' size='340' side='right'caption='[[6n9l]], [[Resolution\|resolution]] 2.01Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6n9l]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_43589 Atcc 43589~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6N9L OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6N9L FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6n9l]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermotoga_maritima Thermotoga maritima]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6N9L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6N9L FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=ADP:ADENOSINE~~-~~5-DIPHOSPHATE'>ADP</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]] 2.01Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~uvrA, TM_0480 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=5~~&id~~=~~2336 ATCC 43589])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</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'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6n9l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6n9l OCA], [~~http~~://pdbe.org/6n9l PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6n9l RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6n9l PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6n9l 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=6n9l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6n9l OCA], [https://pdbe.org/6n9l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6n9l RCSB], [https://www.ebi.ac.uk/pdbsum/6n9l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6n9l ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/UVRA_THEMA UVRA_THEMA]] The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrA is an ATPase and a DNA-binding protein. A damage recognition complex composed of 2 UvrA and 2 UvrB subunits scans DNA for abnormalities. When the presence of a lesion has been verified by UvrB, the UvrA molecules dissociate (By similarity).	+	[https://www.uniprot.org/uniprot/UVRA_THEMA UVRA_THEMA] The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrA is an ATPase and a DNA-binding protein. A damage recognition complex composed of 2 UvrA and 2 UvrB subunits scans DNA for abnormalities. When the presence of a lesion has been verified by UvrB, the UvrA molecules dissociate (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 6n9l" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6n9l" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[UvrABC\|UvrABC]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Atcc 43589]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Case, B]]	+	[[Category: Thermotoga maritima]]
-	[[Category: Hartley, S]]	+	[[Category: Case B]]
-	[[Category: Hingorani~~, M M~~]]	+	[[Category: Hartley S]]
-	[[Category: Jeruzalmi, D]]	+	[[Category: Hingorani MM]]
-	[[Category: Osuga, M]]	+	[[Category: Jeruzalmi D]]
-	~~[[Category: Adp]]~~	+	[[Category: Osuga M]]
-	~~[[Category: Dna binding protein]]~~	+
-	~~[[Category: Dna damage repair]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Ner]]~~	+
-	~~[[Category: Nucleotide excision repair]]~~	+
-	~~[[Category: Uvra~~]]	+

OCA at 06:53, 3 July 2019

OCA — Wed, 03 Jul 2019 06:53:36 GMT

←Older revision		Revision as of 06:53, 3 July 2019
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	<StructureSection load='6n9l' size='340' side='right'caption='[[6n9l]], [[Resolution\|resolution]] 2.01Å' scene=''>		<StructureSection load='6n9l' size='340' side='right'caption='[[6n9l]], [[Resolution\|resolution]] 2.01Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6n9l]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6N9L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6N9L FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6n9l]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43589 Atcc 43589]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6N9L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6N9L FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">uvrA, TM_0480 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 ATCC 43589])</td></tr>
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6n9l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6n9l OCA], [http://pdbe.org/6n9l PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6n9l RCSB], [http://www.ebi.ac.uk/pdbsum/6n9l PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6n9l ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6n9l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6n9l OCA], [http://pdbe.org/6n9l PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6n9l RCSB], [http://www.ebi.ac.uk/pdbsum/6n9l PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6n9l ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Atcc 43589]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Case, B]]		[[Category: Case, B]]

OCA at 08:54, 1 May 2019

OCA — Wed, 01 May 2019 08:54:01 GMT

←Older revision		Revision as of 08:54, 1 May 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6n9l is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of T. maritima UvrA d117-399 with ADP==
		+	<StructureSection load='6n9l' size='340' side='right'caption='[[6n9l]], [[Resolution\|resolution]] 2.01Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6n9l]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6N9L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6N9L FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</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'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6n9l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6n9l OCA], [http://pdbe.org/6n9l PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6n9l RCSB], [http://www.ebi.ac.uk/pdbsum/6n9l PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6n9l ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/UVRA_THEMA UVRA_THEMA]] The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrA is an ATPase and a DNA-binding protein. A damage recognition complex composed of 2 UvrA and 2 UvrB subunits scans DNA for abnormalities. When the presence of a lesion has been verified by UvrB, the UvrA molecules dissociate (By similarity).
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The UvrA2 dimer finds lesions in DNA and initiates nucleotide excision repair. Each UvrA monomer contains two essential ATPase sites: proximal (P) and distal (D). The manner whereby their activities enable UvrA2 damage sensing and response remains to be clarified. We report three key findings from the first pre-steady state kinetic analysis of each site. Absent DNA, a P2ATP-D2ADP species accumulates when the low-affinity proximal sites bind ATP and enable rapid ATP hydrolysis and phosphate release by the high-affinity distal sites, and ADP release limits catalytic turnover. Native DNA stimulates ATP hydrolysis by all four sites, causing UvrA2 to transition through a different species, P2ADP-D2ADP. Lesion-containing DNA changes the mechanism again, suppressing ATP hydrolysis by the proximal sites while distal sites cycle through hydrolysis and ADP release, to populate proximal ATP-bound species, P2ATP-Dempty and P2ATP-D2ATP. Thus, damaged and native DNA trigger distinct ATPase site activities, which could explain why UvrA2 forms stable complexes with UvrB on damaged DNA compared with weaker, more dynamic complexes on native DNA. Such specific coupling between the DNA substrate and the ATPase mechanism of each site provides new insights into how UvrA2 utilizes ATP for lesion search, recognition and repair.

-	~~Authors~~:	+	The ATPase mechanism of UvrA2 reveals the distinct roles of proximal and distal ATPase sites in nucleotide excision repair.,Case BC, Hartley S, Osuga M, Jeruzalmi D, Hingorani MM Nucleic Acids Res. 2019 Mar 20. pii: 5403497. doi: 10.1093/nar/gkz180. PMID:30892613<ref>PMID:30892613</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6n9l" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Case, B]]
		+	[[Category: Hartley, S]]
		+	[[Category: Hingorani, M M]]
		+	[[Category: Jeruzalmi, D]]
		+	[[Category: Osuga, M]]
		+	[[Category: Adp]]
		+	[[Category: Dna binding protein]]
		+	[[Category: Dna damage repair]]
		+	[[Category: Hydrolase]]
		+	[[Category: Ner]]
		+	[[Category: Nucleotide excision repair]]
		+	[[Category: Uvra]]

OCA at 04:05, 17 April 2019

OCA — Wed, 17 Apr 2019 04:05:43 GMT

←Older revision		Revision as of 04:05, 17 April 2019
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6n9l is ON HOLD	+	The entry 6n9l is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6n9l" [edit=sysop:move=sysop]

OCA — Wed, 12 Dec 2018 05:23:03 GMT

Protected "6n9l" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:23, 12 December 2018

OCA: New page: '''Unreleased structure''' The entry 6n9l is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 12 Dec 2018 05:23:02 GMT

New page: '''Unreleased structure''' The entry 6n9l is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6n9l is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]