3uwx - Revision history

OCA at 10:29, 1 March 2024

OCA — Fri, 01 Mar 2024 10:29:09 GMT

←Older revision		Revision as of 10:29, 1 March 2024
Line 3:		Line 3:
	<StructureSection load='3uwx' size='340' side='right'caption='[[3uwx]], [[Resolution\|resolution]] 4.40Å' scene=''>		<StructureSection load='3uwx' size='340' side='right'caption='[[3uwx]], [[Resolution\|resolution]] 4.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3uwx]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Geos2 Geos2~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UWX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3UWX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3uwx]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_sp._Y412MC52 Geobacillus sp. Y412MC52]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UWX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3UWX FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<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]] 4.398Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~GYMC52_3203, uvrA ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=550542 GEOS2]), GYMC52_3204, uvrB ([https~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=550542 GEOS2])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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=3uwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uwx OCA], [https://pdbe.org/3uwx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3uwx RCSB], [https://www.ebi.ac.uk/pdbsum/3uwx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3uwx 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=3uwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uwx OCA], [https://pdbe.org/3uwx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3uwx RCSB], [https://www.ebi.ac.uk/pdbsum/3uwx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3uwx ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/~~E8SW61_GEOS2 E8SW61_GEOS2]~~] 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)~~.[HAMAP-Rule:MF_00205] [[https://www.uniprot.org/uniprot/E8SW62_GEOS2 E8SW62_GEOS2]] 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).[HAMAP-Rule:MF_00204][SAAS:SAAS004807_004_336891]	+	[https://www.uniprot.org/uniprot/A0A0E0TG05_GEOS2 A0A0E0TG05_GEOS2] 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.[HAMAP-Rule:MF_00205]
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	Nucleotide excision repair (NER) is used by all organisms to eliminate DNA lesions. We determined the structure of the Geobacillus stearothermophilus UvrA-UvrB complex, the damage-sensor in bacterial NER and a new structure of UvrA. We observe that the DNA binding surface of UvrA, previously found in an open shape that binds damaged DNA, also exists in a closed groove shape compatible with native DNA only. The sensor contains two UvrB molecules that flank the UvrA dimer along the predicted path for DNA, ~80 A from the lesion. We show that the conserved signature domain II of UvrA mediates a nexus of contacts among UvrA, UvrB and DNA. Further, in our new structure of UvrA, this domain adopts an altered conformation while an adjacent nucleotide binding site is vacant. Our findings raise unanticipated questions about NER and also suggest a revised picture of its early stages.	+
-		+
-	Structure and mechanism of the UvrA-UvrB DNA damage sensor.,Pakotiprapha D, Samuels M, Shen K, Hu JH, Jeruzalmi D Nat Struct Mol Biol. 2012 Feb 5;19(3):291-8. doi: 10.1038/nsmb.2240. PMID:22307053<ref>PMID:22307053</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 3uwx" style="background-color:#fffaf0;"></div>~~	+

	==See Also==		==See Also==
	*[[UvrABC\|UvrABC]]		*[[UvrABC\|UvrABC]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Geos2~~]]	+	[[Category: Geobacillus sp. Y412MC52]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Jeruzalmi, D]]	+	[[Category: Jeruzalmi D]]
-	[[Category: Pakotiprapha, D]]	+	[[Category: Pakotiprapha D]]
-	~~[[Category: Abc atpase]]~~	+
-	~~[[Category: Atp binding]]~~	+
-	~~[[Category: Dna binding]]~~	+
-	~~[[Category: Dna binding protein]]~~	+
-	~~[[Category: Dna repair]]~~	+
-	~~[[Category: Nucleotide excision repair]]~~	+
-	~~[[Category: Uvra]]~~	+
-	~~[[Category: Uvrb~~]]	+

OCA at 08:13, 20 July 2022

OCA — Wed, 20 Jul 2022 08:13:46 GMT

←Older revision		Revision as of 08:13, 20 July 2022
Line 1:		Line 1:

	==Crystal structure of UvrA-UvrB complex==		==Crystal structure of UvrA-UvrB complex==
-	<StructureSection load='3uwx' size='340' side='right' caption='[[3uwx]], [[Resolution\|resolution]] 4.40Å' scene=''>	+	<StructureSection load='3uwx' size='340' side='right'caption='[[3uwx]], [[Resolution\|resolution]] 4.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3uwx]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Geos2 Geos2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UWX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3UWX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3uwx]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Geos2 Geos2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UWX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3UWX FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><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" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GYMC52_3203, uvrA ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=550542 GEOS2]), GYMC52_3204, uvrB ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=550542 GEOS2])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GYMC52_3203, uvrA ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=550542 GEOS2]), GYMC52_3204, uvrB ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=550542 GEOS2])</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=3uwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uwx OCA], [~~http~~://pdbe.org/3uwx PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3uwx RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3uwx PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3uwx 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=3uwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uwx OCA], [https://pdbe.org/3uwx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3uwx RCSB], [https://www.ebi.ac.uk/pdbsum/3uwx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3uwx ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/E8SW61_GEOS2 E8SW61_GEOS2]] 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).[HAMAP-Rule:MF_00205] [[~~http~~://www.uniprot.org/uniprot/E8SW62_GEOS2 E8SW62_GEOS2]] 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).[HAMAP-Rule:MF_00204][SAAS:SAAS004807_004_336891]	+	[[https://www.uniprot.org/uniprot/E8SW61_GEOS2 E8SW61_GEOS2]] 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).[HAMAP-Rule:MF_00205] [[https://www.uniprot.org/uniprot/E8SW62_GEOS2 E8SW62_GEOS2]] 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).[HAMAP-Rule:MF_00204][SAAS:SAAS004807_004_336891]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 27:		Line 27:
	</StructureSection>		</StructureSection>
	[[Category: Geos2]]		[[Category: Geos2]]
		+	[[Category: Large Structures]]
	[[Category: Jeruzalmi, D]]		[[Category: Jeruzalmi, D]]
	[[Category: Pakotiprapha, D]]		[[Category: Pakotiprapha, D]]

OCA at 03:53, 5 August 2016

OCA — Fri, 05 Aug 2016 03:53:25 GMT

←Older revision		Revision as of 03:53, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of UvrA-UvrB complex==		==Crystal structure of UvrA-UvrB complex==
	<StructureSection load='3uwx' size='340' side='right' caption='[[3uwx]], [[Resolution\|resolution]] 4.40Å' scene=''>		<StructureSection load='3uwx' size='340' side='right' caption='[[3uwx]], [[Resolution\|resolution]] 4.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3uwx]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Geobacillus Geobacillus] and [http://en.wikipedia.org/wiki/Geobacillus_sp._y412mc52 Geobacillus sp. y412mc52~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UWX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3UWX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3uwx]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Geos2 Geos2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UWX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3UWX FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><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=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GYMC52_3203, uvrA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~129337 Geobacillus~~]), GYMC52_3204, uvrB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=550542 ~~Geobacillus sp. Y412MC52~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GYMC52_3203, uvrA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=550542 GEOS2]), GYMC52_3204, uvrB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=550542 GEOS2])</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=3uwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uwx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3uwx RCSB], [http://www.ebi.ac.uk/pdbsum/3uwx PDBsum]</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=3uwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uwx OCA], [http://pdbe.org/3uwx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3uwx RCSB], [http://www.ebi.ac.uk/pdbsum/3uwx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3uwx ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 18:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 3uwx" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 24:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Geobacillus]]~~	+	[[Category: Geos2]]
-	~~[[Category: Geobacillus sp. y412mc52~~]]	+
	[[Category: Jeruzalmi, D]]		[[Category: Jeruzalmi, D]]
	[[Category: Pakotiprapha, D]]		[[Category: Pakotiprapha, D]]

OCA at 22:42, 24 December 2014

OCA — Wed, 24 Dec 2014 22:42:22 GMT

←Older revision		Revision as of 22:42, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3uwx]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Geobacillus Geobacillus] and [http://en.wikipedia.org/wiki/Geobacillus_sp._y412mc52 Geobacillus sp. y412mc52]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UWX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3UWX FirstGlance]. <br>		<table><tr><td colspan='2'>[[3uwx]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Geobacillus Geobacillus] and [http://en.wikipedia.org/wiki/Geobacillus_sp._y412mc52 Geobacillus sp. y412mc52]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UWX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3UWX FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GYMC52_3203, uvrA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=129337 Geobacillus]), GYMC52_3204, uvrB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=550542 Geobacillus sp. Y412MC52])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GYMC52_3203, uvrA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=129337 Geobacillus]), GYMC52_3204, uvrB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=550542 Geobacillus sp. Y412MC52])</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3uwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uwx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3uwx RCSB], [http://www.ebi.ac.uk/pdbsum/3uwx PDBsum]</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=3uwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uwx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3uwx RCSB], [http://www.ebi.ac.uk/pdbsum/3uwx PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/E8SW61_GEOS2 E8SW61_GEOS2]] 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).[HAMAP-Rule:MF_00205] [[http://www.uniprot.org/uniprot/E8SW62_GEOS2 E8SW62_GEOS2]] 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).[HAMAP-Rule:MF_00204][SAAS:SAAS004807_004_336891]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 13:		Line 15:
	Structure and mechanism of the UvrA-UvrB DNA damage sensor.,Pakotiprapha D, Samuels M, Shen K, Hu JH, Jeruzalmi D Nat Struct Mol Biol. 2012 Feb 5;19(3):291-8. doi: 10.1038/nsmb.2240. PMID:22307053<ref>PMID:22307053</ref>		Structure and mechanism of the UvrA-UvrB DNA damage sensor.,Pakotiprapha D, Samuels M, Shen K, Hu JH, Jeruzalmi D Nat Struct Mol Biol. 2012 Feb 5;19(3):291-8. doi: 10.1038/nsmb.2240. PMID:22307053<ref>PMID:22307053</ref>

-	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, a database of the U.S. National Library of Medicine.<br>	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>

Line 24:		Line 26:
	[[Category: Geobacillus]]		[[Category: Geobacillus]]
	[[Category: Geobacillus sp. y412mc52]]		[[Category: Geobacillus sp. y412mc52]]
-	[[Category: Jeruzalmi, D.]]	+	[[Category: Jeruzalmi, D]]
-	[[Category: Pakotiprapha, D.]]	+	[[Category: Pakotiprapha, D]]
	[[Category: Abc atpase]]		[[Category: Abc atpase]]
	[[Category: Atp binding]]		[[Category: Atp binding]]

OCA at 05:39, 5 June 2014

OCA — Thu, 05 Jun 2014 05:39:01 GMT

←Older revision		Revision as of 05:39, 5 June 2014
Line 1:		Line 1:
-	[[~~Image:~~3uwx.~~png~~\|~~left~~\|~~200px~~]]	+	==Crystal structure of UvrA-UvrB complex==
		+	<StructureSection load='3uwx' size='340' side='right' caption='[[3uwx]], [[Resolution\|resolution]] 4.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3uwx]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Geobacillus Geobacillus] and [http://en.wikipedia.org/wiki/Geobacillus_sp._y412mc52 Geobacillus sp. y412mc52]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UWX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3UWX FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GYMC52_3203, uvrA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=129337 Geobacillus]), GYMC52_3204, uvrB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=550542 Geobacillus sp. Y412MC52])</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3uwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uwx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3uwx RCSB], [http://www.ebi.ac.uk/pdbsum/3uwx PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Nucleotide excision repair (NER) is used by all organisms to eliminate DNA lesions. We determined the structure of the Geobacillus stearothermophilus UvrA-UvrB complex, the damage-sensor in bacterial NER and a new structure of UvrA. We observe that the DNA binding surface of UvrA, previously found in an open shape that binds damaged DNA, also exists in a closed groove shape compatible with native DNA only. The sensor contains two UvrB molecules that flank the UvrA dimer along the predicted path for DNA, ~80 A from the lesion. We show that the conserved signature domain II of UvrA mediates a nexus of contacts among UvrA, UvrB and DNA. Further, in our new structure of UvrA, this domain adopts an altered conformation while an adjacent nucleotide binding site is vacant. Our findings raise unanticipated questions about NER and also suggest a revised picture of its early stages.

-	<!--	+	Structure and mechanism of the UvrA-UvrB DNA damage sensor.,Pakotiprapha D, Samuels M, Shen K, Hu JH, Jeruzalmi D Nat Struct Mol Biol. 2012 Feb 5;19(3):291-8. doi: 10.1038/nsmb.2240. PMID:22307053<ref>PMID:22307053</ref>
-	~~The line below this paragraph~~, ~~containing "STRUCTURE_3uwx"~~, ~~creates the "Structure Box" on the page~~.	+
-	~~You may change the PDB parameter~~ (~~which sets the PDB file loaded into the applet~~)	+
-	~~or the SCENE parameter (which sets the initial scene displayed when the page is loaded),~~	+
-	~~or leave the SCENE parameter empty for the default display~~.	+
-	-->	+
-	~~{{STRUCTURE_3uwx\| PDB=3uwx \| SCENE= }}~~	+

-	~~===Crystal structure~~ of ~~UvrA-UvrB complex===~~	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-		+	==See Also==
-	~~<!--~~	+	*[[UvrABC\|UvrABC]]
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_22307053}}, adds the Publication Abstract to the page~~	+	== References ==
-	~~(as it appears on PubMed at http://www.pubmed.gov), where 22307053 is the PubMed ID number.~~	+	<references/>
-	~~-->~~	+	__TOC__
-	~~{{ABSTRACT_PUBMED_22307053}}~~	+	</StructureSection>
-		+
-	==~~About this Structure~~==	+
-	[[~~3uwx~~]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Geobacillus Geobacillus] and [http://en.wikipedia.org/wiki/Geobacillus_sp._y412mc52 Geobacillus sp. y412mc52]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UWX OCA].	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:022307053<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Geobacillus]]		[[Category: Geobacillus]]
	[[Category: Geobacillus sp. y412mc52]]		[[Category: Geobacillus sp. y412mc52]]

OCA at 06:12, 21 March 2012

OCA — Wed, 21 Mar 2012 06:12:03 GMT

←Older revision		Revision as of 06:12, 21 March 2012
Line 1:		Line 1:
-	[[Image:3uwx.~~jpg~~\|left\|200px]]	+	[[Image:3uwx.png\|left\|200px]]

	<!--		<!--
Line 11:		Line 11:
	===Crystal structure of UvrA-UvrB complex===		===Crystal structure of UvrA-UvrB complex===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_22307053}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 22307053 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_22307053}}

	==About this Structure==		==About this Structure==
	[[3uwx]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Geobacillus Geobacillus] and [http://en.wikipedia.org/wiki/Geobacillus_sp._y412mc52 Geobacillus sp. y412mc52]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UWX OCA].		[[3uwx]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Geobacillus Geobacillus] and [http://en.wikipedia.org/wiki/Geobacillus_sp._y412mc52 Geobacillus sp. y412mc52]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UWX OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:022307053</ref><references group="xtra"/>
	[[Category: Geobacillus]]		[[Category: Geobacillus]]
	[[Category: Geobacillus sp. y412mc52]]		[[Category: Geobacillus sp. y412mc52]]

OCA at 06:42, 8 February 2012

OCA — Wed, 08 Feb 2012 06:42:24 GMT

←Older revision		Revision as of 06:42, 8 February 2012
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3uwx.jpg\|left\|200px]]

-	The ~~entry 3uwx~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3uwx", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_3uwx\| PDB=3uwx \| SCENE= }}

-	~~Authors: Pakotiprapha, D., Jeruzalmi, D.~~	+	===Crystal structure of UvrA-UvrB complex===

-	~~Description: Crystal~~ structure ~~of UvrA~~-~~UvrB complex~~	+
		+	==About this Structure==
		+	[[3uwx]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Geobacillus Geobacillus] and [http://en.wikipedia.org/wiki/Geobacillus_sp._y412mc52 Geobacillus sp. y412mc52]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UWX OCA].
		+	[[Category: Geobacillus]]
		+	[[Category: Geobacillus sp. y412mc52]]
		+	[[Category: Jeruzalmi, D.]]
		+	[[Category: Pakotiprapha, D.]]
		+	[[Category: Abc atpase]]
		+	[[Category: Atp binding]]
		+	[[Category: Dna binding]]
		+	[[Category: Dna binding protein]]
		+	[[Category: Dna repair]]
		+	[[Category: Nucleotide excision repair]]
		+	[[Category: Uvra]]
		+	[[Category: Uvrb]]

OCA at 10:16, 18 January 2012

OCA — Wed, 18 Jan 2012 10:16:18 GMT

←Older revision		Revision as of 10:16, 18 January 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3uwx is ON HOLD	+	The entry 3uwx is ON HOLD until Paper Publication

	Authors: Pakotiprapha, D., Jeruzalmi, D.		Authors: Pakotiprapha, D., Jeruzalmi, D.

	Description: Crystal structure of UvrA-UvrB complex		Description: Crystal structure of UvrA-UvrB complex

OCA: Protected "3uwx" [edit=sysop:move=sysop]

OCA — Wed, 14 Dec 2011 11:13:43 GMT

Protected "3uwx" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:13, 14 December 2011

OCA: New page: '''Unreleased structure''' The entry 3uwx is ON HOLD Authors: Pakotiprapha, D., Jeruzalmi, D. Description: Crystal structure of UvrA-UvrB complex

OCA — Wed, 14 Dec 2011 11:13:42 GMT

New page: '''Unreleased structure''' The entry 3uwx is ON HOLD Authors: Pakotiprapha, D., Jeruzalmi, D. Description: Crystal structure of UvrA-UvrB complex

New page

'''Unreleased structure'''

The entry 3uwx is ON HOLD

Authors: Pakotiprapha, D., Jeruzalmi, D.

Description: Crystal structure of UvrA-UvrB complex