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New page: left|200px<br /><applet load="2nmv" size="450" color="white" frame="true" align="right" spinBox="true" caption="2nmv, resolution 2.95Å" /> '''Damage detection by ... |
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== | ==Damage detection by the UvrABC pathway: Crystal structure of UvrB bound to fluorescein-adducted DNA== | ||
UvrB is the damage recognition element of the highly conserved UvrABC | <StructureSection load='2nmv' size='340' side='right'caption='[[2nmv]], [[Resolution|resolution]] 2.95Å' scene=''> | ||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[2nmv]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NMV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2NMV FirstGlance]. <br> | |||
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.95Å</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=FLU:2-(6-HYDROXY-3-OXO-3H-XANTHEN-9-YL)-BENZOIC+ACID'>FLU</scene>, <scene name='pdbligand=NML:N-METHYLACETAMIDE'>NML</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=2nmv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nmv OCA], [https://pdbe.org/2nmv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2nmv RCSB], [https://www.ebi.ac.uk/pdbsum/2nmv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2nmv ProSAT]</span></td></tr> | |||
</table> | |||
== Function == | |||
[https://www.uniprot.org/uniprot/UVRB_BACSU UVRB_BACSU] 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). | |||
== Evolutionary Conservation == | |||
[[Image:Consurf_key_small.gif|200px|right]] | |||
Check<jmol> | |||
<jmolCheckbox> | |||
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/nm/2nmv_consurf.spt"</scriptWhenChecked> | |||
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | |||
<text>to colour the structure by Evolutionary Conservation</text> | |||
</jmolCheckbox> | |||
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2nmv ConSurf]. | |||
<div style="clear:both"></div> | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
UvrB is the damage recognition element of the highly conserved UvrABC pathway that functions in the removal of bulky DNA adducts. Pivotal to this is the formation of a damage detection complex that relies on the ability of UvrB to locate and sequester diverse lesions. Whilst structures of UvrB bound to DNA have recently been reported, none address the issue of lesion recognition. Here, we describe the crystal structure of UvrB bound to a pentanucleotide containing a single fluorescein-adducted thymine that reveals a unique mechanism for damage detection entirely dependent on the exclusion of lesions larger than an undamaged nucleotide. | |||
Damage detection by the UvrABC pathway: crystal structure of UvrB bound to fluorescein-adducted DNA.,Waters TR, Eryilmaz J, Geddes S, Barrett TE FEBS Lett. 2006 Nov 27;580(27):6423-7. Epub 2006 Nov 3. PMID:17097086<ref>PMID:17097086</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
<div class="pdbe-citations 2nmv" style="background-color:#fffaf0;"></div> | |||
==See Also== | |||
*[[UvrABC|UvrABC]] | |||
== References == | |||
<references/> | |||
__TOC__ | |||
</StructureSection> | |||
[[Category: Bacillus subtilis]] | [[Category: Bacillus subtilis]] | ||
[[Category: | [[Category: Large Structures]] | ||
[[Category: Barrett | [[Category: Barrett TE]] | ||
[[Category: Eryilmaz | [[Category: Eryilmaz J]] | ||
[[Category: Geddes | [[Category: Geddes S]] | ||
[[Category: Waters | [[Category: Waters TR]] | ||
Latest revision as of 11:54, 25 October 2023
Damage detection by the UvrABC pathway: Crystal structure of UvrB bound to fluorescein-adducted DNADamage detection by the UvrABC pathway: Crystal structure of UvrB bound to fluorescein-adducted DNA
Structural highlights
FunctionUVRB_BACSU 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). Evolutionary Conservation Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf. Publication Abstract from PubMedUvrB is the damage recognition element of the highly conserved UvrABC pathway that functions in the removal of bulky DNA adducts. Pivotal to this is the formation of a damage detection complex that relies on the ability of UvrB to locate and sequester diverse lesions. Whilst structures of UvrB bound to DNA have recently been reported, none address the issue of lesion recognition. Here, we describe the crystal structure of UvrB bound to a pentanucleotide containing a single fluorescein-adducted thymine that reveals a unique mechanism for damage detection entirely dependent on the exclusion of lesions larger than an undamaged nucleotide. Damage detection by the UvrABC pathway: crystal structure of UvrB bound to fluorescein-adducted DNA.,Waters TR, Eryilmaz J, Geddes S, Barrett TE FEBS Lett. 2006 Nov 27;580(27):6423-7. Epub 2006 Nov 3. PMID:17097086[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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