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2r6f

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(New page: 200px<br /><applet load="2r6f" size="350" color="white" frame="true" align="right" spinBox="true" caption="2r6f, resolution 3.200&Aring;" /> '''Crystal Structure o...)
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[[Image:2r6f.jpg|left|200px]]<br /><applet load="2r6f" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="2r6f, resolution 3.200&Aring;" />
 
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'''Crystal Structure of Bacillus stearothermophilus UvrA'''<br />
 
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==Overview==
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==Crystal Structure of Bacillus stearothermophilus UvrA==
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The nucleotide excision repair pathway corrects many structurally, unrelated DNA lesions. Damage recognition in bacteria is performed by, UvrA, a member of the ABC ATPase superfamily whose functional form is a, dimer with four nucleotide-binding domains (NBDs), two per protomer. In, the 3.2 A structure of UvrA from Bacillus stearothermophilus, we observe, that the nucleotide-binding sites are formed in an intramolecular fashion, and are not at the dimer interface as is typically found in other ABC, ATPases. UvrA also harbors two unique domains; we show that one of these, is required for interaction with UvrB, its partner in lesion recognition., In addition, UvrA contains three zinc modules, the number and ligand, sphere of which differ from previously published models. Structural, analysis, biochemical experiments, surface electrostatics, and sequence, conservation form the basis for models of ATP-modulated dimerization, UvrA-UvrB interaction, and DNA binding during the search for lesions.
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<StructureSection load='2r6f' size='340' side='right'caption='[[2r6f]], [[Resolution|resolution]] 3.20&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[2r6f]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_stearothermophilus_10 Bacillus stearothermophilus 10]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2R6F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2R6F FirstGlance]. <br>
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</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>
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<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">uvrA ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=272567 Bacillus stearothermophilus 10])</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2r6f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2r6f OCA], [https://pdbe.org/2r6f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2r6f RCSB], [https://www.ebi.ac.uk/pdbsum/2r6f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2r6f ProSAT]</span></td></tr>
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</table>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/r6/2r6f_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=2r6f ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The nucleotide excision repair pathway corrects many structurally unrelated DNA lesions. Damage recognition in bacteria is performed by UvrA, a member of the ABC ATPase superfamily whose functional form is a dimer with four nucleotide-binding domains (NBDs), two per protomer. In the 3.2 A structure of UvrA from Bacillus stearothermophilus, we observe that the nucleotide-binding sites are formed in an intramolecular fashion and are not at the dimer interface as is typically found in other ABC ATPases. UvrA also harbors two unique domains; we show that one of these is required for interaction with UvrB, its partner in lesion recognition. In addition, UvrA contains three zinc modules, the number and ligand sphere of which differ from previously published models. Structural analysis, biochemical experiments, surface electrostatics, and sequence conservation form the basis for models of ATP-modulated dimerization, UvrA-UvrB interaction, and DNA binding during the search for lesions.
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==About this Structure==
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Crystal structure of Bacillus stearothermophilus UvrA provides insight into ATP-modulated dimerization, UvrB interaction, and DNA binding.,Pakotiprapha D, Inuzuka Y, Bowman BR, Moolenaar GF, Goosen N, Jeruzalmi D, Verdine GL Mol Cell. 2008 Jan 18;29(1):122-33. Epub 2007 Dec 27. PMID:18158267<ref>PMID:18158267</ref>
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2R6F is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus] with <scene name='pdbligand=ZN:'>ZN</scene> and <scene name='pdbligand=ADP:'>ADP</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2R6F OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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Crystal Structure of Bacillus stearothermophilus UvrA Provides Insight into ATP-Modulated Dimerization, UvrB Interaction, and DNA Binding., Pakotiprapha D, Inuzuka Y, Bowman BR, Moolenaar GF, Goosen N, Jeruzalmi D, Verdine GL, Mol Cell. 2008 Jan 18;29(1):122-33. Epub 2007 Dec 27. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=18158267 18158267]
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</div>
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[[Category: Geobacillus stearothermophilus]]
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<div class="pdbe-citations 2r6f" style="background-color:#fffaf0;"></div>
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[[Category: Single protein]]
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[[Category: Bowman, B.R.]]
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[[Category: Inuzuka, Y.]]
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[[Category: Jeruzalmi, D.]]
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[[Category: Pakotiprapha, D.]]
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[[Category: Verdine, G.L.]]
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[[Category: ADP]]
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[[Category: ZN]]
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[[Category: abc atpase]]
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[[Category: atp-binding cassette]]
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[[Category: cytoplasm]]
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[[Category: dna damage]]
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[[Category: dna excision]]
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[[Category: dna repair]]
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[[Category: dna-binding]]
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[[Category: excision nuclease]]
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[[Category: hydrolase]]
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[[Category: metal-binding]]
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[[Category: nucleotide excision repair]]
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[[Category: nucleotide-binding]]
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[[Category: sos response]]
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[[Category: uvra]]
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[[Category: zinc]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 23 11:15:49 2008''
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==See Also==
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*[[UvrABC|UvrABC]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Bacillus stearothermophilus 10]]
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[[Category: Large Structures]]
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[[Category: Bowman, B R]]
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[[Category: Inuzuka, Y]]
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[[Category: Jeruzalmi, D]]
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[[Category: Pakotiprapha, D]]
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[[Category: Verdine, G L]]
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[[Category: Abc atpase]]
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[[Category: Atp-binding cassette]]
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[[Category: Dna damage]]
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[[Category: Dna excision]]
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[[Category: Dna repair]]
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[[Category: Dna-binding]]
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[[Category: Excision nuclease]]
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[[Category: Hydrolase]]
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[[Category: Metal-binding]]
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[[Category: Nucleotide excision repair]]
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[[Category: Nucleotide-binding]]
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[[Category: Sos response]]
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[[Category: Uvra]]

Current revision

Crystal Structure of Bacillus stearothermophilus UvrA

PDB ID 2r6f

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