2xcd
From Proteopedia
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==Structure of YncF,the genomic dUTPase from Bacillus subtilis== | ==Structure of YncF,the genomic dUTPase from Bacillus subtilis== | ||
| - | <StructureSection load='2xcd' size='340' side='right' caption='[[2xcd]], [[Resolution|resolution]] 1.84Å' scene=''> | + | <StructureSection load='2xcd' size='340' side='right'caption='[[2xcd]], [[Resolution|resolution]] 1.84Å' scene=''> |
== Structural highlights == | == Structural highlights == | ||
| - | <table><tr><td colspan='2'>[[2xcd]] is a 6 chain structure with sequence from [ | + | <table><tr><td colspan='2'>[[2xcd]] is a 6 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=2XCD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XCD FirstGlance]. <br> |
| - | </td></tr><tr><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.84Å</td></tr> |
| - | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr> | |
| - | <tr | + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2xcd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xcd OCA], [https://pdbe.org/2xcd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xcd RCSB], [https://www.ebi.ac.uk/pdbsum/2xcd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xcd ProSAT]</span></td></tr> |
| - | + | </table> | |
| - | <table> | + | == Function == |
| + | [https://www.uniprot.org/uniprot/YNCF_BACSU YNCF_BACSU] This enzyme is involved in nucleotide metabolism: it produces dUMP, the immediate precursor of thymidine nucleotides and it decreases the intracellular concentration of dUTP so that uracil cannot be incorporated into DNA (By similarity). | ||
== Evolutionary Conservation == | == Evolutionary Conservation == | ||
[[Image:Consurf_key_small.gif|200px|right]] | [[Image:Consurf_key_small.gif|200px|right]] | ||
Check<jmol> | Check<jmol> | ||
<jmolCheckbox> | <jmolCheckbox> | ||
| - | <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xc/2xcd_consurf.spt"</scriptWhenChecked> | + | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xc/2xcd_consurf.spt"</scriptWhenChecked> |
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | ||
<text>to colour the structure by Evolutionary Conservation</text> | <text>to colour the structure by Evolutionary Conservation</text> | ||
</jmolCheckbox> | </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/ | + | </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=2xcd ConSurf]. |
<div style="clear:both"></div> | <div style="clear:both"></div> | ||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
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The structure of the genomic Bacillus subtilis dUTPase: novel features in the Phe-lid.,Garcia-Nafria J, Burchell L, Takezawa M, Rzechorzek NJ, Fogg MJ, Wilson KS Acta Crystallogr D Biol Crystallogr. 2010 Sep;66(Pt 9):953-61. Epub 2010 Aug 13. PMID:20823546<ref>PMID:20823546</ref> | The structure of the genomic Bacillus subtilis dUTPase: novel features in the Phe-lid.,Garcia-Nafria J, Burchell L, Takezawa M, Rzechorzek NJ, Fogg MJ, Wilson KS Acta Crystallogr D Biol Crystallogr. 2010 Sep;66(Pt 9):953-61. Epub 2010 Aug 13. PMID:20823546<ref>PMID:20823546</ref> | ||
| - | From | + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> |
</div> | </div> | ||
| + | <div class="pdbe-citations 2xcd" style="background-color:#fffaf0;"></div> | ||
== References == | == References == | ||
<references/> | <references/> | ||
| Line 31: | Line 34: | ||
</StructureSection> | </StructureSection> | ||
[[Category: Bacillus subtilis]] | [[Category: Bacillus subtilis]] | ||
| - | [[Category: | + | [[Category: Large Structures]] |
| - | [[Category: Burchell | + | [[Category: Burchell L]] |
| - | [[Category: Fogg | + | [[Category: Fogg M]] |
| - | [[Category: Garcia | + | [[Category: Garcia J]] |
| - | [[Category: Rzechorzek | + | [[Category: Rzechorzek NJ]] |
| - | [[Category: Takezawa | + | [[Category: Takezawa M]] |
| - | [[Category: Wilson | + | [[Category: Wilson KS]] |
| - | + | ||
Current revision
Structure of YncF,the genomic dUTPase from Bacillus subtilis
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