1r9z

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[[Image:1r9z.jpg|left|200px]]
 
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{{Structure
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==Bacterial cytosine deaminase D314S mutant.==
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|PDB= 1r9z |SIZE=350|CAPTION= <scene name='initialview01'>1r9z</scene>, resolution 1.32&Aring;
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<StructureSection load='1r9z' size='340' side='right'caption='[[1r9z]], [[Resolution|resolution]] 1.32&Aring;' scene=''>
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|SITE=
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>
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<table><tr><td colspan='2'>[[1r9z]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R9Z OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1R9Z FirstGlance]. <br>
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|ACTIVITY=
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.32&#8491;</td></tr>
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|GENE= CODA, B0337 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
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|DOMAIN=
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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=1r9z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r9z OCA], [https://pdbe.org/1r9z PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1r9z RCSB], [https://www.ebi.ac.uk/pdbsum/1r9z PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1r9z ProSAT]</span></td></tr>
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|RELATEDENTRY=[[1k6w|1K6W]], [[1r9x|1R9X]], [[1r9y|1R9Y]], [[1ra0|1RA0]], [[1ra5|1RA5]], [[1rak|1RAK]], [[1rb7|1RB7]]
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</table>
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1r9z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r9z OCA], [http://www.ebi.ac.uk/pdbsum/1r9z PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1r9z RCSB]</span>
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== Function ==
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}}
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[https://www.uniprot.org/uniprot/CODA_ECOLI CODA_ECOLI]
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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/r9/1r9z_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=1r9z 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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Cytosine deaminase (CD) is currently being used as a suicide gene for cancer gene therapy. The premise of this therapy is the preferential deamination of 5-fluorocytosine (5FC) to 5-fluorouracil by cancer cells expressing cytosine deaminase. However, a lack of efficient gene transfer to tumors combined with inefficient 5FC turnover currently limits the clinical applications of this gene therapy approach. We have used random mutagenesis to create novel bacterial cytosine deaminases that demonstrate an increased preference for 5FC over cytosine. Among the 15 mutants isolated, one conferred sensitivity to Escherichia coli in a negative selection system at a concentration of 5FC that was 10-fold lower than a sublethal dose for wild-type CD. Evaluation of individual substitutions found in this double mutant (Q102R, D314G) demonstrated that the substitution at residue D314 was solely responsible for the observed increase in sensitivity to 5FC. Additional mutagenesis at D314 resulted in the identification of two more substitutions with the ability to confer enhanced 5FC sensitivity to E.coli. Structure determinations of the three CD variants in the presence and absence of a transition state 5FC analogue provide insights to the determinants of substrate binding specificity at the 5' position of the pyrimidine ring. CD mutant D314A is a promising candidate for further gene therapy studies.
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'''Bacterial cytosine deaminase D314S mutant.'''
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Random mutagenesis and selection of Escherichia coli cytosine deaminase for cancer gene therapy.,Mahan SD, Ireton GC, Knoeber C, Stoddard BL, Black ME Protein Eng Des Sel. 2004 Aug;17(8):625-33. Epub 2004 Sep 20. PMID:15381761<ref>PMID:15381761</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 1r9z" style="background-color:#fffaf0;"></div>
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==Overview==
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==See Also==
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Cytosine deaminase (CD) is currently being used as a suicide gene for cancer gene therapy. The premise of this therapy is the preferential deamination of 5-fluorocytosine (5FC) to 5-fluorouracil by cancer cells expressing cytosine deaminase. However, a lack of efficient gene transfer to tumors combined with inefficient 5FC turnover currently limits the clinical applications of this gene therapy approach. We have used random mutagenesis to create novel bacterial cytosine deaminases that demonstrate an increased preference for 5FC over cytosine. Among the 15 mutants isolated, one conferred sensitivity to Escherichia coli in a negative selection system at a concentration of 5FC that was 10-fold lower than a sublethal dose for wild-type CD. Evaluation of individual substitutions found in this double mutant (Q102R, D314G) demonstrated that the substitution at residue D314 was solely responsible for the observed increase in sensitivity to 5FC. Additional mutagenesis at D314 resulted in the identification of two more substitutions with the ability to confer enhanced 5FC sensitivity to E.coli. Structure determinations of the three CD variants in the presence and absence of a transition state 5FC analogue provide insights to the determinants of substrate binding specificity at the 5' position of the pyrimidine ring. CD mutant D314A is a promising candidate for further gene therapy studies.
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*[[Deaminase 3D structures|Deaminase 3D structures]]
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== References ==
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==About this Structure==
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<references/>
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1R9Z is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R9Z OCA].
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__TOC__
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</StructureSection>
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==Reference==
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Random mutagenesis and selection of Escherichia coli cytosine deaminase for cancer gene therapy., Mahan SD, Ireton GC, Knoeber C, Stoddard BL, Black ME, Protein Eng Des Sel. 2004 Aug;17(8):625-33. Epub 2004 Sep 20. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15381761 15381761]
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[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
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[[Category: Single protein]]
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[[Category: Large Structures]]
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[[Category: Black, M E.]]
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[[Category: Black ME]]
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[[Category: Ireton, G C.]]
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[[Category: Ireton GC]]
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[[Category: Mahan, S D.]]
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[[Category: Mahan SD]]
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[[Category: Stoddard, B L.]]
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[[Category: Stoddard BL]]
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[[Category: alpha-beta barrel]]
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[[Category: cytosine deaminase]]
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[[Category: d314s mutant]]
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[[Category: domain swap]]
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[[Category: hexamer]]
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[[Category: hydrolase]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 23:25:13 2008''
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Current revision

Bacterial cytosine deaminase D314S mutant.

PDB ID 1r9z

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