3o7u

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[[Image:3o7u.png|left|200px]]
 
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==Crystal structure of Cytosine Deaminase from Escherichia Coli complexed with zinc and phosphono-cytosine==
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The line below this paragraph, containing "STRUCTURE_3o7u", creates the "Structure Box" on the page.
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<StructureSection load='3o7u' size='340' side='right'caption='[[3o7u]], [[Resolution|resolution]] 1.71&Aring;' scene=''>
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[3o7u]] 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=3O7U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3O7U FirstGlance]. <br>
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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]] 1.708&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=O7U:(2R)-2-AMINO-2,5-DIHYDRO-1,5,2-DIAZAPHOSPHININ-6(1H)-ONE+2-OXIDE'>O7U</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PXN:(2S)-1-[3-{[(2R)-2-HYDROXYPROPYL]OXY}-2,2-BIS({[(2R)-2-HYDROXYPROPYL]OXY}METHYL)PROPOXY]PROPAN-2-OL'>PXN</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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{{STRUCTURE_3o7u| PDB=3o7u | SCENE= }}
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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=3o7u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o7u OCA], [https://pdbe.org/3o7u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3o7u RCSB], [https://www.ebi.ac.uk/pdbsum/3o7u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3o7u ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/CODA_ECOLI CODA_ECOLI]
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Cytosine deaminase (CDA) from E. coli is a member of the amidohydrolase superfamily. The structure of the zinc-activated enzyme was determined in the presence of phosphonocytosine, a mimic of the tetrahedral reaction intermediate. This compound inhibits the deamination of cytosine with a K(i) of 52 nM. The zinc- and iron-containing enzymes were characterized to determine the effect of the divalent cations on activation of the hydrolytic water. Fe-CDA loses activity at low pH with a kinetic pK(a) of 6.0, and Zn-CDA has a kinetic pK(a) of 7.3. Mutation of Gln-156 decreased the catalytic activity by more than 5 orders of magnitude, supporting its role in substrate binding. Mutation of Glu-217, Asp-313, and His-246 significantly decreased catalytic activity supporting the role of these three residues in activation of the hydrolytic water molecule and facilitation of proton transfer reactions. A library of potential substrates was used to probe the structural determinants responsible for catalytic activity. CDA was able to catalyze the deamination of isocytosine and the hydrolysis of 3-oxauracil. Large inverse solvent isotope effects were obtained on k(cat) and k(cat)/K(m), consistent with the formation of a low-barrier hydrogen bond during the conversion of cytosine to uracil. A chemical mechanism for substrate deamination by CDA was proposed.
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===Crystal structure of Cytosine Deaminase from Escherichia Coli complexed with zinc and phosphono-cytosine===
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Three-dimensional structure and catalytic mechanism of Cytosine deaminase.,Hall RS, Fedorov AA, Xu C, Fedorov EV, Almo SC, Raushel FM Biochemistry. 2011 Jun 7;50(22):5077-85. Epub 2011 May 12. PMID:21545144<ref>PMID:21545144</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 3o7u" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_21545144}}, adds the Publication Abstract to the page
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*[[Deaminase 3D structures|Deaminase 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 21545144 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_21545144}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[3o7u]] is a 1 chain structure with 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=3O7U OCA].
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==Reference==
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<ref group="xtra">PMID:021545144</ref><references group="xtra"/>
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[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
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[[Category: Almo, S C.]]
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[[Category: Large Structures]]
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[[Category: Fedorov, A A.]]
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[[Category: Almo SC]]
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[[Category: Fedorov, E V.]]
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[[Category: Fedorov AA]]
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[[Category: Hall, R S.]]
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[[Category: Fedorov EV]]
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[[Category: Raushel, F M.]]
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[[Category: Hall RS]]
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[[Category: Hydrolase]]
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[[Category: Raushel FM]]

Current revision

Crystal structure of Cytosine Deaminase from Escherichia Coli complexed with zinc and phosphono-cytosine

PDB ID 3o7u

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