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1yoe

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(New page: 200px<br /><applet load="1yoe" size="450" color="white" frame="true" align="right" spinBox="true" caption="1yoe, resolution 1.78&Aring;" /> '''Crystal structure of...)
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[[Image:1yoe.gif|left|200px]]<br /><applet load="1yoe" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1yoe, resolution 1.78&Aring;" />
 
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'''Crystal structure of a the E. coli pyrimidine nucleoside hydrolase YbeK with bound ribose'''<br />
 
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==Overview==
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==Crystal structure of a the E. coli pyrimidine nucleoside hydrolase YbeK with bound ribose==
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Enzymes with nucleoside hydrolase (NH) activity are crucial for salvaging, nucleic acid components in purine auxotrophic protozoan parasites, but are, also present in prokaryotes and higher eukaryotes. Here we analyze the, distribution of genes encoding for putative NH proteins and characterize, the yeiK gene product from Escherichia coli as a pyrimidine-specific NH., The crystal structure of YeiK to 1.7 A defines the structural basis for, its substrate specificity and identifies residues involved in the, catalytic mechanism that differ from both nonspecific and purine-specific, NHs. Large differences in the tetrameric quaternary structure compared to, nonspecific protozoan NHs are brought forth by minor differences in the, interacting surfaces. The first structural and functional characterization, of a nonparasitic, pyrimidine nucleoside-specific NH suggests a possible, role for these enzymes in the metabolism of tRNA nucleosides. The high, catalytic efficiency of YeiK toward 5-fluorouridine could be exploited for, suicide gene therapy in cancer treatment.
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<StructureSection load='1yoe' size='340' side='right'caption='[[1yoe]], [[Resolution|resolution]] 1.78&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[1yoe]] 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=1YOE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YOE FirstGlance]. <br>
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1YOE is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] with RIB and CA as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Ribosylpyrimidine_nucleosidase Ribosylpyrimidine nucleosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.8 3.2.2.8] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1YOE OCA].
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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]] 1.78&#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=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=RIB:RIBOSE'>RIB</scene></td></tr>
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==Reference==
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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=1yoe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yoe OCA], [https://pdbe.org/1yoe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yoe RCSB], [https://www.ebi.ac.uk/pdbsum/1yoe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yoe ProSAT]</span></td></tr>
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Crystal structure to 1.7 a of the Escherichia coli pyrimidine nucleoside hydrolase YeiK, a novel candidate for cancer gene therapy., Giabbai B, Degano M, Structure. 2004 May;12(5):739-49. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15130467 15130467]
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/RIHA_ECOLI RIHA_ECOLI] Hydrolyzes with equal efficiency cytidine or uridine to ribose and cytosine or uracil, respectively.
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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/yo/1yoe_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=1yoe ConSurf].
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<div style="clear:both"></div>
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__TOC__
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</StructureSection>
[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
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[[Category: Ribosylpyrimidine nucleosidase]]
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[[Category: Large Structures]]
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[[Category: Single protein]]
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[[Category: Degano M]]
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[[Category: Degano, M.]]
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[[Category: Muzzolini L]]
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[[Category: Muzzolini, L.]]
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[[Category: Steyaert J]]
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[[Category: Steyaert, J.]]
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[[Category: Versees W]]
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[[Category: Versees, W.]]
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[[Category: CA]]
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[[Category: RIB]]
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[[Category: bacterial nucleosidase]]
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[[Category: enzyme/product complex]]
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[[Category: pyrimidine nucleoside hydrolase]]
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[[Category: ribose]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 06:56:44 2007''
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Current revision

Crystal structure of a the E. coli pyrimidine nucleoside hydrolase YbeK with bound ribose

PDB ID 1yoe

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