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3uay

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Current revision (13:53, 14 March 2024) (edit) (undo)
 
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<StructureSection load='3uay' size='340' side='right'caption='[[3uay]], [[Resolution|resolution]] 1.40&Aring;' scene=''>
<StructureSection load='3uay' size='340' side='right'caption='[[3uay]], [[Resolution|resolution]] 1.40&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[3uay]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_14579 Atcc 14579]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UAY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3UAY FirstGlance]. <br>
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<table><tr><td colspan='2'>[[3uay]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_cereus Bacillus cereus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UAY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3UAY 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=ADN:ADENOSINE'>ADN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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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]] 1.4&#8491;</td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3uav|3uav]], [[3uaw|3uaw]], [[3uax|3uax]], [[3uaz|3uaz]]</div></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=ADN:ADENOSINE'>ADN</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">deoD ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1396 ATCC 14579])</td></tr>
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Purine-nucleoside_phosphorylase Purine-nucleoside phosphorylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.1 2.4.2.1] </span></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=3uay FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uay OCA], [https://pdbe.org/3uay PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3uay RCSB], [https://www.ebi.ac.uk/pdbsum/3uay PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3uay ProSAT]</span></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3uay FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uay OCA], [https://pdbe.org/3uay PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3uay RCSB], [https://www.ebi.ac.uk/pdbsum/3uay PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3uay ProSAT]</span></td></tr>
</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/DEOD_BACCE DEOD_BACCE]
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Purine nucleoside phosphorylases catalyze the phosphorolytic cleavage of the glycosidic bond of purine (2'-deoxy)nucleosides, generating the corresponding free base and (2'-deoxy)ribose 1-phosphate. Two classes of PNPs have been identified: homotrimers specific for 6-oxopurines and homohexamers that accept both 6-oxopurines and 6-aminopurines. Bacillus cereus adenosine phosphorylase (AdoP) is a hexameric PNP; however, it is highly specific for 6-aminopurines. To investigate the structural basis for the unique substrate specificity of AdoP, the active-site mutant D204N was prepared and kinetically characterized and the structures of the wild-type protein and the D204N mutant complexed with adenosine and sulfate or with inosine and sulfate were determined at high resolution (1.2-1.4 A). AdoP interacts directly with the preferred substrate through a hydrogen-bond donation from the catalytically important residue Asp204 to N7 of the purine base. Comparison with Escherichia coli PNP revealed a more optimal orientation of Asp204 towards N7 of adenosine and a more closed active site. When inosine is bound, two water molecules are interposed between Asp204 and the N7 and O6 atoms of the nucleoside, thus allowing the enzyme to find alternative but less efficient ways to stabilize the transition state. The mutation of Asp204 to asparagine led to a significant decrease in catalytic efficiency for adenosine without affecting the efficiency of inosine cleavage.
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Structural basis of the substrate specificity of Bacillus cereus adenosine phosphorylase.,Dessanti P, Zhang Y, Allegrini S, Tozzi MG, Sgarrella F, Ealick SE Acta Crystallogr D Biol Crystallogr. 2012 Mar;68(Pt 3):239-48. Epub 2012 Feb 14. PMID:22349225<ref>PMID:22349225</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 3uay" style="background-color:#fffaf0;"></div>
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==See Also==
==See Also==
*[[Purine nucleoside phosphorylase 3D structures|Purine nucleoside phosphorylase 3D structures]]
*[[Purine nucleoside phosphorylase 3D structures|Purine nucleoside phosphorylase 3D structures]]
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== References ==
 
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<references/>
 
__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Atcc 14579]]
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[[Category: Bacillus cereus]]
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Purine-nucleoside phosphorylase]]
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[[Category: Allegrini S]]
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[[Category: Allegrini, S]]
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[[Category: Dessanti P]]
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[[Category: Dessanti, P]]
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[[Category: Ealick SE]]
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[[Category: Ealick, S E]]
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[[Category: Sgarrella F]]
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[[Category: Sgarrella, F]]
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[[Category: Tozzi MG]]
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[[Category: Tozzi, M G]]
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[[Category: Zhang Y]]
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[[Category: Zhang, Y]]
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[[Category: Transferase]]
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Current revision

Crystal structure of Bacillus cereus adenosine phosphorylase D204N mutant complexed with adenosine

PDB ID 3uay

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