3onv

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Current revision (11:17, 21 February 2024) (edit) (undo)
 
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<StructureSection load='3onv' size='340' side='right'caption='[[3onv]], [[Resolution|resolution]] 1.89&Aring;' scene=''>
<StructureSection load='3onv' size='340' side='right'caption='[[3onv]], [[Resolution|resolution]] 1.89&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[3onv]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ONV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ONV FirstGlance]. <br>
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<table><tr><td colspan='2'>[[3onv]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ONV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ONV 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=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]] 1.893&#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;'>[[3ooe|3ooe]], [[3ooh|3ooh]]</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=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, EcDH1_3614 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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=3onv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3onv OCA], [https://pdbe.org/3onv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3onv RCSB], [https://www.ebi.ac.uk/pdbsum/3onv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3onv 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=3onv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3onv OCA], [https://pdbe.org/3onv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3onv RCSB], [https://www.ebi.ac.uk/pdbsum/3onv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3onv 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_ECOLI DEOD_ECOLI] Cleavage of guanosine or inosine to respective bases and sugar-1-phosphate molecules.[HAMAP-Rule:MF_01627]
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The catalytic mechanism of Escherichia coli purine nucleoside phosphorylase (PNP) is revised using site-directed mutagenesis, kinetic studies and structure determinations. The experimental evidence on the role of the particular catalytic amino acid during catalysis has not been available. Therefore, the active site mutants Arg24Ala, Asp204Ala, Asp204Asn, Arg217Ala and Asp204Ala/Arg217Ala were prepared and their kinetics and thermodynamic studies were carried out. The activity tests with natural substrates and 7-methylguanosine confirmed the earlier hypothesis, that catalysis involves protonation of the purine base at position N7 by Asp204, which is triggered by Arg217. The crystal structures of the wild type in complexes with phosphate and sulphate, respectively, and of the Arg24Ala mutant in complex with phosphate/sulphate were determined. The structural data show that previously observed conformational change is a result of the phosphate binding and its interaction with Arg24. As E. coli PNP is a promising candidate for the tumour-directed gene therapy, our results may also help to design efficient mutants useful in gene therapy.
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Validation of the catalytic mechanism of Escherichiacoli purine nucleoside phosphorylase by structural and kinetic studies.,Mikleusevic G, Stefanic Z, Narczyk M, Wielgus-Kutrowska B, Bzowska A, Luic M Biochimie. 2011 Jun 13. PMID:21672603<ref>PMID:21672603</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 3onv" 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: Ecoli]]
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[[Category: Escherichia coli K-12]]
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Purine-nucleoside phosphorylase]]
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[[Category: Bzowska A]]
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[[Category: Bzowska, A]]
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[[Category: Luic M]]
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[[Category: Luic, M]]
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[[Category: Mikleusevic G]]
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[[Category: Mikleusevic, G]]
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[[Category: Narzyk M]]
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[[Category: Narzyk, M]]
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[[Category: Stefanic Z]]
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[[Category: Stefanic, Z]]
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[[Category: Wielgus-Kutrowska B]]
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[[Category: Wielgus-Kutrowska, B]]
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[[Category: Purine nucleoside phosphorylase]]
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[[Category: Transferase]]
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Current revision

Crystal structure of E. Coli purine nucleoside phosphorylase with SO4

PDB ID 3onv

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Proteopedia Page Contributors and Editors (what is this?)

OCA

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