8hrv
From Proteopedia
(Difference between revisions)
(New page: '''Unreleased structure''' The entry 8hrv is ON HOLD Authors: kumari, K., Gourinath, S. Description: dutpase of helicobacter pylori 26695 Category: Unreleased Structures [[Category...) |
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| - | '''Unreleased structure''' | ||
| - | + | ==dutpase of helicobacter pylori 26695== | |
| + | <StructureSection load='8hrv' size='340' side='right'caption='[[8hrv]], [[Resolution|resolution]] 2.00Å' scene=''> | ||
| + | == Structural highlights == | ||
| + | <table><tr><td colspan='2'>[[8hrv]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Helicobacter_pylori_26695 Helicobacter pylori 26695]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8HRV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8HRV FirstGlance]. <br> | ||
| + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2Å</td></tr> | ||
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DUP:2-DEOXYURIDINE+5-ALPHA,BETA-IMIDO-TRIPHOSPHATE'>DUP</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></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=8hrv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8hrv OCA], [https://pdbe.org/8hrv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8hrv RCSB], [https://www.ebi.ac.uk/pdbsum/8hrv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8hrv ProSAT]</span></td></tr> | ||
| + | </table> | ||
| + | == Function == | ||
| + | [https://www.uniprot.org/uniprot/DUT_HELPY DUT_HELPY] This enzyme is involved in nucleotide metabolism: it produces dUMP, the immediate precursor of thymidine nucleotides and it decreases the intracellular concentration of dUTP so that uracil cannot be incorporated into DNA. | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | Helicobacter pylori deoxyuridine triphosphate nucleotidohydrolase (HpdUTPase) is a key enzyme in the synthesis of the thymidine nucleotide pathway. It catalyzes the hydrolysis of dUTP to dUMP and releases pyrophosphate. This enzyme has been shown to be essential in several pathogenic organisms. Here, we have determined the crystal structures of HpdUTPase in complex with alpha, beta-imido dUTP (non-hydrolyzable substrate analog) and apo-state at resolution of 2 A and 2.5 A respectively. The flexible c terminal end of HpdUTPase which is not observed in apo-state structure and becomes ordered in the complex structure, suggesting its role in forming active site and substrate interaction. The Isothermal titration calorimetry (ITC) experiments reveal that hydrolysis of dUTP is an exothermic reaction with K(m) = 35.0 +/- 0.19 muM and the k(cat) = 1.20 +/- 0.19 s(-1). The ITC studies combined with MD simulations for all other nucleotides (dATP.dGTP, dCTP and dTTP) show that the active site of HpdUTPase strangely can also accommodate dATP. The structural comparison with the host (human) dUTPases reveals critical differences in substrate binding affinity of the active site of HpdUTPase. The detailed study suggests that the dATP binds in the active site of HpdUTPase making the number of preferable hydrogen bonds and shows activity with Km of 47 +/- 2.4 muM. | ||
| - | + | Structural analysis of dUTPase from Helicobacter pylori reveals unusual activity for dATP.,Kumari K, Aggarwal S, Khan FM, Munde M, Gourinath S Int J Biol Macromol. 2024 Dec;282(Pt 4):136937. doi: , 10.1016/j.ijbiomac.2024.136937. Epub 2024 Oct 28. PMID:39490855<ref>PMID:39490855</ref> | |
| - | + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |
| - | [[Category: | + | </div> |
| - | [[Category: | + | <div class="pdbe-citations 8hrv" style="background-color:#fffaf0;"></div> |
| - | [[Category: | + | == References == |
| + | <references/> | ||
| + | __TOC__ | ||
| + | </StructureSection> | ||
| + | [[Category: Helicobacter pylori 26695]] | ||
| + | [[Category: Large Structures]] | ||
| + | [[Category: Gourinath S]] | ||
| + | [[Category: Kumari K]] | ||
Current revision
dutpase of helicobacter pylori 26695
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