8hrv | pdb_00008hrv

dutpase of helicobacter pylori 26695

spinqualitylabelsall models 8hrv, resolution 2.00Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 8hrv is a 3 chain structure with sequence from Helicobacter pylori 26695. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Method: X-ray diffraction, Resolution 2Å Ligands: DUP, EDO, MG Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Function 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. 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 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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