Effect of protonation on the mechanism of phosphate monoester hydrolysis and comparison with the hydrolysis of nucleoside triphosphate in biomolecular motors

2017 ◽  
Vol 230 ◽  
pp. 27-35 ◽  
Author(s):  
Hammad Ali Hassan ◽  
Sadaf Rani ◽  
Tabeer Fatima ◽  
Farooq Ahmad Kiani ◽  
Stefan Fischer
1997 ◽  
Vol 328 (1) ◽  
pp. 257-262 ◽  
Author(s):  
Andrzej GURANOWSKI ◽  
Elżbieta STARZYŃSKA ◽  
Paul BROWN ◽  
G. Michael BLACKBURN

Adenosine 5ʹ-tetraphosphate phosphohydrolase (EC 3.6.1.14) has been purified to homogeneity from the meal of yellow lupin (Lupinus luteus) seeds. The enzyme is a single polypeptide chain of 25±1 kDa. It catalyses the hydrolysis of a nucleoside 5ʹ-tetraphosphate to a nucleoside triphosphate and orthophosphate, and hydrolysis of tripolyphosphate but neither pyrophosphate nor tetraphosphate. A divalent cation, Mg2+, Co2+, Ni2+ or Mn2+, is required for these reactions. The pH optimum for hydrolysis of adenosine 5ʹ-tetraphosphate (p4A) is 8.2, Vmax is 21±1.7 μmol/min per mg of protein and the Km for p4A is 3±0.6 μM. At saturating p4A concentrations, the rate constant for the reaction is 8.5±0.7 s-1 [at 30 °C, in 50 mM Hepes/KOH (pH 8.2)/5 mM MgCl2/0.1 mM dithiothreitol]. p4A and guanosine 5ʹ-tetraphosphate are hydrolysed at the same rate. Adenosine 5ʹ-pentaphosphate (p5A) is degraded 1/200 as fast and is converted into ATP and two molecules of orthophosphate, which are liberated sequentially. This contrasts with the cleavage of p5A by the lupin diadenosine tetraphosphate hydrolase (EC 3.6.1.17), which gives ATP and pyrophosphate. Zn2+, F- and Ca2+ ions inhibit the hydrolysis of p4A with I50 values of 0.1, 0.12 and 0.2 mM respectively.


1963 ◽  
Vol 41 (7) ◽  
pp. 1503-1518 ◽  
Author(s):  
R. M. Hochster ◽  
V. M. Chang

The enzyme RNA polymerase has been partially purified from cell-free extracts of the crown-gall tumor-inducing organism Agrobacterium tumefaciens. The four triphosphates ATP, CTP, GTP, and UTP, manganese (or magnesium) ions, and DNA are all required for activity. DNA acts as a template in the formation of the new RNA molecule the base composition of which exactly mimics that of the particular DNA used. The dependence of the reaction on time, pH, and on the concentrations of nucleoside triphosphate, DNA, and protein has been worked out. The exact requirements of the entire system are delineated, the effect of physical alteration of the DNA used (heating, cooling, sonic oscillation) has been examined and a new observation made on the stimulation of DNA action by 1-minute sonic pretreatment.Actinomycin D is shown to inhibit the reaction completely at 2.8 × 10−5 M while atabrine, a new inhibitor, requires a concentration of 3.3 × 10−3 M under the conditions specified. Hydrolysis of the reaction product by means of a variety of procedures and other information obtained show that the reaction product is, indeed, RNA.The data reported herein are regarded as providing a satisfactory explanation for the mechanism of biosynthesis of at least one type of RNA (presumably "messenger" RNA) in A. tumefaciens.


2020 ◽  
Vol 11 ◽  
Author(s):  
Saira Afzal ◽  
Mariya al-Rashida ◽  
Abdul Hameed ◽  
Julie Pelletier ◽  
Jean Sévigny ◽  
...  

Ectonucleoside triphosphate diphosphohydrolases (NTPDases) are ectoenzymes that play an important role in the hydrolysis of nucleoside triphosphate and diphosphate to nucleoside monophosphate. NTPDase1, -2, -3 and -8 are the membrane bound members of this enzyme family that are responsible for regulating the levels of nucleotides in extracellular environment. However, the pathophysiological functions of these enzymes are not fully understood due to lack of potent and selective NTPDase inhibitors. Herein, a series of oxoindolin hydrazine carbothioamide derivatives is synthesized and screened for NTPDase inhibitory activity. Four compounds were identified as selective inhibitors of h-NTPDase1 having IC50 values in lower micromolar range, these include compounds 8b (IC50 = 0.29 ± 0.02 µM), 8e (IC50 = 0.15 ± 0.009 µM), 8f (IC50 = 0.24 ± 0.01 µM) and 8l (IC50 = 0.30 ± 0.03 µM). Similarly, compound 8k (IC50 = 0.16 ± 0.01 µM) was found to be a selective h-NTPDase2 inhibitor. In case of h-NTPDase3, most potent inhibitors were compounds 8c (IC50 = 0.19 ± 0.02 µM) and 8m (IC50 = 0.38 ± 0.03 µM). Since NTPDase3 has been reported to be associated with the regulation of insulin secretion, we evaluated our synthesized NTPDase3 inhibitors for their ability to stimulate insulin secretion in isolated mice islets. Promising results were obtained showing that compound 8m potently stimulated insulin secretion without affecting the NTPDase3 gene expression. Molecular docking studies of the most potent compounds were also carried out to rationalize binding site interactions. Hence, these compounds are useful tools to study the role of NTPDase3 in insulin secretion.


2011 ◽  
Vol 35 (4) ◽  
pp. 342-346 ◽  
Author(s):  
Piero Luigi Ipata

The brain relies on the salvage of preformed purine and pyrimidine rings, mainly in the form of nucleosides, to maintain its nucleotide pool in the proper qualitative and quantitative balance. The transport of nucleosides from blood into neurons and glia is considered to be an essential prerequisite to enter their metabolic utilization in the brain. Recent lines of evidence have also suggested that local extracellular nucleoside triphosphate (NTP) degradation may contribute to brain nucleosides. Plasma membrane-located ectonucleotidases, with their active sites oriented toward the extracellular space, catalyze the successive hydrolysis of NTPs to their respective nucleosides. Apart from the well-established modulation of ATP, ADP, adenosine (the purinergic agonists), UTP, and UDP (the pyrimidinergic agonists) availability at their respective receptors, ectonucleotidases may also serve the local reutilization of nucleosides in the brain. After their production in the extracellular space by the ectonucleotidase system, nucleosides are transported into neurons and glia and converted back to NTPs via a set of purine and pyrimidine salvage enzymes. Finally, nucleotides are transported into brain cell vescicles or granules and released back into the extracellular space. The key teaching concepts to be included in a two-to three-lecture block on the molecular mechanisms of the local nucleoside recycling process, based on a cross talk between the brain extracellular space and cytosol, are discussed in this article.


2020 ◽  
Vol 16 (5) ◽  
pp. 689-702 ◽  
Author(s):  
Saira Afzal ◽  
Sumera Zaib ◽  
Behzad Jafari ◽  
Peter Langer ◽  
Joanna Lecka ◽  
...  

Background: The ecto-nucleoside triphosphate diphosphohydrolases (NTPDases) terminate nucleotide signaling via the hydrolysis of extracellular nucleoside-5'-triphosphate and nucleoside- 5'-diphosphate, to nucleoside-5'-monophosphate and composed of eight Ca2+/Mg2+ dependent ectonucleotidases (NTPDase1-8). Extracellular nucleotides are involved in a variety of physiological mechanisms. However, they are rapidly inactivated by ectonucleotidases that are involved in the sequential removal of phosphate group from nucleotides with the release of inorganic phosphate and their respective nucleoside. Ectonucleoside triphosphate diphosphohydrolases (NTPDases) represent the key enzymes responsible for nucleotides hydrolysis and their overexpression has been related to certain pathological conditions. Therefore, the inhibitors of NTPDases are of particular importance in order to investigate their potential to treat various diseases e.g., cancer, ischemia and other disorders of the cardiovascular and immune system. Methods: Keeping in view the importance of NTPDase inhibitors, a series of thiadiazolopyrimidones were evaluated for their potential inhibitory activity towards NTPDases by the malachite green assay. Results: The results suggested that some of the compounds were found as non-selective inhibitors of isozyme of NTPDases, however, most of the compounds act as potent and selective inhibitors. In case of substituted amino derivatives (4c-m), the compounds 4m (IC50 = 1.13 ± 0.09 μM) and 4g (IC50 = 1.72 ± 0.08 μM) were found to be the most potent inhibitors of h-NTPDase1 and 2, respectively. Whereas, compound 4d showed the best inhibitory potential for both h-NTPDase3 (IC50 = 1.25 ± 0.06 μM) and h-NTPDase8 (0.21 ± 0.02 μM). Among 5a-t derivatives, compounds 5e (IC50 = 2.52 ± 0.15 μM), 5p (IC50 = 3.17 ± 0.05 μM), 5n (IC50 = 1.22 ± 0.06 μM) and 5b (IC50 = 0.35 ± 0.001 μM) were found to be the most potent inhibitors of h-NTPDase1, 2, 3 and 8, respectively. Interestingly, the inhibitory concentration values of above-mentioned inhibitors were several folds greater than suramin, a reference control. In order to determine the binding interactions, molecular docking studies of the most potent inhibitors were conducted into the homology models of NTPDases and the putative binding analysis further confirmed that selective and potent compounds bind deep inside the active pocket of the respective enzymes. Conclusions: The docking analysis proposed that the inhibitory activity correlates with the hydrogen bonds inside the binding pocket. Thus, these derivatives are of interest and may further be investigated for their importance in medicinal chemistry.


Blood ◽  
2007 ◽  
Vol 110 (4) ◽  
pp. 1225-1232 ◽  
Author(s):  
Giovanna Borsellino ◽  
Markus Kleinewietfeld ◽  
Diletta Di Mitri ◽  
Alexander Sternjak ◽  
Adamo Diamantini ◽  
...  

Abstract In the immune system, extracellular ATP functions as a “natural adjuvant” that exhibits multiple proinflammatory effects. It is released by damaged cells as an indicator of trauma and cell death but can be inactivated by CD39 (nucleoside triphosphate diphosphohydrolase-1 [NTPDase 1]), an ectoenzyme that degrades ATP to AMP. Here, we show that CD39 is expressed primarily by immune-suppressive Foxp3+ regulatory T (Treg) cells. In mice, the enzyme is present on virtually all CD4+CD25+ cells. CD39 expression is driven by the Treg-specific transcription factor Foxp3 and its catalytic activity is strongly enhanced by T-cell receptor (TCR) ligation. Activated Treg cells are therefore able to abrogate ATP-related effects such as P2 receptor-mediated cell toxicity and ATP-driven maturation of dendritic cells. Also, human Treg cells express CD39. In contrast to mice, CD39 expression in man is restricted to a subset of Foxp3+ regulatory effector/memory-like T (TREM) cells. Notably, patients with the remitting/relapsing form of multiple sclerosis (MS) have strikingly reduced numbers of CD39+ Treg cells in the blood. Thus, in humans CD39 is a marker of a Treg subset likely involved in the control of the inflammatory autoimmune disease.


2016 ◽  
Vol 18 (30) ◽  
pp. 20219-20233 ◽  
Author(s):  
Farooq Ahmad Kiani ◽  
Stefan Fischer

Three different ATP-driven biomolecular motors catalyze the hydrolysis of ATP using a strikingly similar catalytic strategy.


1963 ◽  
Vol 41 (1) ◽  
pp. 1503-1518 ◽  
Author(s):  
R. M. Hochster ◽  
V. M. Chang

The enzyme RNA polymerase has been partially purified from cell-free extracts of the crown-gall tumor-inducing organism Agrobacterium tumefaciens. The four triphosphates ATP, CTP, GTP, and UTP, manganese (or magnesium) ions, and DNA are all required for activity. DNA acts as a template in the formation of the new RNA molecule the base composition of which exactly mimics that of the particular DNA used. The dependence of the reaction on time, pH, and on the concentrations of nucleoside triphosphate, DNA, and protein has been worked out. The exact requirements of the entire system are delineated, the effect of physical alteration of the DNA used (heating, cooling, sonic oscillation) has been examined and a new observation made on the stimulation of DNA action by 1-minute sonic pretreatment.Actinomycin D is shown to inhibit the reaction completely at 2.8 × 10−5 M while atabrine, a new inhibitor, requires a concentration of 3.3 × 10−3 M under the conditions specified. Hydrolysis of the reaction product by means of a variety of procedures and other information obtained show that the reaction product is, indeed, RNA.The data reported herein are regarded as providing a satisfactory explanation for the mechanism of biosynthesis of at least one type of RNA (presumably "messenger" RNA) in A. tumefaciens.


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