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The acidities of 37 amino-substituted heterocyclic compounds have been determined using measurements of degree of ionization in DMSO/ water/0.011 M hydroxide ion and recently developed extrapolative procedures which are based on the Bunnett-Olseh (B.O.) and the Marziano-Cimino-Passerini (M.C.P.) methods. The compounds studied include 19 aminopyridines and pyrimidines and 18 derivatives of the biologically important nucleotide bases, cytosine, adenine and guanine. The UV/vis spectra of the neutral and anionic forms of the amino-pyridines and pyrimidines are well separated so that in evaluating the ionization ratios, changes of the spectra with medium composition were accounted for by measuring at the wavelength of maximum anionic absorption in each solution and by assuming that eA- and eHA vary linearly with HN . For the majority of the nucleotide derivatives, the neutral and anionic spectra were closely overlapping although different in shape. The ionization ratios were best evaluated by using the area under the spectral curve; spectral changes with solvent composition were accounted for by an adaptation of the method described above. Ionization ratios evaluated by the area method agreed well with those calculated by other methods as long as the anionic area was at least one and one-half times as great as the neutral area (or vice versa). The aminopyrimidines and purines define a new acidity function Hp . This function covers the range from water to 87.6 mole % DMSO and was established using 15 aminopyrimidines and purines. When Hp plotted against mole % DMSO, it rises less steeply than HN. This has been attributed to less extensive derealization of charge in the aminopyrimidine anion relative to that of an aniline (usually a nitroaniline) ionizing at the same solvent composition. The B.O. pKHA values of unsubstituted 2- and 4-aminopyridine, 2- and 4-aminopyrimidine and 2-amino-s-triazine, ranging from 23.50 to 14.91 are well-correlated by a Hammett plot using a values recently established for aza substituents and assuming the additivity of aza substituent effects, p. 4.99. The B.O. pKHA values of five substituted anilines, ranging from 25.50 to 23.13, fall close to this plot. All ten compounds are accommodated by a straight line, p value 5.10, which suggests that the aminoheterocycles may be considered to be aza-substituted anilines. It appears that the sensitivity of aniline and diphenylamine acidity to substituent effects is greater than previously believed. The findings in this work suggest that transmission of substituent effects through a heterocyclic and a benzene nucleus are equal and that an aza group may be regarded as a normal ring substituent. From the acidities of substituted aminopyridines and pyrimidines it appears that, to a first approximation, aza groups do not perturb the effects of other substituents on the same nucleus, although there may be a small resonance interaction between a +R group, such as chloro, and an aza group lying para to it. The same conclusion was reached from examination of the basicities of these compounds. / Science, Faculty of / Chemistry, Department of / Graduate

Thesis (M.Sc.(Water Utilisation))--University of Pretoria, 2001. / Summaries in Afrikaans and English. Includes bibliographical references.

This thesis is an investigation of the relative differences of acid ionization constants and ion mobility in D2O versus H2O under hydrothermal conditions, for acetic acid and phosphoric acid. Values of specific conductivity were measured for each acid in H2O and D2O, as well as for a series of strong electrolytes using a high-temperature high-pressure AC conductivity flow cell that was originally designed at the University of Delaware. The Fuoss-Hsai-Fernández-Prini (FHFP) equation was fitted to the experimental values of molar conductivity, Λ, to obtain molar conductivities at infinite dilution, Λo. The molar conductivities at infinite dilution for each acid were used to calculate degrees of dissociation and ionization constants in D2O versus H2O from 298 K to 571 K. Measured values of differences in pKaq in D2O vs H2O, ΔpKaq = [pKaq,D2O – pKaq,H2O], become relatively independent of temperature above 423 K, with values of: ΔpKaq 0.45 for acetic acid and ΔpKaq 0.35 for phosphoric acid. The Density Model was then fitted to the values of pKaq in H2O and D2O to represent their temperature dependence to a precision of ± 0.01 in ΔpKaq. Comparisons of the molar conductivities and ionic molar conductivities at infinite dilution for the strong electrolytes in H2O and D2O as a function of temperature have also been made, based on Walden’s rule correlations, (λ°•η)D2O / (λ°•η)H2O. Changes in values of (λ°•η)D2O / (λ°•η)H2O as a function of temperature are consistent with a change in the relative hydration behavior of ions, where the effective Stokes’ radii of the ions in D2O versus H2O changes at temperatures above ~ 450 K. Changes in values of (λ°•η)D2O / (λ°•η)H2O for D+/H+ and OD-/OH- suggest that proton hopping “Grotthuss” mechanisms become more efficient in D2O versus H2O with increasing temperature. / University Network of Excellence in Nuclear Engineering, Ontario Power Generation Ltd, Natural Science and Engineering Research Council of Canada

Please read the abstract in the section 00front of this document / Dissertation (MSc (Water Utilization))--University of Pretoria, 2006. / Chemical Engineering / unrestricted

Computational methods provide important insights in structural features and properties of many systems, which in turn, reduce the cost of drug discovery. Accurate calculations of electrochemical properties and pKa predictions are crucial for understanding and modeling of many chemical reactions and biological processes. This dissertation will present two different classes of computational methods for the calculation of electrochemical properties and pKa values in two different systems. In the first part, we demonstrate the pKa calculations of histidine residues in proteins by Free Energy Perturbation (FEP) and evaluate several protein pKa prediction methods. In the second part, we demonstrate the Density Functional Theory d-block localized orbital correction (DFT-DBLOC) methodology in calculating of redox potentials and spin state splittings for octahedral transition metal containing species. Ionizable side chains in proteins are involved in catalysis and play a key role in the pH-dependence of a variety of biological reactions. The ability to understand and model these effects requires an accurate pKa prediction of ionizable residues. The correct assignment of protonation state at a given pH helps to determine properties including protein solubility, protein folding, catalytic activity and protein–ligand binding affinities. Several computational methods have been developed to predict the residue pKa based on protein structure. Although some methods produced accurate predictions within 1 pKa unit RMS error, the RMSE over a large data set is not necessarily a good predictor of accuracy for specific types of protein environments. Most datasets studied in the pKa predictions contain highly solvent exposed residues which exhibit minimal perturbations from the intrinsic pKa values in solution. As the fraction of exposure to the solvent of the residue decreases, the predictive power of methods diminishes. However, these buried residues are often the most important residues from the standpoint of binding, catalytic activity, and other biologically important functions. We have applied Free Energy Perturbation (FEP) method to predict a large dataset of experimentally measured pKa values of histidines in proteins and compare the results to experimental data. Histidines are particularly crucial because the imidazole side chain of histidine can serve as both acids and bases near physiological pH values and as both hydrogen bond donors and acceptors. We explain the factors determining pKa values and improve pKa predictions using enhanced protocols. We demonstrate improved performance using the FEP methodology vs example empirical and continuum solvent-based methodologies. In Chapter 4, we have evaluated the performance of the M06 and PBE0 DFT functionals and the DFT-DBLOC methodology in their ability to calculate spin splittings and redox potentials for octahedral complexes containing a first-row transition metal series atom. These quantities play a critical role in a wide range of transition metal chemistry and physics, including catalysis, electron transfer, and conductivity. The mean unsigned errors (MUEs) for these two functionals are similar to those obtained for B3LYP using the same data sets. We then apply our localized orbital correction approach for transition metals, DBLOC, in an effort to improve the results obtained with both functionals. The PBE0- DBLOC results are remarkably close in both MUE and parameter values to those obtained for the B3LYP-DBLOC method. The M06-DBLOC results are less accurate, but the parameter values and trends are still qualitatively very similar. These results demonstrate that DBLOC corrected methods are substantially more accurate for these systems than any of the uncorrected functionals we have tested and that the deviations between hybrid DFT methods and experiment for transition metal containing systems exhibit striking physically based regularities which are very similar for the three functionals that we have examined, despite significant differences in the details of each model.

<p>U ovoj doktorskoj disertaciji je radi fizičko-hemijske karakterizacije i ispitivanja potencijalne<br />biolo&scaron;ke aktivnosti sintetisano&nbsp; 40&nbsp; derivata mono(tio)karbohidrazona. Strukture dobijenih jedinjenja su potvrđene&nbsp; NMR&nbsp; i&nbsp; FT&ndash;IR&nbsp; spektroskopijom,&nbsp; elementalnom&nbsp; i&nbsp; rendgenskom&nbsp; strukturnom&nbsp; analizom. Uticaj&nbsp; rastvarača&nbsp; i&nbsp; prisutnog&nbsp; supstituenta&nbsp; na&nbsp; položaje apsorpcionih&nbsp; maksimuma&nbsp; ispitani&nbsp; su&nbsp; po principima LSER i LFER metoda. Teorijski proračuni za sintetisana jedinjenja izvedeni su&nbsp; primenom TD&ndash;DFT&nbsp; metode.&nbsp; Jonizacione&nbsp; konstante&nbsp; derivata&nbsp; mono(tio)karbohidrazona&nbsp; su&nbsp; određene potenciometrijskim&nbsp; titracijama.&nbsp; Antioksidativna&nbsp; aktivnost&nbsp; je&nbsp; određena&nbsp; primenom&nbsp; tri&nbsp; testa:&nbsp; DPPH, ABTS&nbsp; i&nbsp; FRAP&nbsp; testa.&nbsp; Antimikrobna&nbsp; aktivnost&nbsp; je&nbsp; ispitana&nbsp; mikrodilucionom&nbsp; metodom&nbsp; na&nbsp; dva&nbsp; soja bakterija:&nbsp; Staphylococcus&nbsp; aureus&nbsp; i&nbsp; Escherichia&nbsp; coli.&nbsp; Za&nbsp; jedinjenja&nbsp; koja&nbsp; su&nbsp; pokazali&nbsp; antimikrobnu aktivnost je&nbsp; ispitan procenat citotoksičnosti.&nbsp; Sveukupan&nbsp; zaključak o sličnosti i razlikama sintetisanih derivata izveden je na osnovu multivarijatnih metoda klaster analize i analize glavnih komponenti.</p> / <p>In this doctoral dissertation, 40 mono(thio)carbohydrazone derivatives were synthesized for the purpose of physico-chemical characterization and examination of potential biological activity. The structures of the obtained compounds were confirmed by NMR and FT &ndash;IR spectroscopy, elemental analysis&nbsp; and&nbsp; X-ray&nbsp; structural&nbsp; analysis.&nbsp; The&nbsp; influence&nbsp; of&nbsp; solvent&nbsp; and&nbsp; substituent&nbsp; present&nbsp; on&nbsp; the positions&nbsp; of&nbsp; absorption maxima&nbsp; was&nbsp; examined&nbsp; according&nbsp; to&nbsp; the&nbsp; principles&nbsp; of&nbsp; LSER&nbsp; and&nbsp; LFER methods.&nbsp; Theoretical&nbsp; calculations&nbsp; for&nbsp; the&nbsp; synthesized&nbsp; compounds&nbsp; were&nbsp; performed&nbsp; by&nbsp; the&nbsp; TD&ndash;DFT method.&nbsp; The&nbsp; acid&nbsp; constants&nbsp; of&nbsp; mono(thio)carbohydrazone&nbsp; derivatives&nbsp; were&nbsp; determined&nbsp; by potentiometric&nbsp; titrations.&nbsp; Antioxidant&nbsp; activity&nbsp; was&nbsp; determined&nbsp; using&nbsp; three&nbsp; tests:&nbsp; DPPH,&nbsp; ABTS&nbsp; and FRAP test. Antimicrobial activity was examined by microdilution method on two strains of bacteria: Staphylococcus&nbsp; aureus&nbsp; and&nbsp; Escherichia&nbsp; coli.&nbsp; The&nbsp; percentage&nbsp; of&nbsp; cytotoxicity&nbsp; was&nbsp; examined&nbsp; for compounds&nbsp; that&nbsp; showed&nbsp; antimicrobial&nbsp; activity.&nbsp; Overall&nbsp; conclusion&nbsp; about&nbsp; the&nbsp; similarities&nbsp; and differences of the synthesized&nbsp; derivatives was studied by multivariate&nbsp; methods of cluster analysis and analysis of principal components.</p>