Analysis of mixtures of purines and pyrimidines by first- and second-derivative ultraviolet spectrometry

Zero-order, first-derivative and second-derivative ultraviolet absorption spectra of a series of purines, pyrimidines and their binary mixtures in aqueous solution have been recorded at 298 K. It is shown that second-derivative spectra can be used for the identification of eight mixtures of purines and pyrimidines. Several graphical procedures are tested for evaluating derivative spectra in quantitative measurements of single compounds and mixtures. Linear log-log calibration plots are obtained with correlation coefficients generally larger than 0.99. Second-derivative spectra appear to provide a precise and simple method for determination of purines and pyrimidines, at concentrations ranging between 5 x 10(-6) and 5 x 10(-4)M.     

邻羟基二苯甲酮类紫外吸收剂离解常数的测定

本工作对两种常见的商品紫外吸收剂——2-羟基-4-甲氧基二苯甲酮(UV-9)和2,4-二羟基二苯甲酮(UV-0)在基态和激发态时的离解常数进行了测定。对UV-0存在着反常的吸收强度和pH关系曲线作了合理的解释, 并结合测得的离解常数对上述紫外吸收剂耗失能量的机理进行了讨论。     

Effect of CTAB and SDS micelles on the excited state equilibria of some indole probes

The absorption and fluorescence spectral characteristics of some biologically active indoles have been studied as a function of acidity and basicity (H_/pH/H(o)) in cationic (cetyltrimethylammonium bromide, CTAB), anionic (sodium dodecylsulphate, SDS) and aqueous phases at a given surfactant concentration. The prototropic equilibrium reactions of these probes have been studied in aqueous and micellar phases and apparent excited state acidity constant (pK(a)(*)) values are calculated. The probes show formation of different species on changing pH. Various species present in water, CTAB and SDS have been identified and the equilibrium constants have been determined by Fluorimetric Titration method. The fluorescence spectral data suggest the formation of oxonium ion through the excited state proton transfer reaction in highly acidic media and formation of photoproducts due to the base catalyzed auto-oxidative reaction in basic aqueous solutions. Variations in the apparent pK(a)(*) value have been observed in different media. The change in the apparent pK(a) values depends upon the solubilising power of the micelles, as well as on the location of the protonating site in the molecule. The observation about increase in pK(a)(*) values in SDS and decrease in CTAB compared to pure water for various equilibria is consistent with the pseudophase ion-exchange (PIE) model.     

Phototautomerism in the lowest excited singlet state of 1-hydroxy-2-carboxyanthraquinone

The dependence of the absorption and fluorescence spectra of 1-hydroxy-2-carboxy-anthraquinone on pH and Hammett acidity have been studied. This compound exhibits phototautomerism in its uncharged and its singly-charged anionic species in aqueous media. Its ground state (pK(a)) and lowest excited singlet-state (pK(a)( *)) dissociation constants have been determined by absorptiometric and fluorimetric titrations and the assignment of the pK(a) and pK( *)(a) values to the equilibria concerned has been carefully considered.     

Fluorimetric and absorptiometric determination of dissociation constants and chromogenic reactions of benzyl 2-pyridyl ketone 2-quinolylhydrazone

The dissociation constants in the ground state of benzyl 2-pyridyl ketone 2-quinolylhydrazone (BPKQH) have been determined fluorimetrically and spectrophotometrically in aqueous ethanol medium. The pK(a) values of this compound in the excited state have also been established. The analytical properties of the reagent and its chromogenic reactions with some metal ions were studied.     

Excited state proton transfer reactions of acridine studied by nanosecond fluorometry

Rate constants for excited state protonation reactions of acridine in aqueous solutions have been determined using fluorescence decay measurements. The value of the excited state pK derived from the rate constants is in full agreement with the one obtained from steady state fluorescence measurements. It is concluded that acridine follows a two states reaction scheme in its electronically excited state.     

ISOTHERMAL LUMINESCENCE AND THERMO-LUMINESCENCE OF NUCLEIC ACID BASES FOLLOWING γ-IRRADIATION

Abstract— The emission spectra of radiation induced isothermal luminescence (ITL) and the thermolu-minescence (TL) of purines and pyrimidines of nucleic acids and analogue 6-azauracil in the form of pellets of dry polycrystalline powders have been studied at 77 K, and compared with their low temperature fluorescence and phosphorescence spectra. The qualitative and quantitative measurements of isothermal luminescence and thermoluminescence show that the two result from the same radiative transitions. The thermoluminescence emission was observed to coincide with the phosphorescence emission of the compounds in all the cases. The thermoluminescence of the pyrimidines and their analogue, however, have shown an additional component corresponding to their fluorescence in the ultraviolet region. An extension of the Weissbluth model based on the location of the electron traps in relation to the excited states of the compounds is proposed to explain their thermoluminescence emission.     

Tetra-n-butylammonium Hydroxide： an Efficient Catalyst for N-Alkylation of Pyrimidines and Purines

IntroductionSince pyrimidines and purines offer significantstructural diversity, they are important targets for ana-logue preparation and process development and havefound widespread applications in anticancer and antivi-ral drugs. These applications incr…     

SCF Deformation densities and electrostatic potentials of purines and pyrimidines

4-31G wave functions have been computed for five purines and pyrimidines. The calculated deformation densities have been partitioned into atomic fragments, which were integrated to yield atomic multipole moments. The transferability of atomic fragments between related molecules was verified by constructing model maps for uracil and guanine from appropriate fragments of cytosine and adenine. Model electrostatic potentials calculated from the moments of model atoms are similar to the corresponding 4-31G potentials. Comparison of 4-31G and 4-31G** deformation densities of cytosine provides simple rules for estimating the effects of polarization functions on the atomic multipole moments of most atom types occurring in the purines and pyrimidines. These rules were applied to the other molecules and yielded reasonable approximations for their molecular dipole moments. Substituting CH₃ for H has little effect on the deformation density beyond the substitution center.     

SCF?CI and SCF open-shell studies of the base components of the nucleic acids

The π-electron structure of adenine, guanine, cytosine, thymine and uracil in their ground, ionized, singlet and triplet excited states are investigated by means of the SCF ? CI and SCF open-shell methods. The calculations for singlets fit the maxima of the absorption bands well. The energy difference between the first and the second singlet states of adenine is found to be very small. The open-shell method leads to the same relative ionization potential as does the SCF (with the integrals empirically corrected). The calculated energies of the triplet states almost coincide in the SCF open-shell and the SCF ? CI approximation. The calculated transition energies to the first triplet state of the pyrimidines are higher than in the case of the purines. The value of the singlet–triplet separation energy of purines is in agreement with experimental data.     

Purification of xylenol orange by preparative paper chromatography, and examination of its zirconium complex

Preparative paper chromatography is proposed as a suitable method for purification of Xylenol Orange (XO). The last three dissociation constants of pure XO have been determined with the aid of the program SPEKTFOT, the values found being pK(9) = 12.34; pK(8) = 10.66; pK(7) = 6.69 (0.1M KNO(3), 20 +/- 0.5 degrees ). The complexation of zirconium with the purified reagent has been studied and the co-existence of ML and M(2) L complexes proved by use of the program DALSFEK. The following conditional stability constants of the complexes and their molar absorptivities were computed: log beta'(ml) 4.58; log beta'(M(2)L) 11.59; (ML) 2.00 x 10(4); (M(2)L) 9.40x 10(4) l.mole(-1).cm(-1) at 550 nm.     

Thermal properties of mercury(II) and palladium(II) purine and pyrimidine complexes

Six solid Pd(II) and Hg(II) complexes of some purines and pyrimidines have been prepared and characterized by elemental analyses, IR, UV–Vis spectra, magnetic measurements, and thermal analyses. The data suggest tetrahedral and square planar geometries for mercury and palladium complexes, respectively. The thermal behavior of the complexes has been studied applying TG, DTA, and DSC techniques, and the thermodynamic parameters and mechanisms of the decompositions were evaluated. The ?S* values of the decomposition steps of the metal complexes indicated that the activated fragments have more ordered structure than the undecomposed complexes, and/or the decomposition reactions are slow. The thermal processes proceeded in complicated mechanisms where the bond between the central metal ion and the ligands dissociates after losing small molecules such as H₂O, HCl or C=O. The palladium adenine complex is ended with the metal as a final product. However, the thermal reactions of the other five palladium and mercury pyrimidines complexes are ended with metal bonded to O, N, or S of the pyrimidine ring.     

Fast high-throughput method for the determination of acidity constants by capillary electrophoresis. II. Acidic internal standards

A fast method for the determination of acidity constants by CZE has been recently developed. This method is based on the use of an internal standard of pK(a) similar to that of the analyte. In this paper we establish the reference pK(a) values of a set of 24 monoprotic neutral acids of varied structure that we propose as internal standards. These compounds cover the most usual working pH range in CZE and facilitate the selection of adequate internal standards for a given determination. The reference pK(a) values of the acids have been established by the own internal standard method, i.e. from the mobility differences between different acids of similar pK(a) in the same pH buffers. The determined pK(a) values have been contrasted to the literature pK(a) values and confirmed by determination of the pK(a) values of some acids of the set by the classical CE method. Some systematic deviations of mobilities have been observed in NaOH buffer in reference to the other used buffers, overcoming the use of NaOH in the classical CE method. However, the deviations affect in a similar degree to the test compounds and internal standards allowing thus, the use of NaOH buffer in the internal standard method. This fact demonstrates the better performance of the internal standard method over the classical method to correct mobility deviations, which together with its fastness makes it an interesting method for the routine determination of accurate pK(a) values of new pharmaceutical drugs and drug precursors.     

Macroscopic and microscopic ionization constants of the thiol and amine groups in 1-methyl-4-mercaptopiperidine

The acid dissociation constants of 1-methyl-4-mercaptopiperidine (pK(1) = 9.51, pK(2) = 11.33), the 1,1-dimethyl-4-mercaptopiperidinium ion (pK(A) = 9.59) and 1-methyl-4-(methylthio)piperidine (pK(B) = 10.18) have been determined potentiometrically in 3M sodium perchlorate (10% methanol) medium. The ultraviolet absorption of the mercaptide ion has been used to determine the relative proton affinity of the sulphur and nitrogen functions in 1-methyl-4-mercaptopiperidine under the same conditions, and its four microscopic constants (pK(a) = 9.49, pK(b) = 10.23, pK(c) = 11.34, pK(d) = 10.60) have been calculated; pK(A) has also been determined spectrophotometrically. From the results obtained, it can be concluded that the thiol group is more acidic than the amine group and that the Adams relation, K(a) + K(b) = K(1), holds very well when it is assumed that the spectrophotometric values for K(a), and K(b), can be replaced by K(A) and K(B) respectively.     

The effect of pH on the room-temperature phosphorescence properties of several purine and pyrimidine derivatives

Room-temperature phosphorescence (RTP) spectra of eleven purines and pyrimidines adsorbed on Whatman No. 40 filter paper have been determined in acidic, neutral and basic media. RTP excitation and emission wavelengths do not vary significantly with pH. For most compounds, use of basic (pH approximately 13) solutions yields stronger RTP signals than use of neutral or acidic (pH approximately 1.6) solutions. Exceptions are adenine, theobromine and theophylline, which give larger RTP signals when in neutral than in basic conditions. The existence of differences in phosphorescence quantum yields between the various ionic species as well as of specific pH-related interactions with the substrate is discussed. Absolute limits of detection, ranging between 0.4 and 38 ng for selected compounds, depend on the pH of the analyte solution.     

Calculation of the relative acidities and oxidation potentials of para-substituted phenols. A model for alpha-tocopherol in solution

Relative acidities (Delta pK(a)) of phenols and oxidation potentials (Delta E(ox)) of the phenoxide anions have been calculated for nine para-substituted phenols using density functional theory. Solvent effects were incorporated using the conductor-like polarisable continuum method. Using the calculated Delta pK(a) and Delta E(ox) values in a thermodynamic cycle, the DeltaBDE (bond dissociation enthalpy) of the phenols were also determined with all values calculated to within 1.5 kcal mol(-1) of experiment. The Delta pK(a) and Delta E(ox) values were calculated for 6-hydroxy-2,2,5,7,8-pentamethylchroman (HPMC), a model for alpha-tocopherol for which there are no known experimental values. The acidity of this compound is raised by 2.4 pK(a) units and lowered by -0.79 V relative to phenol with a calculated Delta BDE of -14.9 kcal mol(-1). There is a negative correlation (r(2) = 0.86) between the Delta pK(a) and the Delta BDE values. A stronger and positive correlation is found between the Delta E(ox) (r(2) = 0.98) and the Delta BDE values. Using these correlations it is uncovered that hydrogen abstraction of phenols, as measured by the Delta BDE, is driven by electron transfer rather than by proton transfer.     

Probing the acidity of p-substituted phenols in the excited state: electronic spectroscopy of the p-cyanophenol-water cluster.

The hydrogen bond structure of the p-cyanophenol-water cluster has been determined in the ground and first excited electronic state by rotationally resolved UV spectroscopy. The water molecule is trans-linearly bound to the hydroxy group of the p-cyanophenol moiety, with hydrogen bond distances considerably shorter in both electronic states than in the similar phenol-water cluster. The structure of the cluster has been elucidated by ab initio calculations at various levels of theory and compared to the experimental findings. The barriers to internal rotation of the water moiety were determined experimentally to be 275 and 183 cm(-1) for the ground and excited state, respectively. Hydrogen bond distances and the energy barrier to water torsion correlate with the pK(a) values of different substituted phenols for both electronic states.     

Prediction of 3-hydroxypyridin-4-one (HPO) hydroxyl pKa values

As an aid in optimising the design of 3-hydroxypyridin-4-ones (HPOs) intended for use as therapeutic Fe(3+) chelating agents, various quantum mechanical (QM) and semi-empirical (QSAR) methods have been explored for predicting the pK(a) values of the hydroxyl groups in these compounds. Using a training set of 15 HPOs with known hydroxyl pK(a) values, reliable predictions are shown to be obtained with QM calculations using the B3LYP/6-31+G(d)/CPCM model chemistry (with Pauling radii, and water as solvent). With this methodology, the observed hydroxyl pK(a) values for the training set compound are closely matched by the predicted pK(a) values, with the correlation between the observed and predicted values giving r(2) = 0.98. Predictions subsequently made by this method for a test set of 48 HPOs of known hydroxyl pK(a) values (11 of which were determined experimentally in this study), gave predicted pK(a) values accurate to within ±0.2 log units. In order to further investigate the predictive power of the method, two novel HPOs were synthesised and their hydroxyl pK(a) values were determined experimentally. Comparison of these predicted pK(a) values against the measured values gave absolute deviations of 0.13 (10.18 vs. 10.31) and 0.43 (5.58 vs. 5.15).     

Novel ground- and excited-state prototropic reactivity of a hydroxycarboxyflavylium salt

Synthetic and natural hydroxyflavylium salts are super-photoacids, exhibiting values of the rate constant for proton transfer to water in the excited state as high as 1.5 x 10(11) s(-1). The synthetic flavylium salt 4-carboxy-7-hydroxy-4'-methoxyflavylium chloride (CHMF) has an additional carboxyl group at the 4-position of the flavylium cation that deprotonates in the ground state at a lower pH (pK(a1) = 0.73; AH2+ --> Z) than the 7-hydroxy group (pK(a2) = 4.84; Z --> A-). Ground-state deprotonation of the carboxyl group of the acid (AH2+) to form the zwitterion (Z) is too fast to be detected by nanosecond laser flash perturbation of the ground-state equilibrium, while deprotonation of the hydroxyl group of Z to form the anionic base (A-) occurs in the microsecond time range (k(d2) = 0.6 x 10(6) s(-1) and k(p2) = 4.2 x 10(10) M(-1) x s(-1)). In the excited state, the cationic form (AH2+) deprotonates in approximately 9 ps, resulting in the excited neutral base form (AH), which is unstable in the ground state. Deprotonation of Z occurs in 30 ps (k(d2) = 2.9 x 10(10) s(-1)), to form excited A-, which either reprotonates (k(p3)* = 3.7 x 10(10) M(-1) x s(-1)) or decays in 149 ps, and shows an important contribution from geminate recombination to give the excited neutral base (AH). Predominant reprotonation of A- at the carboxylate group reflects both the presence of the negative charge on the carboxylate and the increase in the excited-state pK(a) of the carboxyl group. Thus, while the hydroxyl pK(a) decreases by approximately 5 units upon going from the ground state (pK(a) = 4.84) to the excited state (pK(a) = -0.2), that of the carboxyl group increases by at least this much. Consequently, the excited state of the Z form of CHMF acts as a molecular proton transporter in the picosecond time range.     

Evaluation of computer-assisted second-derivative ultraviolet spectrophotometry for analysis of binary mixtures

Three second-derivative spectra identification (DESPI) programs have been developed. The DESPI-1 program is used for the computerized recognition of the spectral components in known binary mixtures. The DESPI-2 and DESPI-3 programs are applied to the automatic identification of unknown binary mixtures. The performances of these computer-assisted procedures are evaluated and compared for nineteen single compounds (purines and pyrimidines) and twelve binary mixtures.