Investigating the thermodynamic causes behind the anomalously large shifts in pKa values of benzoic acid-modified graphite and glassy carbon surfaces

The difference between the values of 4-carboxyphenyl groups, covalently attached to either graphite (BAcarbon) or glassy carbon (BA-GC) surfaces, and benzoic acid in solution is explored using potentiometric titration and cyclic voltammetry. In solution, benzoic acid has a pKa of 4.20 at 25 degrees C. However, the observed pKa value on the graphitic surfaces shows significant deviations, with BAcarbon exhibiting a large shift to higher pKa values (pKa = 6.45) in contrast to BA-GC, which is shifted to lower pKa values (pKa = 3.25). Potentiometric titrations at temperatures between 25 and 50 degrees C allowed us to determine the surface pKa of these materials at each temperature studied and hence to determine the enthalpy, entropy, and Gibbs' energy changes associated with the ionization of the carboxylic acid groups. It was found that the enthalpic contribution is negligible and that the changes in surface pKa values are entropically controlled. This suggests that solvent ordering/disordering around the interface strongly influences the observed pKa value, which then reflects the relative hydrophobicity/hydrophilicity of the different graphitic surfaces.     

Determination of acid-base dissociation constants of amino- and guanidinopurine nucleotide analogs and related compounds by capillary zone electrophoresis

CZE has been applied for determination of acid-base dissociation constants (pKa) of ionogenic groups of newly synthesized amino- and (amino)guanidinopurine nucleotide analogs, such as acyclic nucleoside phosphonate, acyclic nucleoside phosphonate diesters and other related compounds. These compounds bear characteristic pharmacophores contained in various important biologically active substances, such as cytostatics and antivirals. The pKa values of ionogenic groups of the above compounds were determined by nonlinear regression analysis of the experimentally measured pH dependence of their effective electrophoretic mobilities. The effective mobilities were measured by CZE performed in series of BGEs in a broad pH range (3.50-11.25), at constant ionic strength (25 mM) and temperature (25 degrees C). pKa values were determined for the protonated guanidinyl group in (amino)guanidino 9-alkylpurines and in (amino)guanidinopurine nucleotide analogs, such as acyclic nucleoside phosphonates and acyclic nucleoside phosphonate diesters, for phosphonic acid to the second dissociation degree (-2) in acyclic nucleoside phosphonates of amino and (amino)guanidino 9-alkylpurines, and for protonated nitrogen in position 1 (N1) of purine moiety in acyclic nucleoside phosphonates of amino 9-alkylpurines. Thermodynamic pKa of protonated guanidinyl group was estimated to be in the range of 7.75-10.32, pKa of phosphonic acid to the second dissociation degree achieved values of 6.64-7.46, and pKa of protonated nitrogen in position 1 of purine was in the range of 4.13-4.89, depending on the structure of the analyzed compounds.     

pKa calculations in solution and proteins with QM/MM free energy perturbation simulations: a quantitative test of QM/MM protocols

The accuracy of biological simulations depends, in large part, on the treatment of electrostatics. Due to the availability of accurate experimental values, calculation of pKa provides stringent evaluation of computational methods. The generalized solvent boundary potential (GSBP) and Ewald summation electrostatic treatments were recently implemented for combined quantum mechanical and molecular mechanics (QM/MM) simulations by our group. These approaches were tested by calculating pKa shifts due to differences in electronic structure and electrostatic environment; the shifts were determined for a series of small molecules in solution, using various electrostatic treatments, and two residues (His 31, Lys 102) in the M102K T4-lysozyme mutant with large pKa shifts, using the GSBP approach. The calculations utilized a free energy perturbation scheme with the QM/MM potential function involving the self-consistent charge density functional tight binding (SCC-DFTB) and CHARMM as the QM and MM methods, respectively. The study of small molecules demonstrated that inconsistent electrostatic models produced results that were difficult to correct in a robust manner; by contrast, extended electrostatics, GSBP, and Ewald simulations produced consistent results once a bulk solvation contribution was carefully chosen. In addition to the electrostatic treatment, the pKa shifts were also sensitive to the level of the QM method and the scheme of treating QM/MM Coulombic interactions; however, simple perturbative corrections based on SCC-DFTB/CHARMM trajectories and higher level single point energy calculations were found to give satisfactory results. Combining all factors gave a root-mean-square difference of 0.7 pKa units for the relative pKa values of the small molecules compared to experiment. For the residues in the lysozyme, an accurate pKa shift was obtained for His 31 with multiple nanosecond simulations. For Lys 102, however, the pKa shift was estimated to be too large, even after more than 10 nanosecond simulations for each lambda window; the difficulty was due to the significant, but slow, reorganization of the protein and water structure when Lys 102 was protonated. The simulations support that Lys 102 is deprotonated in the X-ray structure and the protein is highly destabilized when this residue is protonated.     

Self-assembly behavior of a stimuli-responsive water-soluble [60]fullerene-containing polymer

A novel pH- and temperature-responsive water-soluble [60]fullerene-containing poly[2-(dimethylamino)ethyl methacrylate] (C60-b-PDMAEMA) was synthesized by atom transfer radical polymerization. The pH and temperature dependence of the physical properties of the aqueous C60-b-PDMAEMA solution was studied by potentiometric and conductometric titrations, UV-vis transmittance, and laser light scattering techniques. At low pH and at temperatures ranging from 25 to 55 degrees C, in addition to C60-b-PDMAEMA unimers, micelle-like aggregates are produced in the aqueous solution containing C60 hydrophobic cores and protonated PDMAEMA shells. Only unimeric C60-b-PDMAEMAs are found to exist in solution at high pH and low temperature, where PDMAEMA segments form a charge-transfer complex with C60 molecules. However, C60-b-PDMAEMA precipitates from aqueous solution at temperatures exceeding the lower critical solution temperature of PDMAEMA of approximately 45 degrees C. The pH and temperature stimuli-responsive properties of the [60]fullerene-containing polymer in aqueous solution are completely reversible.     

Thermoresponsive micelles from Jeffamine-b-poly(L-glutamic acid) double hydrophilic block copolymers

Double hydrophilic block copolymers (DHBC) consisting of a Jeffamine block, a statistical copolymer based on ethylene oxide and propylene oxide units possessing a lower critical solution temperature (LCST) of 30 degrees C in water, and poly(L-glutamic acid) as a pH-responsive block were synthesized by ring-opening polymerization of gamma-benzyl-L-glutamate N-carboxyanhydride using an amino-terminated Jeffamine macroinitiator, followed by hydrolysis. This DHBC proved thermoresponsive as evidenced by dynamic light scattering and small-angle neutron scattering experiments. Spherical micelles with a Jeffamine core and a poly(L-glutamic acid) corona were formed above the LCST of Jeffamine. The size of the core of such micelles decreased with increasing temperature, with complete core dehydration being achieved at 66 degrees C. Such behavior, commonly observed for thermosensitive homopolymers forming mesoglobules, is thus demonstrated here for a DHBC that self-assembles to generate thermoresponsive micelles of high colloidal stability.     

Surface modification of pyrophyllite with amino silane coupling agent for the removal of 4-nitrophenol from aqueous solutions

The surface of naturally hydrophobic mineral pyrophyllite was modified to hydrophilic by treatment with prehydrolyzed N-(2-aminoethyl)-3-aminopropyltrimethoxysilane (APEO) coupling agent to prepare a novel and effective adsorbent for the removal of 4-nitrophenol (4-NP) from aqueous solutions. XRD, FTIR, and SEM analyses were used to characterize the surface modification. It was found that after the grafting procedure, heat treatment at 110 degrees C results in condensation reaction between the OH groups of the APEO molecule and the hydroxyl groups and/or oxygen atoms on the pyrophyllite surface and the adsorption of 4-NP by APEO-modified pyrophyllite involves interactions between dissociated 4-NP molecules and protonated amine groups of APEO molecules attached to the mineral surface. Adsorption equilibrium data for 4-NP adsorption on APEO-treated and untreated pyrophyllite were most satisfactorily fitted using the Freundlich adsorption isotherm and adsorption capacity was found to be 0.268 mg/g for modified pyrophyllite whereas it was only 0.105 mg/g for untreated pyrophyllite.     

The acid-base equilibrium constants of some azine compounds in various aqueous-organic solvent mixtures

The acid dissociation constants of the protonated form of some azine compounds (acridine, acridine orange and neutral red, BH+) were determined pH-metrically at 25 degrees C and at the constant ionic strength I = 0.1 mol l(-1) (KNO3) in pure water as well as in various aqueous mixtures having different proportions (w/w%) of organic solvents. The organic solvents used are methanol, ethanol (as amphiprotic solvents), N,N-dimethylformamide, dimethylsulfoxide (as dipolar aprotic solvents) and acetonitrile (as a low basic solvent). The results obtained indicated that the pKa values decrease as the content of the organic solvent in the medium is increased. It is deduced that, the major effect responsible for this behaviour is the differences in stabilization of the free base (B) by dispersion forces and of the proton by its interaction with solvent and water molecules in aqueous-organic solvent mixtures (ion-solvent interaction). Moreover, it is concluded that the ability of the solvent to accept hydrogen bond from the protonated form (BH+) contributes significantly to the deprotonation process of the compounds.     

Stability of a novel hexapeptide, (Me)Arg-Lys-Pro-Trp-tert-Leu-Leu-OEt, with neurotensin activity, in aqueous solution and in the solid state

The stability and some physicochemical properties of a novel hexapeptide, (Me)Arg-Lys-Pro-Trp-tert-Leu-Leu-OEt (I), with neurotensin activity, were investigated. The degradation of I in aqueous solution was observed as a pseudo-first order reaction. By determining the degradation rate of I at various pH values, it was found that I was most stable at around pH 4. The activation energies of the degradation in aqueous solutions at pH 2.2, 6.1, 7.0 and 8.0 were 16.3, 22.2, 23.9 and 24.2 kcal/mol, respectively. The enzymatic hydrolysis of I was studied in vitro with a porcine liver esterase at 37 degrees C. The degradation of I in this system was observed as a pseudo-first order reaction. The degradation rate of I in the presence of the esterase was about 10000 times larger than the rate in a buffer solution. I in the solid state was stable under 65 degrees C and labilized by strong light and/or high humidity. The pKa1, pKa2 and pKa3 of I were 7.1, 10.0 and 11.3, respectively. The partition coefficients between n-octanol and the buffer solution at pH values ranging from 2 to 11 were measured. The partition coefficient increased with the increase of the pH value. But the value at pH 7.0 was 2.10 x 10(-2), which was very low. The solubility of I in aqueous solution was more than 10 mg/ml. From the results of the powder X-ray diffraction pattern, I in the solid state was found to be amorphous. The dissolution rates in the 1st and 2nd fluid of JPXI at 37 degrees C and 100 rpm were 19.4 and 9.0 mg/cm2.min, respectively.     

An acidity scale of 1,3-dialkylimidazolium salts in dimethyl sulfoxide solution

Equilibrium acidities of 16 1,3-dialkylimidazolium-type ionic liquid (IL) molecules (1-16) were systematically measured by the overlapping indicator method at 25 degrees C in dimethyl sulfoxide (DMSO) solution. The pKa values were observed to range from 23.4 for IL 12 to 19.7 for IL 6 (Tables 1 and 2), responding mainly to structural variations on the cation moiety. Excellent agreement between the spectrophotometrically determined pKa and that derived from NMR titration for 1,3,4,5-tetramethylimidazolium bis(trifluoromethanesulfonyl)imide (12) and the close match of the obtained pK values with the reported data in literature provide credence to the acidity measurements of the present work. The substituent effects at the imidazolium ring and the effects of counterions on the acidities of ionic liquids are discussed.     

Aqueous electrochemistry of binuclear copper complex with Robson-type ligand: dissolved versus surface-immobilized reactant

The electrochemical behaviour of binuclear copper complex with Robson-type ligand [Cu₂L]Cl₂ in aqueous medium is studied by cyclic voltammetry at highly oriented pyrolytic graphite, glassy carbon and gold electrodes. The overall reduction from solution of this reactant is found to be irreversible resulting in metallic copper formation. It is also complicated by chemical transformations of Cu(I) containing species. When attached to carbon support, [Cu₂L]Cl₂ is redox active in aqueous medium in the same potential range. The reduction is more reversible if reactant is immobilized at HOPG surface, and is in general agreement with reversible copper demetallation scheme. For dissolved reactant, the contribution of surface-attached species is screened by predominating voltammetric response of irreversible reduction. These conclusions are supported by data on the reduction of free protonated ligand and its hydrolysis products. Ex situ STM is applied to characterize electrode surfaces modified by [Cu₂L]Cl₂. Adsorbate monolayer of periodic structure is observed at highly oriented pyrolytic graphite (HOPG). Adsorption is more disordered at GC and less strong at polycrystalline gold support.     

Mechanism of pyridine protonation in water clusters of increasing size

This work presents a theoretical mechanistic study of the protonation of pyridine in water clusters, at the B3LYP/cc-pVDZ theory level. Clusters from one to five water molecules were used. Starting from previously determined structures, the reaction paths for the protonation process were identified. For complexes of pyridine with water clusters of up to three water molecules just one transition state (TS) links the solvated and protonated forms. It is found that the activation energy decreases with the number of water molecules. For complexes of four and five water molecules two transition states are found. For four water molecules, the first TS links the starting solvated structure with a new, less stable, solvated form through a concerted proton transfer between a ring of water molecules. The second TS links the new solvated structure to the protonated form. Thus, protonation is a two-step process. For the five water molecules cluster, the new solvated structure is more stable than the starting one. This structure exhibits two double hydrogen bonds involving the pyridinic nitrogen and several water molecules. The second TS links the new structure with the protonated form. Now the process occurs in one step. In all cases considered, the proton transfers involve an interconversion between covalent and hydrogen bonds. For four and five water molecules, the second TS is structurally and energetically very close to the protonated form. As evidenced by the vibration frequencies, this is due to a flat potential energy hypersurface in the direction of the reaction coordinate. Determination of DeltaG at 298.15 K and 1 atm shows that the protonation of pyridine needs at least four water molecules to be spontaneous. The complex with five water molecules exhibits a large DeltaG. This value yields a pKa of 2.35, relatively close to the reported 5.21 for pyridine in water.     

Pulse radiolysis of 4,4'-bipyridyl aqueous solutions at elevated temperatures: spectral changes and reaction kinetics up to 400 degrees C

The spectral changes as well as the reaction kinetics of the transient species of 4,4'-bipyridyl (4,4'-bpy) have been experimentally investigated by pulse radiolysis techniques up to 400 degrees C. The results show that the transient species such as OH adduct 4,4'-bpyOH*, monoprotonated electron adduct 4,4'-bpyH*, and doubly protonated electron adduct 4,4'-bpyH2+* have 15-20 nm blue shifts from room temperature to 400 degrees C. For a deaerated neutral solution of 4,4'-bpy in the presence of tert-butyl alcohol, ethanol, or NaCOOH, the doubly protonated electron adduct is the main transient species at room temperature. But at temperatures > 350 degrees C, a monoprotonated form, the N-hydro radical 4,4'-bpyH*, becomes predominant. Interestingly, at room temperature, CO2-* could not efficiently react with 4,4'-bpy, but the reaction was accelerated with increasing temperature; at 350 degrees C, this reaction completed within 2 mus. Using an alkaline solution (pH = 11.5) of 4,4'-bpy in the presence of tert-butyl alcohol, we studied the N-hydro radical 4,4'-bpyH* from room temperature to 400 degrees C at 25 MPa. An estimation of the temperature-dependent G(e(aq)-) at 25 MPa agrees with our previous result with methyl viologen as a scavenger.     

Effect of pH on the self-exchange reactivity of the plant plastocyanin from parsley

The self-exchange rate constant (25 degrees C) for parsley plastocyanin is 5.0 x 10(4) M-1 s-1 at pH* 7.5 (I = 0.10 M). This value is quite large for a higher plant plastocyanin and can be attributed to a diminished upper acidic patch in this protein. The self-exchange rate constant is almost independent of pH* in the range 7.5-5.6, with a value (25 degrees C) of 5.6 x 10(4) M-1 s-1 at pH* 5.6 (I = 0.10 M). At this pH*, the ligand His87 is protonated in approximately 50% of the reduced protein molecules (pKa* 5.6), and this would be expected to hinder electron transfer between the two oxidation states. However, this effect is counterbalanced by the enhanced association of two parsley plastocyanins at lower pH* due to the partial protonation of the acidic patch.     

Kinetics and mechanism of ring transformation of S-[1-(4-methoxyphenyl)pyrrolidin-2-on-3-yl]isothiuronium bromide to 2-methylimino-5-[2-(4-methoxyphenylamino)ethyl]thiazolidin-4-one

The kinetics and mechanism of transformation reaction of S-[1-(4- methoxyphenyl)pyrrolidin-2-one-3-yl]-N-methyl-isothiuronium bromide into 2-methylimino-5-[2-(4-methoxyphenylamino) ethyl)]thiazolidin-4-one have been studied in aqueous solutions of amine buffers (pH 8.1-11.5) and sodium hydroxide solutions (0.005-0.5 mol l-1) at 25 degrees C and at I = 1 mol l-1 at pseudo-first-order reaction conditions. The kinetics observed shows that the transformation reaction is subject to general base, general acid, and hydroxide-ion catalyses. The rate-limiting step of transformation is the splitting-off a proton from the tetrahedral intermediate In. The value of pKa for S-[1-(4-methoxyphenyl)- pyrrolidin-2-one-3-yl]-N-methylisothiuronium bromide has been determined from the kinetic data (pKa = 8.75 +/- 0.10) and by potentiometric titration (pKa = 8.90 +/- 0.05). With increasing pKa value of the acid buffer component, the value of Br?nsted coefficient beta gradually decreases from about 0.7 to almost zero. The value of pKa approximately 10 for the intermediate to base-catalysed transformation has been found from this dependence. In the N-methylpyrrolidine and triethylamine buffers, the rate-limiting step of transformation is changed into ring opening of In-, and the general-base-catalysed reaction changes into a specific-base-catalysed one.     

Spectrophotometric determination of acidity constants of salicylaldoxime in aqueous solution at 25 degrees C and ionic strength of 0.5 M controlled with NaCl

The equilibrium constants of salicylaldoxime in water at 25 degrees C, 0.5 M of ionic strength with NaCl and concentration of 1x10(-4) M were determined spectrophotometrically. The spectral data were processed using SQUAD program. The salicylaldoxime in acid medium has the value of pKa1=1.224+/-0.027. In alkaline medium the salicylaldoxime has the values of pKa2=8.551+/-0.024 and pKa3=11.728+/-0.016.     

Simple method for determining nucleobase pK(a) values by indirect labeling and demonstration of a pK(a) of neutrality in dsDNA

Phosphorothioates were substituted into double-stranded DNA to study protonated Class I A+.C basepairs by 31P NMR. The method was effective in reporting the A+.C pKa. pKa values near 7.0 were found with optimal nearest-neighbor partners. Such pKa values could expand the catalytic repertoire of nucleic acids.     

Acidity distribution of carboxyl groups in Loy Yang brown coal: its analysis and the change by heat treatment

Brown coals have a considerable number of acidic functional groups of which the main component is carboxyl groups, and the acidity has a wide distribution. In this paper, changes of the acidity distribution were examined by aqueous titration when brown coal was heat-treated to control its acidity distribution. For Loy Yang brown coal from Australia dried at 50 degrees C under vacuum (LY50), the acid dissociation constant, Ka, was distributed over a wide pKa range between 2 and 9. Then, using Gaussian functions, the acidity distribution was divided into four groups, which were characterized by average pKa values: average pKa value of 3.8 (hereafter referred to as Group A), 5.2 (Group B), 6.8 (Group C), and 8.3 (Group D). Among them, Groups A, B, and C were assigned to carboxyl groups. From the changes of the number of carboxyl groups when brown coal was heat-treated up to 400 degrees C, it was found that the way of decrease was different among these acidic groups. The decrease of the amount of carboxyl groups in Group C was significant, and at 325 degrees C most of them disappeared. On the other hand, the carboxyl groups in Group A remained even at a high temperature of 400 degrees C. We estimated approximately the structures around carboxyl groups for LY50 and their structural changes by heat treatment using the known pKa values for simple carboxylic acids and the pKa values calculated by the MOPAC program for complicated carboxylic acids.     

Mechanisms of competitive adsorption of albumin and sodium myristate at the silicon oxide/aqueous interface

The competitive adsorption of proteins and surfactants has applications to chromatographic systems and biological materials. Adsorption for systems of bovine serum albumin (BSA) and sodium myristate (SM) was investigated with in-situ ATR-IR spectroscopy and ex-situ ellipsometry. The results were used to determine quantitatively the surface densities of the adsorbates at the surface. For a mixture of SM and BSA at 25 degrees C in water, the adsorbed density of BSA is 0.3 mg/m2, which is much less than the value of 3.1 mg/m2 for BSA alone. Sodium myristate, some of which is protonated to myristic acid (MA) when adsorbed because of a pH decrease from 9.0 to 8.2, adsorbs to a surface density of 4.0 x 10(-6) mol/m2, which is greater than the value of 1.7 x 10(-6) mol/m2 from a solution of SM alone. Adsorbed SM and MA are removed, or desorbed, when the bulk mixture is replaced with water, with only a slight amount of SM remaining. When placed in contact with a layer of BSA, SM can displace most of the adsorbed protein, even when BSA is present in the bulk solution, with some BSA at 0.3 mg/m2 remaining adsorbed. Allowing BSA to adsorb to a layer of SM results in gamma(BSA) = 2.3 mg/m2, with little displacement of the SM layer. These results indicate that SM can remove some BSA from the surface by displacement, and that some BSA remains adsorbed in patches.     

The pH inside a swollen polyelectrolyte gel: poly(N-vinylimidazole)

The pH inside a dissolved polyelectrolyte coil or a swollen ionic polymer network is not accessible to direct measurement. It is here calculated through a simple model, based on Donnan equilibrium, counterion condensation (for charge density exceeding the critical value), and balance of mobile ions, without any assumption on the pKa of the ionizable groups. The data needed for the calculation with this model are polymer concentration, pH value in the initial solution, and pH value in the bath at equilibrium. All three can be determined experimentally by a batch method where the polymer is immersed in a different pot for each starting pH. The model is applied to a sample system, namely, chemically cross-linked poly(N-vinylimidazole) immersed in acidic baths of different pH values. The imidazole units are basic and become protonated by the acid, thus changing the pH of the initial bath. The model shows how the pH developed inside the swollen gel is several units higher than the pH of the bath at equilibrium, both with or without the correction for counterion condensation. Consequently, when the pKa of the polyelectrolyte is determined in the usual way (with the pH measured in the external bath), it gives an apparent value that is several units below the pKa determined from the actual pH inside the swollen gel at equilibrium. The inclusion of the counterion condensation decreases very slightly the polymer basicity. Surface effects and intramolecular association between protonated and unprotonated imidazole rings are discussed to explain the pKa behavior in the limit of low degree of ionization.