Ionization, amides

The CD band II extrema near 650 nm for 1 1 Cu(II) complexes of dipeptides and tripeptides with ionized amide hydrogen composed of L-amino acids can be calculated with reasonable accuracy from values for glycine-containing dipeptides. The signs of the Cotton effects near 650 nm are negative, except for the LAla-LAla complexes, which have a positive sign (Tsangaris and Martin, 1970, and references therein). 

However, interpretation of, or even obtaining, the mass spectrum of a peptide can be difficult, and many techniques have been introduced to overcome such difficulties. These techniques include modifying the side chains in the peptide and protecting the N- and C-terminals by special groups. Despite many advances made by these approaches, it is not always easy to read the sequence from the mass spectrum because some amide bond cleavages are less easy than others and give little information. To overcome this problem, tandem mass spectrometry has been applied to this dry approach to peptide sequencing with considerable success. Further, electrospray ionization has been used to determine the molecular masses of proteins and peptides with unprecedented accuracy. 

Tables 1 and 2 Hst the important physical properties of formamide. Form amide is more highly hydrogen bonded than water at temperatures below 80°C but the degree of molecular association decreases rapidly with increa sing temperature. Because of its high dielectric constant, formamide is an excellent ionizing solvent for many inorganic salts and also for peptides, proteias (eg, keratin), polysaccharides (eg, cellulose [9004-34-6] starch [9005-25-8]) and resias.

Dialkyl and diarylthaHium(III) derivatives are stable, crystalline soHds that melt at 180—300°C. The dimethylthaHium derivatives of CN , CIO, BF, and NO 2 contain linear (CH2)2T1 cations and the free anions (19). In aqueous solutions, they ionize to the (CH2)2T1(H20) ions, except those derivatives containing alkoxide, mercaptide, or amide anions, which yield dimeric stmctures (20,21). 

Pteridinetriones exist as anhydrous species because the tt-electron deficiency is largely compensated by the electron-releasing hydroxy groups. The acidic properties of the amide functions and the sequence of ionization of the acidic protons have been determined in most polyoxopteridines by measurements of the piTa values and comparison of spectral... 

The a-ionization of 7-methylpteridines can also be utilized in aldol-type condensation reactions. 7-Methyl-pterin and -lumazine and 2,4-diaminopteridine condense readily in aqueous base with aromatic aldehydes to afford 7-alkylidenepteridines (77JOC2951). A Claisen condensation requires the protection of the acidic hydrogens of the amide bonds. 

Beyer synthesis, 2, 474 electrolytic oxidation, 2, 325 7r-electron density calculations, 2, 316 1-electron reduction, 2, 282, 283 electrophilic halogenation, 2, 49 electrophilic substitution, 2, 49 Emmert reaction, 2, 276 food preservative, 1,411 free radical acylation, 2, 298 free radical alkylation, 2, 45, 295 free radical amidation, 2, 299 free radical arylation, 2, 295 Friedel-Crafts reactions, 2, 208 Friedlander synthesis, 2, 70, 443 fluorination, 2, 199 halogenation, 2, 40 hydrogenation, 2, 45, 284-285, 327 hydrogen-deuterium exchange, 2, 196, 286 hydroxylation, 2, 325 iodination, 2, 202, 320 ionization constants, 2, 172 IR spectra, 2, 18 lithiation, 2, 267... 

If a pH-rate curve does not exhibit an inflection, then very probably the substrate does not undergo an ionization in this pH range. The kinds of substrates that often lead to such simple curves are nonionizable compounds subject to hydrolysis, such as esters and amides. Reactions other than hydrolysis may be characterized by similar behavior if catalyzed by H or OH . The general rate equation is... 

Ho, the acidity function introduced by Hammett, is a measure of the ability of the solvent to transfer a proton to a base of neutral charge. In dilute aqueous solution ho becomes equal to t d Hq is equal to pH, but in strongly acid solutions Hq will differ from both pH and — log ch+. The determination of Ho is accomplished with the aid of Eq. (8-89) and a series of neutral indicator bases (the nitroanilines in Table 8-18) whose pA bh+ values have been measured by the overlap method. Table 8-19 lists Ho values for some aqueous solutions of common mineral acids. Analogous acidity functions have been defined for bases of other structural and charge types, such as // for amides and Hf for bases that ionize with the production of a carbocation ... 

Breakdown of the amide dihydrate occurs by a mechanism similar to its formation. The ionized aspartate carboxyl (Asp in Figure 16.27) acts as a general base to accept a proton from one of the hydroxyl groups of the amide dihydrate, while the protonated carboxyl of the other asparate (Asp in this case) simultaneously acts as a general acid to donate a proton to the nitrogen atom of one of the departing peptide products. 

A selection of amino acids (acid A, acid B,...) terminated at both ends by amide functionality, i.e., MeNHCO-CHR-NHCOMe, are provided. These are given in the ionization states found at neutral pH. For each, first identify the amino acid, and then the ionization state (neutral, protonated or deprotonated). Next compare electrostatic potential maps among the different amino acids. Which amino acids would prefer hydrophobic environments Hydrophilic environments Explain your reasoning. 

Quinoxalin-2-ones are in tautomeric equilibrium with 2-hydroxy-quinoxalines, but physical measurements indicate that both in solution and in the solid state they exist as cyclic amides rather than as hydroxy compounds. Thus quinoxalin-2-one and its A -methyl derivative show practically identical ultraviolet absorption and are bases of similar strength. In contrast, the ultraviolet spectra of quinoxalin-2-one and its 0-methyl derivative (2-methoxyquinoxaIine) are dissimilar. The methoxy compound is also a significantly stronger base (Table II). Similar relationships also exist between the ultraviolet absorption and ionization properties of 3-methylquinoxalin-2-one and its N- and 0-methyl derivatives. The infrared spectrum of 3- (p-methoxy-benzyl)quinoxalin-2-one (77) in methylene chloride shows bands at 3375 and 1565 cm" which are absent in the spectrum of the deuterated... 

At higher pH values the amide groups are unproton-ated [106], while the carboxylate groups [7,11] and quaternary ammonium groups [61] are ionized. Alternatively, the interaction can occur between these cations of the solution and the active groups of the polymer chains for floe formation. 

Both the a- and a -hydrogens of dibenzyl sulfone were shown to be ionized by means of two equivalents of potassium amide in liquid ammonia322. 

The c.d. spectra are also available for a few oligosaccharides that contain N-acetylneuraminic acid. " These spectra depend on the intersaccharide linkages and the state of ionization of the carboxyl group, but no systematic scheme has yet been set up to derive configurational information from the c.d. spectra. Of particular interest is the c.d. spectrum of beef ganglioside, which fully differentiates the amide mr, amide tttt, and carboxylate nir c.d. bands. 

Extractive alkylation is used to derivatize acids, phenols, alcohols or amides in aqueous solution [435,441,448,502]. The pH of the aqueous phase is adjusted to ensure complete ionization of the acidic substance which is then extracted as an ion pair with a tetraalkylammonium hydroxide into a suitable immiscible organic solvent. In the poorly solvating organic medium, the substrate anion possesses high reactivity and the nucleophilic displacement reaction with an alkyl halide occurs under favorable conditions. 

Kirkland J.J., Henderson J.W., Martosella J.D., Bidlingmeyer B.A., Vasta-Rus-sell J., and Adams Jr. J.B., A highly stable alkyl-amide silica-based column packing for HPLC of polar and ionizable compounds, LC-GC, 17 (7), 634,1999. 

The hydrolysis of polyacrylamide and acrylamide/sodium acrylate copolymers has been extensively studied [1,2,3,5,6,7,8,-9,10], in relatively strongly alkaline conditions, above pH 12. These studies demonstrated that the hydrolysis of the amide groups is hydroxide-catalyzed and that neighboring ionized carboxyl groups in the polymer inhibit the hydrolysis by electrostatic repulsion of the hydroxide ions. Senju et al. [6] showed that at temperatures up to 100°C, there is an apparent limit to the extent of hydrolysis of polacrylamide when approximately 60% of the amide groups are hydrolyzed. 

It was soon realized that there are problems with this approach.24,25 Log ionization ratios for weak bases that are not primary aromatic amines, while linear in H0, do not give the unit slope required by equation (8). This soon led to many other acidity functions, defined for other types of weak base, HA for amides,24 Hq for tertiary aromatic amines,25 C0 or HR for carbocations,26,27 and so on. In a recent review of addity functions,28 28 different ones were listed... 

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