Infrared spectra of proton transfer complexes of the cycleanine alkaloid in solid state

Proton transfer complexes obtained between the cycleanine alkaloid and hydrogen chloride, hydrogen bromide and nitric acids have been investigated by infrared spectroscopic technique between 4000 and 400 cm(-1) in KBr. The vibrational perturbations brought about by proton transfer complex formation, discussed in terms of preferred site of interaction, show that the proton of the inorganic acids is transferred to cycleanine through one of its N sites.     

Infrared and Raman Spectra of Solid Guanine Derivatives. 7-METHYLGUANINE, 9-METHYLGUANINE, 9-ETHYLGUANINE, 1,7-DIMETHYLGUANINE,and 1,9-DIMETHYLGUANINE.

The infrared and Raman spectra of 7-methylguanine, 9-methylguanine, 9-ethylguanine, 1,7-dimethylguanine, and 1,9-dimethylguanine in the solid state have been reported and discussed. Hydrogen bonds in these solid guanine derivatives bring about strong perturbations which are discussed in terms of structural data given by X-ray diffraction methods. The spectra of guanine and 9-methylguanine are compared with the spectra of the monomers isolated in low-temperature matrices.     

Infrared spectra of 6-thioguanine tautomers. An experimental and theoretical approach

Both amino-thiol N9H and amino-thiol N7H tautomeric forms of 6-thioguanine have been identified in approximately equal abundance in infrared studies of these molecules isolated in the hydrophobic environment of an argon matrix at 12 K. The relative concentrations of the amino-thiol N9H and amino-thiol N7H ([SH, N9H]/[SH, N7H] = K(N9H-N7H) = 1.00 +/- 0.02) are estimated from the observed relative infrared absorbances. From these relative concentrations, the difference in the Gibbs free energy of these two tautomers (deltaG500(N9H-N7H) = -0.012 +/- 0.005 kJ mol(-1) have been estimated. The infrared and Raman spectra of 6-thioguanine in solid state are also discussed in terms of hydrogen bonding and stacking interactions in the crystal which are not considered in the calculation. In an effort to interpret the experimental results, ab initio calculation of the infrared spectrum has been made for the amino-thione N7H tautomer at 3-21G level. Comparison with experimental spectra is of some help in the assignment of the infrared and Raman spectra for 6-thioguanine in the solid state.     

Theoretical study on coordination of methanol clusters to 3-methyl-4-pyrimidone

Density functional theory (DFT), MP2, and couple cluster ab initio methods were employed to investigate the microsolvation of 3-methyl-4-pyrimidone (3M4P) surrounded by methanol (MeOH) molecules. Structures are analyzed based on hydrogen bonds with a focus on relative energies, interaction energies, hydrogen bond cooperativity, hydrogen bonding geometries, and redshifts in the frequencies of O–H and C=O stretching modes. Our results show that there is no preferential orientation of MeOH attacks on the carbonyle site of 3M4P; both trans and cis 3M4P-MeOH complexes have same chance to be observed. cis 3M4P-MeOH and 3M4P-MeOH complex in which MeOH is located on N lie 0.56 and 3.11 kJ/mol at CCSD(T)/6-31+G(d,p) (0.63 and 1.67 kJ/mol at MP2/6-311++G(d,p)) above trans 3M4P-MeOH. MeOH dimers form more stable 3M4P-(MeOH)₂ complexes compare to 3M4P-(MeOH)₂ complexes in which individual MeOH molecules bind to carbonyl and N. Relative energies of 3M4P-(MeOH)₃ computed using various DFT methods point out the complex formed by linear MeOH trimer along methyl group of 3M4P (cis 3M4P-(MeOH)₃) as lowest. Carbonyl group is predicted as preferential site for hydrogen bond interaction. Besides O–H…O and O–H…N hydrogen bonds, 3M4P-(MeOH)₂ and 3M4P-(MeOH)₃ complexes are also stabilized by H–O…H–C weak interactions.     

Theoretical Study of the Regioselectivity of the Interaction of 3-Methyl-4-pyrimidone and 1-Methyl-2-pyrimidone with Lewis Acids

A density functional theory (DFT) study is performed to determine the stability of the complexes formed between either the N or O site of 3-methyl-4-pyrimidone and 1-methyl-2-pyrimidone molecules and different ligands. The studied ligands are boron and alkali Lewis acids, namely, B(CH(3))(3), HB(CH(3))(2), H(2)B(CH(3)), BH(3), H(2)BF, HBF(2), BF(3), Li(+), Na(+), and K(+). The acids are divided into two groups according to their hardness. The reactivity predictions, according to the molecular electrostatic potential (MEP) map and the natural bond orbital (NBO) analysis, are in agreement with the calculated relative stabilities. Our findings reveal a strong regioselectivity with borane and its derivatives preferring the nitrogen site in both pyrimidone isomers, while a preference for oxygen is observed for the alkali acids in the 3-methyl-4-pyrimidone molecule. The complexation of 1-methyl-2-pyrimidone with these hard alkali acids does not show any discrimination between the two sites due to the presence of a continuous delocalized density region between the nitrogen and the oxygen atoms. The preference of boron Lewis acids toward the N site is due to the stronger B-N bond as compared to the B-O bond. The influence of fluorine or methyl substitution on the boron atom is discussed through natural orbital analysis (NBO) concentrating on the overlap of the boron empty p-orbital with the F lone pairs and methyl hyperconjugation, respectively. The electrophilicity of the boron acids gives a good overall picture of the interaction capabilities with the Lewis base.     

Infrared Spectra of Protonated Pyrimidine Derivatives in the Solid State

Abstract

The infrared spectra of the complexes formed between 1-methyl, 2-pyrimidone, 3-methyl,4-pyrimidone, amino-2-pyrimidine, 1,3-dimethyl-uracil and HBr, HCl or DCl have been measured between 4000 and 300 cm^?1 in KBr. Complex formation brings about strong perturbations in the infrared spectra of the base. These vibrational perturbations are discussed in terms of structural data given by x-ray diffraction methods. Some vibrational modes of the bases are more sensitive to the deuteration and this fact is interpreted by different coupling between some planar vibration modes and the νNH⁺ or νND⁺ modes.     

Hydrogen bonding and the protonation site in 3-methyl-4-pyrimidone

The interaction between 3-methyl-4-pyrimidone and phenol derivatives or HBr has been studied by IR spectrometry in solution and in the solid state. For pK_a values ranging from 10.3 to 4.5, normal OH··· OC hydrogen bonds are formed. With stronger acids (PK_a = 0.4 to ?6) protonation occurs at the N(1) nitrogen atom of the ring. For phenols of intermediate pK_a values (3.5), there is no preferred site of interaction, both OH···OC and NH⁺···O^? bonds being formed in solution.     

H‐bonding and stacking interactions between chloroquine and temozolomide

The interactions between temozolomide and chloroquine were examined via Dispersion‐Corrected Density Functional Theory and MP2 methods. Chloroquine was considered in both its lowest energy structure and in a local minimum where its aromatic system and secondary amine group are free to interact directly with temozolomide. The accessibility of these two components to intermolecular interaction makes the lowest energy dimer of this local monomer minimum competitive in total energy with that involving chloroquine's most stable monomer geometry. In either case, the most stable heterodimer places the aromatic ring systems of the two molecules parallel and directly above one another in a stacked geometry. Most of the local minima are also characterized by a stacked geometry as well. Comparison between B3LYP and B3LYP‐D binding energies confirms dispersion is a primary factor in stabilizing these structures. © 2016 Wiley Periodicals, Inc.     

Interactions between temozolomide and guanine and its S and Se‐substituted analogues

Temozolomide was paired with guanine, 6‐selenoguanine, and 6‐thioguanine, as well as the SH tautomer of the latter. The potential energy surface of each heterodimer was searched for all minima, using Dispersion‐Corrected Density Functional Theory and MP2 methods. Among the dozens of minima, three categories were observed. Stacked geometries place the aromatic systems of the two molecules parallel to one another, while the two systems are roughly perpendicular to one another in a second category. Also found are coplanar structures held together by H‐bonds. Dispersion proves to be a dominating attractive force for the stacked structures, less so for perpendicular, and smallest for the coplanar dimers. Geometries and energetics are relatively insensitive to S and Se substitution, but tautomerization reverses relative stabilities of different geometries.     

Basicity of the nitrogen atom and of the carbonyl function of methyl isonicotinate and 4-acetylpyridine. An infrared study of the interaction with proton donors

The hydrogen bonded complexes between methyl isonicotinate and 4-acetylpyridine and phenol derivatives acting as proton donors have been investigated by ir spectroscopy. The thermodynamic parameters (K, — ΔH°, — ΔS°) have been determined. The ir data show that the hydrogen bond interaction occurs at the carbonyl function and at the nitrogen atom of the ring. When the acidity of the proton donor increases, N-complexation is favoured over carbonyl complexation and with the stronger acid hydrochloric acid, only N-protonated species are observed. The data are compared with those obtained for closely related pyridine derivatives, bearing a X-C=O substituent and it is shown that the proportion of OH···N and OH···O=C species is related to the basicity of the nitrogen atom of the heterocyclic ring and to inductive and mesomeric effects depending on the nature of X.