A Schiff-base porphyrin complex with double intramolecular hydrogen bonds

We have designed a porphyrin with a Schiff-base substituent as a model to study intramolecular hydrogen-bonding. The corresponding complex [Zn(SATPP)(CH₃OH)] has been synthesized and characterized by X-ray crystallography, ¹H NMR, and UV-Vis spectroscopy. The structure shows that there are three phenyl groups and one salicylideneaminophenyl group at the meso positions of the porphyrin, and the phenol oxygen is involved in double hydrogen bonds, one within the salicylideneaminophenyl and the other between coordinated methanol and phenol oxygen. ¹H NMR spectra suggest that the binding of methanol to zinc is an equilibrium process in solution and the equilibrium constant has been determined by UV-Vis measurements. The intramolecular hydrogen bond stabilizes the structure, and the binding affinity increases 10 times over the corresponding TPP (TPP, dianion of meso-5,10,15,20-tetraphenylporphyrin).     

An electrostatic model for hydrogen bonds in alcohols

We have measured the Raman spectra of liquid methanol at temperatures between 50° and –77°C. The weak O–H stretching bands appear, under amplification, more and more asymmetric as the temperature is lowered. They can be decomposed into three Gaussian components centered at about 3220, 3310, and 3400 cm^–1. The former, predominant at low temperature, corresponds to single, linear hydrogen bonds (LHB) between two molecules. The other two are assigned to branched hydrogen bonds, respectively bifurcated (BHB), between three molecules, and trifurcated (THB), between four molecules. We conclude that the molecular structure of liquid alcohols is not chain-like, as presumed so far, but a three-dimensional network featuring a mixture of single (LBH), and multiple hydrogen bonds (BHB, and THB). They are mainly electrostatic in nature, their relative proportions and geometry governed by the packing conditions for minimum energy. They form distinct trimers and tetramers in dilute solutions of alcohols in inert solvents and frozen matrices, and the latter even in the vapor.Deceased December 25, 1987.     

X-ray diffraction investigation of siloxanes. I. Effects of organic substituents at the silicon atoms on the structure of acyclic trisiloxane-1,5-diols and on formation of different hydrogen bond systems

The molecular and crystal structure of four acyclic trisiloxane compounds, which differ in substituents at the silicon atoms (Ph-phenyl, mPh-methoxyphenyl, 2mPh-dimethoxyphenyl), was investigated by X-ray diffraction analysis. Due to intermolecular hydrogen bonding between the oxygen atoms of the diol fragments, the crystal structure of 1,1,5,5-tetramethyl-3,3-diphenyl-1,3,5-trisiloxane-1,5-diol (C₁₆H₂₄O₄Si₃) (I) is a double chain architecture with hydrogen-bonded dimeric motifs of C(8)R ₄ ⁴ (12) type in graph set representation. In 1,1,5,5-tetramethyl-3,3-(2-methoxybenzo)-1,3,5-trisiloxane-1,5-diol (C₁₈H₂₈O₆Si₃) (II) and 1,1,5,5-tetramethyl-3,3-(2,6-dimethoxybenzo)-1,3,5-trisiloxane-1,5-diol (C₂₀H₃₂O₈Si₃) (III), a double chain structure with a graph set R ₃ ³ (8)D ₃ ³ (10) is formed. In contrast to I–III, 1,1,3,3,5,5-hexaphenyl-1,3,5-trisiloxane-1,5-diol (C₃₆H₃₂O₄Si₃) (IV) has an intramolecular hydrogen bond S(8). The independent molecules are joined by O-H...O intermolecular hydrogen bonds into centrosymmetrical dimers; the system of hydrogen bonds in general may be described as S(8)R ₄ ⁴ (8).     

The interaction of fluorosilanes with hydrogen fluoride clusters: strongly blue-shifted hydrogen bonds

The equilibrium structures, binding energies, and vibrational spectra of the complexes formed between hydrogen fluoride clusters (HF)_n (1≤n≤4) and the fluorosilanes SiHF₃, SiH₂F₂, and SiH₃F are investigated within the second-order Møller–Plesset perturbation theory method applying extended basis sets. It is shown that Si–FH–F halogen–hydrogen bonds are formed in the most stable open dimers, SiHF₃–HF, SiH₂F₂HF, and SiH₃FHF. No Si–HF–H hydrogen bonds occur in these dimers. Nevertheless, blue shifts of Si–H stretching frequencies are calculated. All three trimers, fluorosilane–(HF)₂, all three tetramers, fluorosilane–(HF)₃, and two of the pentamers, fluorosilane–(HF)₄, form cyclic structures with strong Si–FH–F halogen–hydrogen bonds and weak Si–HF–H contacts, the latter displaying, nevertheless, strongly blue-shifted Si–H stretching frequencies. These blue shifts are comparable in size to those of the corresponding fluoromethane–(HF)_n complexes and are with about +50 cm⁻¹ for the case n=3 among the largest ever calculated and definitely the largest for Si–H bonds. In the title complexes, the formation of the Si–FH–F halogen–hydrogen bonds induces a substantial stretching of this Si–F bond, which in turn leads to a significant contraction of the fluorosilane Si–H bond in the Si–HF–H hydrogen bond. This disposition of the fluorosilane monomers is demonstrated with the aid of suitable potential energy surface scans and appears to be a prerequisite for the formation of strongly blue-shifted hydrogen bonds.     

Synthesis and characterization of a new unsymmetrical porphyrin liquid crystal and its lanthanide complexes

A meso-substituted unsymmetrical porphyrin liquid crystal, 5-(4-myristyloxy)phenyl-10,15,20-triphenyl porphyrin, and a series of its lanthanide complexes, (lanthanide ions: Gd, Tb, Dy, Ho and Er) with acetylacetone were synthesized and characterized by elemental analyses, molar conductances, UV-Vis, IR and ¹H?NMR spectra. A structure is proposed in which the porphyrin is as a tetradentate ligand and acetylacetonate is bidentate to the lanthanide. Luminescence spectra show that quantum yields of the Q band fluorescence are in the region 0.027–0.191. DSC data and an optical textural photo using a polarizing microscope indicates that the compounds have liquid crystalline character.     

A novel tubular hydrogen‐bond pattern in a new diazaphosphole oxide: a combination of X‐ray crystallography and theoretical study of hydrogen bonds

In the structure of 2‐(4‐chloroanilino)‐1,3,2λ⁴‐diazaphosphol‐2‐one, C₁₂H₁₁ClN₃OP, each molecule is connected with four neighbouring molecules through (N—H)₂…O hydrogen bonds. These hydrogen bonds form a tubular arrangement along the [001] direction built from R ³₃(12) and R ₄³(14) hydrogen‐bond ring motifs, combined with a C (4) chain motif. The hole constructed in the tubular architecture includes a 12‐atom arrangement (three P, three N, three O and three H atoms) belonging to three adjacent molecules hydrogen bonded to each other. One of the N—H groups of the diazaphosphole ring, not co‐operating in classical hydrogen bonding, takes part in an N—H…π interaction. This interaction occurs within the tubular array and does not change the dimension of the hydrogen‐bond pattern. The energies of the N—H…O and N—H…π hydrogen bonds were studied by NBO (natural bond orbital) analysis, using the experimental hydrogen‐bonded cluster of molecules as the input file for the chemical calculations. In the ¹H NMR experiment, the nitrogen‐bound proton of the diazaphosphole ring has a high value of 17.2 Hz for the ²J _H–P coupling constant.     

Study of geometrical parameters in N-H...N type of hydrogen bonds

Geometrical parameters associated with N-H ... N types of hydrogen bonds have been analysed using crystal structure data on nucleic acids, amino acids and related compounds. Histograms depicting the frequency distribution of N-H ... N length (l) and H-N ... N angle (θ) have been drawn and conclusions on the favoured geometry of such bonds have been arrived at. The distribution ofl shows a pronounced maximum in the range between 2.9? and 3.0? with an overall average of 2.98 ?. The θ distribution shows a pronounced maximum for the hydrogen bond angle in the range 0°-10°, with a rapid fall-off in frequency for nonlinear hydrogen bonds. The frequency shows a cos⁶θ dependence as compared to cos²θ dependence term used earlier to predict the angular dependence of hydrogen bond potential energy in proteins and polypeptides.     

Identification of hydrogen bonds using quantum electrodynamics

A method for the identification of hydrogen bonds was investigated from the viewpoint of the stress tensor density proposed by Tachibana and following other works in this field. Hydrogen bonds are known to exhibit common features with ionic and covalent bonds. In quantum electrodynamics, the covalent bond has been demonstrated to display a spindle structure of the stress tensor density. Importantly, this spindle structure is also seen in the hydrogen bond, although the covalency is considerably weaker than in a typical covalent bond. Distinguishing it from the ionic bond is most imperative for the identification of the hydrogen bond. In the present study, the directionality of the hydrogen bond is investigated as the ionic bond is nearly isotropic, while the hydrogen bond exhibits the directionality. It was demonstrated that the hydrogen bond can be distinguished from the ionic bond using the angle dependence of the largest eigenvalue of the stress tensor density.     

Cation-anion interactions involving hydrogen bonds: Syntheses and crystal structures study of hexafluorotitanate(IV) salts with pyridine and methyl substituted pyridines

Fluorotitanates (LH)₂[TiF₆]·nH₂O (1: R = pyridine, n = 1, 2: R = 2-picoline, n = 2, 3: R = 2,6-lutidine, n = 0, 4: R = 2,4,6-collidine, n = 0) and (LH)[TiF₅(H₂O)] (3a: L = 2,6-lutidine) have been synthesized by the reaction of pyridine or corresponding methyl substituted pyridines and titanium dioxide dissolved in hydrofluoric acid. The crystal structures of ionic compounds 1, 2, 3, 3a and 4 have been determined by single-crystal X-ray diffraction analysis. The hydrogen bonding led to the formation of discrete (LH)₂[TiF₆] units (4), chains (1-3), and layers (3a). The additional π-π interactions present in 1, 2, and 4 results in chain structures of 1 and 4 and in a layer structure of 2. The [TiF₆]²⁻ and [TiF₅(H₂O)]⁻ anions were observed by ¹⁹F NMR spectroscopy in aqueous solutions of 1, 2, 3, 3a and 4.     

Catalytically active metal organic framework based on a porphyrin modified by electron-withdrawing groups

One metal-free porphyrin, modified by electron-withdrawing groups, was synthesized by introduction of two peripheral pyridyl substituents and two metal coordination polymers, {[Zn(C₄₂H₁₆F₁₀N₆)]·2C₂H₇ N}_n (1) and {[Co(C₄₂H₁₆F₁₀N₆)]·C₂H₇ N}_n (2), were synthesized solvothermally. In 1, each porphyrin connected four other porphyrin molecules to construct a 2-D network through coordination bonds. Similarly, in 2 every Co(II) porphyrin coordinated with four adjacent molecules to form a 2-D framework. Thermogravimetric analyses indicate that both 1 and 2 show high-thermal stabilities. The fluorescence data of 1 and 2 show that 1 may be a candidate for potential inorganic–organic photoactive materials. Catalytic oxidation results show that 2 displays high activity with the only product acetophenone quantitatively in 81.4%, and after six cycles, the catalytic activity slightly decreases. These features of 2, including the exceptional stability, and high catalytic activity, make it outstanding among MOFs reported in the literature.     

Structural and energetic consequences of the formation of intramolecular hydrogen bonds

Formation of intramolecular hydrogen bonds leads to structural modifications in the whole molecule, which are discussed on the basis of B3LYP/6-31G(d,p) calculations. The energy and the structure of various hydrogen-bonded and open conformers are considered for two groups of ortho-substituted phenols–N-dimethylaminomethylphenols (Mannich bases) and N-methylbenzylideneamines (Schiff bases). The energy of intramolecular hydrogen bond formation in Mannich bases was corrected for non-bonded interactions within the molecules, based on a thermodynamic cycle. Structural data were used to estimate the fraction of the ortho-quinoid (keto) form in particular tautomers. It is shown that proton transfer in Schiff bases leads to an increase of this fraction to about 40%, while opening of the hydrogen bond in the proton transferred form increases the keto fraction to 70%.     

Ab initio studies of the characteristics of hydrogen bonds involving aromatically bound hydroxyl and amino groups and the effects of aromatic fluorine substitution on these interactions

In this work, we study the hydrogen bonds (H‐bonds) involving hydroxyl and amino groups bonded to phenyl and pyrimidine rings (as H‐bond donors). These types of interactions play important roles in the recognition of ligands by proteins and are also important in the design of materials. The effects of aromatic fluorine substitutions on aromatic rings are also investigated, and it is found that these substitutions can have large effects on the hydrogen bonding interactions that occur in our model systems, making them substantially stronger. This finding offers a new mechanism for the modification of these types of interactions, potentially opening new paths in the design of novel pharmaceuticals and materials. © 2009 Wiley Periodicals, Inc. Int J Quantum Chem, 2010     

Pyroelectric investigations of a hydrogen bonded ferroelectric liquid crystal gel by LIMM

The laser intensity modulation method (LIMM) is employed to determine spatially resolved polarization distributions in sandwich cells containing a hydrogen‐bonded ferroelectric liquid crystal (FLC) gel. At no external electric fields, contributions to the distributions at the surface of the FLC layer are dominating in all the samples with different concentration of gel former. These are attributed to non‐vanishing polarization due to surface interaction. In this case, the effect of hydrogen‐bonded network on the polarization distribution is not visible. In external electric fields, additional contribution to the resulting distribution caused by the induced polarization due to unwinding the FLC helix has been observed. Furthermore, the influence of hydrogen‐bonded network on the polarization distribution is also detected when the gel former content is increased up to 5.0 wt%. Therein the shape of the measured pyrospectra is completely different to other FLC gel samples with lower gel former concentration, where their maximum distributions still locate at the surface of FLC layer which is comparable to the initial field‐free state. These result indicate that the helical structure and orientation director of FLC are able to be stabilized effectively by the gel network even under strong external electric field. Copyright © 2004 John Wiley & Sons, Ltd.     

Structure and stability of hydrogen fluoride complexes with N,N-dimethylformamide

The structure, stability, and paths of formation of 11 (HF)_m(DMF)_n heterocomplexes (m = 1–4, n = 1, 2) were studied in terms of the B3LYP/6-31++G(d, p) density functional calculation. The results of this calculation suggest that: a) addition of hydrogen fluoride molecules to the (HF)_mDMF cyclic fragment is the basic tendency in complex formation in the HF-DMF system; b) data about the structure and properties of stable molecular forms that prevail in N,N-dimethylformamide solutions of hydrogen fluoride can be obtained by quantum chemical calculations for (HF)_mDMF complexes (m = 5–10).     

Hydrogen bonds in mixed bifluoride–nitrate salts of ammonium and potassium

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Hydrogen bonds and protonation of carbonyl-containing polynuclear rhodium complexes

According to IR spectroscopy data, the interaction of bi-, tri-, and tetranuclear cyclopentadienylcarbonyl rhodium complexes with rather weak protic acids (phenols, fluoroalcohols) in low-polarity media results in the formation of hydrogen bonds of the OH...O=C type with bridged carbonyl groups. According to¹H NMR data, protonation of these complexes with strong acids (CF₃COOH and HBF₄) occurs at the the Rh-Rh bond to give the symmetrical bridge.Translated fromIzvestiya Akademii Nauk. Seriya Khimicheskaya, No. 2, pp. 386–388, February, 1995.This work was carried out with the financial support of the Russian Foundation for Basic Research (Project No. 93-03-0461).     

The relationship between intramolecular hydrogen bonds and certain physical properties of regioselectively substituted cellulose derivatives

This article tries to provide some direct evidence about the relationship between the intramolecular hydrogen bonds in cellulose and their corresponding effect on physical properties. The formation of intramolecular hydrogen bonds has been proved to contribute directly to certain physical properties of cellulose, such as its solubility in solvents having different polarities, the relative reactivities of the hydroxyls in a repeating unit and its crystallinity, using a 6-O-methylcellulose (6MC) film that was known¹ to have intramolecular hydrogen bonds. The excellent solubility of 6MC when compared with other cellulose derivatives indicated a lack of interchain hydrogen bonds. A comparison of the relative reactivities between the C-2 and C-3 position hydroxyls in 6MC also indicates that intramolecular hydrogen bonds once formed in 6MC films are possibly maintained even after dissolution in solvents. In addition, the poor crystallinity exhibited by 6MC supports the idea that crystallization in cellulosics may be dependent more upon preferencial interchain hydrogen bonding at the C-6 position hydroxyls than upon a uniform structure such as that found in 6MC, where every structural unit is completely and regioselectively substituted, distinguishing it from other synthetic polymers such as polyolefins and polyesters. © 1997 John Wiley & Sons, Inc. J Polym Sci B: Polym Phys, 35: 717–723, 1997     

Synthesis and structures of two supramolecular complexes constructed via hydrogen bond linking

Two supramolecular complexes,[Ni(rac-L)]3[CrO4]2[ClO4]2-4H2O (1) and [meso-H2L]0.5[VO3]-0.16H2O (2) (L= 5,5,7,12,12,14-hexamethyl-1,4,8,11-tetraazacyclotetra-decane),have been prepared in an aqueous solu-tion,and detected by elemental analysis,IR,TG,and single crystal X-ray diffraction analyses. Com-pound 1 shows a one-dimensional hexagonal prism formed by the hydrogen bonding interactions between the secondary amines of rac-L and CrO42-anion/water molecules. Compound 2 displays a three-dimensional structur...     

Structures,vibrational frequencies,topologies, and energies of hydrogen bonds in cysteine‐formaldehyde complexes

The hydrogen bonding interactions between cysteine (Cys) and formaldehyde (FA) were studied with density functional theory regarding their geometries, energies, vibrational frequencies, and topological features of the electron density. The quantum theory of atoms in molecules and natural bond orbital analyses were employed to elucidate the interaction characteristics in the Cys‐FA complexes. The intramolecular hydrogen bonds (H‐bonds) formed between the hydroxyl and the N atom of cysteine moiety in some Cys‐FA complexes were strengthened because of the cooperativity. Most of intermolecular H‐bonds involve the O atom of cysteine/FA moiety as proton acceptors, while the strongest H‐bond involves the O atom of FA moiety as proton acceptor, which indicates that FA would rather accept proton than providing one. The H‐bonds formed between the CH group of FA and the S atom of cysteine in some complexes are so weak that no hydrogen bonding interactions exist among them. In most of complexes, the orbital interaction of H‐bond is predominant during the formation of complex. The electron density (ρ_b) and its Laplace (?²ρ_b) at the bond critical point significantly correlate with the H‐bond parameter δR, while a linearly relationship between the second‐perturbation energy E(2) and ρ_b has been found as well. © 2011 Wiley Periodicals, Inc. Int J Quantum Chem, 2012