Design of novel podand-like compounds with two short diphenylphosphine oxide pendant arms

Crystal and molecular structure of 1,3,5-benzenetris(methylenediphenylphosphine oxide) cyclohexylammonium chloride dibenzene solvate monohydrate has been determined. The overall arrangement of two diphenylphosphine oxide substituents atoms is imposed by intermolecular strong hydrogen bonds, O_(water) H···O_(oxide) and N H···O_{(oxide, water)}. Cyclohexylamine exists in almost ideal chair conformation and nitrogen atom is equatorial to the ring. The structure is build up from strong and weak intermolecular hydrogen bonds to form the three-dimensional infinite hydrogen bond network. Crystal and molecular structure of 1,4-bis[(diphenylphosphineoxide)methyl] - 2,5 - bis (ethoxymethyl) benzene has been determined. The phenyl rings are inclined at 80.91(7)° within the substituent, and they are involved in weak C_(phenyl) H···O_(oxide) hydrogen bonds. The arrangement of diphenylphosphine oxide substituents is imposed practically only by steric effects. Two intramolecular weak hydrogen bonds exist between diphenylphosphine oxide and ethoxymethyl substituents, which can provide additional stabilization to molecule, but it has no noticeable influence on overall molecule geometry. Molecules are assembled via weak intermolecular C H···O_(oxide) hydrogen bonds to the one-dimensional hydrogen-bonded chain along y axis. © 2004 Wiley Periodicals, Inc. Heteroatom Chem 15:233–240, 2004; Published online in Wiley InterScience (www.interscience.wiley.com). DOI 10.1002/hc.20008     

Amide–Amide Hydrogen Bonding. Semirubin Amides

Summary. Semirubins are analogs for one-half of the bilirubin structure and capable of intramolecular hydrogen bonding. Semirubin amides of ammonia and primary amines are also capable of intramolecular hydrogen bonding. From a combination of spectroscopic methods (¹H NMR, NOE, and VPO), the primary amide is found to engage very effectively in intramolecular hydrogen bonding. The secondary and tertiary amides engage in both intramolecular (i) and intermolecular (ii) hydrogen bonding: N-methyl (i, monomer + ii, dimer), N-tert-butyl (ii, dimer), N,N-diethyl (i, monomer + ii, dimer). With an oxo-group at C(10), all of the amides are monomeric and most engage in intramolecular hydrogen bonding.     

Amide–Amide Hydrogen Bonding. Semirubin Amides

Semirubins are analogs for one-half of the bilirubin structure and capable of intramolecular hydrogen bonding. Semirubin amides of ammonia and primary amines are also capable of intramolecular hydrogen bonding. From a combination of spectroscopic methods (¹H NMR, NOE, and VPO), the primary amide is found to engage very effectively in intramolecular hydrogen bonding. The secondary and tertiary amides engage in both intramolecular (i) and intermolecular (ii) hydrogen bonding: N-methyl (i, monomer + ii, dimer), N-tert-butyl (ii, dimer), N,N-diethyl (i, monomer + ii, dimer). With an oxo-group at C(10), all of the amides are monomeric and most engage in intramolecular hydrogen bonding.     

Hydrogen bonds in regioselectively substituted cellulose derivatives

Formation of hydrogen bonds in various cellulose derivatives, 2,3-di-O- and 6-O-substituted cellulose ethers, were characterized by FTIR and solid-state CP/MAS¹³C-NMR. The polymers were synthesized by regioselective substitution of hydroxyl groups and had a uniform structure. Since their three hydroxyl groups (OH) are selectively blocked, the cellulose derivatives appeared to form specific inter- and intramolecular hydrogen bonds. The characteristic OH stretching frequencies in IR spectra and the C-1 chemical shift in CP/MAS spectra of 6-O-substituted cellulose derivatives indicated existence of two equivalent intramolecular hydrogen bonds between ether oxygen and OH groups at 3-OH-O5′ and O6-HO-2′ [Figure 3(C)]. Influence of the substituents at the C-6 position on the formation was not significant except trityl group. Behavior of the hydrogen bonds in 6-O-tritylcellulose were also discussed. © 1994 John Wiley & Sons, Inc.     

Correlation between the reactivity and spectroscopic properties of N‐substituted secondary thioamides. New intramolecular N···H+···N binding approach and proton complexes based on thioamide ligation

On the basis of a comparison of chemical shifts and wavenumbers of several secondary thioamides and amides having monocationic substituents attached to thiocarbamoyl or carbamoyl groups by a polymethylene chain, new intramolecular unconventional N···H⁺···N hydrogen bonding effects were discovered. It is argued that the CH₂—N rotation is hindered and two ⁺H···NHCH₃ non‐equivalent protons occur in a proton spectrum of hydrochloride 1a (at 10.68 and 2.77 ppm, respectively) instead of two ⁺NH₂CH₃ protons. Presumably, the above steric factors inhibit the acidic hydrolysis of 1a (stabilized by strong intramolecular N···H⁺···N hydrogen bonds) to an amide and prevent intramolecular cyclization of 2a (stabilized by strong intramolecular neutral–neutral N···HN hydrogen bonds) to a cyclic amidine. Postulation of additional dihydrogen bond formation is helpful in understanding the spectroscopic differences of 4 and 5 . The above new bonding is also compared with intramolecular N···H—N⁺ hydrogen bonds in primary amine salts 7 and 8 . In contrast to 3 , a cooperative hydrogen bonded system is observed in 9 and 10 . The weak hydrogen bonds in 7 – 10 facilitate the hydrolysis and cyclization reactions of secondary thioamides. The spectroscopic data for secondary (thio)amides are especially useful for characterizing the electronic situation at the (thio)carbamoyl nitrogen atoms and they are perfectly correlated with the reactivity. Examples of chelation of protons by thioamides ( 11 and 12 ), which contain strongly electron‐donating pyrimidine groups, are presented to show the contribution of dihydrogen bonding in the protonation reaction similar to 1 and 4 . Copyright © 2003 John Wiley & Sons, Ltd.     

An Isolable Radical Anion of an Organosilicon Cluster Containing Only σ Bonds

The radical anion of octa‐tert‐butyloctasilacubane was generated and isolated. The EPR spectrum showed the satellites due to the tertiary ¹³C nuclei of the eight tert‐butyl groups. The X‐ray crystallographic analysis showed that the Si? Si bonds are shortened and the Si? C bonds are elongated compared with those of octa‐tert‐butyloctasilacubane. These results are well explained by the distribution of an unpaired electron in the singly occupied molecular orbital (SOMO).     

Structure and intermolecular interactions of <Emphasis Type="Italic">N</Emphasis>-(3,5-di-<Emphasis Type="Italic">tert</Emphasis>-butyl-4-hydroxybenzyl)thioureas

The molecular and crystal structure and the hydrogen bonding in crystal and in solutions of N-phenyl-N-(3,5-di-tert-butyl-4-hydroxybenzyl)thiourea and N-(3,5-di-tert-butyl-4- hydroxybenzyl)thiourea were studied by single crystal X-ray diffraction and IR spectroscopy. The intermolecular interactions of these compounds are essentially different.Translated from Zhurnal Obshchei Khimii, Vol. 74, No. 11, 2004, pp. 1864–1870.Original Russian Text Copyright © 2004 by Bukharov, Litvinov, Gubaidullin, Chernova, Shagidullin, Nugumanova, Mukmeneva.This revised version was published online in April 2005 with a corrected cover date.     

1H NMR studies on intramolecular hydrogen bonding in perchlorates of N-(pyridyl)amides of 6-methylpicolinic acid N-oxide

The ¹H NMR spectra of perchlorates of N-(pyridyl)amides of 6-methylpicolinic acid N-oxide (PYAP) in CD₃CN at 100 MHz show two proton signals belonging to two distinct intramolecular hydrogen bonds. The position of these signals is independent of concentration and temperature. That of the proton of the N? H ?O bond in PYAP is shifted to still lower field than in N-(pyridyl)amides of 6-methylpicolinic acid N-oxide (PYA) due to the inductive effect of the pyridine cation and the formation of another intramolecular hydrogen N⁺? H ?O bond. The proton of the N⁺? H ?O bond interacts strongly with its environment and is highly sensitive to traces of water. Presumably, water leads to dissociation of the intramolecular bond.     

Solvation Properties of Aliphatic Alcohol–Water and Fluorinated Alcohol–Water Solutions for Amide Molecules Studied by IR and NMR Techniques

Solvation properties of aliphatic alcohol–water and fluorinated alcohol–water solutions were probed by amide molecules as solutes using infrared (IR) and ¹H and ¹³C NMR techniques. These include four alcohols: ethanol (EtOH), 2-propanol (2-PrOH), 2,2,2-trifluoroethanol (TFE), and 1,1,1,3,3,3-hexafluoro-2-propanol (HFIP) and three amides: N-methylformamide (NMF), N-methylacetamide (NMA) and N-methylpropionamide (NMP). The hydrogen bonds of the amide carbonyl oxygen with water are gradually weakened as the alcohol content increases. This decreases in the order of HFIP > TFE ≈ 2-PrOH > EtOH. In TFE– and HFIP–water solutions, the hydrogen bond between the amide amino hydrogen and water is also gradually broken with increasing x _A. This trend is more notable in the order of NMP > NMA > NMF. The hydrophobic moieties of the amide methyl and ethyl groups are solvated by the fluoroalkyl groups of fluorinated alcohols due to the hydrophobic interaction among them. Thus, the steric hindrance generated by the solvated alkyl group of amides promotes the breaking of the hydrogen bonds between amide and water.     

Cooperative Binding of Divalent Diamides by N‐Alkyl Ammonium Resorcinarene Chlorides

N‐Alkyl ammonium resorcinarene chlorides, stabilized by an intricate array of hydrogen bonds leading to a cavitand‐like structure, bind amides. The molecular recognition occurs through intermolecular hydrogen bonds between the carbonyl oxygen and the amide hydrogen of the guests and the cation–anion circular hydrogen‐bonded seam of the hosts, as well as through CH ??? π interactions. The N‐alkyl ammonium resorcinarene chlorides cooperatively bind a series of di‐acetamides of varying spacer lengths ranging from three to seven carbons. Titration data fit either a 1:1 or 2:1 binding isotherm depending on the spacer lengths. Considering all the guests possess similar binding motifs, the first binding constants were similar (K₁: 10² M ^?1) for each host. The second binding constant was found to depend on the upper rim substituent of the host and the spacer length of the guests, with the optimum binding observed with the six‐carbon spacer (K₂: 10³ M ^?2). Short spacer lengths increase steric hindrance, whereas longer spacer lengths increase flexibility thus reducing cooperativity. The host with the rigid cyclohexyl upper rim showed stronger binding than the host with flexible benzyl arms. The cooperative binding of these divalent guests was studied in solution through ¹H NMR titration studies and supplemented by diffusion‐ordered spectroscopy (DOSY), X‐ray crystallography, and mass spectrometry.     

Crystallographic report: Coordination polymers containing Cd(NO3)2 and Cd(H2O)22+ units bridged by btp ligands (btp = 2,6‐bis(N′‐1,2,4‐triazolyl)pyridine)

There are two kinds of coordination polymers in the title compound: one contains Cd(NO₃)₂ units bridged by 2,6‐bis(N′‐1,2,4‐triazolyl)pyridine (btp) ligands and the other contains Cd(H₂O)₂²⁺ bridged by btp ligands. The two coordination polymers are connected through hydrogen bonds. Copyright © 2004 John Wiley & Sons, Ltd.     

Host-guest chemistry. 2. Amine inclusion compounds of 2-[o-(triphenylphosphoranylidenamino)benzyliden]amino-1H-2,3-dihydroindazol-3-one. X-ray structure of its 1∶1∶1 inclusion complex with isopropylamine and water

The crystal and molecular structure is reported for the inclusion compound 2-[o-(triphenylphosphoranylidenamino)benzyliden]amino-1H-2,3-dihydroindazol-3-one/isopropylamine/water3b. The crystal structure consists of discrete dimeric salt-like aggregates joined together by strong N⁺–H...^–O–C hydrogen bonds between pairs of centrosymmetrically-related indazolonate anions and isopropylammonium cations. Six other inclusion compounds have been prepared and characterized by NMR [with propylamine (3a), withtert-butylamine (3c), withsec-butylamine (3d), withtert-pentylamine (3e), with 1-methylbutylamine (3f) and withiso-pentylamine (3g)]. Two different arrangements are found, both with the host being in the anionic form. The guests are either: (i) one protonated amine and one water molecule (3b and3f); or (ii) one protonated amine and the corresponding neutral amine (3a, 3c, 3d, 3e and3g). Supplementary Data relating to this article (structure factors, thermal components, hydrogen parameters and bond distances and angles, and¹³C-NMR shifts) are deposited with the British Library at Boston Spa, Wetherby, West Yorkshire, U.K., as Supplementary Publication No. SUP 82155 (23 pages).For Part 1, see Reference [1].     

How Strong is Hydrogen Bonding to Amide Nitrogen?

The protonation of the carboxamide nitrogen atom is an essential part of in vivo and in vitro processes (cis-trans isomerization, amides hydrolysis etc). This phenomenon is well studied in geometrically strongly distorted amides, although there is little data concerning the protonation of undistorted amides. In the latter case, the participation of amide nitrogen in hydrogen bonding (which can be regarded as the incipient state of a proton transfer process) is less well-studied. Thus, it would be a worthy goal to investigate the enthalpy of this interaction. We prepared and investigated a set of peri-substituted naphthalenes containing the protonated dimethylamino group next to the amide nitrogen atom (“amide proton sponges”), which could serve as models for the study of an intramolecular hydrogen bond with the amide nitrogen atom. X-Ray analysis, NMR spectra, basicity values as well as quantum chemical calculations revealed the existence of a hydrogen bond with the amide nitrogen, that should be attributed to the borderline between moderate and weak intramolecular hydrogen bonds (2–7 kcal ⋅ mol⁻¹).     

Mechanism of nucleophilic fluorination promoted by bis‐tert‐alcohol‐functionalized crown‐6‐calix[4]arene

Theoretical calculations were performed to elucidate the ability of the recently reported bis‐tert‐alcohol‐functionalized crown‐6‐calix[4]arene (BACCA) molecule to promote nucleophilic fluorination of alkyl mesylates with cesium fluoride reagent. It was found that a similar structure, named BACCAt, can separate the cesium fluoride ion pair in tert‐butanol solution. This separation has a free energy cost, even considering the double hydrogen bonds with the fluoride ion. The solvent has an important effect on the stabilization of this complex, due to interaction with the high dipole moment of the separated ion pair. The observed rate acceleration effect involves a structure with double hydrogen bonds between the BACCAt and the centers of negative charges of the S_N2 transition state. The predicted free energy barrier of 27.3 kcal mol⁻¹ is in excellent agreement with the estimated experimental value of 26.2 kcal mol⁻¹.     

Versatile Stereoselective Synthesis of Completely Protected Trifunctional α-Methylated α-Amino Acids Starting from Alanine

A new route to completely protected α-methylated α-amino acids starting from alanine is described (see Scheme). These derivatives, which are obtained via base-catalyzed opening of the oxazolidinones (2S,4R)- and (2R,4S)- 2 , can be directly employed in peptide synthesis. The synthesis of both enantiomers of Z-protected α-methylaspartic acid β-(tert-butyl)ester (O⁴-(tert-butyl) hydrogen 2-methylaspartates (R) or (S)- 4a ), α-methyl-glutamic acid γ-(tert-butyl) ester (O⁵-(tert-butyl) hydrogen 2-methylglutamate (R)- or (S)- 4b ), and of N^ε-bis-Boc-protected α-methyllysine (N⁶,N⁶-bis[(tert-butyloxy)carbonyl]-2-methyllysine (R)- or (S)- 4c ) is described in full detail.     

Assignment of chemical shifts in benzohydroxamic acid and structure of its silylated derivatives by 15N enrichment

¹⁵N isotopic enrichment was necessary for the unequivocal assignment of the ¹H NMR lines to the protons in the NH–OH fragment of benzohydroxamic acid, BHXA, C₆H₅CONHOH, in dry dimethyl sulfoxide solutions. The assignment [δ(NH) = 11.21, δ(OH) = 9.01, ¹J(¹⁵N,¹H) = 102.2 Hz, ²J(¹⁵N,¹H) <1.5 Hz], which is opposite to that used by other authors, confirms the assignment extended to BHXA by Brown and co‐workers from the spectra of acetohydroxamic acid. The enrichment allowed also assignment of the ²⁹Si lines in the spectra of disilylated benzohydroxamic acid, (Z)‐tert‐butyldimethylsilyl N‐tert‐butyldimethylsilyloxybenzoimidate (2) and (Z)‐tert‐butyldiphenylsilyl N‐tert‐butyldiphenylsilyloxybenzoimidate (3), and confirmed structure of the monosilylated products, N‐tert‐butyldiphenylsilyloxybenzamide (4) and N‐tert‐butyldiphenylsilyloxy benzoimidic acid (5). Copyright © 2003 John Wiley & Sons, Ltd.     

General One‐Pot Reductive gem‐Bis‐Alkylation of Tertiary Lactams/Amides: Rapid Construction of 1‐Azaspirocycles and Formal Total Synthesis of (±)‐Cephalotaxine

Amides are a class of highly stable and readily available compounds. The amide functional group constitutes a class of powerful directing/activating and protecting group for C? C bond formation. Tertiary tert‐alkylamine, including 1‐azaspirocycle is a key structural feature found in many bioactive natural products and pharmaceuticals. The transformation of amides into tert‐alkylamines generally requires several steps. In this paper, we report the full details of the first general method for the direct transformation of tertiary lactams/amides into tert‐alkylamines. The method is based on in situ activation of amide with triflic anhydride/2,6‐di‐tert‐butyl‐4‐methylpyridine (DTBMP), followed by successive addition of two organometallic reagents of the same or different kinds to form two C? C bonds. Both alkyl and functionalized organometallic reagents and enolates can be used as the nucleophiles. The method displayed excellent 1,2‐ and good 1,3‐asymmetric induction. Construction of 1‐azaspirocycles from lactams required only two steps or even one‐step by direct spiroannelation of lactams. The power of the method was demonstrated by a concise formal total synthesis of racemic cephalotaxine.     

Crystallographic report: Diaqua(benzene‐1,4‐dioxyacetate)zinc(II): a one‐dimensional zigzag chain

The zinc(II) atom in the crystal structure of the title coordination polymer, [Zn(p‐BDOA)·2H₂O]_n (p‐BDOA^2? = benzene‐1,4‐dioxyacetate), exists in a distorted trigonal prismatic geometry. Adjacent zinc(II) ions are linked by the p‐BDOA^2? ligands to furnish a one‐dimensional (1‐D) zigzag chain. A three‐dimensional (3‐D) network structure is stabilized by extended hydrogen bonds. Copyright © 2004 John Wiley & Sons, Ltd.     

An indirect measurement of the absolute rate constant of the self-reaction of tert-butoxy radicals

No reliable rate constant is available for the self-reaction of tert-;butoxy radicals. We have set up a competition between hydrogen abstraction and self-reaction of tert-butoxy radicals in a flash photolysis electron spin resonance study to extract this information. Experimental values of hydrogen abstraction product radical concentrations under various hydrogen donor concentrations were then compared with theoretically calculated values with different values of 2k₄ to obtain the best fit. Hydrogen donors such as cyclopentane, anisole, methyl tert-butyl ether, and methanol were chosen for the study. A value of (1.3 ± 0.5) × 10⁹M^?1 sec^?1 for the rate constant of the self-reaction of tert-butoxy radicals has been determined at 293°K.     

Sustainable Triazine-Based Dehydro-Condensation Agents for Amide Synthesis

Conventional methods employed today for the synthesis of amides often lack of economic and environmental sustainability. Triazine-derived quaternary ammonium salts, e.g., 4-(4,6-dimethoxy-1,3,5-triazin-2-yl)-4-methylmorpholinium chloride (DMTMM(Cl)), emerged as promising dehydro-condensation agents for amide synthesis, although suffering of limited stability and high costs. In the present work, a simple protocol for the synthesis of amides mediated by 2-chloro-4,6-dimethoxy-1,3,5-triazine (CDMT) and a tert-amine has been described and data are compared to DMTMM(Cl) and other CDMT-derived quaternary ammonium salts (DMT-Ams(X), X: Cl⁻ or ClO₄⁻). Different tert-amines (Ams) were tested for the synthesis of various DMT-Ams(Cl), but only DMTMM(Cl) could be isolated and employed for dehydro-condensation reactions, while all CDMT/tert-amine systems tested were efficient as dehydro-condensation agents. Interestingly, in best reaction conditions, CDMT and 1,4-dimethylpiperazine gave N-phenethyl benzamide in 93% yield in 15 min, with up to half the amount of tert-amine consumption. The efficiency of CDMT/tert-amine was further compared to more stable triazine quaternary ammonium salts having a perchlorate counter anion (DMT-Ams(ClO₄)). Overall CDMT/tert-amine systems appear to be a viable and more economical alternative to most dehydro-condensation agents employed today.