Hydrogen-Bonding Motifs in Adducts of Allylamine with the 10 Simplest n-Alcohols: Single-Crystal X-ray Diffraction Studies and Computational Analysis.

In this paper, we analyzed the homologous series of 10 allylamine adducts with n-alcohols from methanol to decanol. These are the first adduct structures containing aliphatic n-alcohols and an aliphatic amine as co-formers. While all of the ingredients are liquids under ambient conditions, the phases were synthesized with the use of the in situ crystallization technique assisted by IR laser-focused radiation at atmospheric pressure. The structures were characterized by single-crystal X-ray diffraction. All of the phases contain the amine and alcohol in a 1:1 ratio. The architecture of the structures, based on hydrogen-bonding interactions between NH2 and OH moieties, depends on the size of the alcohol and changes in a systematic way. The three smallest alcohol adducts contain centrosymmetric layers of molecules of the L4(4)8(8) type. The next four alcohol adducts have the T4(2) topology. The structures with the biggest alcohols contain non-centrosymmetric L6(6) layers. The structural investigations were supported by periodic DFT calculations at the B3LYP/pobTZVP level. The cohesive and adhesive energies made up of layer (E lbe) and ribbon (E rbe) binding energies were used to predict which type of architecture can be formed. The thermal stabilities of the adducts correlate with the melting points of the co-forming alcohols, with no evident relation to the adduct architecture.

Structures of Trichloromethyl Thiocyanate, CCl3 SCN, in Gaseous and Crystalline State.

Trichloromethyl thiocyanate, CCl3 SCN, was structurally studied in both the gas and crystal phases by means of gas electron diffraction (GED) and single-crystal X-ray diffraction (XRD), respectively. Both experimental studies and quantum chemical calculations indicate a staggered orientation of the CCl3 group relative to the SCN group. This conclusion is supported by the similarity of the C-SCN bond length to that of the anti-structure of CH2 ClSCN (Berrueta Martínez et al. Phys. Chem. Chem. Phys. 2015, 17, 15805-15812). Bond lengths and angles are similar for gas and crystal CCl3 SCN structures; however, the crystal structure presents different intermolecular interactions. These include halogen and chalcogen type interactions, the geometry of which was studied. Characteristic C-Y⋅⋅⋅N angles (Y=Cl or S) close to 180° provide evidence for typical σ-hole interactions along the halogen/chalcogen-carbon bond in N⋅⋅⋅Cl and N⋅⋅⋅S, intermolecular units.

Towards Clathrates: Frozen States of Hydration of tert-Butylamine.

The dilution of tert-butylamine (tBA) with water and subsequent cooling leads to a large series of different crystalline hydrates by an in situ IR laser melting-zone procedure. The crystal structures were determined for tBA⋅n H2 O, with n=0, 1/4, 1, 7 1/4, 7 3/4, 9 3/4, 11, and 17. For the two lower hydrates (n= 1/4, 1), one- and two-dimensional hydrogen-bonded networks are formed, respectively. The higher hydrates (n>1) exhibit a clathrate-like three-dimensional water framework with the tBA molecules as part of, or sitting inside, the cages. In all cases, tBA is hydrogen-bonded to the H2 O framework. In the intermediate range (1

Preparation, structural properties and thermal isomerization of hex-3-ene-1,5-diyne bridged [2.2]paracyclophanes.

The [2.2]paracyclophane moiety is used as a spacer to connect the ends of a hex-3-ene-1,5-diyne unit, a π-system that on thermolysis usually cycloaromatizes to a benzene ring (Bergman cyclization). For the preparation of the pseudo-geminally-bridged system 9, the diacetylene 3 was chain-extended to the diol 16, which after conversion to the pseudo-geminal dibromide 17 was ring-closed by treatment with LiHMDS/HMPA to the [2.2]paracyclophane enediyne 9. Whereas the McMurry coupling of the pseudo-ortho bisaldehyde 24 resulted in the formation of the hexadienyne-bridged cyclophane 27, the pseudo-ortho-bridged hydrocarbon 11 was obtained by preparing first the diol 28 from 24, converting the latter into the dioxolane 29, which in the last step furnished the olefin 11 by treatment with Tf2 O/EtN(iPr)2 . The authentic Bergman product 10 of the pseudo-gem-bridged hexenediyne 9 was synthesized by a conventional sequence starting from the ethynyl formyl substrate 18. Since the pseudo-ortho-enediyne-bridged hydrocarbon 11 is thermally labile, its benzannelated derivate 34 was prepared. No classical Bergman cyclization reactions could be observed for any of the [2.2]paracyclophane-bridged hexenediynes prepared here. In the pseudo-gem-series the fulvenes 14 and 15 were the only products that could be identified under thermal conditions (McMurry coupling); the benzannelated substrate 34 gave the benzofulvene-bridged cyclophane 36 on photolysis. Bergman cyclizations yielding fulvene derivatives are extremely rare. The mechanism of the cyclization of 9 and 34 is discussed, using compliance constants. The structure assignments of the hydrocarbons synthesized in this study are based on spectroscopic studies as well as X-ray structural analyses for 9, 10, 11, 27, and 34.

Ethyl acetate: X-ray, solvent and computed structures.

Ethyl acetate (ethyl ethanoate) was crystallized in situ and the crystal structure was determined. In the solid, the molecule is flat with trans conformation. The geometric details of ethyl acetate as a solvate are analyzed statistically using the Cambridge Structural Database, uncovering a high degree of hidden disorder. Despite the disorder, they exhibit a preference of the trans over the gauche isomer, with a negligible contribution of the cis isomer. These results are compared to ab initio calculations on both solid-state and molecular level. For the molecular structures, the computed energy differences of the isomers match the statistics found as a solvent. Several DFT-D2 methods used to calculate the solid state yield results that differ significantly from the experiment.

Weak C-H···O hydrogen bonds in anisaldehyde, salicylaldehyde and cinnamaldehyde.

In situ cryocrystallization has been employed to grow single crystals of 4-methoxybenzaldehyde (anisaldehyde), C(8)H(8)O(2), 2-hydroxybenzaldehyde (salicylaldehyde), C(7)H(6)O(2), and (2E)-3-phenylprop-2-enal (cinnamaldehyde), C(9)H(8)O, all of which are liquids at room temperature. Several weak C-H···O interactions of the types C(aryl)-H···O, C(formyl)-H···O and Csp(3)-H···O are present in these related crystal structures.

Conformational preference of chlorothioformate species: molecular structure of ethyl chlorothioformate, ClC(O)SCH2CH3, in the solid phase and NBO analysis.

The molecular structure of ethyl chlorothioformate, ClC(O)SCH(2)CH(3), has been investigated in the solid phase by X-ray diffraction analysis at low temperature using a miniature zone-melting procedure and IR laser radiation. The crystalline solid consists exclusively of molecules with the synperiplanar conformation with respect to the C=O double bond and the S-C single bond, and gauche orientation of the ethyl group (syn-gauche). These results coincide with previous studies devoted to gas-phase conformational properties. The conformational preference for the ClC(O)SY (Y = Cl, CF(3), CH(3) and CH(2)CH(3)) series of molecules was rationalized using the natural bond orbital (NBO) scheme. It was found that both resonance (mesomeric) and anomeric (hyperconjugation) intermolecular charge-transfer interactions are important for describing the syn ↔ anti equilibrium, also illustrating the effect of electronegativity of the substituent in the conformation preference of the ClC(O)S- moiety. On the basis of the atoms in molecules (AIM) theory, intermolecular interactions have been characterized in the B3LYP/6-31G** periodic boundary electron density.

Conformational polymorphs of 1,1,2,2-tetrachloroethane: pressure vs. temperature.

Directional Cl···Cl type I and II interactions govern the low-density aggregation of 1,1,2,2-tetrachloroethane molecules in synclinal conformation in the crystalline state at low temperature, whereas the dense molecular packing in high-pressure is achieved for the antiperiplanar conformers and electrostatically less favored Cl···Cl contacts. The mechanism of transformation between loose and dense associations involves the collapse of Cl···Cl contacts and conformational conversion.

Nature and strength of C-H···O interactions involving formyl hydrogen atoms: computational and experimental studies of small aldehydes.

Structural and electronic properties of C-H···O contacts in compounds containing a formyl group are investigated from the perspective of both hydrogen bonding and dipole-dipole interactions, in a systematic and graded approach. The effects of α-substitution and self-association on the nature of the formyl H-atom are studied with the NBO and AIM methodologies. The relative dipole-dipole contributions in formyl C-H···O interactions are obtained for aldehyde dimers. The stabilities and energies of aldehyde clusters (dimer through octamer) have been examined computationally. Such studies have an implication in crystallization mechanisms. Experimental X-ray crystal structures of formaldehyde, acrolein and N-methylformamide have been determined in order to ascertain the role of C-H···O interactions in the crystal packing of formyl compounds.

Molecular and electronic structure of δ-valerothiolactone.

The crystal structure of the six-member heterocyclic δ-valerothiolactone (1-thiocycloalkan-2-one) compound has been determined by X-ray diffraction at low temperature, revealing that its skeleton adopts a half-chair conformation. The conformation around the thioester group is almost planar with an anti orientation of the C=O double bond with respect the S-C single bond [C(2)-S(1)-C(6)-O(1) = 176.26(8)°]. The skeletal parameters, especially valence angles [∠C5-C6-S = 121.19(6)°, ∠O=C6-C5 = 122.25(8)°, ∠C6-S-C2 = 106.80(4)°], differ from those typically found in acyclic thioester compounds, symptomatic of the presence of strain effects. The conventional ring strain energy was determined to be 7.5 kcal/mol at the MP2/6-311++G(d,p) level of calculation within the hyperhomodesmotic model approximation. Moreover, the valence electronic structure was investigated by HeI photoelectron spectroscopy assisted by quantum chemical calculations at the OVGF/6-311++G(d,p) level of theory. The first three bands at 9.35, 9.50, and 11.53 eV denote ionizations related with the n(S), n(O), and π(C=O) orbitals, respectively, demonstrating the importance of the -SC(O)- group in the outermost electronic properties.

Cyclopropylamines from N,N-dialkylcarboxamides and Grignard reagents in the presence of titanium tetraisopropoxide or methyltitanium triisopropoxide.

Thirty-three different N,N-dialkyl- and N-alkyl-N-phosphorylalkyl-substituted carboxamides 9-17 were treated with unsubstituted as well as with 2-alkyl-, 2,2-dialkyl-, and 3-alkenyl-substituted ethylmagnesium bromides 6 in the presence of stoichiometric amounts of titanium tetraisopropoxide or methyltitanium triisopropoxide to furnish substituted cyclopropylamines 20-25 in 20-98% yield, depending on the substituents with no (1:1) to excellent (>25:1) diastereoselectivities. Generally higher yields (up to 98%) of the cyclopropylamines 20-28 without loss of the diastereoselectivity were obtained with methyltitanium triisopropoxide as the titanium mediator. Under these conditions, even dioxolane-protected ketones and halogen-substituted and chiral as well as achiral alkyloxyalkyl-substituted carboxamides could be converted to the correspondingly substituted cyclopropylamines with unsubstituted as well as phenyl- and a variety of alkyl-substituted ethylmagnesium bromides in addition to numerous heteroatom-containing (e.g., halogen-, trityloxy-, tetrahydropyranyloxy-substituted) Grignard reagents (62 examples altogether). The transformation of N,N-diformylalkylamines 54 with ethylmagnesium bromide in the presence of methyltitanium triisopropoxide to N,N-dicyclopropyl-N-alkylamines 55 can be brought about in up to 82% yield (6 examples). An asymmetric variant of the titanium-mediated cyclopropanation of N,N-dialkylcarboxamides has been developed by applying chiral titanium mediators generated from stoichiometric amounts of titanium tetraisopropoxide and chiral diamino or diol ligands, respectively. The most efficient chiral mediators turned out to be titanium bistaddolates that provided the corresponding cyclopropylamines with enantiomeric excesses (ee) of up to 84%. Evaluation of several silyl-based additives revealed that the reaction can also efficiently be carried out with substoichiometric amounts (down to 25 mol%) of the titanium reagent, as long as 2-aryl- or 2-ethenyl-substituted ethylmagnesium halides are used and a concomitant slight decrease in yields is accepted. The newly developed methodology was successfully applied for the preparation of analogues with cyclopropylamine moieties of known drugs and natural products such as the nicotine metabolite (S)-Cotinine as well as the insecticides Dinotefuran and Imidacloprid.

Reactions of dizincocene with sterically demanding bis(iminodi(phenyl)phosphorano)methanes.

Reactions of Cp*(2)Zn(2) with sterically demanding bis(iminodi(phenyl)phosphorano)methanes LH (LH = CH(2)(Ph(2)P=NR)(2) (R = Ph L(1)H, SiMe(3)L(2)H, 2,6-i-Pr(2)C(6)H(3) (Dipp) L(3)H) at ambient temperature occurred with elimination of Cp*H and subsequent formation of the homoleptic complex L(1)(2)Zn(2)1 and the heteroleptic complexes LZnZnCp* (L = L(2)2, L(3)3, L(1)4). 3 is the first structurally characterized heteroleptic organozinc complex with the zinc atoms in the formal oxidation state +1.

Reactions of a ß-diketiminate zinc hydride complex with heterocumulenes.

The ß-diketiminate zinc hydride MesnacnacZnH (1) reacts with CO(2), C(Ni-Pr)(2) and t-BuNCO at ambient temperature with insertion into the Zn-H bond and subsequent formation of the corresponding formato (2), formamido (3) and formamidinato (4) complexes.

Pyrene-based fluorescent nitric oxide cheletropic traps (FNOCTs) for the detection of nitric oxide in cell cultures and tissues.

The synthesis and the structural and spectroscopic characterization of nonfluorescent, pyrene-based cyclic o-quinodimethanes are reported. These compounds react efficiently with nitric oxide (NO) in a formal cheletropic manner, by which the fluorescent aromatic pyrene system is regenerated. The NO trapping capabilities and kinetics of the fluorescent nitric oxide cheletropic traps (FNOCTs) are assessed in THF and buffered aqueous solution by ESR, UV/Vis, and fluorescence spectroscopy, by employing NO solutions and NO released from N-diazeniumdiolates (NONOates). Prototypal biological applications include the quantitation of NO production from cultured rat alveolar macrophages and the endothelium of porcine aorta, which demonstrate a sensitivity for NO detection in the nanomolar range.

Design and preparation of co-crystals utilizing the R(4)(2)(8) hydrogen-bonding motif.

An investigation of the feasibility of utilizing a specific, and previously largely unrecognized, hydrogen-bonded synthon for the design and preparation of co-crystals is reported. Structural evidence (i.e., >12,000 instances) indicated the robustness of the cyclic R(4)(2)(8) hydrogen-bonded motif containing, in most cases, four individual (either identical or different) molecules, in which the donor substituent (e.g., an amine) can provide two hydrogen-bond donors, and the acceptor (e.g., a carbonyl oxygen) can provide two hydrogen-bond acceptors. The energetic robustness of the motif with respect to chemical substitution and charge on the component molecules was investigated and confirmed in a series of fully optimized calculations at the MP2/6-31+G(d) level. A proof-of-concept experiment to prepare a co-crystal between a prototypical ketone and a primary amine yielded the crystal structure reported herein, in which the hydrogen bonds between the co-crystal components indeed exhibit exclusively the designed and sought-after R(4)(2)(8) motif.

Intramolecular electronic interactions between nonconjugated arene and quinone chromophores.

The novel surprisingly colorful dark blue and orange-red molecular clips 1 and 2 containing a central p-benzoquinone spacer-unit and anthracene or napththalene sidewalls were synthesized by DDQ oxidation of the corresponding colorless hydroquinone clips 7 and 8. The colors of the quinone clips result from broad absorption bands in the visible range (1, lambda(max) = 537 nm and 2, lambda(max) = 423 and lambda(shoulder) =515 nm) showing bathochromic shifts of 112 and 90 nm, respectively, compared to the similarly tetraalkyl-substituted duroquinone 31, even though the clips 1 and 2 only contain insulated pi systems as chromophores, a central tetraalkyl-substituted p-benzoquinone spacer-unit and two anthracene or two naphthalene sidewalls. To elucidate the electronic properties of these clips, we prepared the compound 3, the anti-configured isomer of clip 2, and the benzene-, naphthalene-, and anthracene-substituted quinones 4, 5, and 6, the so-called "half-clips". The "half-clips" 6 and 5 show a similar color change and the same trend in the UV/vis absorption spectra as the anthracene and naphthalene clip 1 and 2. This finding already rules out that the color of these systems is a result of "through-space" pi-pi interactions between the aromatic sidewalls in the molecular clips 1 and 2. Quantum chemical ab initio calculations provide good evidence that the bathochromic shift of the absorption band at the longest wavelength observed in the UV/vis spectra of the clip quinones 2, 3, and 1 and the "half-clip" quinones 4, 5, and 6 with an increasing number of rings in the anellated aromatic unit (from benzene to anthracene) is the result of an increasing configuration interaction between a n --> pi* excitation of the quinoid component and a pi --> pi* excitation with intramolecular charge transfer (CT) character. The initial pi orbitals involved here and in higher lying transitions mainly stem from through-space interactions between pi orbitals of the aromatic sidewalls and pi orbitals of the quinone moiety with varying degree of mixing. The configuration interaction in the excited states can be considered to be a homoconjugation, that is, the relevant charge transfer states are formed across an allegedly insulating aliphatic bridge. The UV/vis spectra of the molecular clips 1-3, the "half-clips" 4-6, and the quinones 32 and 33 simulated by means of quantum chemical ab initio calculations agree well with the experimental spectra.

Self-association of an indole based guanidinium-carboxylate-zwitterion: formation of stable dimers in solution and the solid state.

The indole based zwitterion 2 forms stable dimers held together by H-bond assisted ion pairs. Dimerisation was confirmed in the solid state and studied in solution using dilution NMR experiments. Even though zwitterion 2 forms very stable dimers even in DMSO, their stability is lower than of an analogous pyrrole based zwitterion 1. As revealed by the X-ray crystal structure the two binding sites in 2 cannot be planar due to steric interactions between the guanidinium group and a neighbouring aromatic CH. Hence the guanidinium moiety is twisted out of planarity from the rest of the molecule forcing the two monomers in dimer 2.2 to interact in a non-ideal orientation. Furthermore, the acidity of the NHs is lower than in 1 (as determined by UV-pH-titration) also leading to less efficient binding interactions.

Co-crystals with acetylene: small is not simple!

Acetylene is an amazingly versatile component for the formation of co-crystals. It requires careful handling and special techniques for crystallisation, but the efforts seem to be rewarding when attaining co-crystals with small molecules as partners. Many basic questions such as the dominance of specific heterogeneous intermolecular interactions, their driving force for the formation of multicomponent crystals instead of neat ones are expected to be easily analysed. The underlying packing patterns and resulting stoichiometries based on the known supramolecular synthons seem to be straightforward for such small molecules and crystal engineering, considered as the prototype of supramolecular synthesis, should be a simple task. Nineteen co-crystals with acetylene are presented in this paper, some of which have been previously reported individually. An attempt has been made to find features shared by the groups of co-crystals, including those that could not be co-crystallised. But in spite of clear ideas and experiences from previous experiments, surprisingly almost none of systems reached our expectations. Our intuitive approach was not fulfilled, which demonstrates that multicomponent crystals even of small molecules will remain a great challenge for theoretical methods and the crystal structures shown herein represent good candidates for future testing. On the other hand, we wish to encourage other groups to present their views on the crystal structures with an unbiased approach that may offer a better explanation than we are able to outline in this article.

[123]Tetramantane: parent of a new family of sigma-helicenes.

We present a new type of sigma-helical structure based on a diamondoid (nanodiamond) framework, C(2)-symmetric [123]tetramantane, whose (+) and (-) isomers could be enantioseparated by HPLC techniques. Bromination of the enantiopure hydrocarbon led to the isolation of (+)-7-bromo-[123]tetramantane, which could be crystallized and subjected to X-ray structure analysis. Using the anomalous dispersion, we have identified this compound as the P isomer for the hydrocarbon moiety. Experimental and computed optical rotatory dispersion (ORD) and vibrational circular dichroism (VCD) spectra independently and in agreement with the X-ray structure analysis gave M-(-) as the configuration of the second eluted parent hydrocarbon isomer.