Multiple Noncovalent Bonding in Halogen Complexes with Oxygen Organics. I. Tertiary Amides

How the Position of Substitution Affects Intermolecular Bonding in Halogen Derivatives of Carboranes: Crystal Structures of 1,2,3- and 8,9,12-Triiodo- and 8,9,12-Tribromo ortho-Carboranes

The crystal structures of two isomeric triiodo derivatives of ortho-carborane containing substituents in the three most electron-withdrawing positions of the carborane cage, 1,2,3-I₃-1,2-C₂B₁₀H₉, and the three most electron-donating positions, 8,9,12-I₃-1,2-C₂B₁₀H₉, as well as the crystal structure of 8,9,12-Br₃-1,2-C₂B₁₀H₉, were determined by single-crystal X-ray diffraction. In the structure of 1,2,3-I₃-1,2-C₂B₁₀H₉, an iodine atom attached to the boron atom (position 3) donates its lone pairs simultaneously to the σ-holes of both iodine atoms attached to the carbon atoms (positions 1 and 2) with the I⋯I distance of 3.554(2) Å and the C-I⋯I and B-I⋯I angles of 169.2(2)° and 92.2(2)°, respectively. The structure is additionally stabilized by a few B-H⋯I-shortened contacts. In the structure of 8,9,12-I₃-1,2-C₂B₁₀H₉, the I⋯I contacts of type II are very weak (the I⋯I distance is 4.268(4) Å, the B8-I8⋯I12 and B12-I12⋯I8 angles are 130.2(3)° and 92.2(3)°) and can only be regarded as dihalogen bonds formally. In comparison with the latter, the structure of 8,9,12-Br₃-1,2-C₂B₁₀H₉ demonstrates both similarities and differences. No Br⋯Br contacts of type II are observed, while there are two Br⋯Br halogen bonds of type I.

Synthesis and Crystal Structure of 9,12-Dibromo-ortho-Carborane

Synthesis, NMR spectral data and crystal structure of 9,12-dibromo derivative of ortho-carborane are reported.

Crystal Structure of 9-Dibenzylsulfide-7,8-dicarba-nido-undecaborane 9-Bn2S-7,8-C2B9H11

The crystal structure of 9-dibenzylsulfide-7,8-dicarba-nido-undecaborane 9-Bn2S-7,8-C2B9H11 was determined by a single-crystal X-ray diffraction. One of the benzyl groups is located above the open face of the carborane cage with a short H···H distance (2.29 and 2.71 Å for two symmetrically independent molecules) between the BHB-bridging hydrogen atom of the carborane fragment and the ortho-CH group of the aromatic ring. Topological analysis has revealed the existence of a critical bond point with a calculated energy of −0.8 kcal/mol in accordance with an X-ray diffraction molecular geometry. The crystal packing analysis revealed that this benzyl group is also involved in π-stacking interactions, while another benzyl group participates in numerous weak H···π, H···H and van der Waals interactions.

1,12-Diiodo-Ortho-Carborane: A Classic Textbook Example of the Dihalogen Bond

The crystal structure of 1,12-diiodo-ortho-carborane 1,12-I2-1,2-C2B10H10 was determined by single crystal X-ray diffraction. In contrary to earlier studied 1,12-dibromo analogue 1,12-Br2-1,2- C2B10H10, its crystal packing is governed by the presence of the intermolecular I⋯I dihalogen bonds between the iodine atom attached to the carbon atom (acceptor) and the iodine atom attached to the antipodal boron atom (donor) of the carborane cage. The observed dihalogen bonds belong to the II type and are characterized by classical parameters: shortened I⋯I distance of 3.5687(9) Å, C–I⋯I angle of 172.61(11)° and B–I⋯I angle of 92.98(12)°.

Synthesis of Bis(Carboranyl)amides 1,1'-μ-(CH2NH(O)C(CH2)n-1,2-C2B10H11)2 (n = 0, 1) and Attempt of Synthesis of Gadolinium Bis(Dicarbollide)

Bis(carboranyl)amides 1,1'-μ-(CH2NH(O)C(CH2)n-1,2-C2B10H11)2 (n = 0, 1) were prepared by the reactions of the corresponding carboranyl acyl chlorides with ethylenediamine. Crystal molecular structure of 1,1'-μ-(CH2NH(O)C-1,2-C2B10H11)2 was determined by single crystal X-ray diffraction. Treatment of bis(carboranyl)amides 1,1'-μ-(CH2NH(O)C(CH2)n-1,2-C2B10H11)2 with ammonium or cesium fluoride results in partial deboronation of the ortho-carborane cages to the nido-carborane ones with formation of [7,7'(8')-μ-(CH2NH(O)C(CH2)n-7,8-C2B9H11)2]2-. The attempted reaction of [7,7'(8')-μ-(CH2NH(O)CCH2-7,8-C2B9H11)2]2- with GdCl3 in 1,2-dimethoxy- ethane did not give the expected metallacarborane. The stability of different conformations of Gd-containing metallacarboranes has been estimated by quantum-chemical calculations using [3,3-μ-DME-3,3'-Gd(1,2-C2B9H11)2]- as a model. It was found that in the most stable conformation the CH groups of the dicarbollide ligands are in anti,anti-orientation with respect to the DME ligand, while any rotation of the dicarbollide ligand reduces the stability of the system. This makes it possible to rationalize the design of carborane ligands for the synthesis of gadolinium metallacarboranes on their base.

The unexpected reactivity of 9-iodo-nido-carborane: from nucleophilic substitution reactions to the synthesis of tricobalt tris(dicarbollide) Na[4,4',4''-(MeOCH2CH2O)3-3,3',3''-Co3(μ3-O)(μ3-S)(1,2-C2B9H10)3]

An unusual reactivity of 9-iodo-nido-carborane [9-I-7,8-C₂B₉H₁₁]^- towards nucleophiles under strong basic conditions was revealed. The nucleophilic substitution of iodine with O- and N-nucleophiles results in [9-RO-7,8-C₂B₉H₁₁]^- (R = H, CH₂CH₂OMe) and [9-L-7,8-C₂B₉H₁₁] (L = Py, NEt₃, Me₂NCH₂CH₂NMe₂), respectively. Reaction of [9-I-7,8-C₂B₉H₁₁]^- with CoCl₂ in 1,2-dimethoxyethane in the presence of t-BuOK, depending on the order of addition of the reagents, leads either to a diastereomeric mixture of diiodo derivatives cobalt bis(dicarbollide) rac-[4,4'-I₂-3,3'-Co(1,2-C₂B₉H₁₀)₂]^- and meso-[4,7'-I₂-3,3'-Co(1,2-C₂B₉H₁₀)₂]^- or to the corresponding mixture of 2-methoxyethoxy derivatives rac-[4,4'-(MeOCH₂CH₂O)₂-3,3'-Co(1,2-C₂B₉H₁₀)₂]^- and meso-[4,7'-(MeOCH₂CH₂O)₂-3,3'-Co(1,2-C₂B₉H₁₀)₂]^-. In the presence of accidental admixture of sodium thiosulfate, the reactions of 9-iodo-nido-carborane and 9-(2'-methoxyethoxy)-nido-carborane with CoCl₂ in 1,2-dimethoxyethane were found to produce additionally unprecedented tricobalt tris(dicarbollide) cluster Na[4,4',4''-(MeOCH₂CH₂O)₃-3,3',3''-Co₃(μ³-O)(μ³-S)(1,2-C₂B₉H₁₀)₃], the central fragment of which is a trigonal bipyramid with apical oxygen and sulfur atoms, and the base is formed by the Co₃ triangle flanked by three dicarbollide ligands. In addition, the 2-methoxyethoxy substituents of the dicarbollide ligands chelate the sodium cation in such a way that they form a helix whose rotation direction depends on the enantiomer of the parent ligand. Thus, in this case, induction of the helical chirality of the complex occurs due to the point chirality of the initial inorganic ligand. It is worth noting that in the case of symmetrically substituted 2-methoxyethoxy derivative of nido-carborane [10-MeOCH₂CH₂O-7,8-C₂B₉H₁₁]^- only formation of the corresponding cobalt bis(dicarbollide) complex [8,8'-(MeOCH₂CH₂O)₂-3,3'-Co(1,2-C₂B₉H₁₀)₂]^- was observed.

Polycentric binding in complexes of trimethylamine-N-oxide with dihalogens

Dihalogens readily interact with trimethylamine-N-oxide under ambient conditions. Accordingly, herein, stable 1 : 1 adducts were obtained in the case of iodine chloride and iodine bromide. The crystal and molecular structure of the trimethylamine-N-oxide-iodine chloride adduct was solved. Furthermore, the geometry and electronic structure of the trimethylamine-N-oxide-dihalogen complexes were studied computationally. Only molecular ensembles were found in the global minimum for the 1 : 1 stoichiometry. The O⋯X-Y halogen bond is the main factor for the thermodynamic stability of these complexes. Arguments for electrostatic interactions as the driving force for this noncovalent interaction were discussed. Also, the equilibrium structures are additionally stabilised by weak C-H⋯X hydrogen bonds. Consequently, formally monodentate ligands are bound in a polycentric manner.

In Situ Assessment of Intrinsic Strength of X-I⋯OA-Type Halogen Bonds in Molecular Crystals with Periodic Local Vibrational Mode Theory

Periodic local vibrational modes were calculated with the rev-vdW-DF2 density functional to quantify the intrinsic strength of the X-I⋯OA-type halogen bonding (X = I or Cl; OA: carbonyl, ether and N-oxide groups) in 32 model systems originating from 20 molecular crystals. We found that the halogen bonding between the donor dihalogen X-I and the wide collection of acceptor molecules OA features considerable variations of the local stretching force constants (0.1–0.8 mdyn/Å) for I⋯O halogen bonds, demonstrating its powerful tunability in bond strength. Strong correlations between bond length and local stretching force constant were observed in crystals for both the donor X-I bonds and I⋯O halogen bonds, extending for the first time the generalized Badger’s rule to crystals. It is demonstrated that the halogen atom X controlling the electrostatic attraction between the σ-hole on atom I and the acceptor atom O dominates the intrinsic strength of I⋯O halogen bonds. Different oxygen-containing acceptor molecules OA and even subtle changes induced by substituents can tweak the n→σ∗(X-I) charge transfer character, which is the second important factor determining the I⋯O bond strength. In addition, the presence of the second halogen bond with atom X of the donor X-I bond in crystals can substantially weaken the target I⋯O halogen bond. In summary, this study performing the in situ measurement of halogen bonding strength in crystalline structures demonstrates the vast potential of the periodic local vibrational mode theory for characterizing and understanding non-covalent interactions in materials.

Synthesis and reactivity of propionitrilium derivatives of cobalt and iron bis(dicarbollides)

The nucleophilic addition of alcohols and thiols to 8-propionitrilium derivatives of cobalt and iron bis(dicarbollides) gives the corresponding imidates and thioimidates.

Synthesis and structure of 3-arylazo derivatives of ortho-carborane

A series of B-substituted arylazo derivatives of ortho-carborane 3-XC₆H₄-NN-1,2-C₂B₁₀H₁₁ (X = p-NMe₂, p-OMe, o-Me) were synthesized by reaction of its diazonium derivative [3-N₂-o-C₂B₁₀H₁₁][BF₄] with the corresponding Grignard reagents.

Synthesis and study ofC-substituted methylthio derivatives of cobalt bis(dicarbollide)

The C-methylthio derivatives of cobalt bis(dicarbollide) were synthesized by reaction of anhydrous CoCl₂ with nido-carborane [7-MeS-7,8-C₂B₉H₁₁]⁻ and isolated as a mixture of rac-[1,1′-(MeS)₂-3,3′-Co(1,2-C₂B₉H₁₀)₂]⁻ and meso-[1,2′-(MeS)₂-3,3′-Co(1,2-C₂B₉H₁₀)₂]⁻ isomers. The structures of both isomers were studied using DFT quantum chemical calculations. The most preferable geometry of rotamers and the stabilization energy of C-methylthio derivatives of cobalt bis(dicarbolide) were calculated. The (BEDT-TTF)[1,1′-(MeS)₂-3,3′-Co(1,2-C₂B₉H₁₀)₂] salt was prepared and its structure was determined by single crystal X-ray diffraction. The cisoid conformation of the rac-[1,1′-(MeS)₂-3,3′-Co(1,2-C₂B₉H₁₀)₂]⁻ anion is stabilized by short intramolecular CH⋯S hydrogen and BH⋯S chalcogen bonds between the dicarbollide ligands, that is in good agreement with the data of quantum chemical calculations.

The C-methylthio derivatives of cobalt bis(dicarbollide) rac-[1,1′-(MeS)₂-3,3′-Co(1,2-C₂B₉H₁₀)₂]⁻ and meso-[1,2′-(MeS)₂-3,3′-Co(1,2-C₂B₉H₁₀)₂]⁻ were synthesized and studied by DFT calculations and X-ray diffraction.

Synthesis and Structure of Methylsulfanyl Derivatives of Nickel Bis(Dicarbollide)

Symmetrically and unsymmetrically substituted methylsulfanyl derivatives of nickel(III) bis(dicarbollide) (Bu₄N)[8,8'-(MeS)₂-3,3'-Ni(1,2-C₂B₉H₁₀)₂], (Bu₄N)[4,4'-(MeS)₂-3,3'-Ni(1,2-C₂B₉H₁₀)₂], and (Bu₄N)[4,7'-(MeS)₂-3,3'-Ni(1,2-C₂B₉H₁₀)₂] were synthesized, starting from [Ni(acac)₂]₃ and the corresponding methylsulfanyl derivatives of nido-carborane (Bu₄N)[10-MeS-7,8-C₂B₉H₁₁] and (Bu₄N)[10-MeS-7,8-C₂B₉H₁₁]. Structures of the synthesized metallacarboranes were studied by single-crystal X-ray diffraction and quantum chemical calculations. The symmetrically substituted 8,8'-isomer adopts transoid conformation stabilized by two pairs of intramolecular C-H···S hydrogen bonds between the dicarbollide ligands. The unsymmetrically substituted 4,7'-isomer adopts gauche conformation, which is stabilized by two nonequivalent C-H···S hydrogen bonds and one short chalcogen B-H···S bond (2.53 Å, -1.4 kcal/mol). The gauche conformation was found to be also preferred for the 4,7'-isomer.

Non-covalent interactions observed in nevirapinium pentaiodide hydrate which include the rare I4–I−···O=C halogen bonding

In the course of screening for novel crystalline forms of antiviral drug nevirapine, co-crystallization of the latter with molecular iodine was attempted. This resulted in the formation of a hydrate salt form composed of the protonated nevirapinium cation and pentaiodide anion. In the X-ray structure of NVPH+I5 −·H2O, halogen and hydrogen bonding interactions were identified and studied by DFT calculations and topological analysis of the electron density distribution within the framework of QTAIM method at the B3LYP/DZP-DKH and M06/DZP-DKH levels of theory. Estimated energies of these contacts are 1.3–9.4 kcal/mol.