Mechanisms of circumambulatory rearrangements of 5-halogeno-1,2,3,4,5-pentamethoxycarbonylcyclopentadienes

Possible paths of halogen atom migration in 5-halogeno-1,2,3,4,5-pentamethoxycarbonylcyclopentadienes were studied using the density functional theory. The calculations revealed preferential 1,5(in comparison with 1,3-) sigmatropic shifts of halogen atoms along the perimeter of the five-membered ring with the energy barriers ΔE _ZPE ^≠ = 42.9, 26.9, 19.8, and 15.4 kcal mol^–1 for the fluoro-, chloro-, bromo-, and iodosubstituted derivatives, respectively. The calculated charges of halogen atoms in the structures of transition states for 1,5-shifts change from negative for the fluorine atom to positive for the iodine atom (–0.356 (F), 0.019 (Cl), 0.052 (Br), 0.184 e (I)). The migration capacity increases in the order F < Cl < Br < I with an increase in the atomic radius of halogen.     

Halogen bonding: a theoretical study based on atomic multipoles derived from quantum theory of atoms in molecules

Atomic multipole moments derived from quantum theory of atoms in molecules are used to study halogen bonds in dihalogens (with general formula YX, in which X refers to the halogen directly interacted with the Lewis base) and some molecules containing C–X group. Multipole expansion is used to calculate the electrostatic potential in a vicinity of halogen atom (which is involved in halogen bonding) in terms of atomic monopole, dipole, and quadrupole moments. In all the cases, the zz component of atomic traceless quadrupole moments (where z axis taken along Y–X or C–X bonds) of the halogens plays a stabilizing role in halogen bond formation. The effects of atomic monopole and dipole moments on the formation of a halogen bond in YX molecules depend on Y and X atoms. In Br₂ and Cl₂, the monopole moment of halogens is zero and has no contribution in electrostatic potential and hence in halogen bonding, while in ClBr, FBr, and FCl it is positive and therefore stabilize the halogen bonds. On the other hand, the negative sign of dipole moment of X in all the YX molecules weakens the corresponding halogen bonds. In the C–X-containing molecules, monopole and dipole moments of X atom are negative and consequently destabilize the halogen bonds. So, in these molecules the quadrupole moment of X atom is the only electrostatic term which strengthens the halogen bonds. In addition, we found good linear correlations between halogen bonds strength and electrostatic potentials calculated from multipole expansion.     

The nature of halogen...halogen synthons: crystallographic and theoretical studies

A study of the halogen...halogen contacts in organic compounds using ab initio calculations and the results of previously reported crystallographic studies show that these interactions are controlled by electrostatics. These contacts can be represented by the geometric parameters of the C--X1...X2--C moieties (where theta1=C--X1...X2 and theta2=X1...X2--C; ri=X1...X2 distance). The distributions of the contacts within the sum of van der Waals radii (rvdW) versus thetai (theta1=theta2) show a maximum at theta approximately 150 degrees for X=Cl, Br, and I. This maximum is not seen in the distribution of F...F contacts. These results are in good agreement with our ab initio calculations. The theoretical results show that the position of the maximum depends on three factors: 1) The type of halogen atom, 2) the hybridization of the ipso carbon atom, and 3) the nature of the other atoms that are bonded to the ipso carbon atom apart from the halogen atom. Calculations show that the strength of these contacts decreases in the following order: I...I>Br...Br>Cl...Cl. Their relative strengths decrease as a function of the hybridization of the ipso carbon atom in the following order: sp2>sp>sp3. Attaching an electronegative atom to the carbon atom strengthens the halogen...halogen contacts. An electrostatic model is proposed based on two assumptions: 1) The presence of a positive electrostatic end cap on the halogen atom (except for fluorine) and 2) the electronic charge is anisotropically distributed around the halogen atom.     

The Prominent Enhancing Effect of the Cation–π Interaction on the Halogen–Hydride Halogen Bond in M1⋅⋅⋅C6H5X⋅⋅⋅HM2

We designed M¹???C₆H₅X???HM² (M¹=Li⁺, Na⁺; X=Cl, Br; M²=Li, Na, BeH, MgH) complexes to enhance halogen–hydride halogen bonding with a cation–π interaction. The interaction strength has been estimated mainly in terms of the binding distance and the interaction energy. The results show that halogen–hydride halogen bonding is strengthened greatly by a cation–π interaction. The interaction energy in the triads is two to six times as much as that in the dyads. The largest interaction energy is ?8.31 kcal mol^?1 for the halogen bond in the Li⁺???C₆H₅Br???HNa complex. The nature of the cation, the halogen donor, and the metal hydride influence the nature of the halogen bond. The enhancement effect of Li⁺ on the halogen bond is larger than that of Na⁺. The halogen bond in the Cl donor has a greater enhancement than that in the Br one. The metal hydride imposes its effect in the order HBeH<HMgH<HNa<HLi for the Cl complex and HBeH<HMgH<HLi<HNa for the Br complex. The large cooperative energy indicates that there is a strong interplay between the halogen–hydride halogen bonding and the cation–π interaction. Natural bond orbital and energy decomposition analyses indicate that the electrostatic interaction plays a dominate role in enhancing halogen bonding by a cation–π interaction.     

The Role of Molecular Electrostatic Potentials in the Formation of a Halogen Bond in Furan⋅⋅⋅XY and Thiophene⋅⋅⋅XY Complexes

The halogen bonding of furan???XY and thiophene???XY (X=Cl, Br; Y=F, Cl, Br), involving σ‐ and π‐type interactions, was studied by using MP2 calculations and quantum theory of “atoms in molecules” (QTAIM) studies. The negative electrostatic potentials of furan and thiophene, as well as the most positive electrostatic potential (V_S,max) on the surface of the interacting X atom determined the geometries of the complexes. Linear relationships were found between interaction energy and V_S,max of the X atom, indicating that electrostatic interactions play an important role in these halogen‐bonding interactions. The halogen‐bonding interactions in furan???XY and thiophene???XY are weak, “closed‐shell” noncovalent interactions. The linear relationship of topological properties, energy properties, and the integration of interatomic surfaces versus V_S,max of atom X demonstrate the importance of the positive σ hole, as reflected by the computed V_S,max of atom X, in determining the topological properties of the halogen bonds.     

Coordination Polyhedra RhX6 (X = F,Cl, Br) in Crystal Structures

Voronoi–Dirichlet polyhedra (VDP) and the method of intersecting spheres were used to perform crystal-chemical analyses of compounds containing complexes [Rh _a X _n ] ^z– (X = F, Cl, Br). It was found that, irrespective of oxidation number (+3, +4, or +5), rhodium atoms always exhibit the coordination number 6 with respect to the halogen atoms and have octahedral coordination. The influence of site symmetry and the valence state of Rh on the distortion of RhX₆ octahedra are considered. The electronic configuration of the Rh atoms is shown to influence the symmetry of their valence-force field within the crystal structure.     

Coordination Polyhedra OsXn(X = F, Cl, Br, I) in Crystal Structures

The Voronoi–Dirichlet polyhedra (VDP) and the method of intersecting spheres were used to perform crystal-chemical analysis of compounds containing complexes [Os _a X _b ] ^z–(X = F, Cl, Br, I). Atoms of Os(V) at X = F and Cl, of Os(IV) at X = Cl, Br, and of Os(III) at X = Br were found to exhibit a coordination number of 6 with respect to the halogen atoms and to form OsX₆octahedra. The coordination polyhedra of Os(III) for X = Cl, I are square pyramids OsX₄. Each Os(III) atom forms one Os–Os bond; as a consequence, the OsBr₆octahedra share a face in forming Os₂Br^3– ₉complexes, while the OsX₄pyramids (X = Cl, I) dimerize to produce [X₄Os–OsX₄]^2–ions. The influence of the valence state of the Os atoms and of the nature of the halogen atoms on the composition and structure of the complexes formed and some characteristics of the coordination sphere of Os were considered.     

Investigation of interaction in C60 embedded complexes (X@C60) (X = alkali or halogen) at a series of radial positions by Buckingham potential function

Two typical series of C₆₀ embedded complexes (X@C₆₀) (X = Li, Na, K, Rb, Cs; F, Cl, Br, I) have been chosen to study as prototypes, in which the Buckingham potential (exp-6-1) function was applied to calculating the interactions of the atom pairs. The potential parameters are obtained from related crystals by the simulations using molecular mechanics methods. To utilize the symmetry of the potential field in C₆₀, the calculation is carried out along five typical radial directions. The computational results show that the interaction between the embedded atom and the C₆₀ cage is not purely electrostatic. The repulsive energy, E_rep, accounts for from 0.2% to 6.6% (for the alkali series), and from 1.5% to 58% (for the halogen series); the dispersive energy E_dis accounts for from 1.2% to 6.5% (for the alkali series), and from 2.2% to 42% (for the halogen series); and the electrostatic energy, E_es, accounts for 99% to 87% (for the alkali series) and from 96% to 0% (for the halogen series) when the embedded atom is put at the center of the cage. E_rep reaches up to 8% ∼ 35% (alkali), and 16% ∼ 704% (halogen); E_dis up to 4% ∼ 16% (alkali) and 7% ∼ 26% (halogen); and E_es falls down to about 88% ∼ 49% (alkali), and 96% ∼ 0% (halogen), when the embedded atom deviates 1.8 A from the cage center. The total interactions, E_inter, are all attractive for X (X = Li, Na, K, Rb, Cs; F. Cl, Br), but repulsive for the I atom. It is shown that the potential field in the C₆₀ cage has nearly spherical symmetry in an area with a radius of 1.8 Å around the cage center. The same kinds of interactions for the atoms in the two individual series are compared, and some variation rules are obtained. For (Li@C₆₀), the minimum energy equilibrium point deviates from the center by about 0.5 Å. © 1996 by John Wiley & Sons, Inc.     

Comparison between Hydrogen and Halogen Bonds in Complexes of 6-OX-Fulvene with Pnicogen and Chalcogen Electron Donors

Quantum chemical calculations are applied to complexes of 6-OX-fulvene (X=H, Cl, Br, I) with ZH₃/H₂Y (Z=N, P, As, Sb; Y=O, S, Se, Te) to study the competition between the hydrogen bond and the halogen bond. The H-bond weakens as the base atom grows in size and the associated negative electrostatic potential on the Lewis base atom diminishes. The pattern for the halogen bonds is more complicated. In most cases, the halogen bond is stronger for the heavier halogen atom, and pnicogen electron donors are more strongly bound than chalcogen. Halogen bonds to chalcogen atoms strengthen in the order O<S<Se<Te, whereas the pattern is murkier for the pnicogen donors. In terms of competition, most halogen bonds to pnicogen donors are stronger than their H-bond analogues, but there is no clear pattern with respect to chalcogen donors. O prefers a H-bond, while halogen bonds are favored by Te. For S and Se, I-bonds are strongest, followed Br, H, and Cl-bonds in that order.     

Interactions of a Mn atom with halogen atoms and stability of its half-filled 3d-shell

Using density functional theory with hybrid exchange-correlation potential, we have calculated the geometrical and electronic structure, relative stability, and electron affinities of MnX(n) compounds (n = 1-6) formed by a Mn atom and halogen atoms X = F, Cl, and Br. Our objective is to examine the extent to which the Mn-X interactions are similar and to elucidate if/how the half-filled 3d-shell of a Mn atom participates in chemical bonding as the number of halogen atoms increases. While the highest oxidation number of the Mn atom in fluorides is considered to be +4, the maximum number of halogen atoms that can be chemically attached in the MnX(n)(-) anions is 6 for X = F, 5 for X = Cl, and 4 for X = Br. The MnCl(n) and MnBr(n) neutrals are superhalogens for n ≥ 3, while the superhalogen behavior of MnF(n) begins with n = 4. These results are explained to be due to the way different halogen atoms interact with the 3d electrons of Mn atom.     

Spectroscopic Measurement of a Halogen Bond Energy

Halogen bonding (XB) has emerged as an important bonding motif in supramolecules and biological systems. Although regarded as a strong noncovalent interaction, benchmark measurements of the halogen bond energy are scarce. Here, a combined anion photoelectron spectroscopy and density functional theory (DFT) study of XB in solvated Br^? anions is reported. The XB strength between the positively‐charged σ‐hole on the Br atom of the bromotrichloromethane (CCl₃Br) molecule and the Br^? anion was found to be 0.63 eV (14.5 kcal mol^?1). In the neutral complexes, Br(CCl₃Br)_1,2, the attraction between the free Br atom and the negatively charged equatorial belt on the Br atom of CCl₃Br, which is a second type of halogen bonding, was estimated to have interaction strengths of 0.15 eV (3.5 kcal mol^?1) and 0.12 eV (2.8 kcal mol^?1).     

Substitution of acetylenic groups for halogen in the quinonoid ring

The bromine or iodine atom in the quinonoid ring devoid of +M substituent in the position neighboring to the halogen is replaced by acetylenic groups on treatment with Cu^I acetylides, prepared either beforehand or in situ, in a mixture of DMSO and CHCl₃ in the presence of a Pd complex catalyst. A series of mono- and diacetylenic derivatives of 1,4-naphtho- and 1,4-benzoquinone were prepared. Published in Russian in Izvestiya Akademii Nauk. Seriya Khimicheskaya, No. 7, pp. 1636–1639, July, 2005.     

Magnesium–halobenzene bonding: mapping the halogen sigma-hole with a Lewis-acidic complex

Complexes of the Lewis base-free cations (^MeBDI)Mg⁺ and (^tBuBDI)Mg⁺ with Ph–X ligands (X = F, Cl, Br, I) have been studied (^MeBDI = HC[C(Me)N-DIPP]₂ and ^tBuBDI = HC[C(tBu)N-DIPP]₂; DIPP = 2,6-diisopropylphenyl). For the smaller β-diketiminate ligand (^MeBDI) only complexes with PhF could be isolated. Heavier Ph–X ligands could not compete with bonding of Mg to the weakly coordinating anion B(C₆F₅)₄⁻. For the cations with the bulkier ^tBuBDI ligand, the full series of halobenzene complexes was structurally characterized. Crystal structures show that the Mg⋯X–Ph angle strongly decreases with the size of X: F 139.1°, Cl 101.4°, Br 97.7°, I 95.1°. This trend, which is supported by DFT calculations, can be explained with the σ-hole which increases from F to I. Charge calculation and Atoms-In-Molecules analyses show that Mg⋯F–Ph bonding originates from electrostatic attraction between Mg²⁺ and the very polar C^δ+–F^δ− bond. For the heavier halobenzenes, polarization of the halogen atom becomes increasingly important (Cl < Br < I). Complexation with Mg leads in all cases to significant Ph–X bond activation and elongation. This unusual coordination of halogenated species to early main group metals is therefore relevant to C–X bond breaking.

Complexes of a highly Lewis acidic Mg cation and the full series of Ph–X (X = F, Cl, Br, I) have been structurally characterized. The Mg⋯X–Ph angle decreases with halogen size on account of the growing halogen σ-hole.     

Experimental and Computational Probes of the Nature of Halogen Bonding: Complexes of Bromine‐Containing Molecules with Bromide Anions

The nature of halogen bonding is examined via experimental and computational characterizations of a series of associates between electrophilic bromocarbons R? Br (R? Br=CBr₃F, CBr₃NO₂, CBr₃COCBr₃, CBr₃CONH₂, CBr₃CN, etc.) and bromide anions. The [R? Br, Br^?] complexes show intense absorption bands in the 200–350 nm range which follow the same Mulliken correlation as those observed for the charge‐transfer associates of bromide anions with common organic π‐acceptors. For a wide range of the associates, intermolecular R? Br???Br^? separations decrease and intramolecular C? Br bond lengths increase proportionally to the Br^?→R? Br charge transfer; and the energies of R? Br???Br^? bonds are correlated with the linear combination of orbital (charge‐transfer) and electrostatic interactions. On the whole, spectral, structural and thermodynamic characteristics of the [R? Br, Br^?] complexes indicate that besides electrostatics, the orbital (charge‐transfer) interactions play a vital role in the R? Br???Br^? halogen bonding. This indicates that in addition to controlling the geometries of supramolecular assemblies, halogen bonding leads to electronic coupling between interacting species, and thus affects reactivity of halogenated molecules, as well as conducting and magnetic properties of their solid‐state materials.     

Ab initio study of the complexes of halogen-containing molecules RX (X=Cl, Br, and I) and NH3: towards understanding the nature of halogen bonding and the electron-accepting propensities of covalently bonded halogen atoms

Ab initio calculations have been performed on a series of complexes formed between halogen-containing molecules and ammonia to gain a deeper insight into the nature of halogen bonding. It appears that the dihalogen molecules form the strongest halogen-bonded complexes with ammonia, followed by HOX; the charge-transfer-type contribution has been demonstrated to dominate the halogen bonding in these complexes. For the complexes involving carbon-bound halogen molecules, our calculations clearly indicate that electrostatic interactions are mainly responsible for their binding energies. Whereas the halogen-bond strength is significantly enhanced by progressive fluorine substitution, the substitution of a hydrogen atom by a methyl group in the CH(3)X...NH(3) complex weakened the halogen bonding. Moreover, remote substituent effects have also been noted in the complexes of halobenzenes with different para substituents. The influence of the hybridization state of the carbon atom bonded to the halogen atom has also been examined and the results reveal that halogen-bond strengths decrease in the order HC triple bond CX > H(2)C=CHX approximately O=CHX approximately C(6)H(5)X > CH(3)X. In addition, several excellent linear correlations have been established between the interaction energies and both the amount of charge transfer and the electrostatic potentials corresponding to an electron density of 0.002 au along the R-X axis; these correlations provide good models with which to evaluate the electron-accepting abilities of the covalently bonded halogen atoms. Finally, some positively charged halogen-bonded systems have been investigated and the effect of the charge has been discussed.     

An expanded halogen bonding scale using astatine

As a non-covalent interaction, halogen bonding is now acknowledged to be useful in all fields where the control of intermolecular recognition plays a pivotal role. Halogen-bond basicity scales allow quantification of the halogen bonding of referential donors with organic functional groups from a thermodynamic point of view. Herein we present the pK_BAtI basicity scale to provide the community an overview of halogen-bond acceptor strength towards astatine, the most potent halogen-bond donor element. This experimental scale is erected on the basis of complexation constants measured between astatine monoiodide (AtI) and sixteen selected Lewis bases. It spans over 6 log units and culminates with a value of 5.69 ± 0.32 for N,N,N′,N′-tetramethylthiourea. On this scale, the carbon π-bases are the weakest acceptors, the oxygen derivatives cover almost two-thirds of the scale, and sulphur bases exhibit the highest AtI basicity. Regarding the applications of ²¹¹At in targeted radionuclide therapy, stronger labelling of carrier agents could be envisaged on the basis of the pK_BAtI scale.

Based on the halogen bonding between astatine monoiodide (AtI) and 16 Lewis bases, the newly established pK_BAtI scale indicates that the halogen bond basicity of AtI follows the order C ≤ O ≤ S ≈ Se for the acceptor atomic site.     

Geometry and electronic properties of alkali metal (rubidium) doped boron clusters

Alkali metal-doped boron clusters have captured much attention because of their novel electronic properties and structural evolution. In the study of RbB_n^0/− (n = 2–12) clusters, the minimum global search of the potential energy surface and structure optimization at the level of PBE1PBE by using the CALYPSO method and Gaussian package coupled with DFT calculation; the geometrical structures and electronic properties are systematically investigated. At n = 8, the ground-state structures are composed of an Rb atom above B atoms, forming a structurally stable pagoda cone. By stability analysis and charge transfer calculation, the RbB₈⁻ cluster shows more stability. It found that s-p hybridization between Rb atom and B atoms as well as s-p hybridization between B atoms is one of the reasons for the outstanding stability exhibited in the RbB₈^0/− clusters by using DOS and HOMO–LUMO orbital contour maps. The chemical bonding of the RbB₈^0/− groups was analyzed by using the AdNDP method, and B atoms with larger numbers readily form multi-center chemical bonds with the Rb atom. From the results of the bonding analysis, the interaction between the Rb atom and B atoms strengthens the stability of the RbB₈^0/− clusters. It is hoped that this work provides a direction for experimental manipulation.     

Weak Pnictogen Bond with Bismuth: Experimental Evidence Based on Bi−P Through-Space Coupling

To study pnictogen bonding involving bismuth, flexible accordion-like molecular complexes of the composition [P(C₆H₄-o-CH₂SCH₃)₃BiX₃], (X=Cl, Br, I) have been synthesised and characterised. The strength of the weak and mainly electrostatic interaction between the Bi and P centres strongly depends on the character of the halogen substituent on bismuth, which is confirmed by single-crystal X-ray diffraction analyses, DFT and ab initio computations. Significantly, ²⁰⁹Bi–³¹P through-space coupling (J=2560 Hz) is observed in solid-state ³¹P NMR spectra, which is so far unprecedented in the literature, delivering direct information on the magnitude of this pnictogen interaction.     

Weak σ-Hole Triel Bond between C5H5Tr (Tr=B,Al, Ga) and Haloethyne: Substituent and Cooperativity Effects

The replacement of a CH group of benzene by a triel (Tr) atom places a positive region of electrostatic potential near the Tr atom in the plane of the aromatic ring. This σ-hole can interact with an X lone pair of XCCH (X=F, Cl, Br, and I) to form a triel bond (TrB). The interaction energy between C₅H₅Tr and FCCH lies in the range between 2.2 and 4.4 kcal/mol, in the order Tr=B<Ga<Al. This bond is strengthened by halogen substituents on the ring, particularly on the site adjacent to Tr. There is a much stronger strengthening trend as the F of the FCCH nucleophile is replaced by the heavier halogen atoms, rising up to 22 kcal/mol for ICCH. Adding a Li⁺ cation above the ring pulls density toward itself and thus magnifies the Tr σ-hole. The TrB to the XCCH nucleophile is thereby magnified as is the strength of the TrB. This positive cooperativity is particularly large for Tr=B.